Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 39
Found at i:887123 original size:2 final size:2
Alignment explanation
Indices: 887116--887148 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
887106 AACTCCAAAA
887116 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
887149 AGTAACAAAA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:893321 original size:22 final size:19
Alignment explanation
Indices: 893260--893322 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 19
893250 ATAACCAGAA
893260 CCCTCAGGGGGTATCGATTC
1 CCCT-AGGGGGTATCGATTC
* *
893280 CCCT-GGGAGGAATCGGTTC
1 CCCTAGGG-GGTATCGATTC
893299 CCCTTCAAGGGGGTATCGATTC
1 CCC-T--AGGGGGTATCGATTC
893321 CC
1 CC
893323 TCTGCCCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.09
19 12 0.35
20 5 0.15
22 11 0.32
23 3 0.09
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (19 bp):
CCCTAGGGGGTATCGATTC
Found at i:899432 original size:20 final size:20
Alignment explanation
Indices: 899401--899458 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
899391 ATCAAAATGT
*
899401 GAATCAGTACCCCTTGGGGG
1 GAATCGGTACCCCTTGGGGG
* *
899421 GATTCGGTACCCCCTGGGGGG
1 GAATCGGTA-CCCCTTGGGGG
*
899442 GAATCTGTACCCCTTGG
1 GAATCGGTACCCCTTGG
899459 ACAATCTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.22
Consensus pattern (20 bp):
GAATCGGTACCCCTTGGGGG
Found at i:901356 original size:115 final size:116
Alignment explanation
Indices: 901154--901361 Score: 276
Period size: 115 Copynumber: 1.8 Consensus size: 116
901144 CTGCTTGTTT
* ** * *
901154 GATTTCTTCGAATTCGAAAAGCATCCGTTTGTGTAGATCTGCTGTCGATTGTATCTGGGGTTTAT
1 GATTTCTTCGAACTCGAAAAGCATCCAATCGTGTAGATCTGCTCTCGATTGTATCTGGGGTTTAT
* *
901219 TCAATTCATATCATCATCCTTTTGATTTATCAAGTTATATATCGTTTAATC
66 TAAATTCATATCATCATACTTTTGATTTATCAAGTTATATATCGTTTAATC
* * *
901270 GATTTCTTCGAACTCG-AAAGCATCCAATCGTGTTGTTCTGCTCTTGATTGTATCTGGGGTTTAT
1 GATTTCTTCGAACTCGAAAAGCATCCAATCGTGTAGATCTGCTCTCGATTGTATCTGGGGTTTAT
* * *
901334 TAAATCTGA-ATTATGATACTTTTGATTT
66 TAAAT-TCATATCATCATACTTTTGATTT
901362 GGCTGGAGTG
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
115 61 0.78
116 17 0.22
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (116 bp):
GATTTCTTCGAACTCGAAAAGCATCCAATCGTGTAGATCTGCTCTCGATTGTATCTGGGGTTTAT
TAAATTCATATCATCATACTTTTGATTTATCAAGTTATATATCGTTTAATC
Found at i:908269 original size:184 final size:183
Alignment explanation
Indices: 907869--908269 Score: 409
Period size: 184 Copynumber: 2.2 Consensus size: 183
907859 AATGCCATTG
* * * * * **
907869 GTGGAGGCTACCAGAAATAGGTCAGTCAGATTATGGAAATTTTTAAAGTTTGAGGGTTTATTTTT
1 GTGGAAGCTACCAGAAATA-G---GTCAGATTATCGAAATTCTTAAAATTTGAGGCTTTATTTAG
** *
907934 CTGATTTTAATGTTTTAGTTTGTGGGTATTGTTTTTAATGAAATTTGTATCTTTTAAAGATTTAG
62 CTGATCGTAATGTTTTAGTATGTGGGTATTGTTTTTAATGAAATTTGTATCTTTTAAAGATTTAG
* ** * *
907999 GCATTGGTTAATTTTCTGATTTGAGTTGCGATGGTTGGTTTATCACTATCAGTATGT
127 GCAGTGGTTAATTTTCTGATTTGAGACGAGATGATTGGTTTATCACTATCAGTATGT
* * *
908056 GT-GAAGGCTACCATAAATGGGTTAGATTATCGAAATTCTTAAAATTTGAGGCTTTATTTAGCT-
1 GTGGAA-GCTACCAGAAATAGGTCAGATTATCGAAATTCTTAAAATTTGAGGCTTTATTTAGCTG
* * *
908119 AGTCGTGATGTTTTAAG-ATGTGGGTATTTGTTTTTCCAATGAATTTTG-ATTTTTTTAAAGATT
65 A-TCGTAATGTTTT-AGTATGTGGGTA-TTGTTTTT--AATGAAATTTGTA-TCTTTTAAAGATT
* * * * * **
908182 T-GGTAGTGGTTAA-TTTCTGTTTTGAGACGAGGTGATTGGTTTCTCATTATTGGTATGT
124 TAGGCAGTGGTTAATTTTCTGATTTGAGACGAGATGATTGGTTTATCACTATCAGTATGT
908240 GTGGAAGCTACCAGAAATAGGTCAGATTAT
1 GTGGAAGCTACCAGAAATAGGTCAGATTAT
908270 AAGAATCCTG
Statistics
Matches: 175, Mismatches: 31, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
182 1 0.01
183 53 0.30
184 68 0.39
185 14 0.08
186 26 0.15
187 13 0.07
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.43
Consensus pattern (183 bp):
GTGGAAGCTACCAGAAATAGGTCAGATTATCGAAATTCTTAAAATTTGAGGCTTTATTTAGCTGA
TCGTAATGTTTTAGTATGTGGGTATTGTTTTTAATGAAATTTGTATCTTTTAAAGATTTAGGCAG
TGGTTAATTTTCTGATTTGAGACGAGATGATTGGTTTATCACTATCAGTATGT
Found at i:911831 original size:210 final size:210
Alignment explanation
Indices: 911499--912277 Score: 1303
Period size: 210 Copynumber: 3.7 Consensus size: 210
911489 TTTGCAGTGG
* *
911499 TTCAACTATCTGTTGAAGTAGTCTGAGATCCTCTCCAGATTGTTTGAGCCCTCGATCTTTCGATC
1 TTCAAGTATCTGTTGAAGTAGTCTGAGATCCTCTCCAGATTGTTTGAACCCTCGATCTTTCGATC
* *
911564 TTCTATCGATCTCACTGTAAATCGAAGTGGAAGGACTCGAAATCTTGGACGGAACTTTTACAAGC
66 TTCTATCGATCTCACTGTAAATCGAAGTGGAAGGACTCGGAATCTTGGACGGAACTTTTACATGC
*
911629 TTAAGAGGTTGTTTCTGAGAACCCAAGTTTGCAGTTTGTTCTTCTTTATGGGTCTTCAGGGGTCT
131 TTAAGAGGTTGCTTCTGAGAACCCAAGTTTGCAGTTTGTTCTTCTTTATGGGTCTTCAGGGGTCT
911694 CTTTGCTTGCGTTGC
196 CTTTGCTTGCGTTGC
*
911709 TTCAAGTATCTGTTGAAGTAGTCTGAGATCCTCTCCAGGTTGTTTGAACCCTCGATCTTTCGATC
1 TTCAAGTATCTGTTGAAGTAGTCTGAGATCCTCTCCAGATTGTTTGAACCCTCGATCTTTCGATC
*
911774 TTCTATCGATCTCACTGTAAATCGAAGTGGAAGGACTCGGAATCTTGGATGGAACTTTTACATGC
66 TTCTATCGATCTCACTGTAAATCGAAGTGGAAGGACTCGGAATCTTGGACGGAACTTTTACATGC
*
911839 TTAAGAGGTTGTTTCTGAGAACCCAAGTTTGCAGTTTGTTCTTCTTTATGGGTCTTCAGGGGTCT
131 TTAAGAGGTTGCTTCTGAGAACCCAAGTTTGCAGTTTGTTCTTCTTTATGGGTCTTCAGGGGTCT
911904 CTTTGCTTGCGTTGC
196 CTTTGCTTGCGTTGC
*
911919 TTCAAGTATCTGTTGAAGTAGTCTGAGATCCTCTCCAGGTTGTTTGAACCCTCGATCTTTCGATC
1 TTCAAGTATCTGTTGAAGTAGTCTGAGATCCTCTCCAGATTGTTTGAACCCTCGATCTTTCGATC
*
911984 TTCTATCGATCTCACTGTAAATCGAAGTGGAAGGACTCGGAATCTTGGATGGAACTTTTACATGC
66 TTCTATCGATCTCACTGTAAATCGAAGTGGAAGGACTCGGAATCTTGGACGGAACTTTTACATGC
* *
912049 TTAAGAGGTTGCTTCTGAGAACCCAAGTTTGCTGTTTGTTCTTCTTTATGGGTCTTCAGGGATCT
131 TTAAGAGGTTGCTTCTGAGAACCCAAGTTTGCAGTTTGTTCTTCTTTATGGGTCTTCAGGGGTCT
912114 CTTTGCTTGCGTTGC
196 CTTTGCTTGCGTTGC
* * * * * *
912129 TTCAAGCATCTGTTTAAG-AGTTCTGAGATCCT-TACCTGATTGTTTGAACTCC-AGGTCTTTCA
1 TTCAAGTATCTGTTGAAGTAG-TCTGAGATCCTCT-CCAGATTGTTTGAAC-CCTCGATCTTTCG
* * * * *
912191 ATCTTTTATCGATCTCACTATAAATCGAAGTGGAAGAACTCAGAATCTTGGGCGGAACTTTTACA
63 ATCTTCTATCGATCTCACTGTAAATCGAAGTGGAAGGACTCGGAATCTTGGACGGAACTTTTACA
912256 TGCTTAAGAGGTTGCTTCTGAG
128 TGCTTAAGAGGTTGCTTCTGAG
912278 CATCTCGAGT
Statistics
Matches: 544, Mismatches: 22, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
209 3 0.01
210 539 0.99
211 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (210 bp):
TTCAAGTATCTGTTGAAGTAGTCTGAGATCCTCTCCAGATTGTTTGAACCCTCGATCTTTCGATC
TTCTATCGATCTCACTGTAAATCGAAGTGGAAGGACTCGGAATCTTGGACGGAACTTTTACATGC
TTAAGAGGTTGCTTCTGAGAACCCAAGTTTGCAGTTTGTTCTTCTTTATGGGTCTTCAGGGGTCT
CTTTGCTTGCGTTGC
Found at i:913670 original size:60 final size:60
Alignment explanation
Indices: 913549--913677 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
913539 AATCTTATTT
* * * * *
913549 TAAATTAATCCTTAAACTTTTAAATATTTTAATTTCATCCTCAAACTATGATTCTCATTC
1 TAAATTAATCCTTAAACTTTTAAACATTCTAATTCCATCCTCAAACTATGACTATCATTC
* * * * *
913609 TAAAATAATCCTTAAACTTTTGAACATTCTAATTCCATCCTTAAACTATGGCTATCTTTC
1 TAAATTAATCCTTAAACTTTTAAACATTCTAATTCCATCCTCAAACTATGACTATCATTC
913669 TAAATTAAT
1 TAAATTAAT
913678 GCCCAAAATT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.43
Consensus pattern (60 bp):
TAAATTAATCCTTAAACTTTTAAACATTCTAATTCCATCCTCAAACTATGACTATCATTC
Found at i:913864 original size:60 final size:60
Alignment explanation
Indices: 913750--913916 Score: 185
Period size: 60 Copynumber: 2.8 Consensus size: 60
913740 CATATAGTTT
* * * *
913750 GGGATGAAATTAGAATGTTCAAAATGTTTGGGGACTAATTTAGAATAAAGGTCATAGTATG
1 GGGATGAAATTAGAATATTCAAAA-GTTTGAGGATTAATTTAGAATAAAGGTCATAGTATA
* * * *
913811 GGGATGAAATTAAAATATTCAAAAGTTTGAGGATTATTTTAGAATGATA-GTCATAGTTTA
1 GGGATGAAATTAGAATATTCAAAAGTTTGAGGATTAATTTAGAAT-AAAGGTCATAGTATA
* * * *
913871 GGGATAAAATTAGAATATTTAAAAGTGT-AGGATTTAATTTAAAATA
1 GGGATGAAATTAGAATATTCAAAAGTTTGAGGA-TTAATTTAGAATA
913917 GGGATCATAC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
59 5 0.06
60 61 0.68
61 24 0.27
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (60 bp):
GGGATGAAATTAGAATATTCAAAAGTTTGAGGATTAATTTAGAATAAAGGTCATAGTATA
Found at i:914406 original size:30 final size:29
Alignment explanation
Indices: 914371--914471 Score: 105
Period size: 30 Copynumber: 3.4 Consensus size: 29
914361 GTTGAGTTGG
914371 GTTGAATCTCAGATGAATTGCTGGAATTC
1 GTTGAATCTCAGATGAATTGCTGGAATTC
* *
914400 TGTTGAATC-CGAGATGAATTGGTGGAACTC
1 -GTTGAATCTC-AGATGAATTGCTGGAATTC
* * *
914430 GATTGAATCTCAGATGAATAGCAGGAATGTG
1 G-TTGAATCTCAGATGAATTGCTGGAAT-TC
*
914461 GTTGAACCTCA
1 GTTGAATCTCA
914472 TGTTGGTAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
29 2 0.03
30 54 0.92
31 3 0.05
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (29 bp):
GTTGAATCTCAGATGAATTGCTGGAATTC
Found at i:919424 original size:43 final size:43
Alignment explanation
Indices: 919363--919459 Score: 176
Period size: 43 Copynumber: 2.3 Consensus size: 43
919353 ACACGGTTCT
*
919363 TACGTGATGAGGAAGTTTGGCTATCTAAGGGTGACGCGGCTCC
1 TACGTGATGAGGAAGTTTGGCTATCTAAGGGTGACGCAGCTCC
*
919406 TACGTAATGAGGAAGTTTGGCTATCTAAGGGTGACGCAGCTCC
1 TACGTGATGAGGAAGTTTGGCTATCTAAGGGTGACGCAGCTCC
919449 TACGTGATGAG
1 TACGTGATGAG
919460 AAGATCTGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.26
Consensus pattern (43 bp):
TACGTGATGAGGAAGTTTGGCTATCTAAGGGTGACGCAGCTCC
Found at i:919526 original size:181 final size:181
Alignment explanation
Indices: 919222--919599 Score: 584
Period size: 181 Copynumber: 2.1 Consensus size: 181
919212 ATAACACGGT
*
919222 TCCTACGTGATGAGGAAGTCTGGCTATCTAAGGGTGACGCAGCTCCTACGTGATGAGAAGATCTG
1 TCCTACGTAATGAGGAAGTCTGGCTATCTAAGGGTGACGCAGCTCCTACGTGATGAGAAGATCTG
*
919287 GTCGGTGGATGACACGGTTCCTACACTATGAGGACCTTCGGCCATCTTTAGGGATAAATGTAGAT
66 GTCGGTGGATGACACGGTTCATACACTATGAGGACCTTCGGCCATCTTTAGGGATAAATGTAGAT
* ** * *
919352 AACACGGTTCTTACGTGATGAGGAAGTTTGGCTATCTAAGGGTGACGCGGC
131 AACACGGTTCCTACGAAATGAGGAAGTCTGACTATCTAAGGGTGACGCGGC
*
919403 TCCTACGTAATGAGGAAGTTTGGCTATCTAAGGGTGACGCAGCTCCTACGTGATGAGAAGATCTG
1 TCCTACGTAATGAGGAAGTCTGGCTATCTAAGGGTGACGCAGCTCCTACGTGATGAGAAGATCTG
*
919468 GTCGGTGGATGACACGGTT-AT-CACTTGATGAGGA-CGTCTGGCCATCTTTAGGGATAAATGTA
66 GTCGGTGGATGACACGGTTCATACAC-T-ATGAGGACCTTC-GGCCATCTTTAGGGATAAATGTA
* **
919530 GATAACACGGTTCCTACGAAATGAGGAAGTCTGACTATCTAAGGGTGATGCTTC
128 GATAACACGGTTCCTACGAAATGAGGAAGTCTGACTATCTAAGGGTGACGCGGC
919584 TCCTACGTGAA-GAGGA
1 TCCTACGT-AATGAGGA
919600 GATCTGGTCG
Statistics
Matches: 181, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
179 3 0.02
180 5 0.03
181 171 0.94
182 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (181 bp):
TCCTACGTAATGAGGAAGTCTGGCTATCTAAGGGTGACGCAGCTCCTACGTGATGAGAAGATCTG
GTCGGTGGATGACACGGTTCATACACTATGAGGACCTTCGGCCATCTTTAGGGATAAATGTAGAT
AACACGGTTCCTACGAAATGAGGAAGTCTGACTATCTAAGGGTGACGCGGC
Found at i:919651 original size:138 final size:138
Alignment explanation
Indices: 919403--919663 Score: 378
Period size: 138 Copynumber: 1.9 Consensus size: 138
919393 GTGACGCGGC
* * * *
919403 TCCTACGTAATGAGGAAGTTTGGCTATCTAAGGGTGACGCAGCTCCTACGTGATGAGAAGATCTG
1 TCCTACGAAATGAGGAAGTCTGACTATCTAAGGGTGACGCAGCTCCTACGTGAAGAGAAGATCTG
* * * * *
919468 GTCGGTGGATGACACGGTTATCACTTGATGAGGACGTCTGGCCATCTTTAGGGATAAATGTAGAT
66 GTCGATGGATGACACGATTATCACATGATGAGGACGACTGACCATCTTTAGGGATAAATGTAGAT
919533 AACACGGT
131 AACACGGT
* ** *
919541 TCCTACGAAATGAGGAAGTCTGACTATCTAAGGGTGATGCTTCTCCTACGTGAAGAGGAGATCTG
1 TCCTACGAAATGAGGAAGTCTGACTATCTAAGGGTGACGCAGCTCCTACGTGAAGAGAAGATCTG
* * *
919606 GTCGATGGATGACACGATTCTTACATGATGAGGATGACTGACCATCTTTAGGGATAAA
66 GTCGATGGATGACACGATTATCACATGATGAGGACGACTGACCATCTTTAGGGATAAA
919664 ATGTTTCAAG
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 107 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (138 bp):
TCCTACGAAATGAGGAAGTCTGACTATCTAAGGGTGACGCAGCTCCTACGTGAAGAGAAGATCTG
GTCGATGGATGACACGATTATCACATGATGAGGACGACTGACCATCTTTAGGGATAAATGTAGAT
AACACGGT
Found at i:919797 original size:68 final size:67
Alignment explanation
Indices: 919664--919804 Score: 228
Period size: 68 Copynumber: 2.1 Consensus size: 67
919654 TAGGGATAAA
** *
919664 ATGTTTCAAGAGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGGGAAACAATCTCAATGTTT
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTTGTTTCAAGCGAAACAATCTCAATGTTT
919729 TT
66 TT
* *
919731 ATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAAATTTGTTTTAAGCGAAACAATCTCAATGTT
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGA-AAAAATTTGTTTCAAGCGAAACAATCTCAATGTT
919796 TTT
65 TTT
919799 ATGTTT
1 ATGTTT
919805 AGTTTCAAGT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 29 0.43
68 39 0.57
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (67 bp):
ATGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTTGTTTCAAGCGAAACAATCTCAATGTTT
TT
Found at i:921421 original size:13 final size:13
Alignment explanation
Indices: 921403--921450 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
921393 GTCCTTTTTT
921403 TTTGCTTTTTCTC
1 TTTGCTTTTTCTC
*
921416 TTTGCTTTTTTTTC
1 TTTGC-TTTTTCTC
*
921430 TTTGTTTTTTCTC
1 TTTGCTTTTTCTC
*
921443 TTTACTTT
1 TTTGCTTT
921451 GATTTGATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.02, C:0.17, G:0.06, T:0.75
Consensus pattern (13 bp):
TTTGCTTTTTCTC
Found at i:921438 original size:27 final size:26
Alignment explanation
Indices: 921397--921450 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
921387 ATTCTTGTCC
*
921397 TTTTTTTTTGCTTTTTCTCTTTGCTT
1 TTTTTTTTTGCTTTTTCTCTTTACTT
*
921423 TTTTTTCTTTGTTTTTTCTCTTTACTT
1 TTTTTT-TTTGCTTTTTCTCTTTACTT
921450 T
1 T
921451 GATTTGATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.78
Consensus pattern (26 bp):
TTTTTTTTTGCTTTTTCTCTTTACTT
Found at i:922796 original size:15 final size:13
Alignment explanation
Indices: 922776--922821 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
922766 TGAAATGCAT
922776 ATGCAAAATGAAAAG
1 ATGCAAAATG--AAG
922791 ATGC-AAATGAAG
1 ATGCAAAATGAAG
*
922803 ATGC-AAATGTAG
1 ATGCAAAATGAAG
922815 ATGCAAA
1 ATGCAAA
922822 GAGATTGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 18 0.62
13 2 0.07
14 5 0.17
15 4 0.14
ACGTcount: A:0.52, C:0.09, G:0.22, T:0.17
Consensus pattern (13 bp):
ATGCAAAATGAAG
Found at i:922805 original size:12 final size:12
Alignment explanation
Indices: 922788--922821 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
922778 GCAAAATGAA
922788 AAGATGCAAATG
1 AAGATGCAAATG
922800 AAGATGCAAATG
1 AAGATGCAAATG
*
922812 TAGATGCAAA
1 AAGATGCAAA
922822 GAGATTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.18
Consensus pattern (12 bp):
AAGATGCAAATG
Found at i:932190 original size:21 final size:21
Alignment explanation
Indices: 932164--932219 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
932154 ACAGTTACAC
932164 AGGGGGGAATCGGTACCCCCT
1 AGGGGGGAATCGGTACCCCCT
932185 AGGGGGGAATCGGTACCCCCT
1 AGGGGGGAATCGGTACCCCCT
932206 AGGGGGGAATCGGT
1 AGGGGGGAATCGGT
932220 TCCCTCCGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.20, C:0.23, G:0.43, T:0.14
Consensus pattern (21 bp):
AGGGGGGAATCGGTACCCCCT
Found at i:936044 original size:3 final size:3
Alignment explanation
Indices: 936036--936062 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
936026 CAAAAATGTA
936036 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
936063 TATTATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:950168 original size:159 final size:160
Alignment explanation
Indices: 949877--950195 Score: 552
Period size: 159 Copynumber: 2.0 Consensus size: 160
949867 GTCGAATTTA
*
949877 ATATTAGAATGTTCACTTTTATTCTAATGTCCTTGAACAGTTTATATTGTAATCTATGAGAACTA
1 ATATTAGAATGTTCACTTTTATTCTAATGTCCTTGAACAGTTTATATTGTAATCTATGAGAACCA
*
949942 GACATGTATATAGGTCGGGTAAAGTTTTTAGTCGACTTTAACCCAATTCAAGTATTATAAATCTT
66 GACATGTATATAGGTCGGGTAAAGTTTTTAGTCGACTTGAACCCAATTCAAGTATTATAAATCTT
950007 CCACCCATTATCACTTAATCCGGTTCAAATT
131 CCA-CCATTATCACTTAATCCGGTTCAAATT
* *
950038 ATATTAGAATGTTCATTTTTATTCTAATGTCCTTGAACGGTTTATA-TGT-ATCTATGAGAACCA
1 ATATTAGAATGTTCACTTTTATTCTAATGTCCTTGAACAGTTTATATTGTAATCTATGAGAACCA
* * *
950101 GAGATGTATATAGGTCGGGTAATGTTTTTAGTCGACTTGAACCCAATTCGAGTATTATAAATCTT
66 GACATGTATATAGGTCGGGTAAAGTTTTTAGTCGACTTGAACCCAATTCAAGTATTATAAATCTT
950166 CCACCATTATCACTTAATCCGGTTCAAATT
131 CCACCATTATCACTTAATCCGGTTCAAATT
950196 TAGGGACTCC
Statistics
Matches: 151, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
158 27 0.18
159 77 0.51
160 3 0.02
161 44 0.29
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (160 bp):
ATATTAGAATGTTCACTTTTATTCTAATGTCCTTGAACAGTTTATATTGTAATCTATGAGAACCA
GACATGTATATAGGTCGGGTAAAGTTTTTAGTCGACTTGAACCCAATTCAAGTATTATAAATCTT
CCACCATTATCACTTAATCCGGTTCAAATT
Found at i:954720 original size:23 final size:25
Alignment explanation
Indices: 954689--954735 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
954679 TAAACAAAAT
*
954689 TAACTAAATATATTAAAA-AAAGTC
1 TAACTAAATATAATAAAATAAAGTC
*
954713 TAAC-AAATTTAATAAAATAAAGT
1 TAACTAAATATAATAAAATAAAGT
954736 AAGTATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (25 bp):
TAACTAAATATAATAAAATAAAGTC
Found at i:954927 original size:21 final size:21
Alignment explanation
Indices: 954902--954945 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
954892 CTCGCTGTCA
*
954902 TCATCATCGCCACCGTCGTCG
1 TCATCATCGCCACCGTCATCG
* *
954923 TCATCATCGTCATCGTCATCG
1 TCATCATCGCCACCGTCATCG
954944 TC
1 TC
954946 GTCGTCCTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.39, G:0.16, T:0.30
Consensus pattern (21 bp):
TCATCATCGCCACCGTCATCG
Found at i:954935 original size:27 final size:27
Alignment explanation
Indices: 954899--954951 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
954889 CTCCTCGCTG
954899 TCATCATCATCGCCACCGTCGTCGTCA
1 TCATCATCATCGCCACCGTCGTCGTCA
* * *
954926 TCATCGTCATCGTCATCGTCGTCGTC
1 TCATCATCATCGCCACCGTCGTCGTC
954952 CTGAGCAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.38, G:0.17, T:0.30
Consensus pattern (27 bp):
TCATCATCATCGCCACCGTCGTCGTCA
Found at i:954938 original size:15 final size:15
Alignment explanation
Indices: 954915--954948 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
954905 TCATCGCCAC
*
954915 CGTCGTCGTCATCAT
1 CGTCATCGTCATCAT
*
954930 CGTCATCGTCATCGT
1 CGTCATCGTCATCAT
954945 CGTC
1 CGTC
954949 GTCCTGAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.21, T:0.32
Consensus pattern (15 bp):
CGTCATCGTCATCAT
Found at i:955340 original size:21 final size:18
Alignment explanation
Indices: 955281--955331 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
955271 TGAAAGGCGA
*
955281 TGGCATCATCATAT-ATGG
1 TGGCATCAT-ATATGGTGG
* *
955299 CGGCATCATATATGGTTG
1 TGGCATCATATATGGTGG
955317 TGGCATCATATATGG
1 TGGCATCATATATGG
955332 CTGCGGTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (18 bp):
TGGCATCATATATGGTGG
Found at i:956933 original size:111 final size:111
Alignment explanation
Indices: 956792--957013 Score: 381
Period size: 111 Copynumber: 2.0 Consensus size: 111
956782 ATTACAAAAA
* * * *
956792 TTAATTCTTAATCTAATAATTATGCATTAAATGAATAAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATACATTAAATAAATAAACTAAATATTACTAATAATTTAAATTA
* *
956857 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
*
956903 TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATACATTAAATAAATAAACTAAATATTACTAATAATTTAAATTA
956968 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
957014 ATGATTTCCA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATACATTAAATAAATAAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:957395 original size:49 final size:49
Alignment explanation
Indices: 957294--957402 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 49
957284 AGCGCGGATT
* * * * * * *
957294 AGGGGGCGCGCTATACCCACGTGGCGCCAGATCACGTATATCGCGGGGC
1 AGGGGGCGCTCTATACCCACGTGACACCAAATCACGTATAACGCGAGAC
*
957343 AGGGGGCGCTCTATACCCACGTGACACCAAATCA-GATATAACGCGATAC
1 AGGGGGCGCTCTATACCCACGTGACACCAAATCACG-TATAACGCGAGAC
957392 AGGGGCGCGCT
1 AGGGG-GCGCT
957403 TTCCTGCTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.02
49 44 0.88
50 5 0.10
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (49 bp):
AGGGGGCGCTCTATACCCACGTGACACCAAATCACGTATAACGCGAGAC
Found at i:960036 original size:22 final size:22
Alignment explanation
Indices: 959993--960037 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
959983 AAAGAAAAAA
*
959993 TGCATAAATTAAAAATACTAAT
1 TGCATAAATTAAAAATAATAAT
*
960015 TGCA-AAATTAAATATAAATAAT
1 TGCATAAATTAAAAAT-AATAAT
960037 T
1 T
960038 ACTATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (22 bp):
TGCATAAATTAAAAATAATAAT
Found at i:960144 original size:9 final size:9
Alignment explanation
Indices: 960096--960325 Score: 55
Period size: 10 Copynumber: 24.4 Consensus size: 9
960086 TAAAAAGAAA
960096 AAAATACAAT
1 AAAATA-AAT
*
960106 ACAATAAAAT
1 AAAAT-AAAT
* *
960116 ACAATATA-
1 AAAATAAAT
*
960124 AAAATGAA-
1 AAAATAAAT
*
960132 AAAATAAGT
1 AAAATAAAT
960141 AAAATAAAT
1 AAAATAAAT
*
960150 AAAACAAAAT
1 AAAA-TAAAT
*
960160 AGAAA-AAAA
1 A-AAATAAAT
960169 AAAATAAAAT
1 AAAAT-AAAT
*
960179 AAAAATAAAAA
1 -AAAAT-AAAT
*
960190 AAAATGGAAT
1 AAAAT-AAAT
*
960200 TAAATAAGATT
1 AAAATAA-A-T
*
960211 AAAA-AACAG
1 AAAATAA-AT
960220 AAACA-AAAT
1 AAA-ATAAAT
* *
960229 AAAAAAAAG
1 AAAATAAAT
*
960238 AAAA-CAA-
1 AAAATAAAT
960245 AAAATAGAAT
1 AAAATA-AAT
960255 AGAAATAAAAT
1 A-AAAT-AAAT
960266 AAAATAAA-
1 AAAATAAAT
*
960274 AATATATAAT
1 AAAATA-AAT
*
960284 AATAATAATAA
1 AA-AATAA-AT
*
960295 AAAATAGTAT
1 AAAATA-AAT
* *
960305 TAATTAAAT
1 AAAATAAAT
960314 -AAATAAAT
1 AAAATAAAT
960322 AAAA
1 AAAA
960326 AGGATTAAAA
Statistics
Matches: 165, Mismatches: 33, Indels: 45
0.68 0.14 0.19
Matches are distributed among these distances:
7 4 0.02
8 29 0.18
9 45 0.27
10 55 0.33
11 31 0.19
12 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:960160 original size:14 final size:14
Alignment explanation
Indices: 960093--960188 Score: 54
Period size: 14 Copynumber: 6.5 Consensus size: 14
960083 ATCTAAAAAG
*
960093 AAAAAAATACAATAC
1 AAAAAAATA-AATAA
*
960108 AATAAAATACAATATA
1 AAAAAAATA-AATA-A
960124 AAAATGAAA-AAAT-A
1 AAAA--AAATAAATAA
**
960138 AGTAAAATAAATAA
1 AAAAAAATAAATAA
*
960152 AACAAAATAGAA-AA
1 AAAAAAATA-AATAA
960166 AAAAAAATAAAATAA
1 AAAAAAAT-AAATAA
960181 AAATAAAA
1 AAA-AAAA
960189 AAAAATGGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.05
13 4 0.06
14 22 0.34
15 21 0.33
16 10 0.16
17 1 0.02
18 3 0.05
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.16
Consensus pattern (14 bp):
AAAAAAATAAATAA
Found at i:960169 original size:25 final size:25
Alignment explanation
Indices: 960141--960379 Score: 101
Period size: 27 Copynumber: 9.0 Consensus size: 25
960131 AAAAATAAGT
*
960141 AAAATAAATAAAA-CAAAATAGAAAA
1 AAAATAAATAAAATAAAAATA-AAAA
960166 AAAA-AAATAAAATAAAAATAAAAA
1 AAAATAAATAAAATAAAAATAAAAA
* * * *
960190 AAAATGGAATTAAATAAGATTAAAAAA
1 AAAAT-AAATAAAATAAAAAT-AAAAA
*
960217 CAGAAACAAAATAAAA-AAAAGA-AAACAA
1 -A-AAA-TAAATAAAATAAAA-ATAAA-AA
960245 AAAATAGAATAGAAAT-AAAATAAAATA
1 AAAATA-AATA-AAATAAAAATAAAA-A
* *
960272 AAAATATATAATAATAATAATAAAAA
1 AAAATAAATAA-AATAAAAATAAAAA
* * *
960298 ATAGTATTAATTAAATAAATAAATAAAAA
1 A-A-AATAAATAAAAT-AA-AAATAAAAA
** * * *
960327 GGATTAAAACAAAATTAAAATATTAAAA
1 AAAAT-AAATAAAA-TAAAA-ATAAAAA
* *
960355 GAACTAAATTAAAATAAAAATAAAA
1 AAAATAAA-TAAAATAAAAATAAAA
960380 TAGAGGGAAA
Statistics
Matches: 160, Mismatches: 30, Indels: 47
0.68 0.13 0.20
Matches are distributed among these distances:
24 16 0.10
25 12 0.08
26 33 0.21
27 48 0.30
28 33 0.21
29 18 0.11
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (25 bp):
AAAATAAATAAAATAAAAATAAAAA
Found at i:960171 original size:37 final size:37
Alignment explanation
Indices: 960087--960175 Score: 92
Period size: 39 Copynumber: 2.4 Consensus size: 37
960077 AGACTAATCT
* * * * *
960087 AAAAAGAAAAA-AATACAATACAATAAAATACAATAT
1 AAAAAAAAAAATAATAAAATACAATAAAACAAAATAG
960123 AAAAATGAAAAAATAAGTAAAATA-AATAAAACAAAATAG
1 AAAAA--AAAAAATAA-TAAAATACAATAAAACAAAATAG
960162 AAAAAAAAAAATAA
1 AAAAAAAAAAATAA
960176 AATAAAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 5 0.11
37 9 0.20
38 5 0.11
39 19 0.43
40 6 0.14
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.15
Consensus pattern (37 bp):
AAAAAAAAAAATAATAAAATACAATAAAACAAAATAG
Found at i:960172 original size:19 final size:19
Alignment explanation
Indices: 960111--960191 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
960101 ACAATACAAT
* * *
960111 AAAATACAATATAAAAATG
1 AAAAAACAAAATAAAAATA
* *
960130 AAAAAA-TAAGT-AAAATA
1 AAAAAACAAAATAAAAATA
960147 AATAAAACAAAATAGAAAA-A
1 AA-AAAACAAAATA-AAAATA
*
960167 AAAAAATAAAATAAAAATA
1 AAAAAACAAAATAAAAATA
960186 AAAAAA
1 AAAAAA
960192 AATGGAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
17 7 0.14
18 10 0.20
19 25 0.51
20 3 0.06
21 4 0.08
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAAAACAAAATAAAAATA
Found at i:960235 original size:19 final size:18
Alignment explanation
Indices: 960210--960274 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
960200 TAAATAAGAT
*
960210 TAAAAAACAGAAACAAAA
1 TAAAAAAAAGAAACAAAA
960228 TAAAAAAAAGAAAACAAAA
1 TAAAAAAAAG-AAACAAAA
* * *
960247 -AATAGAATAGAAATAAAA
1 TAA-AAAAAAGAAACAAAA
960265 TAAAATAAAA
1 TAAAA-AAAA
960275 ATATATAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
18 19 0.51
19 18 0.49
ACGTcount: A:0.78, C:0.05, G:0.06, T:0.11
Consensus pattern (18 bp):
TAAAAAAAAGAAACAAAA
Found at i:960284 original size:29 final size:26
Alignment explanation
Indices: 960130--960300 Score: 86
Period size: 29 Copynumber: 6.3 Consensus size: 26
960120 TATAAAAATG
*
960130 AAAAAATAAGTAAAATA-AATAAAACAA
1 AAAAAATAA--AAAATAGAATAAAATAA
*
960157 AATAGAA-AAAAAA-A-AATAAAATAA
1 AA-AAAATAAAAAATAGAATAAAATAA
* *
960181 AAATAAA-AAAAAATGGAATTAAATAA
1 AAA-AAATAAAAAATAGAATAAAATAA
* * *
960207 GATTAAAAA-ACAGAAACAAAATAAAA-AA
1 -A--AAAAATA-AAAAATAGAATAAAATAA
*
960235 AAGAAAACAAAAAATAGAATAGAAATAA
1 AA-AAAATAAAAAATAGAATA-AAATAA
*
960263 AATAAAATAAAAATATATAATAATAATAA
1 AA-AAAATAAAAA-ATAGAATAA-AATAA
960292 TAAAAAATA
1 -AAAAAATA
960301 GTATTAATTA
Statistics
Matches: 113, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
23 1 0.01
24 20 0.18
25 5 0.04
26 22 0.19
27 10 0.09
28 23 0.20
29 30 0.27
30 2 0.02
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (26 bp):
AAAAAATAAAAAATAGAATAAAATAA
Found at i:960308 original size:22 final size:20
Alignment explanation
Indices: 960259--960322 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 20
960249 TAGAATAGAA
960259 ATAA-AATAAAATAAAAATAT
1 ATAATAATAAAATAAAAA-AT
960279 ATAATAATAATAATAAAAAAT
1 ATAATAATAA-AATAAAAAAT
* *
960300 AGTATTAATTAAATAAATAAAT
1 A-TAATAATAAAATAAA-AAAT
960322 A
1 A
960323 AAAAGGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.11
21 14 0.37
22 20 0.53
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
ATAATAATAAAATAAAAAAT
Found at i:960390 original size:22 final size:23
Alignment explanation
Indices: 960364--960414 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
960354 AGAACTAAAT
*
960364 TAAAATAAAAATAAAATAGAGGG
1 TAAAATAAAAAGAAAATAGAGGG
* * *
960387 -AAAATTAAAAGGAAATCGAGGG
1 TAAAATAAAAAGAAAATAGAGGG
960409 TAAAAT
1 TAAAAT
960415 TCGAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.18
Consensus pattern (23 bp):
TAAAATAAAAAGAAAATAGAGGG
Found at i:962371 original size:170 final size:171
Alignment explanation
Indices: 962077--962507 Score: 485
Period size: 170 Copynumber: 2.5 Consensus size: 171
962067 TTCCTCGACA
* * * * * * * *
962077 CTACCATGTGGTTGATAGACCCTCGAACTAA-ATGAAATTGAACTCGAAAGTTTTTTTTTGACAT
1 CTACCATGCGGTTGATATACCATCGAGCTAATA-G-AATCGAACTCGAAAG-TTTTTATCGACAG
*
962141 ATAA-CCTT-TCGCCTTGAGTTATGTTGTACTAAGCTGAAAGACTGCCCCAGATCTTCCTCTTGA
63 ATAACCCTTCTCGCCTTGAGTTA---TGTACTAAGCTGAAAGACTGCCCCAGAGCTTCCTCTTGA
* * *
962204 CTTAAATACCTTAGTTTAAACTTCAACCGAAAAGTAGTTAATCGTTG
125 CTTAAAGACCTCAGTTTAAACTTCAACCGAAAAGTAGTCAATCGTTG
* * * * *
962251 CTACCATGCGGTTGATATACCATCGAGTTGAATGGAATCGAAGTTGAAATTTTTTATCGACAGAT
1 CTACCATGCGGTTGATATACCATCGAGCT-AATAGAATCGAACTCGAAAGTTTTTATCGACAGAT
* *
962316 TACCCTTCTCGCCTTGAGTTATGTACTAAGCTG-AA-ACTTCCCCAGAGCTTCCTCTTGACTTAA
65 AACCCTTCTCGCCTTGAGTTATGTACTAAGCTGAAAGACTGCCCCAGAGCTTCCTCTTGACTTAA
* * **
962379 AGACCTCAGTTTAAACTTTAACCGGAAAGTAGTCCCTCGTTG
130 AGACCTCAGTTTAAACTTCAACCGAAAAGTAGTCAATCGTTG
*** * * * *
962421 CTACCATGCGGTTGATATGTTATCGAGCTCATAGAATCGAACTCGAAAGTTTTTGTTGATAGATA
1 CTACCATGCGGTTGATATACCATCGAGCTAATAGAATCGAACTCGAAAGTTTTTATCGACAGATA
*
962486 ACCCTTCTCACCTTGAGTTATG
66 ACCCTTCTCGCCTTGAGTTATG
962508 CTGTAAATTT
Statistics
Matches: 216, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
169 48 0.22
170 86 0.40
171 2 0.01
172 12 0.06
173 13 0.06
174 39 0.18
175 16 0.07
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (171 bp):
CTACCATGCGGTTGATATACCATCGAGCTAATAGAATCGAACTCGAAAGTTTTTATCGACAGATA
ACCCTTCTCGCCTTGAGTTATGTACTAAGCTGAAAGACTGCCCCAGAGCTTCCTCTTGACTTAAA
GACCTCAGTTTAAACTTCAACCGAAAAGTAGTCAATCGTTG
Found at i:962596 original size:83 final size:81
Alignment explanation
Indices: 962454--962670 Score: 251
Period size: 83 Copynumber: 2.6 Consensus size: 81
962444 CGAGCTCATA
* * *
962454 GAATCGAACTCGAAAGTTTTTGTTGATAGATAACCCTTCTCACCTTGAGTTATGCTGTAAATTT-
1 GAATCGAACTCGAAAG-TTTTGTTG--ACATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTG
962518 TATATGTCTTTGAACTGAATG
63 T-TATGTC-TTGAACTGAATG
* *
962539 TAATCGAACTCGAAAGTTTTCGTTGACATATCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGTT
1 GAATCGAACTCGAAAGTTTT-GTTGACATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGTT
*
962604 ATGTCTTGAGCTGAATG
65 ATGTCTTGAACTGAATG
* * * *
962621 GAATCGAACTTGAAGGTTTTGCTGACAGATAGCCC-T-TCGCCTTGAGCTAT
1 GAATCGAACTCGAAAGTTTTGTTGAC--ATAACCCTTCTCGCCTTGAGCTAT
962671 ACAGTAATAG
Statistics
Matches: 117, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
81 19 0.16
82 29 0.25
83 45 0.38
84 5 0.04
85 19 0.16
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (81 bp):
GAATCGAACTCGAAAGTTTTGTTGACATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGTTA
TGTCTTGAACTGAATG
Found at i:964358 original size:99 final size:99
Alignment explanation
Indices: 964186--964387 Score: 314
Period size: 99 Copynumber: 2.0 Consensus size: 99
964176 GGACAACTCA
* *
964186 ATATTATAACCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACGAATT
1 ATATTATAACCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATT
*
964251 GCTTTAGAGGGACAACTCAAGCTTTATTATATAG
66 GCTCTAGAGGGACAACTCAAGCTTTATTATATAG
* * * * *
964285 ATATTATAATCACCTTTATTAGGCTAGCTGCATCTTATCCATAAAGTCAGGGTGTTTAACCAATT
1 ATATTATAACCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATT
* *
964350 GCTCTAGAGGGACAACTCAAGCTTTATTGTATAT
66 GCTCTAGAGGGACAACTCAAGCTTTATTATATAG
964384 ATAT
1 ATAT
964388 AATATTATAA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (99 bp):
ATATTATAACCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATT
GCTCTAGAGGGACAACTCAAGCTTTATTATATAG
Found at i:968626 original size:21 final size:19
Alignment explanation
Indices: 968569--968628 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 19
968559 CAACAGTTGG
968569 TAACAATTGATATC-TTTT
1 TAACAATTGATATCTTTTT
* *
968587 TAACAATTGGTAACCTTTTGT
1 TAACAATTGAT-ATCTTTT-T
*
968608 TAACAATTGACATCTTTTT
1 TAACAATTGATATCTTTTT
968627 TA
1 TA
968629 TTAAACATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
20 9 0.26
21 10 0.29
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (19 bp):
TAACAATTGATATCTTTTT
Found at i:968864 original size:20 final size:20
Alignment explanation
Indices: 968839--968910 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
968829 AAAATGCTAA
968839 AGTGTACCGATACACCCTGC
1 AGTGTACCGATACACCCTGC
* * *
968859 AGTGTA--TATATACACTG-
1 AGTGTACCGATACACCCTGC
968876 -GTGTACCGATACACCCTGC
1 AGTGTACCGATACACCCTGC
968895 AGTGTATCC-ATACACC
1 AGTGTA-CCGATACACC
968911 TATGACTGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 5 0.12
18 16 0.39
20 18 0.44
21 2 0.05
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (20 bp):
AGTGTACCGATACACCCTGC
Found at i:968908 original size:36 final size:36
Alignment explanation
Indices: 968840--968909 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
968830 AAATGCTAAA
*
968840 GTGTACCGATACACCCTGCAGTGTATATATACACTG
1 GTGTACCGATACACCCTGCAGTGTATACATACACTG
*
968876 GTGTACCGATACACCCTGCAGTGTATCCATACAC
1 GTGTACCGATACACCCTGCAGTGTATACATACAC
968910 CTATGACTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (36 bp):
GTGTACCGATACACCCTGCAGTGTATACATACACTG
Found at i:971191 original size:12 final size:12
Alignment explanation
Indices: 971174--971216 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
971164 TAAAAACCCT
**
971174 AAATAATAGCTA
1 AAATAATAAATA
971186 AAATAATAAATA
1 AAATAATAAATA
*
971198 AAATAAAAAATA
1 AAATAATAAATA
971210 ATAATAA
1 A-AATAA
971217 AAGACTAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:971250 original size:17 final size:17
Alignment explanation
Indices: 971230--971279 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
971220 ACTAATCTCA
*
971230 AAAAAAATACAATAAAG
1 AAAAAAATAAAATAAAG
* *
971247 -AAAAAATGAAAAAAAAT
1 AAAAAAAT-AAAATAAAG
971264 AAAAAAATAAAATAAA
1 AAAAAAATAAAATAAA
971280 ATAGAATAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 7 0.26
17 13 0.48
18 7 0.26
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (17 bp):
AAAAAAATAAAATAAAG
Found at i:971275 original size:5 final size:5
Alignment explanation
Indices: 971229--971301 Score: 55
Period size: 5 Copynumber: 14.8 Consensus size: 5
971219 GACTAATCTC
* *
971229 AAAA- AAAAT ACAAT AAAGAA AAAAT GAAAA- AAAAT -AAA- AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAA-AT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
* *
971277 AAAAT AGAAT AAGAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAA
971302 ATAAGGAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
4 14 0.26
5 28 0.52
6 12 0.22
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:971312 original size:44 final size:43
Alignment explanation
Indices: 971229--971312 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
971219 GACTAATCTC
*
971229 AAAAAAAATACAATAAAGAAAAAATGAAAAAAAATAAAAAAAT
1 AAAAAAAATACAATAAAGAAAAAATGAAAAAAAAGAAAAAAAT
* * *
971272 AAAATAAAATAGAAT-AAGATAAAAAT-AAAAATAAGGAAAAA
1 AAAA-AAAATACAATAAAGA-AAAAATGAAAAAAAAGAAAAAA
971313 TGGAATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 20 0.57
44 15 0.43
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (43 bp):
AAAAAAAATACAATAAAGAAAAAATGAAAAAAAAGAAAAAAAT
Found at i:971357 original size:11 final size:11
Alignment explanation
Indices: 971343--971377 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
971333 AAACAGAAAC
971343 AAAAGAAAAGA
1 AAAAGAAAAGA
971354 AAAAGAAAAGA
1 AAAAGAAAAGA
*
971365 AAAAGAATAGA
1 AAAAGAAAAGA
971376 AA
1 AA
971378 GAATAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:971362 original size:16 final size:16
Alignment explanation
Indices: 971343--971393 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
971333 AAACAGAAAC
971343 AAAAGAAAAGAAAAAG
1 AAAAGAAAAGAAAAAG
*
971359 AAAAGAAAA-AGAATAG
1 AAAAGAAAAGA-AAAAG
*
971375 -AAAGAATAGAAAAAAG
1 AAAAGAAAAG-AAAAAG
971391 AAA
1 AAA
971394 TATATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 8 0.29
16 17 0.61
17 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:971489 original size:26 final size:23
Alignment explanation
Indices: 971444--971499 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
971434 ATATAAAAAT
*
971444 AAAAATAAAAAAGGATTAAAACAA
1 AAAAATAAAAAAGGACT-AAACAA
*
971468 AAAAACTATAAAAAGGACTAAATAA
1 AAAAA-TA-AAAAAGGACTAAACAA
971493 AAAAATA
1 AAAAATA
971500 TGGCAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.25
25 12 0.43
26 9 0.32
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.14
Consensus pattern (23 bp):
AAAAATAAAAAAGGACTAAACAA
Found at i:975065 original size:60 final size:59
Alignment explanation
Indices: 975025--975135 Score: 158
Period size: 58 Copynumber: 1.9 Consensus size: 59
975015 CTATGGTTAT
*
975025 CATTCTAAATTAGTC-CTCAAAC-TTTTGAATATTTCAATTTCATCCCCAAGTTATGTTG
1 CATTCTAAATTAGTCTC-CAAACTTTTTGAACATTTCAATTTCATCCCCAAGTTATGTTG
* *
975083 CATTCTAAATTGGTCTCCAAACTTTTTGAACATTCCAATTTCA--CCCAAGTTAT
1 CATTCTAAATTAGTCTCCAAACTTTTTGAACATTTCAATTTCATCCCCAAGTTAT
975136 ATTATTATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
57 10 0.21
58 19 0.40
59 19 0.40
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (59 bp):
CATTCTAAATTAGTCTCCAAACTTTTTGAACATTTCAATTTCATCCCCAAGTTATGTTG
Found at i:975785 original size:19 final size:19
Alignment explanation
Indices: 975761--975808 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
975751 TCTACAGTTG
975761 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
975780 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
975799 TCGTTGCGAT
1 TCGTTGCGAT
975809 AGTCTATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:975812 original size:60 final size:61
Alignment explanation
Indices: 975722--975851 Score: 183
Period size: 60 Copynumber: 2.1 Consensus size: 61
975712 GAAAATCGCA
* *
975722 TTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGAT-TTTCCAAATTCG
1 TTGCGATTTTCCAATTC-CGTTGCGATAGTCTACAGTTGTCGTTGCGATATTTACAAATTCG
* *
975783 TTGCGATTTTCCAAATT-CGTTGCGATAGTCTATAGTTGTTGTTGCGATAGTTTACAAATTCG
1 TTGCGATTTTCC-AATTCCGTTGCGATAGTCTACAGTTGTCGTTGCGATA-TTTACAAATTCG
975845 TTGCGAT
1 TTGCGAT
975852 AGTCTACAGT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
60 29 0.47
61 12 0.19
62 21 0.34
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.42
Consensus pattern (61 bp):
TTGCGATTTTCCAATTCCGTTGCGATAGTCTACAGTTGTCGTTGCGATATTTACAAATTCG
Found at i:975844 original size:43 final size:41
Alignment explanation
Indices: 975780--975888 Score: 173
Period size: 43 Copynumber: 2.6 Consensus size: 41
975770 TTTTCCAAAT
*
975780 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTATAGTTG
1 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTG
* *
975821 TTGTTGCGATAGTTTACAAATTCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGAT--TTTCCAAATTCGTTGCGATAGTCTACAGTTG
975864 TCGTTGCGATTTTCCAAATTCGTTG
1 TCGTTGCGATTTTCCAAATTCGTTG
975889 AGAAAATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 23 0.38
43 38 0.62
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (41 bp):
TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTG
Found at i:976008 original size:12 final size:12
Alignment explanation
Indices: 975987--976021 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
975977 CACGTATTAC
975987 CACGACCACGAG
1 CACGACCACGAG
*
975999 CACGAGCACGAG
1 CACGACCACGAG
*
976011 CAAGACCACGA
1 CACGACCACGA
976022 CCCGAGACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.37, C:0.37, G:0.26, T:0.00
Consensus pattern (12 bp):
CACGACCACGAG
Found at i:977050 original size:41 final size:41
Alignment explanation
Indices: 976993--977087 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
976983 TCTTTTTTTT
976993 ACTATCGCAACGAATTTGGAAA-ATCGCAACGACAACTATAG
1 ACTATCGCAACGAATTTGGAAACATCGCAACGACAACT-TAG
*
977034 ACTATCGCAACGAATTTGGAAACTATCGCAACGACAACTTGG
1 ACTATCGCAACGAATTTGGAAAC-ATCGCAACGACAACTTAG
*
977076 ACTATCGTAACG
1 ACTATCGCAACG
977088 CGAAATGAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
41 22 0.44
42 13 0.26
43 15 0.30
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAACATCGCAACGACAACTTAG
Found at i:977060 original size:21 final size:21
Alignment explanation
Indices: 976993--977067 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
976983 TCTTTTTTTT
976993 ACTATCGCAACGAATTTGGAA
1 ACTATCGCAACGAATTTGGAA
** ** *
977014 A--ATCGCAACGACAACTATAG
1 ACTATCGCAACGA-ATTTGGAA
977034 ACTATCGCAACGAATTTGGAA
1 ACTATCGCAACGAATTTGGAA
977055 ACTATCGCAACGA
1 ACTATCGCAACGA
977068 CAACTTGGAC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 10 0.24
20 4 0.10
21 17 0.41
22 10 0.24
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGAATTTGGAA
Found at i:977079 original size:21 final size:19
Alignment explanation
Indices: 976993--977087 Score: 73
Period size: 21 Copynumber: 4.6 Consensus size: 19
976983 TCTTTTTTTT
*
976993 ACTATCGCAACGAATTTGG
1 ACTATCGCAACGAACTTGG
** *
977012 AAAATCGCAACGACAACTATAG
1 ACTATCGCAACG--AACT-TGG
*
977034 ACTATCGCAACGAATTTGG
1 ACTATCGCAACGAACTTGG
977053 AAACTATCGCAACGACAACTTGG
1 --ACTATCGCAACG--AACTTGG
*
977076 ACTATCGTAACG
1 ACTATCGCAACG
977088 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
19 12 0.20
20 3 0.05
21 26 0.44
22 12 0.20
23 6 0.10
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (19 bp):
ACTATCGCAACGAACTTGG
Found at i:977881 original size:16 final size:16
Alignment explanation
Indices: 977860--977892 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
977850 ATATTCATAG
*
977860 TTTTTAAAAAATTAAA
1 TTTTTAAAAAAATAAA
977876 TTTTTAAAAAAATAAA
1 TTTTTAAAAAAATAAA
977892 T
1 T
977893 GTGACACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTTTAAAAAAATAAA
Found at i:982606 original size:22 final size:22
Alignment explanation
Indices: 982563--982606 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
982553 ATTTTAAAAT
*
982563 TATTTAACAAATTAATCTTTTA
1 TATTTAACAAATTAATCATTTA
*
982585 TATTTAA-AAATTCATCAATTTA
1 TATTTAACAAATTAATC-ATTTA
982607 ACTAGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTTAACAAATTAATCATTTA
Found at i:987315 original size:144 final size:144
Alignment explanation
Indices: 987124--987472 Score: 369
Period size: 147 Copynumber: 2.4 Consensus size: 144
987114 TCCATTAGAT
* * *
987124 AAAAACAGCTGAA-AATGCAAGATAAAAAGTGAAAGAGACTATTTTCCTG-GAAAATTCAATGGT
1 AAAAACAGCTGAAGAA-GCAAGAGAAAAAGTGAAAGAGACTATCTTCCTGAGAAAA-TC-ATGAT
* * * * *
987187 T-GTGAAA-A-CTCAGT-TGATACAATTTTTCTCATTATCCAAACAC-TCCCAATAT-ATATTTT
63 TGGGGAAAGATC-CA-TCTGATACAAGTTTTCTCACTATCCAAACACACCCCAAGATCA-ATTTT
*
987246 TTAACACCCCGATTGATTTAAA
125 TTAACACCCCAATTGA--TAAA
987268 AAAAACAGCTGAAGAAGCAAGAGAAAATA-TGAAAG-GAACTATCTTCCTGAGAAAATCATGATT
1 AAAAACAGCTGAAGAAGCAAGAGAAAA-AGTGAAAGAG-ACTATCTTCCTGAGAAAATCATGATT
987331 GGGGAAAGTATCCATCTGATACAAGTTTTCTCACTATCCAAACACACCCCAAGATGCAATTTTTT
64 GGGGAAAG-ATCCATCTGATACAAGTTTTCTCACTATCCAAACACACCCCAAGAT-CAATTTTTT
987396 AACACCCCAATTGATAAA
127 AACACCCCAATTGATAAA
* * * * *
987414 AAAAAGCAGCTGAAGAAGCAATAGAAAAAGAGGAAG-GAACTGTTTTCCTGAGAAAATCA
1 AAAAA-CAGCTGAAGAAGCAAGAGAAAAAGTGAAAGAG-ACTATCTTCCTGAGAAAATCA
987473 AAACTTGGGA
Statistics
Matches: 177, Mismatches: 14, Indels: 25
0.82 0.06 0.12
Matches are distributed among these distances:
143 6 0.03
144 47 0.27
145 9 0.05
146 40 0.23
147 54 0.31
148 20 0.11
149 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (144 bp):
AAAAACAGCTGAAGAAGCAAGAGAAAAAGTGAAAGAGACTATCTTCCTGAGAAAATCATGATTGG
GGAAAGATCCATCTGATACAAGTTTTCTCACTATCCAAACACACCCCAAGATCAATTTTTTAACA
CCCCAATTGATAAA
Found at i:987440 original size:147 final size:144
Alignment explanation
Indices: 987201--987472 Score: 379
Period size: 147 Copynumber: 1.9 Consensus size: 144
987191 AAAACTCAGT
* * * * *
987201 TGATACAATTTTTCTCATTATCCAAACACTCCCAATATATATTTTTTAACACCCCGATTGATTTA
1 TGATACAAGTTTTCTCACTATCCAAACACCCCCAAGATATATTTTTTAACACCCCAATTGA-TTA
987266 AAAAAAACAGCTGAAGAAGCAAGAGAAAATATGA-AAGGAACTATCTTCCTGAGAAAATCATGAT
65 AAAAAAACAGCTGAAGAAGCAAGAGAAAA-A-GAGAAGGAACTATCTTCCTGAGAAAATCATGAT
987330 TGGGGAAAGTATCCATC
128 TGGGGAAAGTATCCATC
987347 TGATACAAGTTTTCTCACTATCCAAACACACCCCAAGATGCA-ATTTTTTAACACCCCAATTGA-
1 TGATACAAGTTTTCTCACTATCCAAACAC-CCCCAAGAT--ATATTTTTTAACACCCCAATTGAT
* * *
987410 TAAAAAAAAGCAGCTGAAGAAGCAATAGAAAAAGAGGAAGGAACTGTTTTCCTGAGAAAATCA
63 TAAAAAAAA-CAGCTGAAGAAGCAAGAGAAAAAGA-GAAGGAACTATCTTCCTGAGAAAATCA
987473 AAACTTGGGA
Statistics
Matches: 112, Mismatches: 8, Indels: 11
0.85 0.06 0.08
Matches are distributed among these distances:
145 2 0.02
146 37 0.33
147 52 0.46
148 20 0.18
149 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (144 bp):
TGATACAAGTTTTCTCACTATCCAAACACCCCCAAGATATATTTTTTAACACCCCAATTGATTAA
AAAAAACAGCTGAAGAAGCAAGAGAAAAAGAGAAGGAACTATCTTCCTGAGAAAATCATGATTGG
GGAAAGTATCCATC
Found at i:990128 original size:22 final size:22
Alignment explanation
Indices: 990098--990148 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
990088 CGGGACATAT
*
990098 ACAATATACAAAGGTCCTTCGGG
1 ACAA-ATACAAAGGTCATTCGGG
*
990121 ACAAATACATAGGTCATTCGGG
1 ACAAATACAAAGGTCATTCGGG
990143 ACAAAT
1 ACAAAT
990149 TTCATATGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
ACAAATACAAAGGTCATTCGGG
Found at i:990425 original size:2 final size:2
Alignment explanation
Indices: 990418--990474 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
990408 ATAATGATGG
990418 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
990460 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
990475 GTATGCATGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:997877 original size:23 final size:25
Alignment explanation
Indices: 997851--997896 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
997841 AGACAAATTA
*
997851 TAAAAAAACTAA-TT-AAATAAAAC
1 TAAAAAAACAAATTTAAAATAAAAC
*
997874 TAAAATAACAAATTTAAAATAAA
1 TAAAAAAACAAATTTAAAATAAA
997897 CAATAAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 2 0.11
25 7 0.37
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (25 bp):
TAAAAAAACAAATTTAAAATAAAAC
Found at i:998196 original size:11 final size:11
Alignment explanation
Indices: 998180--998210 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
998170 TGGTCCAGTC
998180 AAATTAAACTA
1 AAATTAAACTA
998191 AAATTAAACTA
1 AAATTAAACTA
998202 AAATTAAAC
1 AAATTAAAC
998211 AGTCACTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATTAAACTA
Found at i:998536 original size:17 final size:16
Alignment explanation
Indices: 998514--998581 Score: 52
Period size: 17 Copynumber: 4.3 Consensus size: 16
998504 CCGTGTCCCG
*
998514 ACCCGGATGTTACGGGT
1 ACCCGGATATT-CGGGT
* *
998531 ACCCGGA-AATCAGGT
1 ACCCGGATATTCGGGT
*
998546 ACCCGGATTTTGCGGGT
1 ACCCGGATATT-CGGGT
*
998563 ACCC-G-TAATCGGGT
1 ACCCGGATATTCGGGT
998577 ACCCG
1 ACCCG
998582 ATACCCGATT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
14 9 0.22
15 13 0.32
16 3 0.08
17 15 0.38
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (16 bp):
ACCCGGATATTCGGGT
Found at i:998581 original size:31 final size:32
Alignment explanation
Indices: 998514--998581 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
998504 CCGTGTCCCG
998514 ACCCGGATGTTACGGGTACCCGGAAATCAGGT
1 ACCCGGATGTTACGGGTACCCGGAAATCAGGT
* * * *
998546 ACCCGGATTTTGCGGGTACCC-GTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGAAATCAGGT
998577 ACCCG
1 ACCCG
998582 ATACCCGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGGAAATCAGGT
Found at i:999972 original size:20 final size:20
Alignment explanation
Indices: 999945--999989 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
999935 GTTAGGGTTA
*
999945 GTTT-GTTTGGGTCGTTT-GG
1 GTTTGGTTTGGG-CATTTCGG
999964 GTTTGGTTTGGGCATTTCGG
1 GTTTGGTTTGGGCATTTCGG
999984 GTTTGG
1 GTTTGG
999990 GTTATTCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.02, C:0.07, G:0.42, T:0.49
Consensus pattern (20 bp):
GTTTGGTTTGGGCATTTCGG
Found at i:1000363 original size:41 final size:41
Alignment explanation
Indices: 1000286--1000404 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 41
1000276 TAAATACTTG
** * * *
1000286 TACTTTAGTGGTG-TTTGTATATAAACTCCGCCAAAGATTCA
1 TACTTTAGTGACGATTT-TATAAAAACACCGCTAAAGATTCA
* * * * *
1000327 TACTTTAGTGTCGATTTTATACAAATATCGCTAAAGATTTA
1 TACTTTAGTGACGATTTTATAAAAACACCGCTAAAGATTCA
* *
1000368 TATTTTAGTGACGGTTTTATAAAAACACCGCTAAAGA
1 TACTTTAGTGACGATTTTATAAAAACACCGCTAAAGA
1000405 CTCGTAGCGT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
41 60 0.95
42 3 0.05
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (41 bp):
TACTTTAGTGACGATTTTATAAAAACACCGCTAAAGATTCA
Found at i:1004031 original size:203 final size:203
Alignment explanation
Indices: 1003650--1004145 Score: 679
Period size: 203 Copynumber: 2.4 Consensus size: 203
1003640 ATGGAATCAC
* * * * *
1003650 CTAA-GTTGAACAAGTTCTTATTATTATGAACTTCTTCTCCCTCGTTGGATGAATTCTTCTCATT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
* ** * * * *
1003714 ATTAACTCTCCCATTGGAAATGTTGATCTGCCTTCTTCTGTGATGAAATCGAACAAAGTGATGAT
66 ATGAACTCT-CCATTGGAAATGTTGATCCACCTCCTTCTCTGATGAAATCAAACAAAGTGATAAT
* * * *
1003779 GTTGATCTAACTCCATATGCGATGGATGAGCCAAATATTGGTTTTGTTCCAACTCCTTTTGTAAT
130 GTTGATCCAACTCCATATGCGATGGATGAGCCAAATATTGATGTTGTTCCAACTCCTTATGTAAT
*
1003844 TGAAATGAA
195 GGAAATGAA
* * *
1003853 CTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTTTTCTCATT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
* *
1003918 ATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTCTCTGATGGAATCAAACAAAGTGATAATG
66 ATGAACTCTCCATTGGAAATGTTGATCCACCTCCTTCTCTGATGAAATCAAACAAAGTGATAATG
* * * *
1003983 TTGATCCAACTCCATATGCGATGGATGAGTCGAGTATTGATGTTGTTCCAACTCCTTATGTGATG
131 TTGATCCAACTCCATATGCGATGGATGAGCCAAATATTGATGTTGTTCCAACTCCTTATGTAATG
* *
1004048 GGAATGAG
196 GAAATGAA
* *
1004056 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGACGAGTTCTTCTCATT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
* * *
1004121 AAGAAGTCTCCATTGGAAATTTTGA
66 ATGAACTCTCCATTGGAAATGTTGA
1004146 CTGGTTTATC
Statistics
Matches: 255, Mismatches: 37, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
203 195 0.76
204 60 0.24
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (203 bp):
CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
ATGAACTCTCCATTGGAAATGTTGATCCACCTCCTTCTCTGATGAAATCAAACAAAGTGATAATG
TTGATCCAACTCCATATGCGATGGATGAGCCAAATATTGATGTTGTTCCAACTCCTTATGTAATG
GAAATGAA
Found at i:1005928 original size:64 final size:64
Alignment explanation
Indices: 1005827--1005950 Score: 155
Period size: 64 Copynumber: 1.9 Consensus size: 64
1005817 CTTTAAAATA
* *
1005827 AAAATAAAAACATCGAATGTCATTAGTGTATCGATGCACAAG-TAT-TGCATCGATGCACCCCCT
1 AAAATAAAAACATCGAATGACATTAGTGTACCGATGCA-AAGAT-TGTGCATCGATGCACCCCCT
1005890 T
64 T
* * *
1005891 AAAATACAAACATCGAATGAGATTTA-TGTACCGATGCATAGATTGTGCATCGATGCACCC
1 AAAATAAAAACATCGAATGACA-TTAGTGTACCGATGCAAAGATTGTGCATCGATGCACCC
1005951 GTCAAGGGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
63 3 0.06
64 46 0.88
65 3 0.06
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (64 bp):
AAAATAAAAACATCGAATGACATTAGTGTACCGATGCAAAGATTGTGCATCGATGCACCCCCTT
Found at i:1006545 original size:18 final size:18
Alignment explanation
Indices: 1006522--1006592 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
1006512 AGGAATTATC
1006522 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1006540 AGTGGTTCTTCGGAAAAAT
1 AGTGGTCCTTCGG-GACAT
*
1006559 CAGTGGTCCTCCGGGACAT
1 -AGTGGTCCTTCGGGACAT
* *
1006578 AATGGTCTTTCGGGA
1 AGTGGTCCTTCGGGA
1006593 TAAATATTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 24 0.59
19 6 0.15
20 11 0.27
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1006724 original size:13 final size:13
Alignment explanation
Indices: 1006706--1006730 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1006696 TGTGGATTGT
1006706 TATATATATTATA
1 TATATATATTATA
1006719 TATATATATTAT
1 TATATATATTAT
1006731 GCATCAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATATATTATA
Found at i:1007746 original size:31 final size:31
Alignment explanation
Indices: 1007705--1007767 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
1007695 AAATATATCG
*
1007705 GAGATTAGTTCATCCGACAGATGAAGCAGGA
1 GAGATCAGTTCATCCGACAGATGAAGCAGGA
*
1007736 GAGATCAGTTCATCCGACATATGAAGCAGGA
1 GAGATCAGTTCATCCGACAGATGAAGCAGGA
1007767 G
1 G
1007768 TTCATGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (31 bp):
GAGATCAGTTCATCCGACAGATGAAGCAGGA
Found at i:1012221 original size:163 final size:164
Alignment explanation
Indices: 1011951--1012278 Score: 649
Period size: 163 Copynumber: 2.0 Consensus size: 164
1011941 AAGAAGAAAA
1011951 AATAGAAGGATATAATGGTTTTTTGCAAGGAAAAATAATTAAAGAAGGGATTTATTTATTAGCTC
1 AATAGAAGGATATAATGGTTTTTTGCAAGGAAAAATAATTAAAGAAGGGATTTATTTATTAGCTC
1012016 CACGTGGAAGAGAAGAAAGAAAAACAAGGTTCCAGAGTTCTCTTCTTCTCTTC-TTTCTCCTAAA
66 CACGTGGAAGAGAAGAAAGAAAAACAAGGTTCCAGAGTTCTCTTCTTCTCTTCTTTTCTCCTAAA
1012080 CGTGAAAAAGGTCAAAACAAAGGTAAAATTTTTC
131 CGTGAAAAAGGTCAAAACAAAGGTAAAATTTTTC
1012114 AATAGAAGGATATAATGGTTTTTTGCAAGGAAAAATAATTAAAGAAGGGATTTATTTATTAGCTC
1 AATAGAAGGATATAATGGTTTTTTGCAAGGAAAAATAATTAAAGAAGGGATTTATTTATTAGCTC
1012179 CACGTGGAAGAGAAGAAAGAAAAACAAGGTTCCAGAGTTCTCTTCTTCTCTTCTTTTCTCCTAAA
66 CACGTGGAAGAGAAGAAAGAAAAACAAGGTTCCAGAGTTCTCTTCTTCTCTTCTTTTCTCCTAAA
1012244 CGTGAAAAAGGTCAAAACAAAGGTAAAATTTTTC
131 CGTGAAAAAGGTCAAAACAAAGGTAAAATTTTTC
1012278 A
1 A
1012279 TGAGCTAATT
Statistics
Matches: 164, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
163 118 0.72
164 46 0.28
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (164 bp):
AATAGAAGGATATAATGGTTTTTTGCAAGGAAAAATAATTAAAGAAGGGATTTATTTATTAGCTC
CACGTGGAAGAGAAGAAAGAAAAACAAGGTTCCAGAGTTCTCTTCTTCTCTTCTTTTCTCCTAAA
CGTGAAAAAGGTCAAAACAAAGGTAAAATTTTTC
Found at i:1013527 original size:18 final size:18
Alignment explanation
Indices: 1013504--1013576 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
1013494 AGGGATTATC
1013504 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
1013522 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
* *
1013541 AAGTGATCCTCCGGGACAT
1 -AGTGGTCCTTCGGGACAT
* *
1013560 AATGGTCTTTCGGGACA
1 AGTGGTCCTTCGGGACA
1013577 AATATTCAGT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 27 0.63
19 4 0.09
20 12 0.28
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1013674 original size:67 final size:67
Alignment explanation
Indices: 1013566--1013699 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
1013556 ACATAATGGT
1013566 CTTTCGGGACAAATATTCAGTGCCCCTTGAGGGAATTATACGAGTTGTGGTGACAACATAGTGCA
1 CTTTCGGGACAAATATTCAGTGCCCCTTGAGGGAATTATACGAGTTGTGGTGACAACATAGTGCA
1013631 CA
66 CA
1013633 CTTTCGGGACAAATATTCAGTGCCCCTTGAGGGAATTATACGAGTTGTGGTGACAACATAGTGCA
1 CTTTCGGGACAAATATTCAGTGCCCCTTGAGGGAATTATACGAGTTGTGGTGACAACATAGTGCA
1013698 CA
66 CA
1013700 ACCTCTATGT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (67 bp):
CTTTCGGGACAAATATTCAGTGCCCCTTGAGGGAATTATACGAGTTGTGGTGACAACATAGTGCA
CA
Found at i:1013905 original size:6 final size:6
Alignment explanation
Indices: 1013896--1013925 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1013886 TGTATTGTTA
*
1013896 TATATA TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT
1013926 ATGCCTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:1014480 original size:8 final size:8
Alignment explanation
Indices: 1014467--1014492 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1014457 ATTTTCATAA
1014467 TTTTTCTT
1 TTTTTCTT
1014475 TTTTTCTT
1 TTTTTCTT
1014483 TTTTTCTT
1 TTTTTCTT
1014491 TT
1 TT
1014493 CTTTTCACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1014492 original size:13 final size:13
Alignment explanation
Indices: 1014468--1014513 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
1014458 TTTTCATAAT
1014468 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
1014481 TTTT-TTTCTTTTC
1 TTTTCTTT-TTTTC
**
1014494 TTTTCACTTTTTC
1 TTTTCTTTTTTTC
1014507 TTTTCTT
1 TTTTCTT
1014514 AGGTGTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 3 0.11
13 23 0.85
14 1 0.04
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:1015898 original size:18 final size:17
Alignment explanation
Indices: 1015844--1015892 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1015834 TTGGACCCTT
* *
1015844 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1015862 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1015880 AGTGCATTCGATG
1 AGTGCA-TCGATG
1015893 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1015977 original size:64 final size:65
Alignment explanation
Indices: 1015864--1016008 Score: 179
Period size: 64 Copynumber: 2.2 Consensus size: 65
1015854 TGCACTAAGA
*
1015864 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCAT-GACTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGACTG
** ** *
1015928 GTGCATCGATGCATCAAATGCATTCGATG-TTCAATTTAATTCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAT-AGCCA-GAGTGCATCGATGCATGGAC
1015991 TG
64 TG
* *
1015993 GCGCATCGGTGCATCA
1 GTGCATCGATGCATCA
1016009 CTCTAAAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 6 0.09
64 45 0.64
65 19 0.27
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGACTG
Found at i:1018623 original size:24 final size:24
Alignment explanation
Indices: 1018554--1018633 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
1018544 CATGACCTCG
1018554 TGCATCGATGCACATTC-AA-GGA
1 TGCATCGATGCACATTCAAATGGA
*
1018576 GTGCATCGGTG--CA-TCAACAT-GA
1 -TGCATCGATGCACATTCAA-ATGGA
*
1018598 TGAATCGATGCACATTCAAATGGA
1 TGCATCGATGCACATTCAAATGGA
1018622 TGCATCGATGCA
1 TGCATCGATGCA
1018634 TTGTTAAGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
20 2 0.04
21 11 0.24
22 3 0.07
23 13 0.28
24 17 0.37
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (24 bp):
TGCATCGATGCACATTCAAATGGA
Found at i:1022482 original size:21 final size:19
Alignment explanation
Indices: 1022449--1022490 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
1022439 AGTTTATTTT
1022449 CATTTTTCAATTTTGAAACAA
1 CATTTTTCAATTTT-AAA-AA
1022470 CATTTTT-ATATTTTAAAAA
1 CATTTTTCA-ATTTTAAAAA
1022489 CA
1 CA
1022491 ATTTCTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 12 0.60
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (19 bp):
CATTTTTCAATTTTAAAAA
Found at i:1024496 original size:64 final size:63
Alignment explanation
Indices: 1024410--1024554 Score: 170
Period size: 64 Copynumber: 2.3 Consensus size: 63
1024400 TGCACTAAGA
* *
1024410 GTGCACCGATGCATCAAGTGCATTCGATGTTTCAA-AATAGCCA-GAGTGCATCGATGCATGG-C
1 GTGCATCGATGCATCAAATGCATTCGATG-TTCAATAATA--CATG-GTGCATCGATGCATGGAC
1024472 TG
62 TG
* *
1024474 GTGCATCGATGCATCAAATGCATTCGATGTTCAATTTAATATATGGTGCATCGATGCATGGATTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTCAA--TAATACATGGTGCATCGATGCATGGACTG
*
1024539 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
1024555 CTCTAAAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
63 5 0.07
64 44 0.62
65 18 0.25
66 4 0.06
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTCAATAATACATGGTGCATCGATGCATGGACTG
Found at i:1029133 original size:21 final size:23
Alignment explanation
Indices: 1029083--1029145 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
1029073 GGTATTGTAA
1029083 TAGTACTTTGTGTACTATGGTAAG
1 TAGTACTTTGTGTACTATGG-AAG
1029107 -AGTACTTTGTGTACT-TGG-AG
1 TAGTACTTTGTGTACTATGGAAG
*
1029127 TAGTACTTTATGTACTATG
1 TAGTACTTTGTGTACTATG
1029146 ACACTTTGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 5 0.14
23 15 0.42
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (23 bp):
TAGTACTTTGTGTACTATGGAAG
Found at i:1037507 original size:7 final size:7
Alignment explanation
Indices: 1037495--1037524 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1037485 AATATGAATG
1037495 TAAAGAA
1 TAAAGAA
1037502 TAAAGAA
1 TAAAGAA
*
1037509 TATAGAA
1 TAAAGAA
1037516 TAAAGAA
1 TAAAGAA
1037523 TA
1 TA
1037525 TGGTGCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (7 bp):
TAAAGAA
Found at i:1044944 original size:90 final size:90
Alignment explanation
Indices: 1044791--1044956 Score: 296
Period size: 90 Copynumber: 1.8 Consensus size: 90
1044781 TAACACACCC
* *
1044791 TTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTTAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
1044856 TTAATTAATTGGAATTTAATAATCT
66 TTAATTAATTGGAATTTAATAATCT
**
1044881 TTTTATATTCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
1044946 TTAATTAATTG
66 TTAATTAATTG
1044957 AAAATAAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (90 bp):
TTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
TTAATTAATTGGAATTTAATAATCT
Found at i:1051696 original size:90 final size:90
Alignment explanation
Indices: 1051543--1051720 Score: 320
Period size: 90 Copynumber: 2.0 Consensus size: 90
1051533 CCTAACACAC
*
1051543 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
1051608 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
*
1051633 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1051698 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
1051721 TTCGGGATTA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:1055671 original size:121 final size:121
Alignment explanation
Indices: 1055529--1055749 Score: 433
Period size: 121 Copynumber: 1.8 Consensus size: 121
1055519 CACATTTTTA
1055529 ATCTATTCATTTTGTTGTTGTTGAATCAAACAGAATACAAATATAAATAAAATTGAAAAAAGAAA
1 ATCTATTCATTTTGTTGTTGTTGAATCAAACAGAATACAAATATAAATAAAATTGAAAAAAGAAA
1055594 AATATATATTATTATTTGAATAGTATAAGGTGATTCAGATTTTTTTCTTAATCATT
66 AATATATATTATTATTTGAATAGTATAAGGTGATTCAGATTTTTTTCTTAATCATT
*
1055650 ATCTATTCATTTTGTTGTTGTTGAATCAAATAGAATACAAATATAAATAAAATTGAAAAAAGAAA
1 ATCTATTCATTTTGTTGTTGTTGAATCAAACAGAATACAAATATAAATAAAATTGAAAAAAGAAA
1055715 AATATATATTATTATTTGAATAGTATAAGGTGATT
66 AATATATATTATTATTTGAATAGTATAAGGTGATT
1055750 ACAAGTTAGG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 99 1.00
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.39
Consensus pattern (121 bp):
ATCTATTCATTTTGTTGTTGTTGAATCAAACAGAATACAAATATAAATAAAATTGAAAAAAGAAA
AATATATATTATTATTTGAATAGTATAAGGTGATTCAGATTTTTTTCTTAATCATT
Found at i:1056516 original size:29 final size:29
Alignment explanation
Indices: 1056474--1056546 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
1056464 TACCTATTTG
* * *
1056474 AACCCTAAAATCTAACAT-TTAAACTCTTA
1 AACCTTAAAATCTAA-ATAATAAAATCTTA
*
1056503 AACCTTAAATTCTAAATAATAAAATCTTA
1 AACCTTAAAATCTAAATAATAAAATCTTA
* *
1056532 AATCTTAAAGTCTAA
1 AACCTTAAAATCTAA
1056547 GCCATAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.05
29 35 0.95
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (29 bp):
AACCTTAAAATCTAAATAATAAAATCTTA
Found at i:1057160 original size:32 final size:32
Alignment explanation
Indices: 1057119--1057257 Score: 147
Period size: 32 Copynumber: 4.3 Consensus size: 32
1057109 ATCGGAGAGT
*
1057119 CGTCGAGAACACAGTGCGTCTTTCAGGGAAGA
1 CGTCGAGAACACAGTGCGTCTTCCAGGGAAGA
*
1057151 CGTCGAGAACACAGTGTGTCTTCCAGGGAAGA
1 CGTCGAGAACACAGTGCGTCTTCCAGGGAAGA
* * *
1057183 CG-CCATGAACACAGTGTGTC-TCCCGAGGAAGA
1 CGTCGA-GAACACAGTGCGTCTTCCAG-GGAAGA
* * * *
1057215 CGTCGGGAACACAGTGCATCTTTCGGGGAAGA
1 CGTCGAGAACACAGTGCGTCTTCCAGGGAAGA
* *
1057247 CGCCGGGAACA
1 CGTCGAGAACA
1057258 AAATGTGTCT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
31 6 0.07
32 82 0.89
33 4 0.04
ACGTcount: A:0.27, C:0.24, G:0.32, T:0.17
Consensus pattern (32 bp):
CGTCGAGAACACAGTGCGTCTTCCAGGGAAGA
Found at i:1057257 original size:64 final size:64
Alignment explanation
Indices: 1057145--1057267 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
1057135 CGTCTTTCAG
** * * *
1057145 GGAAGACGTCGAGAACACAGTGTGTCTTCCAGGGAAGACGCCATGAACACAGTGTGTCTCCCGA
1 GGAAGACGTCGAGAACACAGTGCATCTTCCAGGGAAGACGCCAGGAACAAAATGTGTCTCCCGA
* * * *
1057209 GGAAGACGTCGGGAACACAGTGCATCTTTCGGGGAAGACGCCGGGAACAAAATGTGTCT
1 GGAAGACGTCGAGAACACAGTGCATCTTCCAGGGAAGACGCCAGGAACAAAATGTGTCT
1057268 TCCCTGTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.28, C:0.23, G:0.32, T:0.17
Consensus pattern (64 bp):
GGAAGACGTCGAGAACACAGTGCATCTTCCAGGGAAGACGCCAGGAACAAAATGTGTCTCCCGA
Found at i:1057382 original size:30 final size:30
Alignment explanation
Indices: 1057304--1057384 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
1057294 GCTGAAGACA
*
1057304 TGTGTCTTCCCGGCGACTTTCCGAAGACACAT
1 TGTGT-TT-CCGGCGACTTTCCGAAGACACAC
* ** *
1057336 TGTGTTCCCGAAGACTTTTCGAAGACACAC
1 TGTGTTTCCGGCGACTTTCCGAAGACACAC
1057366 TGTGTTTCCGGCGACTTTC
1 TGTGTTTCCGGCGACTTTC
1057385 GATGGGTACT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
30 34 0.85
31 1 0.03
32 5 0.12
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (30 bp):
TGTGTTTCCGGCGACTTTCCGAAGACACAC
Found at i:1059701 original size:18 final size:18
Alignment explanation
Indices: 1059678--1059712 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1059668 AATATTTAAT
1059678 ATTTTATTTGATAAAATA
1 ATTTTATTTGATAAAATA
*
1059696 ATTTTATTTTATAAAAT
1 ATTTTATTTGATAAAAT
1059713 TTTAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTATTTGATAAAATA
Found at i:1059723 original size:21 final size:22
Alignment explanation
Indices: 1059694--1059746 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
1059684 TTTGATAAAA
*
1059694 TAATTTTATTTTA-TAAAATTT
1 TAATATTATTTTACTAAAATTT
1059715 TAATATTA-TTTACTAAAATTT
1 TAATATTATTTTACTAAAATTT
*
1059736 TAA-AATATTTT
1 TAATATTATTTT
1059747 CATGAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATATTATTTTACTAAAATTT
Found at i:1060033 original size:29 final size:29
Alignment explanation
Indices: 1059991--1060048 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
1059981 ACAACCATTA
1059991 TTCTAAATTAAT-CCTCAAACTTTTGAATG
1 TTCTAAATTAATCCCT-AAACTTTTGAATG
* *
1060020 TTCTAATTTTATCCCTAAACTTTTGAATG
1 TTCTAAATTAATCCCTAAACTTTTGAATG
1060049 ATTTAAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (29 bp):
TTCTAAATTAATCCCTAAACTTTTGAATG
Found at i:1060164 original size:58 final size:59
Alignment explanation
Indices: 1060065--1060191 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 59
1060055 GGGGAACTTA
* * * * *
1060065 TTAGAATGTTCAAAAGTTTGACGACTAATTTAGAATGAGGGTCATATT-TTGGGATGAAT
1 TTAGAATGTTAAAAAATTGGACGACTAATTAAGAATAAGGGTCAT-TTCTTGGGATGAAT
*
1060124 TT-GTAATGTTAAAAAATTGGA-GACTAATTAAGAATAAGGGTCATTTCTTGGGATTAAT
1 TTAG-AATGTTAAAAAATTGGACGACTAATTAAGAATAAGGGTCATTTCTTGGGATGAAT
1060182 TTAGAATGTT
1 TTAGAATGTT
1060192 TAGAAGTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
57 2 0.03
58 40 0.68
59 17 0.29
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (59 bp):
TTAGAATGTTAAAAAATTGGACGACTAATTAAGAATAAGGGTCATTTCTTGGGATGAAT
Found at i:1060549 original size:60 final size:59
Alignment explanation
Indices: 1060362--1060553 Score: 219
Period size: 60 Copynumber: 3.2 Consensus size: 59
1060352 ACCAACAAAT
* * * *
1060362 TCGCAACGCGAACTCCAATTTCGCAACGCGAATATGT-AAA-TCGCAAAGCGAATTTGTAAA
1 TCGCAACGCGAAGT-CAAATTCGCAACGCG-ATAT-TCAAATTCGCAACGCGAATCTGTAAA
* * * * **
1060422 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGT-TAAA
1 TCGCAACGC-GAAGTCAAATTCGCAACGCGATATTCAAATTCGCAACGCGAATCTGTAAA
1060481 TTCGCAACGCGATAGTCAAATTCGCAACGCGATATTCAAATTCGCAACGCGAATCTGTAAA
1 -TCGCAACGCGA-AGTCAAATTCGCAACGCGATATTCAAATTCGCAACGCGAATCTGTAAA
1060542 TCGCAACGCGAA
1 TCGCAACGCGAA
1060554 TTTGTAAAGC
Statistics
Matches: 111, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
58 1 0.01
59 13 0.12
60 89 0.80
61 8 0.07
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (59 bp):
TCGCAACGCGAAGTCAAATTCGCAACGCGATATTCAAATTCGCAACGCGAATCTGTAAA
Found at i:1060554 original size:140 final size:140
Alignment explanation
Indices: 1060357--1060628 Score: 447
Period size: 140 Copynumber: 1.9 Consensus size: 140
1060347 AAATGACCAA
*
1060357 CAAATTCGCAACGCGAACTCCAATTTCGCAACGCGAATATGTAAATCGCAAAGCGAATTTGTAAA
1 CAAATTCGCAACGCGAACTCCAAATTCGCAACGCGAATATGTAAATCGCAAAGCGAATTTGTAAA
* *
1060422 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTTAAATTCGCA
66 GCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCA
1060487 ACGCGATAGT
131 ACGCGATAGT
* * *
1060497 CAAATTCGCAACGCGATA-TTCAAATTCGCAACGCGAATCTGTAAATCGCAACGCGAATTTGTAA
1 CAAATTCGCAACGCGA-ACTCCAAATTCGCAACGCGAATATGTAAATCGCAAAGCGAATTTGTAA
* * *
1060561 AGCGTAACACATAAGTCAAATTCGCAACGCGATAGTCAAATTCGTAACACAAAAGTCAAATTCGC
65 AGCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGC
1060626 AAC
130 AAC
1060629 TGAATTTCAA
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
140 121 0.99
141 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.21
Consensus pattern (140 bp):
CAAATTCGCAACGCGAACTCCAAATTCGCAACGCGAATATGTAAATCGCAAAGCGAATTTGTAAA
GCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCA
ACGCGATAGT
Found at i:1060599 original size:20 final size:20
Alignment explanation
Indices: 1060357--1060628 Score: 197
Period size: 20 Copynumber: 13.6 Consensus size: 20
1060347 AAATGACCAA
*
1060357 CAAATTCGCAACGCGA-ACT
1 CAAATTCGCAACGCGATAGT
*
1060376 CCAATTTCGCAACGCGAATATGT
1 -CAAATTCGCAACGCG-ATA-GT
* *
1060399 -AAA-TCGCAAAGCGAATTTGT
1 CAAATTCGCAACGCG-A-TAGT
*
1060419 -AAA-TCGCAACACAGA-AGT
1 CAAATTCGCAACGC-GATAGT
1060437 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
* * *
1060457 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGATAGT
*
1060477 TAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
*
1060497 CAAATTCGCAACGCGATATT
1 CAAATTCGCAACGCGATAGT
*
1060517 CAAATTCGCAACGCGAATCTGT
1 CAAATTCGCAACGCG-AT-AGT
*
1060539 -AAA-TCGCAACGCGAATTTGT
1 CAAATTCGCAACGCG-A-TAGT
* * *
1060559 -AAA-GCGTAACAC-ATAAGT
1 CAAATTCGCAACGCGAT-AGT
1060577 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
* * * *
1060597 CAAATTCGTAACACAAAAGT
1 CAAATTCGCAACGCGATAGT
1060617 CAAATTCGCAAC
1 CAAATTCGCAAC
1060629 TGAATTTCAA
Statistics
Matches: 205, Mismatches: 32, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
17 1 0.00
18 5 0.02
19 8 0.04
20 175 0.85
21 13 0.06
22 2 0.01
23 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACGCGATAGT
Found at i:1060640 original size:19 final size:19
Alignment explanation
Indices: 1060616--1060685 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
1060606 AACACAAAAG
1060616 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
1060635 TCAAA-TCGCAACTAGATTT
1 TCAAATTCGCAACT-GAATT
* *
1060654 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
1060674 T-AATTTCGCAAC
1 TCAAATTCGCAAC
1060686 AGGTTTTAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.19
19 22 0.52
20 12 0.29
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:1060686 original size:19 final size:19
Alignment explanation
Indices: 1060659--1060705 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
1060649 GATTTTCGAA
1060659 TTCGCAACACGAATTTAAT
1 TTCGCAACACGAATTTAAT
** *
1060678 TTCGCAACA-GGTTTTAGT
1 TTCGCAACACGAATTTAAT
1060696 TTCGCAACAC
1 TTCGCAACAC
1060706 AAATGTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (19 bp):
TTCGCAACACGAATTTAAT
Found at i:1060860 original size:14 final size:16
Alignment explanation
Indices: 1060841--1060877 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1060831 TCCCCATCTC
1060841 TAATTTT-TTT-TACA
1 TAATTTTATTTCTACA
*
1060855 TAATTTTATTTCTATA
1 TAATTTTATTTCTACA
1060871 TAATTTT
1 TAATTTT
1060878 CAATAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTTTATTTCTACA
Found at i:1061282 original size:41 final size:40
Alignment explanation
Indices: 1061237--1061329 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 40
1061227 TGTGTTTCAC
* * * *
1061237 GTTGCGAATTTAACTTTTGTGTTGTAAATTTGAAATTCAGT
1 GTTGCGAATTTAACTATCGCGTTGCAAATTTG-AATTCAGT
* * * *
1061278 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTAACTATCGCGTTGCAAATTTGAATTCAGT
1061318 GTTGCGAATTTA
1 GTTGCGAATTTA
1061330 GCAAATCGTA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 17 0.40
41 26 0.60
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.43
Consensus pattern (40 bp):
GTTGCGAATTTAACTATCGCGTTGCAAATTTGAATTCAGT
Found at i:1061303 original size:20 final size:20
Alignment explanation
Indices: 1061236--1061328 Score: 80
Period size: 20 Copynumber: 4.6 Consensus size: 20
1061226 TTGTGTTTCA
* *
1061236 CGTTGCGAATTTAACTTTTG
1 CGTTGCGAATTTGACTTCTG
* ** * *
1061256 TGTTGTAAATTTGAAATTCAG
1 CGTTGCGAATTTG-ACTTCTG
*
1061277 TGTTGCGAATTTGACTATC-G
1 CGTTGCGAATTTGACT-TCTG
1061297 CGTTGCGAATTTGACTTCTG
1 CGTTGCGAATTTGACTTCTG
*
1061317 TGTTGCGAATTT
1 CGTTGCGAATTT
1061329 AGCAAATCGT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.03
20 39 0.67
21 17 0.29
ACGTcount: A:0.22, C:0.13, G:0.23, T:0.43
Consensus pattern (20 bp):
CGTTGCGAATTTGACTTCTG
Found at i:1064301 original size:30 final size:30
Alignment explanation
Indices: 1064267--1064353 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
1064257 ATTGACCGTA
1064267 GGGACAAACCAAGGAAAAGCACTGATACCC
1 GGGACAAACCAAGGAAAAGCACTGATACCC
*
1064297 GGGACAAACCTAGGAAAAGCACTGATACCC
1 GGGACAAACCAAGGAAAAGCACTGATACCC
* *
1064327 GGGACAAGCCAAGGAAAAGCATTGATA
1 GGGACAAACCAAGGAAAAGCACTGATA
1064354 GGCCCGGAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (30 bp):
GGGACAAACCAAGGAAAAGCACTGATACCC
Found at i:1065271 original size:33 final size:33
Alignment explanation
Indices: 1065229--1065291 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
1065219 AATGAAATAA
* *
1065229 AATATTTTATATAAAAATATATGTATTTATGGG
1 AATATTTTATACAAAAATACATGTATTTATGGG
*
1065262 AATATTTTATACAAGAATACATGTATTTAT
1 AATATTTTATACAAAAATACATGTATTTAT
1065292 CCAAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (33 bp):
AATATTTTATACAAAAATACATGTATTTATGGG
Found at i:1070017 original size:3 final size:3
Alignment explanation
Indices: 1070009--1070038 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
1069999 AATTTTATTT
1070009 ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
1070039 TAGAACCCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1070540 original size:139 final size:136
Alignment explanation
Indices: 1070305--1070574 Score: 360
Period size: 139 Copynumber: 2.0 Consensus size: 136
1070295 TTGTTCCTAC
* * * *
1070305 GTGATGAGGAAGTCTGGTTATCTGAGGATGACTGCTCCTAAGTGTTGAGGACATTGGTCGGTGGA
1 GTGATGAGGAAGTCCGGTTATCTGAGGATGACTGCTCCTAAGTGATGAGGAAATTAGTCGGTGGA
* ** * *
1070370 CGACATTGTTCCTACGTGATGAGGACTTCTAGTTGTCTTTAGGGATTATTAGGAAACAACATGAT
66 CGACATTGTTCCTACGTGATGAGGACATCTAGCCGTCTTTAGGGATAATTAGGAAACAACACGAT
1070435 TCTTAT
131 TCTTAT
* * *
1070441 GTGATGATGAAGTCCGGTTATCTGAGGATGACGCTGCTCCTACGTGATGAGGAAATCTAGTTGGT
1 GTGATGAGGAAGTCCGGTTATCTGAGGATGA--CTGCTCCTAAGTGATGAGGAAAT-TAGTCGGT
* * * * *
1070506 GGACGACCTTGTTCCTATGTGATGATGACATCTAGCCGTCTTTAGGGATAATTTGGAGACAACAC
63 GGACGACATTGTTCCTACGTGATGAGGACATCTAGCCGTCTTTAGGGATAATTAGGAAACAACAC
1070571 GATT
128 GATT
1070575 TGTAACATCC
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
136 29 0.25
138 20 0.18
139 65 0.57
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (136 bp):
GTGATGAGGAAGTCCGGTTATCTGAGGATGACTGCTCCTAAGTGATGAGGAAATTAGTCGGTGGA
CGACATTGTTCCTACGTGATGAGGACATCTAGCCGTCTTTAGGGATAATTAGGAAACAACACGAT
TCTTAT
Found at i:1071467 original size:20 final size:20
Alignment explanation
Indices: 1071442--1071493 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1071432 CGATACTGAG
1071442 GGTATCGATACCGTCTAGCA
1 GGTATCGATACCGTCTAGCA
*
1071462 GGTATCAATACCGTCTAGCA
1 GGTATCGATACCGTCTAGCA
*
1071482 AGTATCGATACC
1 GGTATCGATACC
1071494 ATTTTGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCGTCTAGCA
Found at i:1072487 original size:22 final size:23
Alignment explanation
Indices: 1072457--1072501 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1072447 GAGTATATGA
*
1072457 TGGTGTAATA-AAGTATAAGAAT
1 TGGTATAATAGAAGTATAAGAAT
*
1072479 TGGTATAATAGAATTATAAGAAT
1 TGGTATAATAGAAGTATAAGAAT
1072502 AAGTGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (23 bp):
TGGTATAATAGAAGTATAAGAAT
Found at i:1073197 original size:214 final size:215
Alignment explanation
Indices: 1072828--1073257 Score: 844
Period size: 214 Copynumber: 2.0 Consensus size: 215
1072818 GCTAGAGGTA
1072828 TAATTGGCATGCCAAGAGTCGAGTGTTACTCCTTACATAGGTCCTTCGGGACATAGTATACAGAG
1 TAATTGGCATGCCAAGAGTCGAGTGTTACTCCTTACATAGGTCCTTCGGGACATAGTATACAGAG
1072893 GTCCTTCGGGATAAATTTCACATACCACTCAGTGGATCCTATACGAGCTGTGGTGACAACATATG
66 GTCCTTCGGGATAAATTTCACATACCACTCAGTGGATCCTATACGAGCTGTGGTGACAACATATG
*
1072958 TTCACAACCTCTATGTACTCGCATATCTTTAGTTCTCACA-TTGTACATGGGCTAATAAAAAGAC
131 TTCACAACCTCTATGTACTCGCATATCTTTAGTTCTCACATTTATACATGGGCTAATAAAAAGAC
1073022 AACAACAAATACAATATATG
196 AACAACAAATACAATATATG
1073042 TAATTGGCATGCCAAGAGTCGAGTGTTACTCCTTACATAGGTCCTTCGGGACATAGTATACAGAG
1 TAATTGGCATGCCAAGAGTCGAGTGTTACTCCTTACATAGGTCCTTCGGGACATAGTATACAGAG
1073107 GTCCTTCGGGATAAATTTCACATACCACTCAGTGGATCCTATACGAGCTGTGGTGACAACATATG
66 GTCCTTCGGGATAAATTTCACATACCACTCAGTGGATCCTATACGAGCTGTGGTGACAACATATG
1073172 TTCACAACCTCTATGTACTCGCATATCTTTAGTTCTCACATTTATACATGGGCTAATAAAAAGAC
131 TTCACAACCTCTATGTACTCGCATATCTTTAGTTCTCACATTTATACATGGGCTAATAAAAAGAC
1073237 AACAACAAATACAATATATG
196 AACAACAAATACAATATATG
1073257 T
1 T
1073258 GATGTATATG
Statistics
Matches: 214, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
214 170 0.79
215 44 0.21
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (215 bp):
TAATTGGCATGCCAAGAGTCGAGTGTTACTCCTTACATAGGTCCTTCGGGACATAGTATACAGAG
GTCCTTCGGGATAAATTTCACATACCACTCAGTGGATCCTATACGAGCTGTGGTGACAACATATG
TTCACAACCTCTATGTACTCGCATATCTTTAGTTCTCACATTTATACATGGGCTAATAAAAAGAC
AACAACAAATACAATATATG
Found at i:1074249 original size:140 final size:139
Alignment explanation
Indices: 1073872--1074362 Score: 652
Period size: 140 Copynumber: 3.5 Consensus size: 139
1073862 TGGGGGTGTT
* * *
1073872 ACACGGTTCCTACGTGATGAGGAAGTCT-AGTTATCTGATGATGA-CACTACT-CTACGTGATGA
1 ACACGGTTCCTACGTGATGAGGAAGTCTGA-TTATCTGAGGATGATGA-TACTCCTACATGATGA
* * * *
1073934 GGAGATTTGGTCGGTGGA-AGACATTGTTCCAACGTGATGAGGATGT-TAACCATCTTTAGGGAT
64 GGAGATATGGTCAGTGGACA-ACATTGTTCCTACGTGATGAGGATGTCTAGCCATCTTTAGGGAT
*
1073997 AATTTGGAGACA
128 AATTTGGAGATA
* * * *
1074009 ACACGGTTCCTACATGATGAGGAAGTCTGATTGTCTGAGGATGACGCTACTCCTACAT-ATTGAG
1 ACACGGTTCCTACGTGATGAGGAAGTCTGATTATCTGAGGATGATGATACTCCTACATGA-TGAG
*
1074073 GAGATATGGTCAGTGGACAACATTATTCCTACGTGATGAGGATGTCTAGCCATCTTTAGGGATAA
65 GAGATATGGTCAGTGGACAACATTGTTCCTACGTGATGAGGATGTCTAGCCATCTTTAGGGATAA
1074138 TTTGGAGATA
130 TTTGGAGATA
* * * * *
1074148 ACATGGTTCCTATGTGATGAGGAAGTCTGGTTATCTGAAGGATGATGATGCTCCTACGTGATGAG
1 ACACGGTTCCTACGTGATGAGGAAGTCTGATTATCTG-AGGATGATGATACTCCTACATGATGAG
* *
1074213 GAGATATGGTCAGTGGACAACATTGTTCCTATGTGATGAGGATGTCTAGCCGTCTTTAGGGATAA
65 GAGATATGGTCAGTGGACAACATTGTTCCTACGTGATGAGGATGTCTAGCCATCTTTAGGGATAA
1074278 TTTGGAGATA
130 TTTGGAGATA
* * ** * *
1074288 ACACGGTTCCTACGTGATGAGGAAGTATGATTATCTGAGGATGATGTTGTTCCTACACGTTGAGG
1 ACACGGTTCCTACGTGATGAGGAAGTCTGATTATCTGAGGATGATGATACTCCTACATGATGAGG
*
1074353 AGATCTGGTC
66 AGATATGGTC
1074363 GGTTGCCAAT
Statistics
Matches: 312, Mismatches: 34, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
137 44 0.14
138 49 0.16
139 92 0.29
140 126 0.40
141 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (139 bp):
ACACGGTTCCTACGTGATGAGGAAGTCTGATTATCTGAGGATGATGATACTCCTACATGATGAGG
AGATATGGTCAGTGGACAACATTGTTCCTACGTGATGAGGATGTCTAGCCATCTTTAGGGATAAT
TTGGAGATA
Found at i:1075076 original size:167 final size:169
Alignment explanation
Indices: 1074836--1075151 Score: 387
Period size: 167 Copynumber: 1.9 Consensus size: 169
1074826 GACGGAATTA
*
1074836 TCTCAAGCGAGATGAAATTTATTTTAAGGAAAAACAATATCAAATGTTCGTGTCTTAAGGAAGAC
1 TCTCAAGCGAGATGAAATTTATTTTAAGGAAAAACAATATCAAATGTTCATGTCTTAAGGAAGAC
** *
1074901 TATCTCAAGCGAGA-CAAAGTTTGTTTTGAGAAAAACAATCTCAAGTGAAATCAACTTTGTTTCA
66 TATCTCAAGCGAGATCAAA-TTTGTTTCAAGAAAAACAATATCAAGTGAAATCAACTTTGTTTCA
1074965 AGTG-AAACAAATTAAAAATTTTCATCTCAAGGGAAAACTG
130 AGTGCAAA-AAATTAAAAATTTTCATCTCAAGGGAAAACTG
* * *
1075005 TCTCAAGCGAGATGAAATTTATTTTGA-GATAAACAATCTCAAA-GATT-ATGT-TTCAAATGGA
1 TCTCAAGCGAGATGAAATTTATTTTAAGGAAAAACAATATCAAATG-TTCATGTCTT--AA-GGA
* * * * *
1075066 A-A-TGTCTCAAGCGAGATGAAATTTGTTTCAAGGAAAACAATATCAAGTGAGATCAATTTTGTT
62 AGACTATCTCAAGCGAGATCAAATTTGTTTCAAGAAAAACAATATCAAGTGAAATCAACTTTGTT
* * *
1075129 TTAGGTGCAAAAAATTCAAAATT
127 TCAAGTGCAAAAAATTAAAAATT
1075152 GGTGGAAAAT
Statistics
Matches: 126, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
166 2 0.02
167 69 0.55
168 25 0.20
169 30 0.24
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (169 bp):
TCTCAAGCGAGATGAAATTTATTTTAAGGAAAAACAATATCAAATGTTCATGTCTTAAGGAAGAC
TATCTCAAGCGAGATCAAATTTGTTTCAAGAAAAACAATATCAAGTGAAATCAACTTTGTTTCAA
GTGCAAAAAATTAAAAATTTTCATCTCAAGGGAAAACTG
Found at i:1077504 original size:15 final size:15
Alignment explanation
Indices: 1077484--1077553 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
1077474 TTTGCATGTG
1077484 CTTTTTTTCTTTCTT
1 CTTTTTTTCTTTCTT
*
1077499 CTTTTTTCCTTTAC-T
1 CTTTTTTTCTTT-CTT
*
1077514 CTTTTTTTCTTTGTT
1 CTTTTTTTCTTTCTT
*
1077529 TTTTTTTTC-TTCTT
1 CTTTTTTTCTTTCTT
1077543 CATTTTTTTCT
1 C-TTTTTTTCT
1077554 CTTTGCTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
14 4 0.09
15 40 0.89
16 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (15 bp):
CTTTTTTTCTTTCTT
Found at i:1080510 original size:25 final size:26
Alignment explanation
Indices: 1080482--1080535 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1080472 CCATTTTTTG
*
1080482 AAAAACAATTA-AATATTATTTTTAA
1 AAAAACAATTATAATATTATTTTGAA
* * *
1080507 AAAAACCATTATGATTTTATTTTGAA
1 AAAAACAATTATAATATTATTTTGAA
1080533 AAA
1 AAA
1080536 TTGGCAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (26 bp):
AAAAACAATTATAATATTATTTTGAA
Found at i:1081256 original size:20 final size:20
Alignment explanation
Indices: 1081240--1081323 Score: 168
Period size: 20 Copynumber: 4.2 Consensus size: 20
1081230 TTCGCAATAT
1081240 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
1081260 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
1081280 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
1081300 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
1081320 GAAT
1 GAAT
1081324 CTGACTATCG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (20 bp):
GAATACGTAAATCGCAATGC
Found at i:1081333 original size:20 final size:20
Alignment explanation
Indices: 1081310--1081415 Score: 169
Period size: 20 Copynumber: 5.3 Consensus size: 20
1081300 GAATACGTAA
* *
1081310 ATCGCAATGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
*
1081330 ATCGCAACGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
1081350 ATCGCAACG-GATTCTGACT
1 ATCGCAACGCGATTCTGACT
1081369 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1081389 ATCGCAACGGGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1081409 ATCGCAA
1 ATCGCAA
1081416 TACTGAATTT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
19 18 0.22
20 62 0.77
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Done.