Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 93 of 203
Found at i:29412266 original size:16 final size:16
Alignment explanation
Indices: 29412229--29412270 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
29412219 TTAATCATAT
*
29412229 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
29412245 TT-AAATATATTATAA
1 TTAAAATATATTATAA
29412260 TTAAAATATAT
1 TTAAAATATAT
29412271 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:29412277 original size:14 final size:15
Alignment explanation
Indices: 29412238--29412279 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29412228 TTTAAACATA
*
29412238 ATTATTATTAAATAT
1 ATTATAATTAAATAT
29412253 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
29412267 A-TATAATTTAATA
1 ATTATAATTAAATA
29412280 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:29412474 original size:26 final size:28
Alignment explanation
Indices: 29412445--29412505 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
29412435 CATGAATTTG
*
29412445 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
29412471 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
29412499 TAAAATT
1 TATAATT
29412506 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:29420258 original size:25 final size:27
Alignment explanation
Indices: 29420198--29420268 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
29420188 AATACTCTTA
*
29420198 CGAGCACATA-AATAGGAAGCTCTCTCT
1 CGAGC-CATATAACAGGAAGCTCTCTCT
* *
29420225 CGAGTCATATAACAGGAAGCTCT-TGT
1 CGAGCCATATAACAGGAAGCTCTCTCT
*
29420251 -GAGCCATATAACGGGAAG
1 CGAGCCATATAACAGGAAG
29420269 TTTATCCGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 16 0.42
26 6 0.16
27 16 0.42
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CGAGCCATATAACAGGAAGCTCTCTCT
Found at i:29420455 original size:26 final size:26
Alignment explanation
Indices: 29420413--29420478 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
29420403 CCCATATCGG
29420413 GAAGCTCT-GAAGAGCCATTAATCAA
1 GAAGCTCTCGAAGAGCCATTAATCAA
* *
29420438 GAAGCTCTCAAAGAGCCATTAATCGA
1 GAAGCTCTCGAAGAGCCATTAATCAA
29420464 GAAGCTC-CGAAGAGC
1 GAAGCTCTCGAAGAGC
29420479 TACGGTGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 15 0.41
26 22 0.59
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
GAAGCTCTCGAAGAGCCATTAATCAA
Found at i:29422863 original size:30 final size:30
Alignment explanation
Indices: 29422823--29422929 Score: 115
Period size: 30 Copynumber: 3.6 Consensus size: 30
29422813 TCTGGGCCTG
* * *
29422823 AGCCCTATACAGTAGCAGTGTATAGGCCAT
1 AGCCCAATACAGTAACAGAGTATAGGCCAT
* * *
29422853 AGCTCAATACAGTAACAGAGTGTAGGCCTT
1 AGCCCAATACAGTAACAGAGTATAGGCCAT
* * * *
29422883 AGCCCAATACAGTAACAGAGTGTTGGTCTT
1 AGCCCAATACAGTAACAGAGTATAGGCCAT
*
29422913 AGCCCAATACAATAACA
1 AGCCCAATACAGTAACA
29422930 TTGCAAATGC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (30 bp):
AGCCCAATACAGTAACAGAGTATAGGCCAT
Found at i:29423067 original size:26 final size:26
Alignment explanation
Indices: 29423039--29423166 Score: 114
Period size: 26 Copynumber: 4.9 Consensus size: 26
29423029 CACCAATATC
* *
29423039 GCAGCAAAGCTACCAGTAATAGTAAC
1 GCAGCAAAGCTGCCAGTAATAGTAAT
* *
29423065 GCAGTAAAGCTGCCAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGTAATAGTAAT
* * * *
29423091 ACAGCAGAGCCGCCAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGTAATAGTAAT
*
29423117 GCAGCAGAGCTGCCAGT-ATCAGTAAT
1 GCAGCAAAGCTGCCAGTAAT-AGTAAT
* ** * *
29423143 GTAAAAAAGCTACCAATAATAGTA
1 GCAGCAAAGCTGCCAGTAATAGTA
29423167 TTTGTGGCAA
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
25 1 0.01
26 80 0.96
27 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAGTAAT
Found at i:29423445 original size:27 final size:27
Alignment explanation
Indices: 29423341--29423538 Score: 166
Period size: 27 Copynumber: 7.3 Consensus size: 27
29423331 GGGTATAATA
* *
29423341 GTCATTTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCT-TCAAGGGTATTTTG
** * *
29423368 GTCCGTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTTG
* *
29423395 GTCATTTTACCCTTTAGGGGTATTTTG
1 GTCATTTTACCCTTCAAGGGTATTTTG
* * *
29423422 GTCATTTTACCTTTCAAGGATATTTTA
1 GTCATTTTACCCTTCAAGGGTATTTTG
* * * *
29423449 GTCATTTTAACCATCGATGGTATTTTG
1 GTCATTTTACCCTTCAAGGGTATTTTG
* * * *
29423476 ATAATTTTACCCATT-GAGGGTATTTTA
1 GTCATTTTACCC-TTCAAGGGTATTTTG
* * *
29423503 GTCATTTTACCCATCGAGGTTATTTTG
1 GTCATTTTACCCTTCAAGGGTATTTTG
29423530 GTCATTTTA
1 GTCATTTTA
29423539 AAGGCCTATT
Statistics
Matches: 135, Mismatches: 33, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
26 2 0.01
27 132 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCAAGGGTATTTTG
Found at i:29423471 original size:81 final size:81
Alignment explanation
Indices: 29423381--29423539 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 81
29423371 CGTTTACCCT
* * * * **
29423381 TCGAGGGTATTTCGGTCATTTTACCC-TTTAGGGGTATTTTGGTCATTTTACCTTTCAAGGATAT
1 TCGAGGGTATTTCGATAATTTTACCCATTGA-GGGTATTTTAGTCATTTTACCCATCAAGGATAT
29423445 TTTAGTCATTTTAACCA
65 TTTAGTCATTTTAACCA
* * * *
29423462 TCGATGGTATTTTGATAATTTTACCCATTGAGGGTATTTTAGTCATTTTACCCATCGAGGTTATT
1 TCGAGGGTATTTCGATAATTTTACCCATTGAGGGTATTTTAGTCATTTTACCCATCAAGGATATT
*
29423527 TTGGTCATTTTAA
66 TTAGTCATTTTAA
29423540 AGGCCTATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 63 0.95
82 3 0.05
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.45
Consensus pattern (81 bp):
TCGAGGGTATTTCGATAATTTTACCCATTGAGGGTATTTTAGTCATTTTACCCATCAAGGATATT
TTAGTCATTTTAACCA
Found at i:29426078 original size:12 final size:12
Alignment explanation
Indices: 29426038--29426079 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
29426028 GAAAAAGTTT
29426038 GTGAAAAAGAAA
1 GTGAAAAAGAAA
**
29426050 ACGAAAAAGAAA
1 GTGAAAAAGAAA
*
29426062 TTGAAAAAGAAA
1 GTGAAAAAGAAA
29426074 GTGAAA
1 GTGAAA
29426080 GTGAGAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.21, T:0.10
Consensus pattern (12 bp):
GTGAAAAAGAAA
Found at i:29426100 original size:21 final size:20
Alignment explanation
Indices: 29426064--29426106 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
29426054 AAAAGAAATT
*
29426064 GAAAAAGAAAGTGAAAGTGA
1 GAAAAAGAAAGCGAAAGTGA
*
29426084 GAAAAAGAAAGACGAAATTGA
1 GAAAAAGAAAG-CGAAAGTGA
29426105 GA
1 GA
29426107 TTAAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.60, C:0.02, G:0.28, T:0.09
Consensus pattern (20 bp):
GAAAAAGAAAGCGAAAGTGA
Found at i:29427301 original size:14 final size:14
Alignment explanation
Indices: 29427277--29427313 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
29427267 AGAAAAATGT
*
29427277 GAGAGGTGAGAGAA
1 GAGATGTGAGAGAA
*
29427291 GAGTTGTGAGAGAA
1 GAGATGTGAGAGAA
29427305 GAGATGTGA
1 GAGATGTGA
29427314 ATGAGGGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.46, T:0.16
Consensus pattern (14 bp):
GAGATGTGAGAGAA
Found at i:29431817 original size:5 final size:5
Alignment explanation
Indices: 29431788--29431826 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
29431778 TAAATTTAAA
* *
29431788 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
29431827 CATCTTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:29432122 original size:19 final size:19
Alignment explanation
Indices: 29432098--29432136 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
29432088 TCTACCATAA
29432098 AACTTCATAATTCATGCAT
1 AACTTCATAATTCATGCAT
29432117 AACTTCATAATTCATGCAT
1 AACTTCATAATTCATGCAT
29432136 A
1 A
29432137 CTCATCCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (19 bp):
AACTTCATAATTCATGCAT
Found at i:29432622 original size:13 final size:14
Alignment explanation
Indices: 29432593--29432625 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
29432583 GTAATCAGTA
*
29432593 AAATTTTCTTAACG
1 AAATTTTCATAACG
29432607 AAATTTTCAT-ACG
1 AAATTTTCATAACG
29432620 AAATTT
1 AAATTT
29432626 CTATCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (14 bp):
AAATTTTCATAACG
Found at i:29434135 original size:15 final size:15
Alignment explanation
Indices: 29434115--29434146 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
29434105 TAGCAATAGG
29434115 AAAAAATATTATGCA
1 AAAAAATATTATGCA
29434130 AAAAAATATTATGCA
1 AAAAAATATTATGCA
29434145 AA
1 AA
29434147 GAAGAAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (15 bp):
AAAAAATATTATGCA
Found at i:29436385 original size:31 final size:31
Alignment explanation
Indices: 29436347--29436408 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
29436337 TGATCGTATC
* * *
29436347 GCAAAGATGGTTACAGAAATGAGTACTTATT
1 GCAAAGATGGCTACAGAAAGGAGTACATATT
29436378 GCAAAGATGGCTACAGAAAGGAGTACATATT
1 GCAAAGATGGCTACAGAAAGGAGTACATATT
29436409 TGCAGATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (31 bp):
GCAAAGATGGCTACAGAAAGGAGTACATATT
Found at i:29436556 original size:7 final size:7
Alignment explanation
Indices: 29436523--29436552 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
29436513 CACCAAAAAA
29436523 AATATTT
1 AATATTT
29436530 AATATTT
1 AATATTT
29436537 AATATTT
1 AATATTT
29436544 AAT-TTT
1 AATATTT
29436550 AAT
1 AAT
29436553 TTTTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:29437092 original size:22 final size:21
Alignment explanation
Indices: 29437067--29437109 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
29437057 TTCTTTATTT
*
29437067 TTCTATTCTCCTCTGCTTCTCC
1 TTCTATTCTCCTC-CCTTCTCC
*
29437089 TTCTATTTTCCTCCCTTCTCC
1 TTCTATTCTCCTCCCTTCTCC
29437110 ATCTCTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.05, C:0.42, G:0.02, T:0.51
Consensus pattern (21 bp):
TTCTATTCTCCTCCCTTCTCC
Found at i:29437108 original size:21 final size:22
Alignment explanation
Indices: 29437067--29437118 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
29437057 TTCTTTATTT
* *
29437067 TTCTATTCTCCTCTGCTTCTCC
1 TTCTATTTTCCTCTCCTTCTCC
29437089 TTCTATTTTCCTC-CCTTCTCC
1 TTCTATTTTCCTCTCCTTCTCC
* *
29437110 ATCTCTTTT
1 TTCTATTTT
29437119 AACGTAGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.06, C:0.38, G:0.02, T:0.54
Consensus pattern (22 bp):
TTCTATTTTCCTCTCCTTCTCC
Found at i:29437991 original size:20 final size:19
Alignment explanation
Indices: 29437953--29437991 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
29437943 GGGGAAGAAG
* *
29437953 AAAAGGAAAATAAAAAAAT
1 AAAAAGAAAAAAAAAAAAT
29437972 AAAAAGAAAAAAAAATAAAT
1 AAAAAGAAAAAAAAA-AAAT
29437992 TATTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (19 bp):
AAAAAGAAAAAAAAAAAAT
Found at i:29442705 original size:27 final size:27
Alignment explanation
Indices: 29442664--29442717 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
29442654 GTCAAGGTGA
*
29442664 TTAACCATTTGCTCACTAAACTATGAT
1 TTAACCATTTGCTCACTAAACCATGAT
* * *
29442691 TTAACCTTTTTCTCATTAAACCATGAT
1 TTAACCATTTGCTCACTAAACCATGAT
29442718 CATTTTGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
TTAACCATTTGCTCACTAAACCATGAT
Found at i:29455067 original size:11 final size:11
Alignment explanation
Indices: 29455053--29455081 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
29455043 AAAATTAAAA
29455053 AAAATTATTTT
1 AAAATTATTTT
29455064 AAAATTATTTT
1 AAAATTATTTT
29455075 AAAATTA
1 AAAATTA
29455082 AAAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:29455138 original size:11 final size:11
Alignment explanation
Indices: 29455124--29455149 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29455114 AAAATTTAAA
29455124 AAAAGTATTTT
1 AAAAGTATTTT
29455135 AAAAGTATTTT
1 AAAAGTATTTT
29455146 AAAA
1 AAAA
29455150 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:29457967 original size:21 final size:22
Alignment explanation
Indices: 29457934--29457985 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
29457924 AAACTACGTT
* * *
29457934 AAAAGAGATGGAGAAG-GGAGG
1 AAAATAGAAGGAGAAGCAGAGG
29457955 AAAATAGAAGGAGAAGCAGAGG
1 AAAATAGAAGGAGAAGCAGAGG
*
29457977 AGAATAGAA
1 AAAATAGAA
29457986 AATAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.54, C:0.02, G:0.38, T:0.06
Consensus pattern (22 bp):
AAAATAGAAGGAGAAGCAGAGG
Found at i:29465904 original size:44 final size:43
Alignment explanation
Indices: 29465849--29465956 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 43
29465839 CTACTCTGCT
* * * *
29465849 ACTGCAGCTTCAAAAGTATAGGATTTGTCATTTTAATCTGCTTC
1 ACTGCAACTTCAAAAG-ATAGGATTGGTCACTTCAATCTGCTTC
** **
29465893 ACTGCAACTTCATGGAGATAGGATTGGTGGCTTCAATCTGCTTC
1 ACTGCAACTTCA-AAAGATAGGATTGGTCACTTCAATCTGCTTC
29465937 ACTGCAACTTCAAGAAGATA
1 ACTGCAACTTCAA-AAGATA
29465957 AGATCCGCCA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
44 50 0.96
45 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (43 bp):
ACTGCAACTTCAAAAGATAGGATTGGTCACTTCAATCTGCTTC
Found at i:29466077 original size:51 final size:51
Alignment explanation
Indices: 29465975--29466770 Score: 831
Period size: 51 Copynumber: 15.9 Consensus size: 51
29465965 CATAATTTGT
* * * * *
29465975 AGCTTTAATCTATTCCACTGCAACACTAGGGAAAAAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* * * * *
29466026 AGCTTTAATCTGTTCCACTACAACGCTAGAGAAATAAGATCCGTTGTCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
*** * *
29466077 AG------TCTGCTT-CACTGCAATTTCAGAGAGATAAG----GCTG--GT-
1 AGCTTTAATCTG-TTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* * * ** ** *
29466115 GGCTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAG-TTCCGCTATGATTTGT
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAA-ATAAGATT-CGC--TGCCTT-C
* * * *
29466169 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGTTGCATTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* ** * * *
29466220 AGCTTTAATCTGTTCCACTTCAATACCAGGGAATTAAGATTCGCTACCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* *
29466271 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTAGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* * * *
29466322 AGCTTTAGTCTGTTCTACTGTAACGCCAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* *
29466373 AGCTTTAATCTGTTCCACTACAACGCCAGAGAAATAAGATTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
*
29466424 AGCTTTAATCTGTTCCACTGCAACGCCACAGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* * **
29466475 AGCTTTAATCTGTTCCACTGCAACGCTA-AGAAAAAAGATTTTCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* * **
29466525 AACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
*
29466576 AGCTTTAATCTGTTCCACTGTAACGCCATG-GAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCA-GAGAAATAAGATTCGCTGCCTTC
* * * * * *
29466627 AACTTTAATTTGTTCCATTGCAACGCCAGAGAAATAAAATTCGTTGCCTTA
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* *
29466678 AGCTTTAGTCTGTTCAACTGCAACGCCAG-GAAA-AAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* * *
29466727 AGCTTTAATCTGTTCCACTGCAACACTAGAGAAAAAAGATTCGC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGC
29466771 CATAATGACT
Statistics
Matches: 631, Mismatches: 88, Indels: 52
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
41 3 0.00
43 3 0.00
44 22 0.03
45 21 0.03
46 2 0.00
48 2 0.00
49 38 0.06
50 56 0.09
51 441 0.70
52 6 0.01
54 30 0.05
55 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
Found at i:29466223 original size:194 final size:194
Alignment explanation
Indices: 29465885--29466238 Score: 550
Period size: 194 Copynumber: 1.8 Consensus size: 194
29465875 GTCATTTTAA
* *
29465885 TCTGCTTCACTGCAACTTCATGGAGATAGGATTGGTGGCTTCAATCTGCTTCACTGCAACTTCAA
1 TCTGCTTCACTGCAACTTCATGGAGATAGGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAA
*
29465950 GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACTAGGGAAAAAAGAT
66 GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAAAAAGAT
*
29466015 TCGCTGCCTTCAGCTTTAATCTGTTCCACTACAACGCTAGAGAAATAAGATCCGTTGTCTTCAG
131 TCGCTGCATTCAGCTTTAATCTGTTCCACTACAACGCTAGAGAAATAAGATCCGTTGTCTTCAG
*
29466079 TCTGCTTCACTGCAATTTCA-GAGAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTGCAACTTC
1 TCTGCTTCACTGCAACTTCATG-GAGAT-AGGACTGGTGGCTTCAATCTGCTCCACTGCAACTTC
* * * * * ** *
29466142 AGGAAGATAAGTTCCGCTATGATTTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAG
64 AAGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAAAAAG
*
29466207 ATTCGTTGCATTCAGCTTTAATCTGTTCCACT
129 ATTCGCTGCATTCAGCTTTAATCTGTTCCACT
29466239 TCAATACCAG
Statistics
Matches: 144, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
193 1 0.01
194 140 0.97
195 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (194 bp):
TCTGCTTCACTGCAACTTCATGGAGATAGGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAA
GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAAAAAGAT
TCGCTGCATTCAGCTTTAATCTGTTCCACTACAACGCTAGAGAAATAAGATCCGTTGTCTTCAG
Found at i:29470657 original size:19 final size:20
Alignment explanation
Indices: 29470633--29470679 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
29470623 TGGTGGACTT
* *
29470633 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
29470652 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
29470672 -AATGCAAA
1 TAATGCAAA
29470680 AAGAGACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:29472552 original size:17 final size:18
Alignment explanation
Indices: 29472526--29472559 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29472516 ATGAACTACA
29472526 AATAACCAATA-AATACC
1 AATAACCAATACAATACC
*
29472543 AATAAGCAATACAATAC
1 AATAACCAATACAATAC
29472560 ACACAAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (18 bp):
AATAACCAATACAATACC
Found at i:29474761 original size:29 final size:29
Alignment explanation
Indices: 29474725--29474789 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
29474715 TGTCGCCAGA
* * *
29474725 CCGTGTGCCTTACACGCCTGTGTCTCAGG
1 CCGTGTGCCTCACACGCCCGTGTCTCAAG
*
29474754 CTGTGTGCCTCACACGCCCGTGTCTCAAG
1 CCGTGTGCCTCACACGCCCGTGTCTCAAG
29474783 CCGTGTG
1 CCGTGTG
29474790 AACCCAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.11, C:0.35, G:0.28, T:0.26
Consensus pattern (29 bp):
CCGTGTGCCTCACACGCCCGTGTCTCAAG
Found at i:29478672 original size:59 final size:59
Alignment explanation
Indices: 29478600--29478780 Score: 362
Period size: 59 Copynumber: 3.1 Consensus size: 59
29478590 TTCTCGTCGA
29478600 TTTTCCCCCGTAGATCCAACTTGTGTAATACTTCCATGTCTCGCGGTGGCGGCGAAATT
1 TTTTCCCCCGTAGATCCAACTTGTGTAATACTTCCATGTCTCGCGGTGGCGGCGAAATT
29478659 TTTTCCCCCGTAGATCCAACTTGTGTAATACTTCCATGTCTCGCGGTGGCGGCGAAATT
1 TTTTCCCCCGTAGATCCAACTTGTGTAATACTTCCATGTCTCGCGGTGGCGGCGAAATT
29478718 TTTTCCCCCGTAGATCCAACTTGTGTAATACTTCCATGTCTCGCGGTGGCGGCGAAATT
1 TTTTCCCCCGTAGATCCAACTTGTGTAATACTTCCATGTCTCGCGGTGGCGGCGAAATT
29478777 TTTT
1 TTTT
29478781 TCCTCTACCC
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 122 1.00
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.34
Consensus pattern (59 bp):
TTTTCCCCCGTAGATCCAACTTGTGTAATACTTCCATGTCTCGCGGTGGCGGCGAAATT
Found at i:29480126 original size:18 final size:19
Alignment explanation
Indices: 29480090--29480127 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
29480080 CCAATAAACA
* *
29480090 AATTCTCATGGCATTAAAT
1 AATTATCATGGCATCAAAT
29480109 AATTATCAT-GCATCAAAT
1 AATTATCATGGCATCAAAT
29480127 A
1 A
29480128 CAAATGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (19 bp):
AATTATCATGGCATCAAAT
Found at i:29480382 original size:21 final size:22
Alignment explanation
Indices: 29480352--29480392 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29480342 ATATCTAAAT
*
29480352 TACCACACACTCATA-TATATA
1 TACCACACACACATACTATATA
*
29480373 TACCATACACACATACTATA
1 TACCACACACACATACTATA
29480393 AAACTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (22 bp):
TACCACACACACATACTATATA
Found at i:29480560 original size:151 final size:151
Alignment explanation
Indices: 29480364--29480669 Score: 587
Period size: 151 Copynumber: 2.0 Consensus size: 151
29480354 CCACACACTC
29480364 ATATATATATACCATACACACATACTATAAAACTTTATTTTCCCCATGAGCTTAAATCATGACCA
1 ATATATATATACCATACACACATACTATAAAACTTTATTTTCCCCATGAGCTTAAATCATGACCA
29480429 ATAATGCACAAATATAAGTATCATTTCTATTTCAT-CGTTTATCAATTATAATCGAACATATGAC
66 ATAATGCACAAATATAAGTATCATTTCTATTTC-TCCGTTTATCAATTATAATCGAACATATGAC
29480493 CAATTATAGACAAATCATTTAT
130 CAATTATAGACAAATCATTTAT
29480515 ATATATATATACCATACACACATACTATAAAACTTTATTTTCCCCATGAGCTTAAATCATGACCA
1 ATATATATATACCATACACACATACTATAAAACTTTATTTTCCCCATGAGCTTAAATCATGACCA
*
29480580 ATAATGCACAAATATAAGTATCATTTCTATTTCTCCGTTTATCAATTATAATTGAACATATGACC
66 ATAATGCACAAATATAAGTATCATTTCTATTTCTCCGTTTATCAATTATAATCGAACATATGACC
29480645 AATTATAGACAAATCATTTAT
131 AATTATAGACAAATCATTTAT
29480666 ATAT
1 ATAT
29480670 TCTCTAATTT
Statistics
Matches: 153, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
150 1 0.01
151 152 0.99
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.36
Consensus pattern (151 bp):
ATATATATATACCATACACACATACTATAAAACTTTATTTTCCCCATGAGCTTAAATCATGACCA
ATAATGCACAAATATAAGTATCATTTCTATTTCTCCGTTTATCAATTATAATCGAACATATGACC
AATTATAGACAAATCATTTAT
Found at i:29480806 original size:25 final size:25
Alignment explanation
Indices: 29480772--29480820 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
29480762 TATGTAAATT
29480772 CAAGCTGTCTATCAGAGTCAGAGTC
1 CAAGCTGTCTATCAGAGTCAGAGTC
*
29480797 CAAGCTGTCTATCTGAGTCAGAGT
1 CAAGCTGTCTATCAGAGTCAGAGT
29480821 AACTAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
CAAGCTGTCTATCAGAGTCAGAGTC
Found at i:29483093 original size:21 final size:20
Alignment explanation
Indices: 29483062--29483104 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
29483052 CTATAATATT
29483062 TTTAAACAAACTAG-GAAAA
1 TTTAAACAAACTAGAGAAAA
*
29483081 TTTAGAACAAAACTTGAGAAAA
1 TTTA-AAC-AAACTAGAGAAAA
29483103 TT
1 TT
29483105 GAGAGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 6 0.30
22 7 0.35
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (20 bp):
TTTAAACAAACTAGAGAAAA
Found at i:29484116 original size:41 final size:40
Alignment explanation
Indices: 29484043--29484345 Score: 237
Period size: 41 Copynumber: 7.4 Consensus size: 40
29484033 GATTTTTTGA
* *** *
29484043 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTCG
* * * *
29484083 GATCTTTAGCGGCGTTTCTATCTGGGCGCCGCTAATTCTCTG
1 G-CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTC-G
* *** *
29484125 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTCG
* * * *
29484165 GATCTTTAGCGGCGTTTCTATCTGGGCGCCGCTAATTCTCTG
1 G-CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTC-G
* * * *
29484207 GCCTTTAGCGGCGTTTTTAACTAAGCGCCGCTAATGGTTG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTCG
* * * * *
29484247 GCCTTTAGTGGCGTTTTTGTTTGTGCGCCGCTAATGCTGTG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCT-CG
* * * * * **
29484288 GCCTTTAGAGGCGCTTTTGTGTAAGCGCCGCTAATGCATTT
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGC-TCG
*
29484329 ACCTTTAGCGGCGTTTT
1 GCCTTTAGCGGCGTTTT
29484346 GGCCAAAGCG
Statistics
Matches: 206, Mismatches: 51, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
40 35 0.17
41 166 0.81
42 5 0.02
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (40 bp):
GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTCG
Found at i:29484313 original size:81 final size:82
Alignment explanation
Indices: 29484043--29484324 Score: 381
Period size: 82 Copynumber: 3.5 Consensus size: 82
29484033 GATTTTTTGA
29484043 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTCTATCTGG
1 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTCTATCTGG
29484108 GCGCCGCTAATTCTCTG
66 GCGCCGCTAATTCTCTG
29484125 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTCTATCTGG
1 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTCTATCTGG
29484190 GCGCCGCTAATTCTCTG
66 GCGCCGCTAATTCTCTG
* * * * * * * *
29484207 GCCTTTAGCGGCG-TTTT-TAACTAAGCGCCGCTAATGGTTGG-CCTTTAGTGGCGTTTTTGTTT
1 GCCTTTAGCGGCGTTTTTGTAA--AAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTCTATCT
* * *
29484269 GTGCGCCGCTAATGCTGTG
64 GGGCGCCGCTAATTCTCTG
* * ** *
29484288 GCCTTTAGAGGCGCTTTTGTGTAAGCGCCGCTAATGC
1 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGC
29484325 ATTTACCTTT
Statistics
Matches: 181, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
80 3 0.02
81 62 0.34
82 115 0.64
83 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.34
Consensus pattern (82 bp):
GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTCTATCTGG
GCGCCGCTAATTCTCTG
Found at i:29484337 original size:163 final size:164
Alignment explanation
Indices: 29484043--29484344 Score: 378
Period size: 163 Copynumber: 1.8 Consensus size: 164
29484033 GATTTTTTGA
*
29484043 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTCTATCTGG
1 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCGGACCTTTAGCGGCGTTTCTATCTGG
* * * *
29484108 GCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCGGATCTTTA
66 GCGCCGCTAATGCTCTGGCCTTTAGAGGCGCTTTTGTAAAAGCGACGCTAATGCTCGGACCTTTA
29484173 GCGGCGTTTCTATCTGGGCGCCGCTAATTCTCTG
131 GCGGCGTTTCTATCTGGGCGCCGCTAATTCTCTG
* * * * * * *
29484207 GCCTTTAGCGGCG-TTTT-TAACTAAGCGCCGCTAATGGTTGG-CCTTTAGTGGCGTTTTTGTTT
1 GCCTTTAGCGGCGTTTTTGTAA--AAGCGACGCTAATGCTCGGACCTTTAGCGGCGTTTCTATCT
* * ** * **
29484269 GTGCGCCGCTAATGCTGTGGCCTTTAGAGGCGCTTTTGTGTAAGCGCCGCTAATGCAT-TTACCT
64 GGGCGCCGCTAATGCTCTGGCCTTTAGAGGCGCTTTTGTAAAAGCGACGCTAATGC-TCGGACCT
29484333 TTAGCGGCGTTT
128 TTAGCGGCGTTT
29484345 TGGCCAAAGC
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
162 3 0.03
163 83 0.72
164 30 0.26
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.34
Consensus pattern (164 bp):
GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCGGACCTTTAGCGGCGTTTCTATCTGG
GCGCCGCTAATGCTCTGGCCTTTAGAGGCGCTTTTGTAAAAGCGACGCTAATGCTCGGACCTTTA
GCGGCGTTTCTATCTGGGCGCCGCTAATTCTCTG
Found at i:29491549 original size:26 final size:27
Alignment explanation
Indices: 29491484--29491549 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 27
29491474 AGATCAAAAT
*
29491484 TTTATTTTAAAAAATTTAAACTTTTCC
1 TTTATTTTAAAAAATCTAAACTTTTCC
29491511 TTTATTTT-AAAAATCTAAAC-TTTCTC
1 TTTATTTTAAAAAATCTAAACTTTTC-C
29491537 TTT-TTTTAAAAAA
1 TTTATTTTAAAAAA
29491550 AAATTAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 8 0.22
26 20 0.56
27 8 0.22
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTATTTTAAAAAATCTAAACTTTTCC
Found at i:29492180 original size:10 final size:10
Alignment explanation
Indices: 29492142--29492174 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
29492132 ACTCCTACTC
29492142 TATTATATAA
1 TATTATATAA
29492152 TATTATATAA
1 TATTATATAA
29492162 TATTATATAA
1 TATTATATAA
29492172 TAT
1 TAT
29492175 CGTATAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TATTATATAA
Found at i:29492180 original size:20 final size:20
Alignment explanation
Indices: 29492142--29492180 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29492132 ACTCCTACTC
*
29492142 TATTATATAATATTATATAA
1 TATTATATAATATCATATAA
*
29492162 TATTATATAATATCGTATA
1 TATTATATAATATCATATA
29492181 GTATACAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TATTATATAATATCATATAA
Found at i:29492591 original size:234 final size:251
Alignment explanation
Indices: 29492036--29492656 Score: 715
Period size: 234 Copynumber: 2.5 Consensus size: 251
29492026 CCTACAACAG
*
29492036 TTATATATTAATTATTATCATATATTATTGTTTATTATTATAGTGGTTGAAAATATGCTCTAAGT
1 TTATATATTAA-T-TT-TCATATATTATTGTTTATTATTATACTGGTT-AAAATATGCTCTAAGT
* * * * *
29492101 CTCTATACTATTCGTACATTTGAAAGTTAACACTCCTACTCTATTATATAATATTATATAATATT
62 CCCTATACTTTTCGTACATTTGAAAGTTAACACTCCTACTATATTATATAATGTTATATCATA-T
* * ** *
29492166 ATATAATATCGTATAGTATACAGTATATTAATAATTTATATATATTTATCAATGATTTAACATTA
126 -CATAATATCG-ATAGTATACAGTATATTAATAAGTTATATATATGCATCAATGATTAAACATTA
29492231 TAATATCATGCAATACTATATTTTTATTATAATATATAATATAATATTTATATATAATAATACA
189 TAATATCATGCAATACTATATTTTTATTATAATATATAATATAATA-TTATATATAATAATACA
* * ** * * * *
29492295 TTACATATTAATTATT-ATAAATTATTGTTTATTATTATACTAATTGAAATAGGTTTTAAGTCCC
1 TTATATATTAATT-TTCATATATTATTGTTTATTATTATACTGGTTAAAATATGCTCTAAGTCCC
* * * * *
29492359 TATACTTTTCATACATTTAAAAGTTAACATTCTTACTATATTATATAATGCTATATCATATCAT-
65 TATACTTTTCGTACATTTGAAAGTTAACACTCCTACTATATTATATAATGTTATATCATATCATA
*
29492423 GT-T-G-TA-TATA-A-TATATTAAT-AGTT-TATATATGCATCAATGATTAAACATTATAATAT
130 ATATCGATAGTATACAGTATATTAATAAGTTATATATATGCATCAATGATTAAACATTATAATAT
* * * * *
29492480 CATGTAATACTGTATCTTTTA-T-T-ATA-AT-CTGT-A-A-TATA-ATAATAGTACA
195 CATGCAATACTATAT-TTTTATTATAATATATAATATAATATTATATATAATAATACA
*
29492529 TTATATATTAATTTTCATATATTATTGTTTATTATTATACTGGTTAAAATATGCTCTAAGTCCTT
1 TTATATATTAATTTTCATATATTATTGTTTATTATTATACTGGTTAAAATATGCTCTAAGTCCCT
* *
29492594 ATACTTTTCGTACATTTGAAAGTTAGC-CCCCTACTATATTATATAATGTTATATCATATCATA
66 ATACTTTTCGTACATTTGAAAGTTAACACTCCTACTATATTATATAATGTTATATCATATCATA
29492657 CTTTTTTATT
Statistics
Matches: 312, Mismatches: 46, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
233 33 0.11
234 87 0.28
235 4 0.01
237 1 0.00
238 1 0.00
239 2 0.01
240 2 0.01
241 3 0.01
242 1 0.00
243 44 0.14
244 8 0.03
245 9 0.03
246 1 0.00
247 4 0.01
248 2 0.01
250 1 0.00
251 1 0.00
252 1 0.00
253 2 0.01
254 1 0.00
255 65 0.21
256 25 0.08
257 2 0.01
258 2 0.01
259 10 0.03
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.46
Consensus pattern (251 bp):
TTATATATTAATTTTCATATATTATTGTTTATTATTATACTGGTTAAAATATGCTCTAAGTCCCT
ATACTTTTCGTACATTTGAAAGTTAACACTCCTACTATATTATATAATGTTATATCATATCATAA
TATCGATAGTATACAGTATATTAATAAGTTATATATATGCATCAATGATTAAACATTATAATATC
ATGCAATACTATATTTTTATTATAATATATAATATAATATTATATATAATAATACA
Found at i:29492862 original size:19 final size:20
Alignment explanation
Indices: 29492840--29492885 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
29492830 TATTATAATC
29492840 TATATTATAGTAATA-GTTA
1 TATATTATAGTAATACGTTA
* *
29492859 TATATAATAGTAGTACGTTA
1 TATATTATAGTAATACGTTA
29492879 TATATTA
1 TATATTA
29492886 CTTATTATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (20 bp):
TATATTATAGTAATACGTTA
Found at i:29496278 original size:18 final size:19
Alignment explanation
Indices: 29496237--29496280 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
29496227 ACTTCAACTT
*
29496237 TTTACTTATCTCTCTTACAA
1 TTTA-TTATCCCTCTTACAA
29496257 TTTATTATCCCTCTTA-AA
1 TTTATTATCCCTCTTACAA
29496275 TTTATT
1 TTTATT
29496281 TTGAAGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 11 0.48
20 4 0.17
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATTATCCCTCTTACAA
Found at i:29499027 original size:21 final size:24
Alignment explanation
Indices: 29498998--29499046 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
29498988 TATACATTTA
*
29498998 ATTTCTATA-CTTTTTAA-AAATT
1 ATTTCTATACCTTTCTAACAAATT
29499020 ATTT-TATACCTTTCTAATCAAATT
1 ATTTCTATACCTTTCTAA-CAAATT
29499044 ATT
1 ATT
29499047 CTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
24 8 0.35
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTCTATACCTTTCTAACAAATT
Found at i:29510041 original size:8 final size:7
Alignment explanation
Indices: 29510009--29510039 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
29509999 TCAACAGAAG
*
29510009 TTTACTT
1 TTTAATT
29510016 TTTAATT
1 TTTAATT
29510023 TTTAATT
1 TTTAATT
29510030 TTTAATT
1 TTTAATT
29510037 TTT
1 TTT
29510040 TATACAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTAATT
Found at i:29510834 original size:14 final size:14
Alignment explanation
Indices: 29510809--29510841 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
29510799 TATAAATGGC
29510809 TAAAAATGATTTTTT
1 TAAAAATGA-TTTTT
29510824 TAAAAAT-ATTTTT
1 TAAAAATGATTTTT
29510837 TAAAA
1 TAAAA
29510842 TTTCTAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAAAATGATTTTT
Found at i:29513760 original size:29 final size:31
Alignment explanation
Indices: 29513727--29513802 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
29513717 TTTACCTCAG
29513727 GTTACATTTTAGTCACTTAT-AT-TTGGAAT
1 GTTACATTTTAGTCACTTATGATATTGGAAT
* * * *
29513756 GTTACGTTTTAGTCACTTATGTTATTGTATT
1 GTTACATTTTAGTCACTTATGATATTGGAAT
*
29513787 GTAACATTTTAGTCAC
1 GTTACATTTTAGTCAC
29513803 CGAGCCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 19 0.49
30 1 0.03
31 19 0.49
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTATGATATTGGAAT
Found at i:29513800 original size:31 final size:29
Alignment explanation
Indices: 29513730--29513802 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
29513720 ACCTCAGGTT
*
29513730 ACATTTTAGTCACTTATATTTGGAATGTT
1 ACATTTTAGTCACTTATATTTGGAATGTA
* * * *
29513759 ACGTTTTAGTCACTTATGTTATTGTATTGTA
1 ACATTTTAGTCACTTAT-AT-TTGGAATGTA
29513790 ACATTTTAGTCAC
1 ACATTTTAGTCAC
29513803 CGAGCCATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 16 0.44
30 1 0.03
31 19 0.53
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (29 bp):
ACATTTTAGTCACTTATATTTGGAATGTA
Found at i:29525211 original size:8 final size:8
Alignment explanation
Indices: 29525195--29525225 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
29525185 AACCATGCCA
29525195 AATTTAAC
1 AATTTAAC
*
29525203 AACTTAAC
1 AATTTAAC
29525211 AATTTAAC
1 AATTTAAC
29525219 AATTTAA
1 AATTTAA
29525226 TCTTTAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTTAAC
Found at i:29526486 original size:9 final size:9
Alignment explanation
Indices: 29526472--29526503 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
29526462 AAAAAACATA
*
29526472 TAATTCGGG
1 TAATTCGGT
29526481 TAATTCGGT
1 TAATTCGGT
29526490 TAATTCGGT
1 TAATTCGGT
29526499 TAATT
1 TAATT
29526504 TTTAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:29528245 original size:26 final size:26
Alignment explanation
Indices: 29528216--29528382 Score: 208
Period size: 26 Copynumber: 6.3 Consensus size: 26
29528206 TAAGGAAAAA
*
29528216 CCTTTGTGGCGTAGTATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
*
29528242 CCTTTGTGGCGTAGTATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
*
29528268 CCTTTATGGCGTAATATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
*
29528294 CCTTTGTGGCATAATATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
* * * * *
29528320 CCTTTGTAGTGCAATATAAAAGAATAA
1 CCTTTGTGGCGTAATATGAAAGAA-AG
* * *
29528347 CTTTTGTGGCGTAAAATGAATTGAAAG
1 CCTTTGTGGCGTAATATGAA-AGAAAG
29528374 CCTTTGTGG
1 CCTTTGTGG
29528383 AAAACCATGA
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
26 93 0.77
27 24 0.20
28 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (26 bp):
CCTTTGTGGCGTAATATGAAAGAAAG
Found at i:29528426 original size:27 final size:27
Alignment explanation
Indices: 29528368--29528426 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
29528358 TAAAATGAAT
* *
29528368 TGAAAGCCTTTGTGGAAAACCATGAAA
1 TGAAAGCCTCTGTGGAAAACCACGAAA
* * * *
29528395 AGAAAGCCTCTGTGGTAAATCACGAGA
1 TGAAAGCCTCTGTGGAAAACCACGAAA
29528422 TGAAA
1 TGAAA
29528427 ACTTTTGTAG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (27 bp):
TGAAAGCCTCTGTGGAAAACCACGAAA
Found at i:29534841 original size:76 final size:76
Alignment explanation
Indices: 29534715--29534866 Score: 250
Period size: 76 Copynumber: 2.0 Consensus size: 76
29534705 AAATTTTTAT
* * * *
29534715 TAGATTTGCTTAATGATTTATCTCTGAAGTTGTGTGCTAATGGATATTTAGAGACATTTGATTGC
1 TAGATTTGCTTAATGATTTATCTCTGAAGTTGTGTGCTAATGGATATTTAGACAAAATTGATTAC
29534780 AATACACAAGA
66 AATACACAAGA
* *
29534791 TAGATTTGCTTAATGATTTATCTCTGAAGTTGTGTGCTGATGTATATTTAGACAAAATTGATTAC
1 TAGATTTGCTTAATGATTTATCTCTGAAGTTGTGTGCTAATGGATATTTAGACAAAATTGATTAC
29534856 AATACACAAGA
66 AATACACAAGA
29534867 AAAAAGAGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (76 bp):
TAGATTTGCTTAATGATTTATCTCTGAAGTTGTGTGCTAATGGATATTTAGACAAAATTGATTAC
AATACACAAGA
Found at i:29535525 original size:14 final size:14
Alignment explanation
Indices: 29535500--29535532 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
29535490 TATAAATGGC
29535500 TAAAAATGATTTTTT
1 TAAAAATGA-TTTTT
29535515 TAAAAAT-ATTTTT
1 TAAAAATGATTTTT
29535528 TAAAA
1 TAAAA
29535533 TTTCTAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAAAATGATTTTT
Found at i:29538451 original size:29 final size:31
Alignment explanation
Indices: 29538418--29538493 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
29538408 TTTACCTCAG
29538418 GTTACATTTTAGTCACTTAT-AT-TTGGAAT
1 GTTACATTTTAGTCACTTATGATATTGGAAT
* * * *
29538447 GTTACGTTTTAGTCACTTATGTTATTGTATT
1 GTTACATTTTAGTCACTTATGATATTGGAAT
*
29538478 GTAACATTTTAGTCAC
1 GTTACATTTTAGTCAC
29538494 CGAGCCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 19 0.49
30 1 0.03
31 19 0.49
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTATGATATTGGAAT
Found at i:29538491 original size:31 final size:29
Alignment explanation
Indices: 29538421--29538493 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
29538411 ACCTCAGGTT
*
29538421 ACATTTTAGTCACTTATATTTGGAATGTT
1 ACATTTTAGTCACTTATATTTGGAATGTA
* * * *
29538450 ACGTTTTAGTCACTTATGTTATTGTATTGTA
1 ACATTTTAGTCACTTAT-AT-TTGGAATGTA
29538481 ACATTTTAGTCAC
1 ACATTTTAGTCAC
29538494 CGAGCCATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 16 0.44
30 1 0.03
31 19 0.53
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (29 bp):
ACATTTTAGTCACTTATATTTGGAATGTA
Found at i:29549718 original size:8 final size:8
Alignment explanation
Indices: 29549702--29549732 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
29549692 AACCATGCCA
29549702 AATTTAAC
1 AATTTAAC
*
29549710 AACTTAAC
1 AATTTAAC
29549718 AATTTAAC
1 AATTTAAC
29549726 AATTTAA
1 AATTTAA
29549733 TCTTTAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTTAAC
Found at i:29550991 original size:9 final size:9
Alignment explanation
Indices: 29550977--29551008 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
29550967 AAAAAACATA
*
29550977 TAATTCGGG
1 TAATTCGGT
29550986 TAATTCGGT
1 TAATTCGGT
29550995 TAATTCGGT
1 TAATTCGGT
29551004 TAATT
1 TAATT
29551009 TTTAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:29552720 original size:26 final size:26
Alignment explanation
Indices: 29552691--29552858 Score: 219
Period size: 26 Copynumber: 6.4 Consensus size: 26
29552681 TAAGGAAAAA
*
29552691 CCTTTGTGGCGTAGTATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
*
29552717 CCTTTGTGGCGTAGTATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
*
29552743 CCTTTATGGCGTAATATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
*
29552769 CCTTTGTGGCATAATATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
* * * *
29552795 CCTTTGTAGTGCAATATAAAAGAATAG
1 CCTTTGTGGCGTAATATGAAAGAA-AG
* * *
29552822 CTTTTGTGGCGTAAAATGAATTGAAAG
1 CCTTTGTGGCGTAATATGAA-AGAAAG
29552849 CCTTTGTGGC
1 CCTTTGTGGC
29552859 AAACCATGAA
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
26 93 0.76
27 27 0.22
28 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (26 bp):
CCTTTGTGGCGTAATATGAAAGAAAG
Found at i:29559238 original size:47 final size:47
Alignment explanation
Indices: 29559187--29559280 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
29559177 TTTTAAATGA
29559187 AAGATTTTGGCCCAAATTTTTATTAGATTTGCTTAATGATTTATCTC
1 AAGATTTTGGCCCAAATTTTTATTAGATTTGCTTAATGATTTATCTC
29559234 AAGATTTTGGCCCAAATTTTTATTAGATTTGCTTAATGATTTATCTC
1 AAGATTTTGGCCCAAATTTTTATTAGATTTGCTTAATGATTTATCTC
29559281 TGAAGTTGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (47 bp):
AAGATTTTGGCCCAAATTTTTATTAGATTTGCTTAATGATTTATCTC
Found at i:29559992 original size:15 final size:16
Alignment explanation
Indices: 29559967--29559998 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
29559957 ATAAATGGCT
29559967 AAAAATGATTTTTTAA
1 AAAAATGATTTTTTAA
29559983 AAAAAT-ATTTTTTAA
1 AAAAATGATTTTTTAA
29559998 A
1 A
29559999 GTTTTTAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AAAAATGATTTTTTAA
Found at i:29560220 original size:52 final size:52
Alignment explanation
Indices: 29560119--29560226 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
29560109 TTTGTTGACT
* * *
29560119 TTTTTTATATTTATGATCAAATTAATAGAATGTGTAAACATGAGGGGGCTAC
1 TTTTTTATATTTAGGATCAAATTAATAGAATGTGTAAACATGAGAGGGCTAA
* * * *
29560171 TTTTTTATATTTAGGATCAAATTGATAGAATGTGTAAATATTATAGGGCTAA
1 TTTTTTATATTTAGGATCAAATTAATAGAATGTGTAAACATGAGAGGGCTAA
29560223 TTTT
1 TTTT
29560227 GTTACTAGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.43
Consensus pattern (52 bp):
TTTTTTATATTTAGGATCAAATTAATAGAATGTGTAAACATGAGAGGGCTAA
Found at i:29561868 original size:15 final size:15
Alignment explanation
Indices: 29561848--29561885 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
29561838 TATATGTAGG
29561848 TATAATAAT-ATATAA
1 TATAATAATAAT-TAA
29561863 TATAATAATAATTAA
1 TATAATAATAATTAA
*
29561878 TACAATAA
1 TATAATAA
29561886 GAGTGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAATAATAATTAA
Found at i:29563794 original size:116 final size:118
Alignment explanation
Indices: 29563589--29563867 Score: 366
Period size: 116 Copynumber: 2.3 Consensus size: 118
29563579 GAGACAGGAT
*
29563589 CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGA-AGGGATTGATGGCTTAAATCTGTTTC
1 CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATA-GAATTGATGGCTTAAATCTGTTTC
* * *
29563653 CCTACTACCTTGCGAAGATAGGATTTGCCATCTTCGATCTGCTCCACTACT-G-
65 CCTACTACCTTGCGAAGATAAGATTTGCCATCTTCAATCTGCCCCACTACTAGA
* * * *
29563705 CTACAATCTTTAACCTACTCCACTACTGCTTAGGGAGATAGAATTGGTGGCTTAAATTTGTTTCC
1 CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGAATTGATGGCTTAAATCTGTTTCC
* * * *
29563770 CTACTACTTTGGGAAGATAAGATTTGTCGTCTTCAATCTGCCCCACTACTGCAGAA
66 CTACTACCTTGCGAAGATAAGATTTGCCATCTTCAATCTGCCCCACTACT--AG-A
* *
29563826 TCTACAAACTTCAACCTACTCCACTGCTGCTCAGGGAGATAG
1 -CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAG
29563868 GACTGGTGTC
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
116 101 0.72
117 1 0.01
119 1 0.01
122 37 0.26
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (118 bp):
CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGAATTGATGGCTTAAATCTGTTTCC
CTACTACCTTGCGAAGATAAGATTTGCCATCTTCAATCTGCCCCACTACTAGA
Found at i:29564008 original size:96 final size:96
Alignment explanation
Indices: 29563844--29564126 Score: 298
Period size: 96 Copynumber: 3.0 Consensus size: 96
29563834 CTTCAACCTA
* * *** * * **
29563844 CTCCACTGCTGCTCAGGGAGATAGGACTGGTGTC-TTCGATCTACTTCGCTGCCAGCACAAGAAG
1 CTCCACTGCTACTCAGGGAGATAAGACT-GCCACATTTGATCTACTTCACTGCCAATACAAGAAG
29563908 ACAAGATCTGCTATCTTTGATCTACTTCACTG
65 ACAAGATCTGCTATCTTTGATCTACTTCACTG
*
29563940 CTCCACTGCTACTCAGGGAGATAAGACTGCCACATTTGATCTACTTCACTGCCAATACAGGAAGA
1 CTCCACTGCTACTCAGGGAGATAAGACTGCCACATTTGATCTACTTCACTGCCAATACAAGAAGA
*
29564005 CAAGATCTGCTATCTTTGATCTACTTCGCTG
66 CAAGATCTGCTATCTTTGATCTACTTCACTG
* * * * * *
29564036 --CCA---ATA--CAGGAAGATAAGA-T-CTATTATCTTCGATCTACTTCACTGCCAATATATGA
1 CTCCACTGCTACTCAGGGAGATAAGACTGCCA-CAT-TT-GATCTACTTCACTGCCAATACAAGA
*
29564092 AGACAAGATCTACTATCTTTGATCTACTTCACTG
63 AGACAAGATCTGCTATCTTTGATCTACTTCACTG
29564126 C
1 C
29564127 CAATACTAGA
Statistics
Matches: 163, Mismatches: 19, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
87 2 0.01
88 3 0.02
89 14 0.09
90 55 0.34
91 2 0.01
94 3 0.02
95 2 0.01
96 82 0.50
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (96 bp):
CTCCACTGCTACTCAGGGAGATAAGACTGCCACATTTGATCTACTTCACTGCCAATACAAGAAGA
CAAGATCTGCTATCTTTGATCTACTTCACTG
Found at i:29564171 original size:45 final size:45
Alignment explanation
Indices: 29563974--29564152 Score: 270
Period size: 45 Copynumber: 4.0 Consensus size: 45
29563964 GACTGCCACA
*
29563974 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATC
* * *
29564019 TTTGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTATTATC
1 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATC
* * *
29564064 TTCGATCTACTTCACTGCCAATATATGAAGACAAGATCTACTATC
1 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATC
*
29564109 TTTGATCTACTTCACTGCCAATACTA-GAAGACAAGATCTGCTAT
1 TTTGATCTACTTCACTGCCAATAC-AGGAAGACAAGATCTACTAT
29564153 TTTCAACCTG
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 119 0.99
46 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (45 bp):
TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATC
Found at i:29564618 original size:88 final size:87
Alignment explanation
Indices: 29564480--29564704 Score: 265
Period size: 88 Copynumber: 2.6 Consensus size: 87
29564470 TCCATTCTAG
* * * * **
29564480 TTCAA-CTGCTCCGCTACAACCCAGGG-GGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTTGGT
1 TTCAACCTGCTCCGCTGCAA-CCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGT
* * *
29564543 GCAGGAAGGCAAGATCTGCTATT
65 ACAGGAAGGCAAGATCTACTATC
* *
29564566 TTTAACCTGCTCCGCTGCAACTCAGGGAGGAAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGT
1 TTCAACCTGCTCCGCTGCAAC-CAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGT
*
29564631 ACAGGAAGGTAAGATCTACTATC
65 ACAGGAAGGCAAGATCTACTATC
* * * *
29564654 TTCAACCTGTTCTGCTGCAACCGAGAGAGGCAAGGCTAGTGTCTTCAATCT
1 TTCAACCTGCTCCGCTGCAACC-AGGGAGGCAAGGCTAGTGTCTTCGATCT
29564705 ACTCCACTAC
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
86 5 0.04
87 19 0.16
88 93 0.79
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (87 bp):
TTCAACCTGCTCCGCTGCAACCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTA
CAGGAAGGCAAGATCTACTATC
Found at i:29564776 original size:87 final size:87
Alignment explanation
Indices: 29564685--29564851 Score: 253
Period size: 87 Copynumber: 1.9 Consensus size: 87
29564675 CGAGAGAGGC
* * *
29564685 AAGGCTAGTGTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 AAGGCTAGGGACTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAACCTA
* *
29564750 CTCCGCTGCTGCTCAGGGAAAT
66 CTCCACTACTGCTCAGGGAAAT
* * * *
29564772 AAGGCTGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAGCCTA
1 AAGGCTAGGGACTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAACCTA
29564837 CTCCACTACTGCTCA
66 CTCCACTACTGCTCA
29564852 AGGAGATAGG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (87 bp):
AAGGCTAGGGACTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAACCTA
CTCCACTACTGCTCAGGGAAAT
Found at i:29564914 original size:88 final size:88
Alignment explanation
Indices: 29564807--29565138 Score: 304
Period size: 88 Copynumber: 3.8 Consensus size: 88
29564797 ACTACTGCTT
* * *
29564807 AGGGAGATAAGA-TCTGTAAT-TCTCAGCCTACTCCACTACTGCTCAAGGAGATAGGATTCACAA
1 AGGGAGATAAGATTC-GTAATCT-TCAACCTATTCCACTACTGCTCAGGGAGATAGGATTCACAA
* * *
29564870 TCTTCCACTTATTCCACTGTTGA-AC
64 TCTTCAACCTATTCCACTGCT-ACAC
** * * **
29564895 AGGGAGATAAGATTCGTAATCTTCAATTTATTCCACTATTGAC-CAGGGAGATAAGATTCGTAAT
1 AGGGAGATAAGATTCGTAATCTTCAACCTATTCCACTACTG-CTCAGGGAGATAGGATTCACAAT
*
29564959 CTTCAACCTATTCCACTGCTACCC
65 CTTCAACCTATTCCACTGCTACAC
* * * *
29564983 AGGGAGATAGGACTT-GCAATCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTCACAAT
1 AGGGAGATAAGA-TTCGTAATCTTCAACCTATTCCACTACTGCTCAGGGAGATAGGATTCACAAT
* *
29565047 CTTCAACCTATTTCGCTGCGGT-C-C
65 CTTCAACCTATTCCACTGC--TACAC
* ** * *
29565071 AGGGAGATAGGATTCACAATCTTCAACCTATGT-CGCTGCTG-TCCAGGGAGATAGGATTCACAA
1 AGGGAGATAAGATTCGTAATCTTCAACCTAT-TCCACTACTGCT-CAGGGAGATAGGATTCACAA
29565134 TCTTC
64 TCTTC
29565139 GATCTGCTTC
Statistics
Matches: 205, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
87 5 0.02
88 191 0.93
89 8 0.04
90 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (88 bp):
AGGGAGATAAGATTCGTAATCTTCAACCTATTCCACTACTGCTCAGGGAGATAGGATTCACAATC
TTCAACCTATTCCACTGCTACAC
Found at i:29564989 original size:132 final size:132
Alignment explanation
Indices: 29564807--29565138 Score: 339
Period size: 132 Copynumber: 2.5 Consensus size: 132
29564797 ACTACTGCTT
* * * * *
29564807 AGGGAGATAAGA-TCTGTAAT-TCTCAGCCTACTCCACTACTGCTCAAGGAGATAGGATTCACAA
1 AGGGAGATAAGATTC-GTAATCT-TCAACCTATTCCACTGCTGCCCAGGGAGATAGGATTCACAA
* * * * ** ** **
29564870 TCTTCCACTTATTCCACTGTTGAACAGGGAGATAAGATTCGTAATCTTCAATTTATTCCACTATT
64 TCTTCAACCTATTCCACTGCTGAACAGGGAGATAAGACTCACAATCTTCAACCTATTCCACTACG
29564935 GACC
129 GACC
* *
29564939 AGGGAGATAAGATTCGTAATCTTCAACCTATTCCACTGCTACCCAGGGAGATAGGACTT-GCAAT
1 AGGGAGATAAGATTCGTAATCTTCAACCTATTCCACTGCTGCCCAGGGAGATAGGA-TTCACAAT
** * * * *
29565003 CTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTCACAATCTTCAACCTATTTCGCTGCGG
65 CTTCAACCTATTCCACTGCTGAACAGGGAGATAAGACTCACAATCTTCAACCTATTCCACTACGG
*
29565068 TCC
130 ACC
* ** * *
29565071 AGGGAGATAGGATTCACAATCTTCAACCTATGT-CGCTGCTGTCCAGGGAGATAGGATTCACAAT
1 AGGGAGATAAGATTCGTAATCTTCAACCTAT-TCCACTGCTGCCCAGGGAGATAGGATTCACAAT
29565135 CTTC
65 CTTC
29565139 GATCTGCTTC
Statistics
Matches: 164, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
131 2 0.01
132 156 0.95
133 6 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATTCGTAATCTTCAACCTATTCCACTGCTGCCCAGGGAGATAGGATTCACAATC
TTCAACCTATTCCACTGCTGAACAGGGAGATAAGACTCACAATCTTCAACCTATTCCACTACGGA
CC
Found at i:29565036 original size:44 final size:43
Alignment explanation
Indices: 29564695--29565138 Score: 261
Period size: 44 Copynumber: 10.1 Consensus size: 43
29564685 AAGGCTAGTG
* * * * * *
29564695 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGAT-TGCAA
* * * * * * **
29564739 TTTTCAACCTACTCCGCTGCTGCTCAGGGAAATAAGGCTGGGGA
1 TCTTCAACCTATTCCACTGCTGCTCAGGGAGAT-AGGATTGCAA
* * ** * * * *
29564783 -CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGAT-TGCAA
* * * * *
29564826 T-TCTCAGCCTACTCCACTACTGCTCAAGGAGATAGGATTCACAA
1 TCT-TCAACCTATTCCACTGCTGCTCAGGGAGATAGGATT-GCAA
* * * ** * *
29564870 TCTTCCACTTATTCCACTGTTGAACAGGGAGATAAGATTCGTAA
1 TCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATT-GCAA
** ** * *
29564914 TCTTCAATTTATTCCACTATTGAC-CAGGGAGATAAGATTCGTAA
1 TCTTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGATT-GCAA
* *
29564958 TCTTCAACCTATTCCACTGCTACCCAGGGAGATAGGACTTGCAA
1 TCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGA-TTGCAA
**
29565002 TCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTCACAA
1 TCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGA-TTGCAA
* * * *
29565046 TCTTCAACCTATTTCGCTGC-GGTCCAGGGAGATAGGATTCACAA
1 TCTTCAACCTATTCCACTGCTGCT-CAGGGAGATAGGATT-GCAA
* *
29565090 TCTTCAACCTATGT-CGCTGCTG-TCCAGGGAGATAGGATTCACAA
1 TCTTCAACCTAT-TCCACTGCTGCT-CAGGGAGATAGGATT-GCAA
29565134 TCTTC
1 TCTTC
29565139 GATCTGCTTC
Statistics
Matches: 323, Mismatches: 64, Indels: 26
0.78 0.15 0.06
Matches are distributed among these distances:
42 3 0.01
43 32 0.10
44 280 0.87
45 8 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
TCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTGCAA
Found at i:29567153 original size:57 final size:57
Alignment explanation
Indices: 29567065--29567181 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
29567055 GGCTCTCATC
29567065 TGAAATGGATTCCAATTCTTTAATATACCCTGCAATAAACCCTGATATATCTTGAAT
1 TGAAATGGATTCCAATTCTTTAATATACCCTGCAATAAACCCTGATATATCTTGAAT
29567122 TGAAATGGATTCCAATTCTTTAATATACCCTGCAATAAACCCTGATATATCTTGAAT
1 TGAAATGGATTCCAATTCTTTAATATACCCTGCAATAAACCCTGATATATCTTGAAT
29567179 TGA
1 TGA
29567182 TTATTTGATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (57 bp):
TGAAATGGATTCCAATTCTTTAATATACCCTGCAATAAACCCTGATATATCTTGAAT
Found at i:29571847 original size:9 final size:9
Alignment explanation
Indices: 29571833--29571866 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
29571823 TTATTCCAGC
29571833 AACTAAATT
1 AACTAAATT
29571842 AACTAAGATT
1 AACTAA-ATT
*
29571852 AACTTAATT
1 AACTAAATT
29571861 AACTAA
1 AACTAA
29571867 GATGAGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTAAATT
Found at i:29571860 original size:19 final size:19
Alignment explanation
Indices: 29571833--29571869 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29571823 TTATTCCAGC
29571833 AACTAAATTAACTAAGATT
1 AACTAAATTAACTAAGATT
*
29571852 AACTTAATTAACTAAGAT
1 AACTAAATTAACTAAGAT
29571870 GAGTAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
AACTAAATTAACTAAGATT
Found at i:29571889 original size:54 final size:54
Alignment explanation
Indices: 29571823--29571948 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
29571813 CAACAATAAA
* * *
29571823 TTATTCCAGCAACTAAATTAACTAAGATTAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAAATGAACTCAATTAACTAAGATGAGTAAT
* *
29571877 TTGTTCCAGCAACTTAATTAACTAAAATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAAATGAACTCAATTAACTAAGATGAGTAAT
29571931 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
29571949 ACTTATTCCA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAAATGAACTCAATTAACTAAGATGAGTAAT
Found at i:29571914 original size:19 final size:19
Alignment explanation
Indices: 29571887--29571925 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
29571877 TTGTTCCAGC
*
29571887 AACTTAATTAACTAAAATG
1 AACTCAATTAACTAAAATG
*
29571906 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAAATG
29571925 A
1 A
29571926 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAAATG
Found at i:29575332 original size:24 final size:24
Alignment explanation
Indices: 29575253--29575334 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
29575243 TACAAGAAGA
29575253 TGAAAGGTTTAAGGAAGATGAAAGG
1 TGAAAGG-TTAAGGAAGATGAAAGG
* *
29575278 CT-AAAAGTTAAAGAAGATGAAAGG
1 -TGAAAGGTTAAGGAAGATGAAAGG
* *
29575302 TGGAAGGTTAAGGGAGATGAAAGG
1 TGAAAGGTTAAGGAAGATGAAAGG
29575326 TGAAAGGTT
1 TGAAAGGTT
29575335 GAACATCCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 1 0.02
24 42 0.88
25 4 0.08
26 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.35, T:0.20
Consensus pattern (24 bp):
TGAAAGGTTAAGGAAGATGAAAGG
Found at i:29578194 original size:12 final size:12
Alignment explanation
Indices: 29578177--29578205 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
29578167 AAATTCAGCT
29578177 GAACATAATTAA
1 GAACATAATTAA
29578189 GAACATAATTAA
1 GAACATAATTAA
29578201 GAACA
1 GAACA
29578206 CAAGATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.21
Consensus pattern (12 bp):
GAACATAATTAA
Found at i:29589554 original size:25 final size:26
Alignment explanation
Indices: 29589498--29589561 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 26
29589488 TTGAGCCAGT
*
29589498 ATTCTTTTATTCTTTTTTTCGAGTAATT
1 ATTCTTTTATTCTTTTTTTC--GTAATC
29589526 ATTCTTTTATTC-TTTTTTC-TACATC
1 ATTCTTTTATTCTTTTTTTCGTA-ATC
29589551 ATTC-TTTATTC
1 ATTCTTTTATTC
29589562 ATTTCATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
24 9 0.26
25 6 0.18
27 7 0.21
28 12 0.35
ACGTcount: A:0.17, C:0.16, G:0.03, T:0.64
Consensus pattern (26 bp):
ATTCTTTTATTCTTTTTTTCGTAATC
Found at i:29594423 original size:87 final size:87
Alignment explanation
Indices: 29594277--29594734 Score: 446
Period size: 87 Copynumber: 5.4 Consensus size: 87
29594267 GGTGAAACAG
*
29594277 TCTTATCTCCCTGACGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
*
29594342 GTGGAGCGGATTAACATTCAGA
66 GTGGAGCGGATTAACATCCAGA
*
29594364 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
29594429 GTGGAGCGGATTAACATCCAGA
66 GTGGAGCGGATTAACATCCAGA
** * * * * *
29594451 TCTTATCTTTCTGAGGTTGCA---GAG-AG-CAGATCG-CATCCAGTCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGA-AGAAAT-CAATCCTATCTCCCTGAAGTTG
* **
29594510 CAGGGGAGCAGACAGAAGAA-AT-CA-A
64 CAGTGGAGC-G---GATTAACATCCAGA
* * ** * ** *
29594535 TCCTATCTCCCTGAAGTTGTAGTGGAGC-G---GATTAACATCCAGATCTTATCTTTCTGAGGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAA-AT-CA-ATCCTATCTCCCTGAAGTT
* * **
29594596 GCAG-AGAGCAGA-TCGCATCCAG-
63 GCAGTGGAGCGGATTAACATCCAGA
*
29594618 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
29594683 GTGGAGCGGATTAACATCCAGA
66 GTGGAGCGGATTAACATCCAGA
** * *
29594705 TCTTATCTTTCTGAGGTTGCAG-AGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
29594735 TCACATCCAG
Statistics
Matches: 300, Mismatches: 48, Indels: 47
0.76 0.12 0.12
Matches are distributed among these distances:
82 10 0.03
83 58 0.19
84 41 0.14
85 12 0.04
86 28 0.09
87 151 0.50
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
GTGGAGCGGATTAACATCCAGA
Found at i:29594518 original size:127 final size:127
Alignment explanation
Indices: 29594364--29594904 Score: 974
Period size: 127 Copynumber: 4.3 Consensus size: 127
29594354 AACATTCAGA
*
29594364 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
29594429 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
66 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
* *
29594491 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
29594556 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
66 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
*
29594618 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
*
29594683 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATCCAG
66 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
* * * *
29594745 ATCTTATCTCCCTAAAGTTGTAGTGGAGTAGACAGAAGAAATCAATCCTATCTCCTTGAAGTTGC
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGC
*
29594810 AGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCTAG
65 AGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
*
29594873 TCTTATCTCCCTGAACTTGCAGTGGAGCAGAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
29594905 TAAAAATAGC
Statistics
Matches: 397, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
127 277 0.70
128 120 0.30
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (127 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
Found at i:29594883 original size:255 final size:254
Alignment explanation
Indices: 29594364--29594904 Score: 974
Period size: 255 Copynumber: 2.1 Consensus size: 254
29594354 AACATTCAGA
*
29594364 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
*
29594429 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
66 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATCCAGTCT
* *
29594494 TATCTCCCTGAAGTTGCAGGGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGTAGTG
131 TATCTCCCTAAAGTTGCAGGGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTG
29594559 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
196 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
*
29594618 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
29594683 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATCCAGATC
66 GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATCCAG-TC
* * * *
29594748 TTATCTCCCTAAAGTTGTAGTGGAGTAGACAGAAGAAATCAATCCTATCTCCTTGAAGTTGCAGT
130 TTATCTCCCTAAAGTTGCAGGGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCAGT
*
29594813 GGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCTAG
195 GGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
*
29594873 TCTTATCTCCCTGAACTTGCAGTGGAGCAGAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
29594905 TAAAAATAGC
Statistics
Matches: 274, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
254 124 0.45
255 150 0.55
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (254 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
GTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATCCAGTCT
TATCTCCCTAAAGTTGCAGGGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTG
GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAG
Found at i:29601477 original size:25 final size:25
Alignment explanation
Indices: 29601431--29601494 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
29601421 TACATTTTTA
*
29601431 CATTCATTTTTGAGCAAATATTCTTT
1 CATTC-TTTTTGAACAAATATTCTTT
* *
29601457 CATTCTTTTTGAATAATTATTCTTT
1 CATTCTTTTTGAACAAATATTCTTT
29601482 CATTC-TTTTGAAC
1 CATTCTTTTTGAAC
29601495 TCTCTTCCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 7 0.21
25 22 0.65
26 5 0.15
ACGTcount: A:0.25, C:0.16, G:0.06, T:0.53
Consensus pattern (25 bp):
CATTCTTTTTGAACAAATATTCTTT
Found at i:29602203 original size:5 final size:6
Alignment explanation
Indices: 29602150--29602211 Score: 56
Period size: 6 Copynumber: 9.8 Consensus size: 6
29602140 AAAAAGGGTC
*
29602150 AAAATC AAAATA AAAATA AAAGTGATA AAAA-A GAAAA-A GAAAATA AAAATA
1 AAAATA AAAATA AAAATA AAA---ATA AAAATA -AAAATA -AAAATA AAAATA
29602201 AAAATA AAAAT
1 AAAATA AAAAT
29602212 GGAGAGGCCG
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
5 1 0.02
6 42 0.84
7 1 0.02
9 6 0.12
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:29603566 original size:44 final size:44
Alignment explanation
Indices: 29603516--29603659 Score: 200
Period size: 44 Copynumber: 3.3 Consensus size: 44
29603506 GAAGCAGATC
**
29603516 GAAGATTGTGAA-TCCTATCTCCATGGACAATAGTGGAATAGGTT
1 GAAGATTGT-AAGTCCTATCTCCATGGACAGCAGTGGAATAGGTT
* * *
29603560 GAAGATTGCAAGTCATATCTCCTTGGACAGCAGTGGAATAGGTT
1 GAAGATTGTAAGTCCTATCTCCATGGACAGCAGTGGAATAGGTT
* * *
29603604 GAAGATTGTAAGCCCTATCTCCCTGGACAGCAGTGAAATAGGTT
1 GAAGATTGTAAGTCCTATCTCCATGGACAGCAGTGGAATAGGTT
29603648 GAAGATTGTAAG
1 GAAGATTGTAAG
29603660 CCTTGCCTCC
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 2 0.02
44 87 0.98
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (44 bp):
GAAGATTGTAAGTCCTATCTCCATGGACAGCAGTGGAATAGGTT
Found at i:29603939 original size:50 final size:49
Alignment explanation
Indices: 29603885--29604066 Score: 172
Period size: 50 Copynumber: 3.7 Consensus size: 49
29603875 TTTGGCAATA
29603885 CAGTGGAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGTGGTG
1 CAGTGGAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGT-GTG
* * * * **
29603935 CAGTGGAACAGATTGAAG-TCACAA-AGGCAAATCTTGCTTCCCCGACAT-TG
1 CAGTGGAAAAGATTGAAGCT-ACAACA-GCGAATCTTACTT-TCC-AGGTGTG
** * *
29603985 CAGTTAAAAAGATTGAAGCTACAATAGCGAATCTTACTTTCCTGGCTGTG
1 CAGTGGAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGG-TGTG
* * *
29604035 CAGTGGAACAGATTGAAGCTACGACAGTGAAT
1 CAGTGGAAAAGATTGAAGCTACAACAGCGAAT
29604067 ATTGTTTCCC
Statistics
Matches: 103, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
49 5 0.05
50 92 0.89
51 4 0.04
52 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (49 bp):
CAGTGGAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGTGTG
Found at i:29604076 original size:100 final size:99
Alignment explanation
Indices: 29603891--29604102 Score: 277
Period size: 100 Copynumber: 2.1 Consensus size: 99
29603881 AATACAGTGG
29603891 AAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGTGGTGCAGTGGAACAGATTGAAGTCA
1 AAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGTGGTGCAGTGGAACAGATTGAAGTCA
* * *
29603956 CAAAGGCAAATCTTGCTTCCCCGACATTGCAGTTA
66 CAAAGG-AAATATTGCTTCCCCAACATTACAGTTA
* *
29603991 AAAAGATTGAAGCTACAATAGCGAATCTTACTTTCCTGGCT-GTGCAGTGGAACAGATTGAAG-C
1 AAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGG-TGGTGCAGTGGAACAGATTGAAGTC
* * *
29604054 TACGACAGTG-AATATTGTTTCCCCAATATTACAGTTA
65 -AC-AAAG-GAAATATTGCTTCCCCAACATTACAGTTA
*
29604091 AAAAAATTGAAG
1 AAAAGATTGAAG
29604103 AAAATAATCC
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 93 0.94
101 4 0.04
102 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (99 bp):
AAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGTGGTGCAGTGGAACAGATTGAAGTCA
CAAAGGAAATATTGCTTCCCCAACATTACAGTTA
Found at i:29604255 original size:44 final size:43
Alignment explanation
Indices: 29604194--29604811 Score: 391
Period size: 44 Copynumber: 14.5 Consensus size: 43
29604184 TTGCATACAG
29604194 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGAAACCAA
* * * * ** *
29604238 TCCTATCTCCTTAAAGTTGCAGTGGAGCGGATTAA-AACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAAAC-CA-A
* * * * * *
29604282 TCTTATCTCTCTGAAGTTGCAGTAGAGCTGATC---GTATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAAACCAA
* *
29604323 TCTTATATCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAGAAACCAA
** **
29604367 TCCCATCTCCCTGAAGTTGCAGTGGAGCAG---ATTAAA-CAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAAACCA-A
* * * * * * *
29604407 TCTTATCTCTCTGAAGTTACAGTAGAGCATATC---GTATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAAACCAA
*
29604448 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAGAAACCAA
* * * **
29604492 TCCTATCTCCCTGAAGTTGCAGTGGAG-TG--GATTAAA-CATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAAACCA-A
* * * * * *
29604532 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATC---GTATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAAACCAA
*
29604573 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGAAACCAA
* * ** *
29604617 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAAAC-CA-A
** * * * * *
29604661 TCTTATCTTGCTAAAGTTGCAGTAGAGCAGATC---GCATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAAACCAA
*
29604702 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAGAAACCAA
* * * ** *
29604746 TCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCA-TAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAAACCA-A
*
29604790 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAG
29604812 AGAGTAGATC
Statistics
Matches: 435, Mismatches: 102, Indels: 74
0.71 0.17 0.12
Matches are distributed among these distances:
39 4 0.01
40 59 0.14
41 110 0.25
42 14 0.03
43 14 0.03
44 232 0.53
45 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAAACCAA
Found at i:29604375 original size:129 final size:129
Alignment explanation
Indices: 29604099--29604836 Score: 1070
Period size: 125 Copynumber: 5.8 Consensus size: 129
29604089 TAAAAAAATT
** *
29604099 GAAGAAAATAATCCTATCTCCCT-AAGGTTGCAGTGGAGCAGATTAAAACCAAAGATCTTATCTC
1 GAAGAAACCAATCCTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTC
* * *
29604163 TCTGAAGTTGCAG-AGAGCAGATTGCATACAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
65 TCTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* * * *
29604227 AAAGAAACCAATCCTATCTCCTTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCT
* * *
29604292 CTGAAGTTGCAGTAGAGCTGATCGTATCCAGTCTTATATCCCTGAAGTTGCAGTGGAGCAGATA
66 CTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
*
29604356 GAAGAAACCAATCCCATCTCCCTGAAGTTGCAGTGGAGCAGATT--AA--ACAGATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCT
* * *
29604417 CTGAAGTTACAGTAGAGCATATCGTATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACA
66 CTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
** *
29604481 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATT--AA--ACATATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCT
* *
29604542 CTAAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACA
66 CTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
29604606 AAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCT-T
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCT
* * *
29604670 GCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATA
66 -CTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* * *
29604735 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCATAGATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCT
* * *
29604800 CTGAAGTTGCAG-AGAGTAGATCGCAT-CAGACTTATCT
66 CTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCT
29604837 TTAAAATTAT
Statistics
Matches: 556, Mismatches: 46, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
125 231 0.42
127 14 0.03
128 82 0.15
129 228 0.41
130 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (129 bp):
GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCT
CTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
Found at i:29606196 original size:3 final size:3
Alignment explanation
Indices: 29606188--29606215 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
29606178 ATTAATACTC
29606188 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
29606216 AACCATGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:29606359 original size:30 final size:28
Alignment explanation
Indices: 29606325--29606399 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 28
29606315 AAAATATACA
*
29606325 TTTATTTTCTATAGTATATATATACACTTT
1 TTTATTTTCTATAGTAT-TATAAACA-TTT
* * *
29606355 TTTATTTT-TAAATTATTATAAATATTT
1 TTTATTTTCTATAGTATTATAAACATTT
29606382 TTTATTATTCTATA-TATT
1 TTTATT-TTCTATAGTATT
29606400 CCATTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 9 0.24
28 12 0.32
29 9 0.24
30 8 0.21
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTATTTTCTATAGTATTATAAACATTT
Found at i:29608742 original size:33 final size:34
Alignment explanation
Indices: 29608704--29608771 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 34
29608694 AATTTAATAT
* *
29608704 AAATATAAGTAGTTC-CTTAAC-AAATTTTCAAGC
1 AAATATAAGTA-ATCACTTAACAAAAATTTCAAGC
29608737 AAATATAAGTAATCACTTAACAAAAATTTCAAGC
1 AAATATAAGTAATCACTTAACAAAAATTTCAAGC
29608771 A
1 A
29608772 TAACATAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 2 0.06
33 17 0.55
34 12 0.39
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (34 bp):
AAATATAAGTAATCACTTAACAAAAATTTCAAGC
Found at i:29610180 original size:2 final size:2
Alignment explanation
Indices: 29610173--29610197 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29610163 TGCTATAATC
29610173 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
29610198 AATTGACCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29610745 original size:16 final size:17
Alignment explanation
Indices: 29610724--29610755 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29610714 TTCTAACCCT
29610724 TAAAATAAT-ATTATAA
1 TAAAATAATAATTATAA
29610740 TAAAATAATAATTATA
1 TAAAATAATAATTATA
29610756 GATATATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATAATAATTATAA
Found at i:29620273 original size:21 final size:19
Alignment explanation
Indices: 29620241--29620301 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 19
29620231 TTTCATTTAG
*
29620241 TTTTTATATTTTATTTATTT
1 TTTTTTTATTTTATTT-TTT
*
29620261 TTATTTTTATTTTGTTTTTT
1 TT-TTTTTATTTTATTTTTT
29620281 TTTGTTTTAGTTTTAGTTTTT
1 TTT-TTTTA-TTTTA-TTTTT
29620302 AGTTATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 12 0.35
21 16 0.47
22 5 0.15
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (19 bp):
TTTTTTTATTTTATTTTTT
Found at i:29620278 original size:17 final size:17
Alignment explanation
Indices: 29620235--29620283 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
29620225 AAGTGATTTC
*
29620235 ATTTAGTTTTTATATTTT
1 ATTTTGTTTTTAT-TTTT
*
29620253 A-TTTATTTTTATTTTT
1 ATTTTGTTTTTATTTTT
29620269 ATTTTGTTTTT-TTTT
1 ATTTTGTTTTTATTTT
29620284 GTTTTAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 9 0.33
17 17 0.63
18 1 0.04
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (17 bp):
ATTTTGTTTTTATTTTT
Found at i:29623412 original size:18 final size:18
Alignment explanation
Indices: 29623389--29623431 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
29623379 ACCTAATCCA
**
29623389 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
29623407 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
29623425 AACCCAA
1 AACCCAA
29623432 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:29623553 original size:9 final size:9
Alignment explanation
Indices: 29623535--29623601 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
29623525 GTAGTGATTC
*
29623535 AATTCAGTT
1 AATTCGGTT
29623544 AATTCGGTT
1 AATTCGGTT
29623553 AATTCAGG-T
1 AATTC-GGTT
29623562 AATTCGGTT
1 AATTCGGTT
*
29623571 AATTCGGGT
1 AATTCGGTT
*
29623580 AA-TCTAGTT
1 AATTC-GGTT
*
29623589 AATTCGGGT
1 AATTCGGTT
29623598 AATT
1 AATT
29623602 TTTCACTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 4 0.08
9 40 0.83
10 4 0.08
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:29623558 original size:18 final size:18
Alignment explanation
Indices: 29623535--29623601 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
29623525 GTAGTGATTC
*
29623535 AATTCAGTTAATTCGGTT
1 AATTCAGGTAATTCGGTT
29623553 AATTCAGGTAATTCGGTT
1 AATTCAGGTAATTCGGTT
* *
29623571 AATTCGGGTAA-TCTAGTT
1 AATTCAGGTAATTC-GGTT
*
29623589 AATTCGGGTAATT
1 AATTCAGGTAATT
29623602 TTTCACTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
17 2 0.05
18 41 0.93
19 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (18 bp):
AATTCAGGTAATTCGGTT
Found at i:29623571 original size:27 final size:27
Alignment explanation
Indices: 29623535--29623601 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
29623525 GTAGTGATTC
* *
29623535 AATTCAGTTAATTCGGTTAATTC-AGGT
1 AATTCGGTTAATTCGGGTAA-TCTAGGT
*
29623562 AATTCGGTTAATTCGGGTAATCTAGTT
1 AATTCGGTTAATTCGGGTAATCTAGGT
*
29623589 AATTCGGGTAATT
1 AATTCGGTTAATT
29623602 TTTCACTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATCTAGGT
Found at i:29625994 original size:31 final size:29
Alignment explanation
Indices: 29625924--29625996 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
29625914 ACTTCAAGTT
* *
29625924 ACATTTTAGTTACTTATGTTTGGAATGTT
1 ACATTTTAGTCACTTATGTTTGGAATGTA
* * *
29625953 ACGTTTTAGTCACTTATGTTATTGTATTGTA
1 ACATTTTAGTCACTTATG-T-TTGGAATGTA
29625984 ACATTTTAGTCAC
1 ACATTTTAGTCAC
29625997 CGAGCCATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 16 0.44
30 1 0.03
31 19 0.53
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGGAATGTA
Found at i:29626437 original size:17 final size:16
Alignment explanation
Indices: 29626406--29626446 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
29626396 GAAAAATAAA
*
29626406 TAAAAAAAATGAAAGT
1 TAAAAAAAATAAAAGT
29626422 TAAAATAAAATAAAAG-
1 TAAAA-AAAATAAAAGT
29626438 -AAAAAAAAT
1 TAAAAAAAAT
29626447 TTAATTGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.22
15 4 0.17
16 5 0.22
17 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
TAAAAAAAATAAAAGT
Found at i:29626450 original size:26 final size:25
Alignment explanation
Indices: 29626398--29626450 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
29626388 AAGAGAATGA
*
29626398 AAAATAAATAAAAAAAATGAAAGTT
1 AAAATAAATAAAAAAAATAAAAGTT
*
29626423 AAAATAAAATAAAAGAAAA-AAAATTT
1 AAAAT-AAATAAAA-AAAATAAAAGTT
29626449 AA
1 AA
29626451 TTGCTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.21
26 15 0.62
27 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (25 bp):
AAAATAAATAAAAAAAATAAAAGTT
Found at i:29626727 original size:16 final size:16
Alignment explanation
Indices: 29626706--29626740 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
29626696 CAAATATATT
29626706 TATTTTTTTGTAAAAA
1 TATTTTTTTGTAAAAA
29626722 TATTTTTTTGTAAAAA
1 TATTTTTTTGTAAAAA
29626738 TAT
1 TAT
29626741 GATTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (16 bp):
TATTTTTTTGTAAAAA
Found at i:29641045 original size:38 final size:38
Alignment explanation
Indices: 29640968--29641073 Score: 130
Period size: 38 Copynumber: 2.8 Consensus size: 38
29640958 ATGGGTAAAA
* *
29640968 AATCTCATTTCTAAATTTATTTGCT-GATATTTTGTTTTT
1 AATCTCATTTCTAAATTTA-TTG-TAAATATTTTATTTTT
*
29641007 AATCTCGTTTCTAAATTTATTGTAAATATTTTATTTTT
1 AATCTCATTTCTAAATTTATTGTAAATATTTTATTTTT
*
29641045 AATCACATTTCT-AATTTA-T-TAAATATTTT
1 AATCTCATTTCTAAATTTATTGTAAATATTTT
29641074 GAAACACTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
35 10 0.16
36 1 0.02
37 7 0.11
38 25 0.41
39 18 0.30
ACGTcount: A:0.29, C:0.09, G:0.05, T:0.57
Consensus pattern (38 bp):
AATCTCATTTCTAAATTTATTGTAAATATTTTATTTTT
Found at i:29644235 original size:21 final size:21
Alignment explanation
Indices: 29644211--29644251 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29644201 GGGGTTTGGG
* *
29644211 GTTTGGGGTTAAGGGTTTATA
1 GTTTAGGGTTAAGGATTTATA
*
29644232 GTTTAGGGTTTAGGATTTAT
1 GTTTAGGGTTAAGGATTTAT
29644252 GATTAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (21 bp):
GTTTAGGGTTAAGGATTTATA
Found at i:29644421 original size:15 final size:16
Alignment explanation
Indices: 29644389--29644427 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
29644379 GAAATTCTAG
29644389 ATTAATATAAATGAAA
1 ATTAATATAAATGAAA
**
29644405 A-TAATATAAATTTAA
1 ATTAATATAAATGAAA
29644420 ATTAATAT
1 ATTAATAT
29644428 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTAATATAAATGAAA
Found at i:29647412 original size:20 final size:20
Alignment explanation
Indices: 29647384--29647552 Score: 120
Period size: 20 Copynumber: 8.7 Consensus size: 20
29647374 TGGAAATAAC
*
29647384 ATAAAATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
*
29647404 ATAATATTAAGATTACTTAT
1 ATAATATTAAGATAACTTAT
* * *
29647424 ATAGTATTAAGACAAAATT-T
1 ATAATATTAAGA-TAACTTAT
* *
29647444 CT-A-ATT-ACATAACTTAT
1 ATAATATTAAGATAACTTAT
29647461 ATAAATATTAAGATAAACTTAT
1 AT-AATATTAAGAT-AACTTAT
*
29647483 ATAATATTAAGATAAAATT-T
1 ATAATATTAAGAT-AACTTAT
* * *
29647503 CT-A-ATT-ACATAACTTCT
1 ATAATATTAAGATAACTTAT
*
29647520 ATAATATTAAGATAAGTTAT
1 ATAATATTAAGATAACTTAT
* *
29647540 ATTATTTTAAGAT
1 ATAATATTAAGAT
29647553 TAAATTTGGA
Statistics
Matches: 115, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
16 8 0.07
17 9 0.08
18 7 0.06
19 5 0.04
20 55 0.48
21 22 0.19
22 9 0.08
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAATATTAAGATAACTTAT
Found at i:29647493 original size:59 final size:57
Alignment explanation
Indices: 29647395--29647586 Score: 276
Period size: 57 Copynumber: 3.3 Consensus size: 57
29647385 TAAAATTAAG
* * *
29647395 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAAAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTAC
29647452 ATAACTTATATAAATATTAAGATAAACTTATATAATATTAAGATAAAATTTCTAATTAC
1 ATAACTTATAT-AATATTAAGAT-AACTTATATAATATTAAGATAAAATTTCTAATTAC
* * * * * **
29647511 ATAACTTCTATAATATTAAGATAAGTTATATTATTTTAAGATTAAATTTGGAATTAC
1 ATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTAC
29647568 ATAACTTATATAATATTAA
1 ATAACTTATATAATATTAA
29647587 ATTGTAATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 58 0.48
58 22 0.18
59 42 0.34
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (57 bp):
ATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTAC
Found at i:29647596 original size:94 final size:91
Alignment explanation
Indices: 29647476--29647714 Score: 265
Period size: 94 Copynumber: 2.6 Consensus size: 91
29647466 TATTAAGATA
* *
29647476 AACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTCTATAATATTAAGATAAGTTATA
1 AACTTATATAATATTAA-AT-TAATTTCTAATTACATAACTT-TATAATATTAAGATAACTTATA
** * * *
29647541 TTATTTTAAGATTAAATTTGGAATTACAT
63 CAATATTAAGATAAAATTTCGAATTACAT
* * *
29647570 AACTTATATAATATTAAATTGTAATTTCTAAGTACACTTAAATTTAT-ATATTTAGATAACTTAT
1 AACTTATATAATATTAAA-T-TAATTTCTAATTACA--TAACTTTATAATATTAAGATAACTTAT
29647634 ACAATATTAAGATAAAATTTCGAATTACAT
62 ACAATATTAAGATAAAATTTCGAATTACAT
*
29647664 AACTTATAT-A-A-T--ATTAATTTCTCATTACATAACTTATATAATATTAAGATA
1 AACTTATATAATATTAAATTAATTTCTAATTACATAACTT-TATAATATTAAGATA
29647715 CAATTTCTAA
Statistics
Matches: 125, Mismatches: 15, Indels: 17
0.80 0.10 0.11
Matches are distributed among these distances:
85 5 0.04
86 3 0.02
87 23 0.18
88 1 0.01
89 1 0.01
91 1 0.01
92 1 0.01
93 2 0.02
94 80 0.64
95 3 0.02
96 5 0.04
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (91 bp):
AACTTATATAATATTAAATTAATTTCTAATTACATAACTTTATAATATTAAGATAACTTATACAA
TATTAAGATAAAATTTCGAATTACAT
Found at i:29647653 original size:57 final size:58
Alignment explanation
Indices: 29647568--29647783 Score: 188
Period size: 57 Copynumber: 3.6 Consensus size: 58
29647558 TTGGAATTAC
** *
29647568 ATAACTTATATAATATTAA-ATTGTAATTTCTAAGTACACT-TAAATTTATATATTTAG
1 ATAACTTATATAATATTAAGA-TAAAATTTCTAATTACACTATAAATTTATATATTTAG
* * * *
29647625 ATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAATTTCTCATT
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTAC---AC-TATA-AAT-TT-ATATAT--TT
*
29647690 AC
57 AG
* * * *
29647692 ATAACTTATATAATATTAAGATACAATTTCTAATTACA-TGTCAATTTCTA-ATTTTAG
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACACTATAAATTTATATA-TTTAG
29647749 ATAACTTATATAATATTAAGATAAAATTTCATAAT
1 ATAACTTATATAATATTAAGATAAAATTTC-TAAT
29647784 ACATAGCTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 25
0.75 0.11 0.15
Matches are distributed among these distances:
57 62 0.48
58 5 0.04
59 2 0.02
60 4 0.03
61 4 0.03
62 4 0.03
63 3 0.02
64 3 0.02
65 4 0.03
67 37 0.29
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (58 bp):
ATAACTTATATAATATTAAGATAAAATTTCTAATTACACTATAAATTTATATATTTAG
Found at i:29647667 original size:37 final size:35
Alignment explanation
Indices: 29647625--29647730 Score: 116
Period size: 37 Copynumber: 3.1 Consensus size: 35
29647615 ATATATTTAG
*
29647625 ATAACTTATACAATATTAAGATAAAATTTCGAATTAC
1 ATAACTTATATAATATTAAGAT-AAATTTC-AATTAC
29647662 ATAACTTATATAATATT-A-AT---TTCTC-ATTAC
1 ATAACTTATATAATATTAAGATAAATT-TCAATTAC
29647692 ATAACTTATATAATATTAAGATACAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATA-AATTTC-AATTAC
29647729 AT
1 AT
29647731 GTCAATTTCT
Statistics
Matches: 59, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
30 22 0.37
31 3 0.05
32 4 0.07
35 4 0.07
36 3 0.05
37 23 0.39
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.41
Consensus pattern (35 bp):
ATAACTTATATAATATTAAGATAAATTTCAATTAC
Found at i:29647787 original size:124 final size:124
Alignment explanation
Indices: 29647563--29647798 Score: 327
Period size: 124 Copynumber: 1.9 Consensus size: 124
29647553 TAAATTTGGA
**
29647563 ATTACATAACTTATATAATATTAAATTGTAATTTCTAAGTACACTTAAATTTATATATTTAGATA
1 ATTACATAACTTATATAATATTAAATTACAATTTCTAAGTACACTTAAATTTATATATTTAGATA
* *
29647628 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAATTTCTC
66 ACTTATACAATATTAAGATAAAATTTCGAAATACATAACTTAAATAATATTAATTTCTC
* * *
29647687 ATTACATAACTTATATAATATTAAGA-TACAATTTCTAATTACA-TGTCAATTTCTA-ATTTTAG
1 ATTACATAACTTATATAATATTAA-ATTACAATTTCTAAGTACACT-TAAATTTATATA-TTTAG
* *
29647749 ATAACTTATATAATATTAAGATAAAATTTC-ATAATACATAGCTTAAATAA
63 ATAACTTATACAATATTAAGATAAAATTTCGA-AATACATAACTTAAATAA
29647799 CTAACATAAT
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
123 3 0.03
124 95 0.96
125 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (124 bp):
ATTACATAACTTATATAATATTAAATTACAATTTCTAAGTACACTTAAATTTATATATTTAGATA
ACTTATACAATATTAAGATAAAATTTCGAAATACATAACTTAAATAATATTAATTTCTC
Found at i:29647836 original size:9 final size:9
Alignment explanation
Indices: 29647820--29648151 Score: 153
Period size: 9 Copynumber: 39.3 Consensus size: 9
29647810 CACAACTTAA
29647820 TACATAACT
1 TACATAACT
*
29647829 TTCATAACT
1 TACATAACT
29647838 TAACATAA--
1 T-ACATAACT
29647846 TACATAACGT
1 TACATAAC-T
29647856 T-CATAACT
1 TACATAACT
*
29647864 TACATTA-T
1 TACATAACT
*
29647872 T-CACAACT
1 TACATAACT
29647880 TACATAA--
1 TACATAACT
*
29647887 TACACAACTT
1 TACATAAC-T
29647897 AATACATAACT
1 --TACATAACT
*
29647908 TTCATAACT
1 TACATAACT
29647917 TAACATAA--
1 T-ACATAACT
29647925 TACATAACT
1 TACATAACT
*
29647934 TTCATAACT
1 TACATAACT
*
29647943 TACAT--TT
1 TACATAACT
* *
29647950 TTCACAACT
1 TACATAACT
*
29647959 TACATAGCT
1 TACATAACT
29647968 T--ATAACT
1 TACATAACT
* *
29647975 GA-ACAACT
1 TACATAACT
*
29647983 TACATAACA
1 TACATAACT
*
29647992 AACATAA--
1 TACATAACT
* *
29647999 TATATAACC
1 TACATAACT
*
29648008 GACATAACT
1 TACATAACT
*
29648017 AACATAA--
1 TACATAACT
*
29648024 TACATAGCT
1 TACATAACT
29648033 TACATAA--
1 TACATAACT
*
29648040 TACACAACT
1 TACATAACT
*
29648049 TACATAGCT
1 TACATAACT
29648058 TACAT-AC-
1 TACATAACT
*
29648065 TAAATAACT
1 TACATAACT
**
29648074 TACATAAAA
1 TACATAACT
29648083 TAC--AACT
1 TACATAACT
*
29648090 TACATAGCT
1 TACATAACT
*
29648099 CACATAA--
1 TACATAACT
*
29648106 TACGTAACT
1 TACATAACT
29648115 TACATAACT
1 TACATAACT
*
29648124 TATATAA--
1 TACATAACT
29648131 TACATAACT
1 TACATAACT
*
29648140 TACATAATT
1 TACATAACT
29648149 TAC
1 TAC
29648152 TTAATACAGA
Statistics
Matches: 236, Mismatches: 54, Indels: 66
0.66 0.15 0.19
Matches are distributed among these distances:
7 66 0.28
8 17 0.07
9 134 0.57
10 11 0.05
11 1 0.00
12 7 0.03
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:29647853 original size:26 final size:26
Alignment explanation
Indices: 29647817--29647944 Score: 159
Period size: 26 Copynumber: 4.9 Consensus size: 26
29647807 ATACACAACT
29647817 TAATACATAACTTTCATAACTTAACA
1 TAATACATAACTTTCATAACTTAACA
*
29647843 TAATACATAACGTTCATAACTT-ACA
1 TAATACATAACTTTCATAACTTAACA
* * * * ** *
29647868 TTATTCACAACTTACATAATACACAACT
1 TAATACATAACTTTCAT-A-ACTTAACA
29647896 TAATACATAACTTTCATAACTTAACA
1 TAATACATAACTTTCATAACTTAACA
29647922 TAATACATAACTTTCATAACTTA
1 TAATACATAACTTTCATAACTTA
29647945 CATTTTTCAC
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
25 15 0.18
26 50 0.60
27 3 0.04
28 15 0.18
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (26 bp):
TAATACATAACTTTCATAACTTAACA
Found at i:29647885 original size:79 final size:79
Alignment explanation
Indices: 29647797--29647964 Score: 309
Period size: 79 Copynumber: 2.1 Consensus size: 79
29647787 TAGCTTAAAT
*
29647797 AACTAACATAATACACAACTTAATACATAACTTTCATAACTTAACATAATACATAACGTTCATAA
1 AACTTACATAATACACAACTTAATACATAACTTTCATAACTTAACATAATACATAACGTTCATAA
29647862 CTTACATTATTCAC
66 CTTACATTATTCAC
*
29647876 AACTTACATAATACACAACTTAATACATAACTTTCATAACTTAACATAATACATAACTTTCATAA
1 AACTTACATAATACACAACTTAATACATAACTTTCATAACTTAACATAATACATAACGTTCATAA
*
29647941 CTTACATTTTTCAC
66 CTTACATTATTCAC
29647955 AACTTACATA
1 AACTTACATA
29647965 GCTTATAACT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 86 1.00
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (79 bp):
AACTTACATAATACACAACTTAATACATAACTTTCATAACTTAACATAATACATAACGTTCATAA
CTTACATTATTCAC
Found at i:29647892 original size:16 final size:16
Alignment explanation
Indices: 29647860--29647897 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
29647850 TAACGTTCAT
* *
29647860 AACTTACATTATTCAC
1 AACTTACATAATACAC
29647876 AACTTACATAATACAC
1 AACTTACATAATACAC
29647892 AACTTA
1 AACTTA
29647898 ATACATAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.32
Consensus pattern (16 bp):
AACTTACATAATACAC
Done.