Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 13 of 82
Found at i:4130940 original size:27 final size:30
Alignment explanation
Indices: 4130882--4130941 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
4130872 GGCCGGCCAT
*
4130882 AAAGAAAGAACAAGAGAGAAAACAGAGAGA
1 AAAGAAAGAACAAGAGAGAAAACAAAGAGA
*
4130912 AAAGGAAGAA-AAGAGA-AAAACAAAG-GA
1 AAAGAAAGAACAAGAGAGAAAACAAAGAGA
4130939 AAA
1 AAA
4130942 CTAGAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 5 0.18
28 8 0.29
29 6 0.21
30 9 0.32
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (30 bp):
AAAGAAAGAACAAGAGAGAAAACAAAGAGA
Found at i:4135847 original size:16 final size:15
Alignment explanation
Indices: 4135826--4135860 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4135816 ACATTGTTTG
4135826 AGAGAGAAAAAAAATA
1 AGAGAGAAAAAAAA-A
*
4135842 AGAGAGAAAGAAAAA
1 AGAGAGAAAAAAAAA
4135857 AGAG
1 AGAG
4135861 TATTTTAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (15 bp):
AGAGAGAAAAAAAAA
Found at i:4140394 original size:345 final size:344
Alignment explanation
Indices: 4139749--4140436 Score: 1117
Period size: 345 Copynumber: 2.0 Consensus size: 344
4139739 GATCTTAGTC
* *
4139749 GCTACTGATATTTACCAAATTAATGATTGCAGGTTGGGATTTTTATAAGAATTCAACTTACAAAA
1 GCTACTGATATTTACCAAATTAATGATAGCAGGTTGGAATTTTTATAAGAATTCAACTTACAAAA
*
4139814 CCTAATTGGAGAGTTTAGTCTTTGTATAGTGCTAACACTCTCAAGAAAGTATAAAACATATGATG
66 CCTAATTGGAGAGTTTAGTCTTTGAATAGTGCTAACACTCTCAAGAAAGTATAAAACATATGATG
** *
4139879 CTAGCTCCTAGTTTGTTATATCTCAGCCTAAGTGATAAATCATAAACTAGGAGTAAATATATCAT
131 CTAGCTCCTAGTTCATTATATCTCAGCCTAAGTGATAAATCATAAACAAGGAGTAAATATATCAT
** * *
4139944 AATCACACGAAGATGGGAAATATCTAATTAAATAGGGATGAACACATAACAACGCCCACTCCTTA
196 AATCACACGAAGATAAGAAATATCTAATTAAATAGAGATGAACACATAACAACACCCACTCCTTA
*
4140009 GAACAACCTTGTCCTCAACATTGGAATAAGGGAGCCTTCTCTTGAAATCTTCCTTGGCATCTCAA
261 GAACAACCTTGTCCTCAACATTGGAATAAGGGAGCCTTCTCTTGAAATCTTACTTGGCATCTCAA
4140074 ACCCCATTCATACAATGTT
326 ACCCCATTCATACAATGTT
* * *
4140093 GCTACCTGATGTTTGCCAAATTAATGATAGCAGTTTGGAATTTTTATAAGAATTCAACTTACAAA
1 GCTA-CTGATATTTACCAAATTAATGATAGCAGGTTGGAATTTTTATAAGAATTCAACTTACAAA
* * *
4140158 ATCTAATTGGAGAGTTTAGTCTTTGAATTGTGCTAACACTCTCAAGAAAGTATGAAACATATGAT
65 ACCTAATTGGAGAGTTTAGTCTTTGAATAGTGCTAACACTCTCAAGAAAGTATAAAACATATGAT
* * *
4140223 GCTAGCTCCTAGTTCATTATATCTCATCCTATGTGATAAATCATAAACAAGGAGTAGATATATCA
130 GCTAGCTCCTAGTTCATTATATCTCAGCCTAAGTGATAAATCATAAACAAGGAGTAAATATATCA
* *
4140288 TAATCACA-GCAAGATAAGAAATATCTAATTAAATAGAGATGAACACGTAACATCACCCACTCCT
195 TAATCACACG-AAGATAAGAAATATCTAATTAAATAGAGATGAACACATAACAACACCCACTCCT
* * *
4140352 TAGAACAACCTTGTCCTCAACATTGGTATGAGGGAGCCTTCTCTTGAAATCTTACTTGGCATTTC
259 TAGAACAACCTTGTCCTCAACATTGGAATAAGGGAGCCTTCTCTTGAAATCTTACTTGGCATCTC
*
4140417 AAACCCCATTCCTACAATGT
324 AAACCCCATTCATACAATGT
4140437 CGCCATGCAT
Statistics
Matches: 316, Mismatches: 26, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
344 5 0.02
345 311 0.98
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (344 bp):
GCTACTGATATTTACCAAATTAATGATAGCAGGTTGGAATTTTTATAAGAATTCAACTTACAAAA
CCTAATTGGAGAGTTTAGTCTTTGAATAGTGCTAACACTCTCAAGAAAGTATAAAACATATGATG
CTAGCTCCTAGTTCATTATATCTCAGCCTAAGTGATAAATCATAAACAAGGAGTAAATATATCAT
AATCACACGAAGATAAGAAATATCTAATTAAATAGAGATGAACACATAACAACACCCACTCCTTA
GAACAACCTTGTCCTCAACATTGGAATAAGGGAGCCTTCTCTTGAAATCTTACTTGGCATCTCAA
ACCCCATTCATACAATGTT
Found at i:4142764 original size:37 final size:39
Alignment explanation
Indices: 4142699--4142772 Score: 125
Period size: 37 Copynumber: 1.9 Consensus size: 39
4142689 CTTAACTTAT
4142699 TTAAGTAATGCTTGTAAAAAATTGTTCTATATTTTTTAAC
1 TTAAGTAATGCTTGT-AAAAATTGTTCTATATTTTTTAAC
4142739 TTAAGT-ATGCTTGT-AAAATTGTTCTATATTTTTT
1 TTAAGTAATGCTTGTAAAAATTGTTCTATATTTTTT
4142773 CATGAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 20 0.59
39 8 0.24
40 6 0.18
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (39 bp):
TTAAGTAATGCTTGTAAAAATTGTTCTATATTTTTTAAC
Found at i:4145182 original size:122 final size:122
Alignment explanation
Indices: 4144964--4145190 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 122
4144954 GGTTGAAATT
* ** * * *
4144964 AAACAAGATGCTTAGCATATGCTATGCTACTTTATTGCTGGGATTGGTAATGTTTCAAGAATGGT
1 AAACAAGATGCTTAGCATATGCAATGCTACCATATTGATGGGATTAGTAATGTTGCAAGAATGGT
* * *
4145029 CTTGGTGTCTTACCTCAAATTACCGACGGTCTT-CTTTTACACAAGATGTGTACCAA
66 CTTGGTATCTTACCTCAAATTACCAAAGGTCTTCCTTTTACACAAGATGTGTACCAA
* *
4145085 AAACAAGATGCTTAGCAGTATGCAATGTTTCCATATTGATGGGATTAAG-AATGTTGCAAGAATG
1 AAACAAGATGCTTAGCA-TATGCAATGCTACCATATTGATGGGATT-AGTAATGTTGCAAGAATG
* *
4145149 GTCTTGGTATTTTACCTCAGATTACCAAAGGTCTTCCTTTTA
64 GTCTTGGTATCTTACCTCAAATTACCAAAGGTCTTCCTTTTA
4145191 TGGTCTCAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 17 0.19
122 66 0.73
123 7 0.08
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (122 bp):
AAACAAGATGCTTAGCATATGCAATGCTACCATATTGATGGGATTAGTAATGTTGCAAGAATGGT
CTTGGTATCTTACCTCAAATTACCAAAGGTCTTCCTTTTACACAAGATGTGTACCAA
Found at i:4149197 original size:2 final size:2
Alignment explanation
Indices: 4149190--4149226 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4149180 CATTTGATTT
4149190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4149227 TGTATCCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4152812 original size:43 final size:43
Alignment explanation
Indices: 4152763--4152917 Score: 274
Period size: 43 Copynumber: 3.6 Consensus size: 43
4152753 TTAATGTGTA
* *
4152763 AGGAAAATGGGAATGAGTGAAGAAATGGGGAAAGGATTAGAAG
1 AGGAAAATGGGAATGAGTGAAGAAATAGGGAAAGGAGTAGAAG
*
4152806 AGGAAAACGGGAATGAGTGAAGAAATAGGGAAAGGAGTAGAAG
1 AGGAAAATGGGAATGAGTGAAGAAATAGGGAAAGGAGTAGAAG
4152849 AGGAAAATGGGAATGAGTGAAGAAATAGGGAAAGGAGTAGAAG
1 AGGAAAATGGGAATGAGTGAAGAAATAGGGAAAGGAGTAGAAG
*
4152892 AGGAAAATGGGAATGAGCGAAGAAAT
1 AGGAAAATGGGAATGAGTGAAGAAAT
4152918 CGATTGTTGA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.48, C:0.01, G:0.39, T:0.12
Consensus pattern (43 bp):
AGGAAAATGGGAATGAGTGAAGAAATAGGGAAAGGAGTAGAAG
Found at i:4155258 original size:2 final size:2
Alignment explanation
Indices: 4155251--4155277 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4155241 ATGCAATACA
4155251 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4155278 ATTATATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4157344 original size:115 final size:116
Alignment explanation
Indices: 4157139--4157347 Score: 280
Period size: 115 Copynumber: 1.8 Consensus size: 116
4157129 ATTTTAATAG
* **
4157139 CAATGAAGTTCATTTGATCAATAAAAAAAAGAAACAAAAAATTAAATATGTTTTGTAAGCTGTAA
1 CAATGAAATTCATTTGATCAATAAAAAAAAGAAACAAAAAACCAAATATGTTTTGTAAGCTGTAA
* *
4157204 TTCCGTTTGATCATGCCATTGGGTTTGAATAGGACTCTCAACCTCTAAGAA
66 TTCCGTTTGATCATGCCACTAGGTTTGAATAGGACTCTCAACCTCTAAGAA
* * *
4157255 CAATGAAATTCATTTGATC-TTAAAAAAAA-AAACAAAAAACCAGATTTGTTTTCGTAAGCTGTA
1 CAATGAAATTCATTTGATCAATAAAAAAAAGAAACAAAAAACCAAATATGTTTT-GTAAGCTGT-
* * *
4157318 AATT-TGTTTGATTATGTCACTAGGTTTGAA
64 AATTCCGTTTGATCATGCCACTAGGTTTGAA
4157348 CAGGGAGTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
114 19 0.24
115 39 0.49
116 22 0.28
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (116 bp):
CAATGAAATTCATTTGATCAATAAAAAAAAGAAACAAAAAACCAAATATGTTTTGTAAGCTGTAA
TTCCGTTTGATCATGCCACTAGGTTTGAATAGGACTCTCAACCTCTAAGAA
Found at i:4165008 original size:20 final size:20
Alignment explanation
Indices: 4164985--4165023 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4164975 ATGAGCTAGT
4164985 GATGATGATG-ATGATGATGG
1 GATGATGA-GCATGATGATGG
*
4165005 GATGGTGAGCATGATGATG
1 GATGATGAGCATGATGATG
4165024 ATGGGTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.28, C:0.03, G:0.41, T:0.28
Consensus pattern (20 bp):
GATGATGAGCATGATGATGG
Found at i:4165253 original size:21 final size:21
Alignment explanation
Indices: 4165229--4165282 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
4165219 TTGTTTCTCA
4165229 CTGCAGCGAGAATCATTTTCG
1 CTGCAGCGAGAATCATTTTCG
4165250 CTGCAGCGAGAATCATTTTCG
1 CTGCAGCGAGAATCATTTTCG
4165271 CTGCAGCGAGAA
1 CTGCAGCGAGAA
4165283 ACTCTCTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
CTGCAGCGAGAATCATTTTCG
Found at i:4166290 original size:61 final size:61
Alignment explanation
Indices: 4166195--4166317 Score: 194
Period size: 61 Copynumber: 2.0 Consensus size: 61
4166185 TTGCTTGGGC
*
4166195 TTAGTGGATTACGTCCATTGGGCCCATGCGCCGGTCATGGCCC-GAAATTTGGGTCGTGACA
1 TTAGTGGACTACGTCCATTGGGCCCATGCGCCGGTCATGGCCCAG-AATTTGGGTCGTGACA
* * *
4166256 TTAGTGGACTACGTCCATTGGGCCTATGCGCCGGTCATGGCTCAGAATTTGGGTTGTGACA
1 TTAGTGGACTACGTCCATTGGGCCCATGCGCCGGTCATGGCCCAGAATTTGGGTCGTGACA
4166317 T
1 T
4166318 GTGTGTCCGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
61 56 0.98
62 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.31, T:0.28
Consensus pattern (61 bp):
TTAGTGGACTACGTCCATTGGGCCCATGCGCCGGTCATGGCCCAGAATTTGGGTCGTGACA
Found at i:4167709 original size:57 final size:59
Alignment explanation
Indices: 4167646--4167756 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
4167636 CCACTTTTTT
* * * *
4167646 TCTTTC-TTT-CTCTCTTTTCTTTTCTCCTCGGGTGAAACCTTTCAAGACCCAATTTCC
1 TCTTTCTTTTCCTCTATTTTCTTCTCTCCTCGGGTGAAACCTCTCAAGAACCAATTTCC
** *
4167703 TCTTTCTTTTCCTCTATTTTCTTCTCTTTTTGGGTGAAACCTCTCAAGAACCAA
1 TCTTTCTTTTCCTCTATTTTCTTCTCTCCTCGGGTGAAACCTCTCAAGAACCAA
4167757 GCTTTTTCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 6 0.13
58 3 0.07
59 36 0.80
ACGTcount: A:0.16, C:0.29, G:0.09, T:0.46
Consensus pattern (59 bp):
TCTTTCTTTTCCTCTATTTTCTTCTCTCCTCGGGTGAAACCTCTCAAGAACCAATTTCC
Found at i:4169808 original size:2 final size:2
Alignment explanation
Indices: 4169796--4169832 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
4169786 GTTGTTTGTG
4169796 TA TA CTA 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
4169833 GTAAAGTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4170255 original size:28 final size:25
Alignment explanation
Indices: 4170220--4170281 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
4170210 CTGTGGGACG
*
4170220 TGGCAAGGCCACGGTTTGTGATTATACA
1 TGGCAAGGCCACGG-GT-TG-TTATACA
*
4170248 TGGCAAGGCCATGGGTTGTTATACA
1 TGGCAAGGCCACGGGTTGTTATACA
4170273 TGGCAAGGC
1 TGGCAAGGC
4170282 TGCGAGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 16 0.50
26 2 0.06
27 1 0.03
28 13 0.41
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (25 bp):
TGGCAAGGCCACGGGTTGTTATACA
Found at i:4188103 original size:33 final size:33
Alignment explanation
Indices: 4188066--4188131 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4188056 TGGTAGTTGT
* * * *
4188066 ATAGGTTCTGCTTGATCTTTGACAAAGCAAGTG
1 ATAGGTTCTACTTGATCCTTGAAAAAACAAGTG
4188099 ATAGGTTCTACTTGATCCTTGAAAAAACAAGTG
1 ATAGGTTCTACTTGATCCTTGAAAAAACAAGTG
4188132 TAAGGGTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (33 bp):
ATAGGTTCTACTTGATCCTTGAAAAAACAAGTG
Found at i:4198624 original size:55 final size:54
Alignment explanation
Indices: 4198480--4198649 Score: 173
Period size: 55 Copynumber: 3.1 Consensus size: 54
4198470 AGCATGTATA
*
4198480 CACCCAACGGTCCTCAGCCTATGTGTCCCCCCACATCGTACATAGCTGG-AT-AT
1 CACCCAACGGTCCTCAGCCTATGTGT-CCCCCACATCGCACATAGCTGGAATCAT
* * * * * *
4198533 AGACCATCACCAGTCCTCAGCCCATGTGTCCTCCCACATCGGACACAGCTGGAATCAT
1 -CACC--CAACGGTCCTCAGCCTATGTGTCC-CCCACATCGCACATAGCTGGAATCAT
* * * *
4198591 CACCCATCGGTCATCAGCTTATGTGTCTCCCCACATCGCACATAGCTGGAATCAC
1 CACCCAACGGTCCTCAGCCTATGTGTC-CCCCACATCGCACATAGCTGGAATCAT
4198646 CACC
1 CACC
4198650 ATCAGTAACG
Statistics
Matches: 95, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
54 3 0.03
55 47 0.49
56 38 0.40
57 5 0.05
58 2 0.02
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.21
Consensus pattern (54 bp):
CACCCAACGGTCCTCAGCCTATGTGTCCCCCACATCGCACATAGCTGGAATCAT
Found at i:4200929 original size:39 final size:39
Alignment explanation
Indices: 4200841--4200978 Score: 158
Period size: 39 Copynumber: 3.6 Consensus size: 39
4200831 TCAACTCAGC
* * * *
4200841 TCATGTGCACTCCCACTCTGCACATAGC-TA-AT-ATCC
1 TCATGTGCACTCCCACACCGCACATGGCATATATCATCA
4200877 TCATGTGCACTCCCACACCGCACATGGCATATATCATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCATCA
* *
4200916 TCATGTGCTCTCCCACACCGCACATGGCATATATCATTGA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA-TCA
* * *
4200956 -CGTGTGCTCTCCCACACCACACA
1 TCATGTGCACTCCCACACCGCACA
4200979 CTACCGACAT
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
36 25 0.28
37 2 0.02
38 2 0.02
39 59 0.66
40 2 0.02
ACGTcount: A:0.25, C:0.37, G:0.13, T:0.25
Consensus pattern (39 bp):
TCATGTGCACTCCCACACCGCACATGGCATATATCATCA
Found at i:4203169 original size:36 final size:36
Alignment explanation
Indices: 4203129--4203255 Score: 166
Period size: 36 Copynumber: 3.5 Consensus size: 36
4203119 GTGATGATGT
* * *
4203129 GGTGTGGGAGTGTACATGATGATATTTGCCATGTGC
1 GGTGTGGGAGTGCACATGATGATATTAGCTATGTGC
* *
4203165 GGTGTGGGAGTGCACATGACGGTATTAGCTATGTGC
1 GGTGTGGGAGTGCACATGATGATATTAGCTATGTGC
* *
4203201 AGTGTGGGAGTGCACATGATGAT-TTCAGCTATGTAC
1 GGTGTGGGAGTGCACATGATGATATT-AGCTATGTGC
*
4203237 GGTGTGGGAGTGTACATGA
1 GGTGTGGGAGTGCACATGA
4203256 GCTGGTGAAC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
35 2 0.03
36 77 0.97
ACGTcount: A:0.21, C:0.12, G:0.37, T:0.30
Consensus pattern (36 bp):
GGTGTGGGAGTGCACATGATGATATTAGCTATGTGC
Found at i:4204614 original size:16 final size:16
Alignment explanation
Indices: 4204579--4204623 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
4204569 CTAGCTTTTC
4204579 TCTTCCTTTTTCCTTTCTT
1 TCTTCC-TTTT-C-TTCTT
*
4204598 TCTTTCTTTTCTTCTT
1 TCTTCCTTTTCTTCTT
4204614 TCTTCCTTTT
1 TCTTCCTTTT
4204624 TCTCTCTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 14 0.58
17 1 0.04
18 4 0.17
19 5 0.21
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTCCTTTTCTTCTT
Found at i:4206597 original size:19 final size:19
Alignment explanation
Indices: 4206573--4206611 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4206563 GGTTTTAGAA
*
4206573 AGAAACCCTCGGCCAGTTG
1 AGAAACCCTCAGCCAGTTG
*
4206592 AGAAACCCTCAGCTAGTTG
1 AGAAACCCTCAGCCAGTTG
4206611 A
1 A
4206612 TAATTTGAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (19 bp):
AGAAACCCTCAGCCAGTTG
Found at i:4208838 original size:21 final size:22
Alignment explanation
Indices: 4208813--4208853 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4208803 CCTAGGTGGA
*
4208813 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
4208834 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
4208854 AAAAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:4208854 original size:20 final size:21
Alignment explanation
Indices: 4208813--4208857 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
4208803 CCTAGGTGGA
*
4208813 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
4208834 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
4208854 AAAA
1 AAAA
4208858 AAAGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:4208858 original size:21 final size:20
Alignment explanation
Indices: 4208811--4208858 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
4208801 ACCCTAGGTG
*
4208811 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
4208831 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
4208853 GAAAAA
1 GAAAAA
4208859 AAGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:4211814 original size:43 final size:43
Alignment explanation
Indices: 4211751--4211862 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 43
4211741 TATTGACTCG
* *
4211751 GCTATGTGCGAGTAGGGAGTGCTCATAAGCCAAG-GATGACCTA
1 GCTATGTGCGAGTAGGGAGTGCGCATAAGCC-AGTGATGACCCA
* * *
4211794 GTTATGTGCGAGTAGGGAGTGCGCATAATCCGGTGATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAAGCCAGTGATGACCCA
*
4211837 GCCATGTGCGAGTAGGGAGTGCGCAT
1 GCTATGTGCGAGTAGGGAGTGCGCAT
4211863 GAGTTGGTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAAGCCAGTGATGACCCA
Found at i:4223999 original size:39 final size:39
Alignment explanation
Indices: 4223938--4224029 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 39
4223928 AAGTTCATTC
* * * **
4223938 TCGCTGCAGTGAAAAACTTTCTGTTTCTGGGTTGCAATT
1 TCGCTGCAGCGAGAAACATTCTGTTTCTGGGTCACAATT
4223977 TCGCTGCAGCGAGAAACATTCTGTTTCTGGGTCACAATT
1 TCGCTGCAGCGAGAAACATTCTGTTTCTGGGTCACAATT
*
4224016 TTGCTGCAGCGAGA
1 TCGCTGCAGCGAGA
4224030 TTCAATCTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (39 bp):
TCGCTGCAGCGAGAAACATTCTGTTTCTGGGTCACAATT
Found at i:4226427 original size:29 final size:29
Alignment explanation
Indices: 4226385--4226583 Score: 242
Period size: 29 Copynumber: 6.9 Consensus size: 29
4226375 TAGCTTTAAG
*
4226385 ATGTTTTGTCTTAATTTGGACAAGAAAAC
1 ATGTTTTGTCTTAATTTAGACAAGAAAAC
4226414 ATGTTTTGTCTTAATTTAGACAAGAAAAC
1 ATGTTTTGTCTTAATTTAGACAAGAAAAC
* * *
4226443 ATGTGTTGTCTTAATTTAAACAAGAAAAT
1 ATGTTTTGTCTTAATTTAGACAAGAAAAC
*
4226472 ATG-TTTGTCTTAATTTAAGACAAGAAAGAT
1 ATGTTTTGTCTTAATTT-AGACAAGAAA-AC
* * *
4226502 ATGTTTTATCTTAATCTAGACAAAAAAAC
1 ATGTTTTGTCTTAATTTAGACAAGAAAAC
* *
4226531 AT-ATTTGTCTTAATTTAGACAAGATAAC
1 ATGTTTTGTCTTAATTTAGACAAGAAAAC
* *
4226559 AT-ATTTGTCTTAATTAAAGACAAGA
1 ATGTTTTGTCTTAATT-TAGACAAGA
4226584 GTTGTCTTAA
Statistics
Matches: 150, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
28 48 0.32
29 77 0.51
30 14 0.09
31 11 0.07
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (29 bp):
ATGTTTTGTCTTAATTTAGACAAGAAAAC
Found at i:4226547 original size:87 final size:87
Alignment explanation
Indices: 4226389--4226583 Score: 268
Period size: 87 Copynumber: 2.3 Consensus size: 87
4226379 TTTAAGATGT
* * * * *
4226389 TTTGTCTTAATTT-GGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGTGTTGTC
1 TTTGTCTTAATTTAAGACAAGAAAACATGTTTTATCTTAATCTAGACAAAAAAACATATGTTGTC
* *
4226453 TTAATTTAAACAAGAAAATATG
66 TTAATTTAAACAAGAAAACATA
*
4226475 TTTGTCTTAATTTAAGACAAGAAAGATATGTTTTATCTTAATCTAGACAAAAAAACATAT-TTGT
1 TTTGTCTTAATTTAAGACAAGAAA-ACATGTTTTATCTTAATCTAGACAAAAAAACATATGTTGT
* *
4226539 CTTAATTTAGACAAGATAACATA
65 CTTAATTTAAACAAGAAAACATA
*
4226562 TTTGTCTTAATTAAAGACAAGA
1 TTTGTCTTAATTTAAGACAAGA
4226584 GTTGTCTTAA
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
86 13 0.14
87 53 0.55
88 30 0.31
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (87 bp):
TTTGTCTTAATTTAAGACAAGAAAACATGTTTTATCTTAATCTAGACAAAAAAACATATGTTGTC
TTAATTTAAACAAGAAAACATA
Found at i:4226622 original size:22 final size:22
Alignment explanation
Indices: 4226563--4226620 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
4226553 GATAACATAT
4226563 TTGTCTTAATTAAAGACAAGAG
1 TTGTCTTAATTAAAGACAAGAG
4226585 TTGTCTTAATTAAAGACAAGAG
1 TTGTCTTAATTAAAGACAAGAG
4226607 TTGTCTTAAATTAA
1 TTGTCTT-AATTAA
4226621 GATAATGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.83
23 6 0.17
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (22 bp):
TTGTCTTAATTAAAGACAAGAG
Found at i:4231721 original size:20 final size:21
Alignment explanation
Indices: 4231686--4231724 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4231676 AAAACTAATA
*
4231686 AATAACAATCAAATTAAAAGG
1 AATAACAATAAAATTAAAAGG
4231707 AATAAC-ATAAAATTAAAA
1 AATAACAATAAAATTAAAA
4231725 TAACTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (21 bp):
AATAACAATAAAATTAAAAGG
Found at i:4233854 original size:43 final size:43
Alignment explanation
Indices: 4233798--4233919 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
4233788 TGTGATAATG
* *
4233798 ATGACCCAGCTATGTGCGATGT-GGGAGTGCACATGAGCTGATA
1 ATGACCCGGCTATGTGCGA-GTAGGGAGTGCACATGAGCCGATA
* * * * *
4233841 ATGACCCGGCTATGTGCTAGTAGAGAGTGCGCATAAGCCGATG
1 ATGACCCGGCTATGTGCGAGTAGGGAGTGCACATGAGCCGATA
*
4233884 ATGACCTGGCTATGTGCGAGTAGGGAGTGCACATGA
1 ATGACCCGGCTATGTGCGAGTAGGGAGTGCACATGA
4233920 TGATGAATGA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 2 0.03
43 64 0.97
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (43 bp):
ATGACCCGGCTATGTGCGAGTAGGGAGTGCACATGAGCCGATA
Found at i:4237309 original size:88 final size:88
Alignment explanation
Indices: 4237147--4237325 Score: 250
Period size: 88 Copynumber: 2.0 Consensus size: 88
4237137 GATTCATACT
** * *
4237147 TTTTAATGGGATCAAGCGTTAATCCTTACACAATCCATAAAGGGATTCTCACTTTTTAACGAGAT
1 TTTTAATGGGATCAAGCAATAACCCTTACACAATCCATAAAGGGATTATCACTTTTTAACGAGAT
* * *
4237212 TAAGCGATAACCTTTACACTGAC
66 CAAGCGATAACCCTTACACTAAC
* ***
4237235 TTTTCATGGGATCAAGCAATAACCCTTACACAATCCATAAAGGGATTATTGTTTTTTAACGAGAT
1 TTTTAATGGGATCAAGCAATAACCCTTACACAATCCATAAAGGGATTATCACTTTTTAACGAGAT
*
4237300 CAAGTGATAACCCTTACACTAAC
66 CAAGCGATAACCCTTACACTAAC
4237323 TTT
1 TTT
4237326 CCAAAGTTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (88 bp):
TTTTAATGGGATCAAGCAATAACCCTTACACAATCCATAAAGGGATTATCACTTTTTAACGAGAT
CAAGCGATAACCCTTACACTAAC
Found at i:4253912 original size:36 final size:36
Alignment explanation
Indices: 4253865--4254035 Score: 150
Period size: 39 Copynumber: 4.6 Consensus size: 36
4253855 ATAACTGTGC
* **
4253865 GTGTGCAGTGTGGGAGTGCACATGACGATGCCAGTA-
1 GTGTGCGGTGTGGGAGTGCACATGACGATGATA-TAT
* *
4253901 GTGTGCGGTGTGGGAGAGCACATGCCGATGATATAT
1 GTGTGCGGTGTGGGAGTGCACATGACGATGATATAT
* *
4253937 GCCATGTGCGGTGTGGGAGAGCACATGATGATGATATAT
1 G---TGTGCGGTGTGGGAGTGCACATGACGATGATATAT
* * *
4253976 GCCATGTGCGGTGTGGGAGTGCACATGATGGTGATGGTGA-
1 G---TGTGCGGTGTGGGAGTGCACATGACGATGAT-AT-AT
4254016 G-GTGCGGTGTGGGAGTGCAC
1 GTGTGCGGTGTGGGAGTGCAC
4254036 CCGATGATGA
Statistics
Matches: 119, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
35 2 0.02
36 48 0.40
39 66 0.55
40 2 0.02
41 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.42, T:0.24
Consensus pattern (36 bp):
GTGTGCGGTGTGGGAGTGCACATGACGATGATATAT
Found at i:4254004 original size:39 final size:39
Alignment explanation
Indices: 4253902--4254048 Score: 183
Period size: 39 Copynumber: 3.8 Consensus size: 39
4253892 ATGCCAGTAG
**
4253902 TGTGCGGTGTGGGAGAGCACATGCCGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
4253941 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
* * **
4253980 TGTGCGGTGTGGGAGTGCACATGATGGTGAT-GGTG--A
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
* * **
4254016 GGTGCGGTGTGGGAGTGCACCCGATGATGATAT
1 TGTGCGGTGTGGGAGAGCACATGATGATGATAT
4254049 TTTAATGTAC
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
36 28 0.29
38 2 0.02
39 66 0.69
ACGTcount: A:0.21, C:0.14, G:0.40, T:0.25
Consensus pattern (39 bp):
TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
Found at i:4255824 original size:2 final size:2
Alignment explanation
Indices: 4255817--4255844 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4255807 TTATATGTTG
4255817 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
4255845 NNNNNNNNNN
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):
AT
Found at i:4258279 original size:54 final size:54
Alignment explanation
Indices: 4258124--4258282 Score: 246
Period size: 54 Copynumber: 2.9 Consensus size: 54
4258114 TCATCATGTG
* * **
4258124 CATCTCACCCAACTCATGTGCATTCCACCACATCGTGCACATAGCCAAACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* *
4258178 CATCTCACCCAGCTTATGTGCATCCCACCACATCGTGCACATGGCCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* *
4258232 CATCTCAACCAGCTCATGTTCATCCCACCACATCGTGCACATAGCCGGACA
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACA
4258283 GTATCACCAT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.26, C:0.40, G:0.13, T:0.20
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
Found at i:4263819 original size:14 final size:15
Alignment explanation
Indices: 4263795--4263823 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4263785 TTTTGGAGAA
4263795 ATATCCAAGGAAATG
1 ATATCCAAGGAAATG
4263810 ATAT-CAAGGAAATG
1 ATATCCAAGGAAATG
4263824 TAATCTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (15 bp):
ATATCCAAGGAAATG
Found at i:4264732 original size:19 final size:19
Alignment explanation
Indices: 4264692--4264733 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4264682 AGACCTAAGG
* *
4264692 AATAAATGAATGATGGTAA
1 AATAAATGAATGAAGATAA
4264711 AATAAATGAA-GAAGATAGA
1 AATAAATGAATGAAGATA-A
4264730 AATA
1 AATA
4264734 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:4265738 original size:10 final size:10
Alignment explanation
Indices: 4265716--4265754 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
4265706 GAAATCCCTT
4265716 TATATGT-TGA
1 TATATGTAT-A
4265726 TATATGTATA
1 TATATGTATA
*
4265736 TATATATATA
1 TATATGTATA
4265746 TATATGTAT
1 TATATGTAT
4265755 TGTACATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 25 0.96
11 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (10 bp):
TATATGTATA
Found at i:4265991 original size:104 final size:104
Alignment explanation
Indices: 4265809--4266009 Score: 348
Period size: 104 Copynumber: 1.9 Consensus size: 104
4265799 GTGTGCGATG
** *
4265809 TGGGGGATGCACATGCCGGTGATGACGGGGTATGGGAGTGTGGAGGATGACATTGCTGTGCGCGA
1 TGGGGGATGCACATGCCGGTGATGACAAGGTATGGAAGTGTGGAGGATGACATTGCTGTGCGCGA
*
4265874 TGTGGGGGTTGCACACAATGGCATTAGTTGTGAGTGATA
66 TGTGGGGGCTGCACACAATGGCATTAGTTGTGAGTGATA
* *
4265913 TGGGGGATGCACATGCCGGTGATGACAAGGTGTGGAAGTGTGGAGGATGACATTGTTGTGCGCGA
1 TGGGGGATGCACATGCCGGTGATGACAAGGTATGGAAGTGTGGAGGATGACATTGCTGTGCGCGA
4265978 TGTGGGGGCTGCACACAATGGCATTAGTTGTG
66 TGTGGGGGCTGCACACAATGGCATTAGTTGTG
4266010 CATGATGTTG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 91 1.00
ACGTcount: A:0.20, C:0.13, G:0.42, T:0.25
Consensus pattern (104 bp):
TGGGGGATGCACATGCCGGTGATGACAAGGTATGGAAGTGTGGAGGATGACATTGCTGTGCGCGA
TGTGGGGGCTGCACACAATGGCATTAGTTGTGAGTGATA
Found at i:4266061 original size:38 final size:37
Alignment explanation
Indices: 4265959--4266067 Score: 116
Period size: 36 Copynumber: 2.9 Consensus size: 37
4265949 AGTGTGGAGG
4265959 ATGACATT-GTTGTGCGCGATGTGGGGGCTGCACACA
1 ATGACATTAGTTGTGCGCGATGTGGGGGCTGCACACA
* ** *
4265995 ATGGCATTAGTTGTGCATGATGTTGGGG-TGCACACA
1 ATGACATTAGTTGTGCGCGATGTGGGGGCTGCACACA
* *
4266031 ATGAC-TTCAGCTATGTGCGCAATGTGGGGGTTGCACA
1 ATGACATT-AG-T-TGTGCGCGATGTGGGGGCTGCACA
4266068 TGAGCTGGGT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
35 2 0.03
36 21 0.36
37 17 0.29
38 13 0.22
39 6 0.10
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (37 bp):
ATGACATTAGTTGTGCGCGATGTGGGGGCTGCACACA
Found at i:4266117 original size:2 final size:2
Alignment explanation
Indices: 4266105--4266141 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4266095 CATGTTTATG
* *
4266105 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4266142 GTTATAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4266392 original size:22 final size:22
Alignment explanation
Indices: 4266364--4266411 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
4266354 CTGCAGTGAG
4266364 AATGGATTCTCACTACAGCGAA
1 AATGGATTCTCACTACAGCGAA
*
4266386 AATGGATTCTCTCTACAGCGAA
1 AATGGATTCTCACTACAGCGAA
4266408 AATG
1 AATG
4266412 AATCTCGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (22 bp):
AATGGATTCTCACTACAGCGAA
Found at i:4266426 original size:21 final size:22
Alignment explanation
Indices: 4266364--4266427 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
4266354 CTGCAGTGAG
*
4266364 AATGGATTCTCACTACAGCGAA
1 AATGGAATCTCACTACAGCGAA
* *
4266386 AATGGATTCTCTCTACAGCGAA
1 AATGGAATCTCACTACAGCGAA
* *
4266408 AAT-GAATCTCGCTATAGCGA
1 AATGGAATCTCACTACAGCGA
4266428 GAAACTCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
21 14 0.37
22 24 0.63
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (22 bp):
AATGGAATCTCACTACAGCGAA
Found at i:4268201 original size:21 final size:21
Alignment explanation
Indices: 4268170--4268237 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
4268160 CAATATGTTC
4268170 ATGCAATTCATGACAAAGACTG
1 ATGC-ATTCATGACAAAGACTG
*
4268192 ATGCATTCATAACAAAGACTG
1 ATGCATTCATGACAAAGACTG
* * * *
4268213 ATACATTTATGATAAGGACTG
1 ATGCATTCATGACAAAGACTG
4268234 ATGC
1 ATGC
4268238 CTCCATTCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 35 0.90
22 4 0.10
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (21 bp):
ATGCATTCATGACAAAGACTG
Found at i:4269932 original size:4 final size:4
Alignment explanation
Indices: 4269923--4269978 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
4269913 TTCAGTTATT
* *
4269923 TTTA TTTA -TTA TTTA TTTTA TTT- TTCTA CATTA TTTA TTTA TTTA TTAA
1 TTTA TTTA TTTA TTTA -TTTA TTTA TT-TA -TTTA TTTA TTTA TTTA TTTA
4269972 TTTA TTT
1 TTTA TTT
4269979 TTTTGTAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 5 0.12
4 31 0.72
5 6 0.14
6 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:4269941 original size:16 final size:15
Alignment explanation
Indices: 4269898--4269947 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
4269888 AACCTTTTTC
*
4269898 TTTATTTATTTTCTT
1 TTTATTTATTTTATT
* *
4269913 TTCAGTTATTTTTATT
1 TTTATTTA-TTTTATT
4269929 TATTATTTATTTTATT
1 T-TTATTTATTTTATT
4269945 TTT
1 TTT
4269948 CTACATTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 8 0.29
16 15 0.54
17 5 0.18
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTATTTATTTTATT
Found at i:4269946 original size:22 final size:21
Alignment explanation
Indices: 4269918--4269977 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
4269908 TTCTTTTCAG
4269918 TTATTTTTATTTATTATTTATT
1 TTATTTTTATTTATTATTTA-T
* **
4269940 TTATTTTTCTACATTATTTAT
1 TTATTTTTATTTATTATTTAT
4269961 TTATTTATTAATTTATT
1 TTATTT-TT-ATTTATT
4269978 TTTTTGTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 7 0.23
22 19 0.63
23 4 0.13
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATTTTTATTTATTATTTAT
Found at i:4281190 original size:20 final size:20
Alignment explanation
Indices: 4281167--4281209 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4281157 ACTTCAAGAT
*
4281167 AGAAATAACTTAATCGACTA
1 AGAAAGAACTTAATCGACTA
* * *
4281187 AGAAGGAAGTTAGTCGACTA
1 AGAAAGAACTTAATCGACTA
4281207 AGA
1 AGA
4281210 GCTCACTGCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (20 bp):
AGAAAGAACTTAATCGACTA
Found at i:4282257 original size:70 final size:70
Alignment explanation
Indices: 4282133--4282314 Score: 197
Period size: 70 Copynumber: 2.6 Consensus size: 70
4282123 GTCTGGGATT
* * * * *
4282133 GATCTTGGACCAGAAGGTTTGCATTTCATTCATTTCTCCTTCACAGGACTGACTATAGAGGCTCT
1 GATCTTTGACCAGAATGTTTGC-TTTTATTCATTTTTCCTTCACAAGACTGACTATAGAGGCTCT
4282198 ATAGTC
65 ATAGTC
* * *
4282204 GATCTTTGACCAGAATGTCTGCTTTTATTCATTTTTCCTTCACAAGA-TCGACTATAGAGGGTTT
1 GATCTTTGACCAGAATGTTTGCTTTTATTCATTTTTCCTTCACAAGACT-GACTATAGAGGCTCT
*
4282268 ATAGTT
65 ATAGTC
* * * *
4282274 GATC-CTGTACCAGAATGTTTGCGTTTCTTCCATTTTCCCTT
1 GATCTTTG-ACCAGAATGTTTGCTTTTATT-CATTTTTCCTT
4282315 TATAGAATCA
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
69 3 0.03
70 62 0.66
71 29 0.31
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (70 bp):
GATCTTTGACCAGAATGTTTGCTTTTATTCATTTTTCCTTCACAAGACTGACTATAGAGGCTCTA
TAGTC
Found at i:4284411 original size:253 final size:252
Alignment explanation
Indices: 4283982--4284903 Score: 918
Period size: 253 Copynumber: 3.7 Consensus size: 252
4283972 TACTTAATGG
* *
4283982 TTTACAAATTTTAATTTATAAATGAATAATAATAAGGATGAAAATAATTATAATGAAAAA-TAGC
1 TTTACAAATTTTAATTTATAAATGAATAATAATAAGGATAAAAATAATTATAGT-AAAAATTAGC
* * * *
4284046 AACTGAAAAACCTTGACATAAACCTATAAAAATTAACATAAAAAATTATAAAAATGTAGTAA-AC
65 AATTGAAAAACCTTGACATAAACCTATAAAAATTAACATAAAAAATTATAAAAGTGGAATAAGA-
* * *
4284110 ATTGTTAAAATATTGATGTAAATGTATGAGATTTAAT-ATCACAAGTCAATTAAGTCAAAATAAA
129 ATTGTTAAAATATTGATGTTAATGTGTGAGATTT-ATCATAACAAGTCAATTAAGTCAAAATAAA
* * * * * *
4284174 TATATTTTTTTTAAAAATTAAACATTTAAATTTATGTTATCGAGCTAAAAGTATTTAACAA
193 TATAATTTTTGTGAAAATTAAATATTTAAATTTATATTATTGAGCTAAAAGTATTTAAC-A
* *
4284235 TTTACAAATTTTAATTTATAAATGAATAATAATAAAGATAAAAATAATTATAGTAAAAATTACCA
1 TTTACAAATTTTAATTTATAAATGAATAATAATAAGGATAAAAATAATTATAGTAAAAATTAGCA
* ** * * * * * *
4284300 ATTGAAAAACTTTGACATAAATTTGTAAGAATTAACATAAAAAATTATAAAGGTGGAATAGGTAG
66 ATTGAAAAACCTTGACATAAACCTATAAAAATTAACATAAAAAATTATAAAAGTGGAATAAGAAT
* * * * * *
4284365 TGTTAAAATATTGATGTTAGTGTGTAAAATTTATCGTAATAAGTCAATTAGGTCAAAATAAATAT
131 TGTTAAAATATTGATGTTAATGTGTGAGATTTATCATAACAAGTCAATTAAGTCAAAATAAATAT
* * *
4284430 AATTTTAGTGAAAATTATATATTTAAATTTATATTCTTGAGCTAAAAGTATTT---A
196 AATTTTTGTGAAAATTAAATATTTAAATTTATATTATTGAGCTAAAAGTATTTAACA
* * *
4284484 ---AC-------AATTTATAAATGAATAATAAGAATGATAAAAATAATTATAGTGAAAATTAGCA
1 TTTACAAATTTTAATTTATAAATGAATAATAATAAGGATAAAAATAATTATAGTAAAAATTAGCA
* * * * ** * *
4284539 ATCG-AAAATCTCGA-AGTAAACCTGTAAAAATTAATGTAAAAAAATTATAAATGTGGAAAAAGA
66 ATTGAAAAACCTTGACA-TAAACCTATAAAAATTAACAT-AAAAAATTATAAAAGTGGAATAAGA
* * * * * *
4284602 ATTGTTAAAATATTGACG-TACATGTGTGAGGTTTAACATAACAAGTCTATTAAATTAAAATAAA
129 ATTGTTAAAATATTGATGTTA-ATGTGTGAGATTTATCATAACAAGTCAATTAAGTCAAAATAAA
*
4284666 TATAATTTTTGTGAAAATTAAATATTTAAATTTATATTATTGAGTTAAAAGTATTTAACGA
193 TATAATTTTTGTGAAAATTAAATATTTAAATTTATATTATTGAGCTAAAAGTATTTAAC-A
* * * ** *
4284727 CTTACAAATTTTACTTTATAAATGAATAATAATAAGGATAAAAATAGTTATAGTGTAAATTAACA
1 TTTACAAATTTTAATTTATAAATGAATAATAATAAGGATAAAAATAATTATAGTAAAAATTAGCA
* ** ** *
4284792 ATT-AATAAACCTAGACATAAATTTA-AATAGAATTAATGTAAAAAATTATAAAAGTGGAACAA-
66 ATTGAA-AAACCTTGACATAAACCTATAA-A-AATTAACATAAAAAATTATAAAAGTGGAATAAG
* * * * * * *
4284854 ACATTATTCAAATATTGACG-TACATGTATGAGAGTTAACATAGCAAGTCA
128 A-ATTGTTAAAATATTGATGTTA-ATGTGTGAGATTTATCATAACAAGTCA
4284904 TTATAATAAG
Statistics
Matches: 553, Mismatches: 90, Indels: 51
0.80 0.13 0.07
Matches are distributed among these distances:
237 1 0.00
238 25 0.05
239 173 0.31
243 1 0.00
246 4 0.01
249 1 0.00
252 7 0.01
253 256 0.46
254 75 0.14
255 10 0.02
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (252 bp):
TTTACAAATTTTAATTTATAAATGAATAATAATAAGGATAAAAATAATTATAGTAAAAATTAGCA
ATTGAAAAACCTTGACATAAACCTATAAAAATTAACATAAAAAATTATAAAAGTGGAATAAGAAT
TGTTAAAATATTGATGTTAATGTGTGAGATTTATCATAACAAGTCAATTAAGTCAAAATAAATAT
AATTTTTGTGAAAATTAAATATTTAAATTTATATTATTGAGCTAAAAGTATTTAACA
Found at i:4284666 original size:239 final size:239
Alignment explanation
Indices: 4284247--4284724 Score: 611
Period size: 239 Copynumber: 2.0 Consensus size: 239
4284237 TACAAATTTT
* *
4284247 AATTTATAAATGAATAATAATAAAGATAAAAATAATTATAGTAAAAATTACCAATTGAAAAACTT
1 AATTTATAAATGAATAATAAGAAAGATAAAAATAATTATAGTAAAAATTACCAATCGAAAAACTT
* ** * * * *
4284312 TGACATAAATTTGTAAGAATTAACATAAAAAATTATAAAGGTGGAATAGGTAGTGTTAAAATATT
66 CGACATAAACCTGTAAAAATTAACATAAAAAATTATAAAGGTGGAAAAAGAAGTGTTAAAATATT
* * * * * **
4284377 GATGTTAGTGTGTAAAATTTATCGTAATAAGTCAATTAGGTCAAAATAAATATAATTTTAGTGAA
131 GACGTTAATGTGTAAAATTTAACATAACAAGTCAATTAAATCAAAATAAATATAATTTTAGTGAA
* *
4284442 AATTATATATTTAAATTTATATTCTTGAGCTAAAAGTATTTAAC
196 AATTAAATATTTAAATTTATATTATTGAGCTAAAAGTATTTAAC
* * * *
4284486 AATTTATAAATGAATAATAAGAATGATAAAAATAATTATAGTGAAAATTAGCAATCGAAAATC-T
1 AATTTATAAATGAATAATAAGAAAGATAAAAATAATTATAGTAAAAATTACCAATCGAAAAACTT
** * *
4284550 CGA-AGTAAACCTGTAAAAATTAATGTAAAAAAATTATAAATGTGGAAAAAGAATTGTTAAAATA
66 CGACA-TAAACCTGTAAAAATTAACAT-AAAAAATTATAAAGGTGGAAAAAGAAGTGTTAAAATA
* ** * * *
4284614 TTGACG-TACATGTGTGAGGTTTAACATAACAAGTCTATTAAATTAAAATAAATATAATTTTTGT
129 TTGACGTTA-ATGTGTAAAATTTAACATAACAAGTCAATTAAATCAAAATAAATATAATTTTAGT
*
4284678 GAAAATTAAATATTTAAATTTATATTATTGAGTTAAAAGTATTTAAC
193 GAAAATTAAATATTTAAATTTATATTATTGAGCTAAAAGTATTTAAC
4284725 GACTTACAAA
Statistics
Matches: 203, Mismatches: 33, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
237 1 0.00
238 21 0.10
239 181 0.89
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (239 bp):
AATTTATAAATGAATAATAAGAAAGATAAAAATAATTATAGTAAAAATTACCAATCGAAAAACTT
CGACATAAACCTGTAAAAATTAACATAAAAAATTATAAAGGTGGAAAAAGAAGTGTTAAAATATT
GACGTTAATGTGTAAAATTTAACATAACAAGTCAATTAAATCAAAATAAATATAATTTTAGTGAA
AATTAAATATTTAAATTTATATTATTGAGCTAAAAGTATTTAAC
Found at i:4285767 original size:4 final size:4
Alignment explanation
Indices: 4285758--4285818 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
4285748 CAAATCTCAT
* ** * *
4285758 TTAA TTAA TTAA TTAA CTAA TTAA TTTG TTAA TTAAA ATAA CTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT-AA TTAA TTAA TTAA
*
4285807 CTAA TTTAA TTA
1 TTAA -TTAA TTA
4285819 TAAACTAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
4 38 0.86
5 6 0.14
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (4 bp):
TTAA
Found at i:4285780 original size:16 final size:16
Alignment explanation
Indices: 4285759--4285828 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
4285749 AAATCTCATT
4285759 TAATTAATTAATTAAC
1 TAATTAATTAATTAAC
** *
4285775 TAATTAATTTGTTAAT
1 TAATTAATTAATTAAC
* *
4285791 TAAAATAACTAATTAAC
1 T-AATTAATTAATTAAC
*
4285808 TAATTTAATT-ATAAAC
1 TAA-TTAATTAATTAAC
4285824 TAATT
1 TAATT
4285829 TAAATTAATA
Statistics
Matches: 41, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
15 2 0.05
16 24 0.59
17 15 0.37
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (16 bp):
TAATTAATTAATTAAC
Found at i:4285926 original size:55 final size:52
Alignment explanation
Indices: 4285825--4286078 Score: 158
Period size: 55 Copynumber: 4.7 Consensus size: 52
4285815 ATTATAAACT
* * * *
4285825 AATTTAAATTAATAAATTTCATTGATGAATTTAATTATAAAATAATAGAAAATGAA
1 AATTTAATTTAATTAA-TTAATTAAT-AATTTAATTATAAAATAATA-AAAAT-AA
* * *
4285881 AATTTAATTTAATTAATTATTTAACTAATTTAATTGTAAATTAAT-AAAA-AA
1 AATTTAATTTAATTAATTAATTAA-TAATTTAATTATAAAATAATAAAAATAA
* * * **
4285932 AATTTCATTTAATTAGTTAATTAA-AATAGCTAATTAACTAATTTAATTATAAAAT--
1 AATTTAATTTAATTAATTAATTAATAAT--TTAATT-A-TAAAATAA-TA-AAAATAA
* ** **
4285987 AATTTAAATTAATTAATTTAATTAATGAATAGAATTATAAAATAATAAAAATGCC
1 AATTTAATTTAATTAA-TTAATTAAT-AATTTAATTATAAAATAATAAAAAT-AA
* * *
4286042 AATGTAATTTTATTAATTATTTAACTAATTTAATTAT
1 AATTTAATTTAATTAATTAATTAA-TAATTTAATTAT
4286079 TACTTTAAAT
Statistics
Matches: 156, Mismatches: 26, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
49 3 0.02
51 28 0.18
52 5 0.03
53 13 0.08
54 23 0.15
55 50 0.32
56 31 0.20
58 3 0.02
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (52 bp):
AATTTAATTTAATTAATTAATTAATAATTTAATTATAAAATAATAAAAATAA
Found at i:4285944 original size:51 final size:53
Alignment explanation
Indices: 4285852--4286078 Score: 160
Period size: 55 Copynumber: 4.2 Consensus size: 53
4285842 TTCATTGATG
*
4285852 AATTTAATTATAAAATAATAGAAAATGAAAATTTAATTTAATTAATTATTTAACT
1 AATTTAATTATAAAATAATA-AAAA-GAAAATTTAATTTAATTAATTAATTAACT
* * * *
4285907 AATTTAATTGTAAATTAAT-AAAA-AAAATTTCATTTAATTAGTTAATTAA--
1 AATTTAATTATAAAATAATAAAAAGAAAATTTAATTTAATTAATTAATTAACT
* ** * * *
4285956 AATAGCTAATTAACTAATTTAATTATAAA-ATAATTTAAATTAATTAATTTAATTAA-T
1 AAT--TTAATT-A-TAAAATAA-TAAAAAGAAAATTTAATTTAATTAA-TTAATTAACT
** ** * * *
4286013 GAATAGAATTATAAAATAATAAAAATGCCAATGTAATTTTATTAATTATTTAACT
1 -AATTTAATTATAAAATAATAAAAA-GAAAATTTAATTTAATTAATTAATTAACT
4286068 AATTTAATTAT
1 AATTTAATTAT
4286079 TACTTTAAAT
Statistics
Matches: 134, Mismatches: 26, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
49 3 0.02
51 28 0.21
53 16 0.12
54 23 0.17
55 49 0.37
56 12 0.09
58 3 0.02
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (53 bp):
AATTTAATTATAAAATAATAAAAAGAAAATTTAATTTAATTAATTAATTAACT
Found at i:4286025 original size:162 final size:161
Alignment explanation
Indices: 4285778--4286155 Score: 486
Period size: 162 Copynumber: 2.3 Consensus size: 161
4285768 AATTAACTAA
* *
4285778 TTAATTTGTTAATTAAAATAACTAATTAACTAATTTAATTATAAACTAATTTAAATTAATAAATT
1 TTAATTAGTTAATTAAAATAACTAATTAACTAATTTAATTATAAAATAATTTAAATTAATAAATT
* * ** *
4285843 TCATTGATGAATTTAATTATAAAATAATAGAAAATGAAAATTTAATTTAATTAATTATTTAACTA
66 TAATTAATGAATAGAATTATAAAATAATA-AAAATGAAAATGTAATTTAATTAATTATTTAACTA
4285908 ATTTAATTGTAAATTAATAAAAAAAATTTCAT
130 ATTTAATTGTAAATTAATAAAAAAAATTTCAT
* *
4285940 TTAATTAGTTAATTAAAATAGCTAATTAACTAATTTAATTATAAAATAATTTAAATTAATTAATT
1 TTAATTAGTTAATTAAAATAACTAATTAACTAATTTAATTATAAAATAATTTAAATTAATAAATT
** *
4286005 TAATTAATGAATAGAATTATAAAATAATAAAAATGCCAATGTAATTTTATTAATTATTTAACTAA
66 TAATTAATGAATAGAATTATAAAATAATAAAAATGAAAATGTAATTTAATTAATTATTTAACTAA
* ** * *** * *
4286070 TTTAATTATTACTTTAAATTAACTTAATTAGCTAA
131 TTTAATT-GTAAATT-AATAAAAAAAATT-TC-AT
* * *
4286105 TTAATTAGTTATTTAAAAATAACTAATTAACTAATTCAATTATAAACTAAT
1 TTAATTAGTTAATT-AAAATAACTAATTAACTAATTTAATTATAAAATAAT
4286156 AAAAAATGTG
Statistics
Matches: 186, Mismatches: 25, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
161 39 0.21
162 90 0.48
163 9 0.05
164 1 0.01
165 14 0.08
166 33 0.18
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (161 bp):
TTAATTAGTTAATTAAAATAACTAATTAACTAATTTAATTATAAAATAATTTAAATTAATAAATT
TAATTAATGAATAGAATTATAAAATAATAAAAATGAAAATGTAATTTAATTAATTATTTAACTAA
TTTAATTGTAAATTAATAAAAAAAATTTCAT
Found at i:4286072 original size:21 final size:21
Alignment explanation
Indices: 4286046--4286086 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4286036 AATGCCAATG
*
4286046 TAATTTTATTAATTA-TTTAAC
1 TAATTTAATT-ATTACTTTAAC
4286067 TAATTTAATTATTACTTTAA
1 TAATTTAATTATTACTTTAA
4286087 ATTAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATTTAATTATTACTTTAAC
Found at i:4286109 original size:34 final size:34
Alignment explanation
Indices: 4286053--4286147 Score: 106
Period size: 34 Copynumber: 2.8 Consensus size: 34
4286043 ATGTAATTTT
*
4286053 ATTAA-TTATTTAACTAATTTAATTATTACTTT-AA
1 ATTAACTTAATTAACTAA-TTAATTATTA-TTTAAA
*
4286087 ATTAACTTAATTAGCTAATTAATTAGTTATTTAAA
1 ATTAACTTAATTAACTAATTAATTA-TTATTTAAA
*
4286122 AATAAC-TAATTAACTAATTCAATTAT
1 ATTAACTTAATTAACTAATT-AATTAT
4286148 AAACTAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
34 28 0.53
35 25 0.47
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (34 bp):
ATTAACTTAATTAACTAATTAATTATTATTTAAA
Found at i:4296382 original size:37 final size:37
Alignment explanation
Indices: 4296276--4296385 Score: 114
Period size: 37 Copynumber: 3.0 Consensus size: 37
4296266 CCTCAACTCT
* ** *
4296276 TGTGCACTCCCTACACGCACAAGGCAATA-CAACATA
1 TGTGCACTCCCTACTCGCACAACTCAATATCATCATA
* ** * *
4296312 TGTGCACTCCCTACTTGCACATTTCAATGTCATCATG
1 TGTGCACTCCCTACTCGCACAACTCAATATCATCATA
* *
4296349 TGTGCACTCCCTACTCGCACACCTCATTATCATCATA
1 TGTGCACTCCCTACTCGCACAACTCAATATCATCATA
4296386 CAACATTATT
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
36 23 0.39
37 36 0.61
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACAACTCAATATCATCATA
Found at i:4309575 original size:21 final size:21
Alignment explanation
Indices: 4309551--4309590 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4309541 TAGACCAAAT
*
4309551 GTATCCATACATTTTGGAAAC
1 GTATCCATACAGTTTGGAAAC
*
4309572 GTATCCATGCAGTTTGGAA
1 GTATCCATACAGTTTGGAA
4309591 TGGAATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (21 bp):
GTATCCATACAGTTTGGAAAC
Found at i:4309829 original size:22 final size:22
Alignment explanation
Indices: 4309796--4309841 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4309786 TTCCAACAAG
4309796 TTCAAGAATCATTAAAGGAATT
1 TTCAAGAATCATTAAAGGAATT
* *
4309818 TTCAA-AACTCATTCAAGTAATT
1 TTCAAGAA-TCATTAAAGGAATT
4309840 TT
1 TT
4309842 GAAACTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (22 bp):
TTCAAGAATCATTAAAGGAATT
Found at i:4309905 original size:21 final size:21
Alignment explanation
Indices: 4309875--4309958 Score: 96
Period size: 21 Copynumber: 3.9 Consensus size: 21
4309865 TAGGCTCTTC
* *
4309875 AAAACTTATTTAAAAAAGTTTA
1 AAAAC-TATTCAAACAAGTTTA
* *
4309897 AAAACTATTCAAGCAAGTTCA
1 AAAACTATTCAAACAAGTTTA
*
4309918 AAAACTAATTCAAACAACTTTA
1 AAAACT-ATTCAAACAAGTTTA
*
4309940 AAAATTATTCAAACAAGTT
1 AAAACTATTCAAACAAGTT
4309959 CGAAGATCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 30 0.58
22 22 0.42
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAACTATTCAAACAAGTTTA
Found at i:4309940 original size:43 final size:43
Alignment explanation
Indices: 4309875--4309959 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
4309865 TAGGCTCTTC
* * * *
4309875 AAAACTTATTTAAAAAAGTTTAAAAACTATTCAAGCAAGTTCA
1 AAAACTAATTCAAAAAACTTTAAAAACTATTCAAACAAGTTCA
* *
4309918 AAAACTAATTCAAACAACTTTAAAAATTATTCAAACAAGTTC
1 AAAACTAATTCAAAAAACTTTAAAAACTATTCAAACAAGTTC
4309960 GAAGATCATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (43 bp):
AAAACTAATTCAAAAAACTTTAAAAACTATTCAAACAAGTTCA
Found at i:4310082 original size:21 final size:22
Alignment explanation
Indices: 4310046--4310093 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
4310036 ATAAATTAAG
*
4310046 TTCAAAAATATTTTCAAACAAC
1 TTCAAAAATATATTCAAACAAC
*
4310068 TTCAAAAAT-TATTCAAACAAG
1 TTCAAAAATATATTCAAACAAC
4310089 TTCAA
1 TTCAA
4310094 GGATCACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (22 bp):
TTCAAAAATATATTCAAACAAC
Found at i:4310104 original size:21 final size:21
Alignment explanation
Indices: 4310059--4310120 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
4310049 AAAAATATTT
* * * *
4310059 TCAAACAACTTCAAAAATTAT
1 TCAAACAAGTTCAAAGATCAC
*
4310080 TCAAACAAGTTCAAGGATCAC
1 TCAAACAAGTTCAAAGATCAC
*
4310101 TCAAAGAAGTTCAAAGATCA
1 TCAAACAAGTTCAAAGATCA
4310121 TTGAAGCAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (21 bp):
TCAAACAAGTTCAAAGATCAC
Found at i:4310360 original size:98 final size:96
Alignment explanation
Indices: 4310230--4310418 Score: 252
Period size: 98 Copynumber: 1.9 Consensus size: 96
4310220 GCAAAATTTG
* ** * *
4310230 CTTGTAAAGAAATACTCCCCCTAAGTTTAATCATGACTTACTTTGATTTGAAATTTTAACCTTTT
1 CTTGTAAAAAAATACTCCCCCTAAGTTTAATCATGAAATACTTTAATTTGAAATGTTAACCTTTT
**
4310295 ATAAAACTTTGAGAAGAGTTAAAATATTTTA
66 ATAAAACTTCAAGAAGAGTTAAAATATTTTA
** *
4310326 CTTGTAAGAAAAATACTCCCTGTTAAGTTTAATCATGAAATACTTTAATTTGAAATGTTAAGCTT
1 CTTGTAA-AAAAATACTCCC-CCTAAGTTTAATCATGAAATACTTTAATTTGAAATGTTAACCTT
* *
4310391 TTATAAATCTTCAAGAAGGGTTAAAATA
64 TTATAAAACTTCAAGAAGAGTTAAAATA
4310419 CTTTGAAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 7 0.09
97 11 0.14
98 61 0.77
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (96 bp):
CTTGTAAAAAAATACTCCCCCTAAGTTTAATCATGAAATACTTTAATTTGAAATGTTAACCTTTT
ATAAAACTTCAAGAAGAGTTAAAATATTTTA
Found at i:4312660 original size:22 final size:23
Alignment explanation
Indices: 4312630--4312676 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
4312620 ATATAGAGTT
4312630 ATTTGAGCTTAATT-TTGATAGTA
1 ATTTGAGCTTAATTCTTG-TAGTA
*
4312653 ATTT-AGCTTAGTTCTTGTAGTA
1 ATTTGAGCTTAATTCTTGTAGTA
4312675 AT
1 AT
4312677 GCATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (23 bp):
ATTTGAGCTTAATTCTTGTAGTA
Found at i:4318615 original size:20 final size:20
Alignment explanation
Indices: 4318590--4318628 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4318580 GTTCTGGACC
*
4318590 AAATGTATCAATACATTTTG
1 AAATGTATCAATAAATTTTG
*
4318610 AAATGTATCCATAAATTTT
1 AAATGTATCAATAAATTTT
4318629 AGGCATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (20 bp):
AAATGTATCAATAAATTTTG
Found at i:4318813 original size:21 final size:21
Alignment explanation
Indices: 4318770--4318850 Score: 58
Period size: 21 Copynumber: 3.8 Consensus size: 21
4318760 TGCAAGGGAG
*
4318770 GTTTAAAACTAATTTAAACAA
1 GTTTAAAACTAATTCAAACAA
*
4318791 GTTTAAAAGCT-ATTCAAATAA
1 GTTTAAAA-CTAATTCAAACAA
* * *
4318812 GTTCAAAAATCATT-AAAGCAA
1 GTTTAAAACTAATTCAAA-CAA
* *
4318833 TTTTCAAAACTCATTCAA
1 GTTT-AAAACTAATTCAA
4318851 GTAATTTTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
20 4 0.09
21 30 0.64
22 11 0.23
23 2 0.04
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (21 bp):
GTTTAAAACTAATTCAAACAA
Found at i:4318838 original size:22 final size:22
Alignment explanation
Indices: 4318813--4318858 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4318803 TTCAAATAAG
4318813 TTCAAAAATCATTAAAGCAATT
1 TTCAAAAATCATTAAAGCAATT
* * *
4318835 TTCAAAACTCATTCAAGTAATT
1 TTCAAAAATCATTAAAGCAATT
4318857 TT
1 TT
4318859 GAAACTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (22 bp):
TTCAAAAATCATTAAAGCAATT
Found at i:4318922 original size:21 final size:21
Alignment explanation
Indices: 4318892--4318975 Score: 96
Period size: 21 Copynumber: 3.9 Consensus size: 21
4318882 GATACACTTC
* *
4318892 AAAACTTATTTAAAAAAGTTTA
1 AAAAC-TATTCAAACAAGTTTA
*
4318914 AAAACTATTCAAACAAGTTCA
1 AAAACTATTCAAACAAGTTTA
* *
4318935 AAAACTCATTTAAACAACTTTA
1 AAAACT-ATTCAAACAAGTTTA
*
4318957 AAAATTATTCAAACAAGTT
1 AAAACTATTCAAACAAGTT
4318976 CAAAGATCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 30 0.58
22 22 0.42
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAACTATTCAAACAAGTTTA
Found at i:4318957 original size:43 final size:43
Alignment explanation
Indices: 4318892--4318989 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
4318882 GATACACTTC
* *
4318892 AAAACTTATTTAAAAAAGTTTAAAAACTATTCAAACAAGTTCA
1 AAAACTCATTTAAAAAACTTTAAAAACTATTCAAACAAGTTCA
* *
4318935 AAAACTCATTTAAACAACTTTAAAAATTATTCAAACAAGTTCA
1 AAAACTCATTTAAAAAACTTTAAAAACTATTCAAACAAGTTCA
*
4318978 AAGA-TCATTTAA
1 AAAACTCATTTAA
4318990 GCAATTTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 8 0.16
43 42 0.84
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (43 bp):
AAAACTCATTTAAAAAACTTTAAAAACTATTCAAACAAGTTCA
Found at i:4319030 original size:140 final size:139
Alignment explanation
Indices: 4318770--4319035 Score: 324
Period size: 140 Copynumber: 1.9 Consensus size: 139
4318760 TGCAAGGGAG
* * * * * *
4318770 GTTTAAAACTAATTTAAACAAGTTTAAAAGCTATTCAAATAAGTTCAAAAATCATTAAAGCAATT
1 GTTTAAAACTAATTCAAACAAGTTCAAAAACTATTCAAACAACTTCAAAAATCATTAAAGCAATG
*
4318835 TTCAAAACTCATTCAAGTAATTTTGAAACTTTTCACATGGAAACACTGATACACTTCAAAACTTA
66 TTCAAAACTCATTCAAGCAATTTTGAAACTTTTCACATGGAAACACTGATACACTTCAAAACTTA
4318900 TTTAAAAAA
131 TTTAAAAAA
* * *
4318909 GTTTAAAAACT-ATTCAAACAAGTTCAAAAACTCATTTAAACAACTTTAAAAATTATTCAAA-CA
1 GTTT-AAAACTAATTCAAACAAGTTCAAAAACT-ATTCAAACAACTTCAAAAATCATT-AAAGCA
* * * * *
4318972 A-GTTCAAAGA-TCATTTAAGCAATTTTGATCATTTTTCACATGGAAACACTTATGCACTTCAAA
63 ATGTTCAAA-ACTCATTCAAGCAATTTTGA-AACTTTTCACATGGAAACACTGATACACTTCAAA
4319035 A
126 A
4319036 GCAAATGTAT
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
139 44 0.41
140 60 0.56
141 3 0.03
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (139 bp):
GTTTAAAACTAATTCAAACAAGTTCAAAAACTATTCAAACAACTTCAAAAATCATTAAAGCAATG
TTCAAAACTCATTCAAGCAATTTTGAAACTTTTCACATGGAAACACTGATACACTTCAAAACTTA
TTTAAAAAA
Found at i:4322515 original size:3 final size:3
Alignment explanation
Indices: 4322507--4322547 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
4322497 ACATTTCCAT
*
4322507 ATC ATC ATC AAC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
4322548 GTGCACTCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:4322600 original size:43 final size:46
Alignment explanation
Indices: 4322532--4322616 Score: 131
Period size: 43 Copynumber: 1.9 Consensus size: 46
4322522 ATCATCATCA
* *
4322532 TCATCATCATCATCATGTGCACTCCCTAC-TC-GCACATAGCGGGG
1 TCATCATCAGCATCATATGCACTCCCTACATCTGCACATAGCGGGG
4322576 TCATCATCAGC-TCATATGCACTCCCTACATCTGCACATAGC
1 TCATCATCAGCATCATATGCACTCCCTACATCTGCACATAGC
4322617 TAGAAACCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 16 0.43
44 12 0.32
45 9 0.24
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (46 bp):
TCATCATCAGCATCATATGCACTCCCTACATCTGCACATAGCGGGG
Found at i:4326623 original size:2 final size:2
Alignment explanation
Indices: 4326618--4326656 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4326608 ACATATTTAC
4326618 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4326657 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4327470 original size:19 final size:20
Alignment explanation
Indices: 4327436--4327473 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4327426 GAAGAAGACC
*
4327436 AGCTGCTGGAAAATTCAAGA
1 AGCTACTGGAAAATTCAAGA
4327456 AGCTACTGG-AAATTCAAG
1 AGCTACTGGAAAATTCAAG
4327474 GTATTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (20 bp):
AGCTACTGGAAAATTCAAGA
Found at i:4329709 original size:55 final size:54
Alignment explanation
Indices: 4329603--4329900 Score: 289
Period size: 55 Copynumber: 5.4 Consensus size: 54
4329593 ACTTTTTTAT
* * * * * *
4329603 CATGGCGTGTAACAACTAAATTTTTCAGCATGGAGTATAACAACTAAATTTTTTAA
1 CATGGAGTGTAACAACTACATTTTT-AACATGGCGTGTAACAACTAAA-TTTTCAA
* * * *
4329659 CATGGAGTGTAATAACTACATTTTTAACATAGTGTGTAACAACTACATTTTTCAA
1 CATGGAGTGTAACAACTACATTTTTAACATGGCGTGTAACAACTA-AATTTTCAA
* ** *
4329714 CAT-GATGTGTAACAACTAAATTTCCAACATGGCATGTAACAACTAAATCTTT-AA
1 CATGGA-GTGTAACAACTACATTTTTAACATGGCGTGTAACAACTAAAT-TTTCAA
* * * * *
4329768 CATCGCA-TGTAACAACTACATTTTCAACATGGTGTGTAGCAACTAAATCTTCAA
1 CAT-GGAGTGTAACAACTACATTTTTAACATGGCGTGTAACAACTAAATTTTCAA
* *
4329822 CATGGCA-TGTAATAACTACATTTTTCAACATGGCCTGTAACAACTAAATTTTCAA
1 CATGG-AGTGTAACAACTACATTTTT-AACATGGCGTGTAACAACTAAATTTTCAA
* *
4329877 TATGGCGTGTAACAACTACATTTT
1 CATGGAGTGTAACAACTACATTTT
4329901 CAATGCTATT
Statistics
Matches: 199, Mismatches: 34, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
53 3 0.02
54 67 0.34
55 105 0.53
56 24 0.12
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (54 bp):
CATGGAGTGTAACAACTACATTTTTAACATGGCGTGTAACAACTAAATTTTCAA
Found at i:4329789 original size:109 final size:106
Alignment explanation
Indices: 4329603--4329903 Score: 325
Period size: 109 Copynumber: 2.7 Consensus size: 106
4329593 ACTTTTTTAT
* * * *
4329603 CATGGCGTGTAACAACTAAATTTTTCAGCATGG-AGTATAACAACTAAATTTTTTAACATGGAGT
1 CATGACGTGTAACAACTAAA-TTTTCAACATGGCA-TGTAACAACTAAA--TTTTAACATGCA-T
* * * *
4329667 GTAATAACTACATTTTTAACATAGTGTGTAACAACTACATTTTTCAA
61 GTAACAACTACATTTTCAACATAGTGTGTAACAACTA-AATCTTCAA
* *
4329714 CATGATGTGTAACAACTAAATTTCCAACATGGCATGTAACAACTAAATCTTTAACATCGCATGTA
1 CATGACGTGTAACAACTAAATTTTCAACATGGCATGTAACAACTAAAT-TTTAACAT-GCATGTA
* *
4329779 ACAACTACATTTTCAACATGGTGTGTAGCAACTAAATCTTCAA
64 ACAACTACATTTTCAACATAGTGTGTAACAACTAAATCTTCAA
* * * * * * *
4329822 CATGGCATGTAATAACTACATTTTTCAACATGGCCTGTAACAACTAAATTTTCAATATGGCGTGT
1 CATGACGTGTAACAACTA-AATTTTCAACATGGCATGTAACAACTAAATTTT-AACAT-GCATGT
4329887 AACAACTACATTTTCAA
63 AACAACTACATTTTCAA
4329904 TGCTATTTTT
Statistics
Matches: 163, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
108 25 0.15
109 95 0.58
110 24 0.15
111 19 0.12
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (106 bp):
CATGACGTGTAACAACTAAATTTTCAACATGGCATGTAACAACTAAATTTTAACATGCATGTAAC
AACTACATTTTCAACATAGTGTGTAACAACTAAATCTTCAA
Found at i:4329904 original size:27 final size:27
Alignment explanation
Indices: 4329603--4329903 Score: 307
Period size: 27 Copynumber: 11.0 Consensus size: 27
4329593 ACTTTTTTAT
*
4329603 CATGGCGTGTAACAACTAAATTTTTCAG
1 CATGGCGTGTAACAACTAAA-TTTTCAA
* * *
4329631 CATGGAGTATAACAACTAAATTTTTTAA
1 CATGGCGTGTAACAACTAAA-TTTTCAA
* * * *
4329659 CATGGAGTGTAATAACTACATTTTTAA
1 CATGGCGTGTAACAACTAAATTTTCAA
* * *
4329686 CATAGTGTGTAACAACTACATTTTTCAA
1 CATGGCGTGTAACAACTA-AATTTTCAA
** *
4329714 CATGATGTGTAACAACTAAATTTCCAA
1 CATGGCGTGTAACAACTAAATTTTCAA
*
4329741 CATGGCATGTAACAACTAAATCTTT-AA
1 CATGGCGTGTAACAACTAAAT-TTTCAA
* * *
4329768 CATCGCATGTAACAACTACATTTTCAA
1 CATGGCGTGTAACAACTAAATTTTCAA
* * *
4329795 CATGGTGTGTAGCAACTAAATCTTCAA
1 CATGGCGTGTAACAACTAAATTTTCAA
* * *
4329822 CATGGCATGTAATAACTACATTTTTCAA
1 CATGGCGTGTAACAACTA-AATTTTCAA
*
4329850 CATGGCCTGTAACAACTAAATTTTCAA
1 CATGGCGTGTAACAACTAAATTTTCAA
* *
4329877 TATGGCGTGTAACAACTACATTTTCAA
1 CATGGCGTGTAACAACTAAATTTTCAA
4329904 TGCTATTTTT
Statistics
Matches: 228, Mismatches: 41, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.01
27 137 0.60
28 88 0.39
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (27 bp):
CATGGCGTGTAACAACTAAATTTTCAA
Found at i:4331276 original size:29 final size:30
Alignment explanation
Indices: 4331232--4331289 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
4331222 GGATTGATCT
4331232 TGTGAAGCAAAAGTTTAGGGGTAAATAATC
1 TGTGAAGCAAAAGTTTAGGGGTAAATAATC
*
4331262 TGTGAAG-TAAAGTTTAGGGGTAAATAAT
1 TGTGAAGCAAAAGTTTAGGGGTAAATAAT
4331290 AGCATTGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.29
Consensus pattern (30 bp):
TGTGAAGCAAAAGTTTAGGGGTAAATAATC
Found at i:4332853 original size:49 final size:50
Alignment explanation
Indices: 4332786--4332986 Score: 218
Period size: 49 Copynumber: 4.1 Consensus size: 50
4332776 TTAAGGAATT
*
4332786 TGTTCCATCTGTAGATGATTCCAG-ACAATGATATGATGTGGATTATGTA
1 TGTTCCATCCGTAGATGATTCCAGAACAATGATATGATGTGGATTATGTA
* * * *
4332835 TGTTTCGTCCGTAGATGATGCCAG-ACAATGATATGATAT-GATATATGTA
1 TGTTCCATCCGTAGATGATTCCAGAACAATGATATGATGTGGAT-TATGTA
* *
4332884 TGTTCCATCCATAGATGATTCC-GAACAATGACATGATGTCAGG--TATGTA
1 TGTTCCATCCGTAGATGATTCCAGAACAATGATATGATGT--GGATTATGTA
* * * * *
4332933 TGTTCCATCCGTGGATGATT-CTGAACAATGTTATGATGTTGATTATGCA
1 TGTTCCATCCGTAGATGATTCCAGAACAATGATATGATGTGGATTATGTA
4332982 TGTTC
1 TGTTC
4332987 TATTTGTCGA
Statistics
Matches: 127, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
47 1 0.01
48 5 0.04
49 120 0.94
52 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (50 bp):
TGTTCCATCCGTAGATGATTCCAGAACAATGATATGATGTGGATTATGTA
Found at i:4339341 original size:2 final size:2
Alignment explanation
Indices: 4339336--4339385 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
4339326 TCTATACATG
4339336 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
4339378 TA TA TA TA
1 TA TA TA TA
4339386 NCGATGATGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4339587 original size:42 final size:43
Alignment explanation
Indices: 4339504--4339587 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
4339494 TCTCCCATCG
* *
4339504 TCATCAGCTCATGTGCACTCTCCACTAGCACATGGCTGGGTCA
1 TCATCAGCTCATGTGCACTCTCCACTAGCACATAGCCGGGTCA
* * *
4339547 TCATCGGCTTATGTGCACTC-CCACTCGCACATAGCCGGGTC
1 TCATCAGCTCATGTGCACTCTCCACTAGCACATAGCCGGGTC
4339588 CACATCAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 18 0.50
43 18 0.50
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (43 bp):
TCATCAGCTCATGTGCACTCTCCACTAGCACATAGCCGGGTCA
Found at i:4345233 original size:2 final size:2
Alignment explanation
Indices: 4345228--4345259 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4345218 ATTTTTTTAA
4345228 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
4345260 NNNNNNNNNN
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:4352382 original size:68 final size:68
Alignment explanation
Indices: 4352269--4352407 Score: 224
Period size: 68 Copynumber: 2.0 Consensus size: 68
4352259 TGTAATTAAC
*
4352269 CCTTTAACCTTACATCACGGTCATGATGACAAAGCCACCTACTATTCCCACTATCAGAAGACTTT
1 CCTTTAACCTTACATCACGGTCATGATGACAAAGCCACCTACTATTCCCACTATCAGAAGACTTC
4352334 TTG
66 TTG
* * * * *
4352337 CCTTTAACTTTATATCATGGTCATGATGACGAAGCCACCTTCTATTCCCACTATCAGAAGACTTC
1 CCTTTAACCTTACATCACGGTCATGATGACAAAGCCACCTACTATTCCCACTATCAGAAGACTTC
4352402 TTG
66 TTG
4352405 CCT
1 CCT
4352408 CAAAGCTTGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (68 bp):
CCTTTAACCTTACATCACGGTCATGATGACAAAGCCACCTACTATTCCCACTATCAGAAGACTTC
TTG
Found at i:4355911 original size:174 final size:173
Alignment explanation
Indices: 4355621--4356076 Score: 716
Period size: 174 Copynumber: 2.6 Consensus size: 173
4355611 TTGTGAGCGG
* * * * * *
4355621 ACAAAATGGCCACAGGATGAGAGCAGATGTGCAAGTACCAAAGGTTTCTCCTTATTTTCAGACAA
1 ACAAAATGGCAAGAGGAGGAGAGCAGATGCGCAAGTTCTAAAGGTTTCTCCTTATTTTCAGACAA
* *
4355686 GTGGAGAAAAACAAGAAATGTTAAGTGGAAACTGCCAACCAAAAGTCAATTTGCTTTCACAAGTT
66 GTGGAGAAAAACAAGAAATGTTAAGTGGAAACTGCAAACC-AAAGTCAATTTGATTTCACAAGTT
*
4355751 GTTCATAGTAATAAAAAGGTTTTGAAGAAAGGAGATGTTAACAA
130 GTTCATAGTAATAAAAAGGTTCTGAAGAAAGGAGATGTTAACAA
4355795 ACAAAATGGCAAGAGGAGGAGAGCAGATGCGCAAGTTCTAAAGGTTTCTCCTTATTTTCAGACAA
1 ACAAAATGGCAAGAGGAGGAGAGCAGATGCGCAAGTTCTAAAGGTTTCTCCTTATTTTCAGACAA
4355860 GTGGAGAAAAACAAGAAATGTTAAGTGGAAACTGCAAACCAAAGCTCAATTTGATTTCACAAGTT
66 GTGGAGAAAAACAAGAAATGTTAAGTGGAAACTGCAAACCAAAG-TCAATTTGATTTCACAAGTT
4355925 GTTCATAGTAATAAAAAGGTTCTGAAGAAAGGAGATGTTAACAA
130 GTTCATAGTAATAAAAAGGTTCTGAAGAAAGGAGATGTTAACAA
* * * *
4355969 ACAAAATAGCAAGAGGAGGAGAGCAGATGCGCAAGTTCTAAAGGTCTCTCCTTATTTGCAGAGAA
1 ACAAAATGGCAAGAGGAGGAGAGCAGATGCGCAAGTTCTAAAGGTTTCTCCTTATTTTCAGACAA
* * ** *
4356034 GTGGAGAAAAAGAAGACATGGAAAGTGG-TACTAGCAAACCAAA
66 GTGGAGAAAAACAAGAAATGTTAAGTGGAAACT-GCAAACCAAA
4356077 ACACAAAGTG
Statistics
Matches: 262, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
173 7 0.03
174 255 0.97
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (173 bp):
ACAAAATGGCAAGAGGAGGAGAGCAGATGCGCAAGTTCTAAAGGTTTCTCCTTATTTTCAGACAA
GTGGAGAAAAACAAGAAATGTTAAGTGGAAACTGCAAACCAAAGTCAATTTGATTTCACAAGTTG
TTCATAGTAATAAAAAGGTTCTGAAGAAAGGAGATGTTAACAA
Found at i:4358584 original size:20 final size:20
Alignment explanation
Indices: 4358556--4358593 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
4358546 TTTTTTATTT
*
4358556 AAATAATTTTTAATTTTTTTA
1 AAATAATTTAT-ATTTTTTTA
4358577 AAAT-ATTTATATTTTTT
1 AAATAATTTATATTTTTT
4358594 CCCATTCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 5 0.31
21 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AAATAATTTATATTTTTTTA
Found at i:4366835 original size:19 final size:19
Alignment explanation
Indices: 4366811--4366863 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
4366801 GCATAACTCT
4366811 ATTTTTTCATCACCACCCA
1 ATTTTTTCATCACCACCCA
4366830 ATTTTTTCATCACCACCCA
1 ATTTTTTCATCACCACCCA
*
4366849 ATTTTTTCATTACCA
1 ATTTTTTCATCACCA
4366864 TCATGGCATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTTTTCATCACCACCCA
Found at i:4377435 original size:85 final size:85
Alignment explanation
Indices: 4377331--4378014 Score: 950
Period size: 85 Copynumber: 8.1 Consensus size: 85
4377321 GTTTGTTAGC
* *
4377331 ATTAAACATTAAAAATTATATTTGAAAATTAATGTTTAGAATTATTGTTTAGATTTTTAATTAAA
1 ATTAAACATTAAAAATTATATTTGAGAATTAATGTTTAGAATTATTGTTTAGATTTTCAATTAAA
4377396 ATGATTGGCAATATGCTAGA
66 ATGATTGGCAATATGCTAGA
* * * * * *
4377416 ATTAAACGTTAAGAATTATATTTGAGAATTAATATTTAGAATTATTGTTTGGATTTTTAGTTAAA
1 ATTAAACATTAAAAATTATATTTGAGAATTAATGTTTAGAATTATTGTTTAGATTTTCAATTAAA
* *
4377481 ATGATT-GCTAATATACTATA
66 ATGATTGGC-AATATGCTAGA
* * * *
4377501 ATTAAATATTAAAAATTATGTTTGAGAATTAATGTTTAGAATTATTATTTGGATTTTCAATTAAA
1 ATTAAACATTAAAAATTATATTTGAGAATTAATGTTTAGAATTATTGTTTAGATTTTCAATTAAA
*
4377566 ATGATTGGTAATATGCTAGA
66 ATGATTGGCAATATGCTAGA
* *
4377586 ATTAAACATCAAAAATTATATTTAAGAATTAATGTTTAGAATTATTGTTTAGATTTTCAATTAAA
1 ATTAAACATTAAAAATTATATTTGAGAATTAATGTTTAGAATTATTGTTTAGATTTTCAATTAAA
* *
4377651 ATGGTTGGCAATATGCTAAA
66 ATGATTGGCAATATGCTAGA
* * * * *
4377671 ATAAAACATTAAGAAA-AATGTTTGTGAACTAATGTTTAGAATTATTGTTTAGATTATT-AATTA
1 ATTAAACATTAA-AAATTATATTTGAGAATTAATGTTTAGAATTATTGTTTAGATT-TTCAATTA
4377734 AAATGATTGGCAATATGCTAGA
64 AAATGATTGGCAATATGCTAGA
* * * *
4377756 ATTAAACATTAAAAATTACATTTGAGAATTAACGTTTAGAATTATTATTT-GAATTTTTAATTAA
1 ATTAAACATTAAAAATTATATTTGAGAATTAATGTTTAGAATTATTGTTTAG-ATTTTCAATTAA
4377820 AATGATTGGCAATATGCTAGA
65 AATGATTGGCAATATGCTAGA
*
4377841 ATTAAACATTAAAAATTATGTTTG-GAAATTAATGTTTAGAATTATTGTTT-GAATTTTCAATTA
1 ATTAAACATTAAAAATTATATTTGAG-AATTAATGTTTAGAATTATTGTTTAG-ATTTTCAATTA
*
4377904 AAATAATTGGCAATATGCTAGA
64 AAATGATTGGCAATATGCTAGA
* * * * *
4377926 ATTAAACA-TAAAACTTATGTTTGGGAATTAATGTTTAGAATTATTATTTGGATTTTCAATTAAA
1 ATTAAACATTAAAAATTATATTTGAGAATTAATGTTTAGAATTATTGTTTAGATTTTCAATTAAA
4377990 ATGATTGGCAATATGCTAGA
66 ATGATTGGCAATATGCTAGA
4378010 ATTAA
1 ATTAA
4378015 TGATTGAAAT
Statistics
Matches: 535, Mismatches: 54, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
84 83 0.16
85 446 0.83
86 6 0.01
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (85 bp):
ATTAAACATTAAAAATTATATTTGAGAATTAATGTTTAGAATTATTGTTTAGATTTTCAATTAAA
ATGATTGGCAATATGCTAGA
Found at i:4377450 original size:14 final size:13
Alignment explanation
Indices: 4377427--4377459 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4377417 TTAAACGTTA
4377427 AGAATT-ATATTT
1 AGAATTAATATTT
4377439 GAGAATTAATATTT
1 -AGAATTAATATTT
4377453 AGAATTA
1 AGAATTA
4377460 TTGTTTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (13 bp):
AGAATTAATATTT
Found at i:4380739 original size:25 final size:25
Alignment explanation
Indices: 4380688--4380741 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
4380678 CTTTTGAAGC
* *
4380688 TAATGTTTATTTATTATATAAAAAT
1 TAATGTTTAATTATTACATAAAAAT
* * *
4380713 TAATGTTTAATTATTGCATGAAGAT
1 TAATGTTTAATTATTACATAAAAAT
4380738 TAAT
1 TAAT
4380742 ATTGTTAACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (25 bp):
TAATGTTTAATTATTACATAAAAAT
Found at i:4382655 original size:38 final size:37
Alignment explanation
Indices: 4382603--4382679 Score: 118
Period size: 38 Copynumber: 2.1 Consensus size: 37
4382593 GTTTAGGTTA
*
4382603 AGTTTATTAGTATAAATAGGAAATTTTTAAGAACATT
1 AGTTTATTAGTATAAATAGGAAATGTTTAAGAACATT
* *
4382640 ANGTTTATTAGTATAAATAGGATATGTTTAATAACATT
1 A-GTTTATTAGTATAAATAGGAAATGTTTAAGAACATT
4382678 AG
1 AG
4382680 AAAAAAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.40
Consensus pattern (37 bp):
AGTTTATTAGTATAAATAGGAAATGTTTAAGAACATT
Found at i:4386942 original size:25 final size:25
Alignment explanation
Indices: 4386891--4386944 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
4386881 CTTTTGAAGC
* *
4386891 TAATGTTTATTTATTATATAAAAAT
1 TAATGTTTAATTATTACATAAAAAT
* * *
4386916 TAATGTTTAATTATTGCATGAAGAT
1 TAATGTTTAATTATTACATAAAAAT
4386941 TAAT
1 TAAT
4386945 ATTGTTAACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (25 bp):
TAATGTTTAATTATTACATAAAAAT
Found at i:4389547 original size:17 final size:17
Alignment explanation
Indices: 4389514--4389547 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4389504 TCTAAAGTTA
4389514 TTATTATTTTAATTTTT
1 TTATTATTTTAATTTTT
4389531 TTATTGATTTTAATTTT
1 TTATT-ATTTTAATTTT
4389548 AGTTAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTATTATTTTAATTTTT
Found at i:4403287 original size:58 final size:59
Alignment explanation
Indices: 4403090--4403327 Score: 266
Period size: 62 Copynumber: 4.0 Consensus size: 59
4403080 CATCATCACT
* * * *
4403090 TACTCGTTGGAACTTCCCACGTCACCATATATAAATTA-GGGCTTCAGGTCCCCCTTTGTACC
1 TACTCGTGGGAACTACCCACGCCACC--ATATGAA-TAGGGGCTTCAGGTCCCCCTTT-TACC
* * *
4403152 TACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTTAGGTCCCCCTTTTTACC
1 TACTCGTGGGAACTACCCACGCCACC--ATATGAATAGGGGCTTCAGGTCCCCC-TTTTACC
* * * *
4403214 TACTCGTGGAAACTACCCACACCACCATGTGAATAGGGACTTCAGGTCCCCC-TTTACC
1 TACTCGTGGGAACTACCCACGCCACCATATGAATAGGGGCTTCAGGTCCCCCTTTTACC
* * *
4403272 TACTCATGGGAACTACCCATGCCACCATATGAATCGGGGCTTCAGGT-CCCCTTTTA
1 TACTCGTGGGAACTACCCACGCCACCATATGAATAGGGGCTTCAGGTCCCCCTTTTA
4403328 TAATAAAAAA
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
57 4 0.03
58 50 0.32
60 21 0.14
61 1 0.01
62 75 0.49
63 3 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (59 bp):
TACTCGTGGGAACTACCCACGCCACCATATGAATAGGGGCTTCAGGTCCCCCTTTTACC
Found at i:4404786 original size:3 final size:3
Alignment explanation
Indices: 4404775--4404826 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
4404765 TTTTTTTTAC
*
4404775 TAT TA- TAT TAT TA- TATT TATT TAT TAT TAT TAT T-T TAT TAT TTT
1 TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT
4404819 TAT TAT TA
1 TAT TAT TA
4404827 ATTTTTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 6 0.14
3 31 0.72
4 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:4404805 original size:14 final size:14
Alignment explanation
Indices: 4404777--4404826 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
4404767 TTTTTTACTA
4404777 TTATATTATTA-TAT
1 TTAT-TTATTATTAT
4404791 TTATTTATTATTA-
1 TTATTTATTATTAT
4404804 TTATTTTATTATT-T
1 TTA-TTTATTATTAT
4404818 TTA-TTATTA
1 TTATTTATTA
4404827 ATTTTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.18
13 9 0.27
14 18 0.55
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTTATTATTAT
Found at i:4404813 original size:27 final size:26
Alignment explanation
Indices: 4404775--4404826 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
4404765 TTTTTTTTAC
4404775 TATTATATTATTATATTTATTTATTAT
1 TATTATATTATTATATTTA-TTATTAT
* *
4404802 TATTATTTTATTATTTTTATTATTA
1 TATTATATTATTATATTTATTATTA
4404827 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
TATTATATTATTATATTTATTATTAT
Found at i:4404833 original size:14 final size:12
Alignment explanation
Indices: 4404768--4404832 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 12
4404758 TTTTCTTTTT
*
4404768 TTTTTACTATTA
1 TTTTTATTATTA
4404780 TATTATTA-TATT-
1 T-TT-TTATTATTA
*
4404792 TATTTATTATTA
1 TTTTTATTATTA
*
4404804 TTATT-TTATTA
1 TTTTTATTATTA
4404815 TTTTTATTATTAA
1 TTTTTATTATT-A
4404828 TTTTT
1 TTTTT
4404833 TTAAACTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 3 0.07
11 15 0.35
12 10 0.23
13 12 0.28
14 3 0.07
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTATTATTA
Found at i:4404842 original size:23 final size:23
Alignment explanation
Indices: 4404794--4404842 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
4404784 ATTATATTTA
* *
4404794 TTTATTATTATTATTTTATTATT
1 TTTATTATTATTATTTTATAACT
*
4404817 TTTATTATTAATTTTTTTA-AACT
1 TTTATTATT-ATTATTTTATAACT
4404840 TTT
1 TTT
4404843 CTTCATTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTATTATTATTTTATAACT
Found at i:4410392 original size:62 final size:62
Alignment explanation
Indices: 4410311--4410674 Score: 454
Period size: 62 Copynumber: 6.0 Consensus size: 62
4410301 AAACATCATC
* * * *
4410311 ACCTACTCGTGGGAGCTTCCCACGCCACCATATATAAATCGGGGCTTGAGGTCCCCCTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCCTTTTT
* * * * * * **
4410373 ACTTACTCGTGGGAACTTCCCACACCATCATATATAAATTGGGGCTTCAGGTCCCTTTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCCTTTTT
* *
4410435 ACCTACTCGTGGGAACTACCCACGTCACCATATATAAAT-GAGGCTTCAGGTCCCCTTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCCTTTTT
* * * *
4410496 ACCTACTCGTGGAAACTACCCATGCCACCATGTATAAATCGGGGCTTCAGGTCCCCCTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCCTTTTT
* * * * *
4410558 ACCTACTCGTGGGAACTACCCATGCCACC--ATATGAATCGAGACTTCAAGTCTCCC--TTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCCTTTTT
* *
4410616 ACCTACTCGTGGGAACTACCCAAGCCACC--ATATGAATCGAGGCTTCAGGTCCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCCTTTT
4410675 ATAATAAAAA
Statistics
Matches: 267, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
58 54 0.20
60 22 0.08
61 55 0.21
62 136 0.51
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (62 bp):
ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCCTTTTT
Found at i:4410532 original size:123 final size:122
Alignment explanation
Indices: 4410311--4410674 Score: 454
Period size: 123 Copynumber: 3.0 Consensus size: 122
4410301 AAACATCATC
* * * * *
4410311 ACCTACTCGTGGGAGCTTCCCACGCCACCATATATAAATCGGGGCTTGAGGTCCCCCTTTTTACT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGT-CCCCTTTTTACC
* * * **
4410376 TACTCGTGGGAACTTCCCACA-CCATCATATATAAATTGGGGCTTCAGGTCCCTTTTTTT
65 TACTCGTGGGAACTACCCA-AGCCACCAT-TATAAATCGGGGCTTCAGGTCCCCCTTTTT
*
4410435 ACCTACTCGTGGGAACTACCCACGTCACCATATATAAAT-GAGGCTTCAGGTCCCCTTTTTTACC
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCC-TTTTTACC
* *
4410499 TACTCGTGGAAACTACCCATGCCACCATGTATAAATCGGGGCTTCAGGTCCCCCTTTTT
65 TACTCGTGGGAACTACCCAAGCCACCAT-TATAAATCGGGGCTTCAGGTCCCCCTTTTT
* * * *
4410558 ACCTACTCGTGGGAACTACCCATGCCACC--ATATGAATCGAGACTTCAAGTCTCCC--TTTACC
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTC-CCCTTTTTACC
* *
4410619 TACTCGTGGGAACTACCCAAGCCACCA-TATGAATCGAGGCTTCAGGTCCCCCTTTT
65 TACTCGTGGGAACTACCCAAGCCACCATTATAAATCGGGGCTTCAGGTCCCCCTTTT
4410675 ATAATAAAAA
Statistics
Matches: 213, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
118 27 0.13
120 31 0.15
121 7 0.03
122 15 0.07
123 97 0.46
124 36 0.17
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (122 bp):
ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCTTTTTACCT
ACTCGTGGGAACTACCCAAGCCACCATTATAAATCGGGGCTTCAGGTCCCCCTTTTT
Found at i:4412155 original size:17 final size:17
Alignment explanation
Indices: 4412133--4412169 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4412123 TACTAATATA
4412133 TTATTA-TATTTATTTAT
1 TTATTATTATTTATTT-T
4412150 TTATTATTATTTATTTT
1 TTATTATTATTTATTTT
4412167 TTA
1 TTA
4412170 AACTTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTATTATTTATTTT
Found at i:4414067 original size:86 final size:86
Alignment explanation
Indices: 4413891--4414087 Score: 202
Period size: 86 Copynumber: 2.3 Consensus size: 86
4413881 AATCATGTTT
* * * *
4413891 TTTGATATATTAAATAGAAAATCATATCTTTGAAATTAAAAAGATAGTCTTCCATTTTTTTCTAA
1 TTTGATATATTAAATACAAAATCATATCTTTAAAATTAAAAAGATAGCCTTCAATTTTTTTCTAA
* *
4413956 AAAAAAAAATAAGATGTGTCT
66 AAAAAAAAATAAGATATGTCA
* * * *
4413977 TTTGATATATGAAATATAAAATCATATCTAGTTAAAATT-AAATGATGGCCTTCAATTTTTTT-T
1 TTTGATATATTAAATACAAAATCATATCT--TTAAAATTAAAAAGATAGCCTTCAATTTTTTTCT
** **
4414040 CCAAAAAAATGTAA-ATTATGTCA
64 AAAAAAAAAAATAAGA-TATGTCA
* *
4414063 TTTGATAGATTAAATACAAATTCAT
1 TTTGATATATTAAATACAAAATCAT
4414088 GTTACCTTTT
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
85 1 0.01
86 64 0.70
87 19 0.21
88 7 0.08
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (86 bp):
TTTGATATATTAAATACAAAATCATATCTTTAAAATTAAAAAGATAGCCTTCAATTTTTTTCTAA
AAAAAAAAATAAGATATGTCA
Found at i:4420783 original size:16 final size:17
Alignment explanation
Indices: 4420748--4420785 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
4420738 AGTTACATCT
4420748 CATTTCATCTTCACTTA
1 CATTTCATCTTCACTTA
4420765 CATTTCAT-TTC-CTTTA
1 CATTTCATCTTCAC-TTA
4420781 CATTT
1 CATTT
4420786 TCCAATAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (17 bp):
CATTTCATCTTCACTTA
Found at i:4425582 original size:40 final size:40
Alignment explanation
Indices: 4425508--4425585 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
4425498 TGGCTATTTT
* *
4425508 TCACCTTAGTGGGGTTTTCAACCTTGCCAAGATTGGTGAG
1 TCACCTTAGTGGGATTTTCAACCTTACCAAGATTGGTGAG
*
4425548 TCACCTTAGTGGGATTTTCAA-CTTCACCACGATTGGTG
1 TCACCTTAGTGGGATTTTCAACCTT-ACCAAGATTGGTG
4425586 TCTTTCACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (40 bp):
TCACCTTAGTGGGATTTTCAACCTTACCAAGATTGGTGAG
Found at i:4427940 original size:17 final size:18
Alignment explanation
Indices: 4427915--4427949 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4427905 TAGCATTGTG
4427915 TTTTATTTAA-TTTAGTT
1 TTTTATTTAATTTTAGTT
*
4427932 TTTTTTTTAATTTTAGTT
1 TTTTATTTAATTTTAGTT
4427950 GATTTAGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTATTTAATTTTAGTT
Found at i:4428181 original size:36 final size:35
Alignment explanation
Indices: 4428121--4428196 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 35
4428111 TAGAGTTTTG
*
4428121 TTAGGATGTGGCCTATAATACTATAAATAGGACCT
1 TTAGGATGTGGCATATAATACTATAAATAGGACCT
* *
4428156 TTAGTATGTAGGCATATAATACTATAAATAGGACTT
1 TTAGGATGT-GGCATATAATACTATAAATAGGACCT
4428192 TTAGG
1 TTAGG
4428197 CTTAGTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 8 0.22
36 28 0.78
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (35 bp):
TTAGGATGTGGCATATAATACTATAAATAGGACCT
Found at i:4446670 original size:27 final size:27
Alignment explanation
Indices: 4446632--4446796 Score: 174
Period size: 27 Copynumber: 6.1 Consensus size: 27
4446622 ATTTTTTCAC
*
4446632 TATTCATCCACTCTTAATGGTTAAAAG
1 TATTCATCCACTCCTAATGGTTAAAAG
*
4446659 TATTCATCCACTCCTGATGGTTAAAAG
1 TATTCATCCACTCCTAATGGTTAAAAG
* *
4446686 TATCCATCCATTCCT-A--GTTAAAAG
1 TATTCATCCACTCCTAATGGTTAAAAG
* * *
4446710 TATTCACCCACTCTTAGTGGGTTAAAAG
1 TATTCATCCACTCCTAAT-GGTTAAAAG
* * *
4446738 TATTCATCCACTCCTAGTGATTAAGAG
1 TATTCATCCACTCCTAATGGTTAAAAG
* * *
4446765 TATTCATCTACTTCTAGTGGGTTAAAAG
1 TATTCATCCACTCCTAAT-GGTTAAAAG
4446793 TATT
1 TATT
4446797 ATTATTATTA
Statistics
Matches: 116, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
24 19 0.16
26 1 0.01
27 61 0.53
28 35 0.30
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (27 bp):
TATTCATCCACTCCTAATGGTTAAAAG
Found at i:4447304 original size:59 final size:60
Alignment explanation
Indices: 4447238--4447355 Score: 177
Period size: 59 Copynumber: 2.0 Consensus size: 60
4447228 ATCGTCAATT
* * * *
4447238 CAATTTAATAAATCAAGGGATAAAATATGAT-TCATACTACATGGTAG-AAATTCACATTC
1 CAATTTAATAAATCAAGAGACAAAATATAATAT-ATACTACATGATAGCAAATTCACATTC
4447297 CAATTTAATAAATCAAGAGACAAAATATAATATATACTACATGATAGCAAATTCACATT
1 CAATTTAATAAATCAAGAGACAAAATATAATATATACTACATGATAGCAAATTCACATT
4447356 AACGCTAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 41 0.77
60 12 0.23
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (60 bp):
CAATTTAATAAATCAAGAGACAAAATATAATATATACTACATGATAGCAAATTCACATTC
Found at i:4450803 original size:112 final size:114
Alignment explanation
Indices: 4450593--4450811 Score: 352
Period size: 112 Copynumber: 1.9 Consensus size: 114
4450583 ATTTGACTTA
*
4450593 TTTTCCCCTATCTCAATTTATATACTTAGGAAAATCCTCTACCCCTTTATATTGAAAACATTGTT
1 TTTTCCCCTATCTCAATTTATATACTTAAGAAAATCCTCTACCCCTTTATATTGAAAACATTGTT
* * *
4450658 TAGAGATGGCTAGGTTTTCATCATATCAATGTTCTAGATTTTGTTTTAC
66 TAGAGATGGCTAGATATTCATAATATCAATGTTCTAGATTTTGTTTTAC
* * *
4450707 TTTTCCCCTAT-TCAATTTTTATACTTAAGAAAATCCTCTATCCC-TTATATTGGAAACATTGTT
1 TTTTCCCCTATCTCAATTTATATACTTAAGAAAATCCTCTACCCCTTTATATTGAAAACATTGTT
*
4450770 TAGAGATGGCTAGATATTCATAATGTCAATGTTCTAGATTTT
66 TAGAGATGGCTAGATATTCATAATATCAATGTTCTAGATTTT
4450812 TTGTATGACA
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
112 56 0.58
113 30 0.31
114 11 0.11
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.43
Consensus pattern (114 bp):
TTTTCCCCTATCTCAATTTATATACTTAAGAAAATCCTCTACCCCTTTATATTGAAAACATTGTT
TAGAGATGGCTAGATATTCATAATATCAATGTTCTAGATTTTGTTTTAC
Found at i:4451418 original size:27 final size:27
Alignment explanation
Indices: 4451388--4451444 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
4451378 TCGGAGTAAA
*
4451388 AGGGCAAAAT-AGTAATTTTTTCACCCC
1 AGGGC-AAATCAGTAAATTTTTCACCCC
*
4451415 AGGGGCAAATCGGTAAATTTTTCACCCC
1 A-GGGCAAATCAGTAAATTTTTCACCCC
4451443 AG
1 AG
4451445 CACTTGTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (27 bp):
AGGGCAAATCAGTAAATTTTTCACCCC
Found at i:4452760 original size:43 final size:43
Alignment explanation
Indices: 4452699--4452808 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 43
4452689 GACTCGGCTA
* *
4452699 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGC
*
4452742 TATGTGCGAGTAGGGAGTGCGCATAATCCGGTGATGACCCAGC
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGC
* *
4452785 CATGTGCGAGTAGGGAGTGTGCAT
1 TATGTGCGAGTAGGGAGTGCGCAT
4452809 GAGTTGGTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGC
Found at i:4452818 original size:43 final size:42
Alignment explanation
Indices: 4452700--4452821 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 42
4452690 ACTCGGCTAT
* * **
4452700 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCAT-AGTCG-GTGATGACCCAGCC
*
4452743 ATGTGCGAGTAGGGAGTGCGCATAATCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAGT-CGGTGATGACCCAGCC
* *
4452786 ATGTGCGAGTAGGGAGTGTGCATGAGTTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCAT-AGTCGGTGATGA
4452822 TGATGATGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 2 0.03
43 64 0.94
44 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.39, T:0.21
Consensus pattern (42 bp):
ATGTGCGAGTAGGGAGTGCGCATAGTCGGTGATGACCCAGCC
Found at i:4452832 original size:20 final size:20
Alignment explanation
Indices: 4452807--4452869 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
4452797 GGGAGTGTGC
4452807 ATGAGTTGGTGATGATGATG
1 ATGAGTTGGTGATGATGATG
4452827 ATGAGTTGGTGATGATGATG
1 ATGAGTTGGTGATGATGATG
* *
4452847 ATGGGTTCGTGA-GATGATG
1 ATGAGTTGGTGATGATGATG
4452866 ATGA
1 ATGA
4452870 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.02, G:0.40, T:0.33
Consensus pattern (20 bp):
ATGAGTTGGTGATGATGATG
Found at i:4460874 original size:43 final size:43
Alignment explanation
Indices: 4460804--4460922 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
4460794 GTAATTATGT
* *
4460804 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
4460847 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
4460890 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
4460923 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:4460932 original size:43 final size:43
Alignment explanation
Indices: 4460814--4460935 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
4460804 TGACTCGGCT
* **
4460814 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
4460857 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
4460900 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
4460936 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:4460946 original size:20 final size:20
Alignment explanation
Indices: 4460921--4460983 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
4460911 GGGAGTGCGC
4460921 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
4460941 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
4460961 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
4460980 ATGA
1 ATGA
4460984 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Done.