Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 23 of 170
Found at i:6076010 original size:29 final size:29
Alignment explanation
Indices: 6075960--6076025 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
6075950 ATATATAATC
* **
6075960 AAATAATAAATTATTAACATAATTTATTT
1 AAATAATAAATTATTAAAATAATAAATTT
*
6075989 TAATAATAAATT-TTAAAAATAATAAATTT
1 AAATAATAAATTATT-AAAATAATAAATTT
6076018 AAATAATA
1 AAATAATA
6076026 TTCTTCATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
AAATAATAAATTATTAAAATAATAAATTT
Found at i:6076025 original size:16 final size:17
Alignment explanation
Indices: 6075989--6076025 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
6075979 TAATTTATTT
6075989 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
6076006 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
6076021 TAATA
1 TAATA
6076026 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:6076079 original size:15 final size:15
Alignment explanation
Indices: 6076045--6076115 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
6076035 TATTATTGAA
6076045 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
6076058 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
6076073 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
6076092 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
6076107 AAATGTTTT
1 AAATATTTT
6076116 GTAGTATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 18 0.40
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:6079385 original size:22 final size:22
Alignment explanation
Indices: 6079337--6079385 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
6079327 ACGAAATGAT
* **
6079337 AGCAAAACAATGAAAAAACAGT
1 AGCAAAACAATAAAAAAACAAC
* *
6079359 GGCAAAACAATAAAAAAATAAC
1 AGCAAAACAATAAAAAAACAAC
6079381 AGCAA
1 AGCAA
6079386 TTTTTTTCTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.65, C:0.14, G:0.12, T:0.08
Consensus pattern (22 bp):
AGCAAAACAATAAAAAAACAAC
Found at i:6089848 original size:32 final size:32
Alignment explanation
Indices: 6089807--6089871 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6089797 GCCTTGGGAG
6089807 TATGCTTTAGAACCCAAGTTTGATTCCTAAGT
1 TATGCTTTAGAACCCAAGTTTGATTCCTAAGT
6089839 TATGCTTTAGAACCCAAGTTTGATTCCTAAGT
1 TATGCTTTAGAACCCAAGTTTGATTCCTAAGT
6089871 T
1 T
6089872 TAAGATTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (32 bp):
TATGCTTTAGAACCCAAGTTTGATTCCTAAGT
Found at i:6095615 original size:3 final size:3
Alignment explanation
Indices: 6095607--6095647 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
6095597 TAAACAAAGC
* *
6095607 TAA TAA TAA TAA TAA TAA TAT TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6095648 CATATATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:6095954 original size:20 final size:20
Alignment explanation
Indices: 6095904--6095947 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
6095894 TTACATATAG
6095904 AAAT-ATATAAAAAAAAATT
1 AAATAATATAAAAAAAAATT
*
6095923 AAATAACATAAAATAAAACATT
1 AAATAATATAAAA-AAAA-ATT
6095945 AAA
1 AAA
6095948 ATATAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 7 0.33
21 4 0.19
22 6 0.29
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAATATAAAAAAAAATT
Found at i:6108439 original size:33 final size:33
Alignment explanation
Indices: 6108402--6108470 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
6108392 ACTAATAAGG
6108402 TATCTAAACGTGATTGCATCCACCACAGGAGAA
1 TATCTAAACGTGATTGCATCCACCACAGGAGAA
6108435 TATCTAAACGTGATTGCATCCACCACAGGAGAA
1 TATCTAAACGTGATTGCATCCACCACAGGAGAA
6108468 TAT
1 TAT
6108471 GTATCTTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (33 bp):
TATCTAAACGTGATTGCATCCACCACAGGAGAA
Found at i:6119533 original size:21 final size:21
Alignment explanation
Indices: 6119509--6119556 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
6119499 AGAACTAAAC
6119509 ATCCTTTCCTCTGTTACAAAT
1 ATCCTTTCCTCTGTTACAAAT
6119530 ATCCTTTCCTCTGTTACAAAT
1 ATCCTTTCCTCTGTTACAAAT
6119551 ATCCTT
1 ATCCTT
6119557 ACCTGGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.29, G:0.04, T:0.44
Consensus pattern (21 bp):
ATCCTTTCCTCTGTTACAAAT
Found at i:6132998 original size:72 final size:72
Alignment explanation
Indices: 6132877--6133020 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 72
6132867 CGAAGGAACT
* *
6132877 AAGGGAGGCAACAGAGTAAACATATTGAATGTTAAGTAAATCCACATGAAATTTACTTAACTTAC
1 AAGGGAGGCAACAGAGTAAACATATTAAACGTTAAGTAAATCCACATGAAATTTACTTAACTTAC
6132942 CTTAACA
66 CTTAACA
** * *
6132949 AAGGGAGGCAATGGAGTAAACATATTAAACGCTT-AGTAAGTCCATATGAAATTTACTTAACTTA
1 AAGGGAGGCAACAGAGTAAACATATTAAACG-TTAAGTAAATCCACATGAAATTTACTTAACTTA
6133013 CCTTAACA
65 CCTTAACA
6133021 TTACAACAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 63 0.97
73 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (72 bp):
AAGGGAGGCAACAGAGTAAACATATTAAACGTTAAGTAAATCCACATGAAATTTACTTAACTTAC
CTTAACA
Found at i:6136992 original size:13 final size:13
Alignment explanation
Indices: 6136976--6137001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6136966 ATATAACCCC
6136976 TAAAAATAAAAAA
1 TAAAAATAAAAAA
6136989 TAAAAATAAAAAA
1 TAAAAATAAAAAA
6137002 GAGAGAAAAT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:6151627 original size:260 final size:260
Alignment explanation
Indices: 6151166--6151688 Score: 1028
Period size: 260 Copynumber: 2.0 Consensus size: 260
6151156 TCTAATGGTG
6151166 CATTTGGGAGGACTGGGGAAGTGATGGGATATGTGACAATGAAGTTCATGGATTGCTGGTACAAG
1 CATTTGGGAGGACTGGGGAAGTGATGGGATATGTGACAATGAAGTTCATGGATTGCTGGTACAAG
6151231 TGAAAATCAGACTTTAAGAAGTTCAGAATGGATCAAGTCTTGTGTATTTCAGATATTACTAGAAT
66 TGAAAATCAGACTTTAAGAAGTTCAGAATGGATCAAGTCTTGTGTATTTCAGATATTACTAGAAT
*
6151296 TGAAGGGTTTTATAGCTTACTGAATTGTTTTCCATTTATAACTTCAAAGGACATTTATGTTCTTG
131 TGAAGGGTTTTATAGCTTACTGAATTGTTTTCCATTTATAACTTCAAAGGACATTTACGTTCTTG
6151361 GTAGCTTTTGAACATATTCTACGATGTGGAAAACATTTGGAATGTTCTTCAAAACTAGATATTTA
196 GTAGCTTTTGAACATATTCTACGATGTGGAAAACATTTGGAATGTTCTTCAAAACTAGATATTTA
*
6151426 CATTTGGGAGGACTGGGGAAGTGATGGGATATGTGATAATGAAGTTCATGGATTGCTGGTACAAG
1 CATTTGGGAGGACTGGGGAAGTGATGGGATATGTGACAATGAAGTTCATGGATTGCTGGTACAAG
6151491 TGAAAATCAGACTTTAAGAAGTTCAGAATGGATCAAGTCTTGTGTATTTCAGATATTACTAGAAT
66 TGAAAATCAGACTTTAAGAAGTTCAGAATGGATCAAGTCTTGTGTATTTCAGATATTACTAGAAT
6151556 TGAAGGGTTTTATAGCTTACTGAATTGTTTTCCATTTATAACTTCAAAGGACATTTACGTTCTTG
131 TGAAGGGTTTTATAGCTTACTGAATTGTTTTCCATTTATAACTTCAAAGGACATTTACGTTCTTG
6151621 GTAGCTTTTGAACATATTCTACGATGTGGAAAACATTTGGAATGTTCTTCAAAACTAGATATTTA
196 GTAGCTTTTGAACATATTCTACGATGTGGAAAACATTTGGAATGTTCTTCAAAACTAGATATTTA
6151686 CAT
1 CAT
6151689 GGTGATCCTG
Statistics
Matches: 261, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
260 261 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.35
Consensus pattern (260 bp):
CATTTGGGAGGACTGGGGAAGTGATGGGATATGTGACAATGAAGTTCATGGATTGCTGGTACAAG
TGAAAATCAGACTTTAAGAAGTTCAGAATGGATCAAGTCTTGTGTATTTCAGATATTACTAGAAT
TGAAGGGTTTTATAGCTTACTGAATTGTTTTCCATTTATAACTTCAAAGGACATTTACGTTCTTG
GTAGCTTTTGAACATATTCTACGATGTGGAAAACATTTGGAATGTTCTTCAAAACTAGATATTTA
Found at i:6155686 original size:2 final size:2
Alignment explanation
Indices: 6155679--6155707 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6155669 TTAATCAAGG
6155679 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
6155708 TTGGTGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6156920 original size:16 final size:16
Alignment explanation
Indices: 6156899--6156929 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6156889 AAATAATATA
6156899 TATTTTTTTAGAAAGC
1 TATTTTTTTAGAAAGC
*
6156915 TATTTTTTTATAAAG
1 TATTTTTTTAGAAAG
6156930 AAGTTAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (16 bp):
TATTTTTTTAGAAAGC
Found at i:6156977 original size:21 final size:21
Alignment explanation
Indices: 6156948--6156987 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6156938 ATAAGAAAAC
6156948 AAAACTATAACATTTTTATGA
1 AAAACTATAACATTTTTATGA
* **
6156969 AAAAGTATATTATTTTTAT
1 AAAACTATAACATTTTTAT
6156988 AATATATAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAACTATAACATTTTTATGA
Found at i:6157173 original size:28 final size:26
Alignment explanation
Indices: 6157130--6157182 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 26
6157120 ACCATTTGAA
*
6157130 TTTTTTTTAGAATTTACATAATATAC
1 TTTTTTTTAGAATTTACAAAATATAC
* *
6157156 TTTTTTGTTATAACTTTATAAAATATA
1 TTTTTT-TTAGAA-TTTACAAAATATA
6157183 TAAATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 6 0.27
27 5 0.23
28 11 0.50
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTTTTTTAGAATTTACAAAATATAC
Found at i:6157779 original size:34 final size:34
Alignment explanation
Indices: 6157716--6157830 Score: 139
Period size: 34 Copynumber: 3.5 Consensus size: 34
6157706 TTTAGAATTT
* *
6157716 TTTTAA-AAATTTAATTAAATTAAGTTTTAGGGG
1 TTTTAAGAAAATTAATTAAATTAAGGTTTAGGGG
* * *
6157749 TTTTAAGTAAATTAATTAAAATAAGGTTTAGGGT
1 TTTTAAGAAAATTAATTAAATTAAGGTTTAGGGG
*
6157783 TTTTAAGAAAATTAATTAAATTAGGGTTTA--GG
1 TTTTAAGAAAATTAATTAAATTAAGGTTTAGGGG
*
6157815 TTTTAA-AAAAATAATT
1 TTTTAAGAAAATTAATT
6157831 TTGTGTTTAG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
31 9 0.13
32 7 0.10
33 6 0.08
34 49 0.69
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.43
Consensus pattern (34 bp):
TTTTAAGAAAATTAATTAAATTAAGGTTTAGGGG
Found at i:6158263 original size:127 final size:126
Alignment explanation
Indices: 6157913--6158439 Score: 696
Period size: 126 Copynumber: 4.2 Consensus size: 126
6157903 GATTTTGTTT
* * * * * * *
6157913 TCTTTTTCTACAGTAGTTTCTGAAAAATTAATTTTGAGAAGATACTTCTGAAAAGATAATGTCAA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAAATAGTGTCAA
* * * * * * *
6157978 ACACGCTTTAAACAGGATGTACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACGC
66 AAACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGATGC
* * * *
6158039 TCTTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTTTGAAAAAATAGTGTCAA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAAATAGTGTCAA
* *
6158104 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCATGTGGATGC
66 AAACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGATGC
*
6158165 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACGGTTCTGAAAAAAATAGTGTCA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACAGTTCTG-AAAAAATAGTGTCA
* * * *
6158230 AAAACGCTTCAAACAGGATACACTGTCAACAAAATTACTGAAAAAAGC-TCCTACATGAATGC
65 AAAACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCC-ACGTGGATGC
* ** * *
6158292 TCTTTTTCTACAGTAGATCCTGAAAAAATAATTTAGAGAAGATGGTTCTGAAGAAATAGTGTTAA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAAATAGTGTCAA
* * * * *
6158357 AAACGCTTCAAGCAGGATGCACTATTAGCAAAATTACTGAAAAAAGCTTCCAGGTGGAGGC
66 AAACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGATGC
* *
6158418 ACTTTTTCTAAAGTAGTTCCTG
1 TCTTTTTCTACAGTAGTTCCTG
6158440 CTTGGCCTTA
Statistics
Matches: 353, Mismatches: 45, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
126 236 0.67
127 117 0.33
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAAATAGTGTCAA
AAACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGATGC
Found at i:6158361 original size:253 final size:252
Alignment explanation
Indices: 6157913--6158439 Score: 739
Period size: 253 Copynumber: 2.1 Consensus size: 252
6157903 GATTTTGTTT
* * * * *
6157913 TCTTTTTCTACAGTAGTTTCTGAAAAATTAATTTTGAGAAGATACTTCTGAAAAGATAATGTCAA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACACTTCTGAAAAAATAATGTCAA
* * ** * * *
6157978 ACACGCTTTAAACAGGATGTACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACGCTCTT
66 AAACGCTTCAAACAGGATACACTGTCAACAAAAGTACTAAAAAAAGCTCCCACATGAACGCTCTT
* * * * *
6158043 TTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTTTGAAAAAATAGTGTCAAAAAC
131 TTTCTACAGTAGATCCTGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAAATAGTGTCAAAAAC
* * *
6158108 GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCATGTGGATGC
196 GCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCAGGTGGAGGC
** *
6158165 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACGGTTCTGAAAAAAATAGTGTCA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACACTTCTG-AAAAAATAATGTCA
* * * *
6158230 AAAACGCTTCAAACAGGATACACTGTCAACAAAATTACTGAAAAAAGCTCCTACATGAATGCTCT
65 AAAACGCTTCAAACAGGATACACTGTCAACAAAAGTACTAAAAAAAGCTCCCACATGAACGCTCT
** * *
6158295 TTTTCTACAGTAGATCCTGAAAAAATAATTTAGAGAAGATGGTTCTGAAGAAATAGTGTTAAAAA
130 TTTTCTACAGTAGATCCTGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAAATAGTGTCAAAAA
*
6158360 CGCTTCAAGCAGGATGCACTATTAGCAAAATTACTGAAAAAAGCTTCCAGGTGGAGGC
195 CGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCAGGTGGAGGC
* *
6158418 ACTTTTTCTAAAGTAGTTCCTG
1 TCTTTTTCTACAGTAGTTCCTG
6158440 CTTGGCCTTA
Statistics
Matches: 240, Mismatches: 34, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
252 44 0.18
253 196 0.82
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (252 bp):
TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTAGAGAAGACACTTCTGAAAAAATAATGTCAA
AAACGCTTCAAACAGGATACACTGTCAACAAAAGTACTAAAAAAAGCTCCCACATGAACGCTCTT
TTTCTACAGTAGATCCTGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAAATAGTGTCAAAAAC
GCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCAGGTGGAGGC
Found at i:6160417 original size:21 final size:21
Alignment explanation
Indices: 6160390--6160446 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
6160380 CTTCAGTTTC
6160390 ACCCTTATGGGTTTCCGTTCA
1 ACCCTTATGGGTTTCCGTTCA
* * *
6160411 ACTCTTATGAGCTTCCGTTCA
1 ACCCTTATGGGTTTCCGTTCA
6160432 ACCCTTATGGGTTTC
1 ACCCTTATGGGTTTC
6160447 TGTTTAGCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.39
Consensus pattern (21 bp):
ACCCTTATGGGTTTCCGTTCA
Found at i:6160460 original size:42 final size:42
Alignment explanation
Indices: 6160317--6160461 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
6160307 TCGTGTTTAC
* * *
6160317 TTTCCGTTTAGCTCTCATGAGCTTCAGTTTAACCC-TATTGGG
1 TTTCCGTTCAGCTCTTATGAGCTTCAGTTCAACCCTTA-TGGG
** *
6160359 TTTTTGTTCAGCTCTTTTGAGCTTCAGTTTC-ACCCTTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTCAG-TTCAACCCTTATGGG
* *
6160401 TTTCCGTTCAACTCTTATGAGCTTCCGTTCAACCCTTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTCAGTTCAACCCTTATGGG
* * *
6160443 TTTCTGTTTAGCACTTATG
1 TTTCCGTTCAGCTCTTATG
6160462 TTCTTCTGTG
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 3 0.04
42 78 0.92
43 4 0.05
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.43
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTATGAGCTTCAGTTCAACCCTTATGGG
Found at i:6164724 original size:18 final size:18
Alignment explanation
Indices: 6164698--6164743 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
6164688 GACTGGAAAA
* * *
6164698 AGGAAACATATAAGTGTT
1 AGGATACATATAAGGGCT
6164716 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
6164734 AGGATACATA
1 AGGATACATA
6164744 CTGGCATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:6167234 original size:14 final size:14
Alignment explanation
Indices: 6167214--6167246 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6167204 TGCTTGGCAG
6167214 ATTTAGTACTCTCA
1 ATTTAGTACTCTCA
*
6167228 CTTTAGTACTCTCA
1 ATTTAGTACTCTCA
6167242 ATTTA
1 ATTTA
6167247 TAAATAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.45
Consensus pattern (14 bp):
ATTTAGTACTCTCA
Found at i:6167776 original size:21 final size:22
Alignment explanation
Indices: 6167746--6167815 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
6167736 CGACCCGAAT
*
6167746 TATATATTAAATATATATTTTT
1 TATATATTAAATATATATTTTA
* *
6167768 TAT-TTTTAATCAAATATATTTTA
1 TATATATTAA--ATATATATTTTA
*
6167791 TATATATTAAATATATATTTAA
1 TATATATTAAATATATATTTTA
6167813 TAT
1 TAT
6167816 GGGTCGGGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 5 0.13
22 16 0.41
23 13 0.33
24 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (22 bp):
TATATATTAAATATATATTTTA
Found at i:6167797 original size:11 final size:11
Alignment explanation
Indices: 6167781--6167815 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
6167771 TTTTAATCAA
*
6167781 ATATATTTTAT
1 ATATATTTAAT
*
6167792 ATATATTAAAT
1 ATATATTTAAT
6167803 ATATATTTAAT
1 ATATATTTAAT
6167814 AT
1 AT
6167816 GGGTCGGGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATATTTAAT
Found at i:6177463 original size:362 final size:363
Alignment explanation
Indices: 6176798--6177524 Score: 1420
Period size: 362 Copynumber: 2.0 Consensus size: 363
6176788 TCATAATTAA
6176798 TATAATTTAATAAATAATGTTAAAAGTACAATGGTTTGATACACGGTCCAAAATGCCTCTTCAAC
1 TATAATTTAATAAATAATGTTAAAAGTACAATGGTTTGATACACGGTCCAAAATGCCTCTTCAAC
6176863 CTCAACTTTCTGTAGGTAAGAGAATACCTGCTGGACGTGACAATCGCAGAGGTACAAAATAGAAT
66 CTCAACTTTCTGTAGGTAAGAGAATACCTGCTGGACGTGACAATCGCAGAGGTACAAAATAGAAT
6176928 GAAGCAAGACGACCTAAAATAATGCTCTAATAAATTACCTCAGAGCCCACAAACTTTTCCGGCTG
131 GAAGCAAGACGACCTAAAATAATGCTCTAATAAATTACCTCAGAGCCCACAAACTTTTCCGGCTG
6176993 ACAACGATGCAGCACTTTGACATCTAGTCCAAAATAATTATTCCATAAGTTGAACAACAAGCTCA
196 ACAACGATGCAGCACTTTGACATCTAGTCCAAAATAATTATTCCATAAGTTGAACAACAAGCTCA
6177058 CAAGCACTTTAAAATTCGCAGCAGCCAATTCAACTCTCCAAACTCTAGATTTCCTCTCCATTATC
261 CAAGCACTTTAAAATTCGCAGCAGCCAATTCAACTCTCCAAACTCTAGATTTCCTCTCCATTATC
6177123 GAGAACCAGCTGC-AAGTGATCTTTCCACTCAAACAGG
326 GAGAACCAGCTGCAAAGTGATCTTTCCACTCAAACAGG
6177160 TATAATTTAATAAATAATGTTAAAAGTACAATGGTTTGATACACGGTCCAAAATGCCTCTTCAAC
1 TATAATTTAATAAATAATGTTAAAAGTACAATGGTTTGATACACGGTCCAAAATGCCTCTTCAAC
6177225 CTCAACTTTCTGTAGGTAAGAGAATACCTGCTGGACGTGACAATCGCAGAGGTACAAAATAGAAT
66 CTCAACTTTCTGTAGGTAAGAGAATACCTGCTGGACGTGACAATCGCAGAGGTACAAAATAGAAT
6177290 GAAGCAAGACGACCTAAAATAATGCTCTAATAAATTACCTCAGAGCCCACAAACTTTTCCGGCTG
131 GAAGCAAGACGACCTAAAATAATGCTCTAATAAATTACCTCAGAGCCCACAAACTTTTCCGGCTG
*
6177355 ACATCGATGCAGCACTTTGACATCTAGTCCAAAATAATTATTCCATAAGTTGAACAACAAGCTCA
196 ACAACGATGCAGCACTTTGACATCTAGTCCAAAATAATTATTCCATAAGTTGAACAACAAGCTCA
6177420 CAAGCACTTTAAAATTCGCAGCAGCCAATTCAACTCTCCAAACTCTAGATTTCCTCTCCATTATC
261 CAAGCACTTTAAAATTCGCAGCAGCCAATTCAACTCTCCAAACTCTAGATTTCCTCTCCATTATC
6177485 GAGAACCAGCTGCAAGAAGTGATCTTTCCACTCAAACAGG
326 GAGAACCAGCTGC-A-AAGTGATCTTTCCACTCAAACAGG
6177525 CCCGCGAAAG
Statistics
Matches: 361, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
362 337 0.93
365 24 0.07
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (363 bp):
TATAATTTAATAAATAATGTTAAAAGTACAATGGTTTGATACACGGTCCAAAATGCCTCTTCAAC
CTCAACTTTCTGTAGGTAAGAGAATACCTGCTGGACGTGACAATCGCAGAGGTACAAAATAGAAT
GAAGCAAGACGACCTAAAATAATGCTCTAATAAATTACCTCAGAGCCCACAAACTTTTCCGGCTG
ACAACGATGCAGCACTTTGACATCTAGTCCAAAATAATTATTCCATAAGTTGAACAACAAGCTCA
CAAGCACTTTAAAATTCGCAGCAGCCAATTCAACTCTCCAAACTCTAGATTTCCTCTCCATTATC
GAGAACCAGCTGCAAAGTGATCTTTCCACTCAAACAGG
Found at i:6189382 original size:13 final size:13
Alignment explanation
Indices: 6189364--6189405 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
6189354 AATTTCAAAT
6189364 TATTTAGTGATAA
1 TATTTAGTGATAA
*
6189377 TATTTA--GA-AT
1 TATTTAGTGATAA
6189387 TATTTAGTGATAA
1 TATTTAGTGATAA
6189400 TATTTA
1 TATTTA
6189406 AGAACGATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
12 2 0.08
13 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:6189387 original size:23 final size:23
Alignment explanation
Indices: 6189361--6189405 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
6189351 TTAAATTTCA
6189361 AATTATTTAGTGATAATATTTAG
1 AATTATTTAGTGATAATATTTAG
6189384 AATTATTTAGTGATAATATTTA
1 AATTATTTAGTGATAATATTTA
6189406 AGAACGATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (23 bp):
AATTATTTAGTGATAATATTTAG
Found at i:6197777 original size:13 final size:13
Alignment explanation
Indices: 6197759--6197785 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6197749 CTTTTCTCTC
6197759 TCAAGCTGGATGT
1 TCAAGCTGGATGT
6197772 TCAAGCTGGATGT
1 TCAAGCTGGATGT
6197785 T
1 T
6197786 AATTTGCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (13 bp):
TCAAGCTGGATGT
Found at i:6200355 original size:12 final size:12
Alignment explanation
Indices: 6200338--6200363 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6200328 TGTGTTGTTG
6200338 ATTATGGAGAGC
1 ATTATGGAGAGC
6200350 ATTATGGAGAGC
1 ATTATGGAGAGC
6200362 AT
1 AT
6200364 ATCTTCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (12 bp):
ATTATGGAGAGC
Found at i:6210116 original size:25 final size:25
Alignment explanation
Indices: 6210088--6210135 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6210078 TTACTGATAC
* *
6210088 TCAGCTCGCATGAGCTTGCCGTTAT
1 TCAGCTCGCAGGAGCTTACCGTTAT
*
6210113 TCAGCTCGGAGGAGCTTACCGTT
1 TCAGCTCGCAGGAGCTTACCGTT
6210136 TATAGCTCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (25 bp):
TCAGCTCGCAGGAGCTTACCGTTAT
Found at i:6212594 original size:30 final size:29
Alignment explanation
Indices: 6212529--6212613 Score: 129
Period size: 27 Copynumber: 3.0 Consensus size: 29
6212519 AAATGTGAAA
*
6212529 AGGGGGTTGCTATGTGCTGATTCCCC-CG
1 AGGGGGTTGCTATGTGCTGATTCCCCGAG
6212557 A-GGGGTTGCTATGTGCTGAATTCCCCGAG
1 AGGGGGTTGCTATGTGCTG-ATTCCCCGAG
*
6212586 AGGGGGTTGCTAAGTGCTGATTCCCCGA
1 AGGGGGTTGCTATGTGCTGATTCCCCGA
6212614 TTCAGTGGTG
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
27 17 0.33
28 8 0.15
29 11 0.21
30 16 0.31
ACGTcount: A:0.15, C:0.22, G:0.35, T:0.27
Consensus pattern (29 bp):
AGGGGGTTGCTATGTGCTGATTCCCCGAG
Found at i:6219979 original size:26 final size:26
Alignment explanation
Indices: 6219944--6219994 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
6219934 AATGTGAAAG
*
6219944 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
6219970 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
6219995 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:6220006 original size:103 final size:104
Alignment explanation
Indices: 6219866--6220228 Score: 591
Period size: 103 Copynumber: 3.6 Consensus size: 104
6219856 TGTATATAAA
* * * *
6219866 AGGGGTTGCTATGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
6219930 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
6219969 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
6220034 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
6220073 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
6220138 TGAAA--T-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
6220174 AGGGGTTGCTAA--G-TGATTCCCCGATTCAGTGGTGGTGCTAAGTGCG-GATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
6220229 ATAACGGTTA
Statistics
Matches: 250, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
97 8 0.03
98 32 0.13
99 1 0.00
101 42 0.17
102 1 0.00
103 91 0.36
104 75 0.30
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:6235613 original size:6 final size:7
Alignment explanation
Indices: 6235594--6235626 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
6235584 AAAAAAGAAT
6235594 GAAAAAG
1 GAAAAAG
6235601 GAAAAAAG
1 G-AAAAAG
6235609 GAAAAAG
1 GAAAAAG
6235616 GAAAAAG
1 GAAAAAG
6235623 GAAA
1 GAAA
6235627 GCTAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
GAAAAAG
Found at i:6242018 original size:31 final size:31
Alignment explanation
Indices: 6241982--6242040 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
6241972 AACTTTAATT
* *
6241982 CTTATACTTTTCGAATTTGTCAATTTTAGTC
1 CTTATACTTTTCAAATTTGTAAATTTTAGTC
6242013 CTTATACTTTTCAAATTTGTAAATTTTA
1 CTTATACTTTTCAAATTTGTAAATTTTA
6242041 ATGCTAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.53
Consensus pattern (31 bp):
CTTATACTTTTCAAATTTGTAAATTTTAGTC
Found at i:6245795 original size:3 final size:3
Alignment explanation
Indices: 6245789--6245839 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
6245779 TTTTAACTGT
6245789 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6245836 TTA T
1 TTA T
6245840 AACATTCATG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6257952 original size:45 final size:46
Alignment explanation
Indices: 6257901--6258050 Score: 137
Period size: 45 Copynumber: 3.3 Consensus size: 46
6257891 GAAAAGCAGC
*
6257901 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAA-GAAAGT
1 AGATCTTGCCTTCCCATACTGGTGGAGAAGCAGATCAAAGGAAAGT
* *** * * * * *
6257946 AGATCTTGTCTTCATGTAC-CG-GCATGAAGTAGATCAAAGGTAA-C
1 AGATCTTGCCTTCCCATACTGGTGGA-GAAGCAGATCAAAGGAAAGT
*
6257990 AAATCTTGCCTTCCCATACTGGTGGAGAAGCAGATCAAAGGAAAAAGT
1 AGATCTTGCCTTCCCATACTGGTGGAGAAGCAGATCAAAGG--AAAGT
*
6258038 AGATCTTGTCTTC
1 AGATCTTGCCTTC
6258051 ATGTACTGGC
Statistics
Matches: 76, Mismatches: 22, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
43 1 0.01
44 27 0.36
45 33 0.43
46 2 0.03
47 2 0.03
48 11 0.14
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (46 bp):
AGATCTTGCCTTCCCATACTGGTGGAGAAGCAGATCAAAGGAAAGT
Found at i:6257983 original size:44 final size:45
Alignment explanation
Indices: 6257927--6258076 Score: 126
Period size: 44 Copynumber: 3.3 Consensus size: 45
6257917 TACTGGTGGC
6257927 GAAGCAGATCAAA-GAAAGTAGATCTTGTCTTCATGTACCGGCAT
1 GAAGCAGATCAAAGGAAAGTAGATCTTGTCTTCATGTACCGGCAT
* * * * * *** * *
6257971 GAAGTAGATCAAAGGTAA-CAAATCTTGCCTTCCCATACTGGTGGA-
1 GAAGCAGATCAAAGGAAAGTAGATCTTGTCTTCATGTAC-CG-GCAT
* *
6258016 GAAGCAGATCAAAGGAAAAAGTAGATCTTGTCTTCATGTACTGGCGT
1 GAAGCAGATCAAAGG--AAAGTAGATCTTGTCTTCATGTACCGGCAT
*
6258063 GAAGTAGATCAAAG
1 GAAGCAGATCAAAG
6258077 ACATCAGGTC
Statistics
Matches: 77, Mismatches: 22, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
44 26 0.34
45 18 0.23
46 3 0.04
47 16 0.21
48 14 0.18
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (45 bp):
GAAGCAGATCAAAGGAAAGTAGATCTTGTCTTCATGTACCGGCAT
Found at i:6258074 original size:92 final size:89
Alignment explanation
Indices: 6257903--6258076 Score: 294
Period size: 92 Copynumber: 1.9 Consensus size: 89
6257893 AAAGCAGCAG
*
6257903 ATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTCATGTACCGG
1 ATCTTGCCTTCCCATACTGGTGGAGAAGCAGATCAAAGAAAGTAGATCTTGTCTTCATGTACCGG
6257968 CATGAAGTAGATCAAAGGTAACAA
66 CATGAAGTAGATCAAAGGTAACAA
6257992 ATCTTGCCTTCCCATACTGGTGGAGAAGCAGATCAAAGGAAAAAGTAGATCTTGTCTTCATGTAC
1 ATCTTGCCTTCCCATACTGGTGGAGAAGCAGATCAAA-G--AAAGTAGATCTTGTCTTCATGTAC
* *
6258057 TGGCGTGAAGTAGATCAAAG
63 CGGCATGAAGTAGATCAAAG
6258077 ACATCAGGTC
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
89 36 0.46
90 1 0.01
92 42 0.53
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (89 bp):
ATCTTGCCTTCCCATACTGGTGGAGAAGCAGATCAAAGAAAGTAGATCTTGTCTTCATGTACCGG
CATGAAGTAGATCAAAGGTAACAA
Found at i:6259454 original size:10 final size:9
Alignment explanation
Indices: 6259436--6259460 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6259426 GGGCCTTTGA
6259436 TTCTTTTTT
1 TTCTTTTTT
6259445 TTCTTTTTT
1 TTCTTTTTT
6259454 TTCTTTT
1 TTCTTTT
6259461 CACTCGGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:6266517 original size:14 final size:14
Alignment explanation
Indices: 6266498--6266533 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
6266488 TGAAAATGAA
6266498 AAACATATGCATGT
1 AAACATATGCATGT
6266512 AAACATATGCATGT
1 AAACATATGCATGT
*
6266526 ACACATAT
1 AAACATAT
6266534 TTAAAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (14 bp):
AAACATATGCATGT
Found at i:6267003 original size:3 final size:3
Alignment explanation
Indices: 6266891--6266984 Score: 86
Period size: 3 Copynumber: 30.7 Consensus size: 3
6266881 ATATTATCAG
* * *
6266891 AAT AAT AAT GAAT AAAT AA- AAG AAA AAT AA- AACT AAT AAT GAT CAAT
1 AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT
*
6266938 AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT GAA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
6266983 AA
1 AA
6266985 AGTAATTAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.08
3 59 0.77
4 12 0.16
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:6283535 original size:30 final size:30
Alignment explanation
Indices: 6283490--6283670 Score: 262
Period size: 30 Copynumber: 6.1 Consensus size: 30
6283480 ATAGAAACTA
*
6283490 ATATCAGTTAACTGATTCTTAGGAAATTAGG
1 ATATCAATT-ACTGATTCTTAGGAAATTAGG
*
6283521 ATATCAATTACTGATTCTTAGGAAAACTA--
1 ATATCAATTACTGATTCTTAGG-AAATTAGG
*
6283550 ATATCAGTTACTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
*
6283580 ATATCAATTACTGATTCTTAGGAAAACTA--
1 ATATCAATTACTGATTCTTAGG-AAATTAGG
*
6283609 ATATCAGTTACTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
6283639 ATATCAATTACTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
6283669 AT
1 AT
6283671 TTATTTCCTT
Statistics
Matches: 135, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
28 10 0.07
29 42 0.31
30 65 0.48
31 18 0.13
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (30 bp):
ATATCAATTACTGATTCTTAGGAAATTAGG
Found at i:6283577 original size:59 final size:59
Alignment explanation
Indices: 6283484--6283663 Score: 351
Period size: 59 Copynumber: 3.0 Consensus size: 59
6283474 TTGTAAATAG
6283484 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
1 AAACTAATATCAGTT-ACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
6283544 AAACTAATATCAGTTACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
1 AAACTAATATCAGTTACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
6283603 AAACTAATATCAGTTACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
1 AAACTAATATCAGTTACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
6283662 AA
1 AA
6283664 TTAGGATTTA
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
59 105 0.88
60 15 0.12
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (59 bp):
AAACTAATATCAGTTACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
Found at i:6291130 original size:17 final size:17
Alignment explanation
Indices: 6291103--6291135 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6291093 GTATTTTTTA
6291103 TGAATTGTG-AATAAAG
1 TGAATTGTGAAATAAAG
6291119 TGAATATGTGAAATAAA
1 TGAAT-TGTGAAATAAA
6291136 AATATAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (17 bp):
TGAATTGTGAAATAAAG
Found at i:6296891 original size:12 final size:12
Alignment explanation
Indices: 6296871--6296901 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6296861 CTCCAGTTTT
*
6296871 CACATGGCCTAG
1 CACACGGCCTAG
6296883 CACACGGCCTAG
1 CACACGGCCTAG
6296895 CACACGG
1 CACACGG
6296902 GTGTGTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.39, G:0.26, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:6297993 original size:23 final size:21
Alignment explanation
Indices: 6297927--6298002 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
6297917 CAGTAAACGG
*
6297927 CACAT-AAGTGCCTGAAACGA
1 CACATAAAGTGCCTGATACGA
** *
6297947 CACACGAGGTGCCTGATACGA
1 CACATAAAGTGCCTGATACGA
6297968 CACATAAAGTGCCTGATGTACGA
1 CACATAAAGTGCCTGA--TACGA
6297991 CACATAAAGTGC
1 CACATAAAGTGC
6298003 TTAATCGGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.09
21 26 0.55
23 17 0.36
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
CACATAAAGTGCCTGATACGA
Found at i:6298370 original size:16 final size:16
Alignment explanation
Indices: 6298344--6298383 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6298334 TTAATAATAA
*
6298344 TACTTATCTTA-TATT
1 TACTTACCTTATTATT
6298359 TCACTTACCTTATTATT
1 T-ACTTACCTTATTATT
6298376 TACTTACC
1 TACTTACC
6298384 ATACACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.53
Consensus pattern (16 bp):
TACTTACCTTATTATT
Found at i:6298810 original size:5 final size:5
Alignment explanation
Indices: 6298800--6298855 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
6298790 TTATTTTTAC
6298800 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6298850 ATAAT A
1 ATAAT A
6298856 AATTTAAAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:6303063 original size:29 final size:29
Alignment explanation
Indices: 6303015--6303072 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
6303005 TTAATCAATT
6303015 CTAATCAATAATTCTATCAA-ATAAACCC
1 CTAATCAATAATTCTATCAACATAAACCC
* *
6303043 CTAATTCAATCATTC-ATTCAACATGAACCC
1 CTAA-TCAATAATTCTA-TCAACATAAACCC
6303073 TACTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 5 0.20
29 13 0.52
30 7 0.28
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.29
Consensus pattern (29 bp):
CTAATCAATAATTCTATCAACATAAACCC
Found at i:6303673 original size:32 final size:33
Alignment explanation
Indices: 6303630--6303702 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
6303620 TATTTATCAT
* *
6303630 ATAAAAAATC-TTTTACTAATTA-ATAATAAATA
1 ATAAAATATCTTTTTACTAAATATAT-ATAAATA
6303662 ATAAAATATCTTTTTACTAAATATATATAAATA
1 ATAAAATATCTTTTTACTAAATATATATAAATA
6303695 ATACAAAT
1 ATA-AAAT
6303703 GTACTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 9 0.25
33 21 0.58
34 6 0.17
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (33 bp):
ATAAAATATCTTTTTACTAAATATATATAAATA
Found at i:6310736 original size:18 final size:20
Alignment explanation
Indices: 6310705--6310742 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
6310695 CAAATCAGAA
6310705 ATAAATAAATAAACAAAAAT
1 ATAAATAAATAAACAAAAAT
6310725 ATAAAT-AA-AAACAAAAAT
1 ATAAATAAATAAACAAAAAT
6310743 TATTAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
ATAAATAAATAAACAAAAAT
Found at i:6310813 original size:15 final size:15
Alignment explanation
Indices: 6310789--6310824 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6310779 ATCAATACGG
*
6310789 CCCAACTAGCCTAAA
1 CCCAATTAGCCTAAA
*
6310804 CCCAATTAGCCTAAG
1 CCCAATTAGCCTAAA
6310819 CCCAAT
1 CCCAAT
6310825 ACCCTAGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.39, G:0.08, T:0.17
Consensus pattern (15 bp):
CCCAATTAGCCTAAA
Found at i:6327830 original size:16 final size:17
Alignment explanation
Indices: 6327799--6327831 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6327789 TAGCATTTCA
*
6327799 TAACTAAACAACATTTT
1 TAACCAAACAACATTTT
6327816 TAACCAAAC-ACATTTT
1 TAACCAAACAACATTTT
6327832 ACTTGCTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TAACCAAACAACATTTT
Found at i:6328722 original size:40 final size:41
Alignment explanation
Indices: 6328575--6328752 Score: 134
Period size: 40 Copynumber: 4.4 Consensus size: 41
6328565 ACTTAATTTT
* * *
6328575 TCGCACACTAAATGCCATCGAATAGCCGAAGTTATT-A-TAA
1 TCGCACACTAAGTGCCAT-AAATAGCCGAAGCTATTCACTAA
** * * * *
6328615 TCTCGCACACTAAGTGCTTTACATA-CCTAAAGCTATCTCAGT-C
1 --TCGCACACTAAGTGCCATAAATAGCC-GAAGCTAT-TCACTAA
* * *
6328658 TCGCACACTAAGTGTCGTATATAGCCGAAGCTATTC-CTAA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCACTAA
* * *
6328698 TCGCACACTAAGTGCCATAAATAGCCGAAGTTA-TCTCGAA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCACTAA
6328738 TCGCACACTAAGTGC
1 TCGCACACTAAGTGC
6328753 TAAACATAGT
Statistics
Matches: 109, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
39 3 0.03
40 51 0.47
41 35 0.32
42 18 0.17
43 1 0.01
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (41 bp):
TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCACTAA
Found at i:6331569 original size:9 final size:9
Alignment explanation
Indices: 6331555--6331601 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
6331545 TAAACGAATT
6331555 GAGTTATTC
1 GAGTTATTC
*
6331564 GAGTTAATC
1 GAGTTATTC
6331573 GAGTTATTC
1 GAGTTATTC
*
6331582 GAGTTAATC
1 GAGTTATTC
6331591 GAGTTATTC
1 GAGTTATTC
6331600 GA
1 GA
6331602 ATCAACTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (9 bp):
GAGTTATTC
Found at i:6331578 original size:18 final size:18
Alignment explanation
Indices: 6331555--6331601 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
6331545 TAAACGAATT
6331555 GAGTTATTCGAGTTAATC
1 GAGTTATTCGAGTTAATC
6331573 GAGTTATTCGAGTTAATC
1 GAGTTATTCGAGTTAATC
6331591 GAGTTATTCGA
1 GAGTTATTCGA
6331602 ATCAACTCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (18 bp):
GAGTTATTCGAGTTAATC
Found at i:6331675 original size:9 final size:9
Alignment explanation
Indices: 6331656--6331692 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6331646 TGAGTTTTCA
*
6331656 AATTTGAAT
1 AATTCGAAT
*
6331665 AACTCGAAT
1 AATTCGAAT
6331674 AATTCGAAT
1 AATTCGAAT
6331683 AATTCGAAT
1 AATTCGAAT
6331692 A
1 A
6331693 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6331754 original size:21 final size:21
Alignment explanation
Indices: 6331728--6331769 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6331718 ACCCCAAACT
*
6331728 CTCAAACCGTTTTACTT-TTCC
1 CTCAAAAC-TTTTACTTCTTCC
6331749 CTCAAAACTTTTACTTCTTCC
1 CTCAAAACTTTTACTTCTTCC
6331770 TACTTTCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.43
Consensus pattern (21 bp):
CTCAAAACTTTTACTTCTTCC
Found at i:6333356 original size:23 final size:22
Alignment explanation
Indices: 6333322--6333369 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
6333312 TCTAAATTTT
6333322 AAAATTTTAAAAATAAAAA-AC
1 AAAATTTTAAAAATAAAAATAC
6333343 AAAATTCTTAAAAATAAAAATAC
1 AAAATT-TTAAAAATAAAAATAC
6333366 AAAA
1 AAAA
6333370 CTAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAATTTTAAAAATAAAAATAC
Found at i:6334821 original size:42 final size:42
Alignment explanation
Indices: 6334762--6334852 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
6334752 GAAATAAACT
* *
6334762 GATCAGGACATTTAGCGGCACTTTTCTCACAAACGCC-GTATA
1 GATCAAGACATTTAGCGGCACTTTTC-CACAAACGCCACTATA
* *
6334804 GATCAAGACCTTTAGCGGCGCTTTTCCACAAACGCCACTATA
1 GATCAAGACATTTAGCGGCACTTTTCCACAAACGCCACTATA
6334846 GATCAAG
1 GATCAAG
6334853 TCGTAAATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 10 0.23
42 34 0.77
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
GATCAAGACATTTAGCGGCACTTTTCCACAAACGCCACTATA
Found at i:6335012 original size:43 final size:43
Alignment explanation
Indices: 6334949--6335100 Score: 198
Period size: 43 Copynumber: 3.5 Consensus size: 43
6334939 TACTCAATGT
*
6334949 CGCTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGG
1 CGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCGG
* * * *
6334992 CGCTTTTTCTACAAATGCCGCTATAGATCAAGACCTTTAGCGA
1 CGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCGG
* * *
6335035 CACTTTTCCCACAAACGCCGCTATAAATCATA-ACTTTTAGCGG
1 CGCTTTTCCCACAAACGCCGCTATAGATCA-AGACCTTTAGCGG
**
6335078 CGCTTTTTTCACAAACGCCGCTA
1 CGCTTTTCCCACAAACGCCGCTA
6335101 AAAGTGCCAT
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
43 92 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (43 bp):
CGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCGG
Found at i:6338741 original size:22 final size:21
Alignment explanation
Indices: 6338679--6338742 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
6338669 CTTAAGTACT
* * *
6338679 AAATTAAAAAAATCAAACACC
1 AAATTAAAAAAATAAAATAAC
**
6338700 AAATTAAAAAAATTTTAATAAC
1 AAATTAAAAAAA-TAAAATAAC
6338722 AAATTAGAAAAAATAAAATAA
1 AAATTA-AAAAAATAAAATAA
6338743 TTAAAAGTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 12 0.34
22 17 0.49
23 6 0.17
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.22
Consensus pattern (21 bp):
AAATTAAAAAAATAAAATAAC
Found at i:6338906 original size:5 final size:5
Alignment explanation
Indices: 6338896--6339332 Score: 835
Period size: 5 Copynumber: 87.6 Consensus size: 5
6338886 ACTATTAATA
6338896 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATATAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT ATTAT
6338947 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6338997 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6339047 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6339097 ATTAT ATTAT ATTAT A-TAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6339146 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6339196 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6339246 ATTAT ATTAT ATATAT ATTAT -TTAT -TTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT AT-TAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6339295 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
6339333 GATTGGTTTT
Statistics
Matches: 428, Mismatches: 0, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
4 12 0.03
5 406 0.95
6 10 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:6341989 original size:15 final size:15
Alignment explanation
Indices: 6341969--6342019 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
6341959 CCCTAACCCG
6341969 ACCTTAAATCTCTAA
1 ACCTTAAATCTCTAA
*
6341984 ACCTTAAATCACT-A
1 ACCTTAAATCTCTAA
*
6341998 ACTCTT-AACCTCTAA
1 AC-CTTAAATCTCTAA
*
6342013 CCCTTAA
1 ACCTTAA
6342020 CCCTAAACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.37, C:0.31, G:0.00, T:0.31
Consensus pattern (15 bp):
ACCTTAAATCTCTAA
Found at i:6342022 original size:7 final size:7
Alignment explanation
Indices: 6342003--6342062 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
6341993 CACTAACTCT
*
6342003 TAACCTC
1 TAACCCC
*
6342010 TAACCCT
1 TAACCCC
6342017 TAA-CCC
1 TAACCCC
6342023 TAAACCCC
1 T-AACCCC
*
6342031 AAACCCC
1 TAACCCC
6342038 TAACCCC
1 TAACCCC
*
6342045 TAGCCCC
1 TAACCCC
*
6342052 TAACCCA
1 TAACCCC
6342059 TAAC
1 TAAC
6342063 TACTAACCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 3 0.07
7 37 0.86
8 3 0.07
ACGTcount: A:0.33, C:0.48, G:0.02, T:0.17
Consensus pattern (7 bp):
TAACCCC
Found at i:6342029 original size:14 final size:14
Alignment explanation
Indices: 6341995--6342071 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
6341985 CCTTAAATCA
*
6341995 CTAACTCTTAACCT
1 CTAACCCTTAACCT
6342009 CTAACCCTTAACC-
1 CTAACCCTTAACCT
** *
6342022 CTAAACCCCAAACCC
1 CT-AACCCTTAACCT
* * *
6342037 CTAACCCCTAGCCC
1 CTAACCCTTAACCT
*
6342051 CTAACCCATAA-CT
1 CTAACCCTTAACCT
6342064 ACTAACCC
1 -CTAACCC
6342072 ATAAACCTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
13 3 0.06
14 47 0.90
15 2 0.04
ACGTcount: A:0.32, C:0.47, G:0.01, T:0.19
Consensus pattern (14 bp):
CTAACCCTTAACCT
Found at i:6342638 original size:41 final size:41
Alignment explanation
Indices: 6342579--6342702 Score: 153
Period size: 41 Copynumber: 3.0 Consensus size: 41
6342569 AAACGTTTTT
6342579 GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCTAAGCATTA
1 GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCTAAGCATTA
* ** *
6342620 GCGGTGCTTCTTGGAAAACGCCGCTAAAACCC-AGAGCATTA
1 GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCTA-AGCATTA
* * *
6342661 GTGGCGCTTTTTCAAAAACACCGCTAAAAG-CCTAAGCATTA
1 GCGGTGCTTTTTCAAAAACGCCGCT-AAAGCCCTAAGCATTA
6342702 G
1 G
6342703 GTTTTTAGCG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 64 0.93
42 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCTAAGCATTA
Found at i:6342830 original size:40 final size:40
Alignment explanation
Indices: 6342729--6342839 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
6342719 TTCAAAAAAA
* *
6342729 CGCCGCTAATGCTCATTTTT-GGTGGCGTTTTCCTGAAAG
1 CGCCGCTAATGCTCATTTTTAGCTGGCGTTTTACTGAAAG
* * *
6342768 CGCCGCTAATGCTCAGTCTTTAGCT-GCGTTTTATTTAAAG
1 CGCCGCTAATGCTCA-TTTTTAGCTGGCGTTTTACTGAAAG
* *
6342808 CGCCGCTAATGCTTGATTTTTAGC-GGTGTTTT
1 CGCCGCTAATGC-TCATTTTTAGCTGGCGTTTT
6342840 TTGTCCAAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
39 15 0.25
40 41 0.68
41 4 0.07
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (40 bp):
CGCCGCTAATGCTCATTTTTAGCTGGCGTTTTACTGAAAG
Found at i:6343987 original size:21 final size:21
Alignment explanation
Indices: 6343961--6344007 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6343951 GAGCAAGTAT
6343961 AAAAAAATTGAGAAAATACAA
1 AAAAAAATTGAGAAAATACAA
* *
6343982 AAAAAAATTGAGAAGATACCA
1 AAAAAAATTGAGAAAATACAA
6344003 AAAAA
1 AAAAA
6344008 TGTGAGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.70, C:0.06, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAAAAATTGAGAAAATACAA
Found at i:6344084 original size:39 final size:40
Alignment explanation
Indices: 6344001--6344085 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 40
6343991 GAGAAGATAC
* *
6344001 CAAAAAATGTGAGGATTTACTAAAAAAATAAGGGAATATA
1 CAAAAAATGTGAGAATTTACTAAAAAAACAAGGGAATATA
* * *
6344041 -AAAAAATGTGATAATTTACCTGAAAATACAA-GG-ATATA
1 CAAAAAATGTGAGAATTTA-CTAAAAAAACAAGGGAATATA
6344079 CAAAAAA
1 CAAAAAA
6344086 AAAAGTGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
38 5 0.13
39 24 0.63
40 9 0.24
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.22
Consensus pattern (40 bp):
CAAAAAATGTGAGAATTTACTAAAAAAACAAGGGAATATA
Found at i:6344121 original size:20 final size:20
Alignment explanation
Indices: 6344098--6344154 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
6344088 AAGTGAATAT
6344098 ACCAAAAAAAATGAGGACAA
1 ACCAAAAAAAATGAGGACAA
* * * *
6344118 ACCAATAAACATGAGGAGAT
1 ACCAAAAAAAATGAGGACAA
6344138 ACCAAAAAAATATGAGG
1 ACCAAAAAAA-ATGAGG
6344155 GAATATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.11
Consensus pattern (20 bp):
ACCAAAAAAAATGAGGACAA
Found at i:6344154 original size:21 final size:21
Alignment explanation
Indices: 6344096--6344174 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
6344086 AAAAGTGAAT
*
6344096 ATACCAAAAAAA-ATGAGGAC
1 ATACCAAAAAAATATGAGGAG
* * *
6344116 AAACC-AATAAACATGAGGAG
1 ATACCAAAAAAATATGAGGAG
6344136 ATACCAAAAAAATATGAGG-G
1 ATACCAAAAAAATATGAGGAG
**
6344156 AATATAAAAAAAATATGAG
1 -ATACCAAAAAAATATGAG
6344175 ATGTGCCAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.10
20 16 0.33
21 27 0.56
ACGTcount: A:0.59, C:0.10, G:0.16, T:0.14
Consensus pattern (21 bp):
ATACCAAAAAAATATGAGGAG
Found at i:6345132 original size:17 final size:17
Alignment explanation
Indices: 6345089--6345134 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
6345079 GCTTTTAAAG
*
6345089 ATATC-AAAATTATAAA
1 ATATCAAAAATTAGAAA
*
6345105 ATTAT-ATAAATTAGAAA
1 A-TATCAAAAATTAGAAA
6345122 ATATCAAAAATTA
1 ATATCAAAAATTA
6345135 TGAGAGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
ATATCAAAAATTAGAAA
Found at i:6347428 original size:18 final size:18
Alignment explanation
Indices: 6347398--6347453 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
6347388 TGTAGGTGGG
*
6347398 TGGCTTGTGGATGATGGT
1 TGGCTTATGGATGATGGT
*
6347416 TGG-TCTATGGATGGTGGT
1 TGGCT-TATGGATGATGGT
*
6347434 TGGCTTGTGGATGATGGT
1 TGGCTTATGGATGATGGT
6347452 TG
1 TG
6347454 TGGAGGTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.11, C:0.05, G:0.45, T:0.39
Consensus pattern (18 bp):
TGGCTTATGGATGATGGT
Found at i:6350352 original size:30 final size:30
Alignment explanation
Indices: 6350318--6350415 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
6350308 AAAAATGTAG
6350318 TTTTTAAAGGATTAAATTAAAATTTTATCC
1 TTTTTAAAGGATTAAATTAAAATTTTATCC
* * * **
6350348 TTTTTAAAGGGGTCAAAGTGTAATTTTAT-C
1 TTTTTAAA-GGATTAAATTAAAATTTTATCC
* *** *
6350378 TTTTTTAATTTTTAATTTTAAAATTTTATCC
1 TTTTTAAAGGATTAA-ATTAAAATTTTATCC
6350409 TTTTTAA
1 TTTTTAA
6350416 GGGGGTGGGG
Statistics
Matches: 50, Mismatches: 15, Indels: 5
0.71 0.21 0.07
Matches are distributed among these distances:
29 3 0.06
30 25 0.50
31 22 0.44
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (30 bp):
TTTTTAAAGGATTAAATTAAAATTTTATCC
Found at i:6350595 original size:21 final size:20
Alignment explanation
Indices: 6350555--6350592 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6350545 TAAATATTTA
6350555 TAAAGAAAAAAAAAAGAAGG
1 TAAAGAAAAAAAAAAGAAGG
* *
6350575 TAAAGGAAAATAAAAGAA
1 TAAAGAAAAAAAAAAGAA
6350593 AGGATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (20 bp):
TAAAGAAAAAAAAAAGAAGG
Found at i:6352535 original size:114 final size:114
Alignment explanation
Indices: 6352283--6353131 Score: 1362
Period size: 114 Copynumber: 7.4 Consensus size: 114
6352273 GTTTACTTGT
*
6352283 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
6352348 GCTTATGA-AAAACGCCGCTAAAGCACATAATTAGCGACGCCTT-TATAA
66 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATA-AA
* * * *
6352396 AAGCACCGCAAAATATCTTAACCAAAATGCAGTGCTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *** *
6352461 GCTTATGAAAAAACGCCACTAAAGCACGGAATTAGCAGCGCATTATAAA
66 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
6352510 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
6352575 GCTTATGAAAAAATGCCGCTAAAGCACAGCATTAGCGGCGCATTATAAA
66 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
*
6352624 AAGAGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA-TTAGAATTAGTGG
*
6352689 CGCTTATGAGAAAACGTCGCTAAAGCACATCATTAGCGGCGCATTATAAA
65 CGCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
*
6352739 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
6352804 GCTTATGAGAAAACGCCGCTAAAGCACATCATTTGCGGCGTATTATAAA
66 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
* *
6352853 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTTAAAATTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA-TTAGAATTAGTGG
* * * *
6352918 CGCTTATGAGAAAATGCCACTAAAGCACATCATTAGTGGCGTATTATAAA
65 CGCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
* * *
6352968 AAGCGCCGC-AAATATCTTAACCAGAACGCAGCGTTTTGTCTTGATGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
6353032 GCTTATGAGAAAATGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
66 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
6353081 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
6353132 GAGCCCATAG
Statistics
Matches: 683, Mismatches: 48, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
113 136 0.20
114 370 0.54
115 177 0.26
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
Found at i:6353097 original size:228 final size:229
Alignment explanation
Indices: 6352283--6353131 Score: 1382
Period size: 229 Copynumber: 3.7 Consensus size: 229
6352273 GTTTACTTGT
*
6352283 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * *
6352348 GCTTATGA-AAAACGCCGCTAAAGCACATAATTAGCGACGCCTT-TATAAAAGCACCGCAAAATA
66 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATA-AAAAGCGCCGCAAAATA
* * * *
6352411 TCTTAACCAAAATGCAGTGCTTGGTCTTGAGGTATA-TTAGAATTAGTGGCGCTTATGAAAAAAC
130 TCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGGCGCTTATGAGAAAAC
*** *
6352475 GCCACTAAAGCACGGAATTAGCAGCGCATTATAAA
195 GCCACTAAAGCACATCATTAGCGGCGCATTATAAA
6352510 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * *
6352575 GCTTATGAAAAAATGCCGCTAAAGCACAGCATTAGCGGCGCATTATAAAAAGAGCCGCAAAATAT
66 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
6352640 CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGGCGCTTATGAGAAAACG
131 CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGGCGCTTATGAGAAAACG
* *
6352705 TCGCTAAAGCACATCATTAGCGGCGCATTATAAA
196 CCACTAAAGCACATCATTAGCGGCGCATTATAAA
*
6352739 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
6352804 GCTTATGAGAAAACGCCGCTAAAGCACATCATTTGCGGCGTATTATAAAAAGCGCCGCAAAATAT
66 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
* * *
6352869 CTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTTAAAATTAGTGGCGCTTATGAGAAAATG
131 CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGGCGCTTATGAGAAAACG
* *
6352934 CCACTAAAGCACATCATTAGTGGCGTATTATAAA
196 CCACTAAAGCACATCATTAGCGGCGCATTATAAA
* * *
6352968 AAGCGCCGC-AAATATCTTAACCAGAACGCAGCGTTTTGTCTTGATGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
6353032 GCTTATGAGAAAATGCCGCTAAAGCACATCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
66 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
6353097 CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
131 CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
6353132 GAGCCCATAG
Statistics
Matches: 581, Mismatches: 38, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
227 72 0.12
228 227 0.39
229 282 0.49
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (229 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGGCGCTTATGAGAAAACG
CCACTAAAGCACATCATTAGCGGCGCATTATAAA
Found at i:6353876 original size:21 final size:22
Alignment explanation
Indices: 6353840--6353882 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6353830 TTGTTGTTTG
*
6353840 TGGTTTACGAGTTTAATATTTA
1 TGGTTTACGAGTTTAAGATTTA
*
6353862 TGGTTTA-GGGTTTAAGATTTA
1 TGGTTTACGAGTTTAAGATTTA
6353883 GGATTAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (22 bp):
TGGTTTACGAGTTTAAGATTTA
Found at i:6354168 original size:15 final size:16
Alignment explanation
Indices: 6354148--6354181 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6354138 TATTTTAGAC
*
6354148 TATAAATGTAAA-TAA
1 TATAAATATAAATTAA
6354163 TATAAATATAAATTAA
1 TATAAATATAAATTAA
6354179 TAT
1 TAT
6354182 TTTAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TATAAATATAAATTAA
Found at i:6354422 original size:21 final size:20
Alignment explanation
Indices: 6354382--6354419 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6354372 AATATATTGA
*
6354382 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
6354402 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
6354420 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:6354977 original size:13 final size:12
Alignment explanation
Indices: 6354939--6354978 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6354929 AGCCAAAAAT
*
6354939 CCCTCAGTTTTC
1 CCCTCAATTTTC
*
6354951 CCCTCAAATTTC
1 CCCTCAATTTTC
6354963 CCCTCCAATTTTC
1 CCCT-CAATTTTC
6354976 CCC
1 CCC
6354979 AAAATTCCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.15, C:0.47, G:0.03, T:0.35
Consensus pattern (12 bp):
CCCTCAATTTTC
Found at i:6355100 original size:16 final size:16
Alignment explanation
Indices: 6355081--6355126 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
6355071 ACCGTCATAG
*
6355081 TCCTCTACCGTCGCAC
1 TCCTCTATCGTCGCAC
6355097 TCCTCTATCGTCGCAC
1 TCCTCTATCGTCGCAC
6355113 TCCTCTATCGTCGC
1 TCCTCTATCGTCGC
6355127 TAAGGTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.11, C:0.46, G:0.13, T:0.30
Consensus pattern (16 bp):
TCCTCTATCGTCGCAC
Found at i:6356134 original size:26 final size:26
Alignment explanation
Indices: 6356098--6356156 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
6356088 CTCGTTGCAT
*
6356098 AATAATTCTTACTCTATAGCTTATCA
1 AATAATTCTTACTCTATAGCTTATAA
6356124 AATAATTCTTACTCTATAGCTTATAA
1 AATAATTCTTACTCTATAGCTTATAA
6356150 AATAATT
1 AATAATT
6356157 AAATTGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (26 bp):
AATAATTCTTACTCTATAGCTTATAA
Found at i:6357055 original size:42 final size:41
Alignment explanation
Indices: 6356881--6357115 Score: 195
Period size: 42 Copynumber: 5.6 Consensus size: 41
6356871 TGGAAAATCA
* * * *
6356881 CCGCTAAAGAGCATGACCTTTAGCGGCG-TTTGTGGAAAAAAACG
1 CCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTG----AAGCG
* * ***
6356925 CCGTTAAAGAACATGACTTTTAGCGGCGTTTGTGAAGAAAGCG
1 CCGCTAAAGAACATGACCTTTAGCGGCGTTT-TTTTG-AAGCG
* * * * ***
6356968 -AGACTAAAGAACATTAGCTTTAGCCGCGTTTTCGAGGAAGCG
1 CCG-CTAAAGAACATGACCTTTAGCGGCGTTTT-TTTGAAGCG
*
6357010 CCGCTAAAGAACATGACCTTTAGCGGCGTGTTTTTTGAAGTG
1 CCGCTAAAGAACATGACCTTTAGCGGCGT-TTTTTTGAAGCG
* *
6357052 CCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAGCG
1 CCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTGAAGCG
*
6357093 CCGCTAAAGAACATGACATTTAG
1 CCGCTAAAGAACATGACCTTTAG
6357116 TGGTGTTTAT
Statistics
Matches: 159, Mismatches: 26, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
41 31 0.19
42 63 0.40
43 35 0.22
44 25 0.16
45 2 0.01
46 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (41 bp):
CCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTGAAGCG
Found at i:6358845 original size:15 final size:15
Alignment explanation
Indices: 6358808--6358845 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6358798 CAAAACTAAG
*
6358808 ATTTTTAAAACATTT
1 ATTTTTACAACATTT
*
6358823 ATTTTTACAATATTT
1 ATTTTTACAACATTT
6358838 ATTTTTAC
1 ATTTTTAC
6358846 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTACAACATTT
Found at i:6362256 original size:19 final size:18
Alignment explanation
Indices: 6362216--6362256 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
6362206 AATATTACAC
*
6362216 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
6362234 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
6362253 ATTT
1 ATTT
6362257 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:6362706 original size:10 final size:10
Alignment explanation
Indices: 6362693--6362723 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
6362683 TTTTCTTTTT
6362693 TTTTTCATTC
1 TTTTTCATTC
6362703 TTTTTCATTC
1 TTTTTCATTC
6362713 -TTTTCATTC
1 TTTTTCATTC
6362722 TT
1 TT
6362724 AATTTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTCATTC
Found at i:6369484 original size:15 final size:15
Alignment explanation
Indices: 6369457--6369489 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
6369447 AAATCTCACC
6369457 AAAATAATATTTTAT
1 AAAATAATATTTTAT
6369472 AAAA-AATATTTT-T
1 AAAATAATATTTTAT
6369485 AAAAT
1 AAAAT
6369490 TAAAAATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.29
14 8 0.47
15 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATAATATTTTAT
Found at i:6382664 original size:11 final size:11
Alignment explanation
Indices: 6382631--6382666 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6382621 AATATATAAA
*
6382631 TTTTAAAAAAG
1 TTTTAAAAAAT
6382642 TTTTAAATAAAT
1 TTTTAAA-AAAT
6382654 TTTTAAAAAAT
1 TTTTAAAAAAT
6382665 TT
1 TT
6382667 CAAATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TTTTAAAAAAT
Found at i:6382687 original size:21 final size:22
Alignment explanation
Indices: 6382626--6382684 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
6382616 AGCCAAATAT
*
6382626 ATAAAT-TTTAAAAAAGTTTTAA
1 ATAAATATTTAAAAAA-TTTCAA
*
6382648 ATAAATTTTTAAAAAATTTCAA
1 ATAAATATTTAAAAAATTTCAA
*
6382670 ATATATATTTAAAAA
1 ATAAATATTTAAAAA
6382685 TTTTATGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 24 0.73
23 9 0.27
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAATATTTAAAAAATTTCAA
Found at i:6387488 original size:44 final size:44
Alignment explanation
Indices: 6387425--6387565 Score: 153
Period size: 42 Copynumber: 3.3 Consensus size: 44
6387415 ATGTGTTATT
** *
6387425 GTGTAAGACCACATCTGGGACATTGGCATCGATTTGTGATTAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAAC
* * ** **
6387469 GTGTAAGACCATGTCTGGGACATCGACATCG-TATACGATT-TT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAAC
* *
6387511 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGA-TAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAAC
*
6387554 ATGTAAGACCAT
1 GTGTAAGACCAT
6387566 ATCTAGGATA
Statistics
Matches: 76, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
42 28 0.37
43 21 0.28
44 27 0.36
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAAC
Found at i:6390542 original size:17 final size:17
Alignment explanation
Indices: 6390522--6390561 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6390512 AAGTATATTA
* *
6390522 AAAATATATGTATTTAT
1 AAAATATACGTATATAT
6390539 AAAATATACGTATATAT
1 AAAATATACGTATATAT
*
6390556 ATAATA
1 AAAATA
6390562 AAAATAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (17 bp):
AAAATATACGTATATAT
Found at i:6394048 original size:44 final size:40
Alignment explanation
Indices: 6393905--6394063 Score: 120
Period size: 42 Copynumber: 3.8 Consensus size: 40
6393895 AACTTGTACA
* * * * *
6393905 ATGCCAACATCCCATACGTGGTCTTACATGTAATCAATATCG
1 ATGCC-ACGTCCCAGACATGGTCTTACACGAAATCAA-ATCG
* *
6393947 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAC-GTCCCAGACATGGTCTTACACGAAATCAAAT-CG
* * * *
6393989 ACGCCGATGTCCCAGACATGGTCTTATACATAAATCTCAAATCG
1 ATGCC-ACGTCCCAGACATGGTCTTACAC-GAAA--TCAAATCG
* *
6394033 ATGCCAACGTCCCAGACGTGGTCCTACACGA
1 ATGCC-ACGTCCCAGACATGGTCTTACACGA
6394064 TAACACATAT
Statistics
Matches: 91, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
41 4 0.04
42 52 0.57
43 5 0.05
44 24 0.26
45 6 0.07
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (40 bp):
ATGCCACGTCCCAGACATGGTCTTACACGAAATCAAATCG
Found at i:6408396 original size:32 final size:31
Alignment explanation
Indices: 6408325--6408421 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 31
6408315 CAATCTAATT
* *
6408325 ACTAAACTATTCGAAAGTTTTCATTTAAGTC
1 ACTAAACTATTCAAAAGTTTTTATTTAAGTC
6408356 ACTAAACTATTCAAAAGTTTTTATTTTAAGTC
1 ACTAAACTATTCAAAAGTTTTTA-TTTAAGTC
* * *
6408388 ATTGAACTATTCAAAAGTTTTTACTTAAGTC
1 ACTAAACTATTCAAAAGTTTTTATTTAAGTC
6408419 ACT
1 ACT
6408422 GGGCTGTTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 30 0.51
32 29 0.49
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.41
Consensus pattern (31 bp):
ACTAAACTATTCAAAAGTTTTTATTTAAGTC
Found at i:6409292 original size:23 final size:24
Alignment explanation
Indices: 6409261--6409305 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
6409251 CTAATTAAAT
*
6409261 TTTATAAATAATTAATATTTATTG
1 TTTATAAATAATTAAAATTTATTG
*
6409285 TTTA-AAATATTTAAAATTTAT
1 TTTATAAATAATTAAAATTTAT
6409306 ATTTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTATAAATAATTAAAATTTATTG
Found at i:6413341 original size:16 final size:17
Alignment explanation
Indices: 6413307--6413347 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
6413297 CCTACTCCCT
6413307 CCCAATTTAAAACCCAG
1 CCCAATTTAAAACCCAG
*
6413324 CCCAATTT-AAATCCAG
1 CCCAATTTAAAACCCAG
6413340 CCCAATTT
1 CCCAATTT
6413348 TCTCTTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.37, C:0.34, G:0.05, T:0.24
Consensus pattern (17 bp):
CCCAATTTAAAACCCAG
Found at i:6414271 original size:16 final size:16
Alignment explanation
Indices: 6414250--6414283 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6414240 AATTATTGAA
*
6414250 TATATTGTAATTAATG
1 TATATTATAATTAATG
6414266 TATATTATAATTAATG
1 TATATTATAATTAATG
6414282 TA
1 TA
6414284 AGAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATATTATAATTAATG
Found at i:6417405 original size:24 final size:24
Alignment explanation
Indices: 6417348--6417406 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
6417338 GGTTTAATGC
* *
6417348 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
6417372 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
6417396 AAATGGATATA
1 AAATGGATATA
6417407 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:6417499 original size:29 final size:29
Alignment explanation
Indices: 6417444--6417505 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
6417434 CAATTATGTT
*
6417444 TTAATTCAAGACTTGTGTAATATTTTTAA
1 TTAATTCAAGACTTATGTAATATTTTTAA
6417473 TTAATTCAAAGACTTATGTAATATTTTTAA
1 TTAATTC-AAGACTTATGTAATATTTTTAA
6417503 TTA
1 TTA
6417506 TGTAGTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.48
Consensus pattern (29 bp):
TTAATTCAAGACTTATGTAATATTTTTAA
Found at i:6417527 original size:37 final size:37
Alignment explanation
Indices: 6417476--6417552 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
6417466 TTTTTAATTA
6417476 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* * *
6417513 ATTCAAGGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
6417550 ATT
1 ATT
6417553 TAATTCGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:6417545 original size:17 final size:17
Alignment explanation
Indices: 6417486--6417546 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
6417476 ATTCAAAGAC
*
6417486 TTATGTAATATTTTTAA
1 TTATGTAATGTTTTTAA
* * **
6417503 TTATGTAGTGATTCAAGGA
1 TTATGTAATGTTTTTA--A
6417522 TTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
6417540 TTATGTA
1 TTATGTA
6417547 GTGATTTAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 18 0.56
18 1 0.03
19 1 0.03
20 12 0.38
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:6417567 original size:9 final size:9
Alignment explanation
Indices: 6417553--6417689 Score: 175
Period size: 9 Copynumber: 14.6 Consensus size: 9
6417543 TGTAGTGATT
6417553 TAATTCGGG
1 TAATTCGGG
6417562 TAATTCGGG
1 TAATTCGGG
6417571 TAATTTTCGGG
1 TAA--TTCGGG
6417582 TAATTTTCGGG
1 TAA--TTCGGG
6417593 TAATTCGGG
1 TAATTCGGG
*
6417602 TAATTTGGG
1 TAATTCGGG
*
6417611 TAATTTTTGGG
1 TAA--TTCGGG
6417622 TAATTCGGG
1 TAATTCGGG
6417631 TAATTCGGG
1 TAATTCGGG
*
6417640 TAAGTCGGG
1 TAATTCGGG
6417649 TAATTCGGG
1 TAATTCGGG
*
6417658 TAAGTCGGG
1 TAATTCGGG
*
6417667 TAATTTGGG
1 TAATTCGGG
6417676 TAATTCGGG
1 TAATTCGGG
6417685 TAATT
1 TAATT
6417690 TTTAACCAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
9 87 0.75
11 29 0.25
ACGTcount: A:0.22, C:0.08, G:0.32, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:6417827 original size:28 final size:27
Alignment explanation
Indices: 6417795--6417860 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
6417785 AAAATTCGGT
6417795 TCGGTTAACGGTTA-AAAAATTTGAGAGG
1 TCGGTTAACGGTTACAAAAATTT-AG-GG
* *
6417823 TCGGTTAATTCGGTTACAAGAATTTCGGG
1 TCGGTTAA--CGGTTACAAAAATTTAGGG
6417852 TCGGTTAAC
1 TCGGTTAAC
6417861 CGACTGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 1 0.03
28 8 0.24
29 10 0.30
30 7 0.21
31 7 0.21
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
TCGGTTAACGGTTACAAAAATTTAGGG
Found at i:6418936 original size:23 final size:23
Alignment explanation
Indices: 6418906--6418965 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 23
6418896 CTCCCGATTT
*
6418906 CTCTTCCTGTTTCATCCATCGGC
1 CTCTTCCTGTTTCATCCATCAGC
**
6418929 CTCTTCCTGTTTCA-CTTTCAGC
1 CTCTTCCTGTTTCATCCATCAGC
6418951 CTCTTCCTGTTTCAT
1 CTCTTCCTGTTTCAT
6418966 TTCTTGCACC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 19 0.58
23 14 0.42
ACGTcount: A:0.08, C:0.37, G:0.10, T:0.45
Consensus pattern (23 bp):
CTCTTCCTGTTTCATCCATCAGC
Found at i:6422006 original size:16 final size:16
Alignment explanation
Indices: 6421985--6422029 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
6421975 TTTAAATAAC
6421985 TAATATATTTTAATTA
1 TAATATATTTTAATTA
*
6422001 TAATATA-TTTAATAA
1 TAATATATTTTAATTA
*
6422016 TAAT-TATGTTAATT
1 TAATATATTTTAATT
6422030 TATATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 16 0.64
16 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATTTTAATTA
Found at i:6422171 original size:118 final size:120
Alignment explanation
Indices: 6421943--6422359 Score: 694
Period size: 120 Copynumber: 3.5 Consensus size: 120
6421933 TTAAATTGTA
* * * * * * * *
6421943 TAAATTCATATAAGAAAATTTATTATCAAGAATTTAAATAACTAATATATTTTAATTATAATATA
1 TAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
*
6422008 TTTAATAATAATTATGTTAATTTATATTTTATAGTAACATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
6422063 TAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATA
1 TAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
* * *
6422127 -TTAATAATAATTTTGTTAATTTATATTTTATAGTATCATTTATTATGATCTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
*
6422181 TAAATTAATATAAGCATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
6422246 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
*
6422301 TAAATTAATATAAGAATATTAATTATTAATAATTTTATTAAATTATATATTTTAATTAT
1 TAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAT
6422360 GTTAATTTAT
Statistics
Matches: 277, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
118 104 0.38
119 18 0.06
120 155 0.56
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
Found at i:6422227 original size:69 final size:67
Alignment explanation
Indices: 6422154--6422347 Score: 154
Period size: 66 Copynumber: 3.1 Consensus size: 67
6422144 AATTTATATT
*
6422154 TTATAGTATCATTTATTATGATCTGAGTAAATTAATATAAGCATATTAATTATTAAGAATTTTAT
1 TTATAGTATCATTTATTATGAT-TGAGTAAATTAATATAAGAATATTAATTATTAA-AATTTTAT
6422219 TAAA
64 TAAA
** * *
6422223 -T-TA-TAT-A-TT-TTA--ATT-A-T-AA-T-ATAT-TTAATAATAATTATGT-TAATTTATAT
1 TTATAGTATCATTTATTATGATTGAGTAAATTAATATAAGAATATTAATTAT-TAAAATTT-TAT
6422273 T---
64 TAAA
*
6422274 TTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAATAATTTTAT
1 TTATAGTATCATTTATTATGA-TTGAGTAAATTAATATAAGAATATTAATTATTAA-AATTTTAT
6422339 TAAA
64 TAAA
6422343 TTATA
1 TTATA
6422348 TATTTTAATT
Statistics
Matches: 93, Mismatches: 10, Indels: 44
0.63 0.07 0.30
Matches are distributed among these distances:
52 1 0.01
53 7 0.08
54 17 0.18
55 6 0.06
56 2 0.02
57 5 0.05
58 1 0.01
59 2 0.02
60 3 0.03
61 3 0.03
62 1 0.01
63 5 0.05
64 3 0.03
65 6 0.06
66 18 0.19
67 7 0.08
68 1 0.01
69 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (67 bp):
TTATAGTATCATTTATTATGATTGAGTAAATTAATATAAGAATATTAATTATTAAAATTTTATTA
AA
Found at i:6422251 original size:15 final size:15
Alignment explanation
Indices: 6422216--6422267 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6422206 TTAAGAATTT
*
6422216 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6422230 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6422244 TATTTAATAATAAT-
1 TATTTAATTATAATA
6422258 TATGTTAATT
1 TAT-TTAATT
6422268 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6422391 original size:218 final size:218
Alignment explanation
Indices: 6422134--6422812 Score: 945
Period size: 218 Copynumber: 3.0 Consensus size: 218
6422124 ATATTAATAA
* * *
6422134 TAATTTTGTTAATTTATATTTTATAGTATCATTTATTATGATCTGAGTAAATTAATATAAGCATA
1 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATCTGAGTAAATTAATATAAGAATA
6422199 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
6422264 AATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTA
131 AATTTATA-TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTA
*
6422329 ATAATTTTATTAAATTATATATTT
195 AGAATTTTATTAAATTATATATTT
* *
6422353 TAATTATGTTAATTTATA-TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATT
1 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATCTGAGTAAATTAATATAAGAATA
*
6422417 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
* * * *
6422482 AATTTATATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATTTTATTTATTAA
131 AATTTATATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAA
6422547 GAATTTTATTAAATTATATATTTTAATTATAATATATTTAAT
196 G-A----ATT---TTAT-TA----AA-T-T-ATATA-TT--T
* * *
6422589 AATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAA
1 --TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATCTGAGTAAATTAATATAAGAA
* *
6422654 TTTTATTTATTAAGAATTTTATTAAATTATATATTTTAATTAT-A-ATATTTAATAATAATTATG
64 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
* * *
6422717 TTAATTTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATA-TATTTAT
129 TTAATTTATA-TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTAT
6422781 TAAGAA-TTTATTAAATTATATATTT
193 TAAGAATTTTATTAAATTATATATTT
6422806 TAATTAT
1 TAATTAT
6422813 AATATATTTA
Statistics
Matches: 421, Mismatches: 16, Indels: 50
0.86 0.03 0.10
Matches are distributed among these distances:
215 7 0.02
217 54 0.13
218 115 0.27
219 19 0.05
220 5 0.01
221 1 0.00
222 4 0.01
223 2 0.00
225 4 0.01
226 2 0.00
227 2 0.00
228 4 0.01
230 2 0.00
231 2 0.00
232 2 0.00
233 5 0.01
234 2 0.00
236 2 0.00
237 40 0.10
238 62 0.15
239 85 0.20
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (218 bp):
TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATCTGAGTAAATTAATATAAGAATA
TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
AATTTATATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAA
GAATTTTATTAAATTATATATTT
Found at i:6422396 original size:98 final size:99
Alignment explanation
Indices: 6422254--6422457 Score: 374
Period size: 98 Copynumber: 2.1 Consensus size: 99
6422244 TATTTAATAA
6422254 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATA
1 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATA
*
6422319 TTAATTATTAATAATTTTATTAAATTATATATTT
66 TTAATTATTAAGAATTTTATTAAATTATATATTT
*
6422353 TAATTATGTTAATTTATA-TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATT
1 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATA
*
6422417 TTATTTATTAAGAATTTTATTAAATTATATATTT
66 TTAATTATTAAGAATTTTATTAAATTATATATTT
6422451 TAATTAT
1 TAATTAT
6422458 AATATATTTA
Statistics
Matches: 102, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
98 84 0.82
99 18 0.18
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (99 bp):
TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATA
TTAATTATTAAGAATTTTATTAAATTATATATTT
Found at i:6422469 original size:15 final size:15
Alignment explanation
Indices: 6422434--6422485 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6422424 TTAAGAATTT
*
6422434 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6422448 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6422462 TATTTAATAATAAT-
1 TATTTAATTATAATA
6422476 TATGTTAATT
1 TAT-TTAATT
6422486 TATATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6422479 original size:119 final size:120
Alignment explanation
Indices: 6422353--6422836 Score: 881
Period size: 119 Copynumber: 4.1 Consensus size: 120
6422343 TTATATATTT
*
6422353 TAATTATGTTAATTTATA-TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATT
1 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATT
6422417 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
66 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
*
6422472 TAATTATGTTAATTTATA-TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATT
1 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATT
6422536 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
66 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
*
6422591 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATT
1 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATT
6422656 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTAT-A-ATATTTAATAA
66 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
*
6422709 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAA-T
1 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATT
*
6422773 ATATTTATTAAGAA-TTTATTAAATTATATATTTTAATTATAATATATTTAATAA
66 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
6422827 TAATTATGTT
1 TAATTATGTT
6422837 TAAATATGAT
Statistics
Matches: 356, Mismatches: 6, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
116 26 0.07
117 15 0.04
118 94 0.26
119 136 0.38
120 85 0.24
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (120 bp):
TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATT
TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
Found at i:6422553 original size:337 final size:350
Alignment explanation
Indices: 6421973--6422836 Score: 1294
Period size: 337 Copynumber: 2.5 Consensus size: 350
6421963 TATTATCAAG
* * *
6421973 AATTTAAATAACTAATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTT-AATAAATTATATATTTAAATTAT-A-ATATTT-AT-ATAATTATGTTAATTTATATTTT
* * *
6422038 ATAGTAACATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTA
61 ATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATTTTATTTATTAAGAATTTTATTA
*
6422103 AATTATATATTTTAA-TATAATATA-TTAATAATAATTTTGTTAATTTATATTTTATAGTATCAT
126 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
* *
6422166 TTATTATGATCTGAGTAAATTAATATAAGCATATTAATTATTAAGAATTTTATTAAATTATATAT
191 ATATTATGATCTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAT
6422231 TTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGAT
256 TTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGAT
6422296 TTGAGTAAATTAATATAAGAA-TATTAATT
321 TTGAGTAAATTAATATAAGAATTATTAATT
6422325 -A-TTAAT-AATT-T-TA-TTAAATTAT-ATA-TT-T-TAATTATGTTAATTTATA-TTTATAGT
1 AATTTAATAAATTATATATTTAAATTATAATATTTATATAATTATGTTAATTTATATTTTATAGT
6422379 ATCATATATTATGATTTGAGTAAATTAATATAAGAATTTTATTTATTAAGAATTTTATTAAATTA
66 ATCATATATTATGATTTGAGTAAATTAATATAAGAATTTTATTTATTAAGAATTTTATTAAATTA
6422444 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATA-TTTATAGTATCATATATT
131 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATT
* * * * *
6422508 ATGATTTGAGTAAATTCATATAATAATTTTATTTATTAAGAATTTTATTAAATTATATATTTTAA
196 ATGATCTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAA
*
6422573 TTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTTAG
261 TTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
* *
6422638 TAAATTCATATAAGAATTTTATTTATT
326 TAAATTAATATAAGAA--TTATTAATT
* *
6422665 AAGAATTTTATTAAATTATATATTTTAATTATAATATTTAATAATAATTATGTTAATTTATATTT
1 ---AA-TTTAATAAATTATATATTTAAATTATAATATTT-AT-ATAATTATGTTAATTTATATTT
* * *
6422730 TATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAA-TATATTTATTAAGAA-TTTATT
60 TATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATTTTATTTATTAAGAATTTTATT
6422793 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
125 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
6422837 TAAATATGAT
Statistics
Matches: 468, Mismatches: 22, Indels: 41
0.88 0.04 0.08
Matches are distributed among these distances:
336 80 0.17
337 182 0.39
338 24 0.05
339 1 0.00
340 7 0.01
341 2 0.00
342 3 0.01
344 1 0.00
345 8 0.02
346 6 0.01
347 5 0.01
348 3 0.01
349 5 0.01
350 10 0.02
351 4 0.01
352 2 0.00
354 1 0.00
355 50 0.11
356 32 0.07
357 42 0.09
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (350 bp):
AATTTAATAAATTATATATTTAAATTATAATATTTATATAATTATGTTAATTTATATTTTATAGT
ATCATATATTATGATTTGAGTAAATTAATATAAGAATTTTATTTATTAAGAATTTTATTAAATTA
TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATT
ATGATCTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAA
TTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
TAAATTAATATAAGAATTATTAATT
Found at i:6422588 original size:15 final size:15
Alignment explanation
Indices: 6422553--6422604 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6422543 TTAAGAATTT
*
6422553 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6422567 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6422581 TATTTAATAATAAT-
1 TATTTAATTATAATA
6422595 TATGTTAATT
1 TAT-TTAATT
6422605 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6422623 original size:239 final size:235
Alignment explanation
Indices: 6422353--6422836 Score: 871
Period size: 239 Copynumber: 2.0 Consensus size: 235
6422343 TTATATATTT
6422353 TAATTATGTTAATTTATATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATTT
1 TAATTATGTTAATTTATATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATTT
6422418 TATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
66 TATTTATTAAGAATTTTATTAAATTATATATTTTAATTAT-A-ATATTTAATAATAATTATGTTA
* * *
6422483 ATTTATA-TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATTTTATTTATTAA
129 ATTTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAA-TATATTTATTAA
6422547 GAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
193 GAA-TTTATTAAATTATATATTTTAATTATAATATATTTAATAA
* *
6422591 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATT
1 TAATTATGTTAATTTATA-TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATT
6422656 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATTTAATAATAATTATGTTAA
65 TTATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATTTAATAATAATTATGTTAA
6422721 TTTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATATTTATTAAGA
130 TTTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATATTTATTAAGA
6422786 ATTTATTAAATTATATATTTTAATTATAATATATTTAATAA
195 ATTTATTAAATTATATATTTTAATTATAATATATTTAATAA
6422827 TAATTATGTT
1 TAATTATGTT
6422837 TAAATATGAT
Statistics
Matches: 239, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
236 50 0.21
237 43 0.18
238 61 0.26
239 85 0.36
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (235 bp):
TAATTATGTTAATTTATATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATTT
TATTTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATTTAATAATAATTATGTTAAT
TTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATATTTATTAAGAA
TTTATTAAATTATATATTTTAATTATAATATATTTAATAA
Found at i:6422817 original size:16 final size:16
Alignment explanation
Indices: 6422798--6422839 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6422788 TTATTAAATT
*
6422798 ATATATTTTAATTATA
1 ATATATTTTAATAATA
6422814 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
6422829 AT-TATGTTTAA
1 ATATAT-TTTAA
6422840 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:6422824 original size:15 final size:15
Alignment explanation
Indices: 6422770--6422830 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
6422760 TTCATATAAG
*
6422770 AATATATTT-ATTAAG
1 AATATATTTAATT-AT
* *
6422785 AATTTATTAAATTAT
1 AATATATTTAATTAT
6422800 -ATAT-TTTAATTAT
1 AATATATTTAATTAT
*
6422813 AATATATTTAATAAT
1 AATATATTTAATTAT
6422828 AAT
1 AAT
6422831 TATGTTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 8 0.22
14 7 0.19
15 19 0.51
16 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATATATTTAATTAT
Done.