Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 138 of 185
Found at i:42227513 original size:118 final size:120
Alignment explanation
Indices: 42227303--42227539 Score: 433
Period size: 118 Copynumber: 2.0 Consensus size: 120
42227293 GGAGTCATGA
* *
42227303 ATTCCGAACATAAACCATACAACGGACATGAAGAATGCAAAAAAAAAAAACCCTTTAACTTCGTT
1 ATTCCGAACATAAACCATACAACGAACATGAAAAATGCAAAAAAAAAAAACCCTTTAACTTCGTT
42227368 ATTTCAATCAAAATTTCATTTTAATTTTATAGACTTTTAATAAATATATGAGTTG
66 ATTTCAATCAAAATTTCATTTTAATTTTATAGACTTTTAATAAATATATGAGTTG
42227423 ATTCCGAACATAAACCATACAACGAACATGAAAAATGC-AAAAAAAAAAA-CCTTTAACTTCGTT
1 ATTCCGAACATAAACCATACAACGAACATGAAAAATGCAAAAAAAAAAAACCCTTTAACTTCGTT
*
42227486 ATTTCAATCAAAATTTCATTTTAATTTTATAGACTTTTAATAAATATATTAGTT
66 ATTTCAATCAAAATTTCATTTTAATTTTATAGACTTTTAATAAATATATGAGTT
42227540 ACCTCTTTCA
Statistics
Matches: 114, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
118 67 0.59
119 11 0.10
120 36 0.32
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (120 bp):
ATTCCGAACATAAACCATACAACGAACATGAAAAATGCAAAAAAAAAAAACCCTTTAACTTCGTT
ATTTCAATCAAAATTTCATTTTAATTTTATAGACTTTTAATAAATATATGAGTTG
Found at i:42231416 original size:45 final size:44
Alignment explanation
Indices: 42231352--42231462 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 44
42231342 TAATCTATAG
*
42231352 CTTCAATCTGTTCCACTGCAACTTCAG-GAAAATAAGATCCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAG-AAATAAGATCCG-TAT
* * * **
42231397 CTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATCCGTAT
*
42231441 CTTCAATCTGCCCCACTGCAAC
1 CTTCAATCTGCTCCACTGCAAC
42231463 CTCAAGGGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 23 0.40
45 33 0.58
46 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATCCGTAT
Found at i:42231457 original size:44 final size:45
Alignment explanation
Indices: 42231220--42231476 Score: 142
Period size: 41 Copynumber: 5.8 Consensus size: 45
42231210 GGATTAATAG
* * * * *
42231220 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAATAT-TG--GT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCGCTAT
* * * **
42231262 -TT-AACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTG--AT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCGCTAT
* * * * **
42231303 -AT-GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTATAATCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATC----CGCTAT
* *
42231350 AGCTTCAATCTGTTCCACTGCAACTTCAG-GAAAATAAGATCCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGAG-AGATAAGATCCGCTAT
* * **
42231397 CTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG-TAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCGCTAT
* * *
42231441 CTTCAATCTGCCCCACTGCAACCTCA-AGGGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA
42231477 CTTGTGGCTC
Statistics
Matches: 166, Mismatches: 36, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
40 28 0.17
41 34 0.20
43 8 0.05
44 26 0.16
45 33 0.20
46 1 0.01
47 6 0.04
50 2 0.01
51 28 0.17
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCGCTAT
Found at i:42232304 original size:24 final size:24
Alignment explanation
Indices: 42232252--42232304 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
42232242 TGCCCCTACT
**
42232252 GTAATCTTCAAAGTTCAATCTGCC
1 GTAATCTTCAAAGTTCAATCCACC
* * *
42232276 ATAATCTTCAAGGTTCAGTCCACC
1 GTAATCTTCAAAGTTCAATCCACC
42232300 GTAAT
1 GTAAT
42232305 TTTGGGACAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (24 bp):
GTAATCTTCAAAGTTCAATCCACC
Found at i:42232966 original size:108 final size:108
Alignment explanation
Indices: 42232774--42232970 Score: 295
Period size: 108 Copynumber: 1.8 Consensus size: 108
42232764 GAAAAATGCT
* *
42232774 TGAAAAAGATTATCATAATGGACAAGATCAAATTTTATTGAGAGCAAAGCTCTAAACAAATAAAT
1 TGAAAAAGATTATCACAATGGACAAGATCAAATTTTATTGAGAGCAAAGCTCGAAACAAATAAAT
* *
42232839 TAATCAGGATAGCAAATTTTGCTAAAATTCAAAGTGAATAAGA
66 TAATCAAGATAACAAATTTTGCTAAAATTCAAAGTGAATAAGA
** * * * *
42232882 TGAAAAAGATTATCACAATGGACAAGATGGAATTTTGTTGAGAGCAAAGCTCGAGACGAATAGAT
1 TGAAAAAGATTATCACAATGGACAAGATCAAATTTTATTGAGAGCAAAGCTCGAAACAAATAAAT
*
42232947 TAATCAAGATAACATATTTTGCTA
66 TAATCAAGATAACAAATTTTGCTA
42232971 GAATAAAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 78 1.00
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (108 bp):
TGAAAAAGATTATCACAATGGACAAGATCAAATTTTATTGAGAGCAAAGCTCGAAACAAATAAAT
TAATCAAGATAACAAATTTTGCTAAAATTCAAAGTGAATAAGA
Found at i:42244708 original size:19 final size:19
Alignment explanation
Indices: 42244684--42244720 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42244674 TAAATGAACA
*
42244684 AATAATAGCAATAATAATT
1 AATAATAACAATAATAATT
*
42244703 AATAATAACAGTAATAAT
1 AATAATAACAATAATAAT
42244721 ATCAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
AATAATAACAATAATAATT
Found at i:42246428 original size:23 final size:23
Alignment explanation
Indices: 42246397--42246441 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
42246387 TACAATCAAT
42246397 ATTACACATATC-AACAAGCCATA
1 ATTACACAT-TCAAACAAGCCATA
*
42246420 ATTAGACATTCAAAACAAGCCA
1 ATTACACATTC-AAACAAGCCA
42246442 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
ATTACACATTCAAACAAGCCATA
Found at i:42253028 original size:33 final size:33
Alignment explanation
Indices: 42252991--42253060 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
42252981 GGTCTTACGT
*
42252991 TCATAGTGCAATAACCCAGT-TATGGTCTTATCA
1 TCATAATGCAATAACCCA-TCTATGGTCTTATCA
* *
42253024 TCATAATGCCATAGCCCATCTATGGTCTTA-CA
1 TCATAATGCAATAACCCATCTATGGTCTTATCA
42253056 T-ATAA
1 TCATAA
42253061 ACACTGCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 4 0.12
32 4 0.12
33 25 0.76
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (33 bp):
TCATAATGCAATAACCCATCTATGGTCTTATCA
Found at i:42253071 original size:101 final size:101
Alignment explanation
Indices: 42252884--42253123 Score: 399
Period size: 101 Copynumber: 2.4 Consensus size: 101
42252874 AATTCATCCT
* * *
42252884 TTACATTCATAGTGCCATAACCCAATTATGGTCTTGTCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
42252949 CTTACATATAAACAATACCATGGTCCAACCATGGTC
66 CTTACATATAAACAATACCATGGTCCAACCATGGTC
* * *
42252985 TTACGTTCATAGTGCAATAACCCAGTTATGGTCTTATCATCATAATGCCATAGCCCATCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
* *
42253050 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACAATACCATGGTCCAACCATGGTC
*
42253086 TTACGTTCATTGTGCCATAACCCAGTTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
42253124 CGGCAATTCA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 129 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
CTTACATATAAACAATACCATGGTCCAACCATGGTC
Found at i:42260983 original size:88 final size:88
Alignment explanation
Indices: 42260851--42261040 Score: 362
Period size: 88 Copynumber: 2.2 Consensus size: 88
42260841 ATCTATTCCA
42260851 CTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAA
1 CTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAA
42260916 TCTGCCATCTTCGATCTGCTTCG
66 TCTGCCATCTTCGATCTGCTTCG
* *
42260939 CTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTGAAA
1 CTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAA
42261004 TCTGCCATCTTCGATCTGCTTCG
66 TCTGCCATCTTCGATCTGCTTCG
42261027 CTGCCAAATACAGG
1 CTGCCAAATACAGG
42261041 AAGGCAAGAT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 100 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (88 bp):
CTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAA
TCTGCCATCTTCGATCTGCTTCG
Found at i:42261094 original size:44 final size:44
Alignment explanation
Indices: 42261003--42261546 Score: 288
Period size: 44 Copynumber: 12.2 Consensus size: 44
42260993 GGGAGGTGAA
* * * *
42261003 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTC-ATGCC-AATACAGGAAGACAAG
* * *
42261049 ATTTG-TAATCTTCGATCTACTTCATGCCAATACATGAAGATAAG
1 ATCTGCT-ATCTTCGATCTACTTCATGCCAATACAGGAAGACAAG
* **
42261093 ATCTGCTTTCTTCGATCTACTTC--GCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCATGCCA--A-TACAGGAAGACAAG
* * * * * *
42261138 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCATGCCAATACAGGAAGACAAG
* * * * *
42261181 CTCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACATG
1 ATCTGCTATCTTCGATCTACTTCATGCCAATACAGGAAGACAAG
* * **
42261225 ATCTGCTTTCTGCGATCTACTTC--GCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCATGCCA--A-TACAGGAAGACAAG
* * * * * *
42261270 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCATGCCAATACAGGAAGACAAG
* * * *** * **
42261313 ATCTGCGTTATCGGCTTCAATGTACTCCACTG-TGGT-CAGGGAGGTGAA-
1 ATCTGC--TAT---CTTCGATCTACTTCA-TGCCAATACA-GGAAGACAAG
* * * *
42261361 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTC-ATGCC-AATACAGGAAGACAAG
* * *
42261407 ATTTG-TAATCTTCGATCTACTTCATGCCAATACATGAAGATAAG
1 ATCTGCT-ATCTTCGATCTACTTCATGCCAATACAGGAAGACAAG
* **
42261451 ATCTGCTTTCTTCGATCTACTTC--GCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCATGCCA--A-TACAGGAAGACAAG
* * * * * *
42261496 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCATGCCAATACAGGAAGACAAG
42261539 ATCTGCTA
1 ATCTGCTA
42261547 CCGCCTAGTG
Statistics
Matches: 375, Mismatches: 89, Indels: 70
0.70 0.17 0.13
Matches are distributed among these distances:
42 12 0.03
43 62 0.17
44 159 0.42
45 65 0.17
46 53 0.14
48 7 0.02
49 16 0.04
50 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTACTTCATGCCAATACAGGAAGACAAG
Found at i:42261194 original size:132 final size:132
Alignment explanation
Indices: 42261058--42261318 Score: 477
Period size: 132 Copynumber: 2.0 Consensus size: 132
42261048 GATTTGTAAT
* * *
42261058 CTTCGATCTACTTCATGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
*
42261123 GTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGCTCTGCT
66 GTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
42261188 AC
131 AC
*
42261190 CTTCGATCTACTTCACGCCAATACATGAAGACATGATCTGCTTTCTGCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
42261255 GTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGC
66 GTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGC
42261319 GTTATCGGCT
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 124 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (132 bp):
CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
GTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
AC
Found at i:42273519 original size:3 final size:3
Alignment explanation
Indices: 42273511--42273540 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
42273501 AAGCATAAAC
42273511 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
42273541 CATTGGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:42274198 original size:13 final size:12
Alignment explanation
Indices: 42274179--42274214 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
42274169 ACCGCGTAAA
42274179 TTTTTTTATTTT
1 TTTTTTTATTTT
42274191 TATTTTTTATTTT
1 T-TTTTTTATTTT
*
42274204 TTTTGTTATTT
1 TTTTTTTATTT
42274215 ATTCTTGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:42279220 original size:27 final size:29
Alignment explanation
Indices: 42279190--42279243 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
42279180 TTAATATCCA
*
42279190 AATAAGTAAAAT-AAAAT-AAAATAAAGT
1 AATAAATAAAATAAAAATAAAAATAAAGT
*
42279217 AATAAATAAAGTAAAAATAAAAATAAA
1 AATAAATAAAATAAAAATAAAAATAAA
42279244 AATTGGGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 5 0.22
29 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (29 bp):
AATAAATAAAATAAAAATAAAAATAAAGT
Found at i:42279225 original size:12 final size:11
Alignment explanation
Indices: 42279189--42279237 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 11
42279179 ATTAATATCC
42279189 AAAT-AAGT-A
1 AAATAAAGTAA
*
42279198 AAATAAAAT-A
1 AAATAAAGTAA
42279208 AAATAAAGTAA
1 AAATAAAGTAA
42279219 TAAATAAAGTAA
1 -AAATAAAGTAA
42279231 AAATAAA
1 AAATAAA
42279238 AATAAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 4 0.11
10 12 0.34
11 8 0.23
12 11 0.31
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (11 bp):
AAATAAAGTAA
Found at i:42279225 original size:17 final size:17
Alignment explanation
Indices: 42279197--42279244 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
42279187 CCAAATAAGT
42279197 AAAAT-AAAATAAAAT-
1 AAAATAAAAATAAAATA
* *
42279212 AAAGTAATAAATAAAGTA
1 AAAATAA-AAATAAAATA
42279230 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
42279245 ATTGGGTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.15
16 1 0.04
17 15 0.58
18 6 0.23
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:42279243 original size:12 final size:11
Alignment explanation
Indices: 42279197--42279246 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 11
42279187 CCAAATAAGT
42279197 AAAATAAAAT-
1 AAAATAAAATA
*
42279207 AAAATAAAGTA
1 AAAATAAAATA
*
42279218 ATAAATAAAGTA
1 A-AAATAAAATA
42279230 AAAATAAAAATA
1 AAAAT-AAAATA
42279242 AAAAT
1 AAAAT
42279247 TGGGTTGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 9 0.26
11 5 0.14
12 21 0.60
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:42283276 original size:24 final size:24
Alignment explanation
Indices: 42283244--42283293 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
42283234 TTTTGCATTT
42283244 CAACCCTTGTGTCCTCCATGCTTG
1 CAACCCTTGTGTCCTCCATGCTTG
*
42283268 CAACCCTTGTGTTCTCCATGCTTG
1 CAACCCTTGTGTCCTCCATGCTTG
42283292 CA
1 CA
42283294 CTTTTGGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.14, C:0.36, G:0.16, T:0.34
Consensus pattern (24 bp):
CAACCCTTGTGTCCTCCATGCTTG
Found at i:42284758 original size:61 final size:61
Alignment explanation
Indices: 42284663--42284779 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
42284653 AAATTAACCC
* * *
42284663 TGTAAGACCCCTTACCCGAGACCGTCGCCGGAATCGAGTACGAGATGTTATCCAATATAAA
1 TGTAACACCCCTTACCCGAGACCGTCACCGGAATCGAGTACAAGATGTTATCCAATATAAA
*
42284724 TGTAACACCCCTTACCCGAGACCGTCACTGGAATCGAGTACAAGATGTTATCCAAT
1 TGTAACACCCCTTACCCGAGACCGTCACCGGAATCGAGTACAAGATGTTATCCAAT
42284780 TTAACTTACC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (61 bp):
TGTAACACCCCTTACCCGAGACCGTCACCGGAATCGAGTACAAGATGTTATCCAATATAAA
Found at i:42285968 original size:23 final size:23
Alignment explanation
Indices: 42285940--42286007 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
42285930 ACATAAGTGC
42285940 AACACTGATATGTAGCCGAAGCT
1 AACACTGATATGTAGCCGAAGCT
* *
42285963 ACCACTGTTATGTAGCCGAAGCT
1 AACACTGATATGTAGCCGAAGCT
* * *
42285986 AACACTCAAATGTAGACGAAGC
1 AACACTGATATGTAGCCGAAGC
42286008 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.21
Consensus pattern (23 bp):
AACACTGATATGTAGCCGAAGCT
Found at i:42289332 original size:943 final size:943
Alignment explanation
Indices: 42287507--42289393 Score: 3486
Period size: 943 Copynumber: 2.0 Consensus size: 943
42287497 TATTATTATA
*
42287507 TGCAAATTCCACCAAAGGTAGATATCTTTCCCAATTACCTTCAAATTCCAATACACAACATCTCA
1 TGCAAATTCCACCAAAGGTAAATATCTTTCCCAATTACCTTCAAATTCCAATACACAACATCTCA
* *
42287572 ACATATCTTCGAGTATTTGAATTACTCTTTCAGACTGTCCATCGGTTTGGGGATGGAATGCTGTA
66 ACATATCTTCGAGTATTTGAATTACTCTTTCAGACTGTCCATCGGTTTGGGGATGAAATGCTATA
42287637 CTAAAATTCAATTTAGTACCCAATGCCTCTTGTAATTTCTTCCAAAACCTTGAAGTAAACTGTGG
131 CTAAAATTCAATTTAGTACCCAATGCCTCTTGTAATTTCTTCCAAAACCTTGAAGTAAACTGTGG
42287702 ATCTCTATAAGATATAATAGACACAGGCACACCATGTAATCGGACTATCTCAGCAATATACAATT
196 ATCTCTATAAGATATAATAGACACAGGCACACCATGTAATCGGACTATCTCAGCAATATACAATT
42287767 CAGCTAACTTGTCAAGTGAAAAACTCATTCGCACAGGAATGAAATGAGCCGACTTAGTCAATCGA
261 CAGCTAACTTGTCAAGTGAAAAACTCATTCGCACAGGAATGAAATGAGCCGACTTAGTCAATCGA
42287832 TCAACTATAACCCAAATTGAGTCTTTCTTTTTCGGTGACAATGGCAATCCAGAAACAAAATCCAT
326 TCAACTATAACCCAAATTGAGTCTTTCTTTTTCGGTGACAATGGCAATCCAGAAACAAAATCCAT
*
42287897 AGTAATTCTATCCCACTTCCACTCGGGCACCATAATAGGTTGAAGTAATCCTGAAGGTACTTGGT
391 AGTAATTCTATCCCACTTCCACTCGGGCACCATAATAGGTTGAAGTAACCCTGAAGGTACTTGGT
*
42287962 GTTCAGCTTTTACTTGTTGGCACACTAAACACTTTGTCACATACTCGGAGATATCCCGTTTCATA
456 GTTCAGCTTTTACTTGTTGGCACACAAAACACTTTGTCACATACTCGGAGATATCCCGTTTCATA
*
42288027 CCCGACCACCAATAAAATTTCTTCAAATCATTGTACATTTTTACACTACCGGGGTGAACTGCCAA
521 CCCGACCACCAATAAAACTTCTTCAAATCATTGTACATTTTTACACTACCGGGGTGAACTGCCAA
* * * *
42288092 ATGACTATCATGTGCTTCTTGCAAAATTTTCTGAATTAAATCAACATTTTTCGGAACACATATTC
586 ACGACTATCATATGCTTCCTGCAAAATTTTCTGAACTAAATCAACATTTTTCGGAACACATATTC
* **
42288157 TATCACGAAACATTAAACATCCATCTGAATCAATCTGAAAATCAGAATTATTGTCCACTGCACAC
651 TATCACGAAACATTAAACATCCATCTGAATCAATCCGAAAATCAGAATTATCATCCACTGCACAC
*
42288222 TGAGTCTTTCTTCTTTGCAATTCATTATCCACTTTCTGAGCCTCACAAATTTCTTGAAGAAACAA
716 TGAGTCTTTCTTCTTTGCAATTCATTATCCACTTTCTGAGCCTCACAAATTTCTTAAAGAAACAA
42288287 TGGTCTAGCTTTTAACTCTGCAAACAATGATCCATCTTCAGTCAATGTTAATCTCATATTCAAAG
781 TGGTCTAGCTTTTAACTCTGCAAACAATGATCCATCTTCAGTCAATGTTAATCTCATATTCAAAG
42288352 CTCTCAAAGCAAAGAGAGACTTTCTGCTCAAAGCATCAGCAACTATATTAGCTTTTCCCGGATGA
846 CTCTCAAAGCAAAGAGAGACTTTCTGCTCAAAGCATCAGCAACTATATTAGCTTTTCCCGGATGA
42288417 TAATCTATCACAAGTTCATAATCTTTCAACAAT
911 TAATCTATCACAAGTTCATAATCTTTCAACAAT
42288450 TGCAAATTCCACCAAAGGTAAATATCTTTCCCAATTACCTTCAAATTCCAATACACAACATCTCA
1 TGCAAATTCCACCAAAGGTAAATATCTTTCCCAATTACCTTCAAATTCCAATACACAACATCTCA
* *
42288515 ACATGTCTTCGAGTATTTGAATTACTCTTTCAGACTGTCCATCGGTTTGGGGGTGAAATGCTATA
66 ACATATCTTCGAGTATTTGAATTACTCTTTCAGACTGTCCATCGGTTTGGGGATGAAATGCTATA
42288580 CTAAAATTCAATTTAGTACCCAATGCCTCTTGTAATTTCTTCCAAAACCTTGAAGTAAACTGTGG
131 CTAAAATTCAATTTAGTACCCAATGCCTCTTGTAATTTCTTCCAAAACCTTGAAGTAAACTGTGG
42288645 ATCTCTATAAGATATAATAGACACAGGCACACCATGTAATCGGACTATCTCAGCAATATACAATT
196 ATCTCTATAAGATATAATAGACACAGGCACACCATGTAATCGGACTATCTCAGCAATATACAATT
42288710 CAGCTAACTTGTCAAGTGAAAAACTCATTCGCACAGGAATGAAATGAGCCGACTTAGTCAATCGA
261 CAGCTAACTTGTCAAGTGAAAAACTCATTCGCACAGGAATGAAATGAGCCGACTTAGTCAATCGA
*
42288775 TCAACTATAACCCAAATTGAGTCTTTCTTTTTCGGTGACAATGGCAATCCGGAAACAAAATCCAT
326 TCAACTATAACCCAAATTGAGTCTTTCTTTTTCGGTGACAATGGCAATCCAGAAACAAAATCCAT
* *
42288840 AGTAATTTTATCCCACTTCCACTCGGGCACCGTAATAGGTTGAAGTAACCCTGAAGGTACTTGGT
391 AGTAATTCTATCCCACTTCCACTCGGGCACCATAATAGGTTGAAGTAACCCTGAAGGTACTTGGT
42288905 GTTCAGCTTTTACTTGTTGGCACACAAAACACTTTGTCACATACTCGGAGATATCCCGTTTCATA
456 GTTCAGCTTTTACTTGTTGGCACACAAAACACTTTGTCACATACTCGGAGATATCCCGTTTCATA
* * * *
42288970 CCCGGCCACCAATATAACTTCTTCAAATCATTGTGCATTTTTACACTACCGGGGTGAACTGCTAA
521 CCCGACCACCAATAAAACTTCTTCAAATCATTGTACATTTTTACACTACCGGGGTGAACTGCCAA
42289035 ACGACTATCATATGCTTCCTGCAAAATTTTCTGAACTAAATCAACATTTTTCGGAACACATATTC
586 ACGACTATCATATGCTTCCTGCAAAATTTTCTGAACTAAATCAACATTTTTCGGAACACATATTC
*
42289100 TATCACGAAACATTAAACATCCATCTGAATCAATCCGAAAATCAGAATTATCATCCATTGCACAC
651 TATCACGAAACATTAAACATCCATCTGAATCAATCCGAAAATCAGAATTATCATCCACTGCACAC
* *
42289165 TGAGTCTTTTTTCTTTGCAATTCATTATCCACTTTCTGAGCCTCACAAATTTCTTAAAGAAATAA
716 TGAGTCTTTCTTCTTTGCAATTCATTATCCACTTTCTGAGCCTCACAAATTTCTTAAAGAAACAA
* *
42289230 TGGTCTAGCTTTTAACTCTGCAAGCAATGATCCATCTTCAGTCAATGTTAATCTCGTATTCAAAG
781 TGGTCTAGCTTTTAACTCTGCAAACAATGATCCATCTTCAGTCAATGTTAATCTCATATTCAAAG
* * *
42289295 CTCTCAAAGCAAAGAGAGACTTTCTGCTCAAAGCATCAGTAACTATATTGGCTTTTCTCGGATGA
846 CTCTCAAAGCAAAGAGAGACTTTCTGCTCAAAGCATCAGCAACTATATTAGCTTTTCCCGGATGA
*
42289360 TAATCTATCACAAGTTCATAATCTTTCATCAAT
911 TAATCTATCACAAGTTCATAATCTTTCAACAAT
42289393 T
1 T
42289394 CCAACCATCT
Statistics
Matches: 912, Mismatches: 32, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
943 912 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (943 bp):
TGCAAATTCCACCAAAGGTAAATATCTTTCCCAATTACCTTCAAATTCCAATACACAACATCTCA
ACATATCTTCGAGTATTTGAATTACTCTTTCAGACTGTCCATCGGTTTGGGGATGAAATGCTATA
CTAAAATTCAATTTAGTACCCAATGCCTCTTGTAATTTCTTCCAAAACCTTGAAGTAAACTGTGG
ATCTCTATAAGATATAATAGACACAGGCACACCATGTAATCGGACTATCTCAGCAATATACAATT
CAGCTAACTTGTCAAGTGAAAAACTCATTCGCACAGGAATGAAATGAGCCGACTTAGTCAATCGA
TCAACTATAACCCAAATTGAGTCTTTCTTTTTCGGTGACAATGGCAATCCAGAAACAAAATCCAT
AGTAATTCTATCCCACTTCCACTCGGGCACCATAATAGGTTGAAGTAACCCTGAAGGTACTTGGT
GTTCAGCTTTTACTTGTTGGCACACAAAACACTTTGTCACATACTCGGAGATATCCCGTTTCATA
CCCGACCACCAATAAAACTTCTTCAAATCATTGTACATTTTTACACTACCGGGGTGAACTGCCAA
ACGACTATCATATGCTTCCTGCAAAATTTTCTGAACTAAATCAACATTTTTCGGAACACATATTC
TATCACGAAACATTAAACATCCATCTGAATCAATCCGAAAATCAGAATTATCATCCACTGCACAC
TGAGTCTTTCTTCTTTGCAATTCATTATCCACTTTCTGAGCCTCACAAATTTCTTAAAGAAACAA
TGGTCTAGCTTTTAACTCTGCAAACAATGATCCATCTTCAGTCAATGTTAATCTCATATTCAAAG
CTCTCAAAGCAAAGAGAGACTTTCTGCTCAAAGCATCAGCAACTATATTAGCTTTTCCCGGATGA
TAATCTATCACAAGTTCATAATCTTTCAACAAT
Found at i:42292610 original size:61 final size:61
Alignment explanation
Indices: 42292537--42292657 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
42292527 CTGATACCAC
* *
42292537 TAAATGTAACACCCCTTACCCGAGACTATCGCCGGAATCGAGTACGAGATGTTATCCAATA
1 TAAATGTAACACCCCTTACCCGAGACCATCACCGGAATCGAGTACGAGATGTTATCCAATA
*
42292598 TAAATGTAACACCCCTTACCCGAGACCGTCACCGGAATCGAGTACGAGATGTTATCCAAT
1 TAAATGTAACACCCCTTACCCGAGACCATCACCGGAATCGAGTACGAGATGTTATCCAAT
42292658 TTAACTTACC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (61 bp):
TAAATGTAACACCCCTTACCCGAGACCATCACCGGAATCGAGTACGAGATGTTATCCAATA
Found at i:42293847 original size:23 final size:23
Alignment explanation
Indices: 42293821--42293871 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
42293811 ATAAGTGCAA
42293821 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
42293844 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
42293867 CACTG
1 CACTG
42293872 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:42296811 original size:6 final size:6
Alignment explanation
Indices: 42296800--42296833 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
42296790 AAATATGTTC
* *
42296800 AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATT
42296834 TGGGTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (6 bp):
AATTCT
Found at i:42303965 original size:30 final size:30
Alignment explanation
Indices: 42303929--42303987 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
42303919 ATGCAATGTG
*
42303929 CACATTTTCTATAAGTCCTACACTTTTACC
1 CACATTTTATATAAGTCCTACACTTTTACC
42303959 CACATTTTATATAAGTCCTACACTTTTAC
1 CACATTTTATATAAGTCCTACACTTTTAC
42303988 ATGTTGTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (30 bp):
CACATTTTATATAAGTCCTACACTTTTACC
Found at i:42306050 original size:6 final size:6
Alignment explanation
Indices: 42306038--42306072 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
42306028 CAAATATGTT
* *
42306038 CAATTC TAATTC TAATTC CAATTC CAATTC CAATT
1 CAATTC CAATTC CAATTC CAATTC CAATTC CAATT
42306073 TGAGTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (6 bp):
CAATTC
Found at i:42306639 original size:91 final size:91
Alignment explanation
Indices: 42306484--42306667 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
42306474 TATTAAAAAA
42306484 AAATTTGTCTAGCAAGAAAAATGTAATTTAATCTTTTCTTCTCCTAGACCACAAATAAAAAAAAT
1 AAATTTGTCTAGCAAGAAAAATGTAATTTAATCTTTTCTTCTCCTAGACCACAAATAAAAAAAAT
42306549 TGGAACATGTTTCCCATTTGTTTCTG
66 TGGAACATGTTTCCCATTTGTTTCTG
42306575 AAATTTGTCTAGCAAGAAAAATGTAATTTAATCTTTTCTTCTCCTAGACCACAAATAAAAAAAAT
1 AAATTTGTCTAGCAAGAAAAATGTAATTTAATCTTTTCTTCTCCTAGACCACAAATAAAAAAAAT
42306640 TGGAACATGTTTCCCATTTGTTTCTG
66 TGGAACATGTTTCCCATTTGTTTCTG
42306666 AA
1 AA
42306668 CGGTTGGACT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (91 bp):
AAATTTGTCTAGCAAGAAAAATGTAATTTAATCTTTTCTTCTCCTAGACCACAAATAAAAAAAAT
TGGAACATGTTTCCCATTTGTTTCTG
Found at i:42310888 original size:6 final size:6
Alignment explanation
Indices: 42310877--42310923 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
42310867 AAATATGTTC
42310877 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTC
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTC
42310924 CAGTTCCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (6 bp):
AATTCT
Found at i:42310934 original size:18 final size:18
Alignment explanation
Indices: 42310876--42310934 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
42310866 CAAATATGTT
42310876 CAATTCTAATTCTAATTC
1 CAATTCTAATTCTAATTC
*
42310894 TAATTCTAATTCTAATTC
1 CAATTCTAATTCTAATTC
* * *
42310912 TAATTCTAATTCCAGTTC
1 CAATTCTAATTCTAATTC
42310930 CAATT
1 CAATT
42310935 TGAGTTTGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.46
Consensus pattern (18 bp):
CAATTCTAATTCTAATTC
Found at i:42319715 original size:6 final size:6
Alignment explanation
Indices: 42319704--42319728 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42319694 AAATATGTTC
42319704 AATTCT AATTCT AATTCT AATTCT A
1 AATTCT AATTCT AATTCT AATTCT A
42319729 GTTCCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTCT
Found at i:42325476 original size:6 final size:6
Alignment explanation
Indices: 42325465--42325511 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
42325455 AAATATGTTC
* *
42325465 AATTCT AATTCT AATTCT AATTCT AGTTCC AATTCT AATTCT AATTC
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTC
42325512 CAGTTCCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.02, T:0.47
Consensus pattern (6 bp):
AATTCT
Found at i:42325503 original size:24 final size:24
Alignment explanation
Indices: 42325471--42325522 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
42325461 GTTCAATTCT
*
42325471 AATTCTAATTCTAATTCTAGTTCC
1 AATTCTAATTCTAATTCCAGTTCC
42325495 AATTCTAATTCTAATTCCAGTTCC
1 AATTCTAATTCTAATTCCAGTTCC
42325519 AATT
1 AATT
42325523 TGAGTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.44
Consensus pattern (24 bp):
AATTCTAATTCTAATTCCAGTTCC
Found at i:42325522 original size:12 final size:12
Alignment explanation
Indices: 42325471--42325522 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
42325461 GTTCAATTCT
* *
42325471 AATTCTAATTCT
1 AATTCTAGTTCC
42325483 AATTCTAGTTCC
1 AATTCTAGTTCC
* *
42325495 AATTCTAATTCT
1 AATTCTAGTTCC
*
42325507 AATTCCAGTTCC
1 AATTCTAGTTCC
42325519 AATT
1 AATT
42325523 TGAGTTTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.44
Consensus pattern (12 bp):
AATTCTAGTTCC
Found at i:42325522 original size:18 final size:18
Alignment explanation
Indices: 42325464--42325522 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
42325454 CAAATATGTT
*
42325464 CAATTCTAATTCTAATTC
1 CAATTCTAATTCCAATTC
* *
42325482 TAATTCTAGTTCCAATTC
1 CAATTCTAATTCCAATTC
* *
42325500 TAATTCTAATTCCAGTTC
1 CAATTCTAATTCCAATTC
42325518 CAATT
1 CAATT
42325523 TGAGTTTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (18 bp):
CAATTCTAATTCCAATTC
Found at i:42329524 original size:21 final size:20
Alignment explanation
Indices: 42329496--42329536 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
42329486 ATAACATTCC
*
42329496 AAATTTAAATTTCTTTATTT
1 AAATTTAAATTTCTTGATTT
42329516 AAATATTAAATTTCTTGATTT
1 AAAT-TTAAATTTCTTGATTT
42329537 TTAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
AAATTTAAATTTCTTGATTT
Found at i:42329565 original size:48 final size:47
Alignment explanation
Indices: 42329535--42329669 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 47
42329525 ATTTCTTGAT
*
42329535 TTTTAGTAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTA-TCCTTA
* *
42329583 TTTTAATAAAAGATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTA-TCCTTA
* * *
42329631 TTTTAATGAAATATTGAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGAT
42329670 GTAATTATTT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (47 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTATCCTTA
Found at i:42329582 original size:23 final size:23
Alignment explanation
Indices: 42329552--42329669 Score: 116
Period size: 23 Copynumber: 5.0 Consensus size: 23
42329542 AAAATATTAA
42329552 AGTCCTTATTTTAAATATTGATT
1 AGTCCTTATTTTAAATATTGATT
**
42329575 AGTCCTTATTTT-AATAAAAGATT
1 AGTCCTTATTTTAAAT-ATTGATT
*
42329598 AAAGTCCTTATTTTAATTATTGATT
1 --AGTCCTTATTTTAAATATTGATT
42329623 AGTCCTTATTTTAATGAAATATTGA--
1 AGTCCTTA-TTT--T-AAATATTGATT
*
42329648 AGTCCTTATTTTAATTATTGAT
1 AGTCCTTATTTTAAATATTGAT
42329670 GTAATTATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
21 8 0.10
22 4 0.05
23 25 0.32
24 6 0.08
25 25 0.32
26 3 0.04
27 8 0.10
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.49
Consensus pattern (23 bp):
AGTCCTTATTTTAAATATTGATT
Found at i:42330206 original size:85 final size:85
Alignment explanation
Indices: 42330107--42330451 Score: 690
Period size: 85 Copynumber: 4.1 Consensus size: 85
42330097 CTTATATAGA
42330107 ATTAAATGCAGGATTGTGATCCCATTTAATTTCAAATTTATAATATTCTTTCGATTATTTGAAAA
1 ATTAAATGCAGGATTGTGATCCCATTTAATTTCAAATTTATAATATTCTTTCGATTATTTGAAAA
42330172 TCTTAAACAAAATATCCGAC
66 TCTTAAACAAAATATCCGAC
42330192 ATTAAATGCAGGATTGTGATCCCATTTAATTTCAAATTTATAATATTCTTTCGATTATTTGAAAA
1 ATTAAATGCAGGATTGTGATCCCATTTAATTTCAAATTTATAATATTCTTTCGATTATTTGAAAA
42330257 TCTTAAACAAAATATCCGAC
66 TCTTAAACAAAATATCCGAC
42330277 ATTAAATGCAGGATTGTGATCCCATTTAATTTCAAATTTATAATATTCTTTCGATTATTTGAAAA
1 ATTAAATGCAGGATTGTGATCCCATTTAATTTCAAATTTATAATATTCTTTCGATTATTTGAAAA
42330342 TCTTAAACAAAATATCCGAC
66 TCTTAAACAAAATATCCGAC
42330362 ATTAAATGCAGGATTGTGATCCCATTTAATTTCAAATTTATAATATTCTTTCGATTATTTGAAAA
1 ATTAAATGCAGGATTGTGATCCCATTTAATTTCAAATTTATAATATTCTTTCGATTATTTGAAAA
42330427 TCTTAAACAAAATATCCGAC
66 TCTTAAACAAAATATCCGAC
42330447 ATTAA
1 ATTAA
42330452 CGTACTAATA
Statistics
Matches: 260, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 260 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (85 bp):
ATTAAATGCAGGATTGTGATCCCATTTAATTTCAAATTTATAATATTCTTTCGATTATTTGAAAA
TCTTAAACAAAATATCCGAC
Found at i:42330664 original size:121 final size:121
Alignment explanation
Indices: 42330450--42330694 Score: 490
Period size: 121 Copynumber: 2.0 Consensus size: 121
42330440 ATCCGACATT
42330450 AACGTACTAATAAATTACAACTTTACTAGTATATGTTAATGGACTTCAAATATTTTATTTTCATA
1 AACGTACTAATAAATTACAACTTTACTAGTATATGTTAATGGACTTCAAATATTTTATTTTCATA
42330515 TGGAAATATAGGTCTTCTTTTGTACTTTTTAAAAACTGTTCAAAGAAATTTACCAA
66 TGGAAATATAGGTCTTCTTTTGTACTTTTTAAAAACTGTTCAAAGAAATTTACCAA
42330571 AACGTACTAATAAATTACAACTTTACTAGTATATGTTAATGGACTTCAAATATTTTATTTTCATA
1 AACGTACTAATAAATTACAACTTTACTAGTATATGTTAATGGACTTCAAATATTTTATTTTCATA
42330636 TGGAAATATAGGTCTTCTTTTGTACTTTTTAAAAACTGTTCAAAGAAATTTACCAA
66 TGGAAATATAGGTCTTCTTTTGTACTTTTTAAAAACTGTTCAAAGAAATTTACCAA
42330692 AAC
1 AAC
42330695 AACCAATTTA
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 124 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (121 bp):
AACGTACTAATAAATTACAACTTTACTAGTATATGTTAATGGACTTCAAATATTTTATTTTCATA
TGGAAATATAGGTCTTCTTTTGTACTTTTTAAAAACTGTTCAAAGAAATTTACCAA
Found at i:42331258 original size:23 final size:23
Alignment explanation
Indices: 42331232--42331307 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
42331222 TAAACAAATT
42331232 CAATTTCCAGCAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
*
42331255 CAATTTCCAGCAGACAATCATAA
1 CAATTTCCAGCAGACAATCAAAA
*
42331278 CAATTTCCAGCAAACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
42331301 CAATTTC
1 CAATTTC
42331308 AGAACAAATC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.21
Consensus pattern (23 bp):
CAATTTCCAGCAGACAATCAAAA
Found at i:42331335 original size:22 final size:21
Alignment explanation
Indices: 42331289--42331338 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
42331279 AATTTCCAGC
*
42331289 AAAC-AATCAAAACAATTTCA
1 AAACAAATCAAAACAATATCA
*
42331309 GAACAAATCAAGAACAATATCA
1 AAACAAATCAA-AACAATATCA
42331331 AAACAAAT
1 AAACAAAT
42331339 GCAACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 6 0.24
22 16 0.64
ACGTcount: A:0.62, C:0.18, G:0.04, T:0.16
Consensus pattern (21 bp):
AAACAAATCAAAACAATATCA
Found at i:42332244 original size:32 final size:34
Alignment explanation
Indices: 42332203--42332266 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
42332193 CTTTTCGATT
* *
42332203 TTCTTTTAA-GAGAATGGTTTTATAAT-GTGACA
1 TTCTTTTAAGGAAAATAGTTTTATAATAGTGACA
42332235 TTCTTTTAAGGAAAATAGTTTTATAATAGTGA
1 TTCTTTTAAGGAAAATAGTTTTATAATAGTGA
42332267 AATTATTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.32
33 15 0.54
34 4 0.14
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (34 bp):
TTCTTTTAAGGAAAATAGTTTTATAATAGTGACA
Found at i:42334247 original size:4 final size:4
Alignment explanation
Indices: 42334238--42334264 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
42334228 TATATGCAAT
42334238 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
42334265 TATATGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:42336825 original size:44 final size:46
Alignment explanation
Indices: 42336775--42336869 Score: 124
Period size: 44 Copynumber: 2.1 Consensus size: 46
42336765 TATTACAACA
* *
42336775 TCATTCCATTCAACTAAACACA-AGAA-TA-TTATTGCAGCTCTATT
1 TCATTCCATTCAACCAAACA-ATAGAATTACTTATTACAGCTCTATT
*
42336819 TCATTCCATTCAACCAAACAATTGAATTACTTATTACAGCTCTATT
1 TCATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTATT
*
42336865 CCATT
1 TCATT
42336870 ACAGCTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 2 0.05
46 19 0.43
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (46 bp):
TCATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTATT
Found at i:42336872 original size:16 final size:16
Alignment explanation
Indices: 42336851--42336906 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
42336841 TGAATTACTT
42336851 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
42336867 ATTACAGCTTTATTCA
1 ATTACAGCTCTATTCC
*
42336883 ATTACATCTCTATTCC
1 ATTACAGCTCTATTCC
42336899 ATTACAGC
1 ATTACAGC
42336907 GAACCAAACG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:42340498 original size:45 final size:45
Alignment explanation
Indices: 42340449--42340541 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
42340439 TTATGAATGA
* * *
42340449 TATTATGTATTTAATATGTTGTTGAAAAATGTAATATTGTTAGAT
1 TATTATGTATTTAACATGTTGTTGAAAAATGGAATATTGTTAAAT
*
42340494 TATTATGTATTTAGCATGTTGTTGAAAAATGGAATATTGTTAAAT
1 TATTATGTATTTAACATGTTGTTGAAAAATGGAATATTGTTAAAT
42340539 TAT
1 TAT
42340542 GAATTTGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.47
Consensus pattern (45 bp):
TATTATGTATTTAACATGTTGTTGAAAAATGGAATATTGTTAAAT
Found at i:42340802 original size:42 final size:42
Alignment explanation
Indices: 42340737--42340863 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
42340727 GTTTTCGTTC
* * * *
42340737 AACCCTAATGGGTTTCCGATCAGCTCTTTTGAGCTTCTGTTT
1 AACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCTGTTT
* * *
42340779 AACCCTTATAGGTTTCTGTTCAGCTCTTATGAGCTTCTATTC
1 AACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCTGTTT
* * * *
42340821 AACCCTTATGGGTTTTTGTTTAGCACTTATGTGCTTCTGTTT
1 AACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCTGTTT
42340863 A
1 A
42340864 GCCTTCGGGA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (42 bp):
AACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCTGTTT
Found at i:42340849 original size:21 final size:21
Alignment explanation
Indices: 42340769--42340865 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 21
42340759 GCTCTTTTGA
* * *
42340769 GCTTCTGTTTAACCCTTATAG
1 GCTTCTGTTTAGCACTTATGG
* * * *
42340790 GTTTCTGTTCAGCTCTTATGA
1 GCTTCTGTTTAGCACTTATGG
* * * *
42340811 GCTTCTATTCAACCCTTATGG
1 GCTTCTGTTTAGCACTTATGG
* * *
42340832 GTTTTTGTTTAGCACTTATGT
1 GCTTCTGTTTAGCACTTATGG
42340853 GCTTCTGTTTAGC
1 GCTTCTGTTTAGC
42340866 CTTCGGGATT
Statistics
Matches: 56, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (21 bp):
GCTTCTGTTTAGCACTTATGG
Found at i:42341215 original size:23 final size:23
Alignment explanation
Indices: 42341185--42341235 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
42341175 ACACATCAAG
42341185 TGTAATATCCCGAAAATAACTAC
1 TGTAATATCCCGAAAATAACTAC
*
42341208 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATAACTAC
*
42341231 AGTAA
1 TGTAA
42341236 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATATCCCGAAAATAACTAC
Found at i:42346187 original size:44 final size:42
Alignment explanation
Indices: 42346139--42346386 Score: 171
Period size: 44 Copynumber: 5.4 Consensus size: 42
42346129 TCAATCCGAC
42346139 CCACTGCAACTTCAAGGGTATAGGATTTGTAGTTTCATCTTGCT
1 CCACTGCAACTTC-AGGGTATAGGATTTGTAGTTTCAT-TTGCT
* *
42346183 CCACTGCAATTTCAGGGAGATAAGATTCGTCATTTGTAGTTTCATTTTGAC-
1 CCACTGCAACTTCAGGG-TAT-AG----G--ATTTGTAGTTTCA-TTTG-CT
*
42346234 CCACTGCAACTTCAGAGGTATAGGACTTGTAGCTTT-ATCTTGCT
1 CCACTGCAACTTCAG-GGTATAGGATTTGTAG-TTTCAT-TTGCT
** *
42346278 CCACTATAACTTCAAGGAG-ATAAGATTTGTCATTTGTTTCAATTTGAC-
1 CCACTGCAACTTC-AGG-GTATAGGATTTGT-A---GTTTC-ATTTG-CT
* *
42346326 CCACTGCAACTTCAGAGGTATAGGATTTATAGCTTCAATTTGCT
1 CCACTGCAACTTCAG-GGTATAGGATTTGTAGTTTC-ATTTGCT
42346370 CCACTGCAACTTCAGGG
1 CCACTGCAACTTCAGGG
42346387 AGATAAGATT
Statistics
Matches: 164, Mismatches: 14, Indels: 53
0.71 0.06 0.23
Matches are distributed among these distances:
43 9 0.05
44 71 0.43
45 9 0.05
46 1 0.01
47 7 0.04
48 25 0.15
49 4 0.02
50 2 0.01
51 32 0.20
52 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (42 bp):
CCACTGCAACTTCAGGGTATAGGATTTGTAGTTTCATTTGCT
Found at i:42346274 original size:95 final size:95
Alignment explanation
Indices: 42346105--42346577 Score: 449
Period size: 94 Copynumber: 5.1 Consensus size: 95
42346095 AGAGTTGAAA
** **
42346105 GAGATAAGATTCACCATTGTAGTTTCAATCCGACCCACTGCAACTTCA-AGGGTATAGGATTTGT
1 GAGATAAGATTCGTCATTGTAGTTTCAATTTGACCCACTGCAACTTCAGA-GGTATAGGATTTGT
* *
42346169 AGTTTC-ATCTTGCTCCACTGCAATTTCAGG
65 AGCTTCAATCTTGCTCCACTGCAACTTCAGG
* *
42346199 GAGATAAGATTCGTCATTTGTAGTTTCATTTTGACCCACTGCAACTTCAGAGGTATAGGACTTGT
1 GAGATAAGATTCGTCA-TTGTAGTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTGT
* ** *
42346264 AGCTT-TATCTTGCTCCACTATAACTTCAAG
65 AGCTTCAATCTTGCTCCACTGCAACTTCAGG
* *
42346294 GAGATAAGATTTGTCATT-T-GTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTATA
1 GAGATAAGATTCGTCATTGTAGTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTGTA
42346357 GCTTCAAT-TTGCTCCACTGCAACTTCAGG
66 GCTTCAATCTTGCTCCACTGCAACTTCAGG
* * * * * * * * * *
42346386 GAGATAAGATTTG-CTATGGTAGATTCAACTTGGCCCATTACAACTTTAGGGGTATAAGATTTGT
1 GAGATAAGATTCGTC-ATTGTAGTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTGT
* * *
42346450 AGCTTCAATC-TGCTTCACTGTAACTTTAGG
65 AGCTTCAATCTTGCTCCACTGCAACTTCAGG
* * ** * * *
42346480 GAGATAAGATTC-AC-TATG--G-TAC-ATCCGACCTACTACAAC-TCAGGGGTATAGGATTTGT
1 GAGATAAGATTCGTCAT-TGTAGTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTGT
* * **
42346538 AGCTTCAAT-ATGCTCCACTACAA-TTCATA
65 AGCTTCAATCTTGCTCCACTGCAACTTCAGG
42346567 GAGATAAGATT
1 GAGATAAGATT
42346578 TACTATGGTA
Statistics
Matches: 319, Mismatches: 49, Indels: 29
0.80 0.12 0.07
Matches are distributed among these distances:
87 14 0.04
88 36 0.11
89 11 0.03
90 2 0.01
91 2 0.01
92 79 0.25
93 5 0.02
94 88 0.28
95 81 0.25
96 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (95 bp):
GAGATAAGATTCGTCATTGTAGTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTGTA
GCTTCAATCTTGCTCCACTGCAACTTCAGG
Found at i:42346359 original size:92 final size:95
Alignment explanation
Indices: 42346121--42346490 Score: 416
Period size: 95 Copynumber: 3.9 Consensus size: 95
42346111 AGATTCACCA
**
42346121 TTGTAGTTTCAATCCGACCCACTGCAACTTCA-AGGGTATAGGATTTGTAG-TTTCATCTTGCTC
1 TTGTAGTTTCAATTTGACCCACTGCAACTTCAGA-GGTATAGGATTTGTAGCTTT-ATCTTGCTC
* *
42346184 CACTGCAATTTCAGGGAGATAAGATTCGTCAT
64 CACTGCAACTTCAGGGAGATAAGATTTGTCAT
* *
42346216 TTGTAGTTTCATTTTGACCCACTGCAACTTCAGAGGTATAGGACTTGTAGCTTTATCTTGCTCCA
1 TTGTAGTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTTATCTTGCTCCA
** *
42346281 CTATAACTTCAAGGAGATAAGATTTGTCA-
66 CTGCAACTTCAGGGAGATAAGATTTGTCAT
* *
42346310 TT-T-GTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTATAGCTTCAAT-TTGCTCC
1 TTGTAGTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTGTAGCTT-TATCTTGCTCC
42346372 ACTGCAACTTCAGGGAGATAAGATTTG-C-T
65 ACTGCAACTTCAGGGAGATAAGATTTGTCAT
* * * * * * * * * * *
42346401 ATGGTAGATTCAACTTGGCCCATTACAACTTTAGGGGTATAAGATTTGTAGCTTCAATC-TGCTT
1 -TTGTAGTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTGTAGCTT-TATCTTGCTC
* *
42346465 CACTGTAACTTTAGGGAGATAAGATT
64 CACTGCAACTTCAGGGAGATAAGATT
42346491 CACTATGGTA
Statistics
Matches: 238, Mismatches: 29, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
91 1 0.00
92 77 0.32
93 4 0.02
94 73 0.31
95 79 0.33
96 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (95 bp):
TTGTAGTTTCAATTTGACCCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTTATCTTGCTCCA
CTGCAACTTCAGGGAGATAAGATTTGTCAT
Found at i:42346397 original size:44 final size:43
Alignment explanation
Indices: 42346234--42346490 Score: 124
Period size: 44 Copynumber: 5.6 Consensus size: 43
42346224 TCATTTTGAC
* * * * *
42346234 CCACTGCAACTTCAGAGGTATAGGACTTGTAGCTT-TATCTTGCT
1 CCACTGCAACTTCAG-GGGATAAGATTTATAGCTTCAAT-TTGCT
** * * *
42346278 CCACTATAACTTCAAGGAGATAAGATTTGTCATTTGTTTCAATTTGAC-
1 CCACTGCAACTTC-AGGGGATAAGA-TT-T-A-TAGCTTCAATTTG-CT
* *
42346326 CCACTGCAACTTCAGAGGTATAGGATTTATAGCTTCAATTTGCT
1 CCACTGCAACTTCAG-GGGATAAGATTTATAGCTTCAATTTGCT
* *
42346370 CCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAACTTGGC-
1 CCACTGCAACTTCAGGG-GATAAGA-TT--TA---TAGCTTCAA-TTTGCT
* * * * *
42346420 CCATTACAACTTTAGGGGTATAAGATTTGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGG-ATAAGATTTATAGCTTCAATTTGCT
* * *
42346464 TCACTGTAACTTTAGGGAGATAAGATT
1 CCACTGCAACTTCAGGG-GATAAGATT
42346491 CACTATGGTA
Statistics
Matches: 161, Mismatches: 32, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
43 6 0.04
44 77 0.48
45 7 0.04
46 2 0.01
47 7 0.04
48 24 0.15
49 6 0.04
50 28 0.17
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGGATAAGATTTATAGCTTCAATTTGCT
Found at i:42346457 original size:94 final size:94
Alignment explanation
Indices: 42346136--42346639 Score: 426
Period size: 92 Copynumber: 5.4 Consensus size: 94
42346126 GTTTCAATCC
* * * *
42346136 GACCCACTGCAACTTCAAGGGTATAGGATTTGTAGTTTC-ATCTTGCTCCACTGCAATTTCAGGG
1 GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAGGG
* * * **
42346200 AGATAAGATTCG-TCATTTGTAGTTTCATTTT
65 AGATAAGATTTGCT-A-TGGTAGATTCAACTT
* * * * ** *
42346231 GACCCACTGCAACTTCAGAGGTATAGGACTTGTAGCTT-TATCTTGCTCCACTATAACTTCAAGG
1 GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAGGG
* * *
42346295 AGATAAGATTTG-TCAT--TTGTTTCAATTT
65 AGATAAGATTTGCT-ATGGTAGATTCAACTT
* * *
42346323 GACCCACTGCAACTTCAGAGGTATAGGATTTATAGCTTCAATTTGCTCCACTGCAACTTCAGGGA
1 GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTGCAACTTCAGGGA
42346388 GATAAGATTTGCTATGGTAGATTCAACTT
66 GATAAGATTTGCTATGGTAGATTCAACTT
* * * * * * * *
42346417 GGCCCATTACAACTTTAGGGGTATAAGATTTGTAGCTTCAATCTGCTTCACTGTAACTTTAGGGA
1 GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTGCAACTTCAGGGA
** *
42346482 GATAAGATTCACTATGGTACA-TC--C--
66 GATAAGATTTGCTATGGTAGATTCAACTT
* * * **
42346506 GACCTACTACAAC-TCAGGGGTATAGGATTTGTAGCTTCAATATGCTCCACTACAA-TTCATAGA
1 GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTGCAACTTCAGGGA
* *
42346569 GATAAGATTTACTATGGTAGAATT-AA-TCC
66 GATAAGATTTGCTATGGTAG-ATTCAACT-T
* * ** * *
42346598 GACCCACTGCAACTTTAGGGGTACGGGATTTATAGCTGCAAT
1 GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAAT
42346640 CCAATCTATT
Statistics
Matches: 341, Mismatches: 55, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
87 23 0.07
88 37 0.11
89 11 0.03
91 1 0.00
92 90 0.26
93 28 0.08
94 82 0.24
95 69 0.20
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (94 bp):
GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTGCAACTTCAGGGA
GATAAGATTTGCTATGGTAGATTCAACTT
Found at i:42352676 original size:15 final size:16
Alignment explanation
Indices: 42352651--42352684 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
42352641 TAATAACACA
42352651 AATAGATGATAATAAC
1 AATAGATGATAATAAC
*
42352667 AATA-ATGATAATGAC
1 AATAGATGATAATAAC
42352682 AAT
1 AAT
42352685 GACGTGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (16 bp):
AATAGATGATAATAAC
Found at i:42353206 original size:39 final size:41
Alignment explanation
Indices: 42353113--42353191 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
42353103 CGAATATAAT
* *
42353113 AAAT-ATTTATTTTTTATTTTTTATTTTTAAAATACTTTTA
1 AAATAATTTATTTTATATTTTTTATTTTTAAAATAATTTTA
42353153 AAATAAATTT-TTTTAT-TTTTTTATTTTTAAAATAATTTT
1 AAAT-AATTTATTTTATATTTTTTATTTTTAAAATAATTTT
42353192 TTAATGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 26 0.74
41 5 0.14
42 4 0.11
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (41 bp):
AAATAATTTATTTTATATTTTTTATTTTTAAAATAATTTTA
Found at i:42356098 original size:28 final size:31
Alignment explanation
Indices: 42356058--42356135 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 31
42356048 TTTTTTTCAA
* *
42356058 AATTTAAAATATTTAAAAAT-ATTTT-TA-T
1 AATTTTAATTATTTAAAAATAATTTTATATT
*
42356086 AATTTTAATTATTTAAAATTAATTTTATATT
1 AATTTTAATTATTTAAAAATAATTTTATATT
*
42356117 AATTTTTAATTTTTTAAAA
1 AA-TTTTAATTATTTAAAA
42356136 TTTAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 17 0.40
29 5 0.12
30 2 0.05
31 3 0.07
32 15 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
AATTTTAATTATTTAAAAATAATTTTATATT
Found at i:42356453 original size:19 final size:19
Alignment explanation
Indices: 42356429--42356466 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
42356419 TTAGGAAAAG
* *
42356429 AAATTATTTATATTTTAAT
1 AAATTATTGATAATTTAAT
42356448 AAATTATTGATAATTTAAT
1 AAATTATTGATAATTTAAT
42356467 TTGTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
AAATTATTGATAATTTAAT
Found at i:42358403 original size:75 final size:75
Alignment explanation
Indices: 42358276--42358426 Score: 284
Period size: 75 Copynumber: 2.0 Consensus size: 75
42358266 TTGATTGTCT
42358276 GTTTTCTGGGTGTTGGCTTTTTTGTCTCTGTTTTAATCTATTTGTTAATTGTGTATGATTTTACT
1 GTTTTCTGGGTGTTGGCTTTTTTGTCTCTGTTTTAATCTATTTGTTAATTGTGTATGATTTTACT
42358341 GAATTAACTA
66 GAATTAACTA
**
42358351 GTTTTCTGGGTGTTGGCTTTTTTGTCTCTGTTTTAATCTATTTGTTTCTTGTGTATGATTTTACT
1 GTTTTCTGGGTGTTGGCTTTTTTGTCTCTGTTTTAATCTATTTGTTAATTGTGTATGATTTTACT
42358416 GAATTAACTA
66 GAATTAACTA
42358426 G
1 G
42358427 GGTGAATAAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.16, C:0.10, G:0.19, T:0.55
Consensus pattern (75 bp):
GTTTTCTGGGTGTTGGCTTTTTTGTCTCTGTTTTAATCTATTTGTTAATTGTGTATGATTTTACT
GAATTAACTA
Found at i:42362591 original size:91 final size:91
Alignment explanation
Indices: 42362448--42362620 Score: 224
Period size: 91 Copynumber: 1.9 Consensus size: 91
42362438 TTGGCATCTG
* * *
42362448 TACTTTTATAAAATGTCCAATTTGGTGCTTGTACTTTGAAAATGCCCAATGTGGTAC-TAAAACT
1 TACTTTTATAAAATGTCCAATTTGGTACTTATACTTTGAAAATGACCAATGTGGTACAT-AAACT
*
42362512 ATCAATTTGTGTATTATTTGGTAGTTA
65 ATCAATATGTGTATTATTTGGTAGTTA
* * ** *
42362539 TACTTTTATAATATGTTCAATTTGGTACTTATACTTTGAAAAAT-ATTAATGTGGTACATGAACT
1 TACTTTTATAAAATGTCCAATTTGGTACTTATACTTTG-AAAATGACCAATGTGGTACATAAACT
*
42362603 ATCTATATGTGTATTATT
65 ATCAATATGTGTATTATT
42362621 ATGATACTTG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
91 64 0.91
92 6 0.09
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (91 bp):
TACTTTTATAAAATGTCCAATTTGGTACTTATACTTTGAAAATGACCAATGTGGTACATAAACTA
TCAATATGTGTATTATTTGGTAGTTA
Found at i:42369008 original size:27 final size:26
Alignment explanation
Indices: 42368957--42369010 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
42368947 ATTGGTTTGA
*
42368957 ATATTTTATTATTATTTTATTTTAAG
1 ATATTTTATTATTATTTAATTTTAAG
42368983 ATATTTTATTATT-TATTAATTGTTAAG
1 ATATTTTATTATTAT-TTAATT-TTAAG
42369010 A
1 A
42369011 AAAGAGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 1 0.04
26 18 0.72
27 6 0.24
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (26 bp):
ATATTTTATTATTATTTAATTTTAAG
Found at i:42372073 original size:35 final size:34
Alignment explanation
Indices: 42372034--42372100 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
42372024 CTCATCCTTC
* *
42372034 TATTTTAATATTTAA-ATTTGTATTATTTATTTTTT
1 TATTTT-ATATCTAACATTT-TATTATATATTTTTT
42372069 TATTTTATATCTAACTATTTTATTATATATTT
1 TATTTTATATCTAAC-ATTTTATTATATATTT
42372101 AATATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 7 0.25
35 17 0.61
36 4 0.14
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (34 bp):
TATTTTATATCTAACATTTTATTATATATTTTTT
Found at i:42372091 original size:20 final size:19
Alignment explanation
Indices: 42372066--42372108 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
42372056 TTATTTATTT
*
42372066 TTTTATTTTATATCTAACTA
1 TTTTATTATATATCTAA-TA
*
42372086 TTTTATTATATATTTAATA
1 TTTTATTATATATCTAATA
42372105 TTTT
1 TTTT
42372109 TTTCTCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATTATATATCTAATA
Found at i:42372255 original size:17 final size:19
Alignment explanation
Indices: 42372221--42372256 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
42372211 ACTTATTAAA
42372221 AAAATTTAAAATTATTTTC
1 AAAATTTAAAATTATTTTC
42372240 AAAA-TTAAAA-TATTTTC
1 AAAATTTAAAATTATTTTC
42372257 CTAATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 6 0.35
19 4 0.24
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATTTAAAATTATTTTC
Found at i:42374078 original size:16 final size:16
Alignment explanation
Indices: 42374057--42374090 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42374047 AAAAATATTC
*
42374057 ATTTAATAACACTATA
1 ATTTAAAAACACTATA
*
42374073 ATTTAAAAACATTATA
1 ATTTAAAAACACTATA
42374089 AT
1 AT
42374091 AAACTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTAAAAACACTATA
Found at i:42374598 original size:21 final size:20
Alignment explanation
Indices: 42374573--42374618 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
42374563 AAATTAGATT
*
42374573 TTTTTCTCTTGATTTTTAAAA
1 TTTTTCTCTTGA-ATTTAAAA
* *
42374594 TTTTTTTGTTGAATTTAAAA
1 TTTTTCTCTTGAATTTAAAA
42374614 TTTTT
1 TTTTT
42374619 GAAGAGGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTCTCTTGAATTTAAAA
Found at i:42378439 original size:60 final size:60
Alignment explanation
Indices: 42378360--42378478 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
42378350 TTGCTTTTTA
* * *
42378360 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
*
42378420 TAATTATTTTAAAATTAATTTATTAGTAGTTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
42378479 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
Found at i:42379068 original size:21 final size:22
Alignment explanation
Indices: 42379030--42379070 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
42379020 TTGACAAATG
* *
42379030 TTTTTATTAAAATTATTTAAAA
1 TTTTAATTAAAATAATTTAAAA
42379052 TTTTAATTAAAA-AATTTAA
1 TTTTAATTAAAATAATTTAA
42379071 CACCCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAATTAAAATAATTTAAAA
Found at i:42379388 original size:17 final size:17
Alignment explanation
Indices: 42379366--42379398 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42379356 ATAATGTAAT
*
42379366 TTTATTTGATTTTTTTA
1 TTTATTTAATTTTTTTA
42379383 TTTATTTAATTTTTTT
1 TTTATTTAATTTTTTT
42379399 TACTGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTATTTAATTTTTTTA
Found at i:42379648 original size:33 final size:33
Alignment explanation
Indices: 42379611--42379690 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
42379601 ATTATTAGAT
* *
42379611 ATTTACCGTGTTTTGTTTCTGAAATTTAAAATA
1 ATTTACCGTATTTTGTTTCTAAAATTTAAAATA
42379644 ATTTACCGTATTTTGTTTCTAAAATTTAAAATA
1 ATTTACCGTATTTTGTTTCTAAAATTTAAAATA
**
42379677 ATTTATTGTATTTT
1 ATTTACCGTATTTT
42379691 TTGAAACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (33 bp):
ATTTACCGTATTTTGTTTCTAAAATTTAAAATA
Found at i:42383438 original size:15 final size:15
Alignment explanation
Indices: 42383410--42383438 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42383400 AATGCAAAAA
42383410 AATGACAAAATTTTT
1 AATGACAAAATTTTT
42383425 AATG-CAAAATTTTT
1 AATGACAAAATTTTT
42383439 CATTCAGCAG
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:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
AATGACAAAATTTTT
Found at i:42384814 original size:9 final size:9
Alignment explanation
Indices: 42384800--42384866 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
42384790 TTTGGTTAAA
42384800 AATTAACCG
1 AATTAACCG
42384809 AATTAACC-
1 AATTAACCG
*
42384817 AGATTACCCG
1 A-ATTAACCG
42384827 AATTAACCG
1 AATTAACCG
*
42384836 AATTACCCG
1 AATTAACCG
* *
42384845 ACTTAACCA
1 AATTAACCG
42384854 AATTAACCG
1 AATTAACCG
42384863 AATT
1 AATT
42384867 GAATCACTAC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 1 0.02
9 46 0.96
10 1 0.02
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:42384838 original size:27 final size:27
Alignment explanation
Indices: 42384799--42384866 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
42384789 TTTTGGTTAA
*
42384799 AAATTAACCGAATTAACCAGA-TTACCC
1 AAATTAACCGAATT-ACCAGACTTAACC
* *
42384826 GAATTAACCGAATTACCCGACTTAACC
1 AAATTAACCGAATTACCAGACTTAACC
42384853 AAATTAACCGAATT
1 AAATTAACCGAATT
42384867 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.24
Consensus pattern (27 bp):
AAATTAACCGAATTACCAGACTTAACC
Found at i:42384934 original size:20 final size:20
Alignment explanation
Indices: 42384886--42384935 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
42384876 CATAATTAAA
*
42384886 TTATTTTTAGACTTTTAGACT
1 TTATTTTTAGA-TTTTAGAAT
*
42384907 TTAGTTTTAG-TTTTAGAAAT
1 TTATTTTTAGATTTTAG-AAT
42384927 TTATTTTTA
1 TTATTTTTA
42384936 TTTATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 9 0.36
ACGTcount: A:0.26, C:0.04, G:0.10, T:0.60
Consensus pattern (20 bp):
TTATTTTTAGATTTTAGAAT
Found at i:42386078 original size:21 final size:21
Alignment explanation
Indices: 42386052--42386206 Score: 89
Period size: 21 Copynumber: 7.3 Consensus size: 21
42386042 CCGAAGGCTG
*
42386052 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * *
42386073 AACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* **
42386094 AACGGAAGCTTGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * *
42386115 AACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
*
42386136 AACAGAAGCTCA-ATAGAGCTG
1 AACAGAAGCTCATA-AGAGCTA
* * *
42386157 AAC-GAAAACTCATATGAGTTA
1 AACAG-AAGCTCATAAGAGCTA
* *
42386178 AACAGAAGCTCGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
42386199 AACGAGAA
1 AAC-AGAA
42386207 ATAAAAACGA
Statistics
Matches: 94, Mismatches: 35, Indels: 9
0.68 0.25 0.07
Matches are distributed among these distances:
20 2 0.02
21 86 0.91
22 6 0.06
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:42386102 original size:42 final size:42
Alignment explanation
Indices: 42386052--42386207 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 42
42386042 CCGAAGGCTG
*
42386052 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTA
* ** * *
42386094 AACGGAAGCTTGTAAGAGCTAAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTA
* * * *
42386136 AACAGAAGCTCAAT-AGAGCTGAAC-GAAAACTCATATGAGTTA
1 AACAGAAGCTC-ATGAGAGCTAAACAG-AAACCCATAAGGGTTA
*
42386178 AACAGAAGCTCGTGAGAGCTAAACGAGAAA
1 AACAGAAGCTCATGAGAGCTAAAC-AGAAA
42386208 TAAAAACGAA
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 87 0.93
43 4 0.04
44 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:42386196 original size:84 final size:85
Alignment explanation
Indices: 42386052--42386207 Score: 201
Period size: 84 Copynumber: 1.8 Consensus size: 85
42386042 CCGAAGGCTG
* * * *
42386052 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTGAACGGAAGCTTGTAAGAGCTAAA
1 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAGCTAAA
42386117 CG-GAAACCCATAAGGGTTA
66 CGAGAAACCCATAAGGGTTA
* * * *
42386136 AACAGAAGCTCAAT-AGAGCTGAAC-GAAAACTCATATGAGTTAAACAGAAGCTCGTGAGAGCTA
1 AACAGAAGCTC-ATGAGAGCTAAACAG-AAACCCATAAGAGTTAAACAGAAGCTCGTAAGAGCTA
42386199 AACGAGAAA
64 AACGAGAAA
42386208 TAAAAACGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
83 1 0.02
84 54 0.89
85 6 0.10
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (85 bp):
AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAGCTAAA
CGAGAAACCCATAAGGGTTA
Found at i:42393739 original size:17 final size:17
Alignment explanation
Indices: 42393717--42393754 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
42393707 TTCATGAGAA
*
42393717 ATTTTTCTATTGAGTTC
1 ATTTTTCTACTGAGTTC
*
42393734 ATTTTTCTACTGAGTTT
1 ATTTTTCTACTGAGTTC
42393751 ATTT
1 ATTT
42393755 ATTTTTAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.61
Consensus pattern (17 bp):
ATTTTTCTACTGAGTTC
Found at i:42393826 original size:16 final size:16
Alignment explanation
Indices: 42393798--42393853 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
42393788 TAAGAGTTAT
42393798 TTATTTAATTTAATGTA
1 TTATTT-ATTTAATGTA
*
42393815 TTATTTATTTAATTTA
1 TTATTTATTTAATGTA
42393831 TTATTT-TTTACATGTAA
1 TTATTTATTTA-ATGT-A
42393848 TTATTT
1 TTATTT
42393854 TATTAGATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 4 0.11
16 18 0.51
17 13 0.37
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (16 bp):
TTATTTATTTAATGTA
Found at i:42396721 original size:26 final size:26
Alignment explanation
Indices: 42396692--42396744 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
42396682 TATTATTCTA
* *
42396692 AATTTTTTAACATTCTTTAT-ATTTTT
1 AATTTTTTAAAAAT-TTTATAATTTTT
42396718 AATTTTTTAAAAATTTTATAATTTTT
1 AATTTTTTAAAAATTTTATAATTTTT
42396744 A
1 A
42396745 TAAATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
AATTTTTTAAAAATTTTATAATTTTT
Found at i:42396741 original size:19 final size:18
Alignment explanation
Indices: 42396712--42396791 Score: 74
Period size: 20 Copynumber: 4.3 Consensus size: 18
42396702 CATTCTTTAT
42396712 ATTTTTAATTTTTTAAAA
1 ATTTTTAATTTTTTAAAA
*
42396730 ATTTTATAATTTTTATAAAT
1 ATTTT-TAATTTTT-TAAAA
*
42396750 ATTTTGAA--TTTTAAAA
1 ATTTTTAATTTTTTAAAA
* *
42396766 ATTATTTTAAATTTTTGAAA
1 A-T-TTTTAATTTTTTAAAA
42396786 ATTTTT
1 ATTTTT
42396792 TGAATTATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
16 5 0.10
17 4 0.08
18 14 0.27
19 11 0.22
20 17 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTTTTAATTTTTTAAAA
Found at i:42396754 original size:38 final size:40
Alignment explanation
Indices: 42396710--42396802 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 40
42396700 AACATTCTTT
42396710 ATATTTTTAATTTTTTAAAAATT-TTAT-AATTTTT-ATAA
1 ATATTTTTAATTTTTTAAAAATTATTATAAATTTTTGA-AA
* *
42396748 ATATTTTGAA--TTTTAAAAATTATTTTAAATTTTTGAAA
1 ATATTTTTAATTTTTTAAAAATTATTATAAATTTTTGAAA
42396786 AT-TTTTTGAATTATTTT
1 ATATTTTT-AATT-TTTT
42396803 GTAATTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
36 11 0.24
37 7 0.16
38 22 0.49
39 1 0.02
41 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (40 bp):
ATATTTTTAATTTTTTAAAAATTATTATAAATTTTTGAAA
Found at i:42396792 original size:19 final size:19
Alignment explanation
Indices: 42396713--42396797 Score: 84
Period size: 18 Copynumber: 4.5 Consensus size: 19
42396703 ATTCTTTATA
*
42396713 TTTTTAATTTTTTAAAAAT
1 TTTTTAAATTTTTAAAAAT
* *
42396732 TTTAT-AATTTTTATAAAT
1 TTTTTAAATTTTTAAAAAT
* *
42396750 ATTTTGAA-TTTTAAAAAT
1 TTTTTAAATTTTTAAAAAT
*
42396768 TATTTTAAATTTTTGAAAAT
1 T-TTTTAAATTTTTAAAAAT
*
42396788 TTTTTGAATT
1 TTTTTAAATT
42396798 ATTTTGTAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
18 23 0.43
19 20 0.38
20 10 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
TTTTTAAATTTTTAAAAAT
Found at i:42399807 original size:21 final size:21
Alignment explanation
Indices: 42399782--42399825 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
42399772 GTTATTAAAC
*
42399782 TTGATTAA-TGTTAAAGTATTA
1 TTGATAAATTGTT-AAGTATTA
*
42399803 TTGATAAATTGTTAAGTCTTA
1 TTGATAAATTGTTAAGTATTA
42399824 TT
1 TT
42399826 ACTGCTATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (21 bp):
TTGATAAATTGTTAAGTATTA
Found at i:42401781 original size:16 final size:19
Alignment explanation
Indices: 42401760--42401800 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
42401750 TTCATAAAAA
42401760 CTTTTAA-TTT-T-TTTTT
1 CTTTTAATTTTATGTTTTT
42401776 CTTTTAATTTTATGTTTTT
1 CTTTTAATTTTATGTTTTT
42401795 CTTTTA
1 CTTTTA
42401801 CCTTCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 1 0.05
19 11 0.50
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (19 bp):
CTTTTAATTTTATGTTTTT
Found at i:42405034 original size:25 final size:27
Alignment explanation
Indices: 42404986--42405036 Score: 79
Period size: 25 Copynumber: 1.9 Consensus size: 27
42404976 GCAACAGAAG
42404986 TCAGTTAGAATAATTAATAGTTAGTTGA
1 TCAGTTAG-ATAATTAATAGTTAGTTGA
42405014 TCAGTTAG-TAATT-ATAGTTAGTT
1 TCAGTTAGATAATTAATAGTTAGTT
42405037 CAGTTGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 5 0.22
28 8 0.35
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (27 bp):
TCAGTTAGATAATTAATAGTTAGTTGA
Found at i:42412243 original size:17 final size:17
Alignment explanation
Indices: 42412221--42412254 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42412211 ATCCACTAAT
*
42412221 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
42412238 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
42412255 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:42427563 original size:21 final size:22
Alignment explanation
Indices: 42427522--42427591 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 22
42427512 GGTGGCTGAG
* *
42427522 GATTAAAAC-AAGAAAACAATC
1 GATTGAAACAAAGAGAACAATC
** *
42427543 GATTGAAA-TGAGAGAATAATC
1 GATTGAAACAAAGAGAACAATC
*
42427564 TATT-AAACAAAGAGAACAATC
1 GATTGAAACAAAGAGAACAATC
42427585 GATTGAA
1 GATTGAA
42427592 TTAGGAAAAC
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
20 3 0.08
21 32 0.86
22 2 0.05
ACGTcount: A:0.54, C:0.10, G:0.16, T:0.20
Consensus pattern (22 bp):
GATTGAAACAAAGAGAACAATC
Found at i:42438192 original size:17 final size:17
Alignment explanation
Indices: 42438170--42438212 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
42438160 CCGTACCTAT
42438170 GTCTTCGTGAGATTTTC
1 GTCTTCGTGAGATTTTC
42438187 GTCTTCGTGAGATTTTC
1 GTCTTCGTGAGATTTTC
*
42438204 ATCTTCGTG
1 GTCTTCGTG
42438213 CAGCCATAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (17 bp):
GTCTTCGTGAGATTTTC
Found at i:42448351 original size:13 final size:13
Alignment explanation
Indices: 42448318--42448343 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42448308 AAAAAAGATG
42448318 ATGAAAAATGAAA
1 ATGAAAAATGAAA
42448331 ATGAAAAATGAAA
1 ATGAAAAATGAAA
42448344 GAGTAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:42450233 original size:345 final size:346
Alignment explanation
Indices: 42449565--42450238 Score: 1001
Period size: 345 Copynumber: 1.9 Consensus size: 346
42449555 AGAACAGATC
* * *
42449565 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGATTGTAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCAAAAACAAAGCCTTACCT-CATCGATTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* * * * * *
42449630 TGCCTTCTTGTATTAACAATGAAGCATATCGAAAACAAAGCCTTACCTCCATCGGTGGCAGTGAA
65 TGCCTTCCTGCATTAACAACGAAGCAGATCGAAAAAAAAGCCTCACCTCCATCGGTGGCAGTGAA
**
42449695 GCTGATTAAAGATAGCAGATCTTGCCTTCCTGCATTAATTGCGAAGCAGATCGAAAACAAAGCCT
130 GCTGATTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCT
*
42449760 TGCCTCCATCGGTGGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTACATTAACAGCG
195 TGCCTCCATCGGTGGCAATGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTACATTAACAGCG
*
42449825 AAGCAGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATC
260 AAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATC
42449890 TTGCATTCCTCGTTAATAGTGA
325 TTGCATTCCTCGTTAATAGTGA
*
42449912 AGCAGATCAAAAACAAAGCCTTACCT-ATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
1 AGCAGATCAAAAACAAAGCCTTACCTCATCGATTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
* * * *
42449976 GCCTTCCTGCATTAACAGCGAAGCAGATCGAAAAAAAAGCCTCGCCTCCATCGGTTGCAGTGGAG
66 GCCTTCCTGCATTAACAACGAAGCAGATCGAAAAAAAAGCCTCACCTCCATCGGTGGCAGTGAAG
* * * * * * *
42450041 CTGGTTAAAGATAGCAGATCTTGTCTTCCTGCGTTAACAGTGAAGCAGATTGGAAAGAAAGCCTT
131 CTGATTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTT
* * * * * * *
42450106 GCCTCCATCGGTTGTAATGGTGCTGGTTAAATATAGCAGATCTTGTCTTCCTGCGTTAACAGCGA
196 GCCTCCATCGGTGGCAATGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTACATTAACAGCGA
* * *
42450171 AGCAGATAC-AAAATAAAGTCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATC
261 AGCAGAT-CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATC
42450235 TTGC
325 TTGC
42450239 CCTCCTGTGT
Statistics
Matches: 291, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
345 266 0.91
346 1 0.00
347 24 0.08
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (346 bp):
AGCAGATCAAAAACAAAGCCTTACCTCATCGATTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
GCCTTCCTGCATTAACAACGAAGCAGATCGAAAAAAAAGCCTCACCTCCATCGGTGGCAGTGAAG
CTGATTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTT
GCCTCCATCGGTGGCAATGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTACATTAACAGCGA
AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
TGCATTCCTCGTTAATAGTGA
Found at i:42450264 original size:87 final size:87
Alignment explanation
Indices: 42449565--42450245 Score: 965
Period size: 87 Copynumber: 7.9 Consensus size: 87
42449555 AGAACAGATC
* *
42449565 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGATTGTAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* * **
42449630 TGCCTTCTTGTATTAACAATGA
66 TGCCTTCCTGCATTAACAGCGA
* * * * *
42449652 AGCATATCGAAAACAAAGCCTTACCTCCATCGGTGGCAGTGAAGCTGATTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
**
42449717 TGCCTTCCTGCATTAATTGCGA
66 TGCCTTCCTGCATTAACAGCGA
*
42449739 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTGGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
*
42449804 TGCCTTCCTACATTAACAGCGA
66 TGCCTTCCTGCATTAACAGCGA
*
42449826 AGCAGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* * * *
42449891 TGCATTCCT-CGTTAATAGTGA
66 TGCCTTCCTGCATTAACAGCGA
* *
42449912 AGCAGATCAAAAACAAAGCCTTACCT--ATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
42449975 TGCCTTCCTGCATTAACAGCGA
66 TGCCTTCCTGCATTAACAGCGA
* *
42449997 AGCAGATCGAAAAAAAAGCCTCGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* * *
42450062 TGTCTTCCTGCGTTAACAGTGA
66 TGCCTTCCTGCATTAACAGCGA
* * * * * * *
42450084 AGCAGATTGGAAAGAAAGCCTTGCCTCCATCGGTTGTAATGGTGCTGGTTAAATATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* *
42450149 TGTCTTCCTGCGTTAACAGCGA
66 TGCCTTCCTGCATTAACAGCGA
* * *
42450171 AGCAGATAC-AAAATAAAGTCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATC
1 AGCAGAT-CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATC
*
42450235 TTGCCCTCCTG
65 TTGCCTTCCTG
42450246 TGTCGACAGT
Statistics
Matches: 533, Mismatches: 57, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
84 45 0.08
85 31 0.06
86 33 0.06
87 424 0.80
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (87 bp):
AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
TGCCTTCCTGCATTAACAGCGA
Found at i:42450549 original size:44 final size:44
Alignment explanation
Indices: 42450449--42450550 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
42450439 TCGCATTGGG
** **
42450449 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAAAGCAGG
1 TCTTATCTCCCTGAAGTCACAGCGGAGCAGACTGAAAAAGCAAA
* * *
42450493 TCTT-TTTCCCCTGAAGTCACAGTGG-GACAGACTGAAGAAGCAAA
1 TCTTATCT-CCCTGAAGTCACAGCGGAG-CAGACTGAAAAAGCAAA
42450537 TCTTATCTCCCTGA
1 TCTTATCTCCCTGA
42450551 GCTTGCAGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
43 3 0.06
44 42 0.89
45 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTCACAGCGGAGCAGACTGAAAAAGCAAA
Found at i:42450632 original size:44 final size:44
Alignment explanation
Indices: 42450535--42450656 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
42450525 TGAAGAAGCA
* * * *
42450535 AATCTTATCTCCCTG-AGCTTGCAGTGGAGTAGATTGAATTCGAT
1 AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAGTCAAT
* * *
42450579 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
* *
42450622 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
42450657 CGCATCAAGT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 3 0.05
44 59 0.92
45 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
Found at i:42459373 original size:32 final size:32
Alignment explanation
Indices: 42459327--42459391 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
42459317 TGTAGAAGAC
* * *
42459327 ATATATATGTATGTACATATATG-AGTTATAAA
1 ATATACATGCATGTACATACATGTA-TTATAAA
*
42459359 ATATACATGCATGTATATACATGTATTATAAA
1 ATATACATGCATGTACATACATGTATTATAAA
42459391 A
1 A
42459392 ACGTATGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (32 bp):
ATATACATGCATGTACATACATGTATTATAAA
Found at i:42459516 original size:4 final size:4
Alignment explanation
Indices: 42459509--42459584 Score: 98
Period size: 4 Copynumber: 18.5 Consensus size: 4
42459499 ATTATAAAAA
* * **
42459509 ATGT ATGT ATGT ATGT ATAT ATAT AACAT AATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT -ATGT -ATGT ATGT ATGT ATGT ATGT
42459559 ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT
42459585 ACATATATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
4 61 0.91
5 6 0.09
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:42459516 original size:30 final size:29
Alignment explanation
Indices: 42459474--42459602 Score: 107
Period size: 30 Copynumber: 4.3 Consensus size: 29
42459464 ACAAATAAAT
*
42459474 TAAAAAAT-TATGTACGTATATATATATTA
1 TAAAAAATGTATGTATGTATATATATA-TA
*
42459503 TAAAAAATGTATGTATGTATGTATATATA
1 TAAAAAATGTATGTATGTATATATATATA
* * *
42459532 TAACATAATGTATGTATGTATGTATGTATGTA
1 TAA-AAAATGTATGTATGTA--TATATATATA
* *** *
42459564 TGTATGTATGTATGTATGTATACATATATA
1 T-AAAAAATGTATGTATGTATATATATATA
42459594 TAACAAAAT
1 TAA-AAAAT
42459603 TAAAAGGACA
Statistics
Matches: 77, Mismatches: 17, Indels: 11
0.73 0.16 0.10
Matches are distributed among these distances:
29 14 0.18
30 41 0.53
32 21 0.27
33 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (29 bp):
TAAAAAATGTATGTATGTATATATATATA
Found at i:42459520 original size:34 final size:34
Alignment explanation
Indices: 42459482--42459560 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
42459472 ATTAAAAAAT
* **
42459482 TATGTACGTATATATATATTATAAAAAATGTATG
1 TATGTATGTATATATATAACATAAAAAATGTATG
***
42459516 TATGTATGTATATATATAACATAATGTATGTATG
1 TATGTATGTATATATATAACATAAAAAATGTATG
42459550 TATGTATGTAT
1 TATGTATGTAT
42459561 GTATGTATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (34 bp):
TATGTATGTATATATATAACATAAAAAATGTATG
Found at i:42463794 original size:43 final size:43
Alignment explanation
Indices: 42463729--42463818 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
42463719 TTTTTAAAAG
*
42463729 CGCCGCTAAAGAACATGTTCTTTAGCGGCACTTCTAACACAAA
1 CGCCGCTAAAGAACATGCTCTTTAGCGGCACTTCTAACACAAA
* * * *
42463772 CGCCGCTAAAGCTA-ATGCTCTTTAGCGGCGCTTTTTACACAAA
1 CGCCGCTAAAG-AACATGCTCTTTAGCGGCACTTCTAACACAAA
42463815 CGCC
1 CGCC
42463819 ATTTTTTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGCTCTTTAGCGGCACTTCTAACACAAA
Found at i:42463881 original size:43 final size:43
Alignment explanation
Indices: 42463792--42463881 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
42463782 GCTAATGCTC
* * *
42463792 TTTAGCGGCGCTTTTTACACAAACGCCATTTTTTGTTGGTTGT
1 TTTAGCGGCGCTTTTTACAAAAACGCCATATTTTGTGGGTTGT
42463835 TTTAGCGGCGCTTTTTTA-AAAAACGCCACTAATTTTG-GGGTT-T
1 TTTAGCGGCGC-TTTTTACAAAAACGCCA-T-ATTTTGTGGGTTGT
42463878 TTTA
1 TTTA
42463882 AAAATACCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 25 0.61
44 11 0.27
45 5 0.12
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTTACAAAAACGCCATATTTTGTGGGTTGT
Found at i:42464244 original size:66 final size:66
Alignment explanation
Indices: 42464167--42464302 Score: 211
Period size: 66 Copynumber: 2.1 Consensus size: 66
42464157 CTCGCTGCAG
* * *
42464167 CCTCTGCTTCTCTGGATGCCGCATC-AGCTTTAAGTTGTCGCTGGAGTTCTTCATATTTCTTTTG
1 CCTCTGCTTCTCTCGATGCCGCATCTA-CTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTG
42464231 AA
65 AA
* *
42464233 CCTCTGCTTCTCTCGCTGCCGTATCTACTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
1 CCTCTGCTTCTCTCGATGCCGCATCTACTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
42464298 A
66 A
42464299 CCTC
1 CCTC
42464303 AACTGTGGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 63 0.98
67 1 0.02
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (66 bp):
CCTCTGCTTCTCTCGATGCCGCATCTACTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
A
Found at i:42468954 original size:9 final size:9
Alignment explanation
Indices: 42468925--42469280 Score: 351
Period size: 9 Copynumber: 39.1 Consensus size: 9
42468915 GCCTAAATCT
42468925 TGTAAGTTA
1 TGTAAGTTA
*
42468934 CT-TAATTTA
1 -TGTAAGTTA
42468943 TGTAAGTTA
1 TGTAAGTTA
42468952 TGTAAGTTA
1 TGTAAGTTA
* *
42468961 TTTAATTTA
1 TGTAAGTTA
*
42468970 TGTACGTTA
1 TGTAAGTTA
42468979 TGTAAGTTAA
1 TGTAAGTT-A
42468989 TGTAAGTTA
1 TGTAAGTTA
*
42468998 CT-TAATTTA
1 -TGTAAGTTA
42469007 TGTAAGTTA
1 TGTAAGTTA
42469016 TGTAAGTTA
1 TGTAAGTTA
* *
42469025 TTTAATTTA
1 TGTAAGTTA
*
42469034 TGCAAGTTTA
1 TGTAAG-TTA
42469044 TGTAAGTTA
1 TGTAAGTTA
42469053 TGTAAGTTA
1 TGTAAGTTA
*
42469062 TGTAGGTTA
1 TGTAAGTTA
42469071 TGTAAGTTA
1 TGTAAGTTA
42469080 TGTAAGTTA
1 TGTAAGTTA
* * *
42469089 TTTTATTTA
1 TGTAAGTTA
*
42469098 TGTAGGTTA
1 TGTAAGTTA
42469107 TGTAAGTTA
1 TGTAAGTTA
42469116 TGTAAGTTA
1 TGTAAGTTA
*
42469125 CT-TAATTTA
1 -TGTAAGTTA
* *
42469134 CGTACGTTA
1 TGTAAGTTA
*
42469143 TGTAGGTTA
1 TGTAAGTTA
42469152 TGTAAGTTA
1 TGTAAGTTA
*
42469161 TGTAAGTTC
1 TGTAAGTTA
*
42469170 CGTAAAGTTA
1 TGT-AAGTTA
*
42469180 CT-TAATTTA
1 -TGTAAGTTA
42469189 TGTAAGTTA
1 TGTAAGTTA
*
42469198 TGTAGGTTA
1 TGTAAGTTA
42469207 TGTAAGTTA
1 TGTAAGTTA
*
42469216 TATAAGTTA
1 TGTAAGTTA
* *
42469225 TTTAATTTA
1 TGTAAGTTA
**
42469234 TACAAGTTA
1 TGTAAGTTA
* *
42469243 TTTAATTTA
1 TGTAAGTTA
*
42469252 TGCAAGTTTA
1 TGTAAG-TTA
42469262 TGTAAGTTA
1 TGTAAGTTA
42469271 TGTAAGTTA
1 TGTAAGTTA
42469280 T
1 T
42469281 TGTTTTTGTG
Statistics
Matches: 281, Mismatches: 54, Indels: 23
0.78 0.15 0.06
Matches are distributed among these distances:
8 3 0.01
9 244 0.87
10 34 0.12
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.47
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:42469357 original size:12 final size:12
Alignment explanation
Indices: 42469334--42469386 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
42469324 TTATGTATTG
*
42469334 TTATATAAGTTA
1 TTATGTAAGTTA
*
42469346 TTATGTAGGTTA
1 TTATGTAAGTTA
42469358 TTATGTAAGTT-
1 TTATGTAAGTTA
42469369 TT-TGTAAGTTA
1 TTATGTAAGTTA
42469380 TTATGTA
1 TTATGTA
42469387 CAATACTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 8 0.22
11 4 0.11
12 24 0.67
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:42469379 original size:22 final size:24
Alignment explanation
Indices: 42469334--42469403 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
42469324 TTATGTATTG
* *
42469334 TTATATAAGTTATTATGTAGGTTA
1 TTATGTAAGTTATTATGTAAGTTA
42469358 TTATGTAAGTT-TT-TGTAAGTTA
1 TTATGTAAGTTATTATGTAAGTTA
* *
42469380 TTATGTACA-ATACTATGTAAGTTA
1 TTATGTA-AGTTATTATGTAAGTTA
42469404 GGATATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 16 0.41
23 4 0.10
24 19 0.49
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.49
Consensus pattern (24 bp):
TTATGTAAGTTATTATGTAAGTTA
Found at i:42469510 original size:9 final size:9
Alignment explanation
Indices: 42469496--42469552 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
42469486 ATTATATATT
*
42469496 TAAATTTTG
1 TAAATTATG
42469505 TAAATTATG
1 TAAATTATG
42469514 --AATTATG
1 TAAATTATG
42469521 TAAATTATG
1 TAAATTATG
* *
42469530 TAAAATACG
1 TAAATTATG
*
42469539 TAAGTTATG
1 TAAATTATG
42469548 -AAATT
1 TAAATT
42469553 TGAACTTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
7 7 0.18
8 4 0.10
9 28 0.72
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (9 bp):
TAAATTATG
Found at i:42469522 original size:16 final size:16
Alignment explanation
Indices: 42469498--42469529 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42469488 TATATATTTA
*
42469498 AATTTTGTAAATTATG
1 AATTATGTAAATTATG
42469514 AATTATGTAAATTATG
1 AATTATGTAAATTATG
42469530 TAAAATACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
AATTATGTAAATTATG
Found at i:42473798 original size:22 final size:21
Alignment explanation
Indices: 42473759--42473799 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
42473749 ACTCTGACTA
42473759 TAAAAACTAAACTCCAAACTT
1 TAAAAACTAAACTCCAAACTT
42473780 TAAAACACTAAA-TCACAAAC
1 TAAAA-ACTAAACTC-CAAAC
42473800 CCAATATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAAACTAAACTCCAAACTT
Found at i:42473852 original size:23 final size:22
Alignment explanation
Indices: 42473825--42473912 Score: 74
Period size: 22 Copynumber: 3.9 Consensus size: 22
42473815 CTAAACCATA
42473825 AACTATAAAACCCTTAAACTAC
1 AACTATAAAACCCTTAAACTAC
*
42473847 ATACTATAGTAAA-CATTAAACCTTA-
1 A-ACTATA--AAACCCTTAAA-C-TAC
42473872 AACTATAAAACCCTTAAACTAC
1 AACTATAAAACCCTTAAACTAC
**
42473894 AAACCCT-AAACCCTTAAAC
1 -AACTATAAAACCCTTAAAC
42473913 CATCAATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
21 2 0.04
22 17 0.31
23 16 0.30
24 12 0.22
25 5 0.09
26 2 0.04
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (22 bp):
AACTATAAAACCCTTAAACTAC
Found at i:42473897 original size:15 final size:16
Alignment explanation
Indices: 42473823--42473904 Score: 57
Period size: 16 Copynumber: 5.3 Consensus size: 16
42473813 CCCTAAACCA
42473823 TAAACTATAAAACCCT
1 TAAACTATAAAACCCT
* * **
42473839 TAAACTA-CATACTAT
1 TAAACTATAAAACCCT
*
42473854 AGTAAAC-ATTAAA-CCT
1 --TAAACTATAAAACCCT
42473870 TAAACTATAAAACCCT
1 TAAACTATAAAACCCT
*
42473886 TAAACTA-CAAACCC-
1 TAAACTATAAAACCCT
42473900 TAAAC
1 TAAAC
42473905 CCTTAAACCA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
14 10 0.20
15 15 0.29
16 19 0.37
17 7 0.14
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.24
Consensus pattern (16 bp):
TAAACTATAAAACCCT
Found at i:42474610 original size:41 final size:41
Alignment explanation
Indices: 42474344--42474606 Score: 438
Period size: 41 Copynumber: 6.4 Consensus size: 41
42474334 TGGCACATCG
*
42474344 ATAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTA-
1 ATAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTAC
* *
42474384 ATTAAAAACGCCACTAAATCCCAGAACATTAGCGGCGCTTAA
1 A-TAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTAC
*
42474426 ATAAAAACGCTGCTAAATCCCAGAACATTAGCGGCGCTTAC
1 ATAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTAC
*
42474467 ATAAAAACGCCGCTAAATCCCAGAACATTAGCGGTGCTTAC
1 ATAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTAC
42474508 ATAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTAC
1 ATAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTAC
* *
42474549 ATAAAAACGCCGCGAAAGCCCAGAACATTAGCGGCGCTTAC
1 ATAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTAC
*
42474590 ATAAAAACGCCACTAAA
1 ATAAAAACGCCGCTAAA
42474607 GCCCCCGAAA
Statistics
Matches: 209, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
40 1 0.00
41 207 0.99
42 1 0.00
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (41 bp):
ATAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTAC
Found at i:42475568 original size:31 final size:29
Alignment explanation
Indices: 42475531--42475593 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
42475521 TAGGTTTGAA
*
42475531 TTTTTAAATTCAAAAA-ATAAAAGGACTAAAT
1 TTTTTAAAAT-AAAAATATAAAA--ACTAAAT
*
42475562 TTTTTAAAATAAAAATATAGAAACTAAAT
1 TTTTTAAAATAAAAATATAAAAACTAAAT
42475591 TTT
1 TTT
42475594 AAATGTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.34
30 5 0.17
31 14 0.48
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (29 bp):
TTTTTAAAATAAAAATATAAAAACTAAAT
Found at i:42495998 original size:15 final size:15
Alignment explanation
Indices: 42495974--42496013 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
42495964 TTAAATTTAG
42495974 ATTTAATTTTTTAAT
1 ATTTAATTTTTTAAT
* *
42495989 ATTTATTTTTTTAAC
1 ATTTAATTTTTTAAT
*
42496004 ACTTAATTTT
1 ATTTAATTTT
42496014 CATTTTACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTAATTTTTTAAT
Found at i:42497320 original size:21 final size:21
Alignment explanation
Indices: 42497296--42497340 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
42497286 AAATATTACA
42497296 GGTCAAGTCAAAATTATCC-TG
1 GGTCAAGTCAAAATTA-CCTTG
*
42497317 GGTCAAGTTAAAATTACCTTG
1 GGTCAAGTCAAAATTACCTTG
42497338 GGT
1 GGT
42497341 TAAACTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (21 bp):
GGTCAAGTCAAAATTACCTTG
Found at i:42498604 original size:19 final size:19
Alignment explanation
Indices: 42498582--42498620 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
42498572 TTAACTAGAG
42498582 ATTATTAATATTA-TTATTT
1 ATTATTAAT-TTATTTATTT
*
42498601 ATTATTTATTTATTTATTT
1 ATTATTAATTTATTTATTT
42498620 A
1 A
42498621 GGTTGCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTATTAATTTATTTATTT
Found at i:42501047 original size:10 final size:10
Alignment explanation
Indices: 42501034--42501110 Score: 54
Period size: 9 Copynumber: 8.0 Consensus size: 10
42501024 AAAAAATCAT
42501034 AAAATTA-TA
1 AAAATTATTA
**
42501043 AAAAAAATTA
1 AAAATTATTA
*
42501053 AAATTTA-TA
1 AAAATTATTA
42501062 AAAATTATTA
1 AAAATTATTA
*
42501072 GAAATTAATTA
1 AAAATT-ATTA
* *
42501083 AACATCA-TA
1 AAAATTATTA
*
42501092 AAAA-AATTA
1 AAAATTATTA
42501101 AAAATTATTA
1 AAAATTATTA
42501111 TTTTTATATT
Statistics
Matches: 50, Mismatches: 13, Indels: 9
0.69 0.18 0.12
Matches are distributed among these distances:
8 1 0.02
9 24 0.48
10 18 0.36
11 7 0.14
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
AAAATTATTA
Found at i:42501048 original size:19 final size:18
Alignment explanation
Indices: 42501018--42501065 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
42501008 TACATTCTAG
*
42501018 AATTATAAAAAATCA-TAA
1 AATTATAAAAAA-AATTAA
42501036 AATTATAAAAAAAATTAA
1 AATTATAAAAAAAATTAA
42501054 AATTTATAAAAA
1 AA-TTATAAAAA
42501066 TTATTAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 17 0.63
19 9 0.33
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AATTATAAAAAAAATTAA
Found at i:42501071 original size:19 final size:19
Alignment explanation
Indices: 42501020--42501077 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
42501010 CATTCTAGAA
*
42501020 TTATAAAAAATCA-TAAAA-
1 TTAT-AAAAATAATTAAAAT
*
42501038 TTATAAAAAAAATTAAAAT
1 TTATAAAAATAATTAAAAT
*
42501057 TTATAAAAATTATTAGAAAT
1 TTATAAAAATAATTA-AAAT
42501077 T
1 T
42501078 AATTAAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 9 0.27
19 13 0.39
20 5 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
TTATAAAAATAATTAAAAT
Found at i:42501383 original size:16 final size:15
Alignment explanation
Indices: 42501326--42501386 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
42501316 TTTCTAAATA
42501326 TTTTTATAAATTATT
1 TTTTTATAAATTATT
* * *
42501341 TTTTTCT-ATTTTTT
1 TTTTTATAAATTATT
42501355 ATTTTTAATAAATTATT
1 -TTTTT-ATAAATTATT
42501372 TTCTTTATAAATTAT
1 TT-TTTATAAATTAT
42501387 ATAAAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
14 5 0.14
15 11 0.31
16 12 0.33
17 8 0.22
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAAATTATT
Found at i:42501492 original size:6 final size:6
Alignment explanation
Indices: 42501481--42501513 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
42501471 TATATACTTA
42501481 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
42501514 TTACTACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Done.