Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_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: 3634043
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 17
Found at i:2326914 original size:59 final size:59
Alignment explanation
Indices: 2326787--2326924 Score: 138
Period size: 59 Copynumber: 2.3 Consensus size: 59
2326777 TAAGGATAAG
* * * * *
2326787 AAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTTATGTGCTAAAATGGTAAC
1 AAAAGCATACTAATGGTATGGATTTTCACATAGGGAACTTCATGTGCTAAAATGGAAAC
* * * *
2326846 AAAATCATACTAATGGTATGGATTTTTGA-ATAGGGAACTTCGTGTGCTAAAAT-GAAAG
1 AAAAGCATACTAATGGTATGGA-TTTTCACATAGGGAACTTCATGTGCTAAAATGGAAAC
*
2326904 AGGAAGCATACT-ATGTGTATG
1 A-AAAGCATACTAATG-GTATG
2326925 ATCTTCTAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 7 0.10
59 55 0.82
60 5 0.07
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (59 bp):
AAAAGCATACTAATGGTATGGATTTTCACATAGGGAACTTCATGTGCTAAAATGGAAAC
Found at i:2333857 original size:59 final size:59
Alignment explanation
Indices: 2333690--2333906 Score: 163
Period size: 59 Copynumber: 3.7 Consensus size: 59
2333680 TGATTACCGA
* * * * * *
2333690 ATGGAACACTTTGTGTGCTAAAACGATAAGGAAA-CTATACTGAGTGTATAGATTTTCAT
1 ATGGAGCACTTAGTATGCTAAAATGATAAGGAAATC-ATACTGAGTGTATGGATTTCCAT
* * * * ***
2333749 ATGGAGCACTTAGTGTGCT-AAATGATAAAGAAATCATATTAAAAATATGGATTTCCAT
1 ATGGAGCACTTAGTATGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAT
* * *
2333807 ATAGG-GCATGTTA-TATGCTAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCAG
1 AT-GGAGCA-CTTAGTATGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAT
** * ** * * *
2333866 ATAAAGCACTAAGGGTGCTATAAGGATAAGAAAATCATACT
1 ATGGAGCACTTAGTATGCTAAAATGATAAGGAAATCATACT
2333907 AATGGTATAA
Statistics
Matches: 121, Mismatches: 31, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
58 40 0.33
59 81 0.67
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (59 bp):
ATGGAGCACTTAGTATGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAT
Found at i:2334404 original size:11 final size:11
Alignment explanation
Indices: 2334388--2334429 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2334378 TTGTTGGGAA
2334388 TACTGTAGCAG
1 TACTGTAGCAG
*
2334399 TACTGTAGCAT
1 TACTGTAGCAG
*
2334410 TAATGTAGCAG
1 TACTGTAGCAG
*
2334421 TATTGTAGC
1 TACTGTAGC
2334430 TATGTATTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (11 bp):
TACTGTAGCAG
Found at i:2340234 original size:14 final size:14
Alignment explanation
Indices: 2340215--2340253 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2340205 TAATGAACAC
*
2340215 AAATGAACGTACGT
1 AAATGAACGTACAT
**
2340229 AAATGAACAAACAT
1 AAATGAACGTACAT
2340243 AAATGAACGTA
1 AAATGAACGTA
2340254 AATGAAAAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.18
Consensus pattern (14 bp):
AAATGAACGTACAT
Found at i:2340267 original size:21 final size:24
Alignment explanation
Indices: 2340225--2340272 Score: 75
Period size: 21 Copynumber: 2.1 Consensus size: 24
2340215 AAATGAACGT
2340225 ACGTAAATGAACAAACATAAATGA
1 ACGTAAATGAACAAACATAAATGA
2340249 ACGTAAATG-A-AAA-ATAAATGA
1 ACGTAAATGAACAAACATAAATGA
2340270 ACG
1 ACG
2340273 AACATAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 11 0.46
22 3 0.12
23 1 0.04
24 9 0.38
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (24 bp):
ACGTAAATGAACAAACATAAATGA
Found at i:2340748 original size:13 final size:13
Alignment explanation
Indices: 2340732--2340758 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2340722 TCATTTTAAA
2340732 ATTAAAATATTTT
1 ATTAAAATATTTT
2340745 ATTAAAATATTTT
1 ATTAAAATATTTT
2340758 A
1 A
2340759 AAAATAAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAAAATATTTT
Found at i:2342981 original size:149 final size:149
Alignment explanation
Indices: 2342806--2343417 Score: 931
Period size: 149 Copynumber: 4.1 Consensus size: 149
2342796 AATTTGATCA
* * *
2342806 ACATGCTCCTAAAACATCGTAAAATACATATGTACTTTCAATTTCTCTTTTTGATAATAATTTTT
1 ACATGCTCCTAAACCATCTTAGAATACATATGTACTTTCAATTTCTCTTTTTGATAATAATTTTT
* *
2342871 CAATTTAGTCTCTCAATTTTTCATAATTTTCTTATTTATTCAATTTATTATTTATTTTAAGTATG
66 CAATTTAGTCCCTCAATTTTTCATAATTTTCTTATTTATTCAATTCATTATTTATTTTAAGTATG
2342936 TTTTTACCTAAATTGAACC
131 TTTTTACCTAAATTGAACC
*
2342955 ACATGCTCCTAAATCATCTTAGAATACATATGTACTTTCAATTTCTCTTTTTGATAATAATTTTT
1 ACATGCTCCTAAACCATCTTAGAATACATATGTACTTTCAATTTCTCTTTTTGATAATAATTTTT
*
2343020 CAATTTAGTCCCTCAATTTTTCATAATTTTATTATTTATTCAATTCATTATTTATTTTAAGTATG
66 CAATTTAGTCCCTCAATTTTTCATAATTTTCTTATTTATTCAATTCATTATTTATTTTAAGTATG
2343085 TTTTTACCTAAATTGAACC
131 TTTTTACCTAAATTGAACC
* *
2343104 ACATACTCCTAAACCATCTTAGAATACATATGTACTTTCAATTTCTCTCTTTGATAATAATTTTT
1 ACATGCTCCTAAACCATCTTAGAATACATATGTACTTTCAATTTCTCTTTTTGATAATAATTTTT
2343169 CAATTTAGTCCCTCAATTTTTCATAATTTTCTTATTTATTCAATTCATTATTTATTTTAAGTATG
66 CAATTTAGTCCCTCAATTTTTCATAATTTTCTTATTTATTCAATTCATTATTTATTTTAAGTATG
*
2343234 TTTTTACCTAAATTGATCC
131 TTTTTACCTAAATTGAACC
* *
2343253 ACATTCTCCTAAACCATCTTAGAATACATATGTACTTTCAA-TTCTTCTTTTTTATAACAATTTT
1 ACATGCTCCTAAACCATCTTAGAATACATATGTACTTTCAATTTC-TCTTTTTGAT---AA----
* * * * * **
2343317 TTTATTTTTCAATTTAGTCCTTTAATTTTTCATAATTTCCTTATTTCTTCAATTCATCCTTTATT
58 -TAATTTTTCAATTTAGTCCCTCAATTTTTCATAATTTTCTTATTTATTCAATTCATTATTTATT
* *
2343382 TTGAGTTTGTTTTTACC-AAATTTGAACC
122 TTAAGTATGTTTTTACCTAAA-TTGAACC
2343410 ACATGCTC
1 ACATGCTC
2343418 ATATATCACA
Statistics
Matches: 428, Mismatches: 25, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
148 3 0.01
149 335 0.78
152 2 0.00
156 3 0.01
157 85 0.20
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (149 bp):
ACATGCTCCTAAACCATCTTAGAATACATATGTACTTTCAATTTCTCTTTTTGATAATAATTTTT
CAATTTAGTCCCTCAATTTTTCATAATTTTCTTATTTATTCAATTCATTATTTATTTTAAGTATG
TTTTTACCTAAATTGAACC
Found at i:2343340 original size:20 final size:19
Alignment explanation
Indices: 2343317--2343383 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
2343307 TAACAATTTT
2343317 TTTATTTTTCAATTTAGTCC
1 TTTATTTTTCAATTTA-TCC
*
2343337 TTTAATTTTTCATAATT-TCC
1 TTT-ATTTTTCA-ATTTATCC
*
2343357 -TTATTTCTTCAATTCATCC
1 TTTATTT-TTCAATTTATCC
2343376 TTTATTTT
1 TTTATTTT
2343384 GAGTTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
18 6 0.15
19 10 0.26
20 12 0.31
21 8 0.21
22 3 0.08
ACGTcount: A:0.21, C:0.16, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTATTTTTCAATTTATCC
Found at i:2357035 original size:39 final size:39
Alignment explanation
Indices: 2356960--2357256 Score: 296
Period size: 37 Copynumber: 7.9 Consensus size: 39
2356950 TATTTAATAT
* * * *
2356960 ATATCTATATATTATATAG-TTTGTAAATAGTTTTTGAAA
1 ATATATATATAATATATAGTTTTGAAAACA-TTTTTGAAA
* * * * *
2356999 GTATATATATAATATATGGTTTCGAAAATATGTTTGAAA
1 ATATATATATAATATATAGTTTTGAAAACATTTTTGAAA
* * * * *
2357038 ACATTTATATATTATATAATTTTTAAAACA-TTTTGAAA
1 ATATATATATAATATATAGTTTTGAAAACATTTTTGAAA
*
2357076 ATA-A-ATATAATATATAGTTTTTAAAACATTTTTGAAA
1 ATATATATATAATATATAGTTTTGAAAACATTTTTGAAA
* *
2357113 ATATATATAT--TATATAGTTTTTAAAACAATTTT-AAA
1 ATATATATATAATATATAGTTTTGAAAACATTTTTGAAA
* *
2357149 AAAT-TATATAATATATAGTTTTGAAAACAATTTTGAAA
1 ATATATATATAATATATAGTTTTGAAAACATTTTTGAAA
*
2357187 A-AT-TATATAATATATAATTTTGAAAACATTTTTGAAA
1 ATATATATATAATATATAGTTTTGAAAACATTTTTGAAA
*
2357224 ACT-T-T-TATAATATATAGTTTTAAAAACATTTTT
1 A-TATATATATAATATATAGTTTTGAAAACATTTTT
2357257 TTTGAAAACT
Statistics
Matches: 221, Mismatches: 28, Indels: 20
0.82 0.10 0.07
Matches are distributed among these distances:
35 5 0.02
36 28 0.13
37 116 0.52
38 16 0.07
39 48 0.22
40 8 0.04
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (39 bp):
ATATATATATAATATATAGTTTTGAAAACATTTTTGAAA
Found at i:2357333 original size:31 final size:32
Alignment explanation
Indices: 2357231--2357356 Score: 93
Period size: 31 Copynumber: 3.9 Consensus size: 32
2357221 AAAACTTTTA
*
2357231 TAATATATAGTTTTAAAAACATTTTTTTTGAAAAC
1 TAATATATAGTTTTAAAAAC---TTTTTTGAATAC
* * *
2357266 TTATATAATA-TTTTCAAAAC-ATTTTGAA-AGC
1 TAATAT-ATAGTTTTAAAAACTTTTTTGAATA-C
*
2357297 T-ATATATAGTTTTGAAAACTTTTTTGAATA-
1 TAATATATAGTTTTAAAAACTTTTTTGAATAC
*
2357327 TAATATATAG-TTTAAGAACATATTTTTGAA
1 TAATATATAGTTTTAAAAAC-T-TTTTTGAA
2357357 ATATATATTA
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
29 3 0.04
30 22 0.29
31 25 0.33
32 9 0.12
35 14 0.18
36 3 0.04
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (32 bp):
TAATATATAGTTTTAAAAACTTTTTTGAATAC
Found at i:2357422 original size:14 final size:14
Alignment explanation
Indices: 2357403--2357434 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2357393 TTTCTATTTT
2357403 ATTTCATGTTATTC
1 ATTTCATGTTATTC
*
2357417 ATTTCATTTTATTC
1 ATTTCATGTTATTC
2357431 ATTT
1 ATTT
2357435 TAACTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTTCATGTTATTC
Found at i:2359868 original size:21 final size:19
Alignment explanation
Indices: 2359843--2359888 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 19
2359833 GATCATGTCC
2359843 GGGTAGGAATTAAAGCATGTG
1 GGGTAGGAATT--AGCATGTG
*
2359864 GGGTA-G-ATTATCATGTG
1 GGGTAGGAATTAGCATGTG
2359881 GGGTAGGA
1 GGGTAGGA
2359889 TTTTTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 12 0.55
18 1 0.05
19 3 0.14
20 1 0.05
21 5 0.23
ACGTcount: A:0.28, C:0.04, G:0.41, T:0.26
Consensus pattern (19 bp):
GGGTAGGAATTAGCATGTG
Found at i:2364281 original size:165 final size:165
Alignment explanation
Indices: 2364006--2364954 Score: 1260
Period size: 165 Copynumber: 5.8 Consensus size: 165
2363996 TTTAAGACAA
* * * *
2364006 CATTTGCAGTATAAATTAAGTCGAGAAGGGTTATCTGCTAACAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTTCTAACAAAAGACCTTCGAGTTCGACTAC
* * * * *
2364071 GCTCAGCTCCAAGGCGTATCATTTACAGTATAGCTTAATTCGAGAAGGGATATCTGCCAAAGACC
66 GCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
*
2364136 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
131 CTCGAGTTCGATTACACTCAGCTTCGAGGGAACAT
* * *
2364171 CATTTGCGGTATAACTTAAGTCGAGAAGGGTTATCTTCTAACAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTTCTAACAAAAGACCTTCGAGTTCGACTAC
* * ** * * *
2364236 GCTCAGCTCTAAGGCGTATCATTTGCAATATAGCTTAAGTCGAGAAGGGTTATCCGCCGAAGACC
66 GCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
*
2364301 CTCGAGTTCGATTATACTCAGCTTCGAGGGAACAT
131 CTCGAGTTCGATTACACTCAGCTTCGAGGGAACAT
* * *
2364336 CATTTACATCATAACTTAAGTCGAGAAGGGTTATCTTCTAACCAAAGACCTTTGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTTCTAACAAAAGACCTTCGAGTTCGACTAC
* * * *
2364401 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGTTTAAGTCGATAAGGGCTATCTGCCAACGACC
66 GCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
2364466 CTCGAGTTCGATTACACTCAGCTTCGA-GGACACAT
131 CTCGAGTTCGATTACACTCAGCTTCGAGGGA-ACAT
* * * * * * * *
2364501 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATC-TGTGACCAAAGACCTTCGAGTTTGACTAT
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTTCTAACAAAAGACCTTCGAGTTCGACTAC
** * * * *
2364565 ATTCAGCTCCAAGGCACATAATTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTGCCAAAGACT
66 GCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
*
2364630 CTCGAGTTTGATTACACTCAGCTTCGAGGGAACAT
131 CTCGAGTTCGATTACACTCAGCTTCGAGGGAACAT
* * * * * *
2364665 CATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTTCTAACAAAAGACCTTCGAGTTCGACTAC
* * *
2364730 GCTCAACTCCAAGGCACT-TCATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 GCTCAGCTCCAAGGCA-TATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
* *
2364794 TCTCGAGTTTGATTACACTCAGCTTCGA-GGATACAT
130 CCTCGAGTTCGATTACACTCAGCTTCGAGGGA-ACAT
* * * *
2364830 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCT-TCTAACAAAAGACCTTCGAGTTCGACTA
* * * * *
2364894 CGCTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATGTGCCAA
65 CGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
2364955 CCGAAGACCT
Statistics
Matches: 696, Mismatches: 81, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
164 151 0.22
165 544 0.78
166 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (165 bp):
CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTTCTAACAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
CTCGAGTTCGATTACACTCAGCTTCGAGGGAACAT
Found at i:2364710 original size:329 final size:329
Alignment explanation
Indices: 2364006--2364954 Score: 1394
Period size: 329 Copynumber: 2.9 Consensus size: 329
2363996 TTTAAGACAA
* * * *
2364006 CATTTGCAGTATAAATTAAGTCGAGAAGGGTTATCTGCTAACAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACTAC
** * *
2364071 GCTCAGCTCCAAGGCGTATCATTTACAGTATAGCTTAATTCGAGAAGGGATATCTGCCAAAGACC
66 GCTCAGCTCCAAGGCACATCATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* * * * * * *
2364136 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCGGTATAACTTAAGTCGAGAAGGG
131 CTCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAGCATAACTCAAGGCTAGAAGGG
* * * **
2364201 TTATCTTCTAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCGTATCATTTGCAATA
196 TTATC-TGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCA
* * *
2364266 TAGCTTAAGTCGAGAAGGGTTATCCGCCGAAGACCCTCGAGTTCGATTATACTCAGCTTCGAGGG
260 TAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGG
2364331 AACAT
325 AACAT
* * *
2364336 CATTTACATCATAACTTAAGTCGAGAAGGGTTATCTTCTAACCAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACTAC
* * * * *
2364401 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGTTTAAGTCGATAAGGGCTATCTGCCAACGACC
66 GCTCAGCTCCAAGGCACATCATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
2364466 CTCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAGCATAACTCAAGGCTAGAAGGG
131 CTCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAGCATAACTCAAGGCTAGAAGGG
* * *** * * *
2364531 TTATCTGTGACCAAAGACCTTCGAGTTTGACTATATTCAGCTCCAAGGCACATAATTTGCAGCAT
196 TTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCAT
* * * *
2364596 AGCTTAAGTCGATAAGGGCTATCTGCCAAAGACTCTCGAGTTTGATTACACTCAGCTTCGAGGGA
261 AGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGA
2364661 ACAT
326 ACAT
* *
2364665 CATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACTAC
* * *
2364730 GCTCAACTCCAAGGCACTTCATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACT
66 GCTCAGCTCCAAGGCACATCATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* *
2364795 CTCGAGTTTGATTACACTCAGCTTCGAGGATACATCATTTACAGCATAACTCAAGGCTAGAAGGG
131 CTCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAGCATAACTCAAGGCTAGAAGGG
*
2364860 TTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCA
196 TTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCA
* * *
2364925 TAACTTAAGTCTAGAAGGGTTATGTGCCAA
260 TAGCTTAAGTCGAGAAGGGTTATCTGCCAA
2364955 CCGAAGACCT
Statistics
Matches: 547, Mismatches: 71, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
329 300 0.55
330 247 0.45
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (329 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
CTCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAGCATAACTCAAGGCTAGAAGGG
TTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCAT
AGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGA
ACAT
Found at i:2365754 original size:37 final size:37
Alignment explanation
Indices: 2365623--2365888 Score: 263
Period size: 37 Copynumber: 7.1 Consensus size: 37
2365613 TTGCAAATAG
* * *
2365623 TTTTTGAAAGTATATATGTAATATATGGTTTTGAAAACA
1 TTTTTGAAA--ATATATATAATATATAGTTTTTAAAACA
* * * *
2365662 TGTTTGAAAACATTAATATATTATATAATTTTTAAAACA
1 TTTTTGAAAATA-T-ATATAATATATAGTTTTTAAAACA
*
2365701 -TTTTGAAAATAAATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
2365737 TTTTTGAAAATATATATATTATATAGTTTTTAAAA-A
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
*** *
2365773 AAATTGAAAA-ATTATATAATATATAGTTTTGAAAACA
1 TTTTTGAAAATA-TATATAATATATAGTTTTTAAAACA
* * *
2365810 ATTTTGAAAA-ATTATATAATATATAATTTTGAAAACA
1 TTTTTGAAAATA-TATATAATATATAGTTTTTAAAACA
* * *
2365847 TTTTTTAAAAAAATATATAATATATAG-TTTTAAAATA
1 -TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
2365884 TTTTT
1 TTTTT
2365889 TTTGAAAACT
Statistics
Matches: 193, Mismatches: 27, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
35 1 0.01
36 56 0.29
37 77 0.40
38 31 0.16
39 28 0.15
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:2365782 original size:73 final size:72
Alignment explanation
Indices: 2365641--2365958 Score: 287
Period size: 73 Copynumber: 4.4 Consensus size: 72
2365631 AGTATATATG
* * *
2365641 TAATATATGGTTTTGAAAACATGTTTGAAAACATTAATATATTATATAATTTTTAAAACATTTTG
1 TAATATATAGTTTTGAAAACATTTTTGAAAA-ATT-ATATATTATATAATTTTTAAAAAATTTTG
2365706 AAAATAAATA
64 AAAA-AAATA
* * **
2365716 TAATATATAGTTTTTAAAACATTTTTG-AAAATATATATATTATATAGTTTTTAAAAAAAATTGA
1 TAATATATAGTTTTGAAAACATTTTTGAAAAAT-TATATATTATATAATTTTTAAAAAATTTTGA
*
2365780 AAAATTATA
65 AAAA-AATA
* * * * *
2365789 TAATATATAGTTTTGAAAACAATTTTGAAAAATTATATAATATATAATTTTGAAAACATTTTTTA
1 TAATATATAGTTTTGAAAACATTTTTGAAAAATTATATATTATATAATTTTTAAAA-A-ATTTTG
2365854 AAAAAATATA
64 AAAAAA-ATA
* * * *
2365864 TAATATATAGTTTT-AAAATATTTTTTTTG-AAAACT-TATA-TA-AT-ATTTTCAAAACATTTT
1 TAATATATAGTTTTGAAAACA---TTTTTGAAAAATTATATATTATATAATTTTTAAAAAATTTT
**
2365923 G--AAAGCTA
63 GAAAAAAATA
*
2365931 T-ATATATAGTTTTGAAAACTTTTTTGAA
1 TAATATATAGTTTTGAAAACATTTTTGAA
2365959 TATAATATAT
Statistics
Matches: 203, Mismatches: 29, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
64 6 0.03
65 1 0.00
66 12 0.06
67 7 0.03
68 3 0.01
70 4 0.02
72 10 0.05
73 81 0.40
74 17 0.08
75 52 0.26
76 5 0.02
77 5 0.02
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (72 bp):
TAATATATAGTTTTGAAAACATTTTTGAAAAATTATATATTATATAATTTTTAAAAAATTTTGAA
AAAAATA
Found at i:2365924 original size:31 final size:32
Alignment explanation
Indices: 2365888--2365973 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 32
2365878 AAAATATTTT
2365888 TTTTGAAAACT-TATATAATA-TTTTCAAAACA
1 TTTTGAAAACTATATAT-ATAGTTTTCAAAACA
* * *
2365919 TTTTGAAAGCTATATATATAGTTTTGAAAACTT
1 TTTTGAAAACTATATATATAGTTTTCAAAAC-A
*
2365952 TTTTGAATA-TA-ATATATAGTTT
1 TTTTGAAAACTATATATATAGTTT
2365974 AAGAAAATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
31 24 0.51
32 16 0.34
33 7 0.15
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (32 bp):
TTTTGAAAACTATATATATAGTTTTCAAAACA
Found at i:2365987 original size:33 final size:33
Alignment explanation
Indices: 2365919--2366009 Score: 89
Period size: 32 Copynumber: 2.8 Consensus size: 33
2365909 TTTCAAAACA
** * *
2365919 TTTTGAAAGCTATATATATAGTTT-TGAAAACTT
1 TTTTGAAATATATATATATAGTTTAAGAAAA-AT
2365952 TTTTG-AATATA-ATATATAGTTTAAGAAAATAT
1 TTTTGAAATATATATATATAGTTTAAGAAAA-AT
*
2365984 TTTTGAAATATATATTATATAATTTA
1 TTTTGAAATATATA-TATATAGTTTA
2366010 TATCATATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 11 0.23
32 15 0.31
33 11 0.23
34 1 0.02
35 10 0.21
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (33 bp):
TTTTGAAATATATATATATAGTTTAAGAAAAAT
Found at i:2366056 original size:14 final size:14
Alignment explanation
Indices: 2366037--2366068 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2366027 TTTCTATTTT
2366037 ATTTCATGTTATTC
1 ATTTCATGTTATTC
*
2366051 ATTTCATTTTATTC
1 ATTTCATGTTATTC
2366065 ATTT
1 ATTT
2366069 TAACTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTTCATGTTATTC
Found at i:2367410 original size:16 final size:15
Alignment explanation
Indices: 2367389--2367426 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
2367379 TGTCATTTCC
2367389 ATTATTTTATATATTT
1 ATTATTTTAT-TATTT
2367405 ATTATTTTATTATTT
1 ATTATTTTATTATTT
2367420 -TTATTTT
1 ATTATTTT
2367427 GCTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 10 0.45
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTATTTTATTATTT
Found at i:2368924 original size:69 final size:69
Alignment explanation
Indices: 2368833--2368969 Score: 274
Period size: 69 Copynumber: 2.0 Consensus size: 69
2368823 TCCACCTATG
2368833 AATGATAATGCAATAGAGAGATTCATTTAATTTTATTAGTTGAATTTAATGACATAATTGATTTT
1 AATGATAATGCAATAGAGAGATTCATTTAATTTTATTAGTTGAATTTAATGACATAATTGATTTT
2368898 TTTT
66 TTTT
2368902 AATGATAATGCAATAGAGAGATTCATTTAATTTTATTAGTTGAATTTAATGACATAATTGATTTT
1 AATGATAATGCAATAGAGAGATTCATTTAATTTTATTAGTTGAATTTAATGACATAATTGATTTT
2368967 TTT
66 TTT
2368970 GGATGATTTC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.46
Consensus pattern (69 bp):
AATGATAATGCAATAGAGAGATTCATTTAATTTTATTAGTTGAATTTAATGACATAATTGATTTT
TTTT
Found at i:2369979 original size:24 final size:26
Alignment explanation
Indices: 2369947--2369999 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
2369937 TATATTTATA
* *
2369947 TTTATTATT-AATTTAATTTTTATTT
1 TTTATTATTAAATTTAACTCTTATTT
*
2369972 TTTA-TATTAAATTTGACTCTTATTT
1 TTTATTATTAAATTTAACTCTTATTT
2369997 TTT
1 TTT
2370000 TTAAAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTATTATTAAATTTAACTCTTATTT
Found at i:2370301 original size:186 final size:186
Alignment explanation
Indices: 2369956--2370301 Score: 545
Period size: 186 Copynumber: 1.9 Consensus size: 186
2369946 ATTTATTATT
*
2369956 AATTTAATTTTTATTTTTTATATTAAATTTGACTCTTATTTTTTTTAAAAAAAGTATAATGTTTA
1 AATTTAATTTTTATTTTTTATATTAAATTTGACTCTTATTGTTTTTAAAAAAAGTATAATGTTTA
*
2370021 TTTTATAGGATGCCACTAGCTTTATTAAAAATTAAAAATATCTAGAATTACAATGAAGATTTACA
66 TTTTATAGGAAGCCACTAGCTTTATTAAAAATTAAAAATATCTAGAATTACAATGAAGATTTACA
*
2370086 AGCATAAACGTAAACATCTTAATAATTATATTTATATTTATTATTAATTTAAATTTA
131 AGCATAAACGTAAACA-CTAAATAATTATATTTATATTTATTATTAATTTAAATTTA
* *
2370143 AATTTTATTTTTA-TTTTTATATTAAATTTGACTCTTAATTGTTTTT-AAAAAAGTATAATTTTT
1 AATTTAATTTTTATTTTTTATATTAAATTTGACTCTT-ATTGTTTTTAAAAAAAGTATAATGTTT
* * * *
2370206 ATTTTATAGGAAGTCACTAGTTTTATTAAAACTTAAAAATATCTTGAATTACAATGAAGATTTAC
65 ATTTTATAGGAAGCCACTAGCTTTATTAAAAATTAAAAATATCTAGAATTACAATGAAGATTTAC
*
2370271 AAGCATAAGCGTAAACA-TAAACTAAATTATA
130 AAGCATAAACGTAAACACTAAA-T-AATTATA
2370302 ATTAGAACAT
Statistics
Matches: 146, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
184 3 0.02
185 1 0.01
186 122 0.84
187 20 0.14
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (186 bp):
AATTTAATTTTTATTTTTTATATTAAATTTGACTCTTATTGTTTTTAAAAAAAGTATAATGTTTA
TTTTATAGGAAGCCACTAGCTTTATTAAAAATTAAAAATATCTAGAATTACAATGAAGATTTACA
AGCATAAACGTAAACACTAAATAATTATATTTATATTTATTATTAATTTAAATTTA
Found at i:2371320 original size:18 final size:18
Alignment explanation
Indices: 2371272--2371327 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
2371262 AAAGAATTAC
*
2371272 GTTTTTCTTCTTCTTTG-
1 GTTTTTCTTCTTTTTTGA
* *
2371289 GTTGTTCATCTTTTTTGA
1 GTTTTTCTTCTTTTTTGA
2371307 GTTTTTCTTCTTTTTTGA
1 GTTTTTCTTCTTTTTTGA
2371325 GTT
1 GTT
2371328 AAATACTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
17 14 0.42
18 19 0.58
ACGTcount: A:0.05, C:0.12, G:0.14, T:0.68
Consensus pattern (18 bp):
GTTTTTCTTCTTTTTTGA
Found at i:2373289 original size:21 final size:21
Alignment explanation
Indices: 2373247--2373299 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
2373237 GTAAATTATA
* *
2373247 AATTTAAACTAATTTATGAAT
1 AATTTAAAATAATTTATAAAT
2373268 AATTTAAAATAA-TTACTAAAT
1 AATTTAAAATAATTTA-TAAAT
*
2373289 -ATTTAACATAA
1 AATTTAAAATAA
2373300 ATATTATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTTAAAATAATTTATAAAT
Found at i:2373614 original size:13 final size:12
Alignment explanation
Indices: 2373591--2373624 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
2373581 AAACATAAAT
2373591 AAATA-AAATTA
1 AAATACAAATTA
2373602 AAATACCAAATTA
1 AAATA-CAAATTA
2373615 AAATACAAAT
1 AAATACAAAT
2373625 ACACCTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 5 0.24
13 11 0.52
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATACAAATTA
Found at i:2375409 original size:45 final size:45
Alignment explanation
Indices: 2375354--2375507 Score: 134
Period size: 45 Copynumber: 3.4 Consensus size: 45
2375344 TTGAATTTGC
*
2375354 TTCCATTACTCTTCCGTGAAGTTTGATACTTTGCTGAAAAATCTG
1 TTCCACTACTCTTCCGTGAAGTTTGATACTTTGCTGAAAAATCTG
** * * * * ** * *
2375399 TTCCACTACTCTTTTGTGGAG-TTCAGA-TTT-ATGATTTAATTTAT
1 TTCCACTACTCTTCCGTGAAGTTTGATACTTTGCTGA-AAAATCT-G
* * *
2375443 TTCCACTATTCTTCCGTGGAGTTTGATACTTTGCTGAAAAATCCG
1 TTCCACTACTCTTCCGTGAAGTTTGATACTTTGCTGAAAAATCTG
*
2375488 TTCCACTACTCTTTCGTGAA
1 TTCCACTACTCTTCCGTGAA
2375508 AACTGAATTT
Statistics
Matches: 79, Mismatches: 25, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
42 3 0.04
43 7 0.09
44 22 0.28
45 38 0.48
46 6 0.08
47 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (45 bp):
TTCCACTACTCTTCCGTGAAGTTTGATACTTTGCTGAAAAATCTG
Found at i:2376163 original size:22 final size:22
Alignment explanation
Indices: 2376138--2376185 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
2376128 AAGCTCTTGC
*
2376138 CTTTGAAAAGAGAATTTATCAT
1 CTTTGAAAAGAGAATCTATCAT
*
2376160 CTTTTAAAAGAGAATCTATCAT
1 CTTTGAAAAGAGAATCTATCAT
2376182 CTTT
1 CTTT
2376186 ACAAAATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (22 bp):
CTTTGAAAAGAGAATCTATCAT
Found at i:2380537 original size:31 final size:31
Alignment explanation
Indices: 2380501--2380723 Score: 240
Period size: 31 Copynumber: 7.2 Consensus size: 31
2380491 ATTGATTTCT
2380501 ATATGGACAGTATACCTATGTTCTACGGAAC
1 ATATGGACAGTATACCTATGTTCTACGGAAC
* * **
2380532 ATATGGACAGAATTACCTATG-TCTTTCGGGGC
1 ATATGGACAGTA-TACCTATGTTC-TACGGAAC
2380564 ATATGGACAGTATACCTATGTTCTACGGAAC
1 ATATGGACAGTATACCTATGTTCTACGGAAC
* * *
2380595 ATATGGACA-TAATTACCTGTCTT-T-CGGGAC
1 ATATGGACAGT-A-TACCTATGTTCTACGGAAC
*
2380625 ATATGGACAGTATACCTATGTTTTACGGAAC
1 ATATGGACAGTATACCTATGTTCTACGGAAC
* * *
2380656 ATATGGACAGAATTACCTATG-TCTTTCGGGAC
1 ATATGGACAGTA-TACCTATGTTC-TACGGAAC
* *
2380688 ATATGGACAATATACCTATGTTCTAAGGAAC
1 ATATGGACAGTATACCTATGTTCTACGGAAC
2380719 ATATG
1 ATATG
2380724 AACAATTTAC
Statistics
Matches: 158, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
29 8 0.05
30 17 0.11
31 73 0.46
32 60 0.38
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (31 bp):
ATATGGACAGTATACCTATGTTCTACGGAAC
Found at i:2380578 original size:63 final size:63
Alignment explanation
Indices: 2380501--2380723 Score: 387
Period size: 63 Copynumber: 3.6 Consensus size: 63
2380491 ATTGATTTCT
*
2380501 ATATGGACAGTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGGC
1 ATATGGACAGTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGAC
*
2380564 ATATGGACAGTATACCTATGTTCTACGGAACATATGGACATAATTACC--TGTCTTTCGGGAC
1 ATATGGACAGTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGAC
*
2380625 ATATGGACAGTATACCTATGTTTTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGAC
1 ATATGGACAGTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGAC
* *
2380688 ATATGGACAATATACCTATGTTCTAAGGAACATATG
1 ATATGGACAGTATACCTATGTTCTACGGAACATATG
2380724 AACAATTTAC
Statistics
Matches: 151, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
61 58 0.38
63 93 0.62
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (63 bp):
ATATGGACAGTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGAC
Found at i:2380773 original size:124 final size:124
Alignment explanation
Indices: 2380501--2380727 Score: 373
Period size: 124 Copynumber: 1.8 Consensus size: 124
2380491 ATTGATTTCT
* * * *
2380501 ATATGGACAGTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGGCAT
1 ATATGAACAGTATACCTAGGTTTTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGACAT
* * *
2380566 ATGGACAGTATACCTATGTTCTACGGAACATATGGACATAATTACCTGTCTTTCGGGAC
66 ATGGACAATATACCTATGTTCTAAGGAACATATGAACATAATTACCTGTCTTTCGGGAC
* *
2380625 ATATGGACAGTATACCTATGTTTTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGACAT
1 ATATGAACAGTATACCTAGGTTTTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGACAT
2380690 ATGGACAATATACCTATGTTCTAAGGAACATATGAACA
66 ATGGACAATATACCTATGTTCTAAGGAACATATGAACA
2380728 ATTTACTTAG
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 98 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (124 bp):
ATATGAACAGTATACCTAGGTTTTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGACAT
ATGGACAATATACCTATGTTCTAAGGAACATATGAACATAATTACCTGTCTTTCGGGAC
Found at i:2384223 original size:63 final size:63
Alignment explanation
Indices: 2384144--2384521 Score: 600
Period size: 63 Copynumber: 6.0 Consensus size: 63
2384134 AGAGTCGAAA
* *
2384144 AATTACCAATGTCTTTCGTGACATATGGAAAGTATACCTATGTTCTACAGAACATATGGACAG
1 AATTACCTATGTCTTTCGTGACATATGGACAGTATACCTATGTTCTACAGAACATATGGACAG
2384207 AATTACCTATGTCTTTCGTGACATATGGACAGTATACCTATGTTCTACAGAACATATGGACAG
1 AATTACCTATGTCTTTCGTGACATATGGACAGTATACCTATGTTCTACAGAACATATGGACAG
* * *
2384270 AATTACCTATGTCTTTCGGGACATATGGACATTATACCTATGTTCTACGGAACATATGGACAG
1 AATTACCTATGTCTTTCGTGACATATGGACAGTATACCTATGTTCTACAGAACATATGGACAG
* * * **
2384333 AATTACCTATGTCTTTCGTGACATATGGACAATATACTTGTGTTCTATGGAACATATGGACAG
1 AATTACCTATGTCTTTCGTGACATATGGACAGTATACCTATGTTCTACAGAACATATGGACAG
*
2384396 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTAC-GAAACATATGGACAG
1 AATTACCTATGTCTTTCGTGACATATGGACAGTATACCTATGTTCTACAG-AACATATGGACAG
*
2384459 AATTACCTATGTCTTTCAG-GACATATGGACAGTATACCTATGTTCTA-AGGAATATATGGACAG
1 AATTACCTATGTCTTTC-GTGACATATGGACAGTATACCTATGTTCTACA-GAACATATGGACAG
2384522 TTTACTTAGG
Statistics
Matches: 295, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
62 1 0.00
63 292 0.99
64 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (63 bp):
AATTACCTATGTCTTTCGTGACATATGGACAGTATACCTATGTTCTACAGAACATATGGACAG
Found at i:2387182 original size:18 final size:18
Alignment explanation
Indices: 2387159--2387195 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2387149 GTTAAGCTCA
2387159 ACCTAGACTTCTAAGTTT
1 ACCTAGACTTCTAAGTTT
2387177 ACCTAGACTTCTAAGTTT
1 ACCTAGACTTCTAAGTTT
2387195 A
1 A
2387196 TTATATGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (18 bp):
ACCTAGACTTCTAAGTTT
Found at i:2388101 original size:21 final size:21
Alignment explanation
Indices: 2388059--2388111 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
2388049 GTAAATTATA
* *
2388059 AATTTAAACTAATTTACGAAT
1 AATTTAAAATAATTTACAAAT
2388080 AATTTAAAATAA-TTACTAAAT
1 AATTTAAAATAATTTAC-AAAT
*
2388101 -ATTTAACATAA
1 AATTTAAAATAA
2388112 ATATTATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (21 bp):
AATTTAAAATAATTTACAAAT
Found at i:2391578 original size:26 final size:24
Alignment explanation
Indices: 2391537--2391604 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
2391527 CTATGTAGAA
2391537 TAATAATCTAAAAATATA-TAAACAT
1 TAATAAT-T-AAAATATACTAAACAT
**
2391562 TAATTAATTATATAATATACTAATTAT
1 TAA-TAATTA-A-AATATACTAAACAT
2391589 TAATAATTAAAATATA
1 TAATAATTAAAATATA
2391605 AAGAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
24 7 0.19
25 6 0.16
26 16 0.43
27 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATAATTAAAATATACTAAACAT
Found at i:2392937 original size:20 final size:17
Alignment explanation
Indices: 2392895--2392941 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
2392885 GGGCTTCGGG
2392895 ATATATAA-ATAATAAT
1 ATATATAATATAATAAT
* *
2392911 ATTTATAATATAATATT
1 ATATATAATATAATAAT
2392928 AT-TAT-ATATAATAA
1 ATATATAATATAATAA
2392942 CGCATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.30
16 10 0.37
17 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATAATATAATAAT
Found at i:2393703 original size:26 final size:26
Alignment explanation
Indices: 2393674--2393727 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
2393664 TTTTTTCAAA
* *
2393674 CTAAAATATTTTAAAAT-TTATAATTT
1 CTAAAAAATCTTAAAATCTT-TAATTT
2393700 CTAAAAAATCTTAAAATCTTTAATTT
1 CTAAAAAATCTTAAAATCTTTAATTT
2393726 CT
1 CT
2393728 CAAACCTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.46
Consensus pattern (26 bp):
CTAAAAAATCTTAAAATCTTTAATTT
Found at i:2398506 original size:3 final size:3
Alignment explanation
Indices: 2398498--2398566 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
2398488 CTTTTAAAAA
* * *
2398498 ATT ATT ATT ATAT ATT ATT ATT ATAT ATT ATT AAGT GTT ATT ATT ATA
1 ATT ATT ATT AT-T ATT ATT ATT AT-T ATT ATT -ATT ATT ATT ATT ATT
* *
2398546 ATT A-T ATT AAT AGT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
2398567 CATTTGTGCA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
2 2 0.04
3 43 0.81
4 8 0.15
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:2398516 original size:13 final size:13
Alignment explanation
Indices: 2398498--2398566 Score: 69
Period size: 13 Copynumber: 5.8 Consensus size: 13
2398488 CTTTTAAAAA
2398498 ATTATTATTATAT
1 ATTATTATTATAT
2398511 ATTATTATTATAT
1 ATTATTATTATAT
*
2398524 ATTATTA--A-GT
1 ATTATTATTATAT
*
2398534 GTTATTATTATA-
1 ATTATTATTATAT
2398546 ATTA-TATTA-AT
1 ATTATTATTATAT
*
2398557 AGTATTATTA
1 ATTATTATTA
2398567 CATTTGTGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
10 8 0.17
11 9 0.20
12 9 0.20
13 20 0.43
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (13 bp):
ATTATTATTATAT
Found at i:2398562 original size:23 final size:24
Alignment explanation
Indices: 2398497--2398566 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 24
2398487 GCTTTTAAAA
2398497 AATTATTATT-ATA-TATTATTAT
1 AATTATTATTAATAGTATTATTAT
*
2398519 TATATATTATTAAGT-GTTATTATTAT
1 AAT-TATTATTAA-TAG-TATTATTAT
2398545 AATTA-TATTAATAGTATTATTA
1 AATTATTATTAATAGTATTATTA
2398567 CATTTGTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
22 2 0.05
23 16 0.40
24 8 0.20
25 3 0.08
26 11 0.28
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
AATTATTATTAATAGTATTATTAT
Found at i:2399386 original size:15 final size:15
Alignment explanation
Indices: 2399366--2399417 Score: 104
Period size: 15 Copynumber: 3.5 Consensus size: 15
2399356 AGAAAAGGAA
2399366 GAAGAGAAGTGGGTT
1 GAAGAGAAGTGGGTT
2399381 GAAGAGAAGTGGGTT
1 GAAGAGAAGTGGGTT
2399396 GAAGAGAAGTGGGTT
1 GAAGAGAAGTGGGTT
2399411 GAAGAGA
1 GAAGAGA
2399418 GAGAGGAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.37, C:0.00, G:0.46, T:0.17
Consensus pattern (15 bp):
GAAGAGAAGTGGGTT
Found at i:2400453 original size:2 final size:2
Alignment explanation
Indices: 2400446--2400477 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2400436 TTTTAATCAA
2400446 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
2400478 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2402115 original size:29 final size:29
Alignment explanation
Indices: 2402069--2402136 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
2402059 TTCTATTTGG
* *
2402069 TCAAAATAGATATTTAAAAT-TTTTATTAA
1 TCAAAATAGACATCT-AAATGTTTTATTAA
* **
2402098 TCAAAATAGGCATCTAAATGTTTTATTGT
1 TCAAAATAGACATCTAAATGTTTTATTAA
2402127 TCAAAATAGA
1 TCAAAATAGA
2402137 TACTATTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (29 bp):
TCAAAATAGACATCTAAATGTTTTATTAA
Found at i:2404681 original size:11 final size:12
Alignment explanation
Indices: 2404660--2404732 Score: 51
Period size: 12 Copynumber: 6.0 Consensus size: 12
2404650 CCCTTTATAC
2404660 TTATATATATTT
1 TTATATATATTT
2404672 TTAT-TATATTT
1 TTATATATATTT
* *
2404683 CGTATTTACTATTT
1 -TTATATA-TATTT
*
2404697 ATT-TATATATAT
1 -TTATATATATTT
* *
2404709 ATATATATATAT
1 TTATATATATTT
*
2404721 ATATATATATTT
1 TTATATATATTT
2404733 GAATTTTTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
11 8 0.16
12 31 0.62
13 5 0.10
14 6 0.12
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (12 bp):
TTATATATATTT
Found at i:2404707 original size:2 final size:2
Alignment explanation
Indices: 2404700--2404730 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2404690 ACTATTTATT
2404700 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2404731 TTGAATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2404781 original size:2 final size:2
Alignment explanation
Indices: 2404774--2404817 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2404764 ATATTCTTAT
2404774 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
2404816 TA
1 TA
2404818 CATTACCTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2406035 original size:10 final size:10
Alignment explanation
Indices: 2406014--2406048 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
2406004 TTCCTTTACC
2406014 ATTTATTTTTT
1 ATTTA-TTTTT
2406025 ATTTATTTTT
1 ATTTATTTTT
*
2406035 ATTTATTTCT
1 ATTTATTTTT
2406045 ATTT
1 ATTT
2406049 TACTAACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:2416760 original size:64 final size:64
Alignment explanation
Indices: 2416659--2417229 Score: 926
Period size: 64 Copynumber: 8.8 Consensus size: 64
2416649 GTGCCACTCA
2416659 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* *
2416723 AGACAACAAAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATCTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
*
2416787 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATCTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
*
2416851 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTGTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* * * * *
2416915 AGATAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGGCGACAAAAAAATTTTCCAGTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTT---GTCAACAAAATTTCCCAGTT
2416980 TC
63 TC
* *
2416982 AGACAACACAAGTTCAACTTCACAACGAAGGGGTCGCTGGTTGTCAACAAAAATTTCCCAGTGTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AAAATTTCCCAGTTTC
* * *
2417047 AGACAACACAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCGACAAGAATTTCCCAGTATC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAA-AATTTCCCAGTTTC
2417112 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAACAAAAATTTCCCAGTTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTC-AAC-AAAATTTCCCAGTTT
*
2417177 A
64 C
* *
2417178 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAAA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAA
2417230 AAACTTCCCC
Statistics
Matches: 474, Mismatches: 26, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
64 238 0.50
65 119 0.25
66 57 0.12
67 60 0.13
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (64 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
Found at i:2417397 original size:105 final size:107
Alignment explanation
Indices: 2417186--2417401 Score: 328
Period size: 105 Copynumber: 2.0 Consensus size: 107
2417176 TAAGACAGCA
2417186 CAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAAAAAACTTCCCCAGTTTCAGAGC
1 CAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAAC-AAAAAACTTCCCCAGTTTCAGAGC
* * *
2417251 CAGTTTCAACTTCACGGCGAAGGATATTGGACTCGATACAACG
65 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACG
* * * * *
2417294 CAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AAACACTT-TCCAGTTTCATAGTC
1 CAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAAAAACTTCCCCAGTTTCAGAGCC
*
2417357 AATTTCAACTTCACAGCGAAGGATATTGGCCTCGAAACAACG
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACG
2417399 CAA
1 CAA
2417402 CTTGCATTGG
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 53 0.54
106 7 0.07
108 39 0.39
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (107 bp):
CAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAAAAACTTCCCCAGTTTCAGAGCC
AATTTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACG
Found at i:2422043 original size:2 final size:2
Alignment explanation
Indices: 2422036--2422100 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
2422026 AAAACTAAAG
2422036 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
2422078 TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
2422101 GTTTTATAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2422268 original size:2 final size:2
Alignment explanation
Indices: 2422261--2422296 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2422251 ACTAAAGTAA
2422261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2422297 TTGTTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2435427 original size:84 final size:84
Alignment explanation
Indices: 2435187--2435830 Score: 575
Period size: 84 Copynumber: 7.5 Consensus size: 84
2435177 TGACCAGTTG
* *
2435187 AAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
2435252 GAAGGGCTATCTG----CC
66 GAAGGGTTATCTGCCAACC
* * * * *
2435267 AAAGAACTTCGAGTTCGATTACACTTAGCTCAAAGGCACCATCATTTGCAGCATAACTTAAGTCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAGTCG
2435332 AGAAGGGTTATCTGCCAACC
65 AGAAGGGTTATCTGCCAACC
* *
2435352 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAATTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
2435417 TAAGGGTTATCTGCCAACC
66 GAAGGGTTATCTGCCAACC
* * * *
2435436 AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGACATATTATTTGCAGCATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
* *
2435501 GAAGGGTTATCTTCCAGCC
66 GAAGGGTTATCTGCCAACC
* * ** * * *
2435520 AAAGACCTTTGAGTTCGACTACGCTCATCTCCAAGGCACATC-TCCAAGGCA-CATCATTTGCAG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT---TTGCAGCATAACTT-AAG
** * * * * ** **
2435583 TATAACTTAATTCGAG-AAGGGCTATCTGCC
62 T-CGA--GAA---GGGTTA--TCTGCCAACC
* * * ** * * *
2435613 AACCAAAGACGT-TCGAATTCGACTACGCTCAGCTCCAAGGCATATTATTTGCAGTATAACTTAA
1 AA--AGA-CCTTCGAG--TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAA
** *
2435677 GTCGAGAAGAATAATCTGCCAACC
61 GTCGAGAAGGGTTATCTGCCAACC
* * *
2435701 AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCATCATAACTTAAGTCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
2435766 GAAGGGTTATCTGCCAACA
66 GAAGGGTTATCTGCCAACC
* ** * * *
2435785 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAATGCATATCATTT
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
2435831 ATATCAATTC
Statistics
Matches: 448, Mismatches: 90, Indels: 48
0.76 0.15 0.08
Matches are distributed among these distances:
80 32 0.07
81 38 0.08
83 1 0.00
84 254 0.57
85 43 0.10
86 9 0.02
87 1 0.00
88 7 0.02
89 4 0.01
90 2 0.00
91 1 0.00
92 4 0.01
93 8 0.02
94 1 0.00
95 9 0.02
96 7 0.02
97 26 0.06
98 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (84 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
GAAGGGTTATCTGCCAACC
Found at i:2435563 original size:13 final size:13
Alignment explanation
Indices: 2435545--2435574 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2435535 CGACTACGCT
2435545 CATCTCCAAGGCA
1 CATCTCCAAGGCA
2435558 CATCTCCAAGGCA
1 CATCTCCAAGGCA
2435571 CATC
1 CATC
2435575 ATTTGCAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.13, T:0.17
Consensus pattern (13 bp):
CATCTCCAAGGCA
Found at i:2435634 original size:97 final size:97
Alignment explanation
Indices: 2435464--2435742 Score: 289
Period size: 97 Copynumber: 3.0 Consensus size: 97
2435454 CTACGCTCAG
* * * * *
2435464 CTCCAAGACATATTATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAGCCAAAGACCTT
1 CTCCAAGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTT
* * *
2435529 TGAGTTCGACTACGCTCATCTCCAAGGCACAT
66 CGAATTCGACTACGCTCAGCTCCAAGGCACAT
* * * *
2435561 CTCCAAGGCACATCATTTGCAGTATAACTTAATTCGAGAAGGGCTATCTGCCAACCAAAGACGTT
1 CTCCAAGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTT
2435626 CGAATTCGACTACGCTCAGCTCCAAGG--CA-
66 CGAATTCGACTACGCTCAGCTCCAAGGCACAT
* * **
2435655 -T---------ATTATTTGCAGTATAACTTAAGTCGAGAA-GAATAATCTGCCAACCAAAGACCT
1 CTCCAAGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCT-ATCTGCCAACCAAAGACCT
* *
2435709 TCGAGTTTGACTACGCTCAGCTCCAAGGCACAT
65 TCGAATTCGACTACGCTCAGCTCCAAGGCACAT
2435742 C
1 C
2435743 ATTTGCATCA
Statistics
Matches: 158, Mismatches: 19, Indels: 19
0.81 0.10 0.10
Matches are distributed among these distances:
83 2 0.01
84 71 0.45
86 2 0.01
93 1 0.01
95 2 0.01
97 80 0.51
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (97 bp):
CTCCAAGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTT
CGAATTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:2435684 original size:181 final size:181
Alignment explanation
Indices: 2435380--2435742 Score: 573
Period size: 181 Copynumber: 2.0 Consensus size: 181
2435370 CTACGCTCAG
* * *
2435380 CTCCAAGGCACATCATTTGCAGCATAGCTTAATTCGATAAGGGTTATCTGCCAACCAAAGACCTT
1 CTCCAAGGCACATCATTTGCAGCATAACTTAATTCGAGAAGGGCTATCTGCCAACCAAAGACCTT
* * ** *
2435445 CGAGTTTGACTACGCTCAGCTCCAAGACATATTATTTGCAGCATAACTTAAGTCGAGAAGGGTTA
66 CGAATTCGACTACGCTCAGCTCCAAGACATATTATTTGCAGCATAACTTAAGTCGAGAAGAATAA
* * * *
2435510 TCTTCCAGCCAAAGACCTTTGAGTTCGACTACGCTCATCTCCAAGGCACAT
131 TCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* *
2435561 CTCCAAGGCACATCATTTGCAGTATAACTTAATTCGAGAAGGGCTATCTGCCAACCAAAGACGTT
1 CTCCAAGGCACATCATTTGCAGCATAACTTAATTCGAGAAGGGCTATCTGCCAACCAAAGACCTT
* *
2435626 CGAATTCGACTACGCTCAGCTCCAAGGCATATTATTTGCAGTATAACTTAAGTCGAGAAGAATAA
66 CGAATTCGACTACGCTCAGCTCCAAGACATATTATTTGCAGCATAACTTAAGTCGAGAAGAATAA
*
2435691 TCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACAT
131 TCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
2435742 C
1 C
2435743 ATTTGCATCA
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
181 165 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (181 bp):
CTCCAAGGCACATCATTTGCAGCATAACTTAATTCGAGAAGGGCTATCTGCCAACCAAAGACCTT
CGAATTCGACTACGCTCAGCTCCAAGACATATTATTTGCAGCATAACTTAAGTCGAGAAGAATAA
TCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:2435791 original size:265 final size:266
Alignment explanation
Indices: 2435299--2435802 Score: 794
Period size: 265 Copynumber: 1.9 Consensus size: 266
2435289 ACTTAGCTCA
*
2435299 AAGGCACCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGA
1 AAGGCACCATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGA
* * * * ** *
2435364 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAATTCGATAAGGGTTATCT
66 ATTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAATAATCT
* *
2435429 GCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGACATATTATTTGCAGCATAACTT
131 GCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAACTT
* * * *
2435494 AAGTCGAGAAGGGTTATCTTCCAGCCAAAGACCTTTGAGTTCGACTACGCTCATCTCCAAGGCAC
196 AAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCATCTCCAAGGCAC
2435559 ATCTCC
261 ATCTCC
* * *
2435565 AAGGCA-CATCATTTGCAGTATAACTTAATTCGAGAAGGGCTATCTGCCAACCAAAGACGTTCGA
1 AAGGCACCATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGA
* * *
2435629 ATTCGACTACGCTCAGCTCCAAGGCATATTATTTGCAGTATAACTTAAGTCGAGAAGAATAATCT
66 ATTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAATAATCT
* *
2435694 GCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCATCATAACTT
131 GCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAACTT
*
2435759 AAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGA
196 AAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGA
2435803 TTACATTCAG
Statistics
Matches: 215, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
265 209 0.97
266 6 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (266 bp):
AAGGCACCATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGA
ATTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAATAATCT
GCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAACTT
AAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCATCTCCAAGGCAC
ATCTCC
Found at i:2436166 original size:83 final size:83
Alignment explanation
Indices: 2436059--2436253 Score: 300
Period size: 83 Copynumber: 2.3 Consensus size: 83
2436049 ATGGCATACC
** * *
2436059 GTCCTCATCACGTAAAAACTGTGTCATCACCCGACCTGATCTCCTCATCACGTATGAGCCGTATC
1 GTCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTATC
2436124 AACCCCAGATAACCAGTT
66 AACCCCAGATAACCAGTT
* * *
2436142 GTCCTCATCACGTAGGAACCGTGTCATCACCTGGCCTGATCTCCTCATCACGTAGGAGCCGTGTC
1 GTCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTATC
2436207 AACCCCAGATAACCAGTT
66 AACCCCAGATAACCAGTT
* * *
2436225 ATCCTCATTACGTAGGAACCGTGTTATCA
1 GTCCTCATCACGTAGGAACCGTGTCATCA
2436254 TCCTTAGATG
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 102 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (83 bp):
GTCCTCATCACGTAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTATC
AACCCCAGATAACCAGTT
Found at i:2436195 original size:40 final size:41
Alignment explanation
Indices: 2436060--2436336 Score: 168
Period size: 40 Copynumber: 6.6 Consensus size: 41
2436050 TGGCATACCG
** * *
2436060 TCCTCATCACGTAAAAACTGTGTCATCACC-CGACCTGATC
1 TCCTCATCACGTAGGAACCGTGTCATCACCATGACCTGATC
* * * * * * * * *
2436100 TCCTCATCACGTATGAGCCGTATCAACCCCAGATAACCAGTTG
1 TCCTCATCACGTAGGAACCGTGTCATCACC--ATGACCTGATC
*
2436143 TCCTCATCACGTAGGAACCGTGTCATCACC-TGGCCTGATC
1 TCCTCATCACGTAGGAACCGTGTCATCACCATGACCTGATC
* * * * * * *
2436183 TCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTTA
1 TCCTCATCACGTAGGAACCGTGTCATCACC--ATGACCTGATC
* * * *
2436226 TCCTCATTACGTAGGAACCGTGTTATCATCCTTAGATGGCCTG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCA-CC----ATGACCTGATC
*
2436271 GTCCTCATCACGTAGG-ACCTGTGTCATCACC-CGACCTGATC
1 -TCCTCATCACGTAGGAACC-GTGTCATCACCATGACCTGATC
* *
2436312 TCCTCATCACGTAGGAGCCATGTCA
1 TCCTCATCACGTAGGAACCGTGTCA
2436337 ACCTTAGATA
Statistics
Matches: 177, Mismatches: 47, Indels: 26
0.71 0.19 0.10
Matches are distributed among these distances:
40 80 0.45
41 3 0.02
43 58 0.33
44 2 0.01
45 5 0.03
46 29 0.16
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (41 bp):
TCCTCATCACGTAGGAACCGTGTCATCACCATGACCTGATC
Found at i:2436238 original size:43 final size:43
Alignment explanation
Indices: 2436100--2436248 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
2436090 CGACCTGATC
* * * *
2436100 TCCTCATCACGTATGAGCCGTATCAACCCCAGATAACCAGTTG
1 TCCTCATCACGTAGGAACCGTGTCAACCCCAGATAACCAGTTA
* * ** * * *
2436143 TCCTCATCACGTAGGAACCGTGTCATCACC---TGGCCTGATC
1 TCCTCATCACGTAGGAACCGTGTCAACCCCAGATAACCAGTTA
*
2436183 TCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTTA
1 TCCTCATCACGTAGGAACCGTGTCAACCCCAGATAACCAGTTA
*
2436226 TCCTCATTACGTAGGAACCGTGT
1 TCCTCATCACGTAGGAACCGTGT
2436249 TATCATCCTT
Statistics
Matches: 83, Mismatches: 20, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 32 0.39
43 51 0.61
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
TCCTCATCACGTAGGAACCGTGTCAACCCCAGATAACCAGTTA
Found at i:2436348 original size:212 final size:212
Alignment explanation
Indices: 2435958--2436382 Score: 616
Period size: 212 Copynumber: 2.0 Consensus size: 212
2435948 AAGATATCCA
*
2435958 ACCTGACCTAATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAAATAGCCAACTATCCTCATCA
1 ACCTGACCTAATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAAATAACCAACTATCCTCATCA
*
2436023 CATAGGAACCATGTTATTACCCTTAGATGGCATACCGTCCTCATCACGTAAAAACTGTGTCATCA
66 CATAGGAACCATGTTATCACCCTTAGATGGCATACCGTCCTCATCACGTAAAAACTGTGTCATCA
* * **
2436088 CCCGACCTGATCTCCTCATCACGTATGAGCCGTATCAACCCCAGATAACCAGTTGTCCTCATCAC
131 CCCGACCTGATCTCCTCATCACGTAGGAGCCATATCAACCCCAGATAACCAGCCGTCCTCATCAC
* *
2436153 GTAGGAACCGTGTCATC
196 ATAGGAACCATGTCATC
* * * ** *
2436170 ACCTGGCCTGATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTTATCCTCATTA
1 ACCTGACCTAATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAAATAACCAACTATCCTCATCA
* * * * * ** *
2436235 CGTAGGAACCGTGTTATCATCCTTAGATGGCCTGCCGTCCTCATCACGTAGGACCTGTGTCATCA
66 CATAGGAACCATGTTATCACCCTTAGATGGCATACCGTCCTCATCACGTAAAAACTGTGTCATCA
* **
2436300 CCCGACCTGATCTCCTCATCACGTAGGAGCCATGTCAACCTTAGATAACCAGCCGTCCTCATCAC
131 CCCGACCTGATCTCCTCATCACGTAGGAGCCATATCAACCCCAGATAACCAGCCGTCCTCATCAC
*
2436365 ATAGGAACCATGTTATC
196 ATAGGAACCATGTCATC
2436382 A
1 A
2436383 TCCCTAATGA
Statistics
Matches: 187, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
212 187 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (212 bp):
ACCTGACCTAATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAAATAACCAACTATCCTCATCA
CATAGGAACCATGTTATCACCCTTAGATGGCATACCGTCCTCATCACGTAAAAACTGTGTCATCA
CCCGACCTGATCTCCTCATCACGTAGGAGCCATATCAACCCCAGATAACCAGCCGTCCTCATCAC
ATAGGAACCATGTCATC
Found at i:2436467 original size:131 final size:131
Alignment explanation
Indices: 2436143--2436516 Score: 483
Period size: 131 Copynumber: 2.9 Consensus size: 131
2436133 TAACCAGTTG
*
2436143 TCCTCATCACGTAGGAACCGTGTCATCACCT-GGCCTGATCTCCTCATCACGTAGGAGCC-GTGT
1 TCCTCATCACGTAGGAACCGTGTCATCACCTCGACCTGATCTCCTCATCACGTAGGA-CCAGTGT
** *** * * *
2436206 CAACCCCAGATAACCAGTTATCCTCATTACGTAGGAACCGTGTTATCAT-CCTTAGATGGCCTGC
65 CAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAGATGGCCTAC
*
2436270 CG
130 CA
2436272 TCCTCATCACGTAGG-ACCTGTGTCATCACC-CGACCTGATCTCCTCATCACGTAGGAGCCA-TG
1 TCCTCATCACGTAGGAACC-GTGTCATCACCTCGACCTGATCTCCTCATCACGTAGGA-CCAGTG
* *
2436334 TCAACCTTAGATAACCAGCCGTCCTCATCACATAGGAACCATGTTATCATCCCTAATGATGGCCT
64 TCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAA-GATGGCCT
2436399 ACCA
128 ACCA
* ** * * *
2436403 TCCTCATCACGTAGGAATCGTGTCATC-CCTCGACCACATCTCCTCATCACATCGGATCAGTGTC
1 TCCTCATCACGTAGGAACCGTGTCATCACCTCGACCTGATCTCCTCATCACGTAGGACCAGTGTC
* *
2436467 AACCTTAGATAACCAACCGTCCTCATCACGTAGGAACTGTGTTATCATCC
66 AACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATCC
2436517 TTAGGCGATC
Statistics
Matches: 215, Mismatches: 22, Indels: 14
0.86 0.09 0.06
Matches are distributed among these distances:
128 3 0.01
129 97 0.45
130 8 0.04
131 105 0.49
132 2 0.01
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (131 bp):
TCCTCATCACGTAGGAACCGTGTCATCACCTCGACCTGATCTCCTCATCACGTAGGACCAGTGTC
AACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAGATGGCCTACC
A
Found at i:2436731 original size:3 final size:3
Alignment explanation
Indices: 2436709--2436783 Score: 123
Period size: 3 Copynumber: 24.7 Consensus size: 3
2436699 GTCGAAAAAA
* *
2436709 TAT TAT TAAA TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2436755 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2436784 GTAGTATTAC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 65 0.97
4 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2436884 original size:12 final size:12
Alignment explanation
Indices: 2436867--2436904 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
2436857 TTTCCACCAC
*
2436867 TCCATGTTTTCT
1 TCCATGTTTTAT
2436879 TCCATGTTTTAT
1 TCCATGTTTTAT
*
2436891 TCAATGTTTTAT
1 TCCATGTTTTAT
2436903 TC
1 TC
2436905 TTCCACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.16, C:0.18, G:0.08, T:0.58
Consensus pattern (12 bp):
TCCATGTTTTAT
Found at i:2443618 original size:54 final size:54
Alignment explanation
Indices: 2443220--2443608 Score: 582
Period size: 54 Copynumber: 7.2 Consensus size: 54
2443210 TATATGTTAT
* *
2443220 AATTACCGTATTGACATTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
* *
2443274 AATTACCATATTGGCACTATATGTGCAACCTAAGTAATTCATAATTAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
2443328 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
* * *
2443382 AATTACCATATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTTTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
* *
2443436 AATTACAGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
* * *
2443490 AATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATTAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
* *** * * * *
2443544 AATTACAGTATCACCACTATGTGTGCAACCCACA-TAATTCGTACTGAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTA-AGTAATTCATAATTAGTTTGTG
2443598 AATTACCGTAT
1 AATTACCGTAT
2443609 CAACACTATG
Statistics
Matches: 309, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
54 309 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (54 bp):
AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
Found at i:2449715 original size:54 final size:54
Alignment explanation
Indices: 2449332--2449700 Score: 551
Period size: 54 Copynumber: 6.8 Consensus size: 54
2449322 TATATGTTGC
*
2449332 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTATTTCATAATTAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
*
2449386 AATTACCATATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
*
2449440 AATTACCGTATTGGCATTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
* * *
2449494 AATTACTGTATTGGCACTATGTGTACAACCTAAGTAATTCATAATGAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
* * * *
2449548 AATTATCGTATTGGAACTATGTGTGCAACCTAAGTAATTCACAATGAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
* * * * *
2449602 AATTACCGTATCGACACTATGTGTGTAACCCATGTAATTCATAATTAGTTTGTG
1 AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
** * *
2449656 AATTACCGTATCAGCACTATATGTGCAACCCACA-TAATTCATAAT
1 AATTACCGTATTGGCACTATGTGTGCAACCTA-AGTAATTCATAAT
2449701 GTTTTTATGA
Statistics
Matches: 287, Mismatches: 27, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
54 287 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (54 bp):
AATTACCGTATTGGCACTATGTGTGCAACCTAAGTAATTCATAATTAGTTTGTG
Found at i:2453574 original size:81 final size:81
Alignment explanation
Indices: 2453490--2454225 Score: 1046
Period size: 81 Copynumber: 9.1 Consensus size: 81
2453480 AGACATTTAG
* * * * * *
2453490 TCTTTTACCCAAATGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTATGCCAAAGGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGC
* ** ** *
2453555 GCAATTAGGCTTTTAG
66 ACAGCTAGGCCATTAA
* *
2453571 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-AGGCATAATTGACACATTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTA-GCATAATTGACACCTTTATGTCAAATG
* * *
2453635 TATAGCTATGCCATTAA
65 CACAGCTAGGCCATTAA
* * *
2453652 TCTTTTACTCAAAGGTATTTAACTTTTCATCTAACTAGCATAATTGACACCTTTTTGTAAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGC
*
2453717 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
2453733 TCTTTTACTCAAAGATATTTAACCTTTCATCTAACTAGCATAATTGGCACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGC
**
2453798 ACAGCTAGGATATTAA
66 ACAGCTAGGCCATTAA
* *
2453814 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACT-GACATAATTGACACCTTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAG-CATAATTGACACCTTTATGTCAAATG
*
2453878 CACAGCTATGCCATTAA
65 CACAGCTAGGCCATTAA
* *
2453895 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GACATAATTGATACATTTATGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAG-CATAATTGACACCTTTATGTCAAATG
*
2453959 CACAACTAGGCCATTAA
65 CACAGCTAGGCCATTAA
2453976 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGC
*
2454041 ACAGCTAGACCATTAA
66 ACAGCTAGGCCATTAA
* * * * *
2454057 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTAGCATAATTGACACATATCTGTAAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGC
*
2454122 ACAGCTAGACCATTAA
66 ACAGCTAGGCCATTAA
* *
2454138 TCTTTTACTCAAAGGTGTTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGC
*
2454203 ACAGTTAGGCCATTAA
66 ACAGCTAGGCCATTAA
2454219 TCTTTTA
1 TCTTTTA
2454226 TTTTATAACA
Statistics
Matches: 588, Mismatches: 63, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
80 1 0.00
81 585 0.99
82 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:2454414 original size:55 final size:55
Alignment explanation
Indices: 2454311--2454414 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
2454301 TTGCACCGGT
* * **
2454311 AGTGCCAATACGGTAATACATAAACTTATTATGAATTTCTTAGTTTTTAATACAC
1 AGTGCCAATACAGAAATACATAAACTTATTATGAATTTCTTAACTTTTAATACAC
* *
2454366 AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAACTTTTA
1 AGTGCCAATACAGAAATACATAAACTTATTATGAATTTCTTAACTTTTA
2454415 CACATAAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (55 bp):
AGTGCCAATACAGAAATACATAAACTTATTATGAATTTCTTAACTTTTAATACAC
Found at i:2462870 original size:9 final size:9
Alignment explanation
Indices: 2462858--2462885 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2462848 ATCATCATCA
2462858 TCGTCGTCC
1 TCGTCGTCC
2462867 TCGTCGTCC
1 TCGTCGTCC
2462876 TCGTCGTCC
1 TCGTCGTCC
2462885 T
1 T
2462886 GAGCAGGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.43, G:0.21, T:0.36
Consensus pattern (9 bp):
TCGTCGTCC
Found at i:2464963 original size:17 final size:18
Alignment explanation
Indices: 2464920--2464960 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2464910 AAATTATATT
2464920 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
2464937 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
2464955 ATTAAA
1 AGTAAA
2464961 TACAGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:2465020 original size:10 final size:10
Alignment explanation
Indices: 2465001--2465031 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2464991 CCTTAAACGA
*
2465001 GAGAGTATTT
1 GAGAGAATTT
2465011 GAGAGAATTT
1 GAGAGAATTT
2465021 GAGAGAATTT
1 GAGAGAATTT
2465031 G
1 G
2465032 GTGTGATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:2467395 original size:2 final size:2
Alignment explanation
Indices: 2467388--2467415 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2467378 TCTTAGAAGT
2467388 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
2467416 ACTTCTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2470985 original size:16 final size:15
Alignment explanation
Indices: 2470950--2470985 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
2470940 AAATTTAAAT
*
2470950 AAATAAATACAATGG
1 AAATAAATACAATAG
2470965 AAATAAATACAAATAG
1 AAATAAATAC-AATAG
2470981 AAATA
1 AAATA
2470986 TGTGAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.19
Consensus pattern (15 bp):
AAATAAATACAATAG
Found at i:2471231 original size:60 final size:61
Alignment explanation
Indices: 2471154--2471269 Score: 191
Period size: 60 Copynumber: 1.9 Consensus size: 61
2471144 ATAGAAAAAA
* *
2471154 AAATAGAAACTTTAAGGACTAAAATAGCAAAAACAAAAACTT-AATGGACTAAAATAGCAC
1 AAATAGAAACTTAAAGGACTAAAATAGCAAAAACAAAAACTTAAAAGGACTAAAATAGCAC
2471214 AAATAGAAA-TTCAAAGGACTAAAATAGCAAAAACAAAAACTTAAAAGGACTAAAAT
1 AAATAGAAACTT-AAAGGACTAAAATAGCAAAAACAAAAACTTAAAAGGACTAAAAT
2471270 CATAAATACA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
59 2 0.04
60 38 0.73
61 12 0.23
ACGTcount: A:0.59, C:0.12, G:0.11, T:0.17
Consensus pattern (61 bp):
AAATAGAAACTTAAAGGACTAAAATAGCAAAAACAAAAACTTAAAAGGACTAAAATAGCAC
Found at i:2471264 original size:31 final size:30
Alignment explanation
Indices: 2471160--2471269 Score: 150
Period size: 30 Copynumber: 3.6 Consensus size: 30
2471150 AAAAAAATAG
*
2471160 AAACTTTAAGGACTAAAATAGCAAAAACAA
1 AAACTTAAAGGACTAAAATAGCAAAAACAA
* * * *
2471190 AAACTTAATGGACTAAAATAGCACAAATAG
1 AAACTTAAAGGACTAAAATAGCAAAAACAA
2471220 AAA-TTCAAAGGACTAAAATAGCAAAAACAA
1 AAACTT-AAAGGACTAAAATAGCAAAAACAA
2471250 AAACTTAAAAGGACTAAAAT
1 AAACTT-AAAGGACTAAAAT
2471270 CATAAATACA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 2 0.03
30 51 0.75
31 15 0.22
ACGTcount: A:0.59, C:0.13, G:0.11, T:0.17
Consensus pattern (30 bp):
AAACTTAAAGGACTAAAATAGCAAAAACAA
Found at i:2472149 original size:18 final size:19
Alignment explanation
Indices: 2472126--2472175 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
2472116 GATCTCTCGT
2472126 TTATCTTTTTTTTTCG-GG
1 TTATCTTTTTTTTTCGAGG
*
2472144 TTATCTTTGTTTTTTCGAGT
1 TTATCTTT-TTTTTTCGAGG
2472164 TCTATCTTTTTT
1 T-TATCTTTTTT
2472176 CTCTCTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.29
19 8 0.29
20 5 0.18
21 7 0.25
ACGTcount: A:0.08, C:0.12, G:0.12, T:0.68
Consensus pattern (19 bp):
TTATCTTTTTTTTTCGAGG
Found at i:2472582 original size:3 final size:3
Alignment explanation
Indices: 2472574--2472636 Score: 103
Period size: 3 Copynumber: 21.3 Consensus size: 3
2472564 ATGTAATTGT
2472574 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2472622 T-A TAA TTAA -AA TAA T
1 TAA TAA -TAA TAA TAA T
2472637 TTTTTTGTAG
Statistics
Matches: 57, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2473039 original size:134 final size:133
Alignment explanation
Indices: 2472829--2473277 Score: 516
Period size: 134 Copynumber: 3.4 Consensus size: 133
2472819 GTTATGGTCG
* * ** * * **
2472829 TCTAAGGGTGATACGGCTCTTACGTGATGAGGATATATGGTCGGTGGATGACACGACTCATAAAT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGCTCATACGT
* * * *
2472894 GATGAAAAGTTCTGGCCATCTTTAAGAAGGGCAATAACACGGTTCCTACATGATGAAGACGGCTG
66 GATGAAGAGTTCTGGCCATCTTTAGGAAGGGC-ATAACACGGTTCCTACGTGATGAGGACGGCTG
2472959 ATTA
130 ATTA
* *
2472963 TCTAAGGGTGACACGGTTCCTACGTGATGAGGAGGTCTGGTCGGTGGATTACACGGCTCATACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGCTCATACGT
* ** * *
2473028 GATGAAGAGTTCTTGCCATCTTTAGGAAGGGCGATAACATTGTTCCTACGCGATGAGGACGGTTG
66 GATGAAGAGTTCTGGCCATCTTTAGGAAGGGC-ATAACACGGTTCCTACGTGATGAGGACGGCTG
2473093 ATTA
130 ATTA
* * * * * *
2473097 TCTAGGGGTAACACGGCTCCTACGTGATGAGGAGGTCTGGCCAGG-AGATGACACGGTTCCTACG
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTC-GGTGGATGACACGGCTCATACG
* ** * * * *
2473161 TGATGAGGAGGACAGACCATCTTTAGGAA-TG-AT-ACACGGTTCCTACGTGTTGAGGACGGCTG
65 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCATAACACGGTTCCTACGTGATGAGGACGGCTG
*
2473223 GTTA
130 ATTA
*
2473227 TC--AGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTC-GAGGATGACAC
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACAC
2473278 AGTTCATATG
Statistics
Matches: 268, Mismatches: 45, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
126 1 0.00
127 8 0.03
128 35 0.13
130 29 0.11
131 2 0.01
133 1 0.00
134 190 0.71
135 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (133 bp):
TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGCTCATACGT
GATGAAGAGTTCTGGCCATCTTTAGGAAGGGCATAACACGGTTCCTACGTGATGAGGACGGCTGA
TTA
Found at i:2479777 original size:30 final size:30
Alignment explanation
Indices: 2479728--2479867 Score: 158
Period size: 30 Copynumber: 4.7 Consensus size: 30
2479718 TATGATTAAC
* * *
2479728 AGAAAC-TTGAGGACCAAAATAGAAAAAAT
1 AGAAACTTTAAGGACTAAAATAGAATAAAT
* *
2479757 AGAAACTTTAAGGACTAAAATAGCAGAAAT
1 AGAAACTTTAAGGACTAAAATAGAATAAAT
*
2479787 AGAAACTTAAAGGACTAAAATAGAATAAAT
1 AGAAACTTTAAGGACTAAAATAGAATAAAT
* * *
2479817 AGAAA-TTTAAAGGATTAAAATAGTATAAAC
1 AGAAACTTT-AAGGACTAAAATAGAATAAAT
* *
2479847 GGAAACTTAAAGGACTAAAAT
1 AGAAACTTTAAGGACTAAAAT
2479868 CATAAATACA
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
29 8 0.09
30 84 0.89
31 2 0.02
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (30 bp):
AGAAACTTTAAGGACTAAAATAGAATAAAT
Found at i:2479807 original size:60 final size:60
Alignment explanation
Indices: 2479725--2479867 Score: 191
Period size: 60 Copynumber: 2.4 Consensus size: 60
2479715 AAATATGATT
* *
2479725 AACAGAAACTT-GAGGACCAAAATAGAAAAAATAGAAACTTT-AAGGACTAAAATAGCAGA
1 AACAGAAACTTAAAGGACTAAAATAGAAAAAATAGAAA-TTTAAAGGACTAAAATAGCAGA
* * * * *
2479784 AATAGAAACTTAAAGGACTAAAATAGAATAAATAGAAATTTAAAGGATTAAAATAGTATA
1 AACAGAAACTTAAAGGACTAAAATAGAAAAAATAGAAATTTAAAGGACTAAAATAGCAGA
*
2479844 AACGGAAACTTAAAGGACTAAAAT
1 AACAGAAACTTAAAGGACTAAAAT
2479868 CATAAATACA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
59 13 0.18
60 60 0.82
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.20
Consensus pattern (60 bp):
AACAGAAACTTAAAGGACTAAAATAGAAAAAATAGAAATTTAAAGGACTAAAATAGCAGA
Found at i:2481190 original size:17 final size:18
Alignment explanation
Indices: 2481157--2481201 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
2481147 AATGTAATTG
*
2481157 TTAATATTAAT-ATATAA
1 TTAATAATAATAATATAA
2481174 -TAATAATAATAATATAA
1 TTAATAATAATAATATAA
2481191 TTAA-AATAATA
1 TTAATAATAATA
2481202 TTTTTTTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 9 0.36
17 13 0.52
18 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATAATAATAATATAA
Found at i:2487225 original size:237 final size:236
Alignment explanation
Indices: 2486807--2487259 Score: 852
Period size: 237 Copynumber: 1.9 Consensus size: 236
2486797 CCACGGCCTT
*
2486807 TCTCTTTCCAATCTGTCTTCCATCTTAACAAAGGGGTATCCGGTTTGCTCTGCCGCCCCACCAGC
1 TCTCTTTCCAATCTGTCTTCCATCTTAACAAAGGGGTATCCGGTCTGCTCTGCCGCCCCACCAGC
2486872 GACGCACCAACCCTATTCCGCCTTGTGTTCCGCGTCTTTCGTTTCGCCCTCAGCTTGAGATCCAC
66 GACGCACCAACCCTATTCCGCCTTGTGTTCCGCGTCTTTCGTTTCGCCCTCAGCTTGAGATCCAC
2486937 GTCCGTGGGGTTCCACCCTCGAAATGTAGCCGGTAAACTCATTTGCTCTGTCTCCTTCATCCCTT
131 GTCCGTGGGGTTCCACCCTCGAAATGTAGCCGGTAAACTCATTTGCTCTGTCTCCTTCATCCCTT
2487002 CTCGAACTTAAACCTCTTCCATCTTAAACCTCATTTGCTCTG
196 CTCGAAC-TAAACCTCTTCCATCTTAAACCTCATTTGCTCTG
2487044 TCTCTTTCCAATCTGTCTTCCATCTTAACAAAGGGGTATCCGGTCTGCTCTGCCGCCCCACCAGC
1 TCTCTTTCCAATCTGTCTTCCATCTTAACAAAGGGGTATCCGGTCTGCTCTGCCGCCCCACCAGC
*
2487109 GATGCACCAACCCTATTCCGCCTTGTGTTCCGCGTCTTTCGTTTCGCCCTCAGCTTGAGATCCAC
66 GACGCACCAACCCTATTCCGCCTTGTGTTCCGCGTCTTTCGTTTCGCCCTCAGCTTGAGATCCAC
* * *
2487174 GTTCGTGGGGTTCCACCCTCGAAATGTAGCTGGTAAACTCATTTTCTCTGTCTCCTTCATCCCTT
131 GTCCGTGGGGTTCCACCCTCGAAATGTAGCCGGTAAACTCATTTGCTCTGTCTCCTTCATCCCTT
2487239 CTCGAACTAAACCTCTTCCAT
196 CTCGAACTAAACCTCTTCCAT
2487260 GAACAGTCCA
Statistics
Matches: 211, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
236 14 0.07
237 197 0.93
ACGTcount: A:0.17, C:0.35, G:0.17, T:0.32
Consensus pattern (236 bp):
TCTCTTTCCAATCTGTCTTCCATCTTAACAAAGGGGTATCCGGTCTGCTCTGCCGCCCCACCAGC
GACGCACCAACCCTATTCCGCCTTGTGTTCCGCGTCTTTCGTTTCGCCCTCAGCTTGAGATCCAC
GTCCGTGGGGTTCCACCCTCGAAATGTAGCCGGTAAACTCATTTGCTCTGTCTCCTTCATCCCTT
CTCGAACTAAACCTCTTCCATCTTAAACCTCATTTGCTCTG
Found at i:2487962 original size:20 final size:21
Alignment explanation
Indices: 2487923--2487964 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2487913 TTGTGAGTAA
*
2487923 TTTAAAAAAATAATATATTAT
1 TTTAAAAAAATAATAAATTAT
*
2487944 TTTAAAAAAA-ATTAAATTAT
1 TTTAAAAAAATAATAAATTAT
2487964 T
1 T
2487965 AATAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAAAAAATAATAAATTAT
Found at i:2498299 original size:80 final size:79
Alignment explanation
Indices: 2498161--2498308 Score: 181
Period size: 80 Copynumber: 1.9 Consensus size: 79
2498151 TTCGAGCTCA
* * * * *
2498161 ATTTCAACTTCACGATGAATGATATTATGCTAAAGTCATTCAAGATTGACTCGACTTCAAGATGA
1 ATTTCAACTTCACGATGAATGATATCATGCTAAAGTCATCCAACATCGACTCGACTTCAAGACGA
2498226 AGGGGTCAACCATG
66 AGGGGTCAACCATG
* * * * *
2498240 ATTTCAATTTCATGATGAA-GAATATCGTGCTCAAAGTCATCCAACATCGACTTGACTTCACGAC
1 ATTTCAACTTCACGATGAATG-ATATCATGCT-AAAGTCATCCAACATCGACTCGACTTCAAGAC
2498304 GAAGG
64 GAAGG
2498309 AATTATCCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 25 0.44
80 31 0.54
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (79 bp):
ATTTCAACTTCACGATGAATGATATCATGCTAAAGTCATCCAACATCGACTCGACTTCAAGACGA
AGGGGTCAACCATG
Found at i:2504751 original size:13 final size:12
Alignment explanation
Indices: 2504720--2504762 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
2504710 TTAATACCTT
2504720 TTTTATCTTTTTA
1 TTTTAT-TTTTTA
2504733 -TTTATTTATTTA
1 TTTTATTT-TTTA
2504745 TTTTATTTTATTA
1 TTTTATTTT-TTA
2504758 TTTTA
1 TTTTA
2504763 CATTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.07
12 10 0.37
13 15 0.56
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:2505530 original size:75 final size:74
Alignment explanation
Indices: 2505398--2505536 Score: 190
Period size: 75 Copynumber: 1.9 Consensus size: 74
2505388 ATTAGTTAGG
* * ** *
2505398 ACGAAATTTTGGAACTGGAAGACCAATAAAAATACATCAGTTTTATTGTTAGACATCCGAGAGGA
1 ACGAAATTTTGGAACTGGAAGACCAAGAAAAAAACATCAACTTTATTATTAGACATCCGAGAGGA
2505463 TTAATTATA
66 TTAATTATA
* *
2505472 ACGAAATTTTGGAATTGGAAAGA-CAACGAAAAAAACATCAACTTTATTATTAGGCATCCGAGAG
1 ACGAAATTTTGGAACTGG-AAGACCAA-GAAAAAAACATCAACTTTATTATTAGACATCCGAGAG
2505536 G
64 G
2505537 GAAATAGCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
74 20 0.36
75 36 0.64
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.27
Consensus pattern (74 bp):
ACGAAATTTTGGAACTGGAAGACCAAGAAAAAAACATCAACTTTATTATTAGACATCCGAGAGGA
TTAATTATA
Found at i:2506033 original size:25 final size:25
Alignment explanation
Indices: 2505999--2506049 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2505989 CAATAGAATT
2505999 AAATTTTTTTGAGTTATTCTAGGTC
1 AAATTTTTTTGAGTTATTCTAGGTC
2506024 AAATTTTTTTGAGTTATTCTAGGTC
1 AAATTTTTTTGAGTTATTCTAGGTC
2506049 A
1 A
2506050 TAGTCATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (25 bp):
AAATTTTTTTGAGTTATTCTAGGTC
Found at i:2506165 original size:21 final size:20
Alignment explanation
Indices: 2506127--2506165 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2506117 GTTTAAAATT
2506127 TATTTAAATTTAATTATAAA
1 TATTTAAATTTAATTATAAA
2506147 TATTTATAATATT-ATTATA
1 TATTTA-AAT-TTAATTATA
2506166 TTATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 9 0.53
22 2 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTTAAATTTAATTATAAA
Found at i:2509240 original size:76 final size:76
Alignment explanation
Indices: 2509146--2509296 Score: 293
Period size: 76 Copynumber: 2.0 Consensus size: 76
2509136 TTGTGGACCG
2509146 ATGGGGATCTTCTTCTCCAATCCAGCTTGATTCCATCTATGTGGATAGTGCAGTCAATCCAGTAC
1 ATGGGGATCTTCTTCTCCAATCCAGCTTGATTCCATCTATGTGGATAGTGCAGTCAATCCAGTAC
*
2509211 AGTGCGGGGAA
66 AGTGCAGGGAA
2509222 ATGGGGATCTTCTTCTCCAATCCAGCTTGATTCCATCTATGTGGATAGTGCAGTCAATCCAGTAC
1 ATGGGGATCTTCTTCTCCAATCCAGCTTGATTCCATCTATGTGGATAGTGCAGTCAATCCAGTAC
2509287 AGTGCAGGGA
66 AGTGCAGGGA
2509297 GTTTATGATC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (76 bp):
ATGGGGATCTTCTTCTCCAATCCAGCTTGATTCCATCTATGTGGATAGTGCAGTCAATCCAGTAC
AGTGCAGGGAA
Found at i:2510208 original size:21 final size:21
Alignment explanation
Indices: 2510182--2510221 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2510172 TAATAACCAT
*
2510182 TTTTTTTATAAAACAATTAAG
1 TTTTTTAATAAAACAATTAAG
2510203 TTTTTTAATAAAACAATTA
1 TTTTTTAATAAAACAATTA
2510222 TGATTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTTTTAATAAAACAATTAAG
Found at i:2510228 original size:21 final size:21
Alignment explanation
Indices: 2510183--2510228 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2510173 AATAACCATT
* *
2510183 TTTTTTATAAAACAATTAAGT
1 TTTTTAATAAAACAATTAAGA
*
2510204 TTTTTAATAAAACAATTATGA
1 TTTTTAATAAAACAATTAAGA
2510225 TTTT
1 TTTT
2510229 GATTTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (21 bp):
TTTTTAATAAAACAATTAAGA
Found at i:2512564 original size:3 final size:3
Alignment explanation
Indices: 2512558--2512590 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2512548 TATTATTAGT
2512558 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2512591 GAACCCGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2513001 original size:83 final size:83
Alignment explanation
Indices: 2512844--2513037 Score: 235
Period size: 83 Copynumber: 2.3 Consensus size: 83
2512834 TTTGGTAACA
* * * * * * *
2512844 ACATGGTTCCTACGTGATGAGGAAGTCTGATTGTCTAAGGATGACAGTGCTTCTATGCGATAAGG
1 ACATTGTTCCTACGTGATGAGGAAGTCTGATTATATAAGGATGACACTACTCCTACGCGATAAGG
* *
2512909 ATATTTGGTCGGTGGACG
66 AGATCTGGTCGGTGGACG
* * * * * *
2512927 ACATTGTTCCTACATGATAAGGAAGTCTGGTTATATGAGGATGACACTACTCCTACGTGATGAGG
1 ACATTGTTCCTACGTGATGAGGAAGTCTGATTATATAAGGATGACACTACTCCTACGCGATAAGG
*
2512992 AGATCTGGTCGGTGGATG
66 AGATCTGGTCGGTGGACG
*
2513010 ACATTGTTCCTACGTGATGAGGATGTCT
1 ACATTGTTCCTACGTGATGAGGAAGTCT
2513038 AGCCATCTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
83 92 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (83 bp):
ACATTGTTCCTACGTGATGAGGAAGTCTGATTATATAAGGATGACACTACTCCTACGCGATAAGG
AGATCTGGTCGGTGGACG
Found at i:2513021 original size:40 final size:40
Alignment explanation
Indices: 2512844--2513037 Score: 115
Period size: 40 Copynumber: 4.7 Consensus size: 40
2512834 TTTGGTAACA
* ***
2512844 ACATGGTTCCTACGTGATGAGGAAGTCTGATTGTCTAAGGATG
1 ACATTGTTCCTACGTGATGAGGAAGTCTG---GTCGGTGGATG
* * * * * *
2512887 ACAGTGCTT-CTATGCGATAAGGATA-TTTGGTCGGTGGACG
1 ACATTG-TTCCTACGTGATGAGGA-AGTCTGGTCGGTGGATG
* * ** *
2512927 ACATTGTTCCTACATGATAAGGAAGTCTGGTTATATGAGGATG
1 ACATTGTTCCTACGTGATGAGGAAGTCTGG---TCGGTGGATG
* **
2512970 ACACTACTCCTACGTGATGAGG-AGATCTGGTCGGTGGATG
1 ACATTGTTCCTACGTGATGAGGAAG-TCTGGTCGGTGGATG
*
2513010 ACATTGTTCCTACGTGATGAGGATGTCT
1 ACATTGTTCCTACGTGATGAGGAAGTCT
2513038 AGCCATCTTT
Statistics
Matches: 111, Mismatches: 31, Indels: 21
0.68 0.19 0.13
Matches are distributed among these distances:
39 3 0.03
40 56 0.50
41 1 0.01
42 2 0.02
43 46 0.41
44 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (40 bp):
ACATTGTTCCTACGTGATGAGGAAGTCTGGTCGGTGGATG
Found at i:2513195 original size:137 final size:138
Alignment explanation
Indices: 2512936--2513195 Score: 351
Period size: 137 Copynumber: 1.9 Consensus size: 138
2512926 GACATTGTTC
* * * *
2512936 CTACATGATAAGGAAGTCTGGTTATATGAGGATGACACTACTCCTACGTGATGAGGAGATCTGGT
1 CTACATGATAAGGAAGTCTGGTTATATAAAGATGACACTACTCCTACGCGAT--GGAGATATGGT
* * * *
2513001 CGGTGGATGACATTGTTCCTACGTGATGAGGATGTCTAGCCATCTTTAGGGATAATTTCAGAGAC
64 CGGTGGACGACATTATTCCTACGTGATGAGGAAGTCTAGCCATCCTTAGGGATAATTTCAGAGAC
2513066 AACACGGTTT
129 AACACGGTTT
* * * * * * *
2513076 CTACGTGATGAGGAAGTTTGGTTATCTAAAGATGACGCTGCTCCTACGCGAT-GAGATATGGTTG
1 CTACATGATAAGGAAGTCTGGTTATATAAAGATGACACTACTCCTACGCGATGGAGATATGGTCG
*
2513140 GTGGACGACATTATTCCTACGTGATGAGGAAGTCTAGTCATCCTTAGGGATAATTT
66 GTGGACGACATTATTCCTACGTGATGAGGAAGTCTAGCCATCCTTAGGGATAATTT
2513196 GGGAGATAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
137 61 0.59
140 43 0.41
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (138 bp):
CTACATGATAAGGAAGTCTGGTTATATAAAGATGACACTACTCCTACGCGATGGAGATATGGTCG
GTGGACGACATTATTCCTACGTGATGAGGAAGTCTAGCCATCCTTAGGGATAATTTCAGAGACAA
CACGGTTT
Found at i:2513482 original size:140 final size:140
Alignment explanation
Indices: 2513224--2513584 Score: 472
Period size: 140 Copynumber: 2.6 Consensus size: 140
2513214 TACGTTGTTT
* * * *
2513224 CTACGTGATGAGGAGATATGGTCGGTGGATGACATTATCCCTACATGATGAGGACA-TCTAGCCA
1 CTACGCGATGAGGAGATATGGTCGGTGGATGACATTGTTCTTACATGATGAGGA-AGTCTAGCCA
* * * * *
2513288 TCTTTAGGAATAATTTGGGAGACAACATAGTTCGTACGTGATGAGGAAGTCTGGTTATTTGAGGA
65 TCTTTAGGGATAATTTGGGAGACAACACAGTTCCTACGTGATAAGGAAGTCTGGTTATATGAGGA
* *
2513353 TGATGTTGCTC
130 TGACGCTGCTC
* * * * *
2513364 CTGCGCGATGAGGAGATCTGGTCGGTGGACGACATTGTTCTTATATGATAAGGAAGTCTAGCCAT
1 CTACGCGATGAGGAGATATGGTCGGTGGATGACATTGTTCTTACATGATGAGGAAGTCTAGCCAT
* * * *
2513429 CTTTAGGGATAATTTGGTAGCCAACACGGTTCCTATGTGATAAGGAAGTCTGGTTATATGAGGAT
66 CTTTAGGGATAATTTGGGAGACAACACAGTTCCTACGTGATAAGGAAGTCTGGTTATATGAGGAT
2513494 GACGCTGCTC
131 GACGCTGCTC
* * * * * *
2513504 CTACGTGATGAGGAGATTTGGTCGATGGATGAAATTGTTCTTACGTGATGAGGACGTCTAGCCAT
1 CTACGCGATGAGGAGATATGGTCGGTGGATGACATTGTTCTTACATGATGAGGAAGTCTAGCCAT
2513569 CTTTAGGGATAATTTG
66 CTTTAGGGATAATTTG
2513585 TTTCAAGAGA
Statistics
Matches: 190, Mismatches: 30, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
139 1 0.01
140 189 0.99
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (140 bp):
CTACGCGATGAGGAGATATGGTCGGTGGATGACATTGTTCTTACATGATGAGGAAGTCTAGCCAT
CTTTAGGGATAATTTGGGAGACAACACAGTTCCTACGTGATAAGGAAGTCTGGTTATATGAGGAT
GACGCTGCTC
Found at i:2513626 original size:36 final size:35
Alignment explanation
Indices: 2513579--2513775 Score: 119
Period size: 36 Copynumber: 5.8 Consensus size: 35
2513569 CTTTAGGGAT
*
2513579 AATTTGTTTCAAGAGAAACTGTCTCAAGCAAGACAA
1 AATTTGTTTCAAGAGAAACTATCTCAAG-AAGACAA
* *
2513615 AATTTGTTTCAAGGGAAACAATCTC-A-AAG----
1 AATTTGTTTCAAGAGAAACTATCTCAAGAAGACAA
* *
2513644 ATTTCTGTTTCAAGAGAAACTATCTCAAGCGAGACAA
1 AATT-TGTTTCAAGAGAAACTATCTCAAG-AAGACAA
* * * * * **
2513681 ATTTTTTTTCAAGGGAAACAATCTCAA-ATG--TT
1 AATTTGTTTCAAGAGAAACTATCTCAAGAAGACAA
* *
2513713 TA-TT-TTTCAAGAGAAACTGTCTCAAGAGAGACAA
1 AATTTGTTTCAAGAGAAACTATCTCAAGA-AGACAA
* * *
2513747 AACTTTGTTTCATGAAAAACTGTCTCAAG
1 AA-TTTGTTTCAAGAGAAACTATCTCAAG
2513776 CGAGACGAAA
Statistics
Matches: 121, Mismatches: 25, Indels: 29
0.69 0.14 0.17
Matches are distributed among these distances:
29 3 0.02
30 37 0.31
31 4 0.03
32 1 0.01
33 5 0.04
34 2 0.02
35 1 0.01
36 44 0.36
37 24 0.20
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (35 bp):
AATTTGTTTCAAGAGAAACTATCTCAAGAAGACAA
Found at i:2513691 original size:66 final size:66
Alignment explanation
Indices: 2513583--2513758 Score: 264
Period size: 66 Copynumber: 2.7 Consensus size: 66
2513573 AGGGATAATT
*
2513583 TGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATTTGTTTCAAGGGAAACAATCTCAAA-GATT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAATG-TT
*
2513647 TC
65 TA
* * *
2513649 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAATTTTTTTTCAAGGGAAACAATCTCAAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAATGTTT
2513714 A
66 A
* *
2513715 TTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCA
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAA-TTTGTTTCA
2513759 TGAAAAACTG
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
66 89 0.91
67 9 0.09
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAATGTTT
A
Found at i:2513767 original size:37 final size:37
Alignment explanation
Indices: 2513717--2513789 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
2513707 AATGTTTATT
*
2513717 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTTG
* * *
2513754 TTTCATGAAAAACTGTCTCAAGCGAGACGAAACTTT
1 TTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTT
2513790 TTTTTTAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (37 bp):
TTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTTG
Found at i:2519086 original size:9 final size:9
Alignment explanation
Indices: 2519072--2519097 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2519062 AATATATAAA
2519072 AAATAAAAT
1 AAATAAAAT
2519081 AAATAAAAT
1 AAATAAAAT
2519090 AAATAAAA
1 AAATAAAA
2519098 AATCAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:2519526 original size:22 final size:22
Alignment explanation
Indices: 2519500--2519552 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
2519490 GAAGAAATTA
2519500 GAATCTGAAGGAATTAGAATCT
1 GAATCTGAAGGAATTAGAATCT
2519522 GAATCTGAAGGAATTAGAATCT
1 GAATCTGAAGGAATTAGAATCT
2519544 GAATCTGAA
1 GAATCTGAA
2519553 ATCTGTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (22 bp):
GAATCTGAAGGAATTAGAATCT
Found at i:2519544 original size:16 final size:16
Alignment explanation
Indices: 2519489--2519524 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2519479 TTAGAATTTG
2519489 TGAAGAAATTAGAATC
1 TGAAGAAATTAGAATC
*
2519505 TGAAGGAATTAGAATC
1 TGAAGAAATTAGAATC
2519521 TGAA
1 TGAA
2519525 TCTGAAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (16 bp):
TGAAGAAATTAGAATC
Found at i:2520119 original size:33 final size:28
Alignment explanation
Indices: 2520082--2520207 Score: 162
Period size: 28 Copynumber: 4.3 Consensus size: 28
2520072 AACCCGAACT
2520082 CGACCCGAATATCACACTTAAAAAAACACGACC
1 CGACCCGAATATCACACTT--AAAAA-A--ACC
* *
2520115 CGACCCGAATATCACAATTAAAGAAACC
1 CGACCCGAATATCACACTTAAAAAAACC
*
2520143 CGACCCGAATATCAAACTTAAAAAAACC
1 CGACCCGAATATCACACTTAAAAAAACC
**
2520171 CGACCCGAATATCACACTTAAAAAAATT
1 CGACCCGAATATCACACTTAAAAAAACC
2520199 CGACCCGAA
1 CGACCCGAA
2520208 CTGAACCCAA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
28 62 0.73
30 1 0.01
31 4 0.05
33 18 0.21
ACGTcount: A:0.46, C:0.30, G:0.10, T:0.14
Consensus pattern (28 bp):
CGACCCGAATATCACACTTAAAAAAACC
Found at i:2520990 original size:23 final size:22
Alignment explanation
Indices: 2520964--2521009 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
2520954 TGACATAAAC
2520964 ATGTTGTTTAGGAGTTTATTGTT
1 ATGTTGTTTAGGAGTTTA-TGTT
*
2520987 ATGTTGTTTGGGAGTTTATGTT
1 ATGTTGTTTAGGAGTTTATGTT
2521009 A
1 A
2521010 CTTACATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.54
Consensus pattern (22 bp):
ATGTTGTTTAGGAGTTTATGTT
Found at i:2523137 original size:449 final size:448
Alignment explanation
Indices: 2522299--2523192 Score: 1443
Period size: 449 Copynumber: 2.0 Consensus size: 448
2522289 TTTTTTAAAC
* *
2522299 TATTTTTTATTATTATCAATATTCACTAATTCAAACTATTTTTTGATTATGAAGGGATTGATTGA
1 TATTTTTTATCATTATCAATATTCACTAATTCAAACTATTTTTTGATTATGAAGAGATTGATTGA
* * * * *
2522364 AGAAGTTCATGTATTGTTGCCAAATGTGGAATATATATTTTGTGCTAGGTATATGTATGTTAATT
66 AGAAGTTCAGGTACTGTTGCCAAATGTGGAATATATATTTTGTGCTAGGCATACGTATGCTAATT
* *
2522429 GGAATAAATCATATAAAGGTACCTACAATTGTAGTTTTGGAGATATTACAAGGCTACTATTGAAA
131 GGAATAAATCATATAAAGGTACCTACAATTATAGTTTTGGAGATATTACAAGGCTACTACTGAAA
* *** *
2522494 CACAATTTCATAGAAATGCTTCAAGAATTGACGAGTTAATAAGAATGCATTGGATGATCTTATGG
196 CACAATTTCATAGAAATGCTTCAAGAATTGACGAGTTAAGAAGAAAAAATTGAATGATCTTATGG
* * *
2522559 TAAATGACCCAAAACAATTATCCAAAACTTTCTTCTTTACTTGATCCAAATGTGGTTTAATAGAT
261 TAAAGGACCCAAAACAATTATCCAAAACTTTATTCTCTACTTGATCCAAATGTGGTTTAATAGAT
*
2522624 AACAATTTCTCTGAAGTATTTAGTTATGCAATTATAGGGACTACGTTTAAATATGTTATATCAAT
326 AACAATTTCTCTGAAGCATTTAGTTATGCAATTATAGGGACTACGTTTAAATATGTTATATCAAT
* *
2522689 GTTTGAATATATTAGACATTATGTTATGCATAGGCTAATTGAACACAACAAAAAATAGT
391 GTTTAAAGATATTAGACATTATGTTATGCATAGGCTAATTGAACACAA-AAAAAATAGT
* * *
2522748 TATTTTTTATCATTATTAATATTCACTAATTCAAACTATTTTTTTATTATTAAGAGATTGATTGA
1 TATTTTTTATCATTATCAATATTCACTAATTCAAACTATTTTTTGATTATGAAGAGATTGATTGA
*
2522813 AGAAGTTCAGGTACTGTTAG-CAAATGTGGAATATATATTTTGTGCTAGGCATACGTATGCTATT
66 AGAAGTTCAGGTACTGTT-GCCAAATGTGGAATATATATTTTGTGCTAGGCATACGTATGCTAAT
* * *
2522877 TGGAATAAATCATATAAAGGTACCTACAGTTATAGTTTTGGAGATGTTACAAGGTTACTACTGAA
130 TGGAATAAATCATATAAAGGTACCTACAATTATAGTTTTGGAGATATTACAAGGCTACTACTGAA
*
2522942 ACACAATTTCATAGAAATGCTTCAAGAATT-AGTGAGTTAAGAAGAAAAAATTGAATGATCTTAT
195 ACACAATTTCATAGAAATGCTTCAAGAATTGA-CGAGTTAAGAAGAAAAAATTGAATGATCTTAT
*
2523006 GGTAAAGGACCCAAAACAATTGTCCAAAACTTTATTCTCTACTAT-ATCCAAATGTGGTTTAATA
259 GGTAAAGGACCCAAAACAATTATCCAAAACTTTATTCTCTACT-TGATCCAAATGTGGTTTAATA
*
2523070 GATAACAATTTCTCTGAAGCATTTAGTTATGCAATTATAGGGACTAGGTTTAAATATGTTATATC
323 GATAACAATTTCTCTGAAGCATTTAGTTATGCAATTATAGGGACTACGTTTAAATATGTTATATC
* *
2523135 AATGTTTAAAGATATTAGGCATTATGTTATGTATAGGCTAATTGAACACAAAAAAAAT
388 AATGTTTAAAGATATTAGACATTATGTTATGCATAGGCTAATTGAACACAAAAAAAAT
2523193 CAAATAGCTA
Statistics
Matches: 410, Mismatches: 32, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
448 8 0.02
449 400 0.98
450 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (448 bp):
TATTTTTTATCATTATCAATATTCACTAATTCAAACTATTTTTTGATTATGAAGAGATTGATTGA
AGAAGTTCAGGTACTGTTGCCAAATGTGGAATATATATTTTGTGCTAGGCATACGTATGCTAATT
GGAATAAATCATATAAAGGTACCTACAATTATAGTTTTGGAGATATTACAAGGCTACTACTGAAA
CACAATTTCATAGAAATGCTTCAAGAATTGACGAGTTAAGAAGAAAAAATTGAATGATCTTATGG
TAAAGGACCCAAAACAATTATCCAAAACTTTATTCTCTACTTGATCCAAATGTGGTTTAATAGAT
AACAATTTCTCTGAAGCATTTAGTTATGCAATTATAGGGACTACGTTTAAATATGTTATATCAAT
GTTTAAAGATATTAGACATTATGTTATGCATAGGCTAATTGAACACAAAAAAAATAGT
Found at i:2524044 original size:23 final size:22
Alignment explanation
Indices: 2524009--2524051 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2523999 TTGTCATGTA
* *
2524009 ATTTGAATGTATGTTTCAATAG
1 ATTTGAATATATGTGTCAATAG
2524031 ATTTGAATTATATGTGTCAAT
1 ATTTGAA-TATATGTGTCAAT
2524052 GTGTTAATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (22 bp):
ATTTGAATATATGTGTCAATAG
Found at i:2524733 original size:28 final size:26
Alignment explanation
Indices: 2524701--2524757 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 26
2524691 TACAAGCACA
2524701 AATAACTCAAATTAGATAAAAAAACATC
1 AATAACTCAAATTA-A-AAAAAAACATC
*
2524729 AATAACTCAAATTAAAAACAAACATC
1 AATAACTCAAATTAAAAAAAAACATC
2524755 AAT
1 AAT
2524758 TACAATGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 13 0.46
27 1 0.04
28 14 0.50
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.21
Consensus pattern (26 bp):
AATAACTCAAATTAAAAAAAAACATC
Found at i:2527108 original size:15 final size:15
Alignment explanation
Indices: 2527088--2527125 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
2527078 CTTTATATAA
2527088 TAAAATTATAAAACC
1 TAAAATTATAAAACC
2527103 TAAAATTATAAAACC
1 TAAAATTATAAAACC
2527118 TAAAATTA
1 TAAAATTA
2527126 CATGTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAATTATAAAACC
Found at i:2529118 original size:28 final size:28
Alignment explanation
Indices: 2529079--2529159 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
2529069 TGAACCAAAT
2529079 TTAA-AAAA-AAATAAAATAAAAAAGAA
1 TTAATAAAATAAATAAAATAAAAAAGAA
*
2529105 TTAATAAAATAAATAAAATAATAAAATAA
1 TTAATAAAATAAATAAAATAA-AAAAGAA
*
2529134 -TAATAATATACTAATAATAATAAAAA
1 TTAATAAAATA--AATAA-AATAAAAA
2529160 CCATATAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.09
27 4 0.09
28 20 0.43
29 6 0.13
30 8 0.17
31 5 0.11
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (28 bp):
TTAATAAAATAAATAAAATAAAAAAGAA
Found at i:2529135 original size:3 final size:3
Alignment explanation
Indices: 2529106--2529156 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
2529096 AAAAAAGAAT
*
2529106 TAA TAA -AA TAAA TAA -AA TAA TAA -AA TAA TAA TAA T-A TAC TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2529148 TAA TAA TAA
1 TAA TAA TAA
2529157 AAACCATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 8 0.20
3 30 0.73
4 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:2529141 original size:17 final size:17
Alignment explanation
Indices: 2529106--2529156 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
2529096 AAAAAAGAAT
2529106 TAATAAAATAAATAA-AA
1 TAATAAAAT-AATAATAA
2529123 TAATAAAATAATAATAA
1 TAATAAAATAATAATAA
*
2529140 T-ATACTAATAATAATAA
1 TAATA-AAATAATAATAA
2529157 AAACCATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 8 0.26
17 23 0.74
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
TAATAAAATAATAATAA
Found at i:2529148 original size:14 final size:14
Alignment explanation
Indices: 2529086--2529158 Score: 71
Period size: 14 Copynumber: 5.3 Consensus size: 14
2529076 AATTTAAAAA
2529086 AAAATAA-AATAA-
1 AAAATAATAATAAT
* *
2529098 AAAAGAATTAATAAA
1 AAAATAA-TAATAAT
2529113 ATAAATAA-AATAAT
1 A-AAATAATAATAAT
2529127 AAAATAATAATAAT
1 AAAATAATAATAAT
* *
2529141 ATACTAATAATAAT
1 AAAATAATAATAAT
2529155 AAAA
1 AAAA
2529159 ACCATATAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
12 6 0.12
13 6 0.12
14 31 0.63
15 1 0.02
16 5 0.10
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:2529201 original size:23 final size:21
Alignment explanation
Indices: 2529158--2529200 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2529148 TAATAATAAA
2529158 AACCATATAATATATATATAT
1 AACCATATAATATATATATAT
2529179 AACCATATAATATATATATAT
1 AACCATATAATATATATATAT
2529200 A
1 A
2529201 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (21 bp):
AACCATATAATATATATATAT
Found at i:2529225 original size:30 final size:29
Alignment explanation
Indices: 2529191--2529261 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
2529181 CCATATAATA
**
2529191 TATATATATATTTA-AAAAATATTTTTAAAC
1 TATATATATATTTAGAAAAA-A-TTCAAAAC
* *
2529221 TATATATTTTTTTAGAAAAAATTCAAAAC
1 TATATATATATTTAGAAAAAATTCAAAAC
2529250 TATATATTATAT
1 TATATA-TATAT
2529262 AATTTTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 12 0.36
30 16 0.48
31 5 0.15
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (29 bp):
TATATATATATTTAGAAAAAATTCAAAAC
Found at i:2529225 original size:32 final size:33
Alignment explanation
Indices: 2529189--2529373 Score: 107
Period size: 38 Copynumber: 5.5 Consensus size: 33
2529179 AACCATATAA
*
2529189 TATATATATATA-TTTAAAAAATATTTTTAAAC
1 TATATATATATAGTTTAAAAAATATTTTAAAAC
* *
2529221 TATATAT-T-T-TTTTAGAAAAA-A-TTCAAAAC
1 TATATATATATAGTTTA-AAAAATATTTTAAAAC
* * *
2529250 TATATATTATATAATTTTCAAAAATGATTTTAAAAA
1 TATATA-TATAT-AGTTTAAAAAAT-ATTTTAAAAC
** *
2529286 TAT-TATATA-AGTTTTCAAAATGTTTTAAAAAC
1 TATATATATATAGTTTAAAAAATATTTT-AAAAC
* *
2529318 TATATATTATATAAGTTTTTCAAAAATGTTTTAAAAAC
1 TATATA-TATAT-AG--TTTAAAAAATATTTT-AAAAC
2529356 TATATATTATATAAGTTT
1 TATATA-TATAT-AGTTT
2529374 TCAAAATGTT
Statistics
Matches: 124, Mismatches: 12, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
29 12 0.10
30 7 0.06
31 11 0.09
32 24 0.19
33 7 0.06
34 12 0.10
35 3 0.02
36 14 0.11
38 34 0.27
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (33 bp):
TATATATATATAGTTTAAAAAATATTTTAAAAC
Found at i:2529353 original size:38 final size:37
Alignment explanation
Indices: 2529245--2529443 Score: 243
Period size: 36 Copynumber: 5.5 Consensus size: 37
2529235 GAAAAAATTC
2529245 AAAACTATATATTATATAA-TTTTCAAAAATGATTTT-
1 AAAACTATATATTATATAAGTTTTCAAAAATG-TTTTA
2529281 -AAA--A-ATATTATATAAGTTTTC-AAAATGTTTTA
1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTA
2529313 AAAACTATATATTATATAAGTTTTTCAAAAATGTTTTA
1 AAAACTATATATTATATAAG-TTTTCAAAAATGTTTTA
*
2529351 AAAACTATATATTATATAAGTTTTC-AAAATGTTTCA
1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTA
* * ** *
2529387 AAAAATATATAATATATGTGTATTTCCAAAAATCGTTTTC
1 AAAACTATATATTATATAAGT-TTT-CAAAAAT-GTTTTA
2529427 AAAACTATATATTATAT
1 AAAACTATATATTATAT
2529444 GTATTTCAAC
Statistics
Matches: 142, Mismatches: 9, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
31 4 0.03
32 17 0.12
33 9 0.06
35 4 0.03
36 39 0.27
37 13 0.09
38 32 0.23
39 5 0.04
40 19 0.13
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (37 bp):
AAAACTATATATTATATAAGTTTTCAAAAATGTTTTA
Found at i:2529447 original size:38 final size:35
Alignment explanation
Indices: 2529242--2529478 Score: 191
Period size: 38 Copynumber: 6.6 Consensus size: 35
2529232 TTAGAAAAAA
*
2529242 TTCAAAACTATATATTATATAATTTTCAAAAATGATT
1 TTCAAAACTATATATTATAT-GTTTTCAAAAATG-TT
* *
2529279 TT-AAAAATAT-TA-TATAAGTTTTC-AAAATGTT
1 TTCAAAACTATATATTATATGTTTTCAAAAATGTT
*
2529310 TTAAAAACTATATATTATATAAGTTTTTCAAAAATGTT
1 TTCAAAACTATATATTATAT--G-TTTTCAAAAATGTT
*
2529348 TTAAAAACTATATATTATATAAGTTTTC-AAAATG-T
1 TTCAAAACTATATATTATAT--GTTTTCAAAAATGTT
* *
2529383 TTCAAAAAATATATAATATATGTGTATTTCCAAAAATCGTT
1 TTC-AAAACTATAT-AT-TATATGT-TTT-CAAAAAT-GTT
* **
2529424 TTCAAAACTATATATTATATGTATTTCAACAA-CAT
1 TTCAAAACTATATATTATATGT-TTTCAAAAATGTT
* *
2529459 TTGAAAACTATATAATATAT
1 TTCAAAACTATATATTATAT
2529479 ATATGTATAT
Statistics
Matches: 170, Mismatches: 15, Indels: 32
0.78 0.07 0.15
Matches are distributed among these distances:
31 4 0.02
32 13 0.08
33 7 0.04
34 8 0.05
35 24 0.14
36 25 0.15
37 22 0.13
38 46 0.27
39 7 0.04
40 10 0.06
41 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (35 bp):
TTCAAAACTATATATTATATGTTTTCAAAAATGTT
Found at i:2530206 original size:85 final size:85
Alignment explanation
Indices: 2530096--2530839 Score: 906
Period size: 85 Copynumber: 8.8 Consensus size: 85
2530086 TCGCAACTTA
* * * * * * * *
2530096 AGTTATGTTGTGAATTTGATTTGCCTCTAAGCTGAATGTAATCGAACTCAAAGATCTTGGTTAAC
1 AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
*
2530161 GGATAACCCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * * *
2530181 AGTTATGCTATAAATTTGATATGCCTTTGAGTTGAGTGTAATCGAACTCGATGGTCTTGGTTGAC
1 AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
* * * *
2530246 TGATAGCCTTTCTCGTCTTG
66 AGATAACCCTTCTCGCCTTG
* * * * * * *
2530266 AGTTATGATGTAAATTTGATGTACCTTTGAGCTGAGTGTAATCAAACTCAAAGGTCTTGGTTGAT
1 AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
* *
2530331 AGATAACTCTTCTCGCATTG
66 AGATAACCCTTCTCGCCTTG
* *
2530351 AGTTATGTTGTAAA-TTGATATGCCTTTGAGCT-AAGTGTAA-CTGAACTCGAAGGTCTTTTGTT
1 AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAA-TGTAATC-GAACTCGAAGGTC-TTGGTT
* *
2530413 GGCAGATAACCCTTCTCGCCTTA
63 GACAGATAACCCTTCTCGCCTTG
** * * *
2530436 AGTTATGCTGCGAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGGAGGTCTTGGTTGAC
1 AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
2530501 AGATAACCCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * * *
2530521 AGTTATGTTGT--ATTGGATATGCCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTTTGTTGA
1 AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTGGTTGA
*
2530584 CAGATAGCCCTTCTCGCCTTG
65 CAGATAACCCTTCTCGCCTTG
* * * *
2530605 AGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTT-A
1 AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTGGTTGA
*
2530669 GCAGATAACCCTTCTCTCCTTG
65 -CAGATAACCCTTCTCGCCTTG
* * * *
2530691 AGTTATACTATGAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
1 AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
2530756 AGATAACCCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * * * *
2530776 AGTTGTGCTGTAAATTTGATATGCCTTTGAGCTGAATGAAATCAAACTCGAAGGACTTTGTTGA
1 AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGA
2530840 AGGTGCTTTC
Statistics
Matches: 563, Mismatches: 85, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
83 40 0.07
84 68 0.12
85 302 0.54
86 151 0.27
87 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (85 bp):
AGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
AGATAACCCTTCTCGCCTTG
Found at i:2531184 original size:3 final size:3
Alignment explanation
Indices: 2531178--2531224 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
2531168 CTTCTTATCT
* * *
2531178 TTA TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA -TA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2531225 CAAATAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2531945 original size:19 final size:19
Alignment explanation
Indices: 2531921--2531964 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2531911 GGCCATCATG
* *
2531921 AATAGTAAATGACGGCCGA
1 AATAGTAAACGACGACCGA
*
2531940 AATAGTAACCGACGACCGA
1 AATAGTAAACGACGACCGA
2531959 AATAGT
1 AATAGT
2531965 GACTGCCAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (19 bp):
AATAGTAAACGACGACCGA
Found at i:2532332 original size:15 final size:16
Alignment explanation
Indices: 2532308--2532371 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
2532298 CATTTTAGTT
2532308 ATTATAATTTTAATAA
1 ATTATAATTTTAATAA
2532324 ATTAT-ATTTTAATATGA
1 ATTATAATTTTAATA--A
* ***
2532341 ATAATAATTAGGATAA
1 ATTATAATTTTAATAA
*
2532357 ATTATATTTTTAATA
1 ATTATAATTTTAATA
2532372 CCTAAATTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
15 9 0.25
16 16 0.44
17 5 0.14
18 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
ATTATAATTTTAATAA
Done.