Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 315 of 427
Found at i:91686287 original size:222 final size:222
Alignment explanation
Indices: 91685900--91686369 Score: 719
Period size: 222 Copynumber: 2.1 Consensus size: 222
91685890 CATCAGTTTG
* * *
91685900 CTCCCTTGCTACCTCAAAAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGGAG
1 CTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCTCAGAGAG
* * *
91685965 ATAAGGCCAATGGCTAAAATCTACTCCCCTACTACCTCGAGAAGATAAGATTCACCATTTTTTAT
66 ATAAGGACAATGGCTAAAATCTACTCCCCTACTACCTCGAGAAGATAAGATTCACCACTTTTGAT
* * *
91686030 TTGCCCCACTGCTATCTCAAGGAGACAAGATCTACAATCTTCAGTCTTTTCCCTTGCTACCTCAA
131 CTGCCCCACTGCTATCTCAAGGAGACAAAATCTACAATCTTCAGTCTGTTCCCTTGCTACCTCAA
91686095 GAAGATAAGACTACAATCTTCAGCCTA
196 GAAGATAAGACTACAATCTTCAGCCTA
* *
91686122 CTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTGCCTTAGAGAG
1 CTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCTCAGAGAG
*** * * * *
91686187 ATAAGGATGGTGGCTAAAATCTGCTCCCTTGCTACCTCGGGAAGATAAGATTCA-CAGCTTTTGA
66 ATAAGGACAATGGCTAAAATCTACTCCCCTACTACCTCGAGAAGATAAGATTCACCA-CTTTTGA
91686251 TCTGCCCCACTGCTATCTCAAGGAGACAAAATCTACAATCTTCAGTCTGTTCCCTTGCTACCTCA
130 TCTGCCCCACTGCTATCTCAAGGAGACAAAATCTACAATCTTCAGTCTGTTCCCTTGCTACCTCA
* * *
91686316 GGAAGATAAGACTACAATTTTCAGCCTG
195 AGAAGATAAGACTACAATCTTCAGCCTA
91686344 CTCCCTTGCTACCTC-AGAGAGATAAG
1 CTCCCTTGCTACCTCAAGA-AGATAAG
91686370 GCTAGTGGCT
Statistics
Matches: 225, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
221 5 0.02
222 220 0.98
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (222 bp):
CTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCTCAGAGAG
ATAAGGACAATGGCTAAAATCTACTCCCCTACTACCTCGAGAAGATAAGATTCACCACTTTTGAT
CTGCCCCACTGCTATCTCAAGGAGACAAAATCTACAATCTTCAGTCTGTTCCCTTGCTACCTCAA
GAAGATAAGACTACAATCTTCAGCCTA
Found at i:91686289 original size:178 final size:177
Alignment explanation
Indices: 91686105--91686641 Score: 774
Period size: 178 Copynumber: 3.0 Consensus size: 177
91686095 GAAGATAAGA
* * * *
91686105 CTACAATCTTCAGCCTACTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTTCAGCCTACTCC
1 CTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCC
* * * * *
91686170 CTTGCTGCCTTAGAGAGATAAGGATGGTGGCTAAAATCTGCTCCCTTGCTACCTCGGGAAGATAA
66 CTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAA
* *
91686235 GATTCACAG-CTTTTGATCTGCCCCACTGCTATCTCAAGGAGACAAAAT
131 GATTCAC-GTC-TTTGATCTGCTCCACTGCTATTTCAAGGAGACAAAAT
* *
91686283 CTACAATCTTCAGTCTGTTCCCTTGCTACCTCAGGAAGATAAGACTACAATTTTCAGCCTGCTCC
1 CTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCC
*
91686348 CTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAA
66 CTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAA
* * * * *
91686413 GATTCATCGTCTTTGATTTGCTCCACTGTTATTTTAGGGAGACAAGAT
131 GATTCA-CGTCTTTGATCTGCTCCACTGCTATTTCAAGGAGACAAAAT
*
91686461 CTACAATCTTCAGTCTGCTCCCTTGCTACCTCGGGAAGATAAGACTACAATCTTCAGCCTGCTCC
1 CTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCC
* * * *
91686526 TTTGCTACCTCAAAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGATACCTTGGGAAGATAA
66 CTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAA
*
91686591 GATTTGC-CGTCTTCGATCTGCTCCACTGCTATTTC-AGGAAGACAAAAT
131 GA-TT-CACGTCTTTGATCTGCTCCACTGCTATTTCAAGG-AGACAAAAT
91686639 CTA
1 CTA
91686642 AATTCACCGA
Statistics
Matches: 321, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
177 2 0.01
178 314 0.98
179 4 0.01
180 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (177 bp):
CTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCC
CTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAA
GATTCACGTCTTTGATCTGCTCCACTGCTATTTCAAGGAGACAAAAT
Found at i:91687945 original size:11 final size:11
Alignment explanation
Indices: 91687931--91687956 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
91687921 TTTGATTGAT
91687931 TTTTATTATTA
1 TTTTATTATTA
91687942 TTTTATTATTA
1 TTTTATTATTA
91687953 TTTT
1 TTTT
91687957 TTTTTTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:91693437 original size:20 final size:20
Alignment explanation
Indices: 91693412--91693452 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
91693402 TAAGAAAAAT
91693412 AGTAAAGTAAAAAAAAACTA
1 AGTAAAGTAAAAAAAAACTA
91693432 AGTAAAGTAAAAAAAAACTA
1 AGTAAAGTAAAAAAAAACTA
91693452 A
1 A
91693453 CACTTTGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (20 bp):
AGTAAAGTAAAAAAAAACTA
Found at i:91695532 original size:42 final size:43
Alignment explanation
Indices: 91695472--91695584 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 43
91695462 GAAACCACTG
*
91695472 TCCCAGATAG-GGTCTTACACGAAATCA-AA-TACGATGCCAACA
1 TCCCAGAT-GTGGTCTTACACGAAATCATAAGT-CGATACCAACA
* * *
91695514 TTCCAGATGTGGTCTTACATGTAAATCATAAGTCGATACCAACG
1 TCCCAGATGTGGTCTTACACG-AAATCATAAGTCGATACCAACA
*
91695558 TCCCAGACGTGGTCTTACACGAAATCA
1 TCCCAGATGTGGTCTTACACGAAATCA
91695585 CATATCGGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 17 0.28
43 12 0.20
44 29 0.48
45 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
TCCCAGATGTGGTCTTACACGAAATCATAAGTCGATACCAACA
Found at i:91695564 original size:44 final size:42
Alignment explanation
Indices: 91695423--91695584 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
91695413 TCGTACAATG
* * * * * * *
91695423 CCAATGTCCCAAACGTGGTCTTACATGTAATTAAATACCGAAA
1 CCAACGTCCCAGATGTGGTCTTACACGAAATCAAATA-CGATA
*
91695466 CC-ACTGTCCCAGATAG-GGTCTTACACGAAATCAAATACGATG
1 CCAAC-GTCCCAGAT-GTGGTCTTACACGAAATCAAATACGATA
* * *
91695508 CCAACATTCCAGATGTGGTCTTACATGTAAATCATAAGT-CGATA
1 CCAACGTCCCAGATGTGGTCTTACACG-AAATCA-AA-TACGATA
*
91695552 CCAACGTCCCAGACGTGGTCTTACACGAAATCA
1 CCAACGTCCCAGATGTGGTCTTACACGAAATCA
91695585 CATATCGGAT
Statistics
Matches: 96, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 23 0.24
43 41 0.43
44 30 0.31
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
CCAACGTCCCAGATGTGGTCTTACACGAAATCAAATACGATA
Found at i:91699319 original size:29 final size:29
Alignment explanation
Indices: 91699286--91699357 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 29
91699276 GAATTCTGTG
* * *
91699286 GAGTTTTGGCGGTTTATTCGTAAATATTA
1 GAGTTTTGGCGGTTTATTAGCAAATATGA
* * ** *
91699315 GAGTTCTAGTTGTTTATTAGCAAATATGG
1 GAGTTTTGGCGGTTTATTAGCAAATATGA
91699344 GAGTTTTGGCGGTT
1 GAGTTTTGGCGGTT
91699358 AATCCGCAAA
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.07, G:0.28, T:0.43
Consensus pattern (29 bp):
GAGTTTTGGCGGTTTATTAGCAAATATGA
Found at i:91701118 original size:35 final size:35
Alignment explanation
Indices: 91701079--91701148 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
91701069 CAACATGCCT
91701079 TGCATGAAATAATCACAATAGAAAATAGACACAAG
1 TGCATGAAATAATCACAATAGAAAATAGACACAAG
*
91701114 TGCATGAAATAATCACAATAGGAAATAGACACAAG
1 TGCATGAAATAATCACAATAGAAAATAGACACAAG
91701149 GAATAATGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.17
Consensus pattern (35 bp):
TGCATGAAATAATCACAATAGAAAATAGACACAAG
Found at i:91701130 original size:19 final size:18
Alignment explanation
Indices: 91701079--91701132 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 18
91701069 CAACATGCCT
91701079 TGCATGAAATAATCACAA
1 TGCATGAAATAATCACAA
91701097 T--A-GAAAATAGA-CACAA
1 TGCATG-AAATA-ATCACAA
91701113 GTGCATGAAATAATCACAA
1 -TGCATGAAATAATCACAA
91701132 T
1 T
91701133 AGGAAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
15 1 0.03
16 11 0.38
17 2 0.07
18 3 0.10
19 11 0.38
20 1 0.03
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.20
Consensus pattern (18 bp):
TGCATGAAATAATCACAA
Found at i:91705114 original size:32 final size:32
Alignment explanation
Indices: 91705078--91705142 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
91705068 TGTATGCATT
91705078 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
91705110 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
91705142 T
1 T
91705143 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:91706654 original size:26 final size:26
Alignment explanation
Indices: 91706625--91706677 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
91706615 TTTACAGTTT
*
91706625 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
91706651 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
91706677 T
1 T
91706678 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:91708778 original size:44 final size:43
Alignment explanation
Indices: 91708730--91708888 Score: 164
Period size: 44 Copynumber: 3.7 Consensus size: 43
91708720 TATGTGTTAT
91708730 CGTGTAAGACCACGTCTGGGACATTGGCATC-AACTTATGTTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGAA-TT-TGTTTTA
* * *
91708774 CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGAATTTG-TTTTA
** * * *
91708817 -GTGTAAGACCTTGTTTGGGACAGTGGCATCGATATTTG-ATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-ATTTGTTTTA
* *
91708859 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
91708889 TGTACAAGCT
Statistics
Matches: 95, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 30 0.32
44 35 0.37
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGAATTTGTTTTA
Found at i:91708836 original size:42 final size:43
Alignment explanation
Indices: 91708717--91708888 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
91708707 ACATAGGATC
* * *
91708717 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCATGTCTGGGACGTTGGCAT
*
91708760 C-A-ACTTATGTTTTACGTGTAAGACCATGTCTGGGACGTTGGCAT
1 CGATA-TT-TG-ATTACGTGTAAGACCATGTCTGGGACGTTGGCAT
** * *
91708804 CG-TATTTGATTTTGTGTAAGACCTTGTTTGGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCATGTCTGGGAC-GTTGGCAT
* *
91708846 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCATGTCTGGGACGTTGGCAT
91708889 TGTACAAGCT
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 32 0.30
43 38 0.36
44 31 0.29
45 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:91713300 original size:29 final size:29
Alignment explanation
Indices: 91713262--91713339 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
91713252 CATACCCTCG
* *
91713262 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
91713291 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
91713320 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACCCAGTGCCA
91713340 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACCCAGTGCCATATATTTCC
Found at i:91721151 original size:28 final size:29
Alignment explanation
Indices: 91721111--91721183 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
91721101 CCTCCGAGCT
** * *
91721111 CGCACACCCAGTGCCGTAT-TTTTCAGCT
1 CGCACACTTAGTGCCGTATATTTCCAGCA
* *
91721139 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCA
91721168 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
91721184 ATCTCGTCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 15 0.42
29 21 0.58
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:91722838 original size:27 final size:26
Alignment explanation
Indices: 91722770--91723181 Score: 300
Period size: 27 Copynumber: 15.5 Consensus size: 26
91722760 ACTCACATAG
* * *
91722770 GGGCAAAACAGTCAATTTACCATGTAA
1 GGGCAAAATAGTCATTTTA-CATATAA
***
91722797 GGGCATTTTAGTCATTTTACGATATAA
1 GGGCAAAATAGTCATTTTAC-ATATAA
* * *
91722824 AGGCAAAATAATCATTTTACCTCATAA
1 GGGCAAAATAGTCATTTTACAT-ATAA
* * **
91722851 GGGAAAAATAATCATTTTACCACGT-A
1 GGGCAAAATAGTCATTTTA-CATATAA
*
91722877 GGAGCAAAACT-GTCATTTTACGACATAA
1 GG-GCAAAA-TAGTCATTTTAC-ATATAA
91722905 GGGCAAAATAGTCA-TTTATCATATAA
1 GGGCAAAATAGTCATTTTA-CATATAA
** ***
91722931 GGGCAAAATAGTTTTTTTACCGCGTAA
1 GGGCAAAATAGTCATTTTA-CATATAA
* *
91722958 GGGAAAAATAGTCA-TTTATCACATAA
1 GGGCAAAATAGTCATTTTA-CATATAA
* *
91722984 GGGCAAAATAGTCTTTTTACCATGTAA
1 GGGCAAAATAGTCATTTTA-CATATAA
*
91723011 GGGCAAAATAGTCA-TTTATCACATAA
1 GGGCAAAATAGTCATTTTA-CATATAA
* * *
91723037 GGGCAAAATAGTCTTTTTGCCATGTAA
1 GGGCAAAATAGTCATTTT-ACATATAA
*
91723064 AGGCAAAATAGTCATTTATCACA-A-AA
1 GGGCAAAATAGTCATTT-T-ACATATAA
* **
91723090 GGGCAAAATAGTCTTTTTACCACGTAA
1 GGGCAAAATAGTCATTTTA-CATATAA
91723117 GGGCAAAATAGTCA-TTTATCATATAA
1 GGGCAAAATAGTCATTTTA-CATATAA
** *
91723143 GGGCAAAATAGTTTTTTTACCATGTAA
1 GGGCAAAATAGTCATTTTA-CATATAA
91723170 GGGCAAAATAGT
1 GGGCAAAATAGT
91723182 TTTTTTAGTG
Statistics
Matches: 305, Mismatches: 62, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.00
25 3 0.01
26 109 0.36
27 184 0.60
28 8 0.03
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (26 bp):
GGGCAAAATAGTCATTTTACATATAA
Found at i:91722960 original size:53 final size:53
Alignment explanation
Indices: 91722762--91723181 Score: 479
Period size: 53 Copynumber: 7.9 Consensus size: 53
91722752 TATAAATAAC
* * ** ***
91722762 TCACATAGGGGCAAAACAGTCAATTTACCATGTAAGGGCATTTTAGTCATTT-
1 TCACATAAGGGCAAAATAGTCTTTTTACCATGTAAGGGCAAAATAGTCATTTA
* * * * * * *
91722814 TACGATATAAAGGCAAAATAATCATTTTACC-TCATAAGGGAAAAATAATCATTTTA
1 T-C-ACATAAGGGCAAAATAGTCTTTTTACCAT-GTAAGGGCAAAATAGTCA-TTTA
* * * * **
91722870 CCACGT-AGGAGCAAAACT-GTCATTTTACGACATAAGGGCAAAATAGTCATTTA
1 TCACATAAGG-GCAAAA-TAGTCTTTTTACCATGTAAGGGCAAAATAGTCATTTA
* * ** *
91722923 TCATATAAGGGCAAAATAGTTTTTTTACCGCGTAAGGGAAAAATAGTCATTTA
1 TCACATAAGGGCAAAATAGTCTTTTTACCATGTAAGGGCAAAATAGTCATTTA
91722976 TCACATAAGGGCAAAATAGTCTTTTTACCATGTAAGGGCAAAATAGTCATTTA
1 TCACATAAGGGCAAAATAGTCTTTTTACCATGTAAGGGCAAAATAGTCATTTA
* *
91723029 TCACATAAGGGCAAAATAGTCTTTTTGCCATGTAAAGGCAAAATAGTCATTTA
1 TCACATAAGGGCAAAATAGTCTTTTTACCATGTAAGGGCAAAATAGTCATTTA
* *
91723082 TCACAAAAGGGCAAAATAGTCTTTTTACCACGTAAGGGCAAAATAGTCATTTA
1 TCACATAAGGGCAAAATAGTCTTTTTACCATGTAAGGGCAAAATAGTCATTTA
* *
91723135 TCATATAAGGGCAAAATAGTTTTTTTACCATGTAAGGGCAAAATAGT
1 TCACATAAGGGCAAAATAGTCTTTTTACCATGTAAGGGCAAAATAGT
91723182 TTTTTTAGTG
Statistics
Matches: 313, Mismatches: 45, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.01
53 237 0.76
54 69 0.22
55 5 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (53 bp):
TCACATAAGGGCAAAATAGTCTTTTTACCATGTAAGGGCAAAATAGTCATTTA
Found at i:91724587 original size:12 final size:12
Alignment explanation
Indices: 91724559--91724606 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
91724549 AATCCCCTTG
*
91724559 ATATC-CTCCTA
1 ATATCTCTCCTC
*
91724570 AAATCTCTCCTC
1 ATATCTCTCCTC
91724582 ATATCTCTCCTC
1 ATATCTCTCCTC
*
91724594 ATATCTCTTCTC
1 ATATCTCTCCTC
91724606 A
1 A
91724607 ACTCCCTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 4 0.12
12 28 0.88
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATCTCTCCTC
Found at i:91725548 original size:154 final size:154
Alignment explanation
Indices: 91725268--91725575 Score: 571
Period size: 154 Copynumber: 2.0 Consensus size: 154
91725258 CTGTCAAATA
91725268 ATTAATTATCCCTTCCATATCTAATTCCTCGAATATGAACAAAACTAAATTCTCCAGATAATCGT
1 ATTAATTATCCCTTCCATATCTAATTCCTCGAATATGAACAAAACTAAATTCTCCAGATAATCGT
*
91725333 AGGTATAGTACGAGGCATCGTAATATCGATATACTTCTCGAGGCTTAATCGACACCTCTTTTCCT
66 AGGTATAGTACGAGGCATCGTAATATCGATATACTTCTCGAGGCTTAATCAACACCTCTTTTCCT
*
91725398 CAGATAGTGACATGAGTAGTAGTC
131 CAGATAGCGACATGAGTAGTAGTC
* *
91725422 ATTAATTATCCCTTCCATATCTATTTCCTCGAATATGAACAAAACTAAATTCTCTAGATAATCGT
1 ATTAATTATCCCTTCCATATCTAATTCCTCGAATATGAACAAAACTAAATTCTCCAGATAATCGT
*
91725487 GGGTATAGTACGAGGCATCGTAATATCGATATACTTCTCGAGGCTTAATCAACACCTCTTTTCCT
66 AGGTATAGTACGAGGCATCGTAATATCGATATACTTCTCGAGGCTTAATCAACACCTCTTTTCCT
91725552 CAGATAGCGACATGAGTAGTAGTC
131 CAGATAGCGACATGAGTAGTAGTC
91725576 TCTCCCCACT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 149 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (154 bp):
ATTAATTATCCCTTCCATATCTAATTCCTCGAATATGAACAAAACTAAATTCTCCAGATAATCGT
AGGTATAGTACGAGGCATCGTAATATCGATATACTTCTCGAGGCTTAATCAACACCTCTTTTCCT
CAGATAGCGACATGAGTAGTAGTC
Found at i:91729603 original size:19 final size:21
Alignment explanation
Indices: 91729573--91729612 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
91729563 CCTGTACATG
91729573 GTAAAAATTTTCT-AAGTTTT
1 GTAAAAATTTTCTGAAGTTTT
91729593 GTAAAAA-TTTCTGAAGTTTT
1 GTAAAAATTTTCTGAAGTTTT
91729613 TCGTTTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (21 bp):
GTAAAAATTTTCTGAAGTTTT
Found at i:91730659 original size:10 final size:10
Alignment explanation
Indices: 91730644--91730690 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
91730634 GGACTTTCCA
91730644 TGAATGTTTT
1 TGAATGTTTT
91730654 TGAATGTATTT
1 TGAATGT-TTT
91730665 T--ATGTTTT
1 TGAATGTTTT
91730673 TGAATGTATTT
1 TGAATGT-TTT
91730684 T-AATGTT
1 TGAATGTT
91730691 AGTTGATAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.12
9 5 0.15
10 16 0.48
11 8 0.24
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (10 bp):
TGAATGTTTT
Found at i:91730671 original size:19 final size:20
Alignment explanation
Indices: 91730646--91730690 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
91730636 ACTTTCCATG
91730646 AATGTTTTTGAATGTATTTT
1 AATGTTTTTGAATGTATTTT
91730666 -ATGTTTTTGAATGTATTTT
1 AATGTTTTTGAATGTATTTT
91730685 AATGTT
1 AATGTT
91730691 AGTTGATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (20 bp):
AATGTTTTTGAATGTATTTT
Found at i:91731909 original size:19 final size:19
Alignment explanation
Indices: 91731885--91731951 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
91731875 TGGGAGTGAT
91731885 TCAAGACTAAACTGGTAAC
1 TCAAGACTAAACTGGTAAC
* ** * *
91731904 TCAAGAAACTTACACAAAGTGAT
1 TCAAG--AC-TAAAC-TGGTAAC
91731927 TCAAGACTAAACTGGTAAC
1 TCAAGACTAAACTGGTAAC
91731946 TCAAGA
1 TCAAGA
91731952 AACTTACACA
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
19 14 0.41
20 4 0.12
21 4 0.12
22 4 0.12
23 8 0.24
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.21
Consensus pattern (19 bp):
TCAAGACTAAACTGGTAAC
Found at i:91731938 original size:42 final size:42
Alignment explanation
Indices: 91731879--91731963 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
91731869 ATACTTTGGG
91731879 AGTGATTCAAGACTAAACTGGTAACTCAAGAAACTTACACAA
1 AGTGATTCAAGACTAAACTGGTAACTCAAGAAACTTACACAA
91731921 AGTGATTCAAGACTAAACTGGTAACTCAAGAAACTTACACAA
1 AGTGATTCAAGACTAAACTGGTAACTCAAGAAACTTACACAA
91731963 A
1 A
91731964 ACTTTGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (42 bp):
AGTGATTCAAGACTAAACTGGTAACTCAAGAAACTTACACAA
Found at i:91732352 original size:13 final size:13
Alignment explanation
Indices: 91732336--91732362 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91732326 TGTAACATGA
91732336 CTTTTTCACATAG
1 CTTTTTCACATAG
91732349 CTTTTTCACATAG
1 CTTTTTCACATAG
91732362 C
1 C
91732363 AAAATAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.44
Consensus pattern (13 bp):
CTTTTTCACATAG
Found at i:91732565 original size:24 final size:23
Alignment explanation
Indices: 91732513--91732580 Score: 102
Period size: 23 Copynumber: 2.9 Consensus size: 23
91732503 GAACTGATGG
91732513 ACAGTAAGCTCTATTGAGCT-AAA
1 ACAGTAAGCTCTA-TGAGCTGAAA
91732536 ACAGTAAGCTCTGATGAGCTGAAA
1 ACAGTAAGCTCT-ATGAGCTGAAA
*
91732560 ACAGTAAGCTTTATGAGCTGA
1 ACAGTAAGCTCTATGAGCTGA
91732581 CACATCGATA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 27 0.64
24 15 0.36
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (23 bp):
ACAGTAAGCTCTATGAGCTGAAA
Found at i:91738746 original size:39 final size:38
Alignment explanation
Indices: 91738634--91738751 Score: 102
Period size: 39 Copynumber: 3.1 Consensus size: 38
91738624 TCATAATAAT
*
91738634 CTACTTAGTCATACCAAAATAAACTATTACTAGCCATT-
1 CTACTTAGTCATACCAAAAT-AACCATTACTAGCCATTA
* * * *
91738672 CCAATGGCTAGGT--TA-CAAAATAA-CATTTCAAGCCATTA
1 CTACT---TA-GTCATACCAAAATAACCATTACTAGCCATTA
91738710 CTACTTAGTCATACCAAAATGAACCATTACTAGCCATTA
1 CTACTTAGTCATACCAAAAT-AACCATTACTAGCCATTA
91738749 CTA
1 CTA
91738752 GAATTCAACT
Statistics
Matches: 61, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
34 2 0.03
35 2 0.03
36 2 0.03
37 17 0.28
38 10 0.16
39 22 0.36
40 2 0.03
41 2 0.03
42 2 0.03
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (38 bp):
CTACTTAGTCATACCAAAATAACCATTACTAGCCATTA
Found at i:91740587 original size:45 final size:44
Alignment explanation
Indices: 91740460--91740588 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 44
91740450 TATGTTTTCC
* * **
91740460 TTGCTTTGGCCGAATATTCCTTCTTCCTCCTCTCTCAATTGGTT
1 TTGCTTTGGCCGAATACTCCTTCTTCCCCCTCTCTCAATCAGTT
* *
91740504 TCT-CTTTGACCG-ATAGCTTCTTCTTCTCCCCT-TCCTCAATCAGTT
1 T-TGCTTTGGCCGAATA-CTCCTTCTTC-CCCCTCT-CTCAATCAGTT
91740549 GTTGCTTTGGCCGAATACTCCTTCTTCCCCCTCTCTCAAT
1 -TTGCTTTGGCCGAATACTCCTTCTTCCCCCTCTCTCAAT
91740589 TCTTTTTTCT
Statistics
Matches: 69, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
43 3 0.04
44 18 0.26
45 26 0.38
46 19 0.28
47 3 0.04
ACGTcount: A:0.12, C:0.34, G:0.12, T:0.42
Consensus pattern (44 bp):
TTGCTTTGGCCGAATACTCCTTCTTCCCCCTCTCTCAATCAGTT
Found at i:91745304 original size:2 final size:2
Alignment explanation
Indices: 91745297--91745323 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
91745287 TAAGTGCCAC
91745297 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
91745324 GCCGAAGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91748866 original size:40 final size:39
Alignment explanation
Indices: 91748821--91749028 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
91748811 CGGAATACAA
*
91748821 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
91748861 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
91748901 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
91748941 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
91748981 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
91749021 CCGGATAT
1 CCGGATAT
91749029 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:91748961 original size:80 final size:80
Alignment explanation
Indices: 91748821--91749027 Score: 254
Period size: 80 Copynumber: 2.6 Consensus size: 80
91748811 CGGAATACAA
* * * *
91748821 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACAAATG
*
91748886 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
91748901 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAG-AACCACTAGCACAAAT
*
91748965 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
91748981 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
91749028 TCATTCAATT
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 107 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:91752727 original size:27 final size:27
Alignment explanation
Indices: 91752696--91752758 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
91752686 TTTAAAACCC
*
91752696 TAGGGGTATATCTATAATTTTGCTCTT
1 TAGGGGTATATCGATAATTTTGCTCTT
* *
91752723 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGATAATTTTGCTCTT
91752751 TAGGGGTA
1 TAGGGGTA
91752759 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGATAATTTTGCTCTT
Found at i:91752741 original size:28 final size:28
Alignment explanation
Indices: 91752710--91752764 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
91752700 GGTATATCTA
91752710 TAATTTTGCTCTTTAGGGGTAATTTCGG
1 TAATTTTGCTCTTTAGGGGTAATTTCGG
91752738 TAATTTTGCTCTTTAGGGGTAATTTCG
1 TAATTTTGCTCTTTAGGGGTAATTTCG
91752765 TGATCTACGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.47
Consensus pattern (28 bp):
TAATTTTGCTCTTTAGGGGTAATTTCGG
Found at i:91760074 original size:40 final size:39
Alignment explanation
Indices: 91760029--91760236 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
91760019 CGGAATACAA
*
91760029 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
91760069 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
91760109 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
91760149 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
91760189 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
91760229 CCGGATAT
1 CCGGATAT
91760237 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:91760169 original size:80 final size:80
Alignment explanation
Indices: 91760029--91760235 Score: 254
Period size: 80 Copynumber: 2.6 Consensus size: 80
91760019 CGGAATACAA
* * * *
91760029 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACAAATG
*
91760094 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
91760109 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAG-AACCACTAGCACAAAT
*
91760173 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
91760189 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
91760236 TCATTCAATT
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 107 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:91763931 original size:27 final size:27
Alignment explanation
Indices: 91763900--91763962 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
91763890 TTTAAAACCC
*
91763900 TAGGGGTATATCTATAATTTTGCTCTT
1 TAGGGGTATATCGATAATTTTGCTCTT
* *
91763927 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGATAATTTTGCTCTT
91763955 TAGGGGTA
1 TAGGGGTA
91763963 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGATAATTTTGCTCTT
Found at i:91763945 original size:28 final size:28
Alignment explanation
Indices: 91763914--91763968 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
91763904 GGTATATCTA
91763914 TAATTTTGCTCTTTAGGGGTAATTTCGG
1 TAATTTTGCTCTTTAGGGGTAATTTCGG
91763942 TAATTTTGCTCTTTAGGGGTAATTTCG
1 TAATTTTGCTCTTTAGGGGTAATTTCG
91763969 TGATCTACGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.47
Consensus pattern (28 bp):
TAATTTTGCTCTTTAGGGGTAATTTCGG
Found at i:91765905 original size:29 final size:29
Alignment explanation
Indices: 91765841--91765906 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
91765831 TTTTCCTTTA
* *
91765841 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
91765870 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
91765898 TTTACTCAA
1 TTT-CTCAA
91765907 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:91775680 original size:8 final size:8
Alignment explanation
Indices: 91775667--91775698 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
91775657 CCAGATCGGC
91775667 AAAAGCCG
1 AAAAGCCG
91775675 AAAAGCCG
1 AAAAGCCG
91775683 AAAAGCCG
1 AAAAGCCG
91775691 AAAAGCCG
1 AAAAGCCG
91775699 GTATTTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:91780713 original size:40 final size:40
Alignment explanation
Indices: 91780639--91780780 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
91780629 CCGCACCAAG
* * * * * *
91780639 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
91780679 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
91780719 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
91780759 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
91780781 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:91788831 original size:40 final size:40
Alignment explanation
Indices: 91788757--91788898 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
91788747 CCGCACCAAG
* * * * * *
91788757 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
91788797 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
91788837 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
91788877 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
91788899 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:91792138 original size:8 final size:8
Alignment explanation
Indices: 91792125--91792154 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
91792115 CTAGATCGGC
91792125 AAAAGCCG
1 AAAAGCCG
*
91792133 AAAAGCTG
1 AAAAGCCG
91792141 AAAAGCCG
1 AAAAGCCG
91792149 AAAAGC
1 AAAAGC
91792155 TGGCATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.20, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:91792146 original size:16 final size:16
Alignment explanation
Indices: 91792125--91792156 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
91792115 CTAGATCGGC
91792125 AAAAGCCGAAAAGCTG
1 AAAAGCCGAAAAGCTG
91792141 AAAAGCCGAAAAGCTG
1 AAAAGCCGAAAAGCTG
91792157 GCATTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:91792906 original size:60 final size:59
Alignment explanation
Indices: 91792782--91792922 Score: 162
Period size: 60 Copynumber: 2.4 Consensus size: 59
91792772 CCCAACTGTG
* * *
91792782 TTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTGATA
1 TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
* * *
91792841 CTGATATGGGCTAGGCCCAGTATA-CTCTGTTAC-TGTA-AGGGGCTATGGCCCATATTAATA
1 TTGATATGGGCTAGGCCCAGTATATCTC-G--ACTTGTATA-GGGCTACGGCCCAGATTAATA
91792901 TTGATATGGGCTAAGGCCCAGT
1 TTGATATGGGCT-AGGCCCAGT
91792923 TAACACTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
58 3 0.04
59 23 0.33
60 33 0.47
61 11 0.16
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:91794436 original size:23 final size:25
Alignment explanation
Indices: 91794408--91794461 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
91794398 AATATACCTA
* *
91794408 AAAAATTAAAAGTATCTAAG-C-TT
1 AAAAATTAAAAATATCCAAGTCTTT
91794431 AAAAATTAAAAATATCCAAGTCTTT
1 AAAAATTAAAAATATCCAAGTCTTT
91794456 AAAAAT
1 AAAAAT
91794462 AATGAAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 18 0.67
24 1 0.04
25 8 0.30
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.30
Consensus pattern (25 bp):
AAAAATTAAAAATATCCAAGTCTTT
Found at i:91797484 original size:21 final size:21
Alignment explanation
Indices: 91797460--91797499 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
91797450 GCAATTTTGT
91797460 AATT-AAGTGGAAATTAATATA
1 AATTAAAGT-GAAATTAATATA
91797481 AATTAAAGTGAAATTAATA
1 AATTAAAGTGAAATTAATA
91797500 CGTTTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (21 bp):
AATTAAAGTGAAATTAATATA
Found at i:91799415 original size:2 final size:2
Alignment explanation
Indices: 91799408--91799441 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
91799398 AAGCACCACC
91799408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91799442 GCAAATGTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91801982 original size:41 final size:42
Alignment explanation
Indices: 91801896--91802037 Score: 119
Period size: 42 Copynumber: 3.4 Consensus size: 42
91801886 TCCTGTTTAC
* * * * * * *
91801896 TTTCTGTTTAGCTCTCATGAG-ATTCGGTTTAACTCATATGTG
1 TTTCTGTTCAGCTCTTACGAGCTTTC-GTTTAACCCTTATGGG
***
91801938 TTTCTGTTCAGCT-TTTTTAGCTTAT-GTTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTTACGAGCTT-TCGTTTAACCCTTATGGG
* * *
91801979 TTTCCGTTCAGCTCTTACGGGCTTTCGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTTACGAGCTTTCGTTTAACCCTTATGGG
*
91802021 TTTCTGTTTAGCTCTTA
1 TTTCTGTTCAGCTCTTA
91802038 TGAGGTTCTA
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
41 30 0.38
42 49 0.61
43 1 0.01
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.46
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACGAGCTTTCGTTTAACCCTTATGGG
Found at i:91802038 original size:21 final size:21
Alignment explanation
Indices: 91801896--91802044 Score: 77
Period size: 21 Copynumber: 7.1 Consensus size: 21
91801886 TCCTGTTTAC
* *
91801896 TTTCTGTTTAGCTCTCATGAG
1 TTTCTGTTTAGCTCTTATGGG
* * * * *
91801917 ATTCGGTTTAACTCATATGTG
1 TTTCTGTTTAGCTCTTATGGG
* * **
91801938 TTTCTGTTCAGCT-TTTTTAG
1 TTTCTGTTTAGCTCTTATGGG
* * * *
91801958 CTTATGTTTAACCCTTATGGG
1 TTTCTGTTTAGCTCTTATGGG
* * *
91801979 TTTCCGTTCAGCTCTTACGGG
1 TTTCTGTTTAGCTCTTATGGG
* * *
91802000 CTTTC-GTTCAACCCTTATGGG
1 -TTTCTGTTTAGCTCTTATGGG
91802021 TTTCTGTTTAGCTCTTATGAGG
1 TTTCTGTTTAGCTCTTATG-GG
91802043 TT
1 TT
91802045 CTATTCAGCC
Statistics
Matches: 89, Mismatches: 35, Indels: 7
0.68 0.27 0.05
Matches are distributed among these distances:
20 15 0.17
21 66 0.74
22 8 0.09
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.46
Consensus pattern (21 bp):
TTTCTGTTTAGCTCTTATGGG
Found at i:91806239 original size:13 final size:13
Alignment explanation
Indices: 91806221--91806245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91806211 TTAATTATAT
91806221 GTGTGAAAATTTC
1 GTGTGAAAATTTC
91806234 GTGTGAAAATTT
1 GTGTGAAAATTT
91806246 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:91807442 original size:44 final size:42
Alignment explanation
Indices: 91807367--91807488 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 42
91807357 GATATGTGAT
* * * * * * *
91807367 TTCGTGTAAGACGACGTCTAGAACATTGGCATCGATTTTTTAT
1 TTCGTGTAAGACCATGTCTGGGACA-TGGCATCGATTTATGAG
*
91807410 TTGCGTGTAAGGCCATGTCTGGGACATCGGCATC-ATTTATGAG
1 TT-CGTGTAAGACCATGTCTGGGACAT-GGCATCGATTTATGAG
*
91807453 TTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 TTCGTGTAAGACCATGTCTGGGACA-TGGCATCGAT
91807489 ATGTGATTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 27 0.42
43 14 0.22
44 24 0.37
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
TTCGTGTAAGACCATGTCTGGGACATGGCATCGATTTATGAG
Found at i:91809757 original size:40 final size:39
Alignment explanation
Indices: 91809685--91809895 Score: 228
Period size: 40 Copynumber: 5.3 Consensus size: 39
91809675 TCTTCGTGAT
** * *
91809685 TTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
91809723 TTAGCCTGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCC-GGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
91809763 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAG-CCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
91809803 TTAGCGCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGC-CGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
91809843 TTAGTCCGGATATAGTCACTAGTATAAAAGCCTTCGGGAC
1 TTAG-CCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
91809883 TTAGCCCGGATAT
1 TTAG-CCGGATAT
91809896 CATTCGAATA
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
38 6 0.04
39 15 0.10
40 120 0.83
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
TTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:91820274 original size:42 final size:43
Alignment explanation
Indices: 91820215--91820323 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 43
91820205 TGAAGCCTCT
* *
91820215 GTCCCAAACAGGGTCTTACACGAAATCA-AA-TACGATGCCAAC
1 GTCCCAAATATGGTCTTACACGAAATCATAAGT-CGATGCCAAC
* *
91820257 GTCCCAGATGTGGTCTTACACGTAAATCATAAGTCGATGCCAAC
1 GTCCCAAATATGGTCTTACACG-AAATCATAAGTCGATGCCAAC
* *
91820301 GTTCTAAATATGGTCTTACACGA
1 GTCCCAAATATGGTCTTACACGA
91820324 TAACACATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 18 0.32
43 7 0.12
44 30 0.54
45 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
GTCCCAAATATGGTCTTACACGAAATCATAAGTCGATGCCAAC
Found at i:91820315 original size:44 final size:42
Alignment explanation
Indices: 91820164--91820323 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
91820154 AACTTGTAGA
** *** *
91820164 ATGCCAACGTCCCAAACGTGGTCTTACATTTAATCAAATATTG
1 ATGCCAACGTCCCAAATATGGTCTTACACGAAATCAAATA-CG
* * * *
91820207 AAGCC-TCTGTCCCAAACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAAATATGGTCTTACACGAAATCAAATACG
* *
91820249 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAAATATGGTCTTACACG-AAATCA-AA-TACG
* *
91820293 ATGCCAACGTTCTAAATATGGTCTTACACGA
1 ATGCCAACGTCCCAAATATGGTCTTACACGA
91820324 TAACACATAT
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 24 0.26
43 39 0.41
44 30 0.32
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCCAAATATGGTCTTACACGAAATCAAATACG
Found at i:91832139 original size:10 final size:10
Alignment explanation
Indices: 91832124--91832150 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
91832114 AGAATGGCTA
91832124 TTCGACTACT
1 TTCGACTACT
91832134 TTCGACTACT
1 TTCGACTACT
91832144 TTCGACT
1 TTCGACT
91832151 TTCCCCGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.41
Consensus pattern (10 bp):
TTCGACTACT
Found at i:91834506 original size:42 final size:42
Alignment explanation
Indices: 91834447--91834599 Score: 198
Period size: 42 Copynumber: 3.6 Consensus size: 42
91834437 TGTGTTATCA
* * * * *
91834447 TGTAAGACCATATCTGGGATATGGCCTTGATATGAGATTTCG
1 TGTAAGACCACATCTGGGACATGGCATCGATATGAGATCTCG
* *
91834489 TGTAAGACCACATCTGGGACATGGCATCGAAATGAGATGTCG
1 TGTAAGACCACATCTGGGACATGGCATCGATATGAGATCTCG
* * * * *
91834531 TATAAGACCATATCTGGGATATGGCATCGATGTGAGATCTCA
1 TGTAAGACCACATCTGGGACATGGCATCGATATGAGATCTCG
91834573 TGTAAGACCACATCTGGGACATGGCAT
1 TGTAAGACCACATCTGGGACATGGCAT
91834600 TGGCATCTCA
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 95 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATGGCATCGATATGAGATCTCG
Found at i:91837508 original size:44 final size:44
Alignment explanation
Indices: 91837455--91837542 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
91837445 TCCGATATGT
*
91837455 GATTTCGTGTAAGACCACATCTGGGACGTTGGCATCG-ATTTGA
1 GATTTCGTGTAAGACCACATCTGGGACATTGGCATCGTATTTGA
**
91837498 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 GATTT-CGTGTAAGACCACATCTGGGACATTGGCATCGTATTTGA
91837543 TTAAGACCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 5 0.12
44 29 0.73
45 6 0.15
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
GATTTCGTGTAAGACCACATCTGGGACATTGGCATCGTATTTGA
Found at i:91837555 original size:36 final size:36
Alignment explanation
Indices: 91837508--91837580 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
91837498 GATTTACGTG
91837508 TAAGACCATGTCTGGGACATTGGCATCGTATTTGAT
1 TAAGACCATGTCTGGGACATTGGCATCGTATTTGAT
91837544 TAAGACCATGTCTGGGACATTGGCATCGTATTTGAT
1 TAAGACCATGTCTGGGACATTGGCATCGTATTTGAT
91837580 T
1 T
91837581 TCATATAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (36 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTTGAT
Found at i:91837646 original size:43 final size:42
Alignment explanation
Indices: 91837544--91837646 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 42
91837534 CGTATTTGAT
* * ** * *
91837544 TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCATA
1 TAAGACCACGTCTGGGATAGAGGCATCATATTTGATTACATA
*
91837586 TAAGACC-CTGT-TGGGGATAGAGGCATCAATATTTGATTACATG
1 TAAGACCAC-GTCT-GGGATAGAGGCATC-ATATTTGATTACATA
91837629 TAAGACCACGTCTGGGAT
1 TAAGACCACGTCTGGGAT
91837647 GTTCGCCTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.02
42 20 0.41
43 26 0.53
44 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
TAAGACCACGTCTGGGATAGAGGCATCATATTTGATTACATA
Found at i:91840532 original size:27 final size:28
Alignment explanation
Indices: 91840502--91840601 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 28
91840492 TTTAGTTTAC
91840502 TAAAATTACCAAAATACCCTTAG-TTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* ** *
91840529 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* * * *
91840556 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
*
91840583 TAAAATTACCAAAGTACCC
1 TAAAATTACCAAAATACCC
91840602 CCGATTTACA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
26 4 0.07
27 53 0.90
28 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (28 bp):
TAAAATTACCAAAATACCCTTAGATTTG
Found at i:91840906 original size:81 final size:81
Alignment explanation
Indices: 91840597--91840870 Score: 530
Period size: 81 Copynumber: 3.4 Consensus size: 81
91840587 ATTACCAAAG
* *
91840597 TACCCCCGATTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
91840662 TACATAATTATCGTTT
66 TACATAATTATCGTTT
91840678 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
91840743 TACATAATTATCGTTT
66 TACATAATTATCGTTT
91840759 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
91840824 TACATAATTATCGTTT
66 TACATAATTATCGTTT
91840840 TACCCTCGACTTACAGAATTACCGTTTTACC
1 TACCCTCGACTTACAGAATTACCGTTTTACC
91840871 TTCGATTTAC
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 191 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
TACATAATTATCGTTT
Found at i:91840912 original size:54 final size:53
Alignment explanation
Indices: 91840603--91841017 Score: 284
Period size: 54 Copynumber: 7.5 Consensus size: 53
91840593 AAAGTACCCC
* * * * * *
91840603 CGATTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCC
1 CGATTTACTGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCT
* * *
91840656 CTGATTTACAT-AATTA-TCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCC
1 C-GATTTAC-TGAATTACT-GTTTTACCCTTGATTTACAGAATTACCGTTTTACCT
* * * * *
91840710 CTAATTTACAT-AATTACCGTTTTACCCCTGATTTACATAATTATCGTTTTACCCT
1 C-GATTTAC-TGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTA-CCT
* * * * * * *
91840765 CGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCC
1 CGATTTACTGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCT
* *
91840818 CTGATTTACAT-AATTA-TCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCTT
1 C-GATTTAC-TGAATTACT-GTTTTACCCTTGATTTACAGAATTACCGTTTTACC-T
* * *
91840873 CGATTTACTGAATTGCTGTTTTACCCTTGATTTATAGAATTGCTCTGAATTGCTGTTTTACCCT
1 CGATTTACTGAATTACTGTTTTACCCTTGATTTACAGAA----T-T--A---CCGTTTTA-CCT
* * * * *
91840937 TGATTTA-TAGAATTACTATTTTACCCTTAATTTATAGAATTACTGTTTTACCCT
1 CGATTTACT-GAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTA-CCT
* *
91840991 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACTGAATTACTGTTTTACCCT
91841018 CAATTTGTAA
Statistics
Matches: 296, Mismatches: 41, Indels: 49
0.77 0.11 0.13
Matches are distributed among these distances:
53 5 0.02
54 236 0.80
55 5 0.02
57 1 0.00
58 1 0.00
59 2 0.01
60 1 0.00
61 1 0.00
63 1 0.00
64 41 0.14
65 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (53 bp):
CGATTTACTGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCT
Found at i:91840916 original size:27 final size:27
Alignment explanation
Indices: 91840597--91840913 Score: 372
Period size: 27 Copynumber: 11.7 Consensus size: 27
91840587 ATTACCAAAG
*
91840597 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
91840624 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
91840651 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
91840678 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* *
91840705 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
91840732 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
91840759 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* *
91840786 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
* *
91840813 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTACCGTTT
*
91840840 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* * * *
91840867 TA-CCTTCGATTTACTGAATTGCTGTTT
1 TACCCCT-GATTTACAGAATTACCGTTT
* *
91840894 TACCCTTGATTTATAGAATT
1 TACCCCTGATTTACAGAATT
91840914 GCTCTGAATT
Statistics
Matches: 253, Mismatches: 31, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
26 12 0.05
27 229 0.91
28 12 0.05
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCCTGATTTACAGAATTACCGTTT
Found at i:91840921 original size:37 final size:37
Alignment explanation
Indices: 91840880--91840950 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
91840870 CTTCGATTTA
91840880 CTGAATTGCTGTTTTACCCTTGATTTATAGAATTGCT
1 CTGAATTGCTGTTTTACCCTTGATTTATAGAATTGCT
91840917 CTGAATTGCTGTTTTACCCTTGATTTATAGAATT
1 CTGAATTGCTGTTTTACCCTTGATTTATAGAATT
91840951 ACTATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (37 bp):
CTGAATTGCTGTTTTACCCTTGATTTATAGAATTGCT
Found at i:91840949 original size:27 final size:27
Alignment explanation
Indices: 91840919--91841017 Score: 162
Period size: 27 Copynumber: 3.7 Consensus size: 27
91840909 GAATTGCTCT
*
91840919 GAATTGCTGTTTTACCCTTGATTTATA
1 GAATTACTGTTTTACCCTTGATTTATA
* *
91840946 GAATTACTATTTTACCCTTAATTTATA
1 GAATTACTGTTTTACCCTTGATTTATA
*
91840973 GAATTACTGTTTTACCCTTGATTTACA
1 GAATTACTGTTTTACCCTTGATTTATA
91841000 GAATTACTGTTTTACCCT
1 GAATTACTGTTTTACCCT
91841018 CAATTTGTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.46
Consensus pattern (27 bp):
GAATTACTGTTTTACCCTTGATTTATA
Found at i:91840991 original size:91 final size:91
Alignment explanation
Indices: 91840836--91841004 Score: 234
Period size: 91 Copynumber: 1.9 Consensus size: 91
91840826 CATAATTATC
* * *
91840836 GTTTTACCCTCGACTTACAGAATTACCGTTTTACCTTCGATTTACTGAATTGCTGTTTTACCCTT
1 GTTTTACCCTCGACTTACAGAATTACCATTTTACCTTCAATTTACTGAATTACTGTTTTACCCTT
*
91840901 GATTTATAGAATTGCTCTGAATTGCT
66 GATTTACAGAATTGCTCTGAATTGCT
* * * *
91840927 GTTTTACCCTTGATTTATAGAATTACTATTTTACCCTT-AATTTA-TAGAATTACTGTTTTACCC
1 GTTTTACCCTCGACTTACAGAATTACCATTTTA-CCTTCAATTTACT-GAATTACTGTTTTACCC
91840990 TTGATTTACAGAATT
64 TTGATTTACAGAATT
91841005 ACTGTTTTAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 63 0.93
92 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (91 bp):
GTTTTACCCTCGACTTACAGAATTACCATTTTACCTTCAATTTACTGAATTACTGTTTTACCCTT
GATTTACAGAATTGCTCTGAATTGCT
Found at i:91841023 original size:27 final size:27
Alignment explanation
Indices: 91840919--91841033 Score: 158
Period size: 27 Copynumber: 4.3 Consensus size: 27
91840909 GAATTGCTCT
* *
91840919 GAATTGCTGTTTTACCCTTGATTTATA
1 GAATTACTGTTTTACCCTTAATTTATA
*
91840946 GAATTACTATTTTACCCTTAATTTATA
1 GAATTACTGTTTTACCCTTAATTTATA
* *
91840973 GAATTACTGTTTTACCCTTGATTTACA
1 GAATTACTGTTTTACCCTTAATTTATA
* *
91841000 GAATTACTGTTTTACCCTCAATTTGTA
1 GAATTACTGTTTTACCCTTAATTTATA
*
91841027 AAATTAC
1 GAATTAC
91841034 CAAAATACCT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (27 bp):
GAATTACTGTTTTACCCTTAATTTATA
Found at i:91841023 original size:54 final size:54
Alignment explanation
Indices: 91840919--91841033 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
91840909 GAATTGCTCT
* * *
91840919 GAATTGCTGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTAATTTATA
1 GAATTACTGTTTTACCCTTGATTTACAGAATTACTATTTTACCCTCAATTTATA
* *
91840973 GAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAATTTGTA
1 GAATTACTGTTTTACCCTTGATTTACAGAATTACTATTTTACCCTCAATTTATA
*
91841027 AAATTAC
1 GAATTAC
91841034 CAAAATACCT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (54 bp):
GAATTACTGTTTTACCCTTGATTTACAGAATTACTATTTTACCCTCAATTTATA
Found at i:91841121 original size:27 final size:26
Alignment explanation
Indices: 91841078--91841133 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
91841068 CCCTTGACTT
91841078 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
91841104 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
91841131 TTT
1 TTT
91841134 GTTGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:91841246 original size:27 final size:27
Alignment explanation
Indices: 91841189--91841251 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
91841179 CCCTAAAAGG
* *
91841189 TAAAAAGACCGTAAAGCCCCTGTAGGG
1 TAAAATGACCGTAAAGCCCCTGTAGGA
* *
91841216 TAAAGTGACCGTAATA-CCCCTGTATGA
1 TAAAATGACCGTAA-AGCCCCTGTAGGA
91841243 TAAAATGAC
1 TAAAATGAC
91841252 GAATATGCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
TAAAATGACCGTAAAGCCCCTGTAGGA
Found at i:91842441 original size:25 final size:25
Alignment explanation
Indices: 91842412--91842459 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
91842402 TTATAATATG
* *
91842412 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
91842437 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
91842460 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:91842510 original size:9 final size:9
Alignment explanation
Indices: 91842498--91842554 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
91842488 TTTGATAAAC
91842498 ATGATATGT
1 ATGATATGT
*
91842507 ATGATATGCAC
1 ATGATATG--T
*
91842518 ATGACATGT
1 ATGATATGT
*
91842527 ATGATATGCAC
1 ATGATATG--T
91842538 ATGATATGT
1 ATGATATGT
91842547 ATGATATG
1 ATGATATG
91842555 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:91842521 original size:20 final size:20
Alignment explanation
Indices: 91842496--91842566 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
91842486 ATTTTGATAA
91842496 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
91842516 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
91842536 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
91842556 ACATGAGATGT
1 ACATGATATGT
91842567 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:91842543 original size:11 final size:11
Alignment explanation
Indices: 91842507--91842561 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
91842497 CATGATATGT
91842507 ATGATATGCAC
1 ATGATATGCAC
* *
91842518 ATGACATG--T
1 ATGATATGCAC
91842527 ATGATATGCAC
1 ATGATATGCAC
*
91842538 ATGATATG--T
1 ATGATATGCAC
91842547 ATGATATGCAC
1 ATGATATGCAC
91842558 ATGA
1 ATGA
91842562 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:91842647 original size:23 final size:23
Alignment explanation
Indices: 91842613--91842778 Score: 260
Period size: 23 Copynumber: 7.1 Consensus size: 23
91842603 AGGAAGTGCA
91842613 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
91842636 AAAGGGCCTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
91842659 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
91842683 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
91842706 AAAGGGCTTATGCCCCAGTAATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
91842730 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
91842753 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
91842776 AAA
1 AAA
91842779 AGAGGCAAGG
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
23 88 0.68
24 42 0.32
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:91842705 original size:47 final size:47
Alignment explanation
Indices: 91842613--91842780 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
91842603 AGGAAGTGCA
* *
91842613 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCCTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
91842659 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
91842706 AAAGGGCTTATGCCCCAGTAATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
91842753 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
91842781 AGGCAAGGCC
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 22 0.19
47 92 0.81
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:91842724 original size:70 final size:71
Alignment explanation
Indices: 91842611--91842778 Score: 268
Period size: 70 Copynumber: 2.4 Consensus size: 71
91842601 GGAGGAAGTG
* * *
91842611 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCCTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCCTATGCCCCAGTAATCAAAAGGGCTTACGCCCC
91842675 AGTTAT
66 AGTTAT
*
91842681 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTAATCAAAAGGGCTTACGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCCTATGCCCCAGTAATCAAAAGGGCTTACGCCCC
91842746 AGTTAT
66 AGTTAT
* *
91842752 -TAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
91842779 AGAGGCAAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
70 70 0.77
71 21 0.23
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCCTATGCCCCAGTAATCAAAAGGGCTTACGCCCC
AGTTAT
Found at i:91842998 original size:43 final size:43
Alignment explanation
Indices: 91842951--91843055 Score: 210
Period size: 43 Copynumber: 2.4 Consensus size: 43
91842941 TTGGTATTTC
91842951 ATGTGATATTGAAATGGGCTTGCATTCTTTTCATTGACATTAT
1 ATGTGATATTGAAATGGGCTTGCATTCTTTTCATTGACATTAT
91842994 ATGTGATATTGAAATGGGCTTGCATTCTTTTCATTGACATTAT
1 ATGTGATATTGAAATGGGCTTGCATTCTTTTCATTGACATTAT
91843037 ATGTGATATTGAAATGGGC
1 ATGTGATATTGAAATGGGC
91843056 CTATGGGCCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (43 bp):
ATGTGATATTGAAATGGGCTTGCATTCTTTTCATTGACATTAT
Found at i:91844316 original size:14 final size:14
Alignment explanation
Indices: 91844297--91844325 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
91844287 TTTTGGCATG
91844297 AAACATACTTACAC
1 AAACATACTTACAC
91844311 AAACATACTTACAC
1 AAACATACTTACAC
91844325 A
1 A
91844326 TAAATCTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACATACTTACAC
Found at i:91844676 original size:43 final size:42
Alignment explanation
Indices: 91844508--91844676 Score: 144
Period size: 43 Copynumber: 4.0 Consensus size: 42
91844498 ACATAAAGCT
* * * * *
91844508 CATAAAATGCC-ATATCCCAGATATGGTCTTACATGCT-ATCT
1 CATACAATGCCAATGTCCCAGACATGGTCTTACACG-TAATCA
** * * * *
91844549 CATATTGATGCCGATGTTCCAGACATGGTTTTACACGAAATCA
1 CATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* * * *
91844592 TATAACGATGCCAATGACCCAGACATGGTCTTACACATAATCA
1 CAT-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
*
91844635 CAATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 C-ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
91844677 TCATCTCAAC
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
41 4 0.04
42 5 0.05
43 89 0.88
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
CATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
Found at i:91847316 original size:17 final size:17
Alignment explanation
Indices: 91847294--91847392 Score: 53
Period size: 17 Copynumber: 5.8 Consensus size: 17
91847284 TACTTTAATA
91847294 AATTTAATATTAAACTT
1 AATTTAATATTAAACTT
*
91847311 AATTTAATACTT-ATCTT
1 AATTTAATA-TTAAACTT
* * **
91847328 CA--TAGTATTTTA-TT
1 AATTTAATATTAAACTT
*
91847342 AATTTAATATTAAAGTGAT
1 AATTTAATATTAAACT--T
* *
91847361 TATCTTAATATTAAATTT
1 AAT-TTAATATTAAACTT
*
91847379 AATCTAATATTAAA
1 AATTTAATATTAAA
91847393 TCTATTAGAT
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
14 5 0.08
15 4 0.07
16 7 0.11
17 25 0.41
18 5 0.08
19 3 0.05
20 12 0.20
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (17 bp):
AATTTAATATTAAACTT
Found at i:91856749 original size:179 final size:179
Alignment explanation
Indices: 91856430--91856782 Score: 521
Period size: 179 Copynumber: 2.0 Consensus size: 179
91856420 ATTATGTATG
* * * *
91856430 TGTATGATGATGGTGGTTTGATATCATATTTCCATGTTTTTTGCAGTAAGATGTCAGACAAGTAA
1 TGTAAGATAATGGTGGTTTGATATCAGATTTCAATGTTTTTTGCAGTAAGATGTCAGACAAGTAA
* * * *
91856495 AAAGGTATTGTGGAATGAGTTCACGCCTGATGGGTAGTGCCCATTTTTTATCTTTAGCACTGTGC
66 AAAGATATTGTGGAATGAGTTCACGCCTGATGGGTAGTGCCCATTTTTTATCTTTAGAACTATAC
* * *
91856560 AAGTTAAGTTATAAGGTAAGCTGGTTAGGAACCTACTAGATGTACTAGA
131 AAGCTAAGTTATAAAGTAAGCTAGTTAGGAACCTACTAGATGTACTAGA
* * * *
91856609 TGTAAGATAATGGTGGTTTGATATTAGATTTCAATGTTTTTTGGAGTAGGATGTTAGACAAGTAA
1 TGTAAGATAATGGTGGTTTGATATCAGATTTCAATGTTTTTTGCAGTAAGATGTCAGACAAGTAA
* *
91856674 AAAGATATTGTGGAATGAGTTCACTCTTGA-GGAGTAGTGCGCC-TTTTTTATCTTTAGAACTAT
66 AAAGATATTGTGGAATGAGTTCACGCCTGATGG-GTAGTGC-CCATTTTTTATCTTTAGAACTAT
91856737 ACAAGCTAAGTTATAAAGTAAGCTAGTTAGGAACCTACTAGATGTA
129 ACAAGCTAAGTTATAAAGTAAGCTAGTTAGGAACCTACTAGATGTA
91856783 AATCAGGGCA
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
178 2 0.01
179 151 0.97
180 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (179 bp):
TGTAAGATAATGGTGGTTTGATATCAGATTTCAATGTTTTTTGCAGTAAGATGTCAGACAAGTAA
AAAGATATTGTGGAATGAGTTCACGCCTGATGGGTAGTGCCCATTTTTTATCTTTAGAACTATAC
AAGCTAAGTTATAAAGTAAGCTAGTTAGGAACCTACTAGATGTACTAGA
Found at i:91857837 original size:27 final size:28
Alignment explanation
Indices: 91857767--91857870 Score: 120
Period size: 28 Copynumber: 3.8 Consensus size: 28
91857757 AACACATTAG
* * * *
91857767 AAAAGAATAAGCATTTGTGACGAACTAT
1 AAAAGAATAAGCCTTTGTGGCAAACTAC
* *
91857795 GAAAGAATAAGTCTTTGTGGCAAACTA-
1 AAAAGAATAAGCCTTTGTGGCAAACTAC
* *
91857822 AAAAGAATAAGCCTTTGTGGAAAATTAC
1 AAAAGAATAAGCCTTTGTGGCAAACTAC
*
91857850 GAAAGAATAAGCCTTTGTGGC
1 AAAAGAATAAGCCTTTGTGGC
91857871 CGACCCCATA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 23 0.36
28 41 0.64
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (28 bp):
AAAAGAATAAGCCTTTGTGGCAAACTAC
Found at i:91857854 original size:55 final size:55
Alignment explanation
Indices: 91857767--91857870 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
91857757 AACACATTAG
* * *
91857767 AAAAGAATAAGCATTTGTGACGAACTATGAAAGAATAAGTCTTTGTGGCAAACTA
1 AAAAGAATAAGCATTTGTGACAAACTACGAAAGAATAAGCCTTTGTGGCAAACTA
* *
91857822 AAAAGAATAAGCCTTTGTGGA-AAATTACGAAAGAATAAGCCTTTGTGGC
1 AAAAGAATAAGCATTTGT-GACAAACTACGAAAGAATAAGCCTTTGTGGC
91857871 CGACCCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 41 0.95
56 2 0.05
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (55 bp):
AAAAGAATAAGCATTTGTGACAAACTACGAAAGAATAAGCCTTTGTGGCAAACTA
Found at i:91859329 original size:62 final size:62
Alignment explanation
Indices: 91859250--91859374 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
91859240 AAAGCTTAGC
91859250 AAGCTTGTATGATATTAAACTTATCTTATTGAATAAGCACATATTAAGCATTTACATATATT
1 AAGCTTGTATGATATTAAACTTATCTTATTGAATAAGCACATATTAAGCATTTACATATATT
91859312 AAGCTTGTATGATATTAAACTTATCTTATTGAATAAGCACATATTAAGCATTTACATATATT
1 AAGCTTGTATGATATTAAACTTATCTTATTGAATAAGCACATATTAAGCATTTACATATATT
91859374 A
1 A
91859375 TAATATAAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (62 bp):
AAGCTTGTATGATATTAAACTTATCTTATTGAATAAGCACATATTAAGCATTTACATATATT
Found at i:91859976 original size:43 final size:43
Alignment explanation
Indices: 91859929--91860034 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 43
91859919 TATCCCATAT
* *
91859929 ATGGTCTTACATGTAATC-TCACATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCAT-AAAACGATGCCAATGTCCCAGAC
* *
91859972 ATGGTCTTACACGAAAATCATAAAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATG-TAATCATAAAACGATGCCAATGTCCCAGAC
*
91860016 ATGCTCTTACATGTAATCA
1 ATGGTCTTACATGTAATCA
91860035 CATCTCGATC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 17 0.31
44 36 0.67
45 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCATAAAACGATGCCAATGTCCCAGAC
Found at i:91889074 original size:43 final size:42
Alignment explanation
Indices: 91889027--91889175 Score: 124
Period size: 43 Copynumber: 3.5 Consensus size: 42
91889017 AATGCCAACG
* *
91889027 TCCCATACGTGGTCTTACATGTAATCAAATATCGATGCCACTA
1 TCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCA-TA
** ** *
91889070 TCCCAAACAG-GGTCTTACACAAAATCAAATAT-GACACCGATG
1 TCCCAAAC-GTGGTCTTACACGTAATCAAATATCGATGCC-ATA
* * * *
91889112 TCCCAGACATGGTCTTACACGTAAATCTGAA-ATCGATGCCAAA
1 TCCCAAACGTGGTCTTACACGT-AATC-AAATATCGATGCCATA
91889155 GTCCCAAACGTGGTCTTACAC
1 -TCCCAAACGTGGTCTTACAC
91889176 AAAATCACAT
Statistics
Matches: 81, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
42 22 0.27
43 34 0.42
44 25 0.31
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
TCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCATA
Found at i:91889170 original size:86 final size:85
Alignment explanation
Indices: 91889026--91889187 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
91889016 CAATGCCAAC
* * * *
91889026 GTCCCATACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAAACAGGGTCTTACACA
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACAATCCCAAACAGGGTCTTACACA
91889091 AAATCAAATATGACACCGAT
66 AAATCAAATATGACACCGAT
*
91889111 GTCCCAGACATGGTCTTACACGTAAATCTGAA-ATCGATGCCA-AAGTCCCAAAC-GTGGTCTTA
1 GTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCCACAA-TCCCAAACAG-GGTCTTA
*
91889173 CACAAAATCACATAT
62 CACAAAATCAAATAT
91889188 TGGAATCCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
85 22 0.33
86 43 0.64
87 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACAATCCCAAACAGGGTCTTACACA
AAATCAAATATGACACCGAT
Found at i:91901468 original size:13 final size:13
Alignment explanation
Indices: 91901450--91901474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91901440 GGAGTAATCG
91901450 CACACGGGTGTGT
1 CACACGGGTGTGT
91901463 CACACGGGTGTG
1 CACACGGGTGTG
91901475 CCCCTGCCGA
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
CACACGGGTGTGT
Found at i:91910739 original size:32 final size:31
Alignment explanation
Indices: 91910696--91910771 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
91910686 ATTTAACTGT
* *
91910696 AAAGTGACTAAAAGCTGATAAATTAATTAATA
1 AAAGTGACTAAAA-CTAACAAATTAATTAATA
* * * *
91910728 AGAGTGACTAAAATTAACAATTTATTTAATA
1 AAAGTGACTAAAACTAACAAATTAATTAATA
91910759 AAAGTGACTAAAA
1 AAAGTGACTAAAA
91910772 TAAGAAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 25 0.68
32 12 0.32
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.29
Consensus pattern (31 bp):
AAAGTGACTAAAACTAACAAATTAATTAATA
Found at i:91911490 original size:2 final size:2
Alignment explanation
Indices: 91911483--91911522 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
91911473 GAAGGAGCTT
91911483 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
91911523 AAAGTAGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:91912627 original size:26 final size:27
Alignment explanation
Indices: 91912588--91912648 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
91912578 TCTCTTTATG
91912588 TTCT-TGGCGAAAAATTATTTTTGTGT
1 TTCTATGGCGAAAAATTATTTTTGTGT
91912614 TTCTATGGCGAAAAATTATTTTTGTGT
1 TTCTATGGCGAAAAATTATTTTTGTGT
91912641 TTCTATGG
1 TTCTATGG
91912649 ACCATAATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.23, C:0.08, G:0.20, T:0.49
Consensus pattern (27 bp):
TTCTATGGCGAAAAATTATTTTTGTGT
Found at i:91917118 original size:26 final size:26
Alignment explanation
Indices: 91917062--91917119 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
91917052 GTAACCATTA
** *
91917062 ATTATTACACTTATTATATCTAAAAT
1 ATTATTACACTTAACATATATAAAAT
* * *
91917088 TTTATTACACTTAACATATATATACT
1 ATTATTACACTTAACATATATAAAAT
91917114 ATTATT
1 ATTATT
91917120 TACTTTTCCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTATTACACTTAACATATATAAAAT
Found at i:91918670 original size:10 final size:10
Alignment explanation
Indices: 91918655--91918679 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
91918645 AAGAGACGTG
91918655 ACTTACAGTA
1 ACTTACAGTA
91918665 ACTTACAGTA
1 ACTTACAGTA
91918675 ACTTA
1 ACTTA
91918680 AATAGTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (10 bp):
ACTTACAGTA
Found at i:91922286 original size:46 final size:45
Alignment explanation
Indices: 91922236--91922356 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 45
91922226 TATGAGTCAG
* *
91922236 TGTAAGACATGTCTAGGACATGAATCGGACACATT-ATGA-A-AGCTAA
1 TGTAAGACATGTCTGGGACATGCATCGG---CATTGA-GACAGAGCTAA
*
91922282 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGACTAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC-AGAGCTAA
91922328 TGTAAGACATGTCTGGGACATGCATCGGC
1 TGTAAGACATGTCTGGGACATGCATCGGC
91922357 CTCGGGATAT
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
43 6 0.09
44 1 0.01
45 1 0.01
46 60 0.88
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATTGAGACAGAGCTAA
Found at i:91922496 original size:50 final size:49
Alignment explanation
Indices: 91922420--91922538 Score: 141
Period size: 50 Copynumber: 2.4 Consensus size: 49
91922410 TGTGTGTCAA
* * *
91922420 TGTAAGACCTATTTGGGACATGGCATC-AACATCGATAAATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGAAC-TCGATAAATGAAAGCCAG
* ** * *
91922469 TTTAAGACCTGGTCTGGGACATGGCATCGGTCTCGATATATGAAAGTCAG
1 TGTAAGACCT-GTCTGGGACATGGCATCGAACTCGATAAATGAAAGCCAG
91922519 TGTAAGACCTGTCTGGGACA
1 TGTAAGACCTGTCTGGGACA
91922539 CTGTATCGAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 19 0.32
50 39 0.66
51 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGAACTCGATAAATGAAAGCCAG
Found at i:91923050 original size:11 final size:11
Alignment explanation
Indices: 91923034--91923060 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
91923024 GTATAGGATC
91923034 TTTTAATTTTG
1 TTTTAATTTTG
91923045 TTTTAATTTTG
1 TTTTAATTTTG
91923056 TTTTA
1 TTTTA
91923061 GTGTTACAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (11 bp):
TTTTAATTTTG
Found at i:91923857 original size:20 final size:21
Alignment explanation
Indices: 91923818--91923857 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
91923808 GTCAACAGGG
91923818 CTACACGGGCGTGTTGCCCTT
1 CTACACGGGCGTGTTGCCCTT
91923839 CTACACGGGCGTG-TGCCCT
1 CTACACGGGCGTGTTGCCCT
91923858 GTTCTAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CTACACGGGCGTGTTGCCCTT
Found at i:91928799 original size:25 final size:25
Alignment explanation
Indices: 91928771--91928824 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
91928761 AAGTAGTTGG
91928771 TATACATTACTAAGTTGAATTGTTA
1 TATACATTACTAAGTTGAATTGTTA
*
91928796 TATACATTACTAAGTTGAATTGTTG
1 TATACATTACTAAGTTGAATTGTTA
91928821 TATA
1 TATA
91928825 TGATTGTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (25 bp):
TATACATTACTAAGTTGAATTGTTA
Found at i:91932737 original size:40 final size:40
Alignment explanation
Indices: 91932671--91932837 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
91932661 AAATTGAATG
* * *
91932671 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
91932710 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
91932750 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
91932790 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
91932830 ATATCCGG
1 ATATCCGG
91932838 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:91940661 original size:40 final size:40
Alignment explanation
Indices: 91940595--91940761 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
91940585 AAATTGAATG
* * *
91940595 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
91940634 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
91940674 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
91940714 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
91940754 ATATCCGG
1 ATATCCGG
91940762 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:91943207 original size:16 final size:17
Alignment explanation
Indices: 91943173--91943212 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
91943163 AATAACATAA
*
91943173 AATAATTTAAAACAATG
1 AATAATATAAAACAATG
91943190 AATAATATAAAA-AATG
1 AATAATATAAAACAATG
91943206 AATAATA
1 AATAATA
91943213 ATCTAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (17 bp):
AATAATATAAAACAATG
Found at i:91943220 original size:17 final size:17
Alignment explanation
Indices: 91943180--91943230 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
91943170 TAAAATAATT
91943180 TAAAACAATGAATAAT-A
1 TAAAA-AATGAATAATAA
91943197 TAAAAAATGAATAATAA
1 TAAAAAATGAATAATAA
** *
91943214 TCTAAAATAAATAATAA
1 TAAAAAATGAATAATAA
91943231 AATAATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (17 bp):
TAAAAAATGAATAATAA
Found at i:91948292 original size:2 final size:2
Alignment explanation
Indices: 91948245--91948304 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
91948235 AGTTTTATTA
* * * * *
91948245 AT AT AA AT AT A- AT AT AT TT AT AT GT AT A- AT AT AA AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91948285 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
91948305 GATCAACTAT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:91952543 original size:31 final size:31
Alignment explanation
Indices: 91952499--91952558 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
91952489 CTTGATTTCT
91952499 AACTATTCTAAAGTTTTCATTTAAGTCACAA
1 AACTATTCTAAAGTTTTCATTTAAGTCACAA
*
91952530 AACTATT-TGAAAGTTTTTATTTAAGTCAC
1 AACTATTCT-AAAGTTTTCATTTAAGTCAC
91952559 TTGGTTGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (31 bp):
AACTATTCTAAAGTTTTCATTTAAGTCACAA
Found at i:91953922 original size:2 final size:2
Alignment explanation
Indices: 91953915--91953947 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
91953905 ATGATAATTT
91953915 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91953948 CACATGAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:91954772 original size:31 final size:31
Alignment explanation
Indices: 91954713--91954772 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
91954703 AAAATGATTA
* * **
91954713 CTAAATTATTCGAAAGTTTTCATTTAAGTTG
1 CTAAACTATTCAAAAGTTTTCACCTAAGTTG
*
91954744 CTAAACTATTCAAAAGTTTTTACCTAAGT
1 CTAAACTATTCAAAAGTTTTCACCTAAGT
91954773 CACCAGATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (31 bp):
CTAAACTATTCAAAAGTTTTCACCTAAGTTG
Found at i:91956083 original size:15 final size:15
Alignment explanation
Indices: 91956063--91956119 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
91956053 ATTCAATATT
91956063 AATATTTTAATAATA
1 AATATTTTAATAATA
*
91956078 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
91956097 AATATATTAATAATA
1 AATATTTTAATAATA
*
91956112 AATGTTTT
1 AATATTTT
91956120 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:91956524 original size:32 final size:34
Alignment explanation
Indices: 91956488--91956559 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
91956478 AACTTCTATT
*
91956488 AAATATTTTTA-AGAAA-TCTACCAAACAGCAAA
1 AAATATTTTTACACAAATTCTACCAAACAGCAAA
* * *
91956520 AAATA-TTTTACACAAATTCTTCTAAACAGCAGA
1 AAATATTTTTACACAAATTCTACCAAACAGCAAA
91956553 AAATATT
1 AAATATT
91956560 AACTTCTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 5 0.15
32 9 0.27
33 18 0.55
34 1 0.03
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (34 bp):
AAATATTTTTACACAAATTCTACCAAACAGCAAA
Found at i:91956596 original size:14 final size:14
Alignment explanation
Indices: 91956577--91956614 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
91956567 CCAAAAAATT
91956577 AAATCATTTTCCAA
1 AAATCATTTTCCAA
*
91956591 AAATCATTTTCCGA
1 AAATCATTTTCCAA
*
91956605 AAGTCATTTT
1 AAATCATTTT
91956615 TAGTGAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:91958189 original size:16 final size:16
Alignment explanation
Indices: 91958155--91958199 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
91958145 GATTGTGCTA
91958155 TAATTA-TAATTATA-
1 TAATTATTAATTATAT
91958169 T-ATTATTAATTATAT
1 TAATTATTAATTATAT
*
91958184 TAATTATTAAGTATAT
1 TAATTATTAATTATAT
91958200 CAATGATGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 4 0.15
14 9 0.33
15 1 0.04
16 13 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATTATTAATTATAT
Found at i:91964863 original size:5 final size:5
Alignment explanation
Indices: 91964855--91964883 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
91964845 TTTGTTTTGT
91964855 TAATA TAATA TAATA TAATA TAATA TAAT
1 TAATA TAATA TAATA TAATA TAATA TAAT
91964884 TAAGTATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:91965114 original size:7 final size:7
Alignment explanation
Indices: 91965102--91965162 Score: 122
Period size: 7 Copynumber: 8.7 Consensus size: 7
91965092 CCTAGATGAA
91965102 TTGGGCT
1 TTGGGCT
91965109 TTGGGCT
1 TTGGGCT
91965116 TTGGGCT
1 TTGGGCT
91965123 TTGGGCT
1 TTGGGCT
91965130 TTGGGCT
1 TTGGGCT
91965137 TTGGGCT
1 TTGGGCT
91965144 TTGGGCT
1 TTGGGCT
91965151 TTGGGCT
1 TTGGGCT
91965158 TTGGG
1 TTGGG
91965163 TTTCATAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.00, C:0.13, G:0.44, T:0.43
Consensus pattern (7 bp):
TTGGGCT
Found at i:91966423 original size:16 final size:16
Alignment explanation
Indices: 91966398--91966432 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
91966388 GCAAATCCCA
* *
91966398 AAATGTCGAAAAGCTG
1 AAATGCCGAAAAGCCG
91966414 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
91966430 AAA
1 AAA
91966433 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:91966686 original size:29 final size:29
Alignment explanation
Indices: 91966643--91966767 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
91966633 GAAAGCATGT
91966643 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
91966672 GTATGAATGTGATTTGGGCCTAATGGACC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** * *
91966701 ATACAAATGTGATTTAGGCCTAAAGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
91966730 ATATGAATGAGA-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
91966758 ATATGCATGT
1 ATATGAATGT
91966768 ATGTAGACTT
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 22 0.27
29 59 0.73
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:91975534 original size:45 final size:46
Alignment explanation
Indices: 91975393--91975619 Score: 278
Period size: 46 Copynumber: 5.0 Consensus size: 46
91975383 TTTGACATGA
* * ** * * * *
91975393 TGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
* ** * *
91975439 TGCCATGGTATCTTTCAACCATGGTTTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
91975485 TGCCATGTTATCTTTCAACCATGGT-TTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
91975530 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
91975576 TGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
91975620 AGAGCACACT
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 44 0.27
46 117 0.73
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:91975538 original size:91 final size:92
Alignment explanation
Indices: 91975404--91975619 Score: 283
Period size: 91 Copynumber: 2.4 Consensus size: 92
91975394 GCCATAGTGT
** * * * * *
91975404 CTTTCAATTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTTTTA
1 CTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTA
** * * * *
91975468 TTCATTTCATGTCACGCTGCCATGTTAT
65 CACATTTCATATCAAGCTGCCATGGTAG
91975496 CTTTCAACCATGGT-TTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTAC
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTAC
*
91975560 ACATTTCATATCAAGTTGCCATGGTAG
66 ACATTTCATATCAAGCTGCCATGGTAG
91975587 CTTTCAACCATGGTCTTACACATTTCATATCAG
1 CTTTCAACCATGGTCTTACACATTTCATATCAG
91975620 AGAGCACACT
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
90 4 0.04
91 74 0.69
92 30 0.28
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (92 bp):
CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTAC
ACATTTCATATCAAGCTGCCATGGTAG
Found at i:91982923 original size:43 final size:43
Alignment explanation
Indices: 91982827--91982925 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
91982817 GATAATTTAC
91982827 TCTCACATTTCATGTATTAAAAGGTGATATTGGAGAAAGATAT
1 TCTCACATTTCATGTATTAAAAGGTGATATTGGAGAAAGATAT
* * * * *
91982870 T-TCAATATTTCATGTATTTAAAGGTGATGTTTGGATAAGGA-AT
1 TCTC-ACATTTCATGTATTAAAAGGTGAT-ATTGGAGAAAGATAT
*
91982913 TCTCGCATTTCAT
1 TCTCACATTTCAT
91982926 TTATAAGGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
42 2 0.04
43 33 0.72
44 11 0.24
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (43 bp):
TCTCACATTTCATGTATTAAAAGGTGATATTGGAGAAAGATAT
Found at i:91988302 original size:34 final size:34
Alignment explanation
Indices: 91988259--91988332 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
91988249 TGTTGCCATA
91988259 GATATTGTCAATAATTCTATTTTAGTTGATTTGG
1 GATATTGTCAATAATTCTATTTTAGTTGATTTGG
91988293 GATATTGTCAATAATTCTATTTTAGTTGATTTGG
1 GATATTGTCAATAATTCTATTTTAGTTGATTTGG
91988327 GA-ATTG
1 GATATTG
91988333 AGTCTATCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 4 0.10
34 36 0.90
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.49
Consensus pattern (34 bp):
GATATTGTCAATAATTCTATTTTAGTTGATTTGG
Found at i:91993182 original size:55 final size:55
Alignment explanation
Indices: 91993062--91993203 Score: 151
Period size: 55 Copynumber: 2.6 Consensus size: 55
91993052 CGACATGGCT
* * * * **
91993062 GTGGGCGAACCTGCCAAAACAAAACGGGCGTGCGACACGTCCGTGCCTGGAAACC
1 GTGGCCGAACCAGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACC
* * ** *
91993117 GTGGCCGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGCAACC
1 GTGGCCGAACCAGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACC
* *
91993172 TTGAG-TGAACCAGCCAAAACAACACGGGCGTG
1 GTG-GCCGAACCAGCCAAAACAACACGGGCGTG
91993204 GACCTTCATA
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
55 70 0.99
56 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.29, T:0.12
Consensus pattern (55 bp):
GTGGCCGAACCAGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACC
Done.