Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 104 of 193
Found at i:33548737 original size:58 final size:58
Alignment explanation
Indices: 33548626--33548808 Score: 181
Period size: 58 Copynumber: 3.1 Consensus size: 58
33548616 TTAATGTAGG
* * ** *
33548626 AACAATTAT-AAAGTTTAGGGACTAATTTGGACAAAAGAAATTCAAGTCATAATATGAA
1 AACAATTATCAAAGTTCAGGGACTAACTTGGACAAAA-AAATTCAAACCCTAATATGAA
* * *
33548684 AACAATTATCAAAGTTCAGGGACTGACTTGAACAAAAAAATTCAAACCCTAATATAAA
1 AACAATTATCAAAGTTCAGGGACTAACTTGGACAAAAAAATTCAAACCCTAATATGAA
* * *** * *
33548742 AACAATTGTC-AATTTCATAAATTAACTTGGACAAAAAATAATTTCAGACCCTAATATGAA
1 AACAATTATCAAAGTTCAGGGACTAACTTGGAC-AAAAA-AA-TTCAAACCCTAATATGAA
33548802 AACAATT
1 AACAATT
33548809 GAAAAACTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
57 15 0.15
58 40 0.39
59 25 0.24
60 23 0.22
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (58 bp):
AACAATTATCAAAGTTCAGGGACTAACTTGGACAAAAAAATTCAAACCCTAATATGAA
Found at i:33561099 original size:40 final size:40
Alignment explanation
Indices: 33561006--33561113 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
33560996 ATCGAATTGT
* * * *
33561006 TTGAACTGGCAGTGACACTGTAAATACTGCGATATTATAA
1 TTGAACTGGCAGTGACACTGTAAACACTACAATACTATAA
* * * * *
33561046 CTG-AGTAGACAGTGACACTGTAAACACTACAATGCTATCA
1 TTGAACT-GGCAGTGACACTGTAAACACTACAATACTATAA
*
33561086 TTGAACTGGCAGTGACATTGTAAACACT
1 TTGAACTGGCAGTGACACTGTAAACACT
33561114 GCGATACTGC
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
39 2 0.04
40 49 0.92
41 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (40 bp):
TTGAACTGGCAGTGACACTGTAAACACTACAATACTATAA
Found at i:33563437 original size:24 final size:24
Alignment explanation
Indices: 33563410--33563456 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
33563400 AGAAATAATC
* *
33563410 TTTCAGTTAATCTCTGTTTATTTT
1 TTTCAATTAAACTCTGTTTATTTT
33563434 TTTCAATTAAACTCTGTTTATTT
1 TTTCAATTAAACTCTGTTTATTT
33563457 GTTTGAGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTT
Found at i:33563469 original size:24 final size:24
Alignment explanation
Indices: 33563421--33563472 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
33563411 TTCAGTTAAT
* *
33563421 CTCTGTTTATTTTTTTCAATTAAA
1 CTCTGTTTATTTGTTTCAATCAAA
* *
33563445 CTCTGTTTATTTGTTTGAGTCAAA
1 CTCTGTTTATTTGTTTCAATCAAA
33563469 CTCT
1 CTCT
33563473 TATTAGTCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (24 bp):
CTCTGTTTATTTGTTTCAATCAAA
Found at i:33565415 original size:24 final size:24
Alignment explanation
Indices: 33565364--33565418 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
33565354 TCTTTTAGTT
* *
33565364 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCTGTTAATTTGTTTCAATC
* *
33565388 AAACTCTGTTAATTTGTTTGAGTC
1 AAACTCTGTTAATTTGTTTCAATC
33565412 AAACTCT
1 AAACTCT
33565419 TATAAATCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (24 bp):
AAACTCTGTTAATTTGTTTCAATC
Found at i:33569064 original size:9 final size:9
Alignment explanation
Indices: 33569050--33569074 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33569040 ATTTTTATTT
33569050 AAATTTTTA
1 AAATTTTTA
33569059 AAATTTTTA
1 AAATTTTTA
33569068 AAATTTT
1 AAATTTT
33569075 AAATTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AAATTTTTA
Found at i:33569108 original size:23 final size:23
Alignment explanation
Indices: 33569082--33569169 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
33569072 TTTAAATTAA
*
33569082 TAAAAATTACATTTTTATTATCG
1 TAAAAATTATATTTTTATTATCG
* * * *
33569105 TAAAAATTTTAATTTAATCT-T-T
1 TAAAAATTATATTTTTAT-TATCG
*
33569127 TAAAAATTATATTTTTACTATCG
1 TAAAAATTATATTTTTATTATCG
* *
33569150 TAAAAATTATAATTTAATTA
1 TAAAAATTATATTTTTATTA
33569170 ATTTAATTTT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 1 0.02
22 15 0.31
23 32 0.65
24 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (23 bp):
TAAAAATTATATTTTTATTATCG
Found at i:33569120 original size:22 final size:22
Alignment explanation
Indices: 33569095--33569167 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
33569085 AAATTACATT
* *
33569095 TTTATTATCGTAAAAATTTTAA
1 TTTAATATCGTAAAAATTATAA
* ** *
33569117 TTTAATCTTTTAAAAATTATATT
1 TTTAATATCGTAAAAATTATA-A
*
33569140 TTTACTATCGTAAAAATTATAA
1 TTTAATATCGTAAAAATTATAA
33569162 TTTAAT
1 TTTAAT
33569168 TAATTTAATT
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
22 21 0.55
23 17 0.45
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (22 bp):
TTTAATATCGTAAAAATTATAA
Found at i:33569132 original size:45 final size:45
Alignment explanation
Indices: 33569082--33569167 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
33569072 TTTAAATTAA
* *
33569082 TAAAAATTACATTTTTATTATCGTAAAAATTTTAATTTAATCTTT
1 TAAAAATTACATTTTTACTATCGTAAAAATTATAATTTAATCTTT
*
33569127 TAAAAATTATATTTTTACTATCGTAAAAATTATAATTTAAT
1 TAAAAATTACATTTTTACTATCGTAAAAATTATAATTTAAT
33569168 TAATTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (45 bp):
TAAAAATTACATTTTTACTATCGTAAAAATTATAATTTAATCTTT
Found at i:33570788 original size:17 final size:19
Alignment explanation
Indices: 33570745--33570788 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
33570735 CCCGATCCGA
33570745 ATTATAAAAGTCAAACAAAT
1 ATTA-AAAAGTCAAACAAAT
33570765 ATTAAAAAGT-AAACAAAT
1 ATTAAAAAGTCAAACAAAT
33570783 -TTAAAA
1 ATTAAAA
33570789 TATATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 6 0.25
20 4 0.17
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (19 bp):
ATTAAAAAGTCAAACAAAT
Found at i:33570968 original size:23 final size:23
Alignment explanation
Indices: 33570937--33570986 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
33570927 CTAAACAATA
* * *
33570937 AAAATAACAACTAAAATAACAGC
1 AAAACAACAACAAAAATAACAAC
*
33570960 AAAACAACAACAAAAATAGCAAC
1 AAAACAACAACAAAAATAACAAC
33570983 AAAA
1 AAAA
33570987 ATAATAGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.70, C:0.18, G:0.04, T:0.08
Consensus pattern (23 bp):
AAAACAACAACAAAAATAACAAC
Found at i:33570969 original size:35 final size:35
Alignment explanation
Indices: 33570930--33570998 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
33570920 ATAACATCTA
* *
33570930 AACAATAAAAATAACAACTAAAATAACAGCAAAAC
1 AACAACAAAAATAACAACAAAAATAACAGCAAAAC
* *
33570965 AACAACAAAAATAGCAACAAAAATAATAGCAAAA
1 AACAACAAAAATAACAACAAAAATAACAGCAAAA
33570999 ATAGTATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.70, C:0.16, G:0.04, T:0.10
Consensus pattern (35 bp):
AACAACAAAAATAACAACAAAAATAACAGCAAAAC
Found at i:33570984 original size:15 final size:15
Alignment explanation
Indices: 33570964--33570996 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
33570954 AACAGCAAAA
33570964 CAACAACAAA-AATAG
1 CAACAA-AAATAATAG
33570979 CAACAAAAATAATAG
1 CAACAAAAATAATAG
33570994 CAA
1 CAA
33570997 AAATAGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.67, C:0.18, G:0.06, T:0.09
Consensus pattern (15 bp):
CAACAAAAATAATAG
Found at i:33570986 original size:11 final size:12
Alignment explanation
Indices: 33570930--33571001 Score: 74
Period size: 12 Copynumber: 6.1 Consensus size: 12
33570920 ATAACATCTA
*
33570930 AACAATAAAAAT
1 AACAACAAAAAT
*
33570942 AACAACTAAAAT
1 AACAACAAAAAT
* *
33570954 AACAGC-AAAAC
1 AACAACAAAAAT
33570965 AACAACAAAAAT
1 AACAACAAAAAT
*
33570977 AGCAACAAAAAT
1 AACAACAAAAAT
* *
33570989 AATAGCAAAAAT
1 AACAACAAAAAT
33571001 A
1 A
33571002 GTATCAAAAC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
11 9 0.18
12 40 0.82
ACGTcount: A:0.69, C:0.15, G:0.04, T:0.11
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:33570997 original size:24 final size:23
Alignment explanation
Indices: 33570960--33571031 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
33570950 AAATAACAGC
*
33570960 AAAACAACAACAAAAATAGCAACA
1 AAAACAA-TACAAAAATAGCAACA
* * *
33570984 AAAATAATAGCAAAAATAGTATC-
1 AAAACAATA-CAAAAATAGCAACA
*
33571007 AAAACAATA-AAAAATAGCACCA
1 AAAACAATACAAAAATAGCAACA
33571029 AAA
1 AAA
33571032 TAGCAAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
21 10 0.26
22 3 0.08
23 9 0.23
24 17 0.44
ACGTcount: A:0.68, C:0.15, G:0.06, T:0.11
Consensus pattern (23 bp):
AAAACAATACAAAAATAGCAACA
Found at i:33571009 original size:12 final size:12
Alignment explanation
Indices: 33570968--33571010 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
33570958 GCAAAACAAC
*
33570968 AACAAAAATAGC
1 AACAAAAATAGT
*
33570980 AACAAAAATAAT
1 AACAAAAATAGT
*
33570992 AGCAAAAATAGT
1 AACAAAAATAGT
*
33571004 ATCAAAA
1 AACAAAA
33571011 CAATAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.67, C:0.12, G:0.07, T:0.14
Consensus pattern (12 bp):
AACAAAAATAGT
Found at i:33571039 original size:21 final size:21
Alignment explanation
Indices: 33570989--33571041 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
33570979 CAACAAAAAT
* *
33570989 AATAGC-AAAAATAGTATCAA
1 AATAGCAAAAAATAGCACCAA
* **
33571009 AACAATAAAAAATAGCACCAA
1 AATAGCAAAAAATAGCACCAA
33571030 AATAGCAAAAAA
1 AATAGCAAAAAA
33571042 AAACAATCAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.66, C:0.13, G:0.08, T:0.13
Consensus pattern (21 bp):
AATAGCAAAAAATAGCACCAA
Found at i:33578536 original size:16 final size:17
Alignment explanation
Indices: 33578503--33578538 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
33578493 ATAATGATAA
*
33578503 TTCATCCAAGTAATTAT
1 TTCATCCAAATAATTAT
33578520 TTCATCCAAAT-ATTAT
1 TTCATCCAAATAATTAT
33578536 TTC
1 TTC
33578539 TCTCCCCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (17 bp):
TTCATCCAAATAATTAT
Found at i:33580991 original size:51 final size:51
Alignment explanation
Indices: 33580922--33581140 Score: 269
Period size: 51 Copynumber: 4.3 Consensus size: 51
33580912 TGATGACCAT
*
33580922 GTGTCATCGTGAGTAAATGAATCCTTTACGGATTAATGGTCCAATGACTAA
1 GTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAATGACTAA
* * * **
33580973 GTATCATCGTGAGAAAATGTATCCTTTACGGATTAAAGGTCTTATGACTAA
1 GTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAATGACTAA
* * *
33581024 GTGTCATTGTGAGTAAATGAATCCTTTACGGATTAAAGGTTCGATGACTAA
1 GTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAATGACTAA
* * * * * * *
33581075 GTGTCATCATTAGTAAATGAATCCATGACGAATTAGAGGTCCGATGA-TAA
1 GTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAATGACTAA
*
33581125 TATGTCATCGTGAGTA
1 -GTGTCATCGTGAGTA
33581141 TTAAATGAAA
Statistics
Matches: 143, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
50 3 0.02
51 140 0.98
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (51 bp):
GTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAATGACTAA
Found at i:33588281 original size:51 final size:51
Alignment explanation
Indices: 33588194--33588430 Score: 316
Period size: 51 Copynumber: 4.6 Consensus size: 51
33588184 GCTATAAACG
*
33588194 AAAGAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCTTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * *
33588246 AATGGTCTGATGACTAAGTGTCATCGGGA-TAAAATGTATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGT-AAATGAATCCTTTACGGATT
33588297 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * *
33588348 AAAGGTCCAATGACTAAGTGTCATTGTGAGTAAATGAATCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *
33588399 AAAGGTTCGATGAC-AATATGTCATCATGAGTA
1 AAAGGTCCGATGACTAA-GTGTCATCGTGAGTA
33588431 TTAAATGAAA
Statistics
Matches: 163, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 3 0.02
51 156 0.96
52 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:33590290 original size:48 final size:48
Alignment explanation
Indices: 33590214--33590305 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
33590204 CAATTTTAAA
* * *
33590214 ATCTTGCAACTTTAGGTGCATCTGATCATAACGAGCTGTAGATAGGAG
1 ATCTTGCAACTTTAAGTACATCTAATCATAACGAGCTGTAGATAGGAG
* *
33590262 ATCTTGCAACTTTAAGTACATCTAATCATAATGAGCTTTAGATA
1 ATCTTGCAACTTTAAGTACATCTAATCATAACGAGCTGTAGATA
33590306 AAATTATTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (48 bp):
ATCTTGCAACTTTAAGTACATCTAATCATAACGAGCTGTAGATAGGAG
Found at i:33594393 original size:19 final size:20
Alignment explanation
Indices: 33594359--33594400 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
33594349 ATCTCCTTCC
*
33594359 CACATAAAGCCTATATCAGA
1 CACATAAAGCCTATATCAAA
*
33594379 CACAT-AAGTCTATATCAAA
1 CACATAAAGCCTATATCAAA
33594398 CAC
1 CAC
33594401 TTCCTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.45, C:0.26, G:0.07, T:0.21
Consensus pattern (20 bp):
CACATAAAGCCTATATCAAA
Found at i:33596105 original size:163 final size:166
Alignment explanation
Indices: 33595875--33596180 Score: 437
Period size: 163 Copynumber: 1.8 Consensus size: 166
33595865 TAATTATTAT
*
33595875 AAAATCCAAATATAGAATATAATCTGTTAATCGAAGGGAATAAATCTCGAAACAGATTTAGTCAA
1 AAAATCCAAATATAGAATATAATCTGTTAATCG-AGGGAATAAATCCCGAAACAGATTTAGTCAA
* * * *
33595940 CTTATT-T-TATTTGGAA-TAAAATCAAACTGGAATAAAATCTGTTAAACAGC-GGGAATAAATC
65 CTTATTCTCT-TTTGGAAGTAAAATCAAAATAGAATAAAATATGTTAAACAGCAGGAAATAAATC
*
33596001 CCTAAACAAATTTATTTACTTCATTATTATTTGGAACC
129 CCAAAACAAATTTATTTACTTCATTATTATTTGGAACC
*
33596039 AAAATCCAAATATAGAATCA-AATCTGTTGAA-CG-GCGGAATAAATCCCGAAACAGATTTATTC
1 AAAATCCAAATATAGAAT-ATAATCTGTT-AATCGAG-GGAATAAATCCCGAAACAGATTTAGTC
*
33596101 AACTTATTCTCGTTTTGGAAGTAAAATCAAAATAGAATAAAATATGTTAAACGGCAGGAAATAAA
63 AACTTATTCTC-TTTTGGAAGTAAAATCAAAATAGAATAAAATATGTTAAACAGCAGGAAATAAA
33596166 TCCCAAAACAAATTT
127 TCCCAAAACAAATTT
33596181 TTTCCAATTT
Statistics
Matches: 126, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
162 1 0.01
163 33 0.26
164 29 0.23
165 10 0.08
166 31 0.25
167 22 0.17
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (166 bp):
AAAATCCAAATATAGAATATAATCTGTTAATCGAGGGAATAAATCCCGAAACAGATTTAGTCAAC
TTATTCTCTTTTGGAAGTAAAATCAAAATAGAATAAAATATGTTAAACAGCAGGAAATAAATCCC
AAAACAAATTTATTTACTTCATTATTATTTGGAACC
Found at i:33596134 original size:84 final size:80
Alignment explanation
Indices: 33595873--33596180 Score: 309
Period size: 84 Copynumber: 3.7 Consensus size: 80
33595863 ATTAATTATT
* * * * * *
33595873 ATAAAATCCAAATATAGAATATAATCTGTTAATC-GAAGGGAATAAATCTCGAAACAGATTTAGT
1 ATAAAAT-CAAA-ATAGAATAAAATCTGTTAAACGGCA-GGAATAAATCCCGAAACAAATTTATT
33595937 CAACTTATTTTATTTGGA
63 CAACTTATTTTATTTGGA
* * * * * *
33595955 ATAAAATCAAACTGGAATAAAATCTGTTAAACAGCGGGAATAAATCCCTAAACAAATTTATT-TA
1 ATAAAATCAAAATAGAATAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTATTCAA
33596019 CTTCATTATTATTTGGA
66 CTT-ATT-TTATTTGGA
* * * *
33596036 ACCAAAATCCAAATATAGAATCAAATCTGTTGAACGGC-GGAATAAATCCCGAAACAGATTTATT
1 A-TAAAAT-CAAA-ATAGAATAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTATT
33596100 CAACTTATTCTCGT-TTTGGA
63 CAACTTATT-T--TATTTGGA
* *
33596120 AGTAAAATCAAAATAGAATAAAATATGTTAAACGGCAGGAAATAAATCCCAAAACAAATTT
1 A-TAAAATCAAAATAGAATAAAATCTGTTAAACGGCAGG-AATAAATCCCGAAACAAATTT
33596181 TTTCCAATTT
Statistics
Matches: 187, Mismatches: 28, Indels: 20
0.80 0.12 0.09
Matches are distributed among these distances:
79 4 0.02
80 42 0.22
81 15 0.08
82 33 0.18
83 38 0.20
84 54 0.29
85 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (80 bp):
ATAAAATCAAAATAGAATAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTATTCAA
CTTATTTTATTTGGA
Found at i:33597905 original size:24 final size:24
Alignment explanation
Indices: 33597860--33597919 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
33597850 ATGTAAACAT
*
33597860 TAAAATAATGTTAAGATAATTATA
1 TAAAATAATGTTAAAATAATTATA
*
33597884 TAAAA-AATGTATAAAATTATTAAATA
1 TAAAATAATGT-TAAAATAATT--ATA
33597910 TTAAAATAAT
1 -TAAAATAAT
33597920 ATAATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 5 0.17
24 13 0.45
26 3 0.10
27 5 0.17
28 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (24 bp):
TAAAATAATGTTAAAATAATTATA
Found at i:33599348 original size:5 final size:5
Alignment explanation
Indices: 33599331--33599366 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
33599321 CGTCTGCATC
*
33599331 CACCT CACGT CACCT CACCT CACCT CACCT CACCT C
1 CACCT CACCT CACCT CACCT CACCT CACCT CACCT C
33599367 CCGGTTCAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.19, C:0.58, G:0.03, T:0.19
Consensus pattern (5 bp):
CACCT
Found at i:33605342 original size:17 final size:17
Alignment explanation
Indices: 33605320--33605371 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
33605310 TTCATAAAAA
33605320 TTAAAAAATAAAAATAC
1 TTAAAAAATAAAAATAC
**
33605337 TTAAAATTTAAACAA-AC
1 TTAAAAAATAAA-AATAC
33605354 TTCAAAGAAATAAAAATA
1 TT-AAA-AAATAAAAATA
33605372 TATATATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 14 0.52
18 7 0.26
19 6 0.22
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (17 bp):
TTAAAAAATAAAAATAC
Found at i:33605397 original size:42 final size:41
Alignment explanation
Indices: 33605323--33605405 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 41
33605313 ATAAAAATTA
* *
33605323 AAAAATAAAAATACTTAAAATTTAAACAAACTTCAAAGAAAT
1 AAAAATAAAAATACTTAAAAATTAAACAAACTT-AAAAAAAT
* * * * *
33605365 AAAAATATATATATTTAAAAATTCAACTAACTTAAAAAAAT
1 AAAAATAAAAATACTTAAAAATTAAACAAACTTAAAAAAAT
33605406 TCATAAAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 7 0.21
42 27 0.79
ACGTcount: A:0.63, C:0.08, G:0.01, T:0.28
Consensus pattern (41 bp):
AAAAATAAAAATACTTAAAAATTAAACAAACTTAAAAAAAT
Found at i:33606989 original size:26 final size:28
Alignment explanation
Indices: 33606931--33606990 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
33606921 AATATTTATA
33606931 TTATATTATTTTAATATTTAACAGTTTT
1 TTATATTATTTTAATATTTAACAGTTTT
* *
33606959 ATATATT-TTTTAATCA-TTAA-ATTTTT
1 TTATATTATTTTAAT-ATTTAACAGTTTT
33606985 TTATAT
1 TTATAT
33606991 AGTCATCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.36
27 11 0.39
28 7 0.25
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATATTATTTTAATATTTAACAGTTTT
Found at i:33612005 original size:13 final size:13
Alignment explanation
Indices: 33611976--33612021 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
33611966 GAAGTAAAAG
*
33611976 AAAAAAGA-AAAA
1 AAAAAAGAGGAAA
33611988 TAAAAAAGAGGAAA
1 -AAAAAAGAGGAAA
33612002 AAAAAAG-GGAAA
1 AAAAAAGAGGAAA
33612014 AAGAAAAG
1 AA-AAAAG
33612022 GAGAGGTCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 7 0.23
13 20 0.67
14 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAAAAGAGGAAA
Found at i:33612015 original size:29 final size:29
Alignment explanation
Indices: 33611942--33612007 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
33611932 TGGATTCGAT
*
33611942 AAAGAAAAATA-AATAAATAAAAAAGAAGTA
1 AAAGAAAAA-AGAA-AAATAAAAAAGAAGGA
33611972 AAAGAAAAAAGAAAAATAAAAAAG-AGGA
1 AAAGAAAAAAGAAAAATAAAAAAGAAGGA
33612000 AAA-AAAAA
1 AAAGAAAAA
33612008 GGGAAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 5 0.15
28 6 0.18
29 12 0.35
30 11 0.32
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (29 bp):
AAAGAAAAAAGAAAAATAAAAAAGAAGGA
Found at i:33612020 original size:28 final size:29
Alignment explanation
Indices: 33611942--33612020 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 29
33611932 TGGATTCGAT
* *
33611942 AAAGAAAAATA-AATAAATAAAAAAGAAGTA
1 AAAGAAAAA-AGAA-AAAGAAAAAAGAAGGA
*
33611972 AAAGAAAAAAGAAAAATAAAAAAG-AGGA
1 AAAGAAAAAAGAAAAAGAAAAAAGAAGGA
*
33612000 AAA-AAAAAGGGAAAAAGAAAA
1 AAAGAAAAA-AGAAAAAGAAAA
33612021 GGAGAGGTCG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.11
28 16 0.36
29 12 0.27
30 11 0.25
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (29 bp):
AAAGAAAAAAGAAAAAGAAAAAAGAAGGA
Found at i:33613083 original size:49 final size:49
Alignment explanation
Indices: 33612955--33614371 Score: 1030
Period size: 49 Copynumber: 28.8 Consensus size: 49
33612945 AACGAAGGAA
* ** * *
33612955 CATGAAGATATGAAGGGAAAGGTTAAGGCCATAATGGCGAACCCAATAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * *
33613004 CTTAGAAGATGTGATGGGAAAGGTTGAGGTCGCAACGGCGAACCCGGTAC
1 CAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * ** *
33613054 CATGAAGATATGAAGGGAAAGGTTAAGGTCGCAACGGTAAACCCGGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * *
33613103 CTTAGAAGATATGATAGGAAAAAGTTTGAGGTCGCAACGGCGAACCCGATAC
1 CAT-GAAGATATGA-AGG-GAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* *
33613155 CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGCGAA-CCTAGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGA-TAC
* * * ** *
33613204 CTTAGAAGATGTGATGAAAAAGGTTGAGGCCGCAACGGCGAA-CCTAGTAC
1 CAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGA-TAC
* * * * * * *
33613254 CATGAAGATGTGATGGGAAAGGTTGAGGTCGCAATGACGAACTCGGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * *
33613303 CATGAAGATATGAAAGGAAAGGTTGAGGCCACAACGACGAACCCGATAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * * *
33613352 CTTAAAAGATGTGATA-GGAAAGGTTAAGGCCGTAATGGCGAACCCGATAC
1 CAT-GAAGATATGA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * *
33613402 CATGAAGATATGAAGAGAAAGGTTGAGCCCGCAACGGCGAACTCGATAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * *
33613451 CATGAAGATATGATGGGAAAGGTTGAGGGCAG-AATGACGAACCCGATAC
1 CATGAAGATATGAAGGGAAAGGTTGA-GGCCGCAACGGCGAACCCGATAC
* * *
33613500 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGAC-AAACCTAGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGA-TAC
* * * * * * * * *
33613549 CTTAGAAAATGTGATGGGAAAGGTGGAGGTCGCAACGGTGAACCCAATAA
1 CAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * *
33613599 CTTGAAGATATGAAGGGAAAGGCTGAGGCCGCAACGGTGAACCC-AGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGA-TAC
* * * * * *
33613648 CTTAGAAGATGTGATA-GGAAAGGTTGAGCCCGCAACGACGAACCTGGTAC
1 CAT-GAAGATATGA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * *
33613698 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAATGGCAAACTCGATAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * * *
33613747 CTTAGAAGATGTGATGGGAAAGGTTGAGCCCGTAACGGTGAACCCGATAC
1 CAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * *
33613797 CATAAAGATTTGAAGGGAAAGGTTGAGGCCACAACGGCGAATCCGATAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * ** * *
33613846 TATAAAAATTTGAAGGGAAATATTGAGCCCGCAACGGTGAACCCGATAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * * *
33613895 CTTAGAAGATGTGATGGG-AAGGTTGAGGTCGCAACGACGAACCTGATAC
1 CAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * * * ** *
33613944 CTTAAAAGATGTTATGGG-AAGGATTGAGGTCGCAACGGTAAACCTGATAC
1 CAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGATAC
* * * *
33613994 CATGAAGATTTGAAAGGAAAGGTTGAGGTCGCAACGGCAAACCCGATAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * * * *
33614043 CATAAAGAT-TAAAGGGAAAGATTGAGGTCGCAACAGCGAACCTGGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * **
33614091 C-TTAAAATATGTGATGGG-AAGGATTGAGGCTGCAACGGCGAATTC-AGTAC
1 CATGAAGATA--TGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGA-TAC
* * *** * * *** **
33614141 TATAAAGACGCGATGGGAAAAGTTGAGGCTATAACGGTAAACCCGATAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * * * *
33614190 CATAAAGATTTGAAGGGAAAGGTTGAGGCCACAATGACGAACCCAACAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * * * * * * * *
33614239 CTTAAAAGATGTGATGAGAAAGATTGAGGTCGC-A-GGTGAATCCGGTGC
1 CAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * * * * * *
33614287 CATGAA-ATATGATGAGAAAAGTTGAGGCTGCAACGGTGAATCCGGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
* * *
33614335 CATGAAGATTTGAAGGGGAAGATTGAGGCCGCAACGG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGG
33614372 TAAACCTAGT
Statistics
Matches: 1089, Mismatches: 243, Indels: 72
0.78 0.17 0.05
Matches are distributed among these distances:
46 20 0.02
47 8 0.01
48 76 0.07
49 592 0.54
50 340 0.31
51 24 0.02
52 29 0.03
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (49 bp):
CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATAC
Found at i:33613275 original size:99 final size:99
Alignment explanation
Indices: 33612955--33614371 Score: 860
Period size: 99 Copynumber: 14.4 Consensus size: 99
33612945 AACGAAGGAA
* * * ** * * * * *
33612955 CATGAAGATATGAAGGGAAAGGTTAAGGCCATAATGGCGAACC-CAATACCTTAGAAGATGTGAT
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTC-GTACCAT-GAAGATATGAA
* * * *
33613019 GGGAAAGGTTGAGGTCGCAACGGCGAACC-CGGTAC
64 GAGAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * * ** *
33613054 CATGAAGATATGAAGGGAAAGGTTAAGGTCGCAACGGTAAACC-CGGTACCTTAGAAGATATGAT
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTC-GTACCAT-GAAGATATGA-
* * * *
33613118 AGGAAAAAGTTTGAGGTCGCAACGGCGAACC-CGATAC
63 A-GAGAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * * * * *
33613155 CATGAAGATATGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTAGTACCTTAGAAGATGTGATG
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTCGTACCAT-GAAGATATGAAG
*
33613220 AAAAAGGTTGAGGCCGCAACGGCGAACCTAG-TAC
65 AGAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * *
33613254 CATGAAGATGTGATGGGAAAGGTTGAGGTCGCAATGACGAA-CTCGGTACCATGAAGATATGAA-
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTC-GTACCATGAAGATATGAAG
* * *
33613317 AGGAAAGGTTGAGGCCACAACGACGAACC-CGATAC
65 A-GAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * * * *
33613352 CTTAAAAGATGTGATAGGAAAGGTTAAGGCCGTAATGGCGAACC-CGATACCATGAAGATATGAA
1 CAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTCG-TACCATGAAGATATGAA
* *
33613416 GAGAAAGGTTGAGCCCGCAACGGCGAA-CTCGATAC
64 GAGAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * *
33613451 CATGAAGATATGATGGGAAAGGTTGAGGGCAG-AATGACGAACC-CGATACCATGAAGATATGAA
1 CATGAAGATGTGATGGGAAAGGTTGA-GGCCGCAACGGCGAACCTCG-TACCATGAAGATATGAA
* * *
33613514 GGGAAAGGTTGAGGCCGCAACGACAAACCTAG-TAC
64 GAGAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * * * * * *
33613549 CTTAGAAAATGTGATGGGAAAGGTGGAGGTCGCAACGGTGAACC-CAATAACTTGAAGATATGAA
1 CAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTC-GTACCATGAAGATATGAA
* * * *
33613613 GGGAAAGGCTGAGGCCGCAACGGTGAACCCAG-TAC
64 GAGAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * * *
33613648 CTTAGAAGATGTGATAGGAAAGGTTGAGCCCGCAACGACGAACCTGGTACCATGAAGATATGAAG
1 CAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTCGTACCATGAAGATATGAAG
* * * *
33613713 GGAAAGGTTGAGGCCGCAATGGC-AAACTCGATAC
65 AGAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * * * *
33613747 CTTAGAAGATGTGATGGGAAAGGTTGAGCCCGTAACGGTGAACC-CGATACCATAAAGATTTGAA
1 CAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTCG-TACCATGAAGATATGAA
* *
33613811 GGGAAAGGTTGAGGCCACAACGGCGAATCC--GATAC
64 GAGAAAGGTTGAGGCCGCAACGGCGAA-CCTAGATAC
* * * * * ** * * * * *
33613846 TATAAAAATTTGAAGGGAAATATTGAGCCCGCAACGGTGAACC-CGATACCTTAGAAGATGTGAT
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTCG-TACCAT-GAAGATATGAA
* * *
33613910 G-GGAAGGTTGAGGTCGCAACGACGAACCT-GATAC
64 GAGAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * * ** *
33613944 CTTAAAAGATGTTATGGG-AAGGATTGAGGTCGCAACGGTAAACCT-GATACCATGAAGATTTGA
1 CAT-GAAGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAACCTCG-TACCATGAAGATATGA
* * *
33614007 A-AGGAAAGGTTGAGGTCGCAACGGCAAACC-CGATAC
63 AGA-GAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * * * * * * * *
33614043 CATAAAGAT-TAAAGGGAAAGATTGAGGTCGCAACAGCGAACCTGGTACC-TTAAAATATG-TGA
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTCGTACCATGAAGATATGAAGA
* * *
33614105 TGGGAAGGATTGAGGCTGCAACGGCGAA-TTCAG-TAC
66 --GAAAGG-TTGAGGCCGCAACGGCGAACCT-AGATAC
* * * * * *** ** * *
33614141 TATAAAGACGCGATGGGAAAAGTTGAGGCTATAACGGTAAACC-CGATACCATAAAGATTTGAAG
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTCG-TACCATGAAGATATGAAG
* * * * * *
33614205 GGAAAGGTTGAGGCCACAATGACGAACCCA-ACAC
65 AGAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
* * * * * * * * *
33614239 CTTAAAAGATGTGATGAGAAAGATTGAGGTCGC-A-GGTGAATCC-GGTGCCATGAA-ATATGAT
1 CAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAA-CCTCGTACCATGAAGATATGAA
* * * *
33614300 GAGAAAAGTTGAGGCTGCAACGGTGAATCC--GGTAC
64 GAGAAAGGTTGAGGCCGCAACGGCGAA-CCTAGATAC
* * * *
33614335 CATGAAGATTTGAAGGGGAAGATTGAGGCCGCAACGG
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGG
33614372 TAAACCTAGT
Statistics
Matches: 1052, Mismatches: 217, Indels: 100
0.77 0.16 0.07
Matches are distributed among these distances:
95 23 0.02
96 38 0.04
97 54 0.05
98 266 0.25
99 571 0.54
100 12 0.01
101 88 0.08
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (99 bp):
CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTCGTACCATGAAGATATGAAGA
GAAAGGTTGAGGCCGCAACGGCGAACCTAGATAC
Found at i:33613325 original size:148 final size:148
Alignment explanation
Indices: 33612955--33614409 Score: 1054
Period size: 148 Copynumber: 9.8 Consensus size: 148
33612945 AACGAAGGAA
* * * ** * * * * *
33612955 CATGAAGATATGAAGGGAAAGGTTAAGGCCATAATGGCGAACCCAATACCTTAGAAGATGTGATG
1 CATGAAGATATGATGGGAAAGGTTGAGGTCGCAACGGCGAACCCGATACCAT-GAAGATATGAAG
* ** * * * * * *
33613020 GGAAAGGTTGAGGTCGCAACGGCGAACCCGGTACCAT-GAAGATATGAAGGGAAAGGTTAAGGTC
65 GGAAAGGTTGAGGCCGCAACGGCGAACCTAGTACCTTAGAAGATGTGATGAGAAAGGTTGAGGCC
** **
33613084 GCAACGGTAAACCCGGTAC
130 GCAACGGCGAACCTAGTAC
* * *
33613103 CTTAGAAGATATGATAGGAAAAAGTTTGAGGTCGCAACGGCGAACCCGATACCATGAAGATATGA
1 CAT-GAAGATATGAT-GG-GAAAGGTTGAGGTCGCAACGGCGAACCCGATACCATGAAGATATGA
* *
33613168 AGGGAAAGGTTGAGGCCACAACGGCGAACCTAGTACCTTAGAAGATGTGATGAAAAAGGTTGAGG
63 AGGGAAAGGTTGAGGCCGCAACGGCGAACCTAGTACCTTAGAAGATGTGATGAGAAAGGTTGAGG
33613233 CCGCAACGGCGAACCTAGTAC
128 CCGCAACGGCGAACCTAGTAC
* * * * * *
33613254 CATGAAGATGTGATGGGAAAGGTTGAGGTCGCAATGACGAACTCGGTACCATGAAGATATGAAAG
1 CATGAAGATATGATGGGAAAGGTTGAGGTCGCAACGGCGAACCCGATACCATGAAGATATGAAGG
* * * * *
33613319 GAAAGGTTGAGGCCACAACGACGAACC-CGATACCTTAAAAGATGTGAT-AGGAAAGGTTAAGGC
66 GAAAGGTTGAGGCCGCAACGGCGAACCTAG-TACCTTAGAAGATGTGATGA-GAAAGGTTGAGGC
* * *
33613382 CGTAATGGCGAACC-CGATAC
129 CGCAACGGCGAACCTAG-TAC
* * ** * *
33613402 CATGAAGATATGAAGAGAAAGGTTGAGCCCGCAACGGCGAACTCGATACCATGAAGATATGATGG
1 CATGAAGATATGATGGGAAAGGTTGAGGTCGCAACGGCGAACCCGATACCATGAAGATATGAAGG
* * * * * * * *
33613467 GAAAGGTTGAGGGCAG-AATGACGAACC-CGATACCAT-GAAGATATGAAGGGAAAGGTTGAGGC
66 GAAAGGTTGA-GGCCGCAACGGCGAACCTAG-TACCTTAGAAGATGTGATGAGAAAGGTTGAGGC
* *
33613529 CGCAACGACAAACCTAGTAC
129 CGCAACGGCGAACCTAGTAC
* * * * * * * *
33613549 CTTAGAAAATGTGATGGGAAAGGTGGAGGTCGCAACGGTGAACCCAATAACTTGAAGATATGAAG
1 CAT-GAAGATATGATGGGAAAGGTTGAGGTCGCAACGGCGAACCCGATACCATGAAGATATGAAG
* * * *
33613614 GGAAAGGCTGAGGCCGCAACGGTGAACCCAGTACCTTAGAAGATGTGAT-AGGAAAGGTTGAGCC
65 GGAAAGGTTGAGGCCGCAACGGCGAACCTAGTACCTTAGAAGATGTGATGA-GAAAGGTTGAGGC
* *
33613678 CGCAACGACGAACCTGGTAC
129 CGCAACGGCGAACCTAGTAC
* * * * * * * *
33613698 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAATGGCAAACTCGATACCTTAGAAGATGTGATG
1 CATGAAGATATGATGGGAAAGGTTGAGGTCGCAACGGCGAACCCGATACCAT-GAAGATATGAAG
* * * * * * * *
33613763 GGAAAGGTTGAGCCCGTAACGGTGAACC-CGATACCATA-AAGATTTGAAGGGAAAGGTTGAGGC
65 GGAAAGGTTGAGGCCGCAACGGCGAACCTAG-TACCTTAGAAGATGTGATGAGAAAGGTTGAGGC
* *
33613826 CACAACGGCGAATCCGA-TAC
129 CGCAACGGCGAA-CCTAGTAC
* * * * * ** ** * * * *
33613846 TATAAAAATTTGAAGGGAAATATTGAGCCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATG
1 CATGAAGATATGATGGGAAAGGTTGAGGTCGCAACGGCGAACCCGATACCAT-GAAGATATGAAG
* * * * *
33613911 GG-AAGGTTGAGGTCGCAACGACGAACCT-GATACCTTAAAAGATGTTATG-GGAAGGATTGAGG
65 GGAAAGGTTGAGGCCGCAACGGCGAACCTAG-TACCTTAGAAGATGTGATGAGAAAGG-TTGAGG
* **
33613973 TCGCAACGGTAAACCT-GATAC
128 CCGCAACGGCGAACCTAG-TAC
* ** * * *
33613994 CATGAAGATTTGAAAGGAAAGGTTGAGGTCGCAACGGCAAACCCGATACCATAAAGAT-TAAAGG
1 CATGAAGATATGATGGGAAAGGTTGAGGTCGCAACGGCGAACCCGATACCATGAAGATATGAAGG
* * * * * * * *
33614058 GAAAGATTGAGGTCGCAACAGCGAACCTGGTACCTTAAAATATGTGATG-GGAAGGATTGAGGCT
66 GAAAGGTTGAGGCCGCAACGGCGAACCTAGTACCTTAGAAGATGTGATGAGAAAGG-TTGAGGCC
*
33614122 GCAACGGCGAA-TTCAGTAC
130 GCAACGGCGAACCT-AGTAC
* * *** * ** ** * *
33614141 TATAAAGACGCGATGGGAAAAGTTGAGG-CTATAACGGTAAACCCGATACCATAAAGATTTGAAG
1 CATGAAGATATGATGGGAAAGGTTGAGGTC-GCAACGGCGAACCCGATACCATGAAGATATGAAG
* * * * ** * * *
33614205 GGAAAGGTTGAGGCCACAATGACGAACCCAACACCTTAAAAGATGTGATGAGAAAGATTGAGGTC
65 GGAAAGGTTGAGGCCGCAACGGCGAACCTAGTACCTTAGAAGATGTGATGAGAAAGGTTGAGGCC
* * *
33614270 GC-A-GGTGAATCC-GGTGC
130 GCAACGGCGAA-CCTAGTAC
* * * * * *
33614287 CATGAA-ATATGATGAGAAAAGTTGAGG-CTGCAACGGTGAATCCGGTACCATGAAGATTTGAAG
1 CATGAAGATATGATGGGAAAGGTTGAGGTC-GCAACGGCGAACCCGATACCATGAAGATATGAAG
* * ** * *
33614350 GGGAAGATTGAGGCCGCAACGGTAAACCTAGTACCTTAGGAA-A-ATGATGAGAAAGATTGA
65 GGAAAGGTTGAGGCCGCAACGGCGAACCTAGTACCTTA-GAAGATGTGATGAGAAAGGTTGA
33614410 AGTCGCAATG
Statistics
Matches: 1045, Mismatches: 228, Indels: 72
0.78 0.17 0.05
Matches are distributed among these distances:
144 16 0.02
145 76 0.07
146 21 0.02
147 193 0.18
148 516 0.49
149 104 0.10
150 54 0.05
151 65 0.06
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.18
Consensus pattern (148 bp):
CATGAAGATATGATGGGAAAGGTTGAGGTCGCAACGGCGAACCCGATACCATGAAGATATGAAGG
GAAAGGTTGAGGCCGCAACGGCGAACCTAGTACCTTAGAAGATGTGATGAGAAAGGTTGAGGCCG
CAACGGCGAACCTAGTAC
Found at i:33614312 original size:46 final size:48
Alignment explanation
Indices: 33614250--33614409 Score: 143
Period size: 49 Copynumber: 3.3 Consensus size: 48
33614240 TTAAAAGATG
*
33614250 TGATGAGAAAGATTGAGG-TCGC-A-GGTGAATCCGGTGCCATGAAATA
1 TGATGAGAAAGATTGAGGCT-GCAACGGTGAATCCGGTACCATGAAATA
*
33614296 TGATGAGAAA-AGTTGAGGCTGCAACGGTGAATCCGGTACCATGAAGATT
1 TGATGAGAAAGA-TTGAGGCTGCAACGGTGAATCCGGTACCATGAA-ATA
* * * * * * *
33614345 TGAAGGGGAAGATTGAGGCCGCAACGGT-AAACCTAGTACCTTAGGAAA-A
1 TGATGAGAAAGATTGAGGCTGCAACGGTGAATCC-GGTACC--ATGAAATA
33614394 TGATGAGAAAGATTGA
1 TGATGAGAAAGATTGA
33614410 AGTCGCAATG
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 18 0.20
47 2 0.02
48 23 0.25
49 42 0.46
50 2 0.02
51 4 0.04
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (48 bp):
TGATGAGAAAGATTGAGGCTGCAACGGTGAATCCGGTACCATGAAATA
Found at i:33614728 original size:39 final size:38
Alignment explanation
Indices: 33614631--33615402 Score: 417
Period size: 39 Copynumber: 19.7 Consensus size: 38
33614621 ACCATCGCCA
*
33614631 ATCTCTTACCCCGATCATGGGGCAGATTG-CAACCATCAACCA
1 ATCTCTTACCCCGATCAT-GGGCAGATTGAC-ACCAT---CCG
* *
33614673 ATCTCTTACCCTGATCATAGGGCAGATTGACACCATCCA
1 ATCTCTTACCCCGATCAT-GGGCAGATTGACACCATCCG
* **
33614712 ATCTCTTACCCCGATCATAGGGCAGATTGAAACCATCAA
1 ATCTCTTACCCCGATCAT-GGGCAGATTGACACCATCCG
*
33614751 ATCTCTTACCCCGATCATGAGGCAGATTG-CATCATCCG
1 ATCTCTTACCCCGATCATG-GGCAGATTGACACCATCCG
* * *
33614789 ATCTCTTACCCCGATCATCGGGCAGA-TCACAACTATCCA
1 ATCTCTTACCCCGATCAT-GGGCAGATTGAC-ACCATCCG
* * *
33614828 ATCTCTTACCCCGATCATGAGGTAAATTG-CATCATCCG
1 ATCTCTTACCCCGATCATG-GGCAGATTGACACCATCCG
* * * * *
33614866 ATCTCTTACTCCGATCATAGGGTAAATTGTATCATCATTCG
1 ATCTCTTACCCCGATCAT-GGGCAGATTG-A-CACCATCCG
* * * * * *
33614907 ATCTTTTACCTCGATCATGGGGCA-AATCACAACTATCCA
1 ATCTCTTACCCCGATCAT-GGGCAGATTGAC-ACCATCCG
* * * *
33614946 ATCTCTTACCCCGATCATGAGGCAAATCG-CATCATACG
1 ATCTCTTACCCCGATCATG-GGCAGATTGACACCATCCG
* * * * *
33614984 ATCTCTTACCCCGATCATAAGACAGA-TCACAACTACCCG
1 ATCTCTTACCCCGATCAT-GGGCAGATTGAC-ACCATCCG
* * * * * *
33615023 ATCTCTTACCTCAATCATAAGGCA-AATCACAACCATCCA
1 ATCTCTTACCCCGATCAT-GGGCAGATTGAC-ACCATCCG
* * * * * * *
33615062 ATCTCTTGCCCAGATCATGAGGTA-AATCACAACTACCCG
1 ATCTCTTACCCCGATCATG-GGCAGATTGAC-ACCATCCG
* * *
33615101 ATCTCTTACCTCGATCATGGGGTAGA-TCACAACCATCCG
1 ATCTCTTACCCCGATCAT-GGGCAGATTGAC-ACCATCCG
* ** * * *
33615140 ATCTCTTATCCTAATCATAAGGCAGATTGTA-GCCATCTG
1 ATCTCTTACCCCGATCAT-GGGCAGATTG-ACACCATCCG
** * * *
33615179 ATCTCTTACCCTAATCATGAGGTAGA-TCACAGCCATCCA
1 ATCTCTTACCCCGATCATG-GGCAGATTGACA-CCATCCG
* *
33615218 ATCTCTTACCCAGAT-ATGGGACAAATTG-CAGCCATCCG
1 ATCTCTTACCCCGATCATGGG-CAGATTGACA-CCATCCG
*
33615256 ATCTCTTACCCCGATCATGGGACAGATT-ACAGCCATCTG
1 ATCTCTTACCCCGATCATGGG-CAGATTGACA-CCATCCG
* *
33615295 ATCTCTTACCCCGATCATGGGGCAGA-TCACAACCACCCG
1 ATCTCTTACCCCGATCAT-GGGCAGATTGAC-ACCATCCG
* ** * * * * *
33615334 ATCTTTTACTTCGACCATGAGGCAGA-TCACAGTCATTCA
1 ATCTCTTACCCCGATCATG-GGCAGATTGACA-CCATCCG
33615373 ATCTCTTACCCCGATCATGGGGCAGGATTG
1 ATCTCTTACCCCGATCAT-GGGCA-GATTG
33615403 CAGTTATCCA
Statistics
Matches: 581, Mismatches: 111, Indels: 77
0.76 0.14 0.10
Matches are distributed among these distances:
37 4 0.01
38 125 0.22
39 376 0.65
40 14 0.02
41 29 0.05
42 32 0.06
43 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (38 bp):
ATCTCTTACCCCGATCATGGGCAGATTGACACCATCCG
Found at i:33615157 original size:78 final size:78
Alignment explanation
Indices: 33614631--33615396 Score: 491
Period size: 78 Copynumber: 9.8 Consensus size: 78
33614621 ACCATCGCCA
* * ** * *
33614631 ATCTCTTACCCCGATCATGGGGCAGATTGCAACCATCAACCAATCTCTTACCCTGATCAT-AGGG
1 ATCTCTTACCTCGATCATGAGGCAGATCACAACCAT---CCGATCTCTTACCCCGATCATGA-GG
* * *
33614695 CAGATTGAC-ACCATCCA
62 CA-AATCACAACCATCCG
* * **
33614712 ATCTCTTACCCCGATCAT-AGGGCAGATTGA-AACCATCAAATCTCTTACCCCGATCATGAGGCA
1 ATCTCTTACCTCGATCATGA-GGCAGA-TCACAACCATCCGATCTCTTACCCCGATCATGAGGCA
* ** *
33614775 GATTGC-ATCATCCG
64 AATCACAACCATCCG
* * * *
33614789 ATCTCTTACCCCGATCATCG-GGCAGATCACAACTATCCAATCTCTTACCCCGATCATGAGGTAA
1 ATCTCTTACCTCGATCAT-GAGGCAGATCACAACCATCCGATCTCTTACCCCGATCATGAGGCAA
** *
33614853 ATTGC-ATCATCCG
65 ATCACAACCATCCG
* * * * * * * *
33614866 ATCTCTTA-CTCCGATCAT-AGGGTAAATTGTATC-ATCATTCGATCTTTTACCTCGATCATGGG
1 ATCTCTTACCT-CGATCATGA-GGCAGA-T-CA-CAACCATCCGATCTCTTACCCCGATCATGAG
* *
33614928 GCAAATCACAACTATCCA
61 GCAAATCACAACCATCCG
* * * * * * * *
33614946 ATCTCTTACCCCGATCATGAGGCAAATCGC-ATCATACGATCTCTTACCCCGATCATAAGACAGA
1 ATCTCTTACCTCGATCATGAGGCAGATCACAACCATCCGATCTCTTACCCCGATCATGAGGCAAA
* *
33615010 TCACAACTACCCG
66 TCACAACCATCCG
* * * * * * *
33615023 ATCTCTTACCTCAATCATAAGGCAAATCACAACCATCCAATCTCTTGCCCAGATCATGAGGTAAA
1 ATCTCTTACCTCGATCATGAGGCAGATCACAACCATCCGATCTCTTACCCCGATCATGAGGCAAA
* *
33615088 TCACAACTACCCG
66 TCACAACCATCCG
* * * ** * *
33615101 ATCTCTTACCTCGATCATGGGGTAGATCACAACCATCCGATCTCTTATCCTAATCATAAGGCAGA
1 ATCTCTTACCTCGATCATGAGGCAGATCACAACCATCCGATCTCTTACCCCGATCATGAGGCAAA
*** * *
33615166 TTGTAGCCATCTG
66 TCACAACCATCCG
* * * * *
33615179 ATCTCTTACC-CTAATCATGAGGTAGATCACAGCCATCCAATCTCTTACCCAGAT-ATG-GGACA
1 ATCTCTTACCTC-GATCATGAGGCAGATCACAACCATCCGATCTCTTACCCCGATCATGAGG-CA
** *
33615241 AATTGCAGCCATCCG
64 AATCACAACCATCCG
* * * * * *
33615256 ATCTCTTACCCCGATCATG-GGACAGATTACAGCCATCTGATCTCTTACCCCGATCATGGGGCAG
1 ATCTCTTACCTCGATCATGAGG-CAGATCACAACCATCCGATCTCTTACCCCGATCATGAGGCAA
*
33615320 ATCACAACCACCCG
65 ATCACAACCATCCG
* * * ** * * *
33615334 ATCTTTTACTTCGACCATGAGGCAGATCACAGTCATTCAATCTCTTACCCCGATCATGGGGCA
1 ATCTCTTACCTCGATCATGAGGCAGATCACAACCATCCGATCTCTTACCCCGATCATGAGGCA
33615397 GGATTGCAGT
Statistics
Matches: 552, Mismatches: 110, Indels: 49
0.78 0.15 0.07
Matches are distributed among these distances:
76 7 0.01
77 219 0.40
78 232 0.42
79 35 0.06
80 26 0.05
81 32 0.06
82 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.26
Consensus pattern (78 bp):
ATCTCTTACCTCGATCATGAGGCAGATCACAACCATCCGATCTCTTACCCCGATCATGAGGCAAA
TCACAACCATCCG
Found at i:33615674 original size:46 final size:46
Alignment explanation
Indices: 33615587--33615708 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
33615577 ACTTTAAAAC
* * ** *
33615587 TCATCTTCCTGATGAGATATAGAGAAGTGGGTCAGGCAACAAGTGG
1 TCATCTTCCTGATGAGATATAGAGAAGTAGGCCAGAAAACAAATGG
* *
33615633 TCATTTTCTTGATGAGATATAGAGAAGTAGGCCAGAAAACAAATGG
1 TCATCTTCCTGATGAGATATAGAGAAGTAGGCCAGAAAACAAATGG
33615679 TCATCTTCCTGATGAGATATAGAGAAGTAG
1 TCATCTTCCTGATGAGATATAGAGAAGTAG
33615709 ACCAAAATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.26
Consensus pattern (46 bp):
TCATCTTCCTGATGAGATATAGAGAAGTAGGCCAGAAAACAAATGG
Found at i:33617758 original size:3 final size:3
Alignment explanation
Indices: 33617750--33617796 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
33617740 AATGTTTGTG
33617750 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33617796 T
1 T
33617797 TTCATCATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:33617789 original size:22 final size:23
Alignment explanation
Indices: 33617752--33617798 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
33617742 TGTTTGTGTA
33617752 TTATTATTATTATTATTATTATT
1 TTATTATTATTATTATTATTATT
33617775 TTATTATT-TTATTATTATTATT
1 TTATTATTATTATTATTATTATT
33617797 TT
1 TT
33617799 CATCATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATTATTATTATTATTATTATT
Found at i:33617811 original size:22 final size:22
Alignment explanation
Indices: 33617752--33617812 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
33617742 TGTTTGTGTA
*
33617752 TTATTATTATTATTATTATTATT
1 TTATCATTA-TATTATTATTATT
* *
33617775 TTATTATTTTATTATTATTATT
1 TTATCATTATATTATTATTATT
*
33617797 TTCATCA-TATGTTATT
1 TT-ATCATTATATTATT
33617813 TACCTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATCATTATATTATTATTATT
Found at i:33626812 original size:19 final size:19
Alignment explanation
Indices: 33626788--33626825 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33626778 GTCCTTTGAT
33626788 TTTAGTTTAGCATAGTATG
1 TTTAGTTTAGCATAGTATG
33626807 TTTAGTTTAGCATAGTATG
1 TTTAGTTTAGCATAGTATG
33626826 AAATTAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (19 bp):
TTTAGTTTAGCATAGTATG
Found at i:33636523 original size:61 final size:63
Alignment explanation
Indices: 33636443--33636581 Score: 178
Period size: 61 Copynumber: 2.3 Consensus size: 63
33636433 AAAAAGATTG
* *
33636443 TTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCATATTTTAATA-T-AATTA
1 TTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATAACATTTTAATATTAAATTA
* * * * *
33636504 TTATTAAATATAATTTAATAACAATAATATTATATGATTTAATAACATTTTAATATTAAATTA
1 TTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATAACATTTTAATATTAAATTA
*
33636567 -TATTAAA-ATATTTTA
1 TTATTAAATATAATTTA
33636582 TTTTAAATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
61 55 0.81
62 8 0.12
63 5 0.07
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (63 bp):
TTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATAACATTTTAATATTAAATTA
Found at i:33636534 original size:26 final size:27
Alignment explanation
Indices: 33636505--33636564 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 27
33636495 ATATAATTAT
33636505 TATTAAATATAATTTAATAACA-ATAA
1 TATTAAATATAATTTAATAACATATAA
* *
33636531 TATT--ATATGATTTAATAACATTTTAA
1 TATTAAATATAATTTAATAACA-TATAA
33636557 TATTAAAT
1 TATTAAAT
33636565 TATATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 15 0.54
26 11 0.39
28 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTAAATATAATTTAATAACATATAA
Found at i:33636589 original size:25 final size:26
Alignment explanation
Indices: 33636528--33636605 Score: 97
Period size: 25 Copynumber: 3.0 Consensus size: 26
33636518 TTAATAACAA
* * *
33636528 TAATATTATATGAT-TTAATAACATTT
1 TAATATTAAATTATATTAA-AATATTT
33636554 TAATATTAAATTATATTAAAATATTT
1 TAATATTAAATTATATTAAAATATTT
*
33636580 T-ATTTTAAATTATATTAAAATATTT
1 TAATATTAAATTATATTAAAATATTT
33636605 T
1 T
33636606 TTATTTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
25 24 0.51
26 19 0.40
27 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (26 bp):
TAATATTAAATTATATTAAAATATTT
Found at i:33636619 original size:23 final size:24
Alignment explanation
Indices: 33636562--33636621 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
33636552 TTTAATATTA
33636562 AATTATATTAAAATATTTTATTTT
1 AATTATATTAAAATATTTTATTTT
33636586 AAATTATATTAAAATATTTT-TTATT
1 -AATTATATTAAAATATTTTATT-TT
*
33636611 -TTTATATTAAA
1 AATTATATTAAA
33636622 TTATATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 10 0.30
24 2 0.06
25 21 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AATTATATTAAAATATTTTATTTT
Found at i:33637040 original size:88 final size:90
Alignment explanation
Indices: 33636915--33637184 Score: 215
Period size: 89 Copynumber: 3.1 Consensus size: 90
33636905 CTTAAGGTGT
* * *
33636915 AAAAA-ACCCTCAAAATTTTTTTTAAAAAAAAAGTTAAGGCAC-TGC-TTTTTTTTTCCACTTAA
1 AAAAAGACCCTC-AAA-CTTTTTCAAAAAAAAAGTTAA-GCACTTGCATTTTTTTTTCCACTCAA
33636977 TTAGATATTTGAACTGTT-AAAATGCATA
63 TTAGATATTTGAACT-TTCAAAATGCATA
* * * * * *
33637005 AAAAAGATCTTCAAACTTTTTCAAAAAAACA-TTAAGCCCTTGCATTTTTTTTTGCACTCAATTG
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAAAGTTAAGCACTTGCATTTTTTTTTCCACTCAATTA
* * *
33637069 GGTGTTTGAACTTTCAAAATGTATA
66 GATATTTGAACTTTCAAAATGCATA
* * *
33637094 AAAAAGACCCTCAAAC---TTAAAAAAAAAAGCAATTAA--ACCT-CTAATTTTTTTT-CACTCA
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAAAG---TTAAGCACTTGC-ATTTTTTTTTCCACTCA
* * *
33637152 ATTGGATACTTGAACTGTC-AAATGCATA
62 ATTAGATATTTGAACTTTCAAAATGCATA
33637180 AAAAA
1 AAAAA
33637185 TACCTTTTGG
Statistics
Matches: 147, Mismatches: 24, Indels: 22
0.76 0.12 0.11
Matches are distributed among these distances:
86 23 0.16
87 25 0.17
88 20 0.14
89 63 0.43
90 12 0.08
91 4 0.03
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (90 bp):
AAAAAGACCCTCAAACTTTTTCAAAAAAAAAGTTAAGCACTTGCATTTTTTTTTCCACTCAATTA
GATATTTGAACTTTCAAAATGCATA
Found at i:33637173 original size:87 final size:88
Alignment explanation
Indices: 33636961--33637184 Score: 233
Period size: 89 Copynumber: 2.6 Consensus size: 88
33636951 AGGCACTGCT
* * * * * **
33636961 TTTTTTTTCCACTTAATTAGATATTTGAACTGTTAAAATGCATAAAAAAGATCTTCAAACTTTTT
1 TTTTTTTTCCACTCAATTGGATATTTGAACTGTCAAAATGCATAAAAAAGACCCTCAAACTTTAA
* * *
33637026 CAAAAAAACATTAAGCCCTTGCAT
66 AAAAAAAACATTAAACCCTT-CAA
* * * * *
33637050 TTTTTTTTGCACTCAATTGGGTGTTTGAACTTTCAAAATGTATAAAAAAGACCCTCAAAC-TTAA
1 TTTTTTTTCCACTCAATTGGATATTTGAACTGTCAAAATGCATAAAAAAGACCCTCAAACTTTAA
33637114 AAAAAAAAGCAATTAAA-CC-TCTAA
66 AAAAAAAA-C-ATTAAACCCTTC-AA
*
33637138 TTTTTTTT-CACTCAATTGGATACTTGAACTGTC-AAATGCATAAAAAA
1 TTTTTTTTCCACTCAATTGGATATTTGAACTGTCAAAATGCATAAAAAA
33637185 TACCTTTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
86 13 0.12
87 22 0.20
88 19 0.17
89 53 0.47
90 5 0.04
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (88 bp):
TTTTTTTTCCACTCAATTGGATATTTGAACTGTCAAAATGCATAAAAAAGACCCTCAAACTTTAA
AAAAAAAACATTAAACCCTTCAA
Found at i:33637474 original size:10 final size:10
Alignment explanation
Indices: 33637431--33637543 Score: 56
Period size: 10 Copynumber: 11.3 Consensus size: 10
33637421 CTTTATAAAA
33637431 TTTTATA-A-
1 TTTTATATAT
33637439 TTTTATA-AT
1 TTTTATATAT
**
33637448 TTTTCCATAT
1 TTTTATATAT
* *
33637458 ATCTATATAT
1 TTTTATATAT
33637468 TTTTATA-AT
1 TTTTATATAT
*
33637477 TTTTTTACTATT
1 TTTTATA-TA-T
*
33637489 TTTTTTATAAT
1 TTTTATAT-AT
*
33637500 TTTTTTATAT
1 TTTTATATAT
*
33637510 TTTTAATAAAAT
1 TTTT-AT-ATAT
**
33637522 TTAAATATAT
1 TTTTATATAT
33637532 TTTTATAT-T
1 TTTTATATAT
33637541 TTT
1 TTT
33637544 ATTAAAATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
8 8 0.10
9 17 0.21
10 28 0.35
11 14 0.17
12 14 0.17
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:33637491 original size:12 final size:11
Alignment explanation
Indices: 33637467--33637513 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
33637457 TATCTATATA
33637467 TTTTTATAATT
1 TTTTTATAATT
*
33637478 TTTTTACTATTT
1 TTTTTA-TAATT
33637490 TTTTTATAATT
1 TTTTTATAATT
33637501 TTTTTAT-ATT
1 TTTTTATAATT
33637511 TTT
1 TTT
33637514 AATAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 6 0.18
11 17 0.52
12 10 0.30
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:33637497 original size:23 final size:22
Alignment explanation
Indices: 33637467--33637513 Score: 85
Period size: 23 Copynumber: 2.1 Consensus size: 22
33637457 TATCTATATA
33637467 TTTTTATAATTTTTTTACTATTT
1 TTTTTATAATTTTTTTA-TATTT
33637490 TTTTTATAATTTTTTTATATTT
1 TTTTTATAATTTTTTTATATTT
33637512 TT
1 TT
33637514 AATAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTATAATTTTTTTATATTT
Found at i:33637522 original size:22 final size:20
Alignment explanation
Indices: 33637463--33637538 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 20
33637453 CATATATCTA
33637463 TATATTTTTAT-AATTTTTT
1 TATATTTTTATAAATTTTTT
*
33637482 TACTATTTTTTTTATAATTTTTT
1 TA-TA-TTTTTATA-AATTTTTT
***
33637505 TATATTTTTAATAAAATTTAAA
1 TATATTTTT-AT-AAATTTTTT
33637527 TATATTTTTATA
1 TATATTTTTATA
33637539 TTTTTATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
19 2 0.04
20 3 0.07
21 13 0.28
22 17 0.37
23 11 0.24
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (20 bp):
TATATTTTTATAAATTTTTT
Found at i:33637573 original size:29 final size:30
Alignment explanation
Indices: 33637501--33637575 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
33637491 TTTTATAATT
*
33637501 TTTTTATATTTTTAATAAAATTTAAATATA
1 TTTTTATATTTTTATTAAAATTTAAATATA
33637531 TTTTTATATTTTTATTAAAATTT-AATA-A
1 TTTTTATATTTTTATTAAAATTTAAATATA
*
33637559 TTTTTATTTTATTTATT
1 TTTTTATATT-TTTATT
33637576 TTTCATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
28 10 0.24
29 10 0.24
30 22 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTATATTTTTATTAAAATTTAAATATA
Found at i:33638117 original size:19 final size:19
Alignment explanation
Indices: 33638080--33638135 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
33638070 CAAAATAATC
33638080 AAAATAATTTTCAAAAATTG
1 AAAATAATTTT-AAAAATTG
*
33638100 AAAATAAGTTTT-AAAATTT
1 AAAATAA-TTTTAAAAATTG
*
33638119 AAAAT-ATTTAAAAAATT
1 AAAATAATTTTAAAAATT
33638136 CTAAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 3 0.09
18 7 0.22
19 11 0.34
20 7 0.22
21 4 0.12
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTG
Found at i:33638140 original size:19 final size:18
Alignment explanation
Indices: 33638112--33638147 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33638102 AATAAGTTTT
33638112 AAAATTTAAAATATTTAA
1 AAAATTTAAAATATTTAA
*
33638130 AAAATTCTAAAATTTTTA
1 AAAATT-TAAAATATTTA
33638148 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTTAAAATATTTAA
Found at i:33639518 original size:3 final size:3
Alignment explanation
Indices: 33639510--33639548 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
33639500 CTTATTCGAC
33639510 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33639549 CTTAAAAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33640311 original size:10 final size:10
Alignment explanation
Indices: 33640280--33640315 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
33640270 AATTGACATG
33640280 AAAATAAATA
1 AAAATAAATA
*
33640290 AAGATGAAATA
1 AAAAT-AAATA
33640301 AAAATAAATA
1 AAAATAAATA
33640311 AAAAT
1 AAAAT
33640316 TATACAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (10 bp):
AAAATAAATA
Found at i:33642801 original size:13 final size:12
Alignment explanation
Indices: 33642781--33642814 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
33642771 TTTAAAACTT
33642781 TATTAGGATTAA
1 TATTAGGATTAA
*
33642793 TATTTAGGATTAT
1 TA-TTAGGATTAA
33642806 TATTAGGAT
1 TATTAGGAT
33642815 ATTGTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (12 bp):
TATTAGGATTAA
Found at i:33642849 original size:14 final size:14
Alignment explanation
Indices: 33642830--33642859 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33642820 TTATATTTAA
33642830 TTTATATTTATCTT
1 TTTATATTTATCTT
33642844 TTTATATTTATCTT
1 TTTATATTTATCTT
33642858 TT
1 TT
33642860 AGAGTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATATTTATCTT
Found at i:33649809 original size:7 final size:6
Alignment explanation
Indices: 33649793--33649863 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
33649783 CAACCTAATC
* ** * *
33649793 TTTTTA TTTTTA TTTTTTTA TTCTTTC GCTTTA TTTATA TTTATA -TTTTA
1 TTTTTA TTTTTA --TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
33649843 TTTTTA TTTTTA TTCTTA TTT
1 TTTTTA TTTTTA TTTTTA TTT
33649864 GTTCAAGAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
5 4 0.08
6 38 0.75
7 3 0.06
8 6 0.12
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:33649842 original size:17 final size:17
Alignment explanation
Indices: 33649822--33649863 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
33649812 ATTCTTTCGC
33649822 TTTATTTATATTTATAT
1 TTTATTTATATTTATAT
* *
33649839 TTTATTTTTATTTTTAT
1 TTTATTTATATTTATAT
33649856 TCTTATTT
1 T-TTATTT
33649864 GTTCAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTATATTTATAT
Found at i:33650943 original size:30 final size:30
Alignment explanation
Indices: 33650906--33650981 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33650896 TTAAGTAGGG
* * *
33650906 GTCAAAATGTGATTTTTGTGAAGTTCGAGA
1 GTCAAAATGTAATTTTTGAGAAATTCGAGA
* * *
33650936 GTTAAAATGTAATTTTTGAGAAATTTGAGG
1 GTCAAAATGTAATTTTTGAGAAATTCGAGA
33650966 GTCAAAATGTAATTTT
1 GTCAAAATGTAATTTT
33650982 GCAATTTTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.39
Consensus pattern (30 bp):
GTCAAAATGTAATTTTTGAGAAATTCGAGA
Found at i:33653137 original size:39 final size:37
Alignment explanation
Indices: 33653094--33653219 Score: 94
Period size: 39 Copynumber: 3.2 Consensus size: 37
33653084 TGATTGGTGA
33653094 AAGAGATTGGATAGTTGCAATCTGCCCCTGTCGTGGGGT
1 AAGAGATTGGAT-GTTGCAATCTGCCCCTGTCG-GGGGT
* * * *
33653133 AAGAGATTGGCTGATGATAATCCGCCCCATGATC-GGGGT
1 AAGAGATTGGATGTTG-CAATCTGCCCC-TG-TCGGGGGT
* * * *
33653172 AA-AGGATCGAATGGTTGCAATCTGCCCCTATTGCGGGGT
1 AAGA-GATTGGAT-GTTGCAATCTGCCCCTGTCG-GGGGT
33653211 AAGAGATTG
1 AAGAGATTG
33653220 CCTGACGATG
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 52 0.79
40 6 0.09
41 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGAGATTGGATGTTGCAATCTGCCCCTGTCGGGGGT
Found at i:33653210 original size:78 final size:78
Alignment explanation
Indices: 33653107--33653374 Score: 283
Period size: 78 Copynumber: 3.4 Consensus size: 78
33653097 AGATTGGATA
* * * * * *
33653107 GTTGCAATCTGCCCCTGTCGTGGGGTAAGAGATTGGCTGATGATAATCCGCCCCATGATCGGGGT
1 GTTGCAATCTGCCCCTGTTGCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGT
*
33653172 AAAGGATCGAATG
66 AAAAGATCGAATG
* * * * **
33653185 GTTGCAATCTGCCCCTATTGCGGGGTAAGAGATTGCCTGACGATGATCTGCCTCAAGCTTAGGGT
1 GTTGCAATCTGCCCCTGTTGCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGT
33653250 AAAAGATC-AGATG
66 AAAAGATCGA-ATG
* * * * * * *
33653263 GCTGCAATCTG-CCCTGGCT-CGAGGTAAGAGATTAGCTTATGGTGATCTGCCCCAAGCTCGGGA
1 GTTGCAATCTGCCCCT-GTTGCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGG
33653326 TAAAAGATCGAATG
65 TAAAAGATCGAATG
* *
33653340 GTTGCAATCTGCCCCAGGCT-CGGGGTAAGAGATTG
1 GTTGCAATCTGCCCC-TGTTGCGGGGTAAGAGATTG
33653375 ACTTGAACTA
Statistics
Matches: 155, Mismatches: 30, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
77 61 0.39
78 94 0.61
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (78 bp):
GTTGCAATCTGCCCCTGTTGCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGT
AAAAGATCGAATG
Found at i:33663564 original size:24 final size:24
Alignment explanation
Indices: 33663537--33663584 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
33663527 TAAAAACTTG
33663537 TCTTGGATAGTTGCTAAAAGGTTC
1 TCTTGGATAGTTGCTAAAAGGTTC
33663561 TCTTGGATAGTTGCTAAAAGGTTC
1 TCTTGGATAGTTGCTAAAAGGTTC
33663585 GGTATAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (24 bp):
TCTTGGATAGTTGCTAAAAGGTTC
Found at i:33664993 original size:30 final size:30
Alignment explanation
Indices: 33664959--33665102 Score: 146
Period size: 30 Copynumber: 4.8 Consensus size: 30
33664949 GTTCGTCTGC
* * ** *
33664959 CAAAATGTGATTTTTGCAAAGTTCGGGGGA
1 CAAAATGTAATTTTTGTAAAGTTCAAGGGT
*
33664989 CAAAATGTAATTTTTGTGAAGTTCAAGGGT
1 CAAAATGTAATTTTTGTAAAGTTCAAGGGT
* *
33665019 CAAAAAGTAATTTTTGAAAAGTTCAAGGGT
1 CAAAATGTAATTTTTGTAAAGTTCAAGGGT
* * * * *
33665049 TAACATGTAATTTTTGTGAAGTTTAGGGGT
1 CAAAATGTAATTTTTGTAAAGTTCAAGGGT
*
33665079 CAAAATGTGATTTTTG-AGAAGTTC
1 CAAAATGTAATTTTTGTA-AAGTTC
33665103 GAGGACCTCT
Statistics
Matches: 92, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
30 92 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (30 bp):
CAAAATGTAATTTTTGTAAAGTTCAAGGGT
Found at i:33668612 original size:24 final size:25
Alignment explanation
Indices: 33668585--33668644 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
33668575 TTCCTTACAA
*
33668585 ATTTTATTTAACCCTTTTTA-TATC
1 ATTTTATTTAACCATTTTTATTATC
* * *
33668609 A-TTTAGTTAAATCATTTTTATTATT
1 ATTTTA-TTTAACCATTTTTATTATC
33668634 ATTTTATTTAA
1 ATTTTATTTAA
33668645 AATAATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 4 0.14
24 12 0.43
25 8 0.29
26 4 0.14
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (25 bp):
ATTTTATTTAACCATTTTTATTATC
Found at i:33672183 original size:9 final size:8
Alignment explanation
Indices: 33672164--33672188 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33672154 GGAATTATGG
33672164 AAAAAATA
1 AAAAAATA
33672172 AAAAAATA
1 AAAAAATA
33672180 AAAAAATA
1 AAAAAATA
33672188 A
1 A
33672189 TTAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:33685309 original size:78 final size:79
Alignment explanation
Indices: 33685203--33685538 Score: 377
Period size: 78 Copynumber: 4.3 Consensus size: 79
33685193 CATCTAACTT
* * * * *
33685203 TTACCTCGGTCATGGGGCAGATTAAAGAATCCAATCTCTTACCTTAATTGA-AAGGAAGATTGAA
1 TTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTTTTACCTTAATTGAGAAGGCAGATTGAA
*
33685267 AACATACCAATCTC
66 AACACACCAATCTC
* * * *
33685281 TTACCCCGATCATAGGGCAAATTGAAGAATCGAATCTTTTA-CTTCGATCATG-G-A-GCAGATT
1 TTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTTTTACCTT-AAT--TGAGAAGGCAGATT
* *
33685342 G-AAGCA-TCCAATCTC
63 GAAAACACACCAATCTC
* * * *
33685357 TTACCTCGATCATGGGGTAGATTGAAGAATCCAATCTTTTACCTTGA-TCAGAAGGCAGATTGAA
1 TTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTTTTACCTTAATTGAGAAGGCAGATTGAA
*
33685421 GACACACCAATCTC
66 AACACACCAATCTC
*
33685435 TTACCCCGATCATGGGGTAGATTGAAGAATCCAATCTTTTACCTTAATT-AGAAGGCAGATTGAA
1 TTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTTTTACCTTAATTGAGAAGGCAGATTGAA
* *
33685499 GACACAACAATCT-
66 AACACACCAATCTC
* *
33685512 TTACTCCGATCATGGAGCAGATTGAAG
1 TTACCCCGATCATGGGGCAGATTGAAG
33685539 CATATGACAT
Statistics
Matches: 221, Mismatches: 26, Indels: 23
0.82 0.10 0.09
Matches are distributed among these distances:
73 1 0.00
74 1 0.00
75 1 0.00
76 54 0.24
77 37 0.17
78 123 0.56
79 2 0.01
80 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (79 bp):
TTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTTTTACCTTAATTGAGAAGGCAGATTGAA
AACACACCAATCTC
Found at i:33685329 original size:38 final size:38
Alignment explanation
Indices: 33685082--33685538 Score: 265
Period size: 38 Copynumber: 11.9 Consensus size: 38
33685072 TGAAGATAGG
* * * *
33685082 CAATCTCTTACCCCGATCATGGGGTAGATTGAA-ACATC
1 CAATCTTTTACCTCGATCATAGGGCAGATTGAAGA-ATC
* ** * *
33685120 CAATCTCTTACCTTAATCAGAAGGCA-AGTTGAAGATAGT-
1 CAATCTTTTACCTCGATCATAGGGCAGA-TTGAAGA-A-TC
* *
33685159 CAATCTTTTA-CTCAAATCAT-GGAGCAGATTTAA-ACATC
1 CAATCTTTTACCTC-GATCATAGG-GCAGATTGAAGA-ATC
* * * *
33685197 TAA-CTTTTACCTCGGTCATGGGGCAGATTAAAGAATC
1 CAATCTTTTACCTCGATCATAGGGCAGATTGAAGAATC
* ** * * * *
33685234 CAATCTCTTACCTTAATTGA-AAGGAAGATTGAAAACATAC
1 CAATCTTTTACCTCGA-TCATAGGGCAGATTGAAGA-AT-C
* * *
33685274 CAATCTCTTACCCCGATCATAGGGCAAATTGAAGAATC
1 CAATCTTTTACCTCGATCATAGGGCAGATTGAAGAATC
* * *
33685312 GAATCTTTTACTTCGATCAT-GGAGCAGATTGAAGCATC
1 CAATCTTTTACCTCGATCATAGG-GCAGATTGAAGAATC
* * *
33685350 CAATCTCTTACCTCGATCATGGGGTAGATTGAAGAATC
1 CAATCTTTTACCTCGATCATAGGGCAGATTGAAGAATC
* * * *
33685388 CAATCTTTTACCTTGATCAGAAGGCAGATTGAAGACACAC
1 CAATCTTTTACCTCGATCATAGGGCAGATTGAAGA-A-TC
* * * *
33685428 CAATCTCTTACCCCGATCATGGGGTAGATTGAAGAATC
1 CAATCTTTTACCTCGATCATAGGGCAGATTGAAGAATC
** * * *
33685466 CAATCTTTTACCTTAATTAGAAGGCAGATTGAAGACA-C
1 CAATCTTTTACCTCGATCATAGGGCAGATTGAAGA-ATC
33685504 AACAATC-TTTA-CTCCGATCAT-GGAGCAGATTGAAG
1 --CAATCTTTTACCT-CGATCATAGG-GCAGATTGAAG
33685539 CATATGACAT
Statistics
Matches: 318, Mismatches: 77, Indels: 47
0.72 0.17 0.11
Matches are distributed among these distances:
37 28 0.09
38 175 0.55
39 54 0.17
40 61 0.19
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (38 bp):
CAATCTTTTACCTCGATCATAGGGCAGATTGAAGAATC
Found at i:33685363 original size:154 final size:152
Alignment explanation
Indices: 33685107--33685476 Score: 442
Period size: 154 Copynumber: 2.4 Consensus size: 152
33685097 ATCATGGGGT
*** * * *
33685107 AGATTG-AAACAT-CCAATCTCTTACCTTAATCAGAAGGCAAGTTGAAGATAGTCAATCTTTTAC
1 AGATTGAAAACATACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGA-A-TCAATCTTTTAC
* * * *
33685170 TCAAATCATGGAGCAGATTTAAACATCTAACTTTTACCTCGGTCATGGGGCAGATTAAAGAATCC
64 TCAAATCATGGAGCAGATTGAAACATCCAACTCTTACCTCGATCATGGGGCAGATTAAAGAATCC
*
33685235 AATCTCTTACCTTAAT-TGAAAGGA
129 AATCTCTTACCTTAATCAG-AAGGA
33685259 AGATTGAAAACATACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGAATCGAATCTTTTACT
1 AGATTGAAAACATACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGAATC-AATCTTTTAC-
* * * *
33685324 TC-GATCATGGAGCAGATTGAAGCATCCAATCTCTTACCTCGATCATGGGGTAGATTGAAGAATC
64 TCAAATCATGGAGCAGATTGAAACATCCAA-CTCTTACCTCGATCATGGGGCAGATTAAAGAATC
* * *
33685388 CAATCTTTTACCTTGATCAGAAGGC
128 CAATCTCTTACCTTAATCAGAAGGA
* * * * *
33685413 AGATTGAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAGAATCCAATCTTTTAC
1 AGATTGAAAACATACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGAAT-CAATCTTTTAC
33685477 CTTAATTAGA
Statistics
Matches: 188, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
152 8 0.04
153 40 0.21
154 138 0.73
155 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (152 bp):
AGATTGAAAACATACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGAATCAATCTTTTACTC
AAATCATGGAGCAGATTGAAACATCCAACTCTTACCTCGATCATGGGGCAGATTAAAGAATCCAA
TCTCTTACCTTAATCAGAAGGA
Found at i:33685493 original size:154 final size:154
Alignment explanation
Indices: 33685107--33685538 Score: 422
Period size: 154 Copynumber: 2.8 Consensus size: 154
33685097 ATCATGGGGT
* *** * * *
33685107 AGATTG-AAACA-TCCAATCTCTTACCTTAATCAGAAGGCAAGTTGAAGATAGT-CAATCTTTTA
1 AGATTGAAAACACACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGA-A-TCCAATCTTTTA
* * * * *
33685169 C-TCAAATCATGGAGCAGATTTAA-ACATC-TAA-CTTTTACCTCGGTCATGGGGCAGATTAAAG
64 CTTC-AATCATGAAGCAGATTGAAGACA-CACAATC-TTTACCTCGATCATGGGGCAGATTGAAG
*
33685230 AATCCAATCTCTTACCTTAATTGAAAGGA
126 AATCCAATCTCTTACCTTAATAGAAAGGA
* *
33685259 AGATTGAAAACATACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGAATCGAATCTTTTACT
1 AGATTGAAAACACACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGAATCCAATCTTTTACT
* * *
33685324 TCGATCATGGAGCAGATTGAAG-CATC-CAATCTCTTACCTCGATCATGGGGTAGATTGAAGAAT
66 TCAATCATGAAGCAGATTGAAGACA-CACAATCT-TTACCTCGATCATGGGGCAGATTGAAGAAT
* * *
33685387 CCAATCTTTTACCTTGATCAG-AAGGC
129 CCAATCTCTTACCTTAAT-AGAAAGGA
* * * *
33685413 AGATTGAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAGAATCCAATCTTTTACC
1 AGATTGAAAACACACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGAATCCAATCTTTTA-C
* *
33685478 TT-AATTA-GAAGGCAGATTGAAGACACAACAATCTTTA-CTCCGATCATGGAGCAGATTGAAG
65 TTCAATCATGAA-GCAGATTGAAGACAC-ACAATCTTTACCT-CGATCATGGGGCAGATTGAAG
33685539 CATATGACAT
Statistics
Matches: 237, Mismatches: 29, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
152 7 0.03
153 42 0.18
154 154 0.65
155 28 0.12
156 6 0.03
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (154 bp):
AGATTGAAAACACACCAATCTCTTACCCCGATCATAGGGCAAATTGAAGAATCCAATCTTTTACT
TCAATCATGAAGCAGATTGAAGACACACAATCTTTACCTCGATCATGGGGCAGATTGAAGAATCC
AATCTCTTACCTTAATAGAAAGGA
Found at i:33686620 original size:22 final size:21
Alignment explanation
Indices: 33686578--33686621 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33686568 GGATAAAAAT
**
33686578 ATAAATAAAAAAGGTTTTCAA
1 ATAAATAAAAAAGGTGATCAA
*
33686599 ATAAATGAAAAAGGATGATCAA
1 ATAAATAAAAAAGG-TGATCAA
33686621 A
1 A
33686622 ACCTTTAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.23
Consensus pattern (21 bp):
ATAAATAAAAAAGGTGATCAA
Found at i:33687451 original size:24 final size:25
Alignment explanation
Indices: 33687424--33687484 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 25
33687414 TTCCTTACAA
*
33687424 ATTTTATTTAACCCTTTTTA-TATC
1 ATTTTATTTAAACCTTTTTATTATC
* * *
33687448 ATTTTAGTTAAATCTTTTTATTATT
1 ATTTTATTTAAACCTTTTTATTATC
33687473 ATTTTATTTAAA
1 ATTTTATTTAAA
33687485 ATAATTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 17 0.55
25 14 0.45
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTTATTTAAACCTTTTTATTATC
Found at i:33687476 original size:25 final size:24
Alignment explanation
Indices: 33687437--33687484 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
33687427 TTATTTAACC
33687437 CTTTTTATATCATTTTAGTTAAAT
1 CTTTTTATATCATTTTAGTTAAAT
* *
33687461 CTTTTTATTATTATTTTATTTAAA
1 CTTTTTA-TATCATTTTAGTTAAA
33687485 ATAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (24 bp):
CTTTTTATATCATTTTAGTTAAAT
Found at i:33696354 original size:14 final size:14
Alignment explanation
Indices: 33696337--33696369 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
33696327 ATATCCAAAC
33696337 AATAACAATAAAAT
1 AATAACAATAAAAT
*
33696351 AATAACAATATAAT
1 AATAACAATAAAAT
33696365 AATAA
1 AATAA
33696370 ATGATAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAACAATAAAAT
Found at i:33697686 original size:18 final size:19
Alignment explanation
Indices: 33697653--33697688 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33697643 TATTAAAATT
33697653 ATATTTATTAAAAATTATC
1 ATATTTATTAAAAATTATC
*
33697672 ATATTT-TTAATAATTAT
1 ATATTTATTAAAAATTAT
33697689 TTAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTTATTAAAAATTATC
Found at i:33697780 original size:22 final size:22
Alignment explanation
Indices: 33697740--33697781 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33697730 TAAATAAAAA
* * *
33697740 AATTGAAAATAATATATTTGTT
1 AATTAAAAATAAAAAATTTGTT
33697762 AATTAAAAATAAAAAATTTG
1 AATTAAAAATAAAAAATTTG
33697782 AAACAGCATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (22 bp):
AATTAAAAATAAAAAATTTGTT
Found at i:33699371 original size:20 final size:20
Alignment explanation
Indices: 33699346--33699413 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
33699336 GATGATGATT
33699346 ATAATTTTAAAATAAATTTA
1 ATAATTTTAAAATAAATTTA
** *
33699366 ATAATTTTATATTTAAA--AA
1 ATAATTTTA-AAATAAATTTA
*
33699385 ATAATTTTAAAATAATTTTA
1 ATAATTTTAAAATAAATTTA
33699405 ATAATTTTA
1 ATAATTTTA
33699414 TTTTTTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 4 0.11
19 10 0.26
20 19 0.50
21 5 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATTTTAAAATAAATTTA
Found at i:33699405 original size:39 final size:40
Alignment explanation
Indices: 33699346--33699443 Score: 157
Period size: 39 Copynumber: 2.5 Consensus size: 40
33699336 GATGATGATT
*
33699346 ATAATTTTAAAATAAATTTAATAATTTTA-TATTTAAAAA
1 ATAATTTTAAAATAATTTTAATAATTTTATTATTTAAAAA
*
33699385 ATAATTTTAAAATAATTTTAATAATTTTATTTTTTAAAAA
1 ATAATTTTAAAATAATTTTAATAATTTTATTATTTAAAAA
33699425 ATAATTTT--AATAATTTTAA
1 ATAATTTTAAAATAATTTTAA
33699444 AATCATTTGC
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
38 11 0.20
39 28 0.50
40 17 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (40 bp):
ATAATTTTAAAATAATTTTAATAATTTTATTATTTAAAAA
Found at i:33700107 original size:3 final size:3
Alignment explanation
Indices: 33700099--33700168 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
33700089 CTTGGGCACT
* * *
33700099 AGA AGA AGA AG- AGA A-A AAA AGA AGA ATA A-A AGA AGA A-A TGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
33700143 AGA AGA AGA AG- AGG AGG AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
33700169 GAAAATGGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 9 0.16
3 48 0.84
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:33701170 original size:21 final size:21
Alignment explanation
Indices: 33701131--33701170 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33701121 TAACGTGACA
*
33701131 AGTTAACTAGCTACATTAGCT
1 AGTTAACTAGCCACATTAGCT
*
33701152 AGTTAACTAGCCACGTTAG
1 AGTTAACTAGCCACATTAG
33701171 TTATCCCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (21 bp):
AGTTAACTAGCCACATTAGCT
Found at i:33702011 original size:20 final size:21
Alignment explanation
Indices: 33701978--33702017 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33701968 TTTTACTCTT
*
33701978 GGAAAAATG-GAAAATTGAAA
1 GGAAAAATGAAAAAATTGAAA
*
33701998 GGAAAGATGAAAAAATTGAA
1 GGAAAAATGAAAAAATTGAA
33702018 GAAAAAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.15
Consensus pattern (21 bp):
GGAAAAATGAAAAAATTGAAA
Found at i:33702687 original size:33 final size:34
Alignment explanation
Indices: 33702640--33702706 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
33702630 GTTATTTATG
* * *
33702640 CTTGCAAGTTTTGTT-AAGGAATTACTTATGTTTA
1 CTTGAAAGTTTTGTTAAAGG-ACTACTTATATTTA
33702674 CTTGAAAG-TTTGTTAAAGGACTACTTATATTTA
1 CTTGAAAGTTTTGTTAAAGGACTACTTATATTTA
33702707 TATTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (34 bp):
CTTGAAAGTTTTGTTAAAGGACTACTTATATTTA
Found at i:33708163 original size:24 final size:24
Alignment explanation
Indices: 33708131--33708181 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
33708121 CCACTCAACT
*
33708131 AAACACAACTTTAAAAGTGTAAGG
1 AAACACAACTTTAAAAGTGGAAGG
*
33708155 AAACACAACTTTAAGAGTGGAAGG
1 AAACACAACTTTAAAAGTGGAAGG
33708179 AAA
1 AAA
33708182 AATACCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.12, G:0.20, T:0.18
Consensus pattern (24 bp):
AAACACAACTTTAAAAGTGGAAGG
Found at i:33720191 original size:43 final size:43
Alignment explanation
Indices: 33720009--33720202 Score: 223
Period size: 43 Copynumber: 4.5 Consensus size: 43
33719999 ACTTGATATA
* * * *
33720009 TAAATGGAAG-ACTCATGTCTCGGGATGAGCATGAGATTATATA
1 TAAATGGAAGAACTTATGTCTCGGGAAGAGCATAAGATTAT-TT
* * * *
33720052 TAAATGGAAG-ACTCATGTCTCGGGATGAGCATGAGGTTATTT
1 TAAATGGAAGAACTTATGTCTCGGGAAGAGCATAAGATTATTT
* * *
33720094 ATAAATGGAA-AACTTATGTCTCGGTAATAGCATAAGATTATTG
1 -TAAATGGAAGAACTTATGTCTCGGGAAGAGCATAAGATTATTT
* *
33720137 TAAATGGAAGAACTTATGTCTCAGTAAGAGCATAAGATTATTT
1 TAAATGGAAGAACTTATGTCTCGGGAAGAGCATAAGATTATTT
*
33720180 TAAATGGAAGAACTTATGACTCG
1 TAAATGGAAGAACTTATGTCTCG
33720203 ATGGGAGCAT
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 10 0.07
43 124 0.93
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (43 bp):
TAAATGGAAGAACTTATGTCTCGGGAAGAGCATAAGATTATTT
Found at i:33721092 original size:12 final size:12
Alignment explanation
Indices: 33721077--33721107 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33721067 CGTGTGACAG
33721077 CCCGTGTCATAA
1 CCCGTGTCATAA
*
33721089 CCCGTGTCATTA
1 CCCGTGTCATAA
33721101 CCCGTGT
1 CCCGTGT
33721108 AAGCCCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.35, G:0.19, T:0.29
Consensus pattern (12 bp):
CCCGTGTCATAA
Found at i:33721704 original size:26 final size:26
Alignment explanation
Indices: 33721675--33721825 Score: 94
Period size: 26 Copynumber: 5.8 Consensus size: 26
33721665 TACCAATTCC
* *
33721675 ACTAGTTATTCACTGGTTCAAAGTCT
1 ACTAGTTAATCACTGGCTCAAAGTCT
*
33721701 ACTATTTAATCACTGGCTCAAAGTCT
1 ACTAGTTAATCACTGGCTCAAAGTCT
* * * *
33721727 GCTA-TATAATCACCGGCTCAAGGCCT
1 ACTAGT-TAATCACTGGCTCAAAGTCT
* *
33721753 GCTA-TATAATCACCGGCTCAAAG-CAT
1 ACTAGT-TAATCACTGGCTCAAAGTC-T
* * * *
33721779 GCTATTTAATCA-TCGACTCAAAGTTT
1 ACTAGTTAATCACT-GGCTCAAAGTCT
* * *
33721805 GCTATTTAATCACCGGCTCAA
1 ACTAGTTAATCACTGGCTCAA
33721826 GGCCTGCTAT
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
25 2 0.02
26 103 0.97
27 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (26 bp):
ACTAGTTAATCACTGGCTCAAAGTCT
Found at i:33721786 original size:78 final size:78
Alignment explanation
Indices: 33721702--33721895 Score: 293
Period size: 78 Copynumber: 2.5 Consensus size: 78
33721692 TCAAAGTCTA
33721702 CTATTTAATCA-CTGGCTCAAAGTCTGCTATATAATCACCGGCTCAAGGCCTGCTATATAATCAC
1 CTATTTAATCATC-GGCTCAAAGTCTGCTATATAATCACCGGCTCAAGGCCTGCTATATAATCAC
*
33721766 CGGCTCAAAGCATG
65 CAGCTCAAAGCATG
* * *
33721780 CTATTTAATCATCGACTCAAAGTTTGCTATTTAATCACCGGCTCAAGGCCTGCTATATAATCACC
1 CTATTTAATCATCGGCTCAAAGTCTGCTATATAATCACCGGCTCAAGGCCTGCTATATAATCACC
* *
33721845 AGCTCGAAGCTTG
66 AGCTCAAAGCATG
* *
33721858 CTATTTAATCATCGGC-CAAGGCCTGCTATATAATCACC
1 CTATTTAATCATCGGCTCAAAGTCTGCTATATAATCACC
33721896 TCTTTTCCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
77 18 0.17
78 85 0.82
79 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (78 bp):
CTATTTAATCATCGGCTCAAAGTCTGCTATATAATCACCGGCTCAAGGCCTGCTATATAATCACC
AGCTCAAAGCATG
Found at i:33721833 original size:26 final size:26
Alignment explanation
Indices: 33721692--33721895 Score: 221
Period size: 26 Copynumber: 7.9 Consensus size: 26
33721682 ATTCACTGGT
* * * *
33721692 TCAAAGTCTACTATTTAATCACTGGC
1 TCAAAGCCTGCTATATAATCACCGGC
*
33721718 TCAAAGTCTGCTATATAATCACCGGC
1 TCAAAGCCTGCTATATAATCACCGGC
*
33721744 TCAAGGCCTGCTATATAATCACCGGC
1 TCAAAGCCTGCTATATAATCACCGGC
* * * *
33721770 TCAAAGCATGCTATTTAATCATCGAC
1 TCAAAGCCTGCTATATAATCACCGGC
** *
33721796 TCAAAGTTTGCTATTTAATCACCGGC
1 TCAAAGCCTGCTATATAATCACCGGC
* *
33721822 TCAAGGCCTGCTATATAATCACCAGC
1 TCAAAGCCTGCTATATAATCACCGGC
* * * *
33721848 TCGAAGCTTGCTATTTAATCATCGGC
1 TCAAAGCCTGCTATATAATCACCGGC
*
33721874 -CAAGGCCTGCTATATAATCACC
1 TCAAAGCCTGCTATATAATCACC
33721896 TCTTTTCCAA
Statistics
Matches: 148, Mismatches: 30, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
25 17 0.11
26 131 0.89
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (26 bp):
TCAAAGCCTGCTATATAATCACCGGC
Found at i:33733808 original size:28 final size:28
Alignment explanation
Indices: 33733773--33733831 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
33733763 CATGTCTCAG
33733773 GATGAGAATGAGAATATGATTAAAGGAA
1 GATGAGAATGAGAATATGATTAAAGGAA
33733801 GATGAGAATGAGAATATGATTAAAGGAA
1 GATGAGAATGAGAATATGATTAAAGGAA
33733829 GAT
1 GAT
33733832 TCATGTCTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (28 bp):
GATGAGAATGAGAATATGATTAAAGGAA
Found at i:33733897 original size:42 final size:42
Alignment explanation
Indices: 33733802--33733890 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
33733792 TTAAAGGAAG
* * *
33733802 ATGAGAATGAGAATATGATTAAAGGAAGATTCATGTCTCGGG
1 ATGAGAATGAGAATATGATTAAAGGAAGACTCATGACTCGGA
* *
33733844 TTGAGAATGAGAATATGATTAAAGGAAGACTCATGACTTGGA
1 ATGAGAATGAGAATATGATTAAAGGAAGACTCATGACTCGGA
33733886 ATGAG
1 ATGAG
33733891 CGTGAGATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.26
Consensus pattern (42 bp):
ATGAGAATGAGAATATGATTAAAGGAAGACTCATGACTCGGA
Found at i:33740522 original size:3 final size:3
Alignment explanation
Indices: 33740514--33740561 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
33740504 AAAAAATTAT
33740514 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33740561 A
1 A
33740562 AACTTGTGGG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:33745277 original size:24 final size:24
Alignment explanation
Indices: 33745250--33745333 Score: 141
Period size: 24 Copynumber: 3.5 Consensus size: 24
33745240 GACCCATCTA
33745250 TTGATCGAACCCGACCTGAACCCG
1 TTGATCGAACCCGACCTGAACCCG
*
33745274 TTGATCGAACCTGACCTGAACCCG
1 TTGATCGAACCCGACCTGAACCCG
* *
33745298 TTGATCGAACCCGACCCGAACCCA
1 TTGATCGAACCCGACCTGAACCCG
33745322 TTGATCGAACCC
1 TTGATCGAACCC
33745334 AACTCAAACC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.26, C:0.37, G:0.19, T:0.18
Consensus pattern (24 bp):
TTGATCGAACCCGACCTGAACCCG
Found at i:33745348 original size:24 final size:24
Alignment explanation
Indices: 33745249--33745349 Score: 85
Period size: 24 Copynumber: 4.2 Consensus size: 24
33745239 TGACCCATCT
* **
33745249 ATTGATCGAACCCGACCTGAACCC
1 ATTGATCGAACCCAACCCAAACCC
* ** **
33745273 GTTGATCGAACCTGACCTGAACCC
1 ATTGATCGAACCCAACCCAAACCC
* * *
33745297 GTTGATCGAACCCGACCCGAACCC
1 ATTGATCGAACCCAACCCAAACCC
* *
33745321 ATTGATCGAACCCAACTCAAACCT
1 ATTGATCGAACCCAACCCAAACCC
33745345 ATTGA
1 ATTGA
33745350 CCGTTGATCA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.19
Consensus pattern (24 bp):
ATTGATCGAACCCAACCCAAACCC
Found at i:33745364 original size:14 final size:14
Alignment explanation
Indices: 33745345--33745378 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33745335 ACTCAAACCT
*
33745345 ATTGACCGTTGATC
1 ATTGACCATTGATC
33745359 ATTGACCATTGATC
1 ATTGACCATTGATC
*
33745373 GTTGAC
1 ATTGAC
33745379 AGCTGACCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (14 bp):
ATTGACCATTGATC
Found at i:33749754 original size:26 final size:27
Alignment explanation
Indices: 33749703--33749765 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
33749693 TATGAATAAA
*
33749703 CTAAATTGATTTATATATGACAATTAG
1 CTAAATTGATTTAAATATGACAATTAG
33749730 -TAAATTGATTTAAAT-TG-CATTATTAG
1 CTAAATTGATTTAAATATGACA--ATTAG
*
33749756 CTAAGTTGAT
1 CTAAATTGAT
33749766 CATATGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 2 0.06
25 2 0.06
26 19 0.61
27 8 0.26
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (27 bp):
CTAAATTGATTTAAATATGACAATTAG
Found at i:33750020 original size:24 final size:24
Alignment explanation
Indices: 33749992--33750109 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
33749982 TGTTTTTGTC
33749992 TAAAGTGGCTGACGAGCATAAACG
1 TAAAGTGGCTGACGAGCATAAACG
33750016 TAAAGTGGCT-AGCGAGCATAAACG
1 TAAAGTGGCTGA-CGAGCATAAACG
* *
33750040 TAAAGTGGCTGGCGAGCAGAAACG
1 TAAAGTGGCTGACGAGCATAAACG
*
33750064 TAAAGTGGCTGGCGAGCATAAACG
1 TAAAGTGGCTGACGAGCATAAACG
**
33750088 ATATGGTGG--GACGAGCATAAAC
1 -TAAAGTGGCTGACGAGCATAAAC
33750110 ATAACTGAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
23 13 0.15
24 66 0.78
25 6 0.07
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (24 bp):
TAAAGTGGCTGACGAGCATAAACG
Found at i:33750044 original size:48 final size:49
Alignment explanation
Indices: 33749992--33750109 Score: 170
Period size: 48 Copynumber: 2.5 Consensus size: 49
33749982 TGTTTTTGTC
33749992 TAAAGTGGCTGACGAGCATAAACGTAAAGTGGCTAGCGAGCATAAACG-
1 TAAAGTGGCTGACGAGCATAAACGTAAAGTGGCTAGCGAGCATAAACGA
* * *
33750040 TAAAGTGGCTGGCGAGCAGAAACGTAAAGTGGCTGGCGAGCATAAACGA
1 TAAAGTGGCTGACGAGCATAAACGTAAAGTGGCTAGCGAGCATAAACGA
**
33750089 TATGGTGG--GACGAGCATAAAC
1 TAAAGTGGCTGACGAGCATAAAC
33750110 ATAACTGAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 11 0.18
48 45 0.73
49 6 0.10
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (49 bp):
TAAAGTGGCTGACGAGCATAAACGTAAAGTGGCTAGCGAGCATAAACGA
Found at i:33751633 original size:28 final size:29
Alignment explanation
Indices: 33751599--33751655 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
33751589 AGTAAATTGG
33751599 AAATTTT-ATGAA-TGTTAGGGACTAAATT
1 AAATTTTAATGAAGT-TTAGGGACTAAATT
33751627 AAATTTTAATGAAGTTTAGGGACTAAATT
1 AAATTTTAATGAAGTTTAGGGACTAAATT
33751656 GAGCTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 7 0.26
29 19 0.70
30 1 0.04
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.39
Consensus pattern (29 bp):
AAATTTTAATGAAGTTTAGGGACTAAATT
Found at i:33752318 original size:18 final size:18
Alignment explanation
Indices: 33752278--33752321 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
33752268 AACAGATGCT
33752278 AGCCCAAACCAATTTGTG
1 AGCCCAAACCAATTTGTG
*
33752296 A-CCCAAATCAATTT-TG
1 AGCCCAAACCAATTTGTG
33752312 AAGCCCAAAC
1 -AGCCCAAAC
33752322 ATTAACCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 2 0.09
17 13 0.59
18 7 0.32
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.20
Consensus pattern (18 bp):
AGCCCAAACCAATTTGTG
Found at i:33755394 original size:67 final size:65
Alignment explanation
Indices: 33755286--33755418 Score: 194
Period size: 67 Copynumber: 2.0 Consensus size: 65
33755276 ACAGTTCCAC
* ** *
33755286 TCACATAGGTAGATACCATCAAGAGTGTTTTCGTGATTATAATACTCTAACATATTTATATTATA
1 TCACATAGGTAGATACCATCAAGAGTATTCCCGTGATTATAA-A-ACTAACATATTTATATTATA
33755351 GG
64 GG
* *
33755353 TCACATAGGTAGATTCCATCAAGAGTATTCCCGTGATTATAAAACTAACATATTTATGTTATAGG
1 TCACATAGGTAGATACCATCAAGAGTATTCCCGTGATTATAAAACTAACATATTTATATTATAGG
33755418 T
1 T
33755419 TATTAAAAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 21 0.35
66 1 0.02
67 38 0.63
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (65 bp):
TCACATAGGTAGATACCATCAAGAGTATTCCCGTGATTATAAAACTAACATATTTATATTATAGG
Found at i:33757608 original size:63 final size:63
Alignment explanation
Indices: 33757509--33757697 Score: 333
Period size: 63 Copynumber: 3.0 Consensus size: 63
33757499 GAGACTTGAA
33757509 AGCAACATTGCAGAAGAACAGAAATAGCAAATAATTCATCAAGCTACACATCACACTTATTTC
1 AGCAACATTGCAGAAGAACAGAAATAGCAAATAATTCATCAAGCTACACATCACACTTATTTC
*
33757572 AGCAACATTGCATAAGAACAGAAATAGCAAATAATTCATCAAGCTACACATCACACTTATTTC
1 AGCAACATTGCAGAAGAACAGAAATAGCAAATAATTCATCAAGCTACACATCACACTTATTTC
* * * *
33757635 AGTAACATTGCAGAAGAACAGAAACAACGAATAATTCATCAAGCTACACATCACACTTATTTC
1 AGCAACATTGCAGAAGAACAGAAATAGCAAATAATTCATCAAGCTACACATCACACTTATTTC
33757698 CTCATTAATA
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 120 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (63 bp):
AGCAACATTGCAGAAGAACAGAAATAGCAAATAATTCATCAAGCTACACATCACACTTATTTC
Found at i:33757796 original size:51 final size:51
Alignment explanation
Indices: 33757720--33757821 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
33757710 TCGATGTTTA
33757720 CATTAAAGGAACAGGAATAAAGAGATCGAGAGACCTCCACCATGTAAAGTT
1 CATTAAAGGAACAGGAATAAAGAGATCGAGAGACCTCCACCATGTAAAGTT
* * * *
33757771 CATTATAGGAACAGGAATAGAGAGATCGAGAGATCTGCACCATGTAAAGTT
1 CATTAAAGGAACAGGAATAAAGAGATCGAGAGACCTCCACCATGTAAAGTT
33757822 GAAATATCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (51 bp):
CATTAAAGGAACAGGAATAAAGAGATCGAGAGACCTCCACCATGTAAAGTT
Found at i:33760366 original size:2 final size:2
Alignment explanation
Indices: 33760361--33760394 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33760351 TATATGGTTA
33760361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33760395 CAGTTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33764518 original size:76 final size:76
Alignment explanation
Indices: 33764380--33764520 Score: 221
Period size: 76 Copynumber: 1.9 Consensus size: 76
33764370 GCAAGCAAAC
* * * *
33764380 CAAAACAGTACACGTGTCCAACATGCATGACGCCTACCAAGAACGTCAATTCCTCGTCAACTCCA
1 CAAAACAGTACACGTGTCCAACATGCATGAAGCATACCAAGAACGCCAATTCCTCATCAACTCCA
33764445 CACTCATTGCA
66 CACTCATTGCA
*
33764456 CAAAACAGTACACGTGTCCAGCATGCATGAAGCATACCAAGAACGCCAATTCCTCAAT-AACTCC
1 CAAAACAGTACACGTGTCCAACATGCATGAAGCATACCAAGAACGCCAATTCCTC-ATCAACTCC
33764520 A
65 A
33764521 TTGACAGTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.35, C:0.33, G:0.13, T:0.18
Consensus pattern (76 bp):
CAAAACAGTACACGTGTCCAACATGCATGAAGCATACCAAGAACGCCAATTCCTCATCAACTCCA
CACTCATTGCA
Found at i:33767450 original size:29 final size:28
Alignment explanation
Indices: 33767403--33767607 Score: 142
Period size: 30 Copynumber: 7.0 Consensus size: 28
33767393 TGGACATCCG
33767403 GGGGTAAAATGGTAA-TTTTGGAAGTTTT
1 GGGGTAAAATGG-AATTTTTGGAAGTTTT
* *
33767431 GGGGTCAAAATGGGATTTTTGGAAGTTTA
1 GGGGT-AAAATGGAATTTTTGGAAGTTTT
**
33767460 GGGGTAAAATGGTAATTTTTTAAAGTTTT
1 GGGGTAAAATGG-AATTTTTGGAAGTTTT
* * * * * **
33767489 AAGGTTAAAAATGAAATTTGTGGAAATTGGAG
1 -GGGGT-AAAATGGAATTTTTGGAAGTT--TT
*
33767521 GGGGTAAAATGTAATTTTTGGAAGTTTT
1 GGGGTAAAATGGAATTTTTGGAAGTTTT
* * **
33767549 AGGGTCAAAAATAGAATTTTTGGAAGTTCG
1 GGGGT--AAAATGGAATTTTTGGAAGTTTT
* *
33767579 GGGGTAAATTGGTAATTTTTAGACAGTTT
1 GGGGTAAAATGG-AATTTTTGGA-AGTTT
33767608 AGGGACCTAT
Statistics
Matches: 134, Mismatches: 32, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
28 22 0.16
29 45 0.34
30 58 0.43
31 9 0.07
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.37
Consensus pattern (28 bp):
GGGGTAAAATGGAATTTTTGGAAGTTTT
Found at i:33767536 original size:60 final size:59
Alignment explanation
Indices: 33767402--33767607 Score: 188
Period size: 60 Copynumber: 3.5 Consensus size: 59
33767392 TTGGACATCC
* ** * * * *
33767402 GGGGGTAAAATGGTAA-TTTTGGAAGTTTTGGGGTC-AAAATGGGATTTTTGGAAGTTTA
1 GGGGGTAAAATGGTAATTTTTGAAAGTTTTAAGGTCAAAAATAGAATTTGTGGAA-ATTA
* *
33767460 -GGGGTAAAATGGTAATTTTTTAAAGTTTTAAGGTTAAAAAT-GAAATTTGTGGAAATTGGA
1 GGGGGTAAAATGGTAATTTTTGAAAGTTTTAAGGTCAAAAATAG-AATTTGTGGAAATT--A
* * * * *
33767520 GGGGGTAAAAT-GTAATTTTTGGAAGTTTTAGGGTCAAAAATAGAATTTTTGGAAGTTC
1 GGGGGTAAAATGGTAATTTTTGAAAGTTTTAAGGTCAAAAATAGAATTTGTGGAAATTA
* *
33767578 GGGGGTAAATTGGTAATTTTTAGACAGTTT
1 GGGGGTAAAATGGTAATTTTT-GAAAGTTT
33767608 AGGGACCTAT
Statistics
Matches: 121, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
57 15 0.12
58 27 0.22
59 23 0.19
60 45 0.37
61 11 0.09
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.37
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGAAAGTTTTAAGGTCAAAAATAGAATTTGTGGAAATTA
Found at i:33768681 original size:13 final size:13
Alignment explanation
Indices: 33768663--33768699 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
33768653 TATTTTACTA
33768663 ATTATTTATTAAT
1 ATTATTTATTAAT
*
33768676 ATTATTTATTACT
1 ATTATTTATTAAT
*
33768689 AGTATTTATTA
1 ATTATTTATTA
33768700 TTACTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (13 bp):
ATTATTTATTAAT
Found at i:33768700 original size:16 final size:15
Alignment explanation
Indices: 33768675--33768717 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
33768665 TATTTATTAA
33768675 TATTATTTATTACTAG-
1 TATTA-TTATTACT-GT
33768691 TATTTATTATTACTGT
1 TA-TTATTATTACTGT
33768707 TATTATTATTA
1 TATTATTATTA
33768718 ATATTATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.40
16 12 0.48
17 3 0.12
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (15 bp):
TATTATTATTACTGT
Found at i:33769435 original size:17 final size:17
Alignment explanation
Indices: 33769413--33769484 Score: 78
Period size: 17 Copynumber: 4.3 Consensus size: 17
33769403 GGGCATTTTA
*
33769413 TTAAATTTATAA-TAATT
1 TTAAATTTA-AATTAAAT
33769430 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
33769447 TTAAATTT-AA-TAAAT
1 TTAAATTTAAATTAAAT
* *
33769462 CTAAATTTAAAAATAAAT
1 TTAAATTT-AAATTAAAT
33769480 TTAAA
1 TTAAA
33769485 ATGGTTTGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
15 12 0.25
16 4 0.08
17 23 0.48
18 9 0.19
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATTTAAATTAAAT
Found at i:33769440 original size:6 final size:6
Alignment explanation
Indices: 33769429--33769484 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
33769419 TTATAATAAT
*
33769429 TTTAAA TTTAAA -TTAAA TTTAAA TTT-AA --TAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
33769473 AATAAA TTTAAA
1 TTTAAA TTTAAA
33769485 ATGGTTTGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
3 1 0.02
4 2 0.05
5 7 0.17
6 31 0.76
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:33769472 original size:12 final size:11
Alignment explanation
Indices: 33769430--33769484 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
33769420 TATAATAATT
33769430 TTAAATTTAAA
1 TTAAATTTAAA
33769441 TTAAATTTAAA
1 TTAAATTTAAA
*
33769452 TTTAA--TAAA
1 TTAAATTTAAA
33769461 TCTAAATTTAAAA
1 T-TAAATTT-AAA
*
33769474 ATAAATTTAAA
1 TTAAATTTAAA
33769485 ATGGTTTGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 5 0.14
10 3 0.08
11 18 0.49
12 8 0.22
13 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:33769854 original size:92 final size:92
Alignment explanation
Indices: 33769728--33770338 Score: 969
Period size: 92 Copynumber: 6.7 Consensus size: 92
33769718 AAAATAGGGT
* * *
33769728 TTGATG-TTG-AGACTTCTTCTTGCTCTTACAACAACTTCAGAGAGATAAAGACTTGTTATCCAA
1 TTGATGTTTGAAG-CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAA
* *
33769791 CTTTACTACAACTTCAAGAGGATAATAA
65 CTTTACTGCAACTTCAAGAGGATAAGAA
* *
33769819 TTGATCTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
*
33769884 TTTACTACAACTTCAAGAGGATAAGAA
66 TTTACTGCAACTTCAAGAGGATAAGAA
* *
33769911 TTGATCTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
*
33769976 TTTACTGCAACTTCAAGAGGATAGGAA
66 TTTACTGCAACTTCAAGAGGATAAGAA
* * * *
33770003 TGGGTGTTTGAAGCTTCATCTTACTCTTACTACAACTTCATAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
*
33770068 TTTACTGCAACTTCAAGAGGATAGGAA
66 TTTACTGCAACTTCAAGAGGATAAGAA
* *
33770095 TT-AGTGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAA
1 TTGA-TGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAA
33770159 CTTTACTGCAACTTCAAGAGGAT-AGAAA
65 CTTTACTGCAACTTCAAGAGGATAAG-AA
*
33770187 TTTATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
*
33770252 TTTACTGCAACTTCAAGAGGATAGGAA
66 TTTACTGCAACTTCAAGAGGATAAGAA
* *
33770279 TTGATGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTTCTAT
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
33770339 TTTGATCTGA
Statistics
Matches: 489, Mismatches: 25, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
91 6 0.01
92 479 0.98
93 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (92 bp):
TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
TTTACTGCAACTTCAAGAGGATAAGAA
Found at i:33782562 original size:58 final size:58
Alignment explanation
Indices: 33782500--33782702 Score: 166
Period size: 58 Copynumber: 3.5 Consensus size: 58
33782490 TCTTAAGGGC
33782500 AAAATGGTAATTTTTGGAAAATTTAGGGTTAAAAAT-GACA-TTTTA-AACATTCGGGGGT
1 AAAATGGTAATTTTTGG-AAATTTAGGG-TAAAAATGGA-ATTTTTAGAACATTCGGGGGT
* * * ** *
33782558 AAAATGGTAATTTTTGGAAGTTTCGGGTCAAAATGGAATTTTTAGAAGTTTGGGGGGT
1 AAAATGGTAATTTTTGGAAATTTAGGGTAAAAATGGAATTTTTAGAACATTCGGGGGT
* * * * * **
33782616 AAAATGGTAA-TTTTAGAAGTTTCAAGGTTAAAAATGGAA-TTTTGGAA-GTTCAAGGGTTT
1 AAAATGGTAATTTTTGGAAATTT--AGGGTAAAAATGGAATTTTTAGAACATTC--GGGGGT
*
33782675 AAAATGGTAATTTTTGGATAGTTTAGGG
1 AAAATGGTAATTTTTGGA-AATTTAGGG
33782703 ACCTATAGTG
Statistics
Matches: 119, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
56 7 0.06
57 28 0.24
58 44 0.37
59 29 0.24
60 6 0.05
61 5 0.04
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGAAATTTAGGGTAAAAATGGAATTTTTAGAACATTCGGGGGT
Found at i:33782591 original size:29 final size:29
Alignment explanation
Indices: 33782554--33782702 Score: 132
Period size: 29 Copynumber: 5.1 Consensus size: 29
33782544 AAACATTCGG
33782554 GGGTAAAATGGTAATTTTTGGAAGTTTC-
1 GGGTAAAATGGTAATTTTTGGAAGTTTCA
* **
33782582 GGGTCAAAATGG-AATTTTTAGAAGTTTGGG
1 GGGT-AAAATGGTAATTTTTGGAAGTTT-CA
*
33782612 GGGTAAAATGGTAA-TTTTAGAAGTTTCAA
1 GGGTAAAATGGTAATTTTTGGAAGTTTC-A
*
33782641 GGTTAAAAATGG-AA-TTTTGGAAG-TTCAA
1 GGGT-AAAATGGTAATTTTTGGAAGTTTC-A
33782669 GGGTTTAAAATGGTAATTTTTGGATAGTTT-A
1 GGG--TAAAATGGTAATTTTTGGA-AGTTTCA
33782700 GGG
1 GGG
33782703 ACCTATAGTG
Statistics
Matches: 102, Mismatches: 7, Indels: 21
0.78 0.05 0.16
Matches are distributed among these distances:
28 25 0.25
29 46 0.45
30 16 0.16
31 11 0.11
32 2 0.02
33 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGGAAGTTTCA
Found at i:33782679 original size:59 final size:57
Alignment explanation
Indices: 33782552--33782688 Score: 159
Period size: 59 Copynumber: 2.4 Consensus size: 57
33782542 TTAAACATTC
* * **
33782552 GGGGGTAAAATGGTAATTTTTGGAAGTTTCGGGTCAAAATGGAATTTTTAGAAGTTTG
1 GGGGGTAAAATGGTAA-TTTTAGAAGTTTCGGGTAAAAATGGAATTTTTAGAAGTTAA
* *
33782610 GGGGGTAAAATGGTAATTTTAGAAGTTTCAAGGTTAAAAATGGAA-TTTTGGAAGTTCAA
1 GGGGGTAAAATGGTAATTTTAGAAGTTTC--GGGTAAAAATGGAATTTTTAGAAGTT-AA
**
33782669 GGGTTTAAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
33782689 TGGATAGTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 12 0.18
58 26 0.38
59 30 0.44
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (57 bp):
GGGGGTAAAATGGTAATTTTAGAAGTTTCGGGTAAAAATGGAATTTTTAGAAGTTAA
Found at i:33783757 original size:13 final size:13
Alignment explanation
Indices: 33783739--33783775 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
33783729 TATTTTACTA
33783739 ATTATTTATTAAT
1 ATTATTTATTAAT
*
33783752 ATTATTTATTACT
1 ATTATTTATTAAT
*
33783765 AGTATTTATTA
1 ATTATTTATTA
33783776 TTACTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (13 bp):
ATTATTTATTAAT
Found at i:33783776 original size:16 final size:15
Alignment explanation
Indices: 33783751--33783793 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
33783741 TATTTATTAA
33783751 TATTATTTATTACTAG-
1 TATTA-TTATTACT-GT
33783767 TATTTATTATTACTGT
1 TA-TTATTATTACTGT
33783783 TATTATTATTA
1 TATTATTATTA
33783794 ATATTATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.40
16 12 0.48
17 3 0.12
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (15 bp):
TATTATTATTACTGT
Done.