Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_pilon, whole genome shotgun sequence
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: 3838456
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 18
Found at i:2909951 original size:26 final size:26
Alignment explanation
Indices: 2909922--2910116 Score: 181
Period size: 26 Copynumber: 7.6 Consensus size: 26
2909912 TTAATTATTA
2909922 ATAATATATAGTTTTTAGGAAAATAT
1 ATAATATATAGTTTTTAGGAAAATAT
* *
2909948 ATAATATATAATTTTTAGGAATATAT
1 ATAATATATAGTTTTTAGGAAAATAT
2909974 ATAATATATAGTTTTT--G--AATAT
1 ATAATATATAGTTTTTAGGAAAATAT
* * *
2909996 ATAGTATATAATTTTTAGAAAAATAT
1 ATAATATATAGTTTTTAGGAAAATAT
* *
2910022 ATAGTATATAGTTTTCA-GAAAATAT
1 ATAATATATAGTTTTTAGGAAAATAT
*
2910047 ATATAGTATTTAGTTTTTTAGG-AAA-AT
1 ATA-A-TATATAG-TTTTTAGGAAAATAT
* *
2910074 AT-CTATATAGTTTTTAGAAAAATAT
1 ATAATATATAGTTTTTAGGAAAATAT
* *
2910099 TTATTTAATATAGTTTTT
1 ATA-AT-ATATAGTTTTT
2910117 TTTAGAAAAT
Statistics
Matches: 138, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
22 18 0.13
23 7 0.05
24 10 0.07
25 13 0.09
26 59 0.43
27 11 0.08
28 19 0.14
29 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.47
Consensus pattern (26 bp):
ATAATATATAGTTTTTAGGAAAATAT
Found at i:2910007 original size:48 final size:50
Alignment explanation
Indices: 2909922--2910098 Score: 175
Period size: 48 Copynumber: 3.5 Consensus size: 50
2909912 TTAATTATTA
* *
2909922 ATAATATATAGTTTTTAGGAAAATATATAATATATAATTTTTAGGAATATAT
1 ATAATATATAGTTTTTA-G-AAATATATAATATATAATTTTTAGAAAAATAT
*
2909974 ATAATATATAGTTTTT-G-AATATATAGTATATAATTTTTAGAAAAATAT
1 ATAATATATAGTTTTTAGAAATATATAATATATAATTTTTAGAAAAATAT
* * * * *
2910022 ATAGTATATAGTTTTCAGAAAATATATATAGTATTTAGTTTTTTAG-GAAA-AT
1 ATAATATATAGTTTTTAG-AAATATATA-A-TATATA-ATTTTTAGAAAAATAT
* *
2910074 AT-CTATATAGTTTTTAGAAAAATAT
1 ATAATATATAGTTTTTAGAAATATAT
2910099 TTATTTAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
48 42 0.39
49 1 0.01
50 8 0.07
51 21 0.20
52 20 0.19
53 8 0.07
54 7 0.07
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.45
Consensus pattern (50 bp):
ATAATATATAGTTTTTAGAAATATATAATATATAATTTTTAGAAAAATAT
Found at i:2910080 original size:29 final size:27
Alignment explanation
Indices: 2909926--2910145 Score: 164
Period size: 26 Copynumber: 8.4 Consensus size: 27
2909916 TTATTAATAA
2909926 TATATAGTTTTTAGGAAAATATATA-A-
1 TATATAGTTTTTA-GAAAATATATATAG
* * *
2909952 TATATAATTTTTAG-GAATATATATAA
1 TATATAGTTTTTAGAAAATATATATAG
2909978 TATATAGTTTTT-G---A-ATATATAG
1 TATATAGTTTTTAGAAAATATATATAG
*
2910000 TATATAATTTTTAGAAAA-ATATATAG
1 TATATAGTTTTTAGAAAATATATATAG
*
2910026 TATATAGTTTTCAGAAAATATATATAG
1 TATATAGTTTTTAGAAAATATATATAG
* * *
2910053 TATTTAGTTTTTTAG-GAA-A-ATAT-C
1 TATATAG-TTTTTAGAAAATATATATAG
* *
2910077 TATATAGTTTTTAGAAAA-ATATTTATT
1 TATATAGTTTTTAGAAAATATATATA-G
*
2910104 TAATATAGTTTTTTTTAGAAAATAAATATA-
1 T-ATATAG---TTTTTAGAAAATATATATAG
2910134 TATTATAGTTTT
1 TA-TATAGTTTT
2910146 GAAAATCCAT
Statistics
Matches: 159, Mismatches: 17, Indels: 35
0.75 0.08 0.17
Matches are distributed among these distances:
22 18 0.11
23 9 0.06
24 17 0.11
25 10 0.06
26 49 0.31
27 21 0.13
28 12 0.08
29 1 0.01
30 6 0.04
31 11 0.07
32 5 0.03
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (27 bp):
TATATAGTTTTTAGAAAATATATATAG
Found at i:2910126 original size:30 final size:31
Alignment explanation
Indices: 2910084--2910145 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
2910074 ATCTATATAG
** *
2910084 TTTTTAGAAAAATATTTATTTAATATAGTTT
1 TTTTTAGAAAAATAAATATATAATATAGTTT
*
2910115 TTTTTAG-AAAATAAATATATATTATAGTTT
1 TTTTTAGAAAAATAAATATATAATATAGTTT
2910145 T
1 T
2910146 GAAAATCCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (31 bp):
TTTTTAGAAAAATAAATATATAATATAGTTT
Found at i:2914457 original size:25 final size:25
Alignment explanation
Indices: 2914423--2914484 Score: 124
Period size: 25 Copynumber: 2.5 Consensus size: 25
2914413 TCCTCCTTAC
2914423 TTTAACACTTCTCCCATTTAAAACA
1 TTTAACACTTCTCCCATTTAAAACA
2914448 TTTAACACTTCTCCCATTTAAAACA
1 TTTAACACTTCTCCCATTTAAAACA
2914473 TTTAACACTTCT
1 TTTAACACTTCT
2914485 TCCCCTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (25 bp):
TTTAACACTTCTCCCATTTAAAACA
Found at i:2914760 original size:17 final size:16
Alignment explanation
Indices: 2914722--2914769 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
2914712 TTTAAACATC
* *
2914722 CAAACAAATCCAAAGT
1 CAAACAATTCCAAAAT
*
2914738 CTAACAATTCACAAAAT
1 CAAACAATTC-CAAAAT
2914755 CAAAC-ATTCCAAAAT
1 CAAACAATTCCAAAAT
2914770 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 6 0.22
16 12 0.44
17 9 0.33
ACGTcount: A:0.54, C:0.25, G:0.02, T:0.19
Consensus pattern (16 bp):
CAAACAATTCCAAAAT
Found at i:2916749 original size:19 final size:21
Alignment explanation
Indices: 2916727--2916773 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
2916717 GGGGTATTGA
2916727 TTCCCC-T-AGGGGGAATCGG
1 TTCCCCTTAAGGGGGAATCGG
2916746 TTCCCCTTCAAAGGGGGAATCGG
1 TTCCCCTT--AAGGGGGAATCGG
2916769 TTCCC
1 TTCCC
2916774 TCATGGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 1 0.04
23 17 0.71
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (21 bp):
TTCCCCTTAAGGGGGAATCGG
Found at i:2916787 original size:20 final size:21
Alignment explanation
Indices: 2916734--2916795 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
2916724 TGATTCCCCT
2916734 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTT-CCC-TCAA
2916757 AGGGGGAATCGGTTCCCTC-A
1 AGGGGGAATCGGTTCCCTCAA
* * *
2916777 TGGGGGTATCGATTCCCTC
1 AGGGGGAATCGGTTCCCTC
2916796 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 17 0.47
21 2 0.06
22 3 0.08
23 14 0.39
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCTCAA
Found at i:2926112 original size:99 final size:98
Alignment explanation
Indices: 2925979--2926262 Score: 408
Period size: 99 Copynumber: 2.9 Consensus size: 98
2925969 ATTATATATG
* * *
2925979 TATACAATAAAACTTGAGCTGCCCCTCTAGAGCAATTGGTTAAACACCCTGACTTTATGGATAAG
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCC-GACTTTATGGATAAG
*
2926044 ATTCAGCTAGCCTCATAAAGGTGATTATATTGTA
65 ATTCAGCTAACCTCATAAAGGTGATTATATTGTA
*
2926078 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTATAGATAAG
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACA-CCCGACTTTATGGATAAG
*
2926143 ATTCAGCTAACCTGATAAAGGTGATTATATTGTA
65 ATTCAGCTAACCTCATAAAGGTGATTATATTGTA
* * * *
2926177 TATACAATAAAGCTTGAATTGTCCCTCTAAACCAATTGGTTAAA-AGCCACGGCTTTATGGATAA
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACA-CC-CGACTTTATGGATAA
* * *
2926241 TATTCAGCTATCCTTATAAAGG
64 GATTCAGCTAACCTCATAAAGG
2926263 CAAATTACAA
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
98 3 0.02
99 162 0.96
100 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (98 bp):
TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCGACTTTATGGATAAGA
TTCAGCTAACCTCATAAAGGTGATTATATTGTA
Found at i:2929445 original size:237 final size:237
Alignment explanation
Indices: 2928721--2929677 Score: 1351
Period size: 237 Copynumber: 4.0 Consensus size: 237
2928711 ACTATTTCTA
* * * * * * *
2928721 AAGATGATAAGTCATTCGAGCCATTCATAAGACCTTCAGGCAGGATGTTTTCATATGAATTTGAA
1 AAGATGATAAGTCTTTTGGGCCATCCATAAGACCTTCGGGCAAGATGTTTTCACATGAATTTGAA
* *
2928786 AAATGAGAAAGCGATTTTCAAAGTTTCACATTTAATGTTTTTTGAAGATGAAATTTTTGAAAAGT
66 AAATGAGAAAGCGATTTTCAAAGTTTCCCATTTAATGTTTTTTGAAAATGAAATTTTTGAAAAGT
* * * * **
2928851 AAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGCCCCTCGGGTAATCAGTAAGCCTTCCGAGC
131 AAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCAGGCCATCAGTAAGCCTTCCGAGC
* *
2928916 ATGATGATTAAATCCTCTGGTTCATCTGTCAGGCTTTCAAGC
196 ATGATGATTAAATCCTCCGGGTCATCTGTCAGGCTTTCAAGC
* * *
2928958 AAGATGATAAGT-TCTTTGGGCCATCTATAAGACTTTCGGGCAGGATGTTTTCACATGAATTTGA
1 AAGATGATAAGTCT-TTTGGGCCATCCATAAGACCTTCGGGCAAGATGTTTTCACATGAATTTGA
* * ** * *
2929022 AAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAAATCCTTTTTGAAAATGAATTTTTTGAAAT
65 AAAATGAGAAAGCGATTTTCAAAGTTTCCCATTT-AATGTTTTTTGAAAATGAAATTTTTGAAAA
* *
2929087 GTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGCCTTCCGA
129 GTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCAGGCCATCAGTAAGCCTTCCGA
* * *
2929152 GAATGATGATTAAATCCTCCAGGTCATTTGTCAGGCTTTCAAGC
194 GCATGATGATTAAATCCTCCGGGTCATCTGTCAGGCTTTCAAGC
* *
2929196 AAGATGATAAGTCTTTTGGGCCATCCATAAGACCTTCGGGTAAGATGTTTTCACATGAATTTAAA
1 AAGATGATAAGTCTTTTGGGCCATCCATAAGACCTTCGGGCAAGATGTTTTCACATGAATTTGAA
*
2929261 AAATGAGAAAGCGATTTTCAAAGTTTCCCATTTAATGTTTTTTGAAGATGAAATTTTTGAAAAGT
66 AAATGAGAAAGCGATTTTCAAAGTTTCCCATTTAATGTTTTTTGAAAATGAAATTTTTGAAAAGT
* * *
2929326 AAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCAGACCATCAGTAAACCTTCTGAGC
131 AAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCAGGCCATCAGTAAGCCTTCCGAGC
* * *
2929391 ATGATAATTAAGTCCTCCGGGTCATCTGTCAGGCTTTCGAGC
196 ATGATGATTAAATCCTCCGGGTCATCTGTCAGGCTTTCAAGC
* * * * * * *
2929433 AAGATGATAAGTCCTTTGGGCCATCTATAAGACCTACGGCCAAGTTGTTGTCACATGAATTTGGA
1 AAGATGATAAGTCTTTTGGGCCATCCATAAGACCTTCGGGCAAGATGTTTTCACATGAATTTGAA
* * **
2929498 AAATGAGAAAGCTATTTTCAAAGTTTCCTATTTAATGTTTTCAGAAAATGAAATTTTTGAAAAGT
66 AAATGAGAAAGCGATTTTCAAAGTTTCCCATTTAATGTTTTTTGAAAATGAAATTTTTGAAAAGT
* * *
2929563 AAGAAAGCGATTTCCAAAGTTTATTACTTAGTAAGTCCTTCAGGTCATTAGTAAGCCTTCCGAGC
131 AAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCAGGCCATCAGTAAGCCTTCCGAGC
* * *
2929628 ATGATGATTAAATCCTTCGGGTCA-CTTTTCAGGCTTTCGAGC
196 ATGATGATTAAATCCTCCGGGTCATC-TGTCAGGCTTTCAAGC
*
2929670 ATGATGAT
1 AAGATGAT
2929678 TAAATCCTCC
Statistics
Matches: 644, Mismatches: 72, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
236 1 0.00
237 428 0.66
238 214 0.33
239 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (237 bp):
AAGATGATAAGTCTTTTGGGCCATCCATAAGACCTTCGGGCAAGATGTTTTCACATGAATTTGAA
AAATGAGAAAGCGATTTTCAAAGTTTCCCATTTAATGTTTTTTGAAAATGAAATTTTTGAAAAGT
AAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCAGGCCATCAGTAAGCCTTCCGAGC
ATGATGATTAAATCCTCCGGGTCATCTGTCAGGCTTTCAAGC
Found at i:2929669 original size:42 final size:42
Alignment explanation
Indices: 2929605--2929719 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
2929595 AAGTCCTTCA
* * * *
2929605 GGTCATTAGTAAGCCTTCCGAGCATGATGATTAAATCCTTCG
1 GGTCATTTGTCAGGCTTCCGAGCATGATGATTAAATCCTCCG
*
2929647 GGTCACTTT-TCAGGCTTTCGAGCATGATGATTAAATCCTCCG
1 GGTCA-TTTGTCAGGCTTCCGAGCATGATGATTAAATCCTCCG
*
2929689 GGTCATTTGTCAGGCTTCCGAGCAAGATGAT
1 GGTCATTTGTCAGGCTTCCGAGCATGATGAT
2929720 AAGTCATTTG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
41 3 0.05
42 59 0.92
43 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (42 bp):
GGTCATTTGTCAGGCTTCCGAGCATGATGATTAAATCCTCCG
Found at i:2929889 original size:269 final size:275
Alignment explanation
Indices: 2929382--2929964 Score: 792
Period size: 269 Copynumber: 2.1 Consensus size: 275
2929372 ATCAGTAAAC
* * * * *
2929382 CTTCTGAGCATGATAATTAAGTCCTCCGGGTCATCTGTCAGGCTTTCGAGCAAGATGATAAGTCC
1 CTTCCGAGCATGATGATTAAATCCTCCGGGTCATCTGTCAGGCTTCCGAGCAAGATGATAAGTCA
*
2929447 TTTGGGCCATCTATAAGACCTACGGCCAAGTTGTTGTCACATGAATTTGGAAAATGAGAAAGCTA
66 TTTGGGCCATCTATAAGACCTACGGCCAAGATGTTGTCACAT-AA-TTGG--AATGAGAAAGCTA
* * * *
2929512 TTTTCAAAGTTTCCTATTTAATGTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTC
127 TTTCCAAAGTTTCCTATTCAATGTTGTCAGAAAATGAAATTTTTGAAAAGTAAAAAAGCGATTTC
* * * *
2929577 CAAAGTTTATTACTTAGTAAGTCCTTCAGGTCATTAGTAAGCCTTCCGAGCATGATGATTAAATC
192 CAAAGTTTATTACTTAGTAAGTCATTCAGGCCATCAATAAGCCTTCCGAGCATGATGATTAAATC
*
2929642 CTTCGGGTCA-CTTTTCAGG
257 CTTCGGGTCATC-TGTCAGG
* *
2929661 CTTTCGAGCATGATGATTAAATCCTCCGGGTCATTTGTCAGGCTTCCGAGCAAGATGATAAGTCA
1 CTTCCGAGCATGATGATTAAATCCTCCGGGTCATCTGTCAGGCTTCCGAGCAAGATGATAAGTCA
* * *
2929726 TTTGGGCCATCTATAAGACCTACAGG-CAGGATGTT-T-TCAT-A-T-G-ATGAGAAAG-TGTGT
66 TTTGGGCCATCTATAAGACCTAC-GGCCAAGATGTTGTCACATAATTGGAATGAGAAAGCTAT-T
*
2929783 TCCAAAGTTT-CTCATTCAGTGTTGTCAGAAAATGAAATTTTTGAAAAGTAAAAAAGCGATTTCC
129 TCCAAAGTTTCCT-ATTCAATGTTGTCAGAAAATGAAATTTTTGAAAAGTAAAAAAGCGATTTCC
*
2929847 AAAGTTTCTTACTTAGTAAGTCATTCAGGCCATCAATAAGCCTTCCGAGCATGATGATTAAATCC
193 AAAGTTTATTACTTAGTAAGTCATTCAGGCCATCAATAAGCCTTCCGAGCATGATGATTAAATCC
2929912 TTCGGGTCATCTGTCAGG
258 TTCGGGTCATCTGTCAGG
* * *
2929930 CTTCCGAGCAAGATGA-TAAATCCTCTGGGCCATCT
1 CTTCCGAGCATGATGATTAAATCCTCCGGGTCATCT
2929965 TAAGCCTTCA
Statistics
Matches: 273, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
268 20 0.07
269 155 0.57
270 1 0.00
272 1 0.00
273 1 0.00
275 1 0.00
277 3 0.01
278 1 0.00
279 88 0.32
280 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (275 bp):
CTTCCGAGCATGATGATTAAATCCTCCGGGTCATCTGTCAGGCTTCCGAGCAAGATGATAAGTCA
TTTGGGCCATCTATAAGACCTACGGCCAAGATGTTGTCACATAATTGGAATGAGAAAGCTATTTC
CAAAGTTTCCTATTCAATGTTGTCAGAAAATGAAATTTTTGAAAAGTAAAAAAGCGATTTCCAAA
GTTTATTACTTAGTAAGTCATTCAGGCCATCAATAAGCCTTCCGAGCATGATGATTAAATCCTTC
GGGTCATCTGTCAGG
Found at i:2930018 original size:37 final size:37
Alignment explanation
Indices: 2929961--2930333 Score: 298
Period size: 37 Copynumber: 10.0 Consensus size: 37
2929951 CCTCTGGGCC
*
2929961 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
1 ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
*
2929998 ATCTCAAGCCTTCACTGAAGAGTAGTGAAGCAAATCA
1 ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
2930035 ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
1 ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
* * *
2930072 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAGTC-
1 ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
* * * * * ***
2930108 ATCAGT-AAGCCTTCGA-GCATGA-TGATTAAACCCTTTGGGTCA
1 ATC--TCAAGCCTTC-ACGGAAGAGT-AGTGAA-GC---AAATCA
* * * * *** **** *
2930150 TATGTC-AGGCTTGCA-AGATGA-TAAGT-CCTCCGGGCC
1 -ATCTCAAGCCTT-CACGGAAGAGT-AGTGAAGCAAATCA
* * * *
2930186 ATCTTAAGCCTTCACGAAAGAGTAATGAAGCAAGTCA
1 ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
2930223 ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATC-
1 ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
*
2930259 ATCTATAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
1 ATCT-CAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
2930297 ATCT-AAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
1 ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
2930333 A
1 A
2930334 GATCGAGTCT
Statistics
Matches: 273, Mismatches: 45, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
35 5 0.02
36 54 0.20
37 186 0.68
38 7 0.03
39 1 0.00
41 17 0.06
42 1 0.00
43 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (37 bp):
ATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
Found at i:2930287 original size:225 final size:226
Alignment explanation
Indices: 2929877--2930328 Score: 730
Period size: 225 Copynumber: 2.0 Consensus size: 226
2929867 TCATTCAGGC
* *
2929877 CATCAATAAGCCTTCCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGGCTTCCGAGCAAG
1 CATCAATAAGCCTTCCGAGCATGATGATTAAACCCTTCGGGTCATATGTCAGGCTT-C--GCAAG
* * *
2929942 ATGATAAATCCTCTGGGCCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATCTCAAGC
63 ATGATAAATCCTCCGGGCCATCTTAAGCCTTCACGAAAGAGTAATGAAGCAAATCAATCTCAAGC
*
2930007 CTTCACTGAAGAGTAGTGAAGCAAATCAATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
128 CTTCACGGAAGAGTAGTGAAGCAAATCAATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
*
2930072 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAGT
193 ATC-TAAGCCTTCACGGAAGAGTAGTGAAGCAAGT
* *
2930107 CATCAGTAAGCCTT-CGAGCATGATGATTAAACCCTTTGGGTCATATGTCAGGCTT-GCAAGATG
1 CATCAATAAGCCTTCCGAGCATGATGATTAAACCCTTCGGGTCATATGTCAGGCTTCGCAAGATG
* *
2930170 ATAAGTCCTCCGGGCCATCTTAAGCCTTCACGAAAGAGTAATGAAGCAAGTCAATCTCAAGCCTT
66 ATAAATCCTCCGGGCCATCTTAAGCCTTCACGAAAGAGTAATGAAGCAAATCAATCTCAAGCCTT
*
2930235 CACGGAAGAGTAGTGAAGCAAATC-ATCTATAAGCCTTCACGGAAGAGTAGTGAAGCAAATCAAT
131 CACGGAAGAGTAGTGAAGCAAATCAATCT-CAAGCCTTCACGGAAGAGTAGTGAAGCAAATCAAT
2930299 CTAAGCCTTCACGGAAGAGTAGTGAAGCAA
195 CTAAGCCTTCACGGAAGAGTAGTGAAGCAA
2930329 ATCAAGATCG
Statistics
Matches: 209, Mismatches: 12, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
224 32 0.15
225 126 0.60
229 38 0.18
230 13 0.06
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (226 bp):
CATCAATAAGCCTTCCGAGCATGATGATTAAACCCTTCGGGTCATATGTCAGGCTTCGCAAGATG
ATAAATCCTCCGGGCCATCTTAAGCCTTCACGAAAGAGTAATGAAGCAAATCAATCTCAAGCCTT
CACGGAAGAGTAGTGAAGCAAATCAATCTCAAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATC
TAAGCCTTCACGGAAGAGTAGTGAAGCAAGT
Found at i:2930681 original size:26 final size:26
Alignment explanation
Indices: 2930652--2930791 Score: 151
Period size: 26 Copynumber: 5.4 Consensus size: 26
2930642 TTAATTATTA
2930652 ATAATATATAGTTTTTAGGAAAATAT
1 ATAATATATAGTTTTTAGGAAAATAT
* * *
2930678 ATAATATATTGTGTTTA-G-TAATAT
1 ATAATATATAGTTTTTAGGAAAATAT
* * *
2930702 ATAGTATATAATTTTTAGAAAAATAT
1 ATAATATATAGTTTTTAGGAAAATAT
* *
2930728 ATTACATATAGTTTTTA-GAAAATAT
1 ATAATATATAGTTTTTAGGAAAATAT
*
2930753 ATATAGTATATAGTTTTTAGGAATATAT
1 ATA-A-TATATAGTTTTTAGGAAAATAT
2930781 ATATATATATA
1 ATA-ATATATA
2930792 TATATATATA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
24 18 0.20
25 10 0.11
26 34 0.37
27 18 0.20
28 12 0.13
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.45
Consensus pattern (26 bp):
ATAATATATAGTTTTTAGGAAAATAT
Found at i:2930718 original size:24 final size:23
Alignment explanation
Indices: 2930655--2930828 Score: 129
Period size: 26 Copynumber: 7.2 Consensus size: 23
2930645 ATTATTAATA
2930655 ATATATAGTTTTTAGGAAAATATAT
1 ATATATAGTTTTTA-G-AAATATAT
* * *
2930680 AATATATTGTGTTTAGTAATATAT
1 -ATATATAGTTTTTAGAAATATAT
*
2930704 AGTATATAATTTTTAGAAAAATATATT
1 A-TATATAGTTTTTAG--AAATATA-T
*
2930731 ACATATAGTTTTTAGAAAATATATAT
1 ATATATAGTTTTTAG--AA-ATATAT
*
2930757 AGTATATAGTTTTTAGGAATATAT
1 A-TATATAGTTTTTAGAAATATAT
* * *
2930781 ATATATA---TATATATATATAT
1 ATATATAGTTTTTAGAAATATAT
*
2930801 ATATATAGTTTTTAGAAAAATAT
1 ATATATAGTTTTTAGAAATATAT
*
2930824 TTATA
1 ATATA
2930829 GAATATAGTA
Statistics
Matches: 119, Mismatches: 20, Indels: 21
0.74 0.12 0.13
Matches are distributed among these distances:
20 16 0.13
23 20 0.17
24 25 0.21
25 2 0.02
26 36 0.30
27 20 0.17
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (23 bp):
ATATATAGTTTTTAGAAATATAT
Found at i:2930725 original size:50 final size:52
Alignment explanation
Indices: 2930656--2930791 Score: 168
Period size: 50 Copynumber: 2.6 Consensus size: 52
2930646 TTATTAATAA
* *
2930656 TATATAGTTTTTAGGAAAATATATAATATATTGTGTTTAG-TA-ATATATAG
1 TATATAGTTTTTAGGAAAATATATAATATATAGTGTTTAGAAATATATATAG
* * * * *
2930706 TATATAATTTTTAGAAAAATATATTACATATAGTTTTTAGAAAATATATATAG
1 TATATAGTTTTTAGGAAAATATATAATATATAGTGTTTAG-AAATATATATAG
*
2930759 TATATAGTTTTTAGGAATATATATATATATATA
1 TATATAGTTTTTAGGAAAATATATA-ATATATA
2930792 TATATATATA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 34 0.49
52 1 0.01
53 29 0.41
54 6 0.09
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (52 bp):
TATATAGTTTTTAGGAAAATATATAATATATAGTGTTTAGAAATATATATAG
Found at i:2930780 original size:2 final size:2
Alignment explanation
Indices: 2930775--2930807 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2930765 GTTTTTAGGA
2930775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2930808 GTTTTTAGAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2930808 original size:50 final size:48
Alignment explanation
Indices: 2930656--2930823 Score: 157
Period size: 50 Copynumber: 3.5 Consensus size: 48
2930646 TTATTAATAA
* * *
2930656 TATATAGTTTTTAGGAAAATATATAATATATTGTGTTTAGTAATATATAG
1 TATATAGTTTTTAGGAAAATATATAATATATTATATATA-T-ATATATAG
* * * * *
2930706 TATATAATTTTTAGAAAAATATATTACATATAGTTTTTAGAAAATATATATAG
1 TATATAGTTTTTAGGAAAATATA-TA-ATATA--TTATA-TATATATATATAG
2930759 TATATAGTTTTTAGG--AATATAT-ATATA-TATATATATATATATA-
1 TATATAGTTTTTAGGAAAATATATAATATATTATATATATATATATAG
*
2930802 TATATAGTTTTTAGAAAAATAT
1 TATATAGTTTTTAGGAAAATAT
2930824 TTATAGAATA
Statistics
Matches: 98, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
43 14 0.14
44 10 0.10
45 8 0.08
48 5 0.05
50 22 0.22
51 8 0.08
52 5 0.05
53 21 0.21
54 4 0.04
55 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.46
Consensus pattern (48 bp):
TATATAGTTTTTAGGAAAATATATAATATATTATATATATATATATAG
Found at i:2930812 original size:70 final size:68
Alignment explanation
Indices: 2930723--2930865 Score: 198
Period size: 70 Copynumber: 2.1 Consensus size: 68
2930713 TTTTTAGAAA
* *
2930723 AATATATTACATATAGTTTTTAG-AAAATATATATAGTATATAGTTTTTAGGAATATATATATAT
1 AATATATTACATATAGTTTTTAGAAAAATATATATAGAATATAGTATTTA-GAATATATATATAT
2930787 ATAT
65 ATAT
* * * *
2930791 ATATATATATATATATAGTTTTTAGAAAAATATTTATAGAATATAGTATTTAGAATGTATGTATA
1 A-ATATAT-TACATATAGTTTTTAGAAAAATATATATAGAATATAGTATTTAGAATATATATATA
2930856 TATAT
64 TATAT
2930861 AATAT
1 AATAT
2930866 GGGTTTTGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
68 1 0.02
69 10 0.15
70 32 0.48
71 23 0.35
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (68 bp):
AATATATTACATATAGTTTTTAGAAAAATATATATAGAATATAGTATTTAGAATATATATATATA
TAT
Found at i:2943478 original size:43 final size:43
Alignment explanation
Indices: 2943439--2943595 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 43
2943429 CAAAAAATGA
**
2943439 TGCAATAGGTGTTGCTATTTAGCGGCGTTTCTCTTAAAAACGC
1 TGCAATAGGTGTTGCTATTTAGCGGCGTTTCTCCCAAAAACGC
* * * *
2943482 CGCAATAGGTGTTGTTATTTAGCGGCGTTTTTCCCACAAACGC
1 TGCAATAGGTGTTGCTATTTAGCGGCGTTTCTCCCAAAAACGC
* * * * ** **
2943525 TGCATTATGTGTTGCTATTTAGCGGCATTTTTATCGCAAACGC
1 TGCAATAGGTGTTGCTATTTAGCGGCGTTTCTCCCAAAAACGC
* * * *
2943568 CGTAATAGGTGTTGATATTTCGCGGCGT
1 TGCAATAGGTGTTGCTATTTAGCGGCGT
2943596 GTTTTCATAC
Statistics
Matches: 93, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 93 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (43 bp):
TGCAATAGGTGTTGCTATTTAGCGGCGTTTCTCCCAAAAACGC
Found at i:2944053 original size:21 final size:21
Alignment explanation
Indices: 2944029--2944088 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
2944019 ATATGTTGCT
2944029 TCTCTCTGTGCTACCGCTGCC
1 TCTCTCTGTGCTACCGCTGCC
* * ** *
2944050 TCTCTTTGTGCTGCCAATGCT
1 TCTCTCTGTGCTACCGCTGCC
* *
2944071 TCTCTCTCTGCTTCCGCT
1 TCTCTCTGTGCTACCGCT
2944089 ACTGCTCTGG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.05, C:0.38, G:0.17, T:0.40
Consensus pattern (21 bp):
TCTCTCTGTGCTACCGCTGCC
Found at i:2947924 original size:40 final size:41
Alignment explanation
Indices: 2947869--2947967 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 41
2947859 GTTTGTGCTT
* *
2947869 AAAATGCCACGAAAGTACGACCT-TTTA-CAGCGTTT-TGATA
1 AAAACGCCACTAAAGTACGA-CTATTTATCAGCGTTTAT-ATA
* * *
2947909 AAAACGCCACTAAAGTTC-AGTATTTATCAGCGTTTATATC
1 AAAACGCCACTAAAGTACGACTATTTATCAGCGTTTATATA
*
2947949 AAAACGCCACTACAGTACG
1 AAAACGCCACTAAAGTACG
2947968 TGTAATTCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
38 1 0.02
39 5 0.10
40 41 0.85
41 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (41 bp):
AAAACGCCACTAAAGTACGACTATTTATCAGCGTTTATATA
Found at i:2956163 original size:30 final size:29
Alignment explanation
Indices: 2956127--2956215 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
2956117 TAAAATATAT
*
2956127 AACTTTTAAAAATTATAATTTTGGTCCCTA
1 AACTTTTAAAAATTATAA-TTTAGTCCCTA
* * *
2956157 AACTTTTCAAAATTTATACTCTAG-CCACTA
1 AACTTTT-AAAAATTATAATTTAGTCC-CTA
*
2956187 AACTTTTAAAACTTATAATTTAGTCCCTA
1 AACTTTTAAAAATTATAATTTAGTCCCTA
2956216 GACAAAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
29 18 0.37
30 22 0.45
31 9 0.18
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.40
Consensus pattern (29 bp):
AACTTTTAAAAATTATAATTTAGTCCCTA
Found at i:2964439 original size:23 final size:23
Alignment explanation
Indices: 2964413--2964473 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
2964403 CTCGTATAAA
* *
2964413 TGCACCAAAGTTCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
2964436 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
2964459 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
2964474 TATAAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:2966007 original size:24 final size:24
Alignment explanation
Indices: 2965953--2966034 Score: 102
Period size: 24 Copynumber: 3.6 Consensus size: 24
2965943 AACAAAGGTA
2965953 TGCATCGATGCACT-C-T-ACAGTG
1 TGCATCGATGCACTCCTTAAC-GTG
* *
2965975 T--ATCTATGCATTCCTTAACGTG
1 TGCATCGATGCACTCCTTAACGTG
2965997 TGCATCGATGCACTCCTTAACGTG
1 TGCATCGATGCACTCCTTAACGTG
2966021 TGCATCGATGCACT
1 TGCATCGATGCACT
2966035 ACCTGTGCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
20 9 0.18
21 1 0.02
22 6 0.12
23 2 0.04
24 33 0.65
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (24 bp):
TGCATCGATGCACTCCTTAACGTG
Found at i:2966171 original size:21 final size:21
Alignment explanation
Indices: 2966141--2966181 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2966131 GTTCATTTAT
2966141 TTGAAAGTGCATCGATACACA
1 TTGAAAGTGCATCGATACACA
*
2966162 TTGAATGTGCATCGATACAC
1 TTGAAAGTGCATCGATACAC
2966182 TTTGCCCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (21 bp):
TTGAAAGTGCATCGATACACA
Found at i:2969714 original size:23 final size:23
Alignment explanation
Indices: 2969688--2969732 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2969678 CACCACAGCT
*
2969688 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
*
2969711 CGTAGAATTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2969733 ATATAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:2973056 original size:20 final size:20
Alignment explanation
Indices: 2973028--2973065 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2973018 TAGGTTTAAG
*
2973028 TATCAATACTAGATGAACCA
1 TATCAATACTAGACGAACCA
*
2973048 TATCGATACTAGACGAAC
1 TATCAATACTAGACGAAC
2973066 TAGGATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (20 bp):
TATCAATACTAGACGAACCA
Found at i:2973122 original size:21 final size:20
Alignment explanation
Indices: 2973088--2973129 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
2973078 TGGGTATTTC
*
2973088 ATAAGGGTAGTATCAATAAT
1 ATAAGGGAAGTATCAATAAT
2973108 ATAAGGAGAAGTATCAATAAT
1 ATAAGG-GAAGTATCAATAAT
2973129 A
1 A
2973130 CATGACCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (20 bp):
ATAAGGGAAGTATCAATAAT
Found at i:2976371 original size:40 final size:40
Alignment explanation
Indices: 2976316--2976394 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
2976306 AAGTTTATAG
2976316 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
2976356 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTA
2976395 GCACTACGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (40 bp):
TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
Found at i:2976547 original size:44 final size:45
Alignment explanation
Indices: 2976499--2976758 Score: 366
Period size: 44 Copynumber: 5.8 Consensus size: 45
2976489 GTAAACATGC
*
2976499 AAATAAGCTTATGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
2976543 AAATAAGCTTACAAGCTTATGAAAT-AATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
2976587 AAATAAGCTTACGAGCTTATGAAATTAAATGGTTAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAA-TAAATGGTAAGTATATTGGTA
2976633 AAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
2976677 AAATAAGCTTACGATCTTATGGAATTAAATGGTAAATATTTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA-TAAATGGTAAGTA-TATTGGTA
*
2976724 AAATAAGCTTATGAGCTTAT-GAGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGA-ATAAATGGTAAG
2976759 AGATTTTATA
Statistics
Matches: 195, Mismatches: 15, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
44 104 0.53
45 3 0.02
46 62 0.32
47 26 0.13
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.33
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:2976650 original size:90 final size:90
Alignment explanation
Indices: 2976499--2976758 Score: 389
Period size: 90 Copynumber: 2.9 Consensus size: 90
2976489 GTAAACATGC
* *
2976499 AAATAAGCTTATGAGCTTATGGAA-T-AATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTA
2976562 TGAAATAATGGTAAGTATATTGGTA
66 TGAAATAATGGTAAGTATATTGGTA
* * *
2976587 AAATAAGCTTACGAGCTTATGAAATTAAATGGTTAGTATATTGATAAAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTA
*
2976652 TGGAATAATGGTAAGTATATTGGTA
66 TGAAATAATGGTAAGTATATTGGTA
* * * *
2976677 AAATAAGCTTACGATCTTATGGAATTAAATGGTAAATATTTTTGGTAAAATAAGCTTATGAGCTT
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTA-TATTGGTAAAATAAGCTTACGAGCTT
*
2976742 ATGAGATAAATGGTAAG
65 ATGAAAT-AATGGTAAG
2976759 AGATTTTATA
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
88 22 0.14
89 1 0.01
90 93 0.61
91 28 0.18
92 9 0.06
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.33
Consensus pattern (90 bp):
AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTA
TGAAATAATGGTAAGTATATTGGTA
Found at i:2981702 original size:6 final size:6
Alignment explanation
Indices: 2981691--2981995 Score: 295
Period size: 6 Copynumber: 50.8 Consensus size: 6
2981681 AGCTTATTTA
2981691 TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG
1 TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG
* * * * * * * *
2981739 TAAAGG TAAAGG TAAAGG TAAAGG TAAAGG TAAAGG TAAAGG TAAAGG
1 TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG
* * * * * * * *
2981787 TAAAGG TAAAGG TAAAGG TAAAGG TAAAGG TAAAGG TAAAGG TAAAGG
1 TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG
* * * * * * *
2981835 TAAAGG TAAAGG TAAAGG TAAAGG TAAAAG GAAAAG GAAAAG GAAAAG
1 TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG
* * * *
2981883 GAAAAG GAAAAG GAAAAG GAAAAG TAAAAG TAAAAG TAAAAG TAAAAG
1 TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG
* * * * * * * *
2981931 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG
1 TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG TAAAAG
2981979 TAAAAG TAAAAG TAAAA
1 TAAAAG TAAAAG TAAAA
2981996 ATAGTAATAA
Statistics
Matches: 293, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 293 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (6 bp):
TAAAAG
Found at i:2982013 original size:3 final size:3
Alignment explanation
Indices: 2981995--2982080 Score: 59
Period size: 3 Copynumber: 28.7 Consensus size: 3
2981985 TAAAAGTAAA
* * * * *
2981995 AAT AGT AAT AAAT AAT AAT AAT ATT AAT AA- ATAT AAC ATT ATT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * *
2982041 AAT AAT AAT -AT AAT ATT AAT AAT AAC ATT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2982081 CAATTGTAAA
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
2 3 0.05
3 56 0.89
4 4 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:2983998 original size:19 final size:19
Alignment explanation
Indices: 2983959--2983995 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
2983949 AACGTTTCTC
*
2983959 CTTTTTTCTTTTGTGTTTT
1 CTTTTTTCTTTTGGGTTTT
2983978 CTTTTTT-TTTTGGGTTTT
1 CTTTTTTCTTTTGGGTTTT
2983996 TCTACGCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.00, C:0.08, G:0.14, T:0.78
Consensus pattern (19 bp):
CTTTTTTCTTTTGGGTTTT
Found at i:2984628 original size:3 final size:3
Alignment explanation
Indices: 2984622--2984676 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
2984612 TCTGTAAAAA
* * *
2984622 AAT AAT AA- AAA AAT ATT AAT -AT AAT AAT ATT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2984668 AAT AAT AAT
1 AAT AAT AAT
2984677 TAAAACTCGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:2985486 original size:104 final size:104
Alignment explanation
Indices: 2985247--2985487 Score: 263
Period size: 104 Copynumber: 2.3 Consensus size: 104
2985237 TGTTTGTTGA
* * * * * * *
2985247 AGATGACATTGTTCTTTCTC-TATGAGAAAGTCGGGTCGA-TCTGGAAATGATTTGGTGTTAAAG
1 AGATGACATTGTTCCTTCTCGT-TGAGAAAGTTGAGTCAAGT-TAGAGATAATTTGGTGTTAAAG
* * *
2985310 ACGAAACTGCTCATCCATGTTGAAGAGTCCTGGCCGCTTTC
64 ACGAAACTGCTCATCCATGTTGAAAAATCCTAGCCGCTTTC
* * * *
2985351 AGATGACATTGTTCCTTCTTGTTTAGGAAGTTGAGTCAAGTTAGAGATAATTTGGTGTTGAAGAC
1 AGATGACATTGTTCCTTCTCGTTGAGAAAGTTGAGTCAAGTTAGAGATAATTTGGTGTTAAAGAC
* *
2985416 GACACTGCTCATCCATGTTGAAAAATTCTAGCCGCTTTC
66 GAAACTGCTCATCCATGTTGAAAAATCCTAGCCGCTTTC
* **
2985455 ATATGATGTTGTT-CTTCCTCGTTGAGAAAGTTG
1 AGATGACATTGTTCCTT-CTCGTTGAGAAAGTTG
2985488 GGCAATCTGG
Statistics
Matches: 112, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
103 3 0.03
104 107 0.96
105 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (104 bp):
AGATGACATTGTTCCTTCTCGTTGAGAAAGTTGAGTCAAGTTAGAGATAATTTGGTGTTAAAGAC
GAAACTGCTCATCCATGTTGAAAAATCCTAGCCGCTTTC
Found at i:2985772 original size:137 final size:137
Alignment explanation
Indices: 2985517--2985773 Score: 329
Period size: 137 Copynumber: 1.9 Consensus size: 137
2985507 AAATAACATA
* * * *
2985517 GTTCCTTCATATTGAATAGGTCTGATTGTCTGAGGATGACACTGCTCCTTCGCGTTGAGGAGATC
1 GTTCCTTCATATTGAAGAAGTCTGATTGTCTGAGAATGACACTGCTCCTTCGCGTTGAGGAGATA
* ** * * *
2985582 TGGTCAGTGGATAACATCGTTCCTTCGTGTTGAAGATACCTAGACGTATTTTGATAAATTGGATA
66 TAGTCAGTGGATAACATCGTTCCTTCACGTTGAAGAGACCTAAACGTAATTTGATAAATTGGATA
2985647 CAACACG
131 CAACACG
* *
2985654 GTTCCTTCATGTTGAGGAAGTCTGATTGTCTGAGAATGACACTGCTCCTTCGCGTTGAGGAGATA
1 GTTCCTTCATATTGAAGAAGTCTGATTGTCTGAGAATGACACTGCTCCTTCGCGTTGAGGAGATA
** * * *
2985719 TAGTTGGTGGATGACATTGTTCCTTCACGTT-AAG-GACGTATAACCGTAATTTGAT
66 TAGTCAGTGGATAACATCGTTCCTTCACGTTGAAGAGACCTA-AA-CGTAATTTGAT
2985774 GGTTTGATTC
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
135 4 0.04
136 4 0.04
137 93 0.92
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (137 bp):
GTTCCTTCATATTGAAGAAGTCTGATTGTCTGAGAATGACACTGCTCCTTCGCGTTGAGGAGATA
TAGTCAGTGGATAACATCGTTCCTTCACGTTGAAGAGACCTAAACGTAATTTGATAAATTGGATA
CAACACG
Found at i:2986329 original size:65 final size:64
Alignment explanation
Indices: 2986224--2986412 Score: 182
Period size: 65 Copynumber: 2.9 Consensus size: 64
2986214 CGAGATGAAA
* * * * * * * *
2986224 TTTGTTTTTAGGAAAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTGGAACAATTTCAAA-AT
1 TTTG-TTTCAGGAAAACTATCTCAAGCGAGA-AAAATTTGTTTCAAGAGAAACAATCTCAAAGAT
2986288 T
64 T
* * *
2986289 TTTGTTTCGAGGAAAATTATCTCAAGCGAGAAGAAATTTGTTTCGAGAGAAACAATCTCAAAGGT
1 TTTGTTTC-AGGAAAACTATCTCAAGCGAGAA-AAATTTGTTTCAAGAGAAACAATCTCAAAGAT
2986354 T
64 T
* * * *
2986355 TATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACTATCT
1 TTTGTTTCAGGA-AAACTATCTCAAGCGAGA-AAAATTTGTTTCAAGAGAAACAATCT
2986413 TAAGGGAGAC
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
64 3 0.03
65 50 0.49
66 48 0.47
67 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (64 bp):
TTTGTTTCAGGAAAACTATCTCAAGCGAGAAAAATTTGTTTCAAGAGAAACAATCTCAAAGATT
Found at i:2986342 original size:101 final size:103
Alignment explanation
Indices: 2986115--2986349 Score: 298
Period size: 101 Copynumber: 2.3 Consensus size: 103
2986105 AATGAGTGGA
* * * *
2986115 AAGAAATTTGTTTCAAGAGAAGCTATCTCAGGTGAGATAAAATTTTGCTTCGAGGGAAACAATTT
1 AAGAAATTTGTTTCAAGAGAAACAATCTCAAGTGAGATAAAATTTTGCTTCAAGGGAAACAATTT
*
2986180 CAAAATTTGTGTTTCAAGGGTAAACTATCTCAAGCGAG
66 CAAAATTTGTGTTTCAAGGGAAAACTATCTCAAGCGAG
* ** * *
2986218 ATGAAATTTGTTTTTAG-GAAAACAATCTCAAGTGAGAT-CAATTTTGTTTCAAGTGG-AACAAT
1 AAGAAATTTGTTTCAAGAG-AAACAATCTCAAGTGAGATAAAATTTTGCTTCAAG-GGAAACAAT
* * *
2986280 TTCAAAATTTTTGTTTCGA-GGAAAATTATCTCAAGCGAG
64 TTCAAAATTTGTGTTTCAAGGGAAAACTATCTCAAGCGAG
*
2986319 AAGAAATTTGTTTCGAGAGAAACAATCTCAA
1 AAGAAATTTGTTTCAAGAGAAACAATCTCAA
2986350 AGGTTTATGT
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
101 44 0.39
102 37 0.33
103 32 0.28
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (103 bp):
AAGAAATTTGTTTCAAGAGAAACAATCTCAAGTGAGATAAAATTTTGCTTCAAGGGAAACAATTT
CAAAATTTGTGTTTCAAGGGAAAACTATCTCAAGCGAG
Found at i:2986404 original size:36 final size:36
Alignment explanation
Indices: 2986357--2986425 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
2986347 CAAAGGTTTA
*
2986357 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
* *
2986393 TGTTTCAAGAGAAACTATCTTAAGGGAGACAAA
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAA
2986426 CAATCTAGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
Found at i:2988856 original size:15 final size:15
Alignment explanation
Indices: 2988836--2988879 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
2988826 TTTGTTCTTT
2988836 TTTTCTTTTTTTCTC
1 TTTTCTTTTTTTCTC
2988851 TTTTCTTATTTTTCTC
1 TTTTCTT-TTTTTCTC
*
2988867 TTAT-TTTTTTTCT
1 TTTTCTTTTTTTCT
2988880 TTTATGCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.26
15 9 0.33
16 11 0.41
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTTTCTC
Found at i:2988878 original size:14 final size:15
Alignment explanation
Indices: 2988839--2988884 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
2988829 GTTCTTTTTT
*
2988839 TCTTTTTTTCTCTTT
1 TCTTTTTTTCTCTTA
2988854 TCTTATTTTTCTCTTA
1 TCTT-TTTTTCTCTTA
*
2988870 T-TTTTTTTCTTTTA
1 TCTTTTTTTCTCTTA
2988884 T
1 T
2988885 GCTTCTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 11 0.39
15 6 0.21
16 11 0.39
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (15 bp):
TCTTTTTTTCTCTTA
Found at i:2991017 original size:16 final size:17
Alignment explanation
Indices: 2990985--2991017 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2990975 AATAGAAATC
*
2990985 CTACCCAGACATTCTTT
1 CTACCCAGACATGCTTT
2991002 CTACCC-GACATGCTTT
1 CTACCCAGACATGCTTT
2991018 ATTTTCAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.36, G:0.09, T:0.33
Consensus pattern (17 bp):
CTACCCAGACATGCTTT
Found at i:2993708 original size:12 final size:12
Alignment explanation
Indices: 2993691--2993724 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
2993681 TTTCCTCCTT
2993691 TTTTCTTTTCGA
1 TTTTCTTTTCGA
2993703 TTTTCTTTTCGA
1 TTTTCTTTTCGA
2993715 TTTTCTTTTC
1 TTTTCTTTTC
2993725 TTTCAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.71
Consensus pattern (12 bp):
TTTTCTTTTCGA
Found at i:2994118 original size:18 final size:18
Alignment explanation
Indices: 2994097--2994219 Score: 79
Period size: 18 Copynumber: 6.6 Consensus size: 18
2994087 TAGTAATAGC
*
2994097 ATTAATAATGATAATATT
1 ATTAATAATAATAATATT
* *
2994115 ATTAATAATGATAGTATAAT
1 ATTAATAATAATA--ATATT
*
2994135 ATAACATAA-AATAATATT
1 ATTA-ATAATAATAATATT
* * *
2994153 ATTAATAACACTAAGATT
1 ATTAATAATAATAATATT
*
2994171 AATTAATAATAATAATAAT
1 -ATTAATAATAATAATATT
* *
2994190 AGTGCTAAT-ATAATAACAAT
1 A-T--TAATAATAATAATATT
2994210 ATTAATAATA
1 ATTAATAATA
2994220 TCACTAAGAT
Statistics
Matches: 84, Mismatches: 12, Indels: 18
0.74 0.11 0.16
Matches are distributed among these distances:
17 8 0.10
18 31 0.37
19 16 0.19
20 21 0.25
21 8 0.10
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (18 bp):
ATTAATAATAATAATATT
Found at i:2994226 original size:29 final size:29
Alignment explanation
Indices: 2994147--2994234 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
2994137 AACATAAAAT
* * *
2994147 AATATTATTAATAACACTAAGATTAATTAAT
1 AATATTAATAATATCACTAAGA-TAA-TAAC
* * *
2994178 AATAATAATAATAGT-GCTAATATAATAAC
1 AATATTAATAATA-TCACTAAGATAATAAC
2994207 AATATTAATAATATCACTAAGATAATAA
1 AATATTAATAATATCACTAAGATAATAA
2994235 TTATTAATAG
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.02
29 26 0.57
30 3 0.07
31 16 0.35
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (29 bp):
AATATTAATAATATCACTAAGATAATAAC
Found at i:2994634 original size:116 final size:109
Alignment explanation
Indices: 2994411--2994694 Score: 288
Period size: 116 Copynumber: 2.5 Consensus size: 109
2994401 TTTCACTCTT
* * *
2994411 CTTTA-GACGAGTTCTTCTCGTTATGAACTCTTTTAGAAATGTTGATCCACCTCCTTCTACGATG
1 CTTTAGGACAAGTTCTTCTCATTATGAACTCTTTT-TAAATGTTGATCCACCTCCTTCTACGATG
* * * * *
2994475 GATTTGAACGGAATCAAATAAGTTCTTTACATTATGAACTTTTT-
65 AATCTGAAAGGAACCAAATAAGTTCTTTACATTATGAAATTTTTG
* * * * *
2994519 CTCCTTGGGGCAAGTTCTTCTCATTATGAAATCTTTTTAAATGTCGATCCACCTCTTTCTCATTC
1 CT--TTAGGACAAGTTCTTCTCATTATGAACTCTTTTTAAATGTTGATCCACCTCCTTCT-A--C
*
2994584 TGTGATGAATCTGAAAGGAACCGAATAAGTTC-TTATCATTATGAAATTTTTG
61 ---GATGAATCTGAAAGGAACCAAATAAGTTCTTTA-CATTATGAAATTTTTG
* *
2994636 CTTTAGGACGAGTTCTTCTCATTATGAACTC-TTTTAGGAATGTTGATCCACCTTCTTCT
1 CTTTAGGACAAGTTCTTCTCATTATGAACTCTTTTTA--AATGTTGATCCACCTCCTTCT
2994695 GTGATGGATT
Statistics
Matches: 142, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
108 2 0.01
110 22 0.15
111 26 0.18
113 1 0.01
114 5 0.04
115 28 0.20
116 56 0.39
117 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (109 bp):
CTTTAGGACAAGTTCTTCTCATTATGAACTCTTTTTAAATGTTGATCCACCTCCTTCTACGATGA
ATCTGAAAGGAACCAAATAAGTTCTTTACATTATGAAATTTTTG
Found at i:2994809 original size:106 final size:105
Alignment explanation
Indices: 2994411--2994810 Score: 254
Period size: 106 Copynumber: 3.7 Consensus size: 105
2994401 TTTCACTCTT
* * * * * *
2994411 CTTTA-GACGAGTTCTTCTCGTTATGAACTCTTTTAGAAATGTTGATCCACCTCCTTCTACGATG
1 CTTTAGGACGAGTTCTTCTCATTATGAACCCTTTTAGGAATATTGATCCACCTCCTACTATGATG
* * *
2994475 GATTTGAACGGAATCAAATAAGTTCTT-TACATTATGAACTTTTTCTC
66 GATTTG-A---AAT-GAGTAAGTTCTTAT-CATTATGAA--ATTTCTC
* * * * * * *
2994522 C-TTGGGGCAAGTTCTTCTCATTATGAAATCTTTTTA--AATGTCGATCCACCTCTTTCTCATTC
1 CTTTAGGACGAGTTCTTCTCATTATG-AACCCTTTTAGGAATATTGATCCACCTC---CT-A--C
* * * * * *
2994584 TGTGATGAATCTGAAAGGAACCGAATAAGTTCTTATCATTATGAAATTTTTG
59 TATGATGGATTTGAAATG-A--G--TAAGTTCTTATCATTATGAAATTTCTC
* * * * *
2994636 CTTTAGGACGAGTTCTTCTCATTATGAACTCTTTTAGGAATGTTGATCCACCTTCTTCTGTGATG
1 CTTTAGGACGAGTTCTTCTCATTATGAACCCTTTTAGGAATATTGATCCACCTCCTACTATGATG
* * *
2994701 GATTTGAAATGAGTAAGTTCTTCTCATTATTAACTTTCTC
66 GATTTGAAATGAGTAAGTTCTTATCATTATGAAATTTCTC
* * * *
2994741 CTTTTGTGGCGAGTTCTTCTCATTATGAACCCTTTT-GGAAATATTGATCTACCTCCTACTATGG
1 CTTTAG-GACGAGTTCTTCTCATTATGAACCCTTTTAGG-AATATTGATCCACCTCCTACTATGA
2994805 TGGATT
64 TGGATT
2994811 AAAGTTATTA
Statistics
Matches: 225, Mismatches: 45, Indels: 43
0.72 0.14 0.14
Matches are distributed among these distances:
105 29 0.13
106 52 0.23
107 1 0.00
109 1 0.00
110 33 0.15
111 18 0.08
112 10 0.04
113 4 0.02
114 12 0.05
115 22 0.10
116 42 0.19
117 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (105 bp):
CTTTAGGACGAGTTCTTCTCATTATGAACCCTTTTAGGAATATTGATCCACCTCCTACTATGATG
GATTTGAAATGAGTAAGTTCTTATCATTATGAAATTTCTC
Found at i:2995788 original size:29 final size:28
Alignment explanation
Indices: 2995740--2995796 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2995730 CTTGAACCCC
*
2995740 TTTTTTCAATTTCTCATTTTTCTTTTCT
1 TTTTTTCAATTTCTCATTTTTCTATTCT
*
2995768 TTTTTTC-ATTTTTCATTTTTTTCTATTCT
1 TTTTTTCAATTTCTCA--TTTTTCTATTCT
2995797 CAGGTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.28
28 7 0.28
29 11 0.44
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTTTTCAATTTCTCATTTTTCTATTCT
Found at i:3000729 original size:21 final size:21
Alignment explanation
Indices: 3000703--3000751 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
3000693 TTCAGTTACT
3000703 GGCTCATTAATTGTTGGTGAG
1 GGCTCATTAATTGTTGGTGAG
3000724 GGCTCATTAATTGTTGGTGAG
1 GGCTCATTAATTGTTGGTGAG
3000745 GGCTCAT
1 GGCTCAT
3000752 CATTAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.37
Consensus pattern (21 bp):
GGCTCATTAATTGTTGGTGAG
Found at i:3004026 original size:31 final size:31
Alignment explanation
Indices: 3003945--3004033 Score: 115
Period size: 31 Copynumber: 2.9 Consensus size: 31
3003935 TAAGGGAGCA
* *
3003945 TCTTGGGGCCTGAGAGCCTACCCTAGAAAGT
1 TCTTGGGGCCTCAGAGCCTACCCAAGAAAGT
** * * *
3003976 TCTCAGGACCTCGGGGCCTACCCAAGAAAGT
1 TCTTGGGGCCTCAGAGCCTACCCAAGAAAGT
3004007 TCTTGGGGCCTCAGAGCCTACCCAAGA
1 TCTTGGGGCCTCAGAGCCTACCCAAGA
3004034 GTTGGCTTGG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (31 bp):
TCTTGGGGCCTCAGAGCCTACCCAAGAAAGT
Found at i:3008176 original size:27 final size:27
Alignment explanation
Indices: 3008118--3008186 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
3008108 CAACTAAAGC
* * *
3008118 GTATTTTCGTAATTTTACCCCATAAGG
1 GTATTTTCATAATTTTACCCAATAAGA
3008145 GTATTTTCATAATTTTACCCAATCAA-A
1 GTATTTTCATAATTTTACCCAAT-AAGA
*
3008172 TTATTTTCATAATTT
1 GTATTTTCATAATTT
3008187 ATCATCCAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.46
Consensus pattern (27 bp):
GTATTTTCATAATTTTACCCAATAAGA
Found at i:3008758 original size:14 final size:15
Alignment explanation
Indices: 3008739--3008801 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 15
3008729 GGTCAACGGG
*
3008739 TGACTCAGACAG-GT
1 TGACTCAGACTGAGT
3008753 TGACTCAGA-TGAGT
1 TGACTCAGACTGAGT
* ** *
3008767 TAACTCA-AAGGGGT
1 TGACTCAGACTGAGT
3008781 TGACTCAGACTGAGT
1 TGACTCAGACTGAGT
3008796 TGACTC
1 TGACTC
3008802 GATTAGGTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
13 2 0.05
14 26 0.68
15 10 0.26
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (15 bp):
TGACTCAGACTGAGT
Found at i:3008773 original size:28 final size:29
Alignment explanation
Indices: 3008741--3008801 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
3008731 TCAACGGGTG
*
3008741 ACTCAGACAGGTTGACTCAGA-TGAGTTA
1 ACTCAAACAGGTTGACTCAGACTGAGTTA
** *
3008769 ACTCAAAGGGGTTGACTCAGACTGAGTTG
1 ACTCAAACAGGTTGACTCAGACTGAGTTA
3008798 ACTC
1 ACTC
3008802 GATTAGGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (29 bp):
ACTCAAACAGGTTGACTCAGACTGAGTTA
Found at i:3012877 original size:25 final size:25
Alignment explanation
Indices: 3012849--3012904 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
3012839 ACATAATAAT
* **
3012849 TATTATTAAAATATCCCTAGTTGAG
1 TATTATTAAAAGATCCCTAGTCAAG
3012874 TATTATTAAAAGATCCCTAGTCAAG
1 TATTATTAAAAGATCCCTAGTCAAG
3012899 TATTAT
1 TATTAT
3012905 AATGGGAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (25 bp):
TATTATTAAAAGATCCCTAGTCAAG
Found at i:3019315 original size:3 final size:3
Alignment explanation
Indices: 3019307--3019361 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
3019297 TCCAGTCTTT
* * *
3019307 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA CTA TTA TGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3019355 TTA TTA T
1 TTA TTA T
3019362 AACAATTACA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3024560 original size:108 final size:108
Alignment explanation
Indices: 3024371--3024569 Score: 344
Period size: 108 Copynumber: 1.8 Consensus size: 108
3024361 AGGATAAGAG
*
3024371 GCACTAGCAGCACTGACATTGAGGAAAGAGCTGAGATTAACATAATAGGATCTTATCTAGCTAAT
1 GCACTAGCAGCACTGACATTGAGGAAAGAACTGAGATTAACATAATAGGATCTTATCTAGCTAAT
* *
3024436 TAGGGGACCAACCTCATAAGGTGTTCCGTGAAAAGAATCACAT
66 TAGAGGACAAACCTCATAAGGTGTTCCGTGAAAAGAATCACAT
* * *
3024479 GCACTAGCAGTACTGACATTGAGGAAAGAACTGAGATTAATATAATGGGATCTTATCTAGCTAAT
1 GCACTAGCAGCACTGACATTGAGGAAAGAACTGAGATTAACATAATAGGATCTTATCTAGCTAAT
3024544 TAGAGGACAAACCTCATAAGGTGTTC
66 TAGAGGACAAACCTCATAAGGTGTTC
3024570 TGATGATGTA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 85 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (108 bp):
GCACTAGCAGCACTGACATTGAGGAAAGAACTGAGATTAACATAATAGGATCTTATCTAGCTAAT
TAGAGGACAAACCTCATAAGGTGTTCCGTGAAAAGAATCACAT
Found at i:3027008 original size:37 final size:37
Alignment explanation
Indices: 3026967--3027087 Score: 114
Period size: 37 Copynumber: 3.5 Consensus size: 37
3026957 CCTTGAGATT
3026967 GTTTCTCTTGAAACAAAGTTTTGTCTCTTTTGAGACA
1 GTTTCTCTTGAAACAAAGTTTTGTCTCTTTTGAGACA
* * * *
3027004 GTTTCTCTTGAAATAAA----AG--TC-TTTGAGTCT
1 GTTTCTCTTGAAACAAAGTTTTGTCTCTTTTGAGACA
* * *
3027034 GTTTC-CATTGAAACAAAGTTTTATCTCTCTTGAGATA
1 GTTTCTC-TTGAAACAAAGTTTTGTCTCTTTTGAGACA
3027071 GTTTCTCTTGAAACAAA
1 GTTTCTCTTGAAACAAA
3027088 AGTCTTTGAG
Statistics
Matches: 64, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
29 1 0.02
30 21 0.33
31 2 0.03
33 1 0.02
36 2 0.03
37 36 0.56
38 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (37 bp):
GTTTCTCTTGAAACAAAGTTTTGTCTCTTTTGAGACA
Found at i:3027029 original size:30 final size:30
Alignment explanation
Indices: 3026995--3027369 Score: 99
Period size: 30 Copynumber: 11.8 Consensus size: 30
3026985 TTTTGTCTCT
*
3026995 TTTGAGACAGTTTCTCTTGAAATAAAAGTC
1 TTTGAGACAGTTTCTCTTGAAACAAAAGTC
* * *
3027025 TTTGAGTCTGTTTC-CATTGAAACAAAGTTTTATCTC
1 TTTGAGACAGTTTCTC-TTGAAACAAA-----A-GTC
*
3027061 TCTTGAGATAGTTTCTCTTGAAACAAAAGTC
1 T-TTGAGACAGTTTCTCTTGAAACAAAAGTC
* *
3027092 TTTGAGTA-TGTTTCCCTTGAAAC-AAAGT-
1 TTTGAG-ACAGTTTCTCTTGAAACAAAAGTC
*
3027120 TTT-------TTCTCTCTTGAAACAAAAGTA
1 TTTGAGACAGTT-TCTCTTGAAACAAAAGTC
* *** * * *
3027144 TTTAAGTTTGTTTCCCTTGACACAAAGTTTTATATC
1 TTTGAGACAGTTTCTCTTGAAACAAA-----A-GTC
*
3027180 TCTTGAGACAGTTTCTCTTGAAACAAAAGCC
1 T-TTGAGACAGTTTCTCTTGAAACAAAAGTC
* * * * *
3027211 TTTGAGTCTGTTTCCCTCGAAACAAAGTTTTGTCTC
1 TTTGAGACAGTTTCTCTTGAAACAAA----AG--TC
*
3027247 TCTTGAGACAATTTCTCTTGAAACAAAAGTC
1 T-TTGAGACAGTTTCTCTTGAAACAAAAGTC
*** * *
3027278 TTTGAGTTTGTTTCCCTTGAAACAAAGTTTATTC
1 TTTGAGACAGTTTCTCTTGAAACAAA----AGTC
* *
3027312 TTTCTTGAGACAGTTTATCTTGAAACAAAAATC
1 --T-TTGAGACAGTTTCTCTTGAAACAAAAGTC
* *
3027345 TTTGAGTA-TGTTTCCCTTGAAACAA
1 TTTGAG-ACAGTTTCTCTTGAAACAA
3027370 GTTTTATCTC
Statistics
Matches: 253, Mismatches: 50, Indels: 84
0.65 0.13 0.22
Matches are distributed among these distances:
21 2 0.01
22 10 0.04
23 5 0.02
24 3 0.01
28 3 0.01
29 6 0.02
30 111 0.44
31 13 0.05
32 2 0.01
33 4 0.02
34 4 0.02
35 2 0.01
36 8 0.03
37 79 0.31
38 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (30 bp):
TTTGAGACAGTTTCTCTTGAAACAAAAGTC
Found at i:3027030 original size:67 final size:66
Alignment explanation
Indices: 3026966--3027133 Score: 255
Period size: 67 Copynumber: 2.5 Consensus size: 66
3026956 ACCTTGAGAT
* * *
3026966 TGTTTCTCTTGAAACAAAGTTTTGTCTCTTTTGAGACAGTTTCTCTTGAAATAAAAGTCTTTGAG
1 TGTTTC-CTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAAAGTCTTTGAG
*
3027031 TC
65 TA
*
3027033 TGTTTCCATTGAAACAAAGTTTTATCTCTCTTGAGATAGTTTCTCTTGAAACAAAAGTCTTTGAG
1 TGTTTCC-TTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAAAGTCTTTGAG
3027098 TA
65 TA
*
3027100 TGTTTCCCTTGAAACAAAGTTTTTTCTCTCTTGA
1 TGTTT-CCTTGAAACAAAGTTTTATCTCTCTTGA
3027134 AACAAAAGTA
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
66 1 0.01
67 90 0.97
68 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (66 bp):
TGTTTCCTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAAAGTCTTTGAGT
A
Found at i:3027156 original size:52 final size:52
Alignment explanation
Indices: 3027074--3027185 Score: 170
Period size: 52 Copynumber: 2.2 Consensus size: 52
3027064 TGAGATAGTT
* * * *
3027074 TCTCTTGAAACAAAAGTCTTTGAGTATGTTTCCCTTGAAACAAAGTTTTTTC
1 TCTCTTGAAACAAAAGTATTTAAGTATGTTTCCCTTGAAACAAAGTTTTATA
* *
3027126 TCTCTTGAAACAAAAGTATTTAAGTTTGTTTCCCTTGACACAAAGTTTTATA
1 TCTCTTGAAACAAAAGTATTTAAGTATGTTTCCCTTGAAACAAAGTTTTATA
3027178 TCTCTTGA
1 TCTCTTGA
3027186 GACAGTTTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (52 bp):
TCTCTTGAAACAAAAGTATTTAAGTATGTTTCCCTTGAAACAAAGTTTTATA
Found at i:3027172 original size:119 final size:119
Alignment explanation
Indices: 3027007--3027257 Score: 385
Period size: 119 Copynumber: 2.1 Consensus size: 119
3026997 TGAGACAGTT
* * * * *
3027007 TCTCTTGAAATAAAAGTCTTTGAGTCTGTTTCCATTGAAACAAAGTTTTATCTCTCTTGAGATAG
1 TCTCTTGAAACAAAAGTATTTAAGTCTGTTTCCATTGAAACAAAGTTTTATATCTCTTGAGACAG
* * *
3027072 TTTCTCTTGAAACAAAAGTCTTTGAGTATGTTTCCCTTGAAACAAAGTTTTTTC
66 TTTCTCTTGAAACAAAAGCCTTTGAGTATGTTTCCCTCGAAACAAAGTTTTGTC
* * *
3027126 TCTCTTGAAACAAAAGTATTTAAGTTTGTTTCCCTTGACACAAAGTTTTATATCTCTTGAGACAG
1 TCTCTTGAAACAAAAGTATTTAAGTCTGTTTCCATTGAAACAAAGTTTTATATCTCTTGAGACAG
*
3027191 TTTCTCTTGAAACAAAAGCCTTTGAGTCTGTTTCCCTCGAAACAAAGTTTTGTC
66 TTTCTCTTGAAACAAAAGCCTTTGAGTATGTTTCCCTCGAAACAAAGTTTTGTC
*
3027245 TCTCTTGAGACAA
1 TCTCTTGAAACAA
3027258 TTTCTCTTGA
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (119 bp):
TCTCTTGAAACAAAAGTATTTAAGTCTGTTTCCATTGAAACAAAGTTTTATATCTCTTGAGACAG
TTTCTCTTGAAACAAAAGCCTTTGAGTATGTTTCCCTCGAAACAAAGTTTTGTC
Found at i:3027197 original size:67 final size:67
Alignment explanation
Indices: 3027126--3027387 Score: 375
Period size: 67 Copynumber: 3.9 Consensus size: 67
3027116 AAGTTTTTTC
* * * *
3027126 TCTCTTGAAACAAAAGTATTTAAGTTTGTTTCCCTTGACACAAAGTTTTATATCTCTTGAGACAG
1 TCTCTTGAAACAAAAGTCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGACAG
3027191 TT
66 TT
* * * * *
3027193 TCTCTTGAAACAAAAGCCTTTGAGTCTGTTTCCCTCGAAACAAAGTTTTGTCTCTCTTGAGACAA
1 TCTCTTGAAACAAAAGTCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGACAG
3027258 TT
66 TT
*
3027260 TCTCTTGAAACAAAAGTCTTTGAGTTTGTTTCCCTTGAAACAAAG-TTTATTCTTTCTTGAGACA
1 TCTCTTGAAACAAAAGTCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTA-TCTCTCTTGAGACA
3027324 GTT
65 GTT
* * * *
3027327 TATCTTGAAACAAAAATCTTTGAGTATGTTTCCCTTGAAAC-AAGTTTTATCTCGCTTGAGA
1 TCTCTTGAAACAAAAGTCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGA
3027388 TGGTTATCTT
Statistics
Matches: 173, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
66 16 0.09
67 157 0.91
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (67 bp):
TCTCTTGAAACAAAAGTCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGACAG
TT
Found at i:3027206 original size:37 final size:37
Alignment explanation
Indices: 3027153--3027273 Score: 94
Period size: 37 Copynumber: 3.5 Consensus size: 37
3027143 ATTTAAGTTT
*
3027153 GTTTCCCTTGACACAAAGTTTTATATCTCTTGAGACA
1 GTTTCCCTTGAAACAAAGTTTTATATCTCTTGAGACA
* ** * *
3027190 GTTTCTCTTGAAACAAA-----A-GCCT-TTGAGTCT
1 GTTTCCCTTGAAACAAAGTTTTATATCTCTTGAGACA
* * *
3027220 GTTTCCCTCGAAACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAAGTTTTATATCTCTTGAGACA
* *
3027257 ATTTCTCTTGAAACAAA
1 GTTTCCCTTGAAACAAA
3027274 AGTCTTTGAG
Statistics
Matches: 61, Mismatches: 16, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
30 21 0.34
31 2 0.03
32 1 0.02
36 2 0.03
37 35 0.57
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (37 bp):
GTTTCCCTTGAAACAAAGTTTTATATCTCTTGAGACA
Found at i:3027279 original size:186 final size:186
Alignment explanation
Indices: 3026965--3027319 Score: 575
Period size: 186 Copynumber: 1.9 Consensus size: 186
3026955 AACCTTGAGA
* * * * * *
3026965 TTGTTTCTCTTGAAACAAAGTTTTGTCTCTTTTGAGACAGTTTCTCTTGAAATAAAAGTCTTTGA
1 TTGTTTCCCTTGAAACAAAGTTTTATATCTCTTGAGACAGTTTCTCTTGAAACAAAAGCCTTTGA
* * *
3027030 GTCTGTTTCCATTGAAACAAAGTTTTATCTCTCTTGAGATAGTTTCTCTTGAAACAAAAGTCTTT
66 GTCTGTTTCCATCGAAACAAAGTTTTATCTCTCTTGAGACAATTTCTCTTGAAACAAAAGTCTTT
*
3027095 GAGTATGTTTCCCTTGAAACAAAGTTTTTTCTCTCTTGAAACAAAAGTATTTAAGT
131 GAGTATGTTTCCCTTGAAACAAAGTTTATTCTCTCTTGAAACAAAAGTATTTAAGT
*
3027151 TTGTTTCCCTTGACACAAAGTTTTATATCTCTTGAGACAGTTTCTCTTGAAACAAAAGCCTTTGA
1 TTGTTTCCCTTGAAACAAAGTTTTATATCTCTTGAGACAGTTTCTCTTGAAACAAAAGCCTTTGA
* *
3027216 GTCTGTTTCCCTCGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAAGTCTTT
66 GTCTGTTTCCATCGAAACAAAGTTTTATCTCTCTTGAGACAATTTCTCTTGAAACAAAAGTCTTT
* *
3027281 GAGTTTGTTTCCCTTGAAACAAAGTTTATTCTTTCTTGA
131 GAGTATGTTTCCCTTGAAACAAAGTTTATTCTCTCTTGA
3027320 GACAGTTTAT
Statistics
Matches: 154, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
186 154 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (186 bp):
TTGTTTCCCTTGAAACAAAGTTTTATATCTCTTGAGACAGTTTCTCTTGAAACAAAAGCCTTTGA
GTCTGTTTCCATCGAAACAAAGTTTTATCTCTCTTGAGACAATTTCTCTTGAAACAAAAGTCTTT
GAGTATGTTTCCCTTGAAACAAAGTTTATTCTCTCTTGAAACAAAAGTATTTAAGT
Found at i:3027650 original size:134 final size:134
Alignment explanation
Indices: 3027428--3027770 Score: 379
Period size: 134 Copynumber: 2.6 Consensus size: 134
3027418 TGGCCATCTA
* * * ** *
3027428 TCCTCTTCACGTAGGAATCGTGTCATCCAC-AGACCAGATCTCCTCATCACACAGGAGCCGCGTT
1 TCCTCATCACGTAGGAACCGTGTCATCCACTA-ACCAGATCTCCTTATCACGTAGGAGCCGCGTC
* * ** *
3027492 AACCTTAAATAATCATCCACCCTCATCAAGTAGGAACTATGTTATTGTTATCCCTAAAGATAACA
65 AACCTTAGATAATCATCCACCCTCATCAAGTAGGAACCATGTTATCATCATCCCTAAAGATAACA
3027557 AGTCAT
130 A-TCAT
* *
3027563 T-CTCATCACGTAGGAACCGTGTCATCCACTAACCAGATCTCCTTATCATGTAGGAGTCGCGTCA
1 TCCTCATCACGTAGGAACCGTGTCATCCACTAACCAGATCTCCTTATCACGTAGGAGCCGCGTCA
* * * * * *
3027627 ACCTTAGATAATCAT-CAGTCCTCATCATGTAGGAACCGTGTTATCATCATCTCTAAAGATGACC
66 ACCTTAGATAATCATCCA-CCCTCATCAAGTAGGAACCATGTTATCATCATCCCTAAAGATAACA
*
3027691 ATCCT
130 ATCAT
* * * * * *
3027696 TCCTCATCACGTAGGAACAGTTTCATACACTGACCAGATCT-CTTCATCACGTAGGAGCCCCATC
1 TCCTCATCACGTAGGAACCGTGTCATCCACTAACCAGATCTCCTT-ATCACGTAGGAGCCGCGTC
*
3027760 ACCCTTAGATA
65 AACCTTAGATA
3027771 GCCAGATTTC
Statistics
Matches: 175, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
133 9 0.05
134 164 0.94
135 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (134 bp):
TCCTCATCACGTAGGAACCGTGTCATCCACTAACCAGATCTCCTTATCACGTAGGAGCCGCGTCA
ACCTTAGATAATCATCCACCCTCATCAAGTAGGAACCATGTTATCATCATCCCTAAAGATAACAA
TCAT
Found at i:3027783 original size:134 final size:134
Alignment explanation
Indices: 3027411--3027805 Score: 345
Period size: 134 Copynumber: 2.9 Consensus size: 134
3027401 ACCATTATCC
* * * *
3027411 CTAAAGATGGCCAT-CTATCCTCTTCACGTAGGAATC-GTGTCATCCAC-AGACCAGATCTCCTC
1 CTAAAGATGACCATCCT-TCCTCATCACGTAGGAA-CAGTGTCATACACTA-ACCAGATCTCCTT
** * * * * * * * **
3027473 ATCACACAGGAGCCGCGTTAACCTTAAATAATCATCCA-CCCTCATCAAGTAGGAACTATGTTAT
63 ATCACGTAGGAGCCCCATCAACCTTAGATAACCAT-CAGTCCTCATCACGTAGGAACCGTGTTAT
** * *
3027537 TGTTATCC
127 CATCATCT
* * * * *
3027545 CTAAAGATAACAAGTCATT-CTCATCACGTAGGAACCGTGTCATCCACTAACCAGATCTCCTTAT
1 CTAAAGATGACCA-TCCTTCCTCATCACGTAGGAACAGTGTCATACACTAACCAGATCTCCTTAT
* * * * * *
3027609 CATGTAGGAGTCGCGTCAACCTTAGATAATCATCAGTCCTCATCATGTAGGAACCGTGTTATCAT
65 CACGTAGGAGCCCCATCAACCTTAGATAACCATCAGTCCTCATCACGTAGGAACCGTGTTATCAT
3027674 CATCT
130 CATCT
* *
3027679 CTAAAGATGACCATCCTTCCTCATCACGTAGGAACAGTTTCATACACTGACCAGATCT-CTTCAT
1 CTAAAGATGACCATCCTTCCTCATCACGTAGGAACAGTGTCATACACTAACCAGATCTCCTT-AT
* * * * *
3027743 CACGTAGGAGCCCCATCACCCTTAGATAGCCA-GATTTCCTCATCACGTAGGAATCGTGTTATC
65 CACGTAGGAGCCCCATCAACCTTAGATAACCATCA-GTCCTCATCACGTAGGAACCGTGTTATC
3027806 TCCAAATTTA
Statistics
Matches: 215, Mismatches: 38, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
133 11 0.05
134 200 0.93
135 3 0.01
136 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (134 bp):
CTAAAGATGACCATCCTTCCTCATCACGTAGGAACAGTGTCATACACTAACCAGATCTCCTTATC
ACGTAGGAGCCCCATCAACCTTAGATAACCATCAGTCCTCATCACGTAGGAACCGTGTTATCATC
ATCT
Found at i:3028025 original size:3 final size:3
Alignment explanation
Indices: 3028011--3028051 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
3028001 TTTTTAACTG
* * *
3028011 TTA TTG TTA TTA TTA TTA TTA TTA TTA CTA TTA TAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3028052 TTAACAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:3028061 original size:18 final size:18
Alignment explanation
Indices: 3028022--3028063 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3028012 TATTGTTATT
* *
3028022 ATTATTATTATTATTACT
1 ATTATAATTATTATTACA
3028040 ATTATAATTATT-TTAACA
1 ATTATAATTATTATT-ACA
3028058 ATTATA
1 ATTATA
3028064 TTTTGTAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTATAATTATTATTACA
Found at i:3030587 original size:25 final size:23
Alignment explanation
Indices: 3030554--3030606 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
3030544 AAATCCTCAA
*
3030554 TTTTCTAAATAAAAGTCATAATTAT
1 TTTTTTAAATAAAA-T-ATAATTAT
* *
3030579 TTTTTTAAATAATATTTAATTAT
1 TTTTTTAAATAAAATATAATTAT
3030602 TTTTT
1 TTTTT
3030607 CCAAAAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.48
24 1 0.04
25 12 0.48
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTTTAAATAAAATATAATTAT
Found at i:3033163 original size:9 final size:9
Alignment explanation
Indices: 3033149--3033174 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
3033139 AATTTGATAC
3033149 TTAAAATTA
1 TTAAAATTA
3033158 TTAAAATTA
1 TTAAAATTA
3033167 TTAAAATT
1 TTAAAATT
3033175 TAGCCACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAAAATTA
Found at i:3039321 original size:31 final size:28
Alignment explanation
Indices: 3039286--3039356 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
3039276 AAAACATAAT
3039286 ATTTGATCACTTTCATTTTTATTTAATTAAG
1 ATTTG-TCACTTTCA-TTTT-TTTAATTAAG
**
3039317 ATTTGTCCAGATTCATTTTTTTAATTAAG
1 ATTTGT-CACTTTCATTTTTTTAATTAAG
*
3039346 ATGTGGTCACT
1 AT-TTGTCACT
3039357 AAGGATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
29 14 0.42
30 8 0.24
31 11 0.33
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (28 bp):
ATTTGTCACTTTCATTTTTTTAATTAAG
Found at i:3040846 original size:2 final size:2
Alignment explanation
Indices: 3040839--3040877 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
3040829 TTAAATAATT
*
3040839 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3040878 TTAAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3041545 original size:5 final size:5
Alignment explanation
Indices: 3041523--3041640 Score: 122
Period size: 5 Copynumber: 23.4 Consensus size: 5
3041513 CAGTGGGTGA
3041523 GAGGG AGAGGG AGAGGG GAGGG GA-GG GAGGG G-GAGG GAGGGG GAGGGG
1 GAGGG -GAGGG -GAGGG GAGGG GAGGG GAGGG GAG-GG GA-GGG GA-GGG
*
3041571 GAGGG G-GAGG GAGGA G-GGG GACGGG GAGGG GAGGG GA-GG GAGGG GA-GG
1 GAGGG GAG-GG GAGGG GAGGG GA-GGG GAGGG GAGGG GAGGG GAGGG GAGGG
3041619 GAGGG GAGGG GAGGG GAGGG GA
1 GAGGG GAGGG GAGGG GAGGG GA
3041641 AATTATTTTG
Statistics
Matches: 100, Mismatches: 2, Indels: 21
0.81 0.02 0.17
Matches are distributed among these distances:
4 17 0.17
5 55 0.55
6 27 0.27
7 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.77, T:0.00
Consensus pattern (5 bp):
GAGGG
Found at i:3043129 original size:32 final size:32
Alignment explanation
Indices: 3043088--3043167 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 32
3043078 TGGATTCAAG
* *
3043088 GATTAAATTGAAATTTTTATCTAAAGTTTAAA
1 GATTAAATTGATATTTTTATCGAAAGTTTAAA
* *
3043120 GATTAAATTGATA-TTGTATCGAAAGTTTAGA
1 GATTAAATTGATATTTTTATCGAAAGTTTAAA
* *
3043151 GGTCAAATTGATATTTT
1 GATTAAATTGATATTTT
3043168 ATTCAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (32 bp):
GATTAAATTGATATTTTTATCGAAAGTTTAAA
Found at i:3043190 original size:31 final size:31
Alignment explanation
Indices: 3043105--3043190 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 31
3043095 TTGAAATTTT
* * * *
3043105 TATCTAAAGTTTAAAGATTAAATTGATATTG
1 TATCGAAAGTTTAGAGGTAAAATTGATATTG
* *
3043136 TATCGAAAGTTTAGAGGTCAAATTGATATTT
1 TATCGAAAGTTTAGAGGTAAAATTGATATTG
*
3043167 TATTC-AAATTTTA-AGAGTAAAATT
1 TA-TCGAAAGTTTAGAG-GTAAAATT
3043191 AAAAGTTAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 2 0.04
31 42 0.91
32 2 0.04
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (31 bp):
TATCGAAAGTTTAGAGGTAAAATTGATATTG
Found at i:3043608 original size:21 final size:21
Alignment explanation
Indices: 3043578--3043652 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
3043568 GATTTACATA
*
3043578 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
3043599 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
3043622 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
3043643 TTTGCGTTGC
1 TTCGCGTTGC
3043653 AATTTATTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 27 0.57
23 20 0.43
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:3043623 original size:23 final size:23
Alignment explanation
Indices: 3043593--3043670 Score: 97
Period size: 23 Copynumber: 3.5 Consensus size: 23
3043583 ATTGCGATAG
3043593 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
*
3043616 TCCAAGTTCGCGTTGCGA--TAG
1 TCCAAGTTCGCGTTGCGATTTAT
* * *
3043637 TCGAAGTTTGCGTTGCAATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
*
3043660 TCCAAATTCGC
1 TCCAAGTTCGC
3043671 AACGACTGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.38
23 28 0.62
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (23 bp):
TCCAAGTTCGCGTTGCGATTTAT
Found at i:3043632 original size:44 final size:44
Alignment explanation
Indices: 3043577--3043671 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 44
3043567 CGATTTACAT
*
3043577 ATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAA
1 ATTCGCATTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAA
* * * *
3043621 GTTCGCGTTGCGATAGTCGAAGTTTGCGTTGCAATTTATTCCAA
1 ATTCGCATTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAA
3043665 ATTCGCA
1 ATTCGCA
3043672 ACGACTGGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (44 bp):
ATTCGCATTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAA
Found at i:3043765 original size:6 final size:6
Alignment explanation
Indices: 3043754--3043785 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
3043744 GACACGTATT
3043754 ACCACG ACCACG ACCACG ACCACG ACCACG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG AC
3043786 AAGACCCGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:3044310 original size:6 final size:6
Alignment explanation
Indices: 3044294--3044325 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
3044284 TCTCGTCTCG
3044294 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
3044326 AATACGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:3044494 original size:21 final size:21
Alignment explanation
Indices: 3044464--3044721 Score: 255
Period size: 21 Copynumber: 12.4 Consensus size: 21
3044454 AATATGTAAA
*
3044464 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
3044485 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
3044505 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
3044526 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
3044547 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
3044567 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
*
3044588 TCGCATTACGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
3044609 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
3044629 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
3044650 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
3044671 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
3044692 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
3044713 TCGCGTTGC
1 TCGCATTGC
3044722 AAATCTAGAA
Statistics
Matches: 199, Mismatches: 23, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
20 50 0.25
21 146 0.73
22 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:3044505 original size:62 final size:62
Alignment explanation
Indices: 3044464--3044703 Score: 428
Period size: 62 Copynumber: 3.9 Consensus size: 62
3044454 AATATGTAAA
*
3044464 TCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
3044526 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
*
3044588 TCGCATTACGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
* *
3044650 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGT-TCGCATTGCGAT
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGT-CGACTATCGCATTGCGAT
3044704 AGTCGAAGTT
Statistics
Matches: 172, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
62 169 0.98
63 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (62 bp):
TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
Found at i:3046166 original size:60 final size:60
Alignment explanation
Indices: 3046039--3046156 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
3046029 ATAGTTGGGT
* ** *
3046039 GACTATTTTGTAACTTTTAATAGTCGAAGGACTCAACAAAACAACGCCCTATAGTCATAA
1 GACTATTTTGTAACTTTTAATAGTCGAAGGACACAACAAAACAAAACCCTATAATCATAA
* *
3046099 GATTATTTTGTAACTTTTAATAGTCG--GGAAGCACAACAAAACAAAACCTTATAATCAT
1 GACTATTTTGTAACTTTTAATAGTCGAAGG-A-CACAACAAAACAAAACCCTATAATCAT
3046157 TGTACTATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 2 0.04
59 1 0.02
60 47 0.94
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.30
Consensus pattern (60 bp):
GACTATTTTGTAACTTTTAATAGTCGAAGGACACAACAAAACAAAACCCTATAATCATAA
Found at i:3049120 original size:27 final size:30
Alignment explanation
Indices: 3049079--3049140 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
3049069 TAAAATTCCC
3049079 AAAAAATACCTTAAA-TTCCAGAAAAT-CTA
1 AAAAAATACCTTAAATTTCCA-AAAATCCTA
*
3049108 AAAAAAT-CC-TAAATTTCTAAAAATCCTA
1 AAAAAATACCTTAAATTTCCAAAAATCCTA
3049136 AAAAA
1 AAAAA
3049141 GCATAAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.30
28 14 0.47
29 7 0.23
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
AAAAAATACCTTAAATTTCCAAAAATCCTA
Found at i:3049352 original size:115 final size:114
Alignment explanation
Indices: 3049226--3049448 Score: 322
Period size: 124 Copynumber: 1.9 Consensus size: 114
3049216 TAAATTCATT
*
3049226 CTAAAAAATGAATC-TTATGATTTTTAAGGATTATAATTTAGAGTTTATGATTTTTTGGTAATCC
1 CTAAAAAATGAATCTTTATGATTTTTAAGGATTACAATTTAGAGTTTATGATTTTTT-GTAATCC
3049290 CTAAATTCATTCTAAAAAATGAATCTGATGATTTTTATGGATTACAATTGA
65 CTAAATTCATTCT-AAAAATGAATCTGATGATTTTTATGGATTACAATTGA
*
3049341 CTAAAAAATGAATCTTATGATTTTTATGATTTTTAAGGATTACAATTTAGGGTTTATGATTTTTT
1 CTAAAAAATGAATC--------TTTATGATTTTTAAGGATTACAATTTAGAGTTTATGATTTTTT
*
3049406 GTAATCCCTAAATTCATTCTAAAAATGAATCTTATGATTTTTA
58 GTAATCCCTAAATTCATTCTAAAAATGAATCTGATGATTTTTA
3049449 GGACAATTGA
Statistics
Matches: 96, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
115 14 0.15
122 22 0.23
123 20 0.21
124 40 0.42
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (114 bp):
CTAAAAAATGAATCTTTATGATTTTTAAGGATTACAATTTAGAGTTTATGATTTTTTGTAATCCC
TAAATTCATTCTAAAAATGAATCTGATGATTTTTATGGATTACAATTGA
Found at i:3049466 original size:69 final size:72
Alignment explanation
Indices: 3049364--3049519 Score: 228
Period size: 71 Copynumber: 2.2 Consensus size: 72
3049354 CTTATGATTT
* * * *
3049364 TTATGATTTTTAAGGATTACAATTTAGGGTTTATGATTTTTT-GTAATCCCTAAATTCATTCT-A
1 TTATGATTTTT-AGG--TACAATTGAGAGTTTATGATTTTTTGGTAACCCCAAAATTCATTCTAA
3049427 AAAATGAATC
63 AAAATGAATC
3049437 TTATGATTTTTAGG-ACAATTGAGAGTTTATGATTTTTTGGTAACCCCAAAATTCATTCTAAAAA
1 TTATGATTTTTAGGTACAATTGAGAGTTTATGATTTTTTGGTAACCCCAAAATTCATTCTAAAAA
3049501 ATGAATC
66 ATGAATC
3049508 TTATGATTTTTA
1 TTATGATTTTTA
3049520 TGATTTTTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
69 22 0.29
70 18 0.23
71 23 0.30
72 3 0.04
73 11 0.14
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (72 bp):
TTATGATTTTTAGGTACAATTGAGAGTTTATGATTTTTTGGTAACCCCAAAATTCATTCTAAAAA
ATGAATC
Found at i:3049594 original size:29 final size:30
Alignment explanation
Indices: 3049561--3049621 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
3049551 GCTTTTTTGG
3049561 GATTTT-TAGGAAATT-AGGAT-TTTTTTTTA
1 GATTTTCT-GGAAATTAAGG-TGTTTTTTTTA
*
3049590 GATTTTCTGGAATTTAAGGTGTTTTTTTTA
1 GATTTTCTGGAAATTAAGGTGTTTTTTTTA
3049620 GA
1 GA
3049622 AATTTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.25, C:0.02, G:0.20, T:0.54
Consensus pattern (30 bp):
GATTTTCTGGAAATTAAGGTGTTTTTTTTA
Found at i:3052395 original size:21 final size:21
Alignment explanation
Indices: 3052371--3052410 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3052361 AAGACTTTAT
3052371 TTTCAAAA-TACAAAAATGATA
1 TTTCAAAATTA-AAAAATGATA
3052392 TTTCAAAATTAAAAAATGA
1 TTTCAAAATTAAAAAATGA
3052411 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAAATTAAAAAATGATA
Found at i:3056256 original size:22 final size:22
Alignment explanation
Indices: 3056219--3056280 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 22
3056209 TGGTGCAGAG
* *
3056219 GGAATCGATACCCCCTTAAAGA
1 GGAACCGATTCCCCCTTAAAGA
* * *
3056241 GGAACCGATTCTCCCTTTTGAAGG
1 GGAACCGATTC-CCC-CTTAAAGA
3056265 GGAACCGATTCCCCCT
1 GGAACCGATTCCCCCT
3056281 GGAGGGAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 10 0.31
23 6 0.19
24 16 0.50
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.23
Consensus pattern (22 bp):
GGAACCGATTCCCCCTTAAAGA
Found at i:3058267 original size:14 final size:15
Alignment explanation
Indices: 3058227--3058268 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
3058217 ATTGTTTGAA
*
3058227 TTTGGATGCTTATATG
1 TTTGGATG-TTATGTG
3058243 TTTGGAT-TTATGT-
1 TTTGGATGTTATGTG
3058256 TTTGGATGTTATG
1 TTTGGATGTTATG
3058269 GATGATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 7 0.29
14 10 0.42
16 7 0.29
ACGTcount: A:0.17, C:0.02, G:0.26, T:0.55
Consensus pattern (15 bp):
TTTGGATGTTATGTG
Found at i:3058791 original size:85 final size:85
Alignment explanation
Indices: 3058634--3058797 Score: 199
Period size: 85 Copynumber: 1.9 Consensus size: 85
3058624 CGAGCAATTG
* * * * *
3058634 TGTGTCATAAATCTATGAAGCGTATTTATGACGCTCATTGCGTGTCATTGAAGCCCCCGCCATAA
1 TGTGTCATAAATCTATGAAGCGCATGTATGACGCTCATTGCGTGCCATTGAAGCACACGCCATAA
*
3058699 ATGAAGATGACACACATTTA
66 ATAAAGATGACACACATTTA
* * *
3058719 TGTGTCATAAATTTATGACA-CGCATGTATGAC-TTACATTGCGTGCCATTGAAGCACACGTCAT
1 TGTGTCATAAATCTATGA-AGCGCATGTATGACGCT-CATTGCGTGCCATTGAAGCACACGCCA-
3058782 TAAA-AAAGATGACACA
63 TAAATAAAGATGACACA
3058798 TTCTTGTGTC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 61 0.91
86 5 0.07
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (85 bp):
TGTGTCATAAATCTATGAAGCGCATGTATGACGCTCATTGCGTGCCATTGAAGCACACGCCATAA
ATAAAGATGACACACATTTA
Found at i:3058834 original size:2 final size:2
Alignment explanation
Indices: 3058827--3058879 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
3058817 TTTCGTAAAT
3058827 TA TA TA 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
3058869 TA TA TA TA TA T
1 TA TA TA TA TA T
3058880 GTAGATTGAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3063143 original size:17 final size:17
Alignment explanation
Indices: 3063121--3063163 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
3063111 CATTGATCAA
3063121 CAACAAGAAACAACAAT
1 CAACAAGAAACAACAAT
3063138 CAACAAGAAACAACAAT
1 CAACAAGAAACAACAAT
3063155 CAACAAGAA
1 CAACAAGAA
3063164 TCAAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.65, C:0.23, G:0.07, T:0.05
Consensus pattern (17 bp):
CAACAAGAAACAACAAT
Found at i:3063981 original size:2 final size:2
Alignment explanation
Indices: 3063974--3064033 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
3063964 AATATAATTG
3063974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3064016 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
3064034 CCTAAGAAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3064653 original size:149 final size:149
Alignment explanation
Indices: 3064383--3064682 Score: 510
Period size: 149 Copynumber: 2.0 Consensus size: 149
3064373 TATTATGAAA
* *
3064383 CAGAAAATTAGAATAAAATTAAAGATTTCAACTTAGGATACTAACGGGTTGGTTCAAGTGGTAAG
1 CAGAAAATTAGAATAAAATTAAAGATTTCAACTTAGGATACTAACAGGTTGGATCAAGTGGTAAG
* *
3064448 AAACTTGATATCATTTAAATATGTTTCGAGTTCGAGTCTTTGTATATGCAAAAATATTCATGCTG
66 AAACTTGATATCATTTAAATATGTTTCGAGTTCGAATCTTTGTATATGCAAAAATATCCATGCTG
3064513 GGAGACTCACCCATCAAAT
131 GGAGACTCACCCATCAAAT
* * * *
3064532 CAGAAAATTAGAATAAAATTAAAGATTTGATCTTAGGGTACTAACAGTTTGGATCAAGTGGTAAG
1 CAGAAAATTAGAATAAAATTAAAGATTTCAACTTAGGATACTAACAGGTTGGATCAAGTGGTAAG
* *
3064597 AAACTTGATATCATTTAAATATGTTTCGAGTTCGAATCTTTGTGTATGCAAAAATATCCCTGCTG
66 AAACTTGATATCATTTAAATATGTTTCGAGTTCGAATCTTTGTATATGCAAAAATATCCATGCTG
3064662 GGAGACTCACCCATCAAAT
131 GGAGACTCACCCATCAAAT
3064681 CA
1 CA
3064683 TGTATACAAT
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
149 141 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (149 bp):
CAGAAAATTAGAATAAAATTAAAGATTTCAACTTAGGATACTAACAGGTTGGATCAAGTGGTAAG
AAACTTGATATCATTTAAATATGTTTCGAGTTCGAATCTTTGTATATGCAAAAATATCCATGCTG
GGAGACTCACCCATCAAAT
Found at i:3066310 original size:24 final size:24
Alignment explanation
Indices: 3066282--3066329 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3066272 TTGAAAAAAT
3066282 TATAATATTAATAAT-AATTATTTA
1 TATAATATTAATAATCAATT-TTTA
* *
3066306 TATAATTTTATTAATCAATTTTTA
1 TATAATATTAATAATCAATTTTTA
3066330 ATCATCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TATAATATTAATAATCAATTTTTA
Found at i:3066355 original size:3 final size:3
Alignment explanation
Indices: 3066349--3066396 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
3066339 TTTTATGCCG
3066349 AAT AAT AAT AAT AAAT AAAT AA- ATAT AAT AAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT -AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
3066395 AA
1 AA
3066397 ATAAAAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 3 0.07
3 30 0.73
4 8 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3066378 original size:26 final size:26
Alignment explanation
Indices: 3066349--3066399 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
3066339 TTTTATGCCG
3066349 AATAATAATAATAA-ATAAATAAATAT
1 AATAATAATAATAATA-AAATAAATAT
3066375 AATAATAATAATAATAAAATAAATA
1 AATAATAATAATAATAAAATAAATA
3066400 AAAAAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (26 bp):
AATAATAATAATAATAAAATAAATAT
Found at i:3066400 original size:9 final size:9
Alignment explanation
Indices: 3066352--3066402 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
3066342 TATGCCGAAT
3066352 AATAATAATA
1 AATAA-AATA
3066362 AAT-AAATA
1 AATAAAATA
*
3066370 AATATAAT-
1 AATAAAATA
3066378 AATAATAAT-
1 AATAA-AATA
3066387 AATAAAATA
1 AATAAAATA
3066396 AATAAAA
1 AATAAAA
3066403 AAGAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
8 14 0.39
9 19 0.53
10 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AATAAAATA
Found at i:3068163 original size:15 final size:15
Alignment explanation
Indices: 3068143--3068185 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
3068133 TTTTAGGCCT
3068143 ACTCCTTAAAATTAG
1 ACTCCTTAAAATTAG
3068158 ACTCCTTAAAATTAG
1 ACTCCTTAAAATTAG
*
3068173 ACTCCTTTAAATT
1 ACTCCTTAAAATT
3068186 TGGTCCCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (15 bp):
ACTCCTTAAAATTAG
Found at i:3068432 original size:137 final size:136
Alignment explanation
Indices: 3068236--3068581 Score: 432
Period size: 137 Copynumber: 2.5 Consensus size: 136
3068226 TCCTCGCTTA
* * * *
3068236 TTCTCGAGGTTCGAA-TTAACTATTCGATAGTCCATAATTGATTAAAATTAATTAGGATTAATAT
1 TTCTCGAAGTTCCAATTTAATTATTCGA-AGTCAATAATTGATTAAAATTAATTAGGATTAATAT
*
3068300 TAGAGCCTCCATCTTAGGCATAATTTCATATTTAATCCTTAAATTAGGTGAATTCTTAATTTGGT
65 TAGAGCCTCCATCTTAGGCATAATTTCA-ATTTAATCCTTAAATTAGGAGAATTCTTAATTTGGT
*
3068365 CCTCAATAT
129 CATCAAT-T
* *
3068374 TTCTCGAAGTTCCAATTTAATTATTCGAA-TCAATAATTGATTAAAGTTTATTAGGATTAATATT
1 TTCTCGAAGTTCCAATTTAATTATTCGAAGTCAATAATTGATTAAAATTAATTAGGATTAATATT
* * *
3068438 AGAGCCTCCATCTTAGGCCTAATTTCACTTTAGTCCTTAAATTAGGAGAATTCTTAATTTGGTCA
66 AGAGCCTCCATCTTAGGCATAATTTCAATTTAATCCTTAAATTAGGAGAATTCTTAATTTGGTCA
**
3068503 TCTCTT
131 TCAATT
* * * *
3068509 TTGCTTG-AGATTCCACTTTAATTATTCGAATTACAAT-ATTGATTAAAATTAATTTAAG-TTAA
1 TT-CTCGAAG-TTCCAATTTAATTATTCGAAGT-CAATAATTGATTAAAATTAA-TTAGGATTAA
*
3068571 TATTAGGGCCT
62 TATTAGAGCCT
3068582 ACATTTTCAA
Statistics
Matches: 183, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
135 5 0.03
136 59 0.32
137 86 0.47
138 22 0.12
139 11 0.06
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (136 bp):
TTCTCGAAGTTCCAATTTAATTATTCGAAGTCAATAATTGATTAAAATTAATTAGGATTAATATT
AGAGCCTCCATCTTAGGCATAATTTCAATTTAATCCTTAAATTAGGAGAATTCTTAATTTGGTCA
TCAATT
Found at i:3071055 original size:2 final size:2
Alignment explanation
Indices: 3071048--3071079 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3071038 CTATGAAGAT
3071048 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3071080 CCCCTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3071184 original size:12 final size:12
Alignment explanation
Indices: 3071167--3071214 Score: 69
Period size: 12 Copynumber: 3.8 Consensus size: 12
3071157 TATGTATGGT
3071167 GAGAGAGGGAGGGA
1 GAGAGAGGGA--GA
*
3071181 GAGAGAGGTAGA
1 GAGAGAGGGAGA
3071193 GAGAGAGGGAGA
1 GAGAGAGGGAGA
3071205 GAGAGAGGGA
1 GAGAGAGGGA
3071215 TCCCTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 23 0.72
14 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.58, T:0.02
Consensus pattern (12 bp):
GAGAGAGGGAGA
Found at i:3071188 original size:10 final size:10
Alignment explanation
Indices: 3071169--3071209 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
3071159 TGTATGGTGA
*
3071169 GAGAGGGAGG
1 GAGAGAGAGG
3071179 GAGAGAGAGG
1 GAGAGAGAGG
3071189 TAGAGAGAGAGG
1 --GAGAGAGAGG
3071201 GAGAGAGAG
1 GAGAGAGAG
3071210 AGGGATCCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 18 0.64
12 10 0.36
ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02
Consensus pattern (10 bp):
GAGAGAGAGG
Found at i:3071396 original size:60 final size:60
Alignment explanation
Indices: 3071275--3071407 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
3071265 TTTTTAGGAT
* * * * * * *
3071275 AAAG-TATATAAATAGTTCTTTGATTATAGGGTGATATTTTTTTTAGTCACTCGATTGTTA
1 AAAGTTATA-AAATAGTTCTTCGATTATAGGGTGATACTTTGTTAAGTCACCCGACTATTA
* *
3071335 AAAGTTATAAAATAG-TCTCTCGATTATAGGGTGTTACTTTGTTAAGTCTCCCGACTATTA
1 AAAGTTATAAAATAGTTCT-TCGATTATAGGGTGATACTTTGTTAAGTCACCCGACTATTA
*
3071395 AAAGTTACAAAAT
1 AAAGTTATAAAAT
3071408 GGTCACCTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
59 3 0.05
60 54 0.89
61 4 0.07
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (60 bp):
AAAGTTATAAAATAGTTCTTCGATTATAGGGTGATACTTTGTTAAGTCACCCGACTATTA
Found at i:3071683 original size:59 final size:60
Alignment explanation
Indices: 3071628--3071741 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 60
3071618 TAGTCAGGTG
* *
3071628 ACCATTTTGTAACTTTTAATAATCG-GGGACTTAACAAAGTAACATCCTATAGTCAGAGA
1 ACCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAGCAACATCCTATAGTCAGAGA
* * * *
3071687 ACCATTTTGTAACTTTTAATAGTCGAGGGACTCAATAAAGCATCGTCCTATAGTC
1 ACCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAGCAACATCCTATAGTC
3071742 GGGGAACTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 24 0.50
60 24 0.50
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (60 bp):
ACCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAGCAACATCCTATAGTCAGAGA
Found at i:3072438 original size:59 final size:59
Alignment explanation
Indices: 3072375--3072506 Score: 176
Period size: 60 Copynumber: 2.2 Consensus size: 59
3072365 TAGCATACTT
*
3072375 TTTGTTGAGTCCCCCAACTATTAAAAATTA-AAAATGGTCCCTCAATTACAGGGAGTTGC
1 TTTGTTGAGTCCCCCAA-TATTAAAAATTACAAAATGGTCCCTCAATCACAGGGAGTTGC
* *** * *
3072434 TTTGTTAAGTCCTTTGAATATTAAAAGTTACAAAATGGTCCCTCAATCATAGGGAGTTGC
1 TTTGTTGAGTCC-CCCAATATTAAAAATTACAAAATGGTCCCTCAATCACAGGGAGTTGC
3072494 TTTGTTGAGTCCC
1 TTTGTTGAGTCCC
3072507 TTGACTATTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 22 0.35
60 40 0.65
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (59 bp):
TTTGTTGAGTCCCCCAATATTAAAAATTACAAAATGGTCCCTCAATCACAGGGAGTTGC
Found at i:3072488 original size:60 final size:60
Alignment explanation
Indices: 3072393--3072529 Score: 204
Period size: 60 Copynumber: 2.3 Consensus size: 60
3072383 GTCCCCCAAC
* * *
3072393 TATTAAAAATTA-AAAATGGTCCCTCAATTACAGGGAGTTGCTTTGTTAAGTCCTTTGAA
1 TATTAAAAGTTACAAAATGGTCCCTCAATCACAGGGAGTTGCTTTGTTAAGTCCCTTGAA
* * *
3072452 TATTAAAAGTTACAAAATGGTCCCTCAATCATAGGGAGTTGCTTTGTTGAGTCCCTTGAC
1 TATTAAAAGTTACAAAATGGTCCCTCAATCACAGGGAGTTGCTTTGTTAAGTCCCTTGAA
*
3072512 TATTCAAAGTTACAAAAT
1 TATTAAAAGTTACAAAAT
3072530 AGTCATCCGA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 11 0.16
60 59 0.84
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (60 bp):
TATTAAAAGTTACAAAATGGTCCCTCAATCACAGGGAGTTGCTTTGTTAAGTCCCTTGAA
Found at i:3072615 original size:18 final size:19
Alignment explanation
Indices: 3072589--3072625 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3072579 ATGTTACTAT
3072589 GTTGATTGAGA-TATGATA
1 GTTGATTGAGATTATGATA
*
3072607 GTTGTTTGAGATTATGATA
1 GTTGATTGAGATTATGATA
3072626 TCATAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (19 bp):
GTTGATTGAGATTATGATA
Found at i:3083616 original size:17 final size:16
Alignment explanation
Indices: 3083594--3083645 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
3083584 CCCGACATAC
3083594 GGGTACCCGTAAAATCT
1 GGGTACCCG-AAAATCT
3083611 GGGTACCCGAAAA-CT
1 GGGTACCCGAAAATCT
*
3083626 GGGTACCCGGAACATCT
1 GGGTACCC-GAAAATCT
3083643 GGG
1 GGG
3083646 CCGGGACACG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 10 0.31
16 8 0.25
17 14 0.44
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.17
Consensus pattern (16 bp):
GGGTACCCGAAAATCT
Found at i:3083620 original size:32 final size:32
Alignment explanation
Indices: 3083579--3083645 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
3083569 CCGGGTATTC
* *
3083579 GGGTACCCGACATAC-GGGTACCCGTAAAATCT
1 GGGTACCCGA-AAACTGGGTACCCGGAAAATCT
*
3083611 GGGTACCCGAAAACTGGGTACCCGGAACATCT
1 GGGTACCCGAAAACTGGGTACCCGGAAAATCT
3083643 GGG
1 GGG
3083646 CCGGGACACG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (32 bp):
GGGTACCCGAAAACTGGGTACCCGGAAAATCT
Found at i:3083629 original size:15 final size:15
Alignment explanation
Indices: 3083579--3083634 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 15
3083569 CCGGGTATTC
*
3083579 GGGTACCCGACATAC-
1 GGGTACCCGA-AAACT
3083594 GGGTACCCGTAAAATCT
1 GGGTACCCG-AAAA-CT
3083611 GGGTACCCGAAAACT
1 GGGTACCCGAAAACT
3083626 GGGTACCCG
1 GGGTACCCG
3083635 GAACATCTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 22 0.59
16 6 0.16
17 9 0.24
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.16
Consensus pattern (15 bp):
GGGTACCCGAAAACT
Found at i:3083984 original size:21 final size:22
Alignment explanation
Indices: 3083958--3084020 Score: 103
Period size: 21 Copynumber: 3.0 Consensus size: 22
3083948 CCATCTCCAT
3083958 TTCAT-CATCAACACCATCAAC
1 TTCATCCATCAACACCATCAAC
3083979 TTCATCCAT-AACACCATCAAC
1 TTCATCCATCAACACCATCAAC
*
3084000 TTCATCCATCAAGACCATCAA
1 TTCATCCATCAACACCATCAA
3084021 TTCCGCAACC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 26 0.67
22 13 0.33
ACGTcount: A:0.38, C:0.37, G:0.02, T:0.24
Consensus pattern (22 bp):
TTCATCCATCAACACCATCAAC
Found at i:3084068 original size:25 final size:24
Alignment explanation
Indices: 3084040--3084086 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
3084030 CATCTCTATC
* *
3084040 CTTATTCTTTCATTTCATTATTTAT
1 CTTATTATTCCATTT-ATTATTTAT
3084065 CTTATTATTCCATTTATTATTT
1 CTTATTATTCCATTTATTATTT
3084087 CAACATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (24 bp):
CTTATTATTCCATTTATTATTTAT
Found at i:3089471 original size:22 final size:21
Alignment explanation
Indices: 3089434--3089475 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
3089424 CCATCTCCAT
3089434 TTCATCATCAACACCATCAAC
1 TTCATCATCAACACCATCAAC
*
3089455 TTCATCCATCAAGACCATCAA
1 TTCAT-CATCAACACCATCAA
3089476 TTTCGCATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (21 bp):
TTCATCATCAACACCATCAAC
Found at i:3094548 original size:23 final size:22
Alignment explanation
Indices: 3094521--3094563 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
3094511 GTGGAAGCAA
*
3094521 ATGGAGATGTCATGGAAAAATGG
1 ATGGAAATGTCAT-GAAAAATGG
3094544 ATGGAAATGTCATGAAAAAT
1 ATGGAAATGTCATGAAAAAT
3094564 TAAATTGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.05, G:0.28, T:0.23
Consensus pattern (22 bp):
ATGGAAATGTCATGAAAAATGG
Found at i:3096849 original size:18 final size:18
Alignment explanation
Indices: 3096826--3096870 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
3096816 TTGTCCCTTT
3096826 TCACACATCACATGATGG
1 TCACACATCACATGATGG
3096844 TCACACATCACATGATGG
1 TCACACATCACATGATGG
3096862 TCACACATC
1 TCACACATC
3096871 TTTCTTCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.22
Consensus pattern (18 bp):
TCACACATCACATGATGG
Done.