Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 34 of 320
Found at i:9692361 original size:27 final size:25
Alignment explanation
Indices: 9692325--9692398 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 25
9692315 AGCATGGCTG
*
9692325 CCAGAACAGATATCGTGGCAGAGTCA
1 CCAGAACAGATAT-GTGGCAGAGCCA
9692351 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATA-TGTGGCAGAGCCA
9692378 CCAGAATCAGATAATGTGGCA
1 CCAGAA-CAGAT-ATGTGGCA
9692399 AACCCACCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
26 6 0.14
27 35 0.81
28 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (25 bp):
CCAGAACAGATATGTGGCAGAGCCA
Found at i:9692405 original size:27 final size:27
Alignment explanation
Indices: 9692349--9692406 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
9692339 GTGGCAGAGT
* * *
9692349 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
9692376 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
9692403 CACC
1 CACC
9692407 TAATAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:9692774 original size:27 final size:26
Alignment explanation
Indices: 9692709--9692787 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
9692699 TCGATCGGTC
* *
9692709 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAA
* *
9692735 ATACAGATATTGTGGCAGAGCCACTAG
1 A-ACAGATATTGTGGCAGAGCCACCAA
* *
9692762 AACAGATATTTGTGGCACAACCACCA
1 AACAGATA-TTGTGGCAGAGCCACCA
9692788 GAACGCTTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 8 0.18
27 36 0.82
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAA
Found at i:9693020 original size:27 final size:27
Alignment explanation
Indices: 9692990--9693185 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
9692980 GGGGAAAAAT
* * * *
9692990 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
9693017 GGTAATTCTACCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
9693044 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
9693071 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
9693098 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
9693125 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
9693152 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
9693179 AGTAATT
1 GGTAATT
9693186 TCACAATCAA
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.01
27 138 0.97
28 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:9693179 original size:54 final size:54
Alignment explanation
Indices: 9692990--9693185 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
9692980 GGGGAAAAAT
* * * * * *
9692990 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
9693044 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * *
9693098 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
** *
9693152 GAAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
9693186 TCACAATCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:9693184 original size:81 final size:81
Alignment explanation
Indices: 9693009--9693185 Score: 248
Period size: 81 Copynumber: 2.2 Consensus size: 81
9692999 ACCCCACAAA
* * * * *
9693009 GGTATCTCGGTAATTCTACCCTACAGGAGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTAAAGGAGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAA
9693074 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* * * *
9693090 GGTATTTTGGTAATTCTATCCTATAAGG-GTATTTCAGTAATTCTACCCTATAGGGGTATTTCGA
1 GGTATTTCGGTAATTCTACCCTA-AAGGAGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGA
9693154 AAATTCTACCCTACAGG
65 AAATTCTACCCTACAGG
*
9693171 GGTATTTCAGTAATT
1 GGTATTTCGGTAATT
9693186 TCACAATCAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 81 0.96
82 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTAAAGGAGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAA
AATTCTACCCTACAGG
Found at i:9693220 original size:27 final size:27
Alignment explanation
Indices: 9693190--9693493 Score: 389
Period size: 27 Copynumber: 11.3 Consensus size: 27
9693180 GTAATTTCAC
*
9693190 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
9693217 AATCGAAGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
9693244 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
9693271 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
9693298 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
9693325 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
9693352 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
9693379 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
9693406 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
9693433 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
9693460 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
9693487 AATCGAG
1 AATCGAG
9693494 AGTACTTTGG
Statistics
Matches: 234, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.01
27 229 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:9705087 original size:19 final size:19
Alignment explanation
Indices: 9705052--9705089 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9705042 TTGCAACTTA
*
9705052 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
9705071 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
9705090 CTTGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:9722153 original size:15 final size:14
Alignment explanation
Indices: 9722135--9722173 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
9722125 AAATGAATAT
9722135 TATAATGTATTTTAA
1 TATAAT-TATTTTAA
*
9722150 TATAATAATTTTAA
1 TATAATTATTTTAA
*
9722164 TTTAATTATT
1 TATAATTATT
9722174 ACATAGATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TATAATTATTTTAA
Found at i:9730063 original size:25 final size:27
Alignment explanation
Indices: 9730026--9730078 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
9730016 TCAAACATGC
9730026 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
9730052 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
9730078 A
1 A
9730079 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:9731599 original size:32 final size:32
Alignment explanation
Indices: 9731563--9731624 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
9731553 AATGCTTACC
9731563 ATGCCCATCATCCATTAACTATTAAAATGCCA
1 ATGCCCATCATCCATTAACTATTAAAATGCCA
9731595 ATGCCCATCATCCATTAACTATTAAAATGC
1 ATGCCCATCATCCATTAACTATTAAAATGC
9731625 TAAAATGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.29
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCCA
Found at i:9738061 original size:24 final size:24
Alignment explanation
Indices: 9738016--9738062 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
9738006 TGTATTTAAT
* **
9738016 TTTGCATTTATATTTTTTAATTTG
1 TTTGCATTAATATTTTAAAATTTG
*
9738040 TTTGTATTAATATTTTAAAATTT
1 TTTGCATTAATATTTTAAAATTT
9738063 TGTCTTTGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (24 bp):
TTTGCATTAATATTTTAAAATTTG
Found at i:9738675 original size:186 final size:185
Alignment explanation
Indices: 9738345--9738709 Score: 651
Period size: 186 Copynumber: 2.0 Consensus size: 185
9738335 GATGATAATA
* *
9738345 ATAATATAACTAAATTACAACAATAAATATAGATAATATTTAATTTTTTTTACGAATCAATTATT
1 ATAATATAACTAAATAACAACAATAAATATAGATAATATTTAAATTTTTTTACGAATCAATTATT
*
9738410 TACACTATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAATTTT
66 TACACAATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAATTTT
9738475 TTATTGTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCTAATTTC
131 TTATTGTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCTAATTTC
*
9738530 ATAATAATAA-TAATATAACAACAATAATTATAGATAATATTTAAATTTTTTTACGAATCAATTA
1 ATAAT-ATAACTAA-ATAACAACAATAAATATAGATAATATTTAAATTTTTTTACGAATCAATTA
*
9738594 TTTACGCAATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAATT
64 TTTACACAATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAATT
*
9738659 TTTTATTTTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCT
129 TTTTATTGTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCT
9738710 TGATAAAATA
Statistics
Matches: 172, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
185 8 0.05
186 164 0.95
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.46
Consensus pattern (185 bp):
ATAATATAACTAAATAACAACAATAAATATAGATAATATTTAAATTTTTTTACGAATCAATTATT
TACACAATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAATTTT
TTATTGTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCTAATTTC
Found at i:9739798 original size:19 final size:19
Alignment explanation
Indices: 9739781--9739829 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
9739771 TTTAGAATTT
9739781 AAATATACTATTTAAATTGAA
1 AAATATA-TATTTAAATT-AA
9739802 AAATATATATTTAAA--AA
1 AAATATATATTTAAATTAA
9739819 AAATA-ATATTT
1 AAATATATATTT
9739830 GAATGATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.21
17 7 0.25
20 8 0.29
21 7 0.25
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATATATATTTAAATTAA
Found at i:9741911 original size:8 final size:8
Alignment explanation
Indices: 9741898--9741922 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9741888 TTAGGTAGGA
9741898 GAGAGAGG
1 GAGAGAGG
9741906 GAGAGAGG
1 GAGAGAGG
9741914 GAGAGAGG
1 GAGAGAGG
9741922 G
1 G
9741923 GAGGAGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (8 bp):
GAGAGAGG
Found at i:9741929 original size:16 final size:18
Alignment explanation
Indices: 9741895--9741929 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9741885 TGGTTAGGTA
9741895 GGAGAGAGAGGGAGAGAG
1 GGAGAGAGAGGGAGAGAG
9741913 GGAGAGAG-GGGAG-GAG
1 GGAGAGAGAGGGAGAGAG
9741929 G
1 G
9741930 AAGGGCTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (18 bp):
GGAGAGAGAGGGAGAGAG
Found at i:9745060 original size:93 final size:93
Alignment explanation
Indices: 9744913--9745086 Score: 287
Period size: 93 Copynumber: 1.9 Consensus size: 93
9744903 GCTTCTTGTG
** * *
9744913 TGAATGTTGATGATGAGAAGACTCCTGTTGCATCTCCAACAGGTTCATCTGCTGAAAGGAAGTTA
1 TGAATGTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA
*
9744978 ACTCCTGTAGCTGGTGGTTCATCATGTA
66 AATCCTGTAGCTGGTGGTTCATCATGTA
9745006 TGAATGTTGATGATG-GAATGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT
1 TGAATGTTGATGATGAGAA-GAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT
9745070 AAATCCTGTAGCTGGTG
65 AAATCCTGTAGCTGGTG
9745087 AGGTTTTGTC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 3 0.04
93 72 0.96
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (93 bp):
TGAATGTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA
AATCCTGTAGCTGGTGGTTCATCATGTA
Found at i:9757051 original size:39 final size:39
Alignment explanation
Indices: 9756989--9757065 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
9756979 NNNNNNNNGA
*
9756989 CTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG
1 CTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGG
* *
9757028 CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG
1 CTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGG
9757066 ATCTTAGTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (39 bp):
CTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGG
Found at i:9758848 original size:101 final size:105
Alignment explanation
Indices: 9758714--9758984 Score: 442
Period size: 101 Copynumber: 2.6 Consensus size: 105
9758704 GGCTGTCACA
* *
9758714 ATACCATAATGCCATAAAATATAATAAACAATTCAAGTCATTAATCCATGCATATTGGTCGACTA
1 ATACCATAATGCCATAAAACATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGACTA
9758779 CTTTCATC-T-TT-TATAATATATTAACATATATT-AAGT
66 CTTTCATCTTATTATATAATATATTAACATATATTAAAGT
* *
9758815 ATACCATAATGCCGTAAAACATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGCTA
1 ATACCATAATGCCATAAAACATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGACTA
9758880 CTTTCATCTTTTATTAAATATAATATATTAACATATATTAAAGT
66 CTTTCATC--TTATT--ATATAATATATTAACATATATTAAAGT
9758924 ATACCATAATGCCATAAAACATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCG
1 ATACCATAATGCCATAAAACATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCG
9758985 GCCGTTAATT
Statistics
Matches: 157, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
101 69 0.44
104 1 0.01
105 2 0.01
108 21 0.13
109 64 0.41
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (105 bp):
ATACCATAATGCCATAAAACATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGACTA
CTTTCATCTTATTATATAATATATTAACATATATTAAAGT
Found at i:9765081 original size:26 final size:26
Alignment explanation
Indices: 9765052--9765158 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9765042 TGATACAAAT
9765052 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9765078 TGAT-ATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9765103 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9765129 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9765155 TGAT
1 TGAT
9765159 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.30
26 53 0.70
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9765107 original size:51 final size:52
Alignment explanation
Indices: 9765052--9765158 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
9765042 TGATACAAAT
*
9765052 TGATAATGGGTTAGGTAAATGTTCCATGAT-ATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGCTAGGTAAATGTTCCA
*
9765103 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGCTAGGTAAATGTTCCA
9765155 TGAT
1 TGAT
9765159 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 30 0.57
52 23 0.43
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGCTAGGTAAATGTTCCA
Found at i:9781089 original size:20 final size:20
Alignment explanation
Indices: 9781050--9781089 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9781040 TGAATTCACA
* * *
9781050 AAATTTTAGAATTTTTCATT
1 AAATTTTACAAGTTTACATT
9781070 AAATTTTACAAGTTTACATT
1 AAATTTTACAAGTTTACATT
9781090 TTAGCCCCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (20 bp):
AAATTTTACAAGTTTACATT
Found at i:9787340 original size:16 final size:18
Alignment explanation
Indices: 9787321--9787354 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
9787311 CATACGAATT
9787321 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
9787337 CCAAAACGATAGATAGTA
1 CCAAAACGATAGATAGTA
9787355 TGACGAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:9793529 original size:11 final size:11
Alignment explanation
Indices: 9793513--9793543 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
9793503 ATTGATCAAA
9793513 ACTTTTCTGGC
1 ACTTTTCTGGC
9793524 ACTTTTCTGGC
1 ACTTTTCTGGC
9793535 ACTTTTCTG
1 ACTTTTCTG
9793544 ACCACTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.26, G:0.16, T:0.48
Consensus pattern (11 bp):
ACTTTTCTGGC
Found at i:9796629 original size:16 final size:18
Alignment explanation
Indices: 9796610--9796642 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
9796600 CATACGAATT
9796610 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
9796626 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
9796643 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:9797272 original size:43 final size:42
Alignment explanation
Indices: 9797209--9797298 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 42
9797199 CTGAACTCAT
9797209 TCACCGGCATTATGCCTGCTAGGCTCAAAGCCCAATATTAAC
1 TCACCGGCATTATGCCTGCTAGGCTCAAAGCCCAATATTAAC
* * *
9797251 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
1 TCACCGGCATTAT-GCCTGCTAGGCTCAAAGCCCAATATTAAC
9797294 TCACC
1 TCACC
9797299 AAGTTCCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 12 0.28
43 31 0.72
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (42 bp):
TCACCGGCATTATGCCTGCTAGGCTCAAAGCCCAATATTAAC
Found at i:9802056 original size:60 final size:59
Alignment explanation
Indices: 9801961--9802080 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 59
9801951 ATATATTTAA
* * *
9801961 TAAACGAAACATTTGCAAAAACTATAATCATCTTATCTTCTTACTCGTATAATAAGAAG
1 TAAACGAAACAATTGAAAAAACTATAATCAGCTTATCTTCTTACTCGTATAATAAGAAG
*
9802020 TAAACGAAACAATTGTAAAAAACTATAATCAGCTTATCTTGTTACTCGTATAATAAGAAG
1 TAAACGAAACAATTG-AAAAAACTATAATCAGCTTATCTTCTTACTCGTATAATAAGAAG
9802080 T
1 T
9802081 TTTATTGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
59 14 0.25
60 42 0.75
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (59 bp):
TAAACGAAACAATTGAAAAAACTATAATCAGCTTATCTTCTTACTCGTATAATAAGAAG
Found at i:9803438 original size:17 final size:18
Alignment explanation
Indices: 9803416--9803450 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9803406 ATTTGGACCG
*
9803416 TGTGGGC-CACATGGGCA
1 TGTGGGCTCACACGGGCA
9803433 TGTGGGCTCACACGGGCA
1 TGTGGGCTCACACGGGCA
9803451 GACCATATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.17, C:0.26, G:0.40, T:0.17
Consensus pattern (18 bp):
TGTGGGCTCACACGGGCA
Found at i:9808430 original size:4 final size:4
Alignment explanation
Indices: 9808421--9808454 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
9808411 AACTTGAGCC
*
9808421 TTTA TTTA TTTA TTCA TTTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA T
9808455 GTACAAGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:9811356 original size:14 final size:14
Alignment explanation
Indices: 9811337--9811363 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9811327 ATTAAATAAT
9811337 AAATAAATAAAATA
1 AAATAAATAAAATA
9811351 AAATAAATAAAAT
1 AAATAAATAAAAT
9811364 TTTTTTTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:9812881 original size:16 final size:17
Alignment explanation
Indices: 9812860--9812893 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
9812850 TTCTAAATTT
9812860 ATAAAAATATA-TAAAA
1 ATAAAAATATATTAAAA
9812876 ATAAAAATATATTAAAA
1 ATAAAAATATATTAAAA
9812893 A
1 A
9812894 ACTATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAATATATTAAAA
Found at i:9816574 original size:18 final size:19
Alignment explanation
Indices: 9816551--9816588 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9816541 GCCTTTATGG
*
9816551 TTGTTATAAATAA-AAAAA
1 TTGTTATAAAAAATAAAAA
9816569 TTGTTATAAAAAATAAAAA
1 TTGTTATAAAAAATAAAAA
9816588 T
1 T
9816589 AAAATGTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
TTGTTATAAAAAATAAAAA
Found at i:9821015 original size:37 final size:37
Alignment explanation
Indices: 9820961--9821037 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
9820951 AAAAGTGGAA
*
9820961 GATGAAGAGGAATGAATTGAGGAGAAGCATAGTAGAG
1 GATGAAGAGGAAGGAATTGAGGAGAAGCATAGTAGAG
9820998 GATGAAGAGGAAGGAATTGAGGAGAAGCATAGTAGAG
1 GATGAAGAGGAAGGAATTGAGGAGAAGCATAGTAGAG
9821035 GAT
1 GAT
9821038 TGGCTGTGCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.43, C:0.03, G:0.39, T:0.16
Consensus pattern (37 bp):
GATGAAGAGGAAGGAATTGAGGAGAAGCATAGTAGAG
Found at i:9822091 original size:28 final size:28
Alignment explanation
Indices: 9822059--9822113 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
9822049 TCCAATTGGG
*
9822059 AAATGTTTTGTCTTGGGCATCGGAGCGA
1 AAATGTTTTGTCTTGGGCATCAGAGCGA
9822087 AAATGTTTTGTCTTGGGCATCAGAGCG
1 AAATGTTTTGTCTTGGGCATCAGAGCG
9822114 GATGACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.33
Consensus pattern (28 bp):
AAATGTTTTGTCTTGGGCATCAGAGCGA
Found at i:9823044 original size:22 final size:22
Alignment explanation
Indices: 9823019--9823062 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9823009 ACGAAATTAG
9823019 AATTAGATTGAGAAGATTATTT
1 AATTAGATTGAGAAGATTATTT
* *
9823041 AATTGGGTTGAGAAGATTATTT
1 AATTAGATTGAGAAGATTATTT
9823063 TACGATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (22 bp):
AATTAGATTGAGAAGATTATTT
Found at i:9829315 original size:2 final size:2
Alignment explanation
Indices: 9829308--9829350 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9829298 TTATTTAATT
9829308 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
9829350 T
1 T
9829351 TTGTCTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9832005 original size:15 final size:14
Alignment explanation
Indices: 9831985--9832028 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
9831975 TCTTTCATAT
9831985 TTAATTTTCTTAAAA
1 TTAATTTT-TTAAAA
9832000 TTAATTTTATTTAAAA
1 TTAA-TTT-TTTAAAA
9832016 TTAACTTTTTTAA
1 TTAA-TTTTTTAA
9832029 CAATATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 9 0.35
16 16 0.62
17 1 0.04
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATTTTTTAAAA
Found at i:9832015 original size:16 final size:15
Alignment explanation
Indices: 9831985--9832028 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
9831975 TCTTTCATAT
*
9831985 TTAATTTTCTTAAAA
1 TTAATTTTTTTAAAA
9832000 TTAATTTTATTTAAAA
1 TTAATTTT-TTTAAAA
*
9832016 TTAACTTTTTTAA
1 TTAATTTTTTTAA
9832029 CAATATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAATTTTTTTAAAA
Found at i:9832663 original size:62 final size:63
Alignment explanation
Indices: 9832587--9832704 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 63
9832577 TTATAACTAT
*
9832587 ATATTAAATACTATTTAAACTGTTAATAATCAA-TTTTTTTAACTCACATATTTTTTTAAAAG
1 ATATTAAATACTATTTAAACTGTTAATAATCAACTTTTTATAACTCACATATTTTTTTAAAAG
* ** * * * *
9832649 ATATTAAATGCTATTTAATTTTTTTATAATCAACTTTTTATAGCTCGCATATTTTT
1 ATATTAAATACTATTTAAACTGTTAATAATCAACTTTTTATAACTCACATATTTTT
9832705 ATGAGGCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
62 28 0.60
63 19 0.40
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (63 bp):
ATATTAAATACTATTTAAACTGTTAATAATCAACTTTTTATAACTCACATATTTTTTTAAAAG
Found at i:9833078 original size:84 final size:82
Alignment explanation
Indices: 9832892--9833079 Score: 207
Period size: 84 Copynumber: 2.2 Consensus size: 82
9832882 AAATAATAAT
** * *
9832892 AGTAATTAAGTCCTTTTTTTCACTCAATTAAATACTTAAACTTTCAAAATGTATTAAAAAGGCCC
1 AGTAATTAAGTCCTTTTTTTCACTCAATTAAATACTTAAACTACCAAAATGTATCAAAAAGACCC
*
9832957 TTAAATTTTTAAAAAAA
66 TAAAATTTTTAAAAAAA
* * * * *
9832974 AGTAA-TAAGCCCCTATTTTTTTCACTCAATTTAGTACTTGAACTACCAAAATGTATCAAAAATA
1 AGTAATTAAG-TCC--TTTTTTTCACTCAATTAAATACTTAAACTACCAAAATGTATCAAAAAGA
**
9833038 CCCTAAAATTTTTTCAAAAA
63 CCCTAAAATTTTTAAAAAAA
*
9833058 ATTAATTAAGTTCCTCTTTTTT
1 AGTAATTAAG-TCCT-TTTTTT
9833080 TTCTTTTTTG
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
81 4 0.05
82 7 0.08
83 1 0.01
84 68 0.79
85 6 0.07
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (82 bp):
AGTAATTAAGTCCTTTTTTTCACTCAATTAAATACTTAAACTACCAAAATGTATCAAAAAGACCC
TAAAATTTTTAAAAAAA
Found at i:9833239 original size:19 final size:18
Alignment explanation
Indices: 9833201--9833441 Score: 75
Period size: 20 Copynumber: 13.0 Consensus size: 18
9833191 ACATGTGGCA
*
9833201 AAAAATGATAAAAA--AT
1 AAAAATTATAAAAATTAT
*
9833217 AAAAATTAATAAAAGTTAT
1 AAAAATT-ATAAAAATTAT
9833236 AAAAATTATAAAAATTAT
1 AAAAATTATAAAAATTAT
* * *
9833254 -TAAATTTTAATAA-TA-
1 AAAAATTATAAAAATTAT
*
9833269 AAAAA-TATAAAAAATATTT
1 AAAAATTAT-AAAAAT-TAT
**** *
9833288 ATTTTTTATTAAAAATTAG
1 AAAAATTA-TAAAAATTAT
*
9833307 AAAAATATCATAAAAATCAT
1 AAAAAT-T-ATAAAAATTAT
*
9833327 AAAAATTATAATATATATAT
1 AAAAATTATAA-AAAT-TAT
* *
9833347 AGAAA-TATAAAAA-AAT
1 AAAAATTATAAAAATTAT
* *
9833363 ATAAAATTTTATAAATTCAT
1 A-AAAATTATAAAAATT-AT
* * *
9833383 AAGAAAATGATAAAAAATGT
1 -A-AAAATTATAAAAATTAT
** * *
9833403 AAAGAAACATAAAATTTTT
1 AAA-AATTATAAAAATTAT
9833422 AAAAGAATTATAAAAATTAT
1 -AAA-AATTATAAAAATTAT
9833442 CCTACAAAAA
Statistics
Matches: 158, Mismatches: 46, Indels: 38
0.65 0.19 0.16
Matches are distributed among these distances:
15 2 0.01
16 18 0.11
17 19 0.12
18 25 0.16
19 33 0.21
20 47 0.30
21 14 0.09
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAAATTATAAAAATTAT
Found at i:9833329 original size:29 final size:28
Alignment explanation
Indices: 9833297--9833359 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
9833287 TATTTTTTAT
9833297 TAAAAATTAGAA-AAATATCATAAAAATCA
1 TAAAAATTAGAATAAATAT-ATAAAAAT-A
* * *
9833326 TAAAAATTATAATATATATATAGAAATA
1 TAAAAATTAGAATAAATATATAAAAATA
9833354 TAAAAA
1 TAAAAA
9833360 AATATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
29 18 0.60
30 5 0.17
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (28 bp):
TAAAAATTAGAATAAATATATAAAAATA
Found at i:9833439 original size:9 final size:9
Alignment explanation
Indices: 9833201--9833441 Score: 75
Period size: 9 Copynumber: 26.0 Consensus size: 9
9833191 ACATGTGGCA
*
9833201 AAAAATGAT
1 AAAAATTAT
9833210 AAAAA--AT
1 AAAAATTAT
9833217 AAAAATTAAT
1 AAAAATT-AT
*
9833227 AAAAGTTAT
1 AAAAATTAT
9833236 AAAAATTAT
1 AAAAATTAT
9833245 AAAAATTAT
1 AAAAATTAT
* *
9833254 -TAAATTTT
1 AAAAATTAT
*
9833262 AATAA-TA-
1 AAAAATTAT
9833269 AAAAA-TAT
1 AAAAATTAT
*
9833277 AAAAAATATTT
1 -AAAAAT-TAT
****
9833288 ATTTTTTATT
1 AAAAATTA-T
*
9833298 AAAAATTAG
1 AAAAATTAT
9833307 AAAAATATCAT
1 AAAAAT-T-AT
*
9833318 AAAAATCAT
1 AAAAATTAT
9833327 AAAAATTAT
1 AAAAATTAT
*
9833336 AATATATATAT
1 AA-AAAT-TAT
*
9833347 AGAAA-TAT
1 AAAAATTAT
*
9833355 AAAAA-AAT
1 AAAAATTAT
*
9833363 ATAAAATTTT
1 A-AAAATTAT
*
9833373 ATAAATTCAT
1 AAAAATT-AT
*
9833383 AAGAAAATGAT
1 -A-AAAATTAT
* *
9833394 AAAAAATGT
1 AAAAATTAT
**
9833403 AAAGAAACAT
1 AAA-AATTAT
* *
9833413 AAAATTTTT
1 AAAAATTAT
9833422 AAAAGAATTAT
1 -AAA-AATTAT
9833433 AAAAATTAT
1 AAAAATTAT
9833442 CCTACAAAAA
Statistics
Matches: 167, Mismatches: 44, Indels: 42
0.66 0.17 0.17
Matches are distributed among these distances:
7 13 0.08
8 17 0.10
9 75 0.45
10 38 0.23
11 20 0.12
12 4 0.02
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9833641 original size:10 final size:10
Alignment explanation
Indices: 9833622--9833731 Score: 54
Period size: 10 Copynumber: 11.5 Consensus size: 10
9833612 TTTTATGCAC
9833622 TTTATAATTT
1 TTTATAATTT
*
9833632 TTTATGA-TT
1 TTTATAATTT
**
9833641 TTTATAAAAT
1 TTTATAATTT
* *
9833651 TTTACAAATT
1 TTTATAATTT
*
9833661 TTTATATTTT
1 TTTATAATTT
**
9833671 TTTACGA-TT
1 TTTATAATTT
9833680 TTTAT-ATTT
1 TTTATAATTT
*
9833689 TTT-GAA-TT
1 TTTATAATTT
*
9833697 TTTAGTAA-AT
1 TTTA-TAATTT
*
9833707 TTTAAATATTT
1 TTTATA-ATTT
9833718 TTTAT-ATTT
1 TTTATAATTT
9833727 TTTAT
1 TTTAT
9833732 TAAAGTTCAA
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
8 6 0.08
9 30 0.40
10 34 0.45
11 5 0.07
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (10 bp):
TTTATAATTT
Found at i:9833644 original size:19 final size:19
Alignment explanation
Indices: 9833622--9833730 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 19
9833612 TTTTATGCAC
*
9833622 TTTATAATTTTTTATGATT
1 TTTATAATTTTTTAAGATT
** *
9833641 TTTATAAAATTTTACAAATT
1 TTTATAATTTTTTA-AGATT
* *
9833661 TTTATATTTTTTTACGATT
1 TTTATAATTTTTTAAGATT
*
9833680 TTTAT-ATTTTTTGA-ATT
1 TTTATAATTTTTTAAGATT
* * *
9833697 TTTAGTAAATTTTAAATATT
1 TTTA-TAATTTTTTAAGATT
9833717 TTT-TATATTTTTTA
1 TTTATA-ATTTTTTA
9833731 TTAAAGTTCA
Statistics
Matches: 68, Mismatches: 17, Indels: 10
0.72 0.18 0.11
Matches are distributed among these distances:
17 7 0.10
18 9 0.13
19 32 0.47
20 20 0.29
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTATAATTTTTTAAGATT
Found at i:9833654 original size:29 final size:28
Alignment explanation
Indices: 9833622--9833760 Score: 99
Period size: 29 Copynumber: 4.9 Consensus size: 28
9833612 TTTTATGCAC
9833622 TTTATAATTTTTTATGATTTTTATAAAAT
1 TTTATAATTTTTTAT-ATTTTTATAAAAT
* * * **
9833651 TTTACAAATTTTTATATTTTTTTACGAT
1 TTTATAATTTTTTATATTTTTATAAAAT
9833679 TTT-TATATTTTTTGA-ATTTTTAGT-AAAT
1 TTTATA-ATTTTTT-ATATTTTTA-TAAAAT
* *
9833707 TTTAAATATTTTTTATATTTTTTATTAAAGT
1 TTTATA-ATTTTTTATA-TTTTTA-TAAAAT
**
9833738 TCAATAA-TTTTTAT-TTTTTATAA
1 TTTATAATTTTTTATATTTTTATAA
9833761 TTTTTTTGTC
Statistics
Matches: 87, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
26 3 0.03
27 7 0.08
28 31 0.36
29 32 0.37
30 8 0.09
31 6 0.07
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTATAATTTTTTATATTTTTATAAAAT
Found at i:9833671 original size:9 final size:9
Alignment explanation
Indices: 9833659--9833731 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 9
9833649 ATTTTACAAA
9833659 TTTTTATAT
1 TTTTTATAT
*
9833668 TTTTT-TACGA
1 TTTTTATA--T
9833678 TTTTTATAT
1 TTTTTATAT
9833687 TTTTTGA-AT
1 TTTTT-ATAT
*
9833696 TTTTAGTAAAT
1 TTTT--TATAT
**
9833707 TTTAAATAT
1 TTTTTATAT
9833716 TTTTTATAT
1 TTTTTATAT
9833725 TTTTTAT
1 TTTTTAT
9833732 TAAAGTTCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
8 2 0.04
9 33 0.66
10 7 0.14
11 8 0.16
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (9 bp):
TTTTTATAT
Found at i:9835316 original size:28 final size:28
Alignment explanation
Indices: 9835276--9835333 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
9835266 TTCTATTTAA
9835276 TTTCTTTGATAGTTGAATTATGATTAGT
1 TTTCTTTGATAGTTGAATTATGATTAGT
9835304 TTTCTTTGATAGTTGAATTATGATTAGT
1 TTTCTTTGATAGTTGAATTATGATTAGT
9835332 TT
1 TT
9835334 GGTATATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.55
Consensus pattern (28 bp):
TTTCTTTGATAGTTGAATTATGATTAGT
Found at i:9835327 original size:14 final size:15
Alignment explanation
Indices: 9835285--9835332 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
9835275 ATTTCTTTGA
9835285 TAGTTGAATTATGAT
1 TAGTTGAATTATGAT
***
9835300 TAGTTTTCTT-TGA-
1 TAGTTGAATTATGAT
9835313 TAGTTGAATTATGAT
1 TAGTTGAATTATGAT
9835328 TAGTT
1 TAGTT
9835333 TGGTATATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 12 0.48
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.52
Consensus pattern (15 bp):
TAGTTGAATTATGAT
Found at i:9841244 original size:35 final size:35
Alignment explanation
Indices: 9841205--9841273 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
9841195 TCTAGGATCG
*
9841205 CATATCTTTGAAGATCCCCTTCCATATTTGCCAAA
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAA
* * *
9841240 CATATCTTTGAAGATTACTTTCCATATTTTCCAA
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAA
9841274 GCTCTGGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAA
Found at i:9850210 original size:21 final size:21
Alignment explanation
Indices: 9850167--9850383 Score: 138
Period size: 21 Copynumber: 10.4 Consensus size: 21
9850157 GAACATTGTT
*
9850167 AACAGAAGCTCA-AA-AGCTG
1 AACAAAAGCTCATAAGAGCTG
* *
9850186 AACAAAAGCTCATGAGAGCTA
1 AACAAAAGCTCATAAGAGCTG
* * * *
9850207 AACAAAAACCCATAAGTGTTG
1 AACAAAAGCTCATAAGAGCTG
* * *
9850228 AACAGAATCTCGTAAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
* * *
9850249 AACGAAAA-CTCATATGAGTTA
1 AAC-AAAAGCTCATAAGAGCTG
9850270 AACAAAAGCTCATAAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
* *
9850291 AACAGAAA-CTCATAAGAGTTT
1 AACA-AAAGCTCATAAGAGCTG
* * * *
9850312 AATAGAAGCTTAAAAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
* * *
9850333 AACAGAAA-CTCATATGAGTTA
1 AACA-AAAGCTCATAAGAGCTG
* * *
9850354 AACAGAAGCTTATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTG
9850375 AACAGAAAG
1 AACA-AAAG
9850384 TAAAACATAA
Statistics
Matches: 146, Mismatches: 43, Indels: 15
0.72 0.21 0.07
Matches are distributed among these distances:
19 11 0.08
20 9 0.06
21 115 0.79
22 11 0.08
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTG
Found at i:9850272 original size:63 final size:63
Alignment explanation
Indices: 9850167--9850308 Score: 166
Period size: 63 Copynumber: 2.3 Consensus size: 63
9850157 GAACATTGTT
* * *
9850167 AACAGAAGCTCA-AA-AGCTGAACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAGTGTTG
1 AACAGAAACTCATAAGAGCTGAACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAGAGCTG
* * * * *
9850228 AACAGAATCTCGTAAGAGCTGAACGAAAA-CTCAT-ATGAGTTAAACAAAAGCTCATAAGAGCTG
1 AACAGAAACTCATAAGAGCTGAAC-AAAAGCTCATGA-GAGCTAAACAAAAACCCATAAGAGCTG
9850291 AACAGAAACTCATAAGAG
1 AACAGAAACTCATAAGAG
9850309 TTTAATAGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
61 10 0.15
62 3 0.04
63 51 0.75
64 4 0.06
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (63 bp):
AACAGAAACTCATAAGAGCTGAACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAGAGCTG
Found at i:9850330 original size:84 final size:84
Alignment explanation
Indices: 9850186--9850382 Score: 261
Period size: 84 Copynumber: 2.3 Consensus size: 84
9850176 TCAAAAGCTG
* * * * **
9850186 AACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAGTGTTGAACAGAATCTCGTAAGAGCTGAA
1 AACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTGAACAGAAGCTCAAAAGAGCTGAA
9850251 C-GAAAACTCATATGAGTTA
66 CAG-AAACTCATATGAGTTA
* * * * *
9850270 AACAAAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTTAATAGAAGCTTAAAAGAGCTGAA
1 AACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTGAACAGAAGCTCAAAAGAGCTGAA
9850335 CAGAAACTCATATGAGTTA
66 CAGAAACTCATATGAGTTA
* *
9850354 AACAGAAGCTTATAAGAGCTAAACAGAAA
1 AACAAAAGCTCATAAGAGCTAAACAGAAA
9850383 GTAAAACATA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 97 0.99
85 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.19
Consensus pattern (84 bp):
AACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTGAACAGAAGCTCAAAAGAGCTGAA
CAGAAACTCATATGAGTTA
Found at i:9850379 original size:42 final size:42
Alignment explanation
Indices: 9850186--9850382 Score: 216
Period size: 42 Copynumber: 4.7 Consensus size: 42
9850176 TCAAAAGCTG
* * * * * * *
9850186 AACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAGTGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTA
* * *
9850228 AACAGAATCTCGTAAGAGCTGAAC-GAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTGAACAG-AAACTCATAAGAGTTA
* *
9850270 AACAAAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTT
1 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTA
* * * *
9850312 AATAGAAGCTTAAAAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTA
* *
9850354 AACAGAAGCTTATAAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAGAGCTGAACAGAAA
9850383 GTAAAACATA
Statistics
Matches: 129, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 128 0.99
43 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTA
Found at i:9852735 original size:27 final size:27
Alignment explanation
Indices: 9852667--9852754 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 27
9852657 CCAAAATAAA
* *
9852667 TAAAATGACCTTAATGCCTCTGTAGGG
1 TAAAATGACCATAATGCCCCTGTAGGG
* ** *
9852694 CAAAACAATCATAATGCCCCTGTAGGG
1 TAAAATGACCATAATGCCCCTGTAGGG
* * *
9852721 TAAAATGACCGTAATGCCCCTATATGG
1 TAAAATGACCATAATGCCCCTGTAGGG
9852748 TAAAATG
1 TAAAATG
9852755 GCGATTATGT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
TAAAATGACCATAATGCCCCTGTAGGG
Found at i:9853119 original size:33 final size:33
Alignment explanation
Indices: 9853075--9853145 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
9853065 ATTACATTAC
* ** * *
9853075 ACTGTAGTGATACTGTATTGGGCTTAGGCCCAG
1 ACTGTACTGATACTGTATAAGGCTAAAGCCCAG
*
9853108 ACTGTACTGATACTTTATAAGGCTAAAGCCCAG
1 ACTGTACTGATACTGTATAAGGCTAAAGCCCAG
9853141 ACTGT
1 ACTGT
9853146 TTTACATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (33 bp):
ACTGTACTGATACTGTATAAGGCTAAAGCCCAG
Found at i:9856787 original size:54 final size:53
Alignment explanation
Indices: 9856704--9856874 Score: 225
Period size: 54 Copynumber: 3.2 Consensus size: 53
9856694 ACCCTAAAAT
* * * *
9856704 AGGTAAAATAACCGTAATACCCCTATAGGGTAAATTGGCCGTAATGCCCCTGTA
1 AGGTAAAATAACCGTAATGCCCCTGTAGGGTAAA-TGACCGTAATGCCCCTATA
* * *
9856758 AGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAACCGTAATGCCCCTATA
1 AGGTAAAATAACCGTAATGCCCCTGTAGGGT-AAATGACCGTAATGCCCCTATA
*
9856812 AGGTAAAATAACCGTAATGCCCCTGTAGGGTAAGATGACCGTAATACCCCTATA
1 AGGTAAAATAACCGTAATGCCCCTGTAGGGTAA-ATGACCGTAATGCCCCTATA
* *
9856866 TGTTAAAAT
1 AGGTAAAAT
9856875 GACGATATGC
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 2 0.02
54 97 0.95
55 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (53 bp):
AGGTAAAATAACCGTAATGCCCCTGTAGGGTAAATGACCGTAATGCCCCTATA
Found at i:9856844 original size:81 final size:81
Alignment explanation
Indices: 9856705--9856862 Score: 235
Period size: 81 Copynumber: 2.0 Consensus size: 81
9856695 CCCTAAAATA
* * ** *
9856705 GGTAAAATAACCGTAATACCCCTATAGGGTAAATTGGCCGTAATGCCCCTGTAAGGTAAAATGAT
1 GGTAAAATAACCGTAATACCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAAGGTAAAATGAC
*
9856770 CGTAATGCCCCTGTAG
66 CGTAATACCCCTGTAG
* * *
9856786 GGTAAAATAACCGTAATGCCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAGGGTAAGATGAC
1 GGTAAAATAACCGTAATACCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAAGGTAAAATGAC
9856851 CGTAATACCCCT
66 CGTAATACCCCT
9856863 ATATGTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (81 bp):
GGTAAAATAACCGTAATACCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAAGGTAAAATGAC
CGTAATACCCCTGTAG
Found at i:9856876 original size:27 final size:27
Alignment explanation
Indices: 9856705--9856877 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
9856695 CCCTAAAATA
* *
9856705 GGTAAAATAACCGTAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * * *
9856732 GGTAAATTGGCCGTAATGCCCCTGTAA
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
9856759 GGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
9856786 GGTAAAATAACCGTAATGCCCCTATAA
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
9856813 GGTAAAATAACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * *
9856840 GGTAAGATGACCGTAATACCCCTATAT
1 GGTAAAATGACCGTAATGCCCCTATAG
*
9856867 GTTAAAATGAC
1 GGTAAAATGAC
9856878 GATATGCCCT
Statistics
Matches: 123, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTATAG
Found at i:9857200 original size:59 final size:59
Alignment explanation
Indices: 9857093--9857221 Score: 186
Period size: 59 Copynumber: 2.2 Consensus size: 59
9857083 GCTGCGATAT
* * * *
9857093 TGGTATGCTGGCTGAGTGGGTTGATTTATATCCCCACATGGTGTGTTGGTTAGTATGGG
1 TGGTGTGCTAGCTGAGTGGGTTGATTTATATCCCCACATAGTGTGTTGGTTAGTACGGG
* * * *
9857152 TGGTGTGCTAGCTGGGTGGGTTGGTTTATATTCCCACATAGTGTGTTGGTTGGTACGGG
1 TGGTGTGCTAGCTGAGTGGGTTGATTTATATCCCCACATAGTGTGTTGGTTAGTACGGG
9857211 TGGTGTGCTAG
1 TGGTGTGCTAG
9857222 ATGAATTTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.13, C:0.12, G:0.38, T:0.37
Consensus pattern (59 bp):
TGGTGTGCTAGCTGAGTGGGTTGATTTATATCCCCACATAGTGTGTTGGTTAGTACGGG
Found at i:9857338 original size:33 final size:32
Alignment explanation
Indices: 9857252--9857339 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 32
9857242 TAATTGCATT
* *
9857252 ACACTGTAGTGATACTGTATTGGGCTTAGGCCC
1 ACACTGTA-TGATACTGTATAGGGCTAAGGCCC
*
9857285 ACACTGT-T-A-A-TGTATGGGGCTAAGGCCC
1 ACACTGTATGATACTGTATAGGGCTAAGGCCC
*
9857313 AGACTGTACTGATACTGTATAGGGCTA
1 ACACTGTA-TGATACTGTATAGGGCTA
9857340 TTTTTAGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
28 22 0.48
29 1 0.02
30 2 0.04
31 2 0.04
32 1 0.02
33 18 0.39
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (32 bp):
ACACTGTATGATACTGTATAGGGCTAAGGCCC
Found at i:9867904 original size:11 final size:10
Alignment explanation
Indices: 9867887--9867916 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
9867877 ACATAAATGA
9867887 ATTTTTTTTC
1 ATTTTTTTTC
9867897 ACTTTTTTTTC
1 A-TTTTTTTTC
9867908 ATTTTTTTT
1 ATTTTTTTT
9867917 AAAGAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:9868902 original size:18 final size:18
Alignment explanation
Indices: 9868874--9868927 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
9868864 TCAAAATATA
*
9868874 AAGATAAAATAAACATAAG
1 AAGA-AAAATAAACATAAC
*
9868893 AAGAAAAATAAAAATAAC
1 AAGAAAAATAAACATAAC
* *
9868911 AATAACAATAAACATAA
1 AAGAAAAATAAACATAA
9868928 AGACAAATGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.72, C:0.07, G:0.06, T:0.15
Consensus pattern (18 bp):
AAGAAAAATAAACATAAC
Found at i:9870659 original size:16 final size:16
Alignment explanation
Indices: 9870640--9870697 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
9870630 AATAACAGAT
* *
9870640 AAGAATAATAATAATA
1 AAGAAAAATAAAAATA
9870656 AAGAAAAATAAAAATA
1 AAGAAAAATAAAAATA
9870672 AAGAAAAATAAATAAATA
1 AAGAAAAAT-AA-AAATA
*
9870690 AATAAAAA
1 AAGAAAAA
9870698 GGGAAACTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 23 0.62
17 2 0.05
18 12 0.32
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
AAGAAAAATAAAAATA
Found at i:9871875 original size:64 final size:64
Alignment explanation
Indices: 9871774--9871901 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
9871764 TGAAATAAAA
9871774 ATGAGGAAATTAGCAATGTTAGTACTCGGGTTGCCTCCCGAAAAGCT-CTTATTTAGAGTCTAAG
1 ATGAGGAAATTAGCAATGTTAGTACTCGGGTTGCCTCCCGAAAAG-TGCTTATTTAGAGTCTAAG
* * *
9871838 ATGAGGAAATTAGCAGTGTTAGTACTCGGGTTGCCTCCCGAGAAGTGCTTATTTATAGTCTAAG
1 ATGAGGAAATTAGCAATGTTAGTACTCGGGTTGCCTCCCGAAAAGTGCTTATTTAGAGTCTAAG
9871902 CTTGACTTAC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 1 0.02
64 59 0.98
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (64 bp):
ATGAGGAAATTAGCAATGTTAGTACTCGGGTTGCCTCCCGAAAAGTGCTTATTTAGAGTCTAAG
Found at i:9872937 original size:262 final size:262
Alignment explanation
Indices: 9872472--9872997 Score: 944
Period size: 262 Copynumber: 2.0 Consensus size: 262
9872462 TCACCTACAC
* * * *
9872472 GAAGTATCAACTCACCTATACCAACATCTATAATGGTTCTAGCAGTCGCTAAAAAGGGTCGTCCT
1 GAAGTATCAACTCACCTATACCAACATCTATAATGGTCCTAGCAGTCACTAAAAAAGGTCATCCT
* *
9872537 AAAATTAAAGGAACGTCGCTATCCTCATCCATGTCTAAAACAACAAAATCCACTGGGAATATAAA
66 AAAATTAAAGGAACGTCACTATCCTCATCCATGTCTAAAACAACAAAATCCACTAGGAATATAAA
* *
9872602 TTTATCTATTTTCACAAGTACGTCTTCAACAATACCTCTAGGAAATCTAATTATTCTATCTGCCA
131 TTTATCTATTTTCACAAGTACGTCTTCAACAATACCTATAGAAAATCTAATTATTCTATCTGCCA
9872667 ATTGAATGCTCATCCTAATATGTTTAAGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGC
196 ATTGAATGCTCATCCTAATATGTTTAAGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGC
9872732 AT
261 AT
9872734 GAAGTATCAACTCACCTATACCAACATCTATAATGGTCCTAGCAGTCACTAAAAAAGGTCATCCT
1 GAAGTATCAACTCACCTATACCAACATCTATAATGGTCCTAGCAGTCACTAAAAAAGGTCATCCT
*
9872799 AAAATTAAAGGAACGTCACTATCCTCATCCATGTCTAAAACAACAAAATCTACTAGGAATATAAA
66 AAAATTAAAGGAACGTCACTATCCTCATCCATGTCTAAAACAACAAAATCCACTAGGAATATAAA
*
9872864 TTTATCTATTTTCACAAGTACGTCTTCAACAATACCTATAGAAAATCTAATTGTTCTATCTGCCA
131 TTTATCTATTTTCACAAGTACGTCTTCAACAATACCTATAGAAAATCTAATTATTCTATCTGCCA
* *
9872929 ATTGAATGCTCATCCTAATGTGTTTAGGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGC
196 ATTGAATGCTCATCCTAATATGTTTAAGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGC
9872994 AT
261 AT
9872996 GA
1 GA
9872998 CGTTAATACT
Statistics
Matches: 252, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
262 252 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (262 bp):
GAAGTATCAACTCACCTATACCAACATCTATAATGGTCCTAGCAGTCACTAAAAAAGGTCATCCT
AAAATTAAAGGAACGTCACTATCCTCATCCATGTCTAAAACAACAAAATCCACTAGGAATATAAA
TTTATCTATTTTCACAAGTACGTCTTCAACAATACCTATAGAAAATCTAATTATTCTATCTGCCA
ATTGAATGCTCATCCTAATATGTTTAAGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGC
AT
Found at i:9875687 original size:34 final size:34
Alignment explanation
Indices: 9875643--9875717 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
9875633 CATAATTGAG
9875643 ATCAAGAACAAATATTTATCATGTAATTCAGAAAA
1 ATCAA-AACAAATATTTATCATGTAATTCAGAAAA
9875678 ATCAAAACAAATATTTATCATGTAATTCAGAAAA
1 ATCAAAACAAATATTTATCATGTAATTCAGAAAA
9875712 ATCAAA
1 ATCAAA
9875718 TAATAAGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 35 0.88
35 5 0.12
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (34 bp):
ATCAAAACAAATATTTATCATGTAATTCAGAAAA
Found at i:9876086 original size:30 final size:30
Alignment explanation
Indices: 9876052--9876109 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9876042 CATGGACTGG
* *
9876052 CACATGGGTATATGGCCAGCTCGTGTGGCT
1 CACATGGGCATATGGCCAGCCCGTGTGGCT
* *
9876082 CACATGGGCCTGTGGCCAGCCCGTGTGG
1 CACATGGGCATATGGCCAGCCCGTGTGG
9876110 AAATACCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.28, G:0.36, T:0.22
Consensus pattern (30 bp):
CACATGGGCATATGGCCAGCCCGTGTGGCT
Found at i:9883347 original size:46 final size:46
Alignment explanation
Indices: 9883264--9883432 Score: 151
Period size: 46 Copynumber: 3.5 Consensus size: 46
9883254 TTGCACATAG
* * *
9883264 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGGA
1 TCACATATCAC--ACTGATGCCATAGCCCAGCTATGGTCTTATACGGA
* * *
9883312 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGATGCCATAGCCCAGCTATGGTCTTATAC-GGA
* *
9883359 GCACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA---CT--GATGCCATAGCCCAGCTATGGTCTTATACGG--A
* *
9883412 TCACATTTCACA-TGCTGCCAT
1 TCACATATCACACTGATGCCAT
9883433 GGTCCAACCA
Statistics
Matches: 98, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
46 27 0.28
47 19 0.19
48 11 0.11
49 1 0.01
50 2 0.02
51 1 0.01
52 26 0.27
53 11 0.11
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (46 bp):
TCACATATCACACTGATGCCATAGCCCAGCTATGGTCTTATACGGA
Found at i:9883392 original size:52 final size:48
Alignment explanation
Indices: 9883265--9883409 Score: 161
Period size: 52 Copynumber: 3.0 Consensus size: 48
9883255 TGCACATAGT
* * *
9883265 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTATACGGAT
1 CACATATCACACT-CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
* * * *
9883313 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGAAGCCATAGCCCAGCTATGGTCTTATAC-GGAG
9883360 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGA
1 CACATATCACA---CTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGA
9883410 AATCACATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
46 25 0.31
47 13 0.16
48 11 0.14
49 1 0.01
50 2 0.03
51 2 0.03
52 26 0.32
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (48 bp):
CACATATCACACTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
Found at i:9887992 original size:96 final size:96
Alignment explanation
Indices: 9887828--9888021 Score: 388
Period size: 96 Copynumber: 2.0 Consensus size: 96
9887818 CTCAGGGCCA
9887828 ACCGGAGGACACTATAGTGGAACTAAGACCGCACACAAAATACTTGAATCAGGTTTTTATTGGCC
1 ACCGGAGGACACTATAGTGGAACTAAGACCGCACACAAAATACTTGAATCAGGTTTTTATTGGCC
9887893 TTCATTATTCAAAGACGCTATCAAGTATGTT
66 TTCATTATTCAAAGACGCTATCAAGTATGTT
9887924 ACCGGAGGACACTATAGTGGAACTAAGACCGCACACAAAATACTTGAATCAGGTTTTTATTGGCC
1 ACCGGAGGACACTATAGTGGAACTAAGACCGCACACAAAATACTTGAATCAGGTTTTTATTGGCC
9887989 TTCATTATTCAAAGACGCTATCAAGTATGTT
66 TTCATTATTCAAAGACGCTATCAAGTATGTT
9888020 AC
1 AC
9888022 TTCATGTGAA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (96 bp):
ACCGGAGGACACTATAGTGGAACTAAGACCGCACACAAAATACTTGAATCAGGTTTTTATTGGCC
TTCATTATTCAAAGACGCTATCAAGTATGTT
Found at i:9889632 original size:17 final size:18
Alignment explanation
Indices: 9889612--9889649 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
9889602 TTTCATTAAG
9889612 TTTTTAAGACTCATTT-T
1 TTTTTAAGACTCATTTGT
*
9889629 TTTTTAAGATTCATTTGT
1 TTTTTAAGACTCATTTGT
9889647 TTT
1 TTT
9889650 CCTTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTTTAAGACTCATTTGT
Found at i:9893251 original size:40 final size:40
Alignment explanation
Indices: 9893182--9893277 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
9893172 GATTATGTTC
* * *
9893182 GGCACTAAGTGTGAGATTTGAAATTGCTTCGGCTATAAAT-A
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTAT--ATGA
*
9893223 -GCACTAAGTGTGCGAATTGGAATAGCTTCGGCTATATGA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATATGA
9893262 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
9893278 TACCAAGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 46 0.94
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATATGA
Found at i:9895109 original size:59 final size:61
Alignment explanation
Indices: 9895043--9895159 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
9895033 ATCACTTTAA
* * * *
9895043 TATTAAATTAATATAATATTTA-TA-AAGATAAATATTAGATTAAATTTCATATTAAATCT
1 TATTAAATTAATAGAACATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
*
9895102 TATTAAATTAATAGAACATTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAGAACATTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
9895160 TATAAGATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 2 0.04
62 28 0.56
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (61 bp):
TATTAAATTAATAGAACATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:9895178 original size:25 final size:26
Alignment explanation
Indices: 9895149--9895262 Score: 89
Period size: 25 Copynumber: 4.7 Consensus size: 26
9895139 TTAAATTTAA
9895149 TTTAATATTAATA-TAAGATAATCAT
1 TTTAATATTAATATTAAGATAATCAT
* * *
9895174 TTTAATATTAA-ATTAATAAAATAAT
1 TTTAATATTAATATTAAGATAATCAT
* * * * *
9895199 ATTAAGATAAATATTAA-AT--TTAA
1 TTTAATATTAATATTAAGATAATCAT
* *
9895222 TTTAATATTAAGA-TAAGATAATCAC
1 TTTAATATTAATATTAAGATAATCAT
9895247 TTTAATATTAA-ATTAA
1 TTTAATATTAATATTAA
9895263 TAAAATACTA
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
22 3 0.04
23 13 0.19
24 2 0.03
25 45 0.66
26 5 0.07
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.42
Consensus pattern (26 bp):
TTTAATATTAATATTAAGATAATCAT
Found at i:9895214 original size:73 final size:73
Alignment explanation
Indices: 9895129--9895305 Score: 318
Period size: 73 Copynumber: 2.4 Consensus size: 73
9895119 ATTTATCTAC
* *
9895129 AAGATAAATATTAAATTTAATTTAATATTAATATAAGATAATCATTTTAATATTAAATTAATAAA
1 AAGATAAATATTAAATTTAATTTAATATTAAGATAAGATAATCACTTTAATATTAAATTAATAAA
*
9895194 ATAATATT
66 ATAATACT
9895202 AAGATAAATATTAAATTTAATTTAATATTAAGATAAGATAATCACTTTAATATTAAATTAATAAA
1 AAGATAAATATTAAATTTAATTTAATATTAAGATAAGATAATCACTTTAATATTAAATTAATAAA
*
9895267 ATACTACT
66 ATAATACT
9895275 AAGATAAATATTAAATTTAATTTAATATTAA
1 AAGATAAATATTAAATTTAATTTAATATTAA
9895306 ATCTATTAAA
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 100 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (73 bp):
AAGATAAATATTAAATTTAATTTAATATTAAGATAAGATAATCACTTTAATATTAAATTAATAAA
ATAATACT
Found at i:9895234 original size:29 final size:30
Alignment explanation
Indices: 9895177--9895237 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
9895167 TAATCATTTT
9895177 AATATTAAATTAATAAAATAATATTAAGATA
1 AATATTAAATT-ATAAAATAATATTAAGATA
**
9895208 AATATTAAATT-TAATTTAATATTAAGATA
1 AATATTAAATTATAAAATAATATTAAGATA
9895237 A
1 A
9895238 GATAATCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.61
31 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
AATATTAAATTATAAAATAATATTAAGATA
Found at i:9901399 original size:46 final size:45
Alignment explanation
Indices: 9901332--9901503 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
9901322 AACCCGCCCC
* *
9901332 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
* **
9901378 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTATAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * * *
9901426 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
9901471 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
9901504 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 57 0.56
47 26 0.25
48 3 0.03
49 2 0.02
50 2 0.02
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:9901445 original size:93 final size:93
Alignment explanation
Indices: 9901337--9901507 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
9901327 GCCCCTAAGT
* * *
9901337 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
9901402 CGAGTTTGGATGCCTAGTTATATCTCAC
66 CGAGTTCGGATGCCTAGTTATATCTCAC
* * *
9901430 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
9901495 CGAGTTCGGATGC
66 CGAGTTCGGATGC
9901508 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTATATCTCAC
Found at i:9901961 original size:30 final size:29
Alignment explanation
Indices: 9901927--9901985 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
9901917 ATTTAATACG
9901927 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTT-CCCCTA
* * *
9901957 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTCCCCTA
9901986 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTCCCCTA
Found at i:9904677 original size:14 final size:14
Alignment explanation
Indices: 9904658--9904695 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9904648 TGAGTTGGTG
*
9904658 CATTTGCATTCATA
1 CATTTGCATACATA
*
9904672 CATTTGCATACATC
1 CATTTGCATACATA
9904686 CATTTGCATA
1 CATTTGCATA
9904696 AACCATCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (14 bp):
CATTTGCATACATA
Found at i:9908335 original size:19 final size:20
Alignment explanation
Indices: 9908311--9908348 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9908301 TATTATTATT
9908311 TTTAAAAAAATTAA-CTGTG
1 TTTAAAAAAATTAAGCTGTG
*
9908330 TTTAAAACAATTAAGCTGT
1 TTTAAAAAAATTAAGCTGT
9908349 ACACCTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (20 bp):
TTTAAAAAAATTAAGCTGTG
Found at i:9908607 original size:14 final size:14
Alignment explanation
Indices: 9908588--9908639 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
9908578 TTGGAAAGAT
9908588 TTATAAAAATAAAA
1 TTATAAAAATAAAA
* *
9908602 TTAT-AATATATAGA
1 TTATAAAAATA-AAA
*
9908616 TTATATAAAATAATA
1 TTATA-AAAATAAAA
9908631 TTATAAAAA
1 TTATAAAAA
9908640 ATTCTGTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 5 0.16
14 14 0.45
15 7 0.23
16 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TTATAAAAATAAAA
Found at i:9932831 original size:40 final size:40
Alignment explanation
Indices: 9932801--9933010 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
9932791 GGACTAAGAT
* * * **
9932801 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9932841 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9932881 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9932921 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
9932961 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9933000 CCGAAGGCATT
1 CCGAAGGCATT
9933011 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:9940769 original size:40 final size:40
Alignment explanation
Indices: 9940739--9940987 Score: 385
Period size: 40 Copynumber: 6.3 Consensus size: 40
9940729 GGACTAAGAT
* * * **
9940739 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9940779 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGT-
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9940818 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9940858 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9940898 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
9940938 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9940977 CCGAAGGCATT
1 CCGAAGGCATT
9940988 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 72 0.37
40 125 0.63
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:9940910 original size:119 final size:119
Alignment explanation
Indices: 9940686--9940987 Score: 392
Period size: 119 Copynumber: 2.5 Consensus size: 119
9940676 TTGAATGCTG
* * * * * * * * *
9940686 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
9940750 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
** * *
9940806 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
9940870 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
9940925 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
9940988 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
118 1 0.01
119 132 0.83
120 26 0.16
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:9941007 original size:119 final size:119
Alignment explanation
Indices: 9940761--9941022 Score: 375
Period size: 119 Copynumber: 2.2 Consensus size: 119
9940751 GTGCGAGATA
9940761 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCGAAGGC
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCGAAGGC
** * * ** **
9940826 ATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG
66 ATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAG
*
9940880 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGT-CCGAAGG
* * *
9940945 CATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAG
65 CATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAG
* *
9940999 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
9941023 TACGTGATTT
Statistics
Matches: 127, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
118 15 0.12
119 101 0.80
120 11 0.09
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (119 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCGAAGGC
ATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAG
Found at i:9941008 original size:79 final size:80
Alignment explanation
Indices: 9940739--9940987 Score: 385
Period size: 79 Copynumber: 3.1 Consensus size: 80
9940729 GGACTAAGAT
* * * **
9940739 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
9940804 AATCCGGGTTAAGT-
66 AATCCGGGTTAAGTC
9940818 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
9940883 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* **
9940898 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
* * *
9940962 AAACCGGGCTATGTC
66 AATCCGGGTTAAGTC
9940977 CCGAAGGCATT
1 CCGAAGGCATT
9940988 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
79 107 0.68
80 51 0.32
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
AATCCGGGTTAAGTC
Found at i:9952041 original size:40 final size:40
Alignment explanation
Indices: 9952011--9952259 Score: 394
Period size: 40 Copynumber: 6.3 Consensus size: 40
9952001 GGACTAAGAT
* * * **
9952011 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9952051 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9952091 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9952131 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9952171 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * *
9952211 CCGAAGGCATT-GTGTGAGTTACTAAA-CCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9952249 CCGAAGGCATT
1 CCGAAGGCATT
9952260 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
38 21 0.11
39 12 0.06
40 166 0.83
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:9952171 original size:120 final size:118
Alignment explanation
Indices: 9951958--9952259 Score: 399
Period size: 120 Copynumber: 2.5 Consensus size: 118
9951948 TTGAATGCTG
* * * * * * * *
9951958 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AACCGGGCTAAG-TCCCGAAGGCATT
*
9952022 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
63 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
** *
9952078 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA-CCGGGCTAAGTCCCGAAGGCATTC
* **
9952143 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
64 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
9952198 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATT
9952260 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
118 21 0.13
119 14 0.09
120 121 0.76
121 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTCGT
GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:9953937 original size:52 final size:52
Alignment explanation
Indices: 9953858--9953959 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
9953848 ACATAGTAAT
* *
9953858 TGCTAAATATACACTGGCTCAAAGCTTGCTAAATAACCATCAACTCAAGGTC
1 TGCTAAATATACACCGGCTCAAAGCTTGCTAAATAACCACCAACTCAAGGTC
* * *
9953910 TGCTAAATA-ATCACCGGCTCGAGGCTTGCTAAATAACCACCAGCTCAAGG
1 TGCTAAATATA-CACCGGCTCAAAGCTTGCTAAATAACCACCAACTCAAGG
9953960 CCTATTTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (52 bp):
TGCTAAATATACACCGGCTCAAAGCTTGCTAAATAACCACCAACTCAAGGTC
Found at i:9953960 original size:26 final size:26
Alignment explanation
Indices: 9953857--9953960 Score: 104
Period size: 26 Copynumber: 4.0 Consensus size: 26
9953847 TACATAGTAA
** *
9953857 TTGCTAAATATA-CACTGGCTCAAAGC
1 TTGCTAAATA-ACCACCAGCTCAAGGC
* *
9953883 TTGCTAAATAACCATCAACTCAAGG-
1 TTGCTAAATAACCACCAGCTCAAGGC
* * *
9953908 TCTGCTAAATAATCACCGGCTCGAGGC
1 T-TGCTAAATAACCACCAGCTCAAGGC
9953935 TTGCTAAATAACCACCAGCTCAAGGC
1 TTGCTAAATAACCACCAGCTCAAGGC
9953961 CTATTTTTCT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.03
26 59 0.95
27 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (26 bp):
TTGCTAAATAACCACCAGCTCAAGGC
Found at i:9962729 original size:21 final size:23
Alignment explanation
Indices: 9962705--9962755 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
9962695 AATATGCGAA
* *
9962705 TATTTTTAATTTTTTAA-T-TTT
1 TATTTTTAAGTGTTTAATTATTT
*
9962726 TATTTTCAAGTGTTTAATTATTT
1 TATTTTTAAGTGTTTAATTATTT
9962749 TATTTTT
1 TATTTTT
9962756 CGTATTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 14 0.58
22 1 0.04
23 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (23 bp):
TATTTTTAAGTGTTTAATTATTT
Found at i:9979151 original size:27 final size:27
Alignment explanation
Indices: 9979086--9979157 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
9979076 TTCTAAAAAA
*
9979086 ACTATTTCTCTCAGTGTTCGCCATACGC
1 ACTATTTCT-TCAGAGTTCGCCATACGC
* * *
9979114 ACTTTTTCTTCAGAGTTCGCCATATGT
1 ACTATTTCTTCAGAGTTCGCCATACGC
* *
9979141 ACTATTCCTTCAAAGTT
1 ACTATTTCTTCAGAGTT
9979158 TGTCATATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 29 0.78
28 8 0.22
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.40
Consensus pattern (27 bp):
ACTATTTCTTCAGAGTTCGCCATACGC
Found at i:9979294 original size:27 final size:28
Alignment explanation
Indices: 9979256--9979317 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
9979246 TATGAAGGAG
* *
9979256 TTCC-TTTCCATAGATCGCCACAAAGGC
1 TTCCATTTCCATAGATCACCACAAAAGC
*
9979283 TTCCATTT-CATAGATTACCACAAAAGC
1 TTCCATTTCCATAGATCACCACAAAAGC
9979310 TTCCATTT
1 TTCCATTT
9979318 TTCTGGTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (28 bp):
TTCCATTTCCATAGATCACCACAAAAGC
Found at i:9979482 original size:50 final size:51
Alignment explanation
Indices: 9979409--9979508 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 51
9979399 CCTTCAGTTC
*
9979409 TTTCCATATGATGCCATAACCCACCA-ATTATGATC-TTATACGATATGGTA
1 TTTCCATATGATGCCATAACCCACCAGA-TATGATCTTTACACGATATGGTA
* * * * *
9979459 TTTCGATATGATGTCATAGCCCACTAGATATGGTCTTTACACGATATGGT
1 TTTCCATATGATGCCATAACCCACCAGATATGATCTTTACACGATATGGT
9979509 GCCATGGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 28 0.67
51 14 0.33
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (51 bp):
TTTCCATATGATGCCATAACCCACCAGATATGATCTTTACACGATATGGTA
Found at i:9985399 original size:19 final size:19
Alignment explanation
Indices: 9985375--9985418 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
9985365 TATTGCTTAA
9985375 ATTTTATTTTTATAATTTT-
1 ATTTTATTTTTAT-ATTTTG
*
9985394 ATTTTATTTTTGTATTTTG
1 ATTTTATTTTTATATTTTG
9985413 ATTTTA
1 ATTTTA
9985419 GATATTGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
ATTTTATTTTTATATTTTG
Found at i:9996844 original size:20 final size:20
Alignment explanation
Indices: 9996803--9996847 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9996793 TCTTTTTTTG
**
9996803 ATAAAAATACATAAGATTTT
1 ATAAAAATACATAAGAAATT
9996823 ATAAAAATACATATA-AAATT
1 ATAAAAATACATA-AGAAATT
9996843 ATAAA
1 ATAAA
9996848 TAAATATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAAAAATACATAAGAAATT
Found at i:9996914 original size:20 final size:20
Alignment explanation
Indices: 9996891--9996937 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
9996881 ATTTATTTAT
* *
9996891 TAAAATAATAATTTTATAAA
1 TAAAACAATAATCTTATAAA
9996911 TAAAACAATAATCTTAT--A
1 TAAAACAATAATCTTATAAA
9996929 TAAAACAAT
1 TAAAACAAT
9996938 TTAAGCGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.40
20 15 0.60
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAACAATAATCTTATAAA
Found at i:9998302 original size:41 final size:42
Alignment explanation
Indices: 9998244--9998322 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
9998234 GCCTATATAC
*
9998244 AGAATTTTAACTTATAACATACGCGA-ATGCAAATATCAAAAT
1 AGAATTTTAACTTATAACATACAC-ATATGCAAATATCAAAAT
* *
9998286 AGAATTTT-GCTTATAACGTACACATATGCAAATATCA
1 AGAATTTTAACTTATAACATACACATATGCAAATATCA
9998323 TATCAAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 1 0.03
41 24 0.73
42 8 0.24
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.30
Consensus pattern (42 bp):
AGAATTTTAACTTATAACATACACATATGCAAATATCAAAAT
Found at i:9999554 original size:18 final size:18
Alignment explanation
Indices: 9999531--9999567 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9999521 ACGACCGAAA
9999531 ACAAAGAGTCAAAAAGGT
1 ACAAAGAGTCAAAAAGGT
9999549 ACAAAGAGTCAAAAAGGT
1 ACAAAGAGTCAAAAAGGT
9999567 A
1 A
9999568 TTCTCACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.22, T:0.11
Consensus pattern (18 bp):
ACAAAGAGTCAAAAAGGT
Found at i:9999642 original size:21 final size:21
Alignment explanation
Indices: 9999592--9999642 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
9999582 TAAAGACAAC
*
9999592 AAAACAAAATTACAGAAAAAG
1 AAAACAAAATGACAGAAAAAG
*
9999613 AAAAGAAAATGAC-GAAGGAAAG
1 AAAACAAAATGACAGAA--AAAG
9999635 -AAACAAAA
1 AAAACAAAA
9999643 GAAAGAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 3 0.12
21 18 0.72
22 4 0.16
ACGTcount: A:0.71, C:0.08, G:0.16, T:0.06
Consensus pattern (21 bp):
AAAACAAAATGACAGAAAAAG
Found at i:10003320 original size:9 final size:9
Alignment explanation
Indices: 10003306--10003387 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
10003296 TGATTGGTCC
10003306 AAAAATATT
1 AAAAATATT
10003315 AAAAAT-TAT
1 AAAAATAT-T
10003324 AAAAATATT
1 AAAAATATT
*
10003333 ATTTACCAAATTTT
1 A---A--AAATATT
10003347 AAAAATTATTT
1 AAAAA-TA-TT
10003358 AAAAATA-T
1 AAAAATATT
10003366 AAAAATTATTT
1 AAAAA-TA-TT
10003377 AAAAATATT
1 AAAAATATT
10003386 AA
1 AA
10003388 GAAGTTGTAC
Statistics
Matches: 59, Mismatches: 2, Indels: 24
0.69 0.02 0.28
Matches are distributed among these distances:
8 7 0.12
9 24 0.41
10 6 0.10
11 14 0.24
12 1 0.02
14 7 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAAATATT
Found at i:10003361 original size:10 final size:10
Alignment explanation
Indices: 10003306--10003387 Score: 66
Period size: 11 Copynumber: 8.2 Consensus size: 10
10003296 TGATTGGTCC
10003306 AAAAA-TATT
1 AAAAATTATT
*
10003315 AAAAATTATA
1 AAAAATTATT
10003325 AAAATATTATTT
1 AAAA-ATTA-TT
*
10003337 ACCAAATT-TT
1 A-AAAATTATT
10003347 AAAAATTATTT
1 AAAAATTA-TT
10003358 AAAAA-TA-T
1 AAAAATTATT
10003366 AAAAATTATTT
1 AAAAATTA-TT
10003377 AAAAA-TATT
1 AAAAATTATT
10003386 AA
1 AA
10003388 GAAGTTGTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
8 6 0.10
9 16 0.27
10 14 0.23
11 17 0.28
12 5 0.08
13 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAAATTATT
Found at i:10003370 original size:19 final size:19
Alignment explanation
Indices: 10003313--10003384 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 19
10003303 TCCAAAAATA
10003313 TTAAAAATTATAAAAATATTAT
1 TTAAAAA-TAT-AAAA-ATTAT
* *
10003335 TTACCAAATTTTAAAAATTAT
1 TTA--AAAATATAAAAATTAT
10003356 TTAAAAATATAAAAATTAT
1 TTAAAAATATAAAAATTAT
10003375 TTAAAAATAT
1 TTAAAAATAT
10003385 TAAGAAGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
19 24 0.55
21 8 0.18
22 7 0.16
23 2 0.05
24 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAAATATAAAAATTAT
Found at i:10003732 original size:9 final size:9
Alignment explanation
Indices: 10003715--10003798 Score: 51
Period size: 9 Copynumber: 9.2 Consensus size: 9
10003705 TTTTTTAAAA
*
10003715 AATTCTTAT
1 AATTTTTAT
10003724 AATTTTTAT
1 AATTTTTAT
*
10003733 AATTTTAAT
1 AATTTTTAT
* * *
10003742 CATTTTAAAA
1 AATTTT-TAT
*
10003752 AATTTTAAT
1 AATTTTTAT
* * *
10003761 GATTTTCAA
1 AATTTTTAT
* *
10003770 AAATTTTAA
1 AATTTTTAT
*
10003779 AATTTTTAC
1 AATTTTTAT
10003788 AATTTTTAT
1 AATTTTTAT
10003797 AA
1 AA
10003799 CATTTTAATA
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
9 52 0.88
10 7 0.12
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (9 bp):
AATTTTTAT
Found at i:10003757 original size:19 final size:19
Alignment explanation
Indices: 10003707--10003784 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 19
10003697 CATAATAATT
10003707 TTTTAAAAAATTCTT-ATAA
1 TTTTAAAAAATT-TTAATAA
* * *
10003726 TTTT-TATAATTTTAATCA
1 TTTTAAAAAATTTTAATAA
*
10003744 TTTTAAAAAATTTTAATGA
1 TTTTAAAAAATTTTAATAA
*
10003763 TTTTCAAAAATTTTAA-AA
1 TTTTAAAAAATTTTAATAA
10003781 TTTT
1 TTTT
10003785 TACAATTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
17 2 0.04
18 17 0.35
19 30 0.61
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (19 bp):
TTTTAAAAAATTTTAATAA
Found at i:10003784 original size:37 final size:37
Alignment explanation
Indices: 10003707--10003784 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
10003697 CATAATAATT
* * *
10003707 TTTTAAAAAATTCTTATAATTTTTATAATTTTAATCA
1 TTTTAAAAAATTCTTATAATTTTAAAAATTTTAATAA
*
10003744 TTTTAAAAAATT-TTAATGATTTTCAAAAATTTTAA-AA
1 TTTTAAAAAATTCTT-ATAATTTT-AAAAATTTTAATAA
10003781 TTTT
1 TTTT
10003785 TACAATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 2 0.06
37 24 0.69
38 9 0.26
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (37 bp):
TTTTAAAAAATTCTTATAATTTTAAAAATTTTAATAA
Found at i:10003785 original size:19 final size:20
Alignment explanation
Indices: 10003699--10003786 Score: 80
Period size: 19 Copynumber: 4.6 Consensus size: 20
10003689 CTCTTTATCA
10003699 TAATAATTTTTTAAAAAATTCT
1 TAATAA-TTTTTAAAAAATT-T
*
10003721 T-ATAATTTTT--ATAATTT
1 TAATAATTTTTAAAAAATTT
*
10003738 TAATCA-TTTTAAAAAATTT
1 TAATAATTTTTAAAAAATTT
* *
10003757 TAATGA-TTTTCAAAAATTT
1 TAATAATTTTTAAAAAATTT
10003776 TAA-AATTTTTA
1 TAATAATTTTTA
10003787 CAATTTTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
17 6 0.11
18 9 0.16
19 30 0.55
20 5 0.09
21 4 0.07
22 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (20 bp):
TAATAATTTTTAAAAAATTT
Found at i:10003885 original size:20 final size:21
Alignment explanation
Indices: 10003854--10003893 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
10003844 TACTAATTAG
10003854 AATTTTTAAAATAAATTTTAC
1 AATTTTTAAAATAAATTTTAC
10003875 AATTTTT-AAATAAATTTTA
1 AATTTTTAAAATAAATTTTA
10003894 ACTAGTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTTTAAAATAAATTTTAC
Found at i:10004442 original size:39 final size:39
Alignment explanation
Indices: 10004399--10004498 Score: 114
Period size: 39 Copynumber: 2.5 Consensus size: 39
10004389 TATACACATT
*
10004399 AAAAAATATAAAAATAGAAATAAATATATAAAAAAAT-TA
1 AAAAAATATAAAAATA-AAATAAACATATAAAAAAATATA
* *
10004438 AAAAATATATAAAATCTAAAA-AAACATATAAAATAATATA
1 AAAAA-ATATAAAA-ATAAAATAAACATATAAAAAAATATA
*
10004478 AAATAATTATAAAAATAAAAT
1 AAA-AAATATAAAAATAAAAT
10004499 TTAAAAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
39 24 0.47
40 23 0.45
41 4 0.08
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (39 bp):
AAAAAATATAAAAATAAAATAAACATATAAAAAAATATA
Found at i:10004451 original size:10 final size:10
Alignment explanation
Indices: 10004398--10004494 Score: 62
Period size: 10 Copynumber: 9.8 Consensus size: 10
10004388 GTATACACAT
10004398 TAAAAA-ATA
1 TAAAAATATA
*
10004407 TAAAAATAGA
1 TAAAAATATA
10004417 -AATAAATATA
1 TAA-AAATATA
*
10004427 TAAAAAAAT-
1 TAAAAATATA
10004436 TAAAAA-ATA
1 TAAAAATATA
*
10004445 TATAAAATCTA
1 TA-AAAATATA
* *
10004456 AAAAAACATA
1 TAAAAATATA
10004466 T-AAAATA-A
1 TAAAAATATA
10004474 TATAAAATAATTA
1 TA-AAAAT-A-TA
10004487 TAAAAATA
1 TAAAAATA
10004495 AAATTTAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
8 4 0.06
9 21 0.31
10 28 0.41
11 7 0.10
12 5 0.07
13 3 0.04
ACGTcount: A:0.71, C:0.02, G:0.01, T:0.26
Consensus pattern (10 bp):
TAAAAATATA
Found at i:10004452 original size:29 final size:28
Alignment explanation
Indices: 10004420--10004511 Score: 76
Period size: 34 Copynumber: 3.0 Consensus size: 28
10004410 AAATAGAAAT
10004420 AAATATATAAAAAAATTAAAAAATATATA
1 AAATATA-AAAAAAATTAAAAAATATATA
* *
10004449 AAATCTAAAAAAACATATAAAATAATATAAA
1 AAATATAAAAAAA-AT-TAAAA-AATATATA
*
10004480 ATAATTATAAAAATAAAATTTAAAAAAAATAT
1 A-AA-TAT-AAAA-AAAA-TTAAAAAATATAT
10004512 GATAATTGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
28 6 0.12
29 8 0.16
30 5 0.10
31 8 0.16
32 2 0.04
33 7 0.14
34 10 0.20
35 4 0.08
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (28 bp):
AAATATAAAAAAAATTAAAAAATATATA
Found at i:10004631 original size:26 final size:25
Alignment explanation
Indices: 10004584--10004632 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
10004574 AAATTGTTAT
*
10004584 AATTTTTTTAAAAAGGTTTAAAAAC
1 AATTTTTTTAAAAAGATTTAAAAAC
10004609 AATTTTTTTAATAAA-ATTCTAAAA
1 AATTTTTTTAA-AAAGATT-TAAAA
10004633 TATATAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (25 bp):
AATTTTTTTAAAAAGATTTAAAAAC
Found at i:10006645 original size:16 final size:16
Alignment explanation
Indices: 10006621--10006652 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10006611 CATTTAGACA
*
10006621 TAAATTTAATTTTTTT
1 TAAAATTAATTTTTTT
10006637 TAAAATTAATTTTTTT
1 TAAAATTAATTTTTTT
10006653 ATATTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TAAAATTAATTTTTTT
Found at i:10007234 original size:17 final size:18
Alignment explanation
Indices: 10007204--10007237 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10007194 TCAATTAATT
10007204 AATTAAATTAATTTTCTC
1 AATTAAATTAATTTTCTC
*
10007222 AATTAGATT-ATTTTCT
1 AATTAAATTAATTTTCT
10007238 TAACTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTAAATTAATTTTCTC
Found at i:10009578 original size:29 final size:26
Alignment explanation
Indices: 10009545--10009610 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
10009535 TTGACTTCCT
10009545 TTTATTTTATGTAAATATTCTCTCTTAAA
1 TTTA-TTTATGTAAATATTCT-T-TTAAA
* *
10009574 TTTA-TTATATATATATTCTTTTAAA
1 TTTATTTATGTAAATATTCTTTTAAA
10009599 TTTATTTATGTA
1 TTTATTTATGTA
10009611 TAATTTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 9 0.27
26 7 0.21
27 13 0.39
29 4 0.12
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTATTTATGTAAATATTCTTTTAAA
Found at i:10009602 original size:25 final size:26
Alignment explanation
Indices: 10009559--10009612 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
10009549 TTTTATGTAA
10009559 ATATTCTCTCTTAAATTTATTATATAT
1 ATATTCTCTCTTAAATTTATT-TATAT
*
10009586 ATATTCT-T-TTAAATTTATTTATGT
1 ATATTCTCTCTTAAATTTATTTATAT
10009610 ATA
1 ATA
10009613 ATTTGGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
25 11 0.42
26 1 0.04
27 7 0.27
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (26 bp):
ATATTCTCTCTTAAATTTATTTATAT
Found at i:10010382 original size:125 final size:125
Alignment explanation
Indices: 10010175--10010453 Score: 432
Period size: 125 Copynumber: 2.2 Consensus size: 125
10010165 GTTTACGAGG
*
10010175 TCGTGCCCAATCGTGCTAGGTTTCGATTTTTCATTCGACTAAAATACAAAATATCCTTTTGAAAT
1 TCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACAAAATATCCTTTTGAAAT
** * * *
10010240 TTTTTCTATGTTCTCTTAAATTAAAGCGAGGCAATATTTCATATTTGGAAGTTCGATAAA
66 TTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAAA
* * * *
10010300 TCGTGCCCAATGGTGCTGGGTTTCGATTTTTCATTCGATTAAAATACGAAATATCCTTTTGGAAT
1 TCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACAAAATATCCTTTTGAAAT
* * *
10010365 TTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATATGGAAGTTCGATAAA
66 TTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAAA
*
10010425 TCGTGCCCAATCGTGTTGGGTTTCGATTT
1 TCGTGCCCAATCGTGCTGGGTTTCGATTT
10010454 ACCGTTTGGC
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 139 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (125 bp):
TCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACAAAATATCCTTTTGAAAT
TTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAAA
Found at i:10010477 original size:125 final size:125
Alignment explanation
Indices: 10010175--10010494 Score: 383
Period size: 125 Copynumber: 2.6 Consensus size: 125
10010165 GTTTACGAGG
* ** *
10010175 TCGTGCCCAATCGTGCTAGGTTTCGATTTTTCATTCGA-CTAAAATACAAAATATCCTTTTGAAA
1 TCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTCGAGC-AAAATACCAAATATCCTTTTGAAA
** * * *
10010239 TTTTTTCTATGTTCTCTTAAATTAAAGCGAGGCAATATTTCATATTTGGAAGTTCGATAAA
65 TTTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAAA
* ** ** * *
10010300 TCGTGCCCAATGGTGCTGGGTTTCGATTTTTCATTCGATTAAAATACGAAATATCCTTTTGGAAT
1 TCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTCGAGCAAAATACCAAATATCCTTTTGAAAT
* * *
10010365 TTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATATGGAAGTTCGATAAA
66 TTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAAA
* * * **
10010425 TCGTGCCCAATCGTGTTGGGTTTCGATTTACCGTTTG-GCCGAATAGCCAAATATCCTTTTTGAA
1 TCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTCGAGCAAAATA-CCAAATATCC-TTTTGAA
10010489 ATTTCA
64 ATTTCA
10010495 AATGTATGAG
Statistics
Matches: 167, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
124 4 0.02
125 151 0.90
126 12 0.07
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (125 bp):
TCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTCGAGCAAAATACCAAATATCCTTTTGAAAT
TTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAAA
Done.