Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 67 of 97
Found at i:27071070 original size:13 final size:13
Alignment explanation
Indices: 27071054--27071083 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
27071044 TTTTTCTTTA
27071054 TTTTTTATTTTGT
1 TTTTTTATTTTGT
27071067 TTTTTTATTTTGT
1 TTTTTTATTTTGT
27071080 TTTT
1 TTTT
27071084 CCTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTGT
Found at i:27071680 original size:3 final size:3
Alignment explanation
Indices: 27071672--27071760 Score: 178
Period size: 3 Copynumber: 29.7 Consensus size: 3
27071662 TTCTTATTTC
27071672 TTA TTA TTA 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 TTA TTA TTA
27071720 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27071761 TTAAAAAAAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27072057 original size:21 final size:21
Alignment explanation
Indices: 27072014--27072058 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27072004 TTTTAAACAG
**
27072014 AAATTAAAAAAAAAGAAGGAA
1 AAATTAAAAAAAAAGAAAAAA
* *
27072035 AAATTACAAAAAAATAAAAAA
1 AAATTAAAAAAAAAGAAAAAA
27072056 AAA
1 AAA
27072059 AGCAAAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (21 bp):
AAATTAAAAAAAAAGAAAAAA
Found at i:27072065 original size:19 final size:18
Alignment explanation
Indices: 27072043--27072105 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
27072033 AAAAATTACA
27072043 AAAAAATAAAAAAAAAAG
1 AAAAAATAAAAAAAAAAG
27072061 CAAAAGAATGAAAAAAAGAAA-
1 -AAAA-AAT-AAAAAAA-AAAG
* **
27072082 AAAGAATGGAAAAAAAAG
1 AAAAAATAAAAAAAAAAG
27072100 AAAAAA
1 AAAAAA
27072106 ATTAAAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 7 0.19
20 6 0.17
21 7 0.19
22 3 0.08
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.05
Consensus pattern (18 bp):
AAAAAATAAAAAAAAAAG
Found at i:27072074 original size:18 final size:20
Alignment explanation
Indices: 27072053--27072105 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
27072043 AAAAAATAAA
*
27072053 AAAAAAAG-CAAAAGAAT-G
1 AAAAAAAGAAAAAAGAATGG
27072071 AAAAAAAGAAAAAAGAATGG
1 AAAAAAAGAAAAAAGAATGG
27072091 AAAAAAAAGAAAAAA
1 -AAAAAAAGAAAAAA
27072106 ATTAAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 1 0.03
21 14 0.45
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (20 bp):
AAAAAAAGAAAAAAGAATGG
Found at i:27072074 original size:29 final size:29
Alignment explanation
Indices: 27072042--27072114 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
27072032 GAAAAATTAC
* *
27072042 AAAAAAATAAAAAAAAAAGCAAAAGAATG
1 AAAAAAATAAAAAAAAAAGCAAAAAAAAG
* * * *
27072071 AAAAAAAGAAAAAAGAATGGAAAAAAAAG
1 AAAAAAATAAAAAAAAAAGCAAAAAAAAG
*
27072100 AAAAAAATTAAAAAA
1 AAAAAAATAAAAAAA
27072115 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.81, C:0.01, G:0.11, T:0.07
Consensus pattern (29 bp):
AAAAAAATAAAAAAAAAAGCAAAAAAAAG
Found at i:27072113 original size:19 final size:19
Alignment explanation
Indices: 27072042--27072114 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
27072032 GAAAAATTAC
*
27072042 AAAAAAATAAAAAAAAAAG
1 AAAAAAATGAAAAAAAAAG
*
27072061 CAAAAGAATGAAAAAAAGAA-
1 -AAAAAAATGAAAAAAA-AAG
* *
27072081 AAAAGAATGGAAAAAAAAG
1 AAAAAAATGAAAAAAAAAG
*
27072100 AAAAAAATTAAAAAA
1 AAAAAAATGAAAAAA
27072115 GAGAGAGAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.04
19 27 0.60
20 14 0.31
21 2 0.04
ACGTcount: A:0.81, C:0.01, G:0.11, T:0.07
Consensus pattern (19 bp):
AAAAAAATGAAAAAAAAAG
Found at i:27075866 original size:28 final size:27
Alignment explanation
Indices: 27075829--27075909 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 27
27075819 AAATGCTCTG
27075829 GGGGTGCAAAATTACTGTTTTGCCCCT
1 GGGGTGCAAAATTACTGTTTTGCCCCT
*
27075856 GGGGTGACAAAATTACCGTTTTGCCCCT
1 GGGGTG-CAAAATTACTGTTTTGCCCCT
*
27075884 AGGGTGGCAAAATTACAT-TTTTGCCC
1 GGGGT-GCAAAATTAC-TGTTTTGCCC
27075910 AAAAAAATTG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
27 6 0.12
28 41 0.85
29 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (27 bp):
GGGGTGCAAAATTACTGTTTTGCCCCT
Found at i:27076115 original size:19 final size:19
Alignment explanation
Indices: 27076091--27076128 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27076081 ACTGCCAAAC
*
27076091 CCTCAAATTATACTCCAAT
1 CCTCAAATCATACTCCAAT
27076110 CCTCAAATCATACTCCAAT
1 CCTCAAATCATACTCCAAT
27076129 AAGTTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (19 bp):
CCTCAAATCATACTCCAAT
Found at i:27077650 original size:15 final size:15
Alignment explanation
Indices: 27077612--27077654 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
27077602 AATGAATTAC
**
27077612 ACTGAAAGACTGATT
1 ACTGAAAGGTTGATT
27077627 ACTGAAAGGTTGATT
1 ACTGAAAGGTTGATT
27077642 ACTGAAAGGTTGA
1 ACTGAAAGGTTGA
27077655 GTCAAATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (15 bp):
ACTGAAAGGTTGATT
Found at i:27077951 original size:35 final size:35
Alignment explanation
Indices: 27077912--27077999 Score: 140
Period size: 36 Copynumber: 2.5 Consensus size: 35
27077902 AAGCAGTTAT
*
27077912 GCCTAATTAATTAAATTGTTTAATTAAGTCATTGG
1 GCCTAATTGATTAAATTGTTTAATTAAGTCATTGG
*
27077947 GCCTAATTGATTAAAATTGTTTAATTAAGTTATTGG
1 GCCTAATTGATT-AAATTGTTTAATTAAGTCATTGG
*
27077983 ACCTAATTGATTAAATT
1 GCCTAATTGATTAAATT
27078000 AAACAATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
35 16 0.33
36 33 0.67
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (35 bp):
GCCTAATTGATTAAATTGTTTAATTAAGTCATTGG
Found at i:27078008 original size:35 final size:36
Alignment explanation
Indices: 27077933--27078013 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 36
27077923 TAAATTGTTT
* * ****
27077933 AATTAAGTCATTGGGCCTAATTGATTAAAATTGTTT
1 AATTAAGTTATTGGACCTAATTGATTAAAATTAAAC
27077969 AATTAAGTTATTGGACCTAATTGATT-AAATTAAAC
1 AATTAAGTTATTGGACCTAATTGATTAAAATTAAAC
27078004 AATTAAGTTA
1 AATTAAGTTA
27078014 ACTGGGCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 15 0.38
36 24 0.62
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (36 bp):
AATTAAGTTATTGGACCTAATTGATTAAAATTAAAC
Found at i:27083892 original size:22 final size:22
Alignment explanation
Indices: 27083864--27083912 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
27083854 CCGCCATAAG
27083864 AAGTGCATTTGGTATTTCACTC
1 AAGTGCATTTGGTATTTCACTC
27083886 AAGTGCATTTGGTATTTCACTC
1 AAGTGCATTTGGTATTTCACTC
27083908 AAGTG
1 AAGTG
27083913 TCTATACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (22 bp):
AAGTGCATTTGGTATTTCACTC
Found at i:27084715 original size:36 final size:35
Alignment explanation
Indices: 27084630--27084755 Score: 143
Period size: 36 Copynumber: 3.6 Consensus size: 35
27084620 TCTCAAGCAC
* *
27084630 TTGATTAAAATTGGTTAATTAAG--TTGTGCTT-A
1 TTGATTAAAATTGTTTAATTAAGTATTGGGCTTAA
*
27084662 TATAATT-AAATTGTTTAATTAAGTCATTGGGCTTAA
1 T-TGATTAAAATTGTTTAATTAAGT-ATTGGGCTTAA
* *
27084698 TTGATTAAAATTGTTTAATTAAATTATTGGGCCTAA
1 TTGATTAAAATTGTTTAATT-AAGTATTGGGCTTAA
*
27084734 TTCATTAAAATTGTTTAATTAA
1 TTGATTAAAATTGTTTAATTAA
27084756 ATTATTGAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
32 16 0.20
33 4 0.05
35 13 0.16
36 44 0.55
37 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (35 bp):
TTGATTAAAATTGTTTAATTAAGTATTGGGCTTAA
Found at i:27084756 original size:36 final size:36
Alignment explanation
Indices: 27084669--27084762 Score: 152
Period size: 36 Copynumber: 2.6 Consensus size: 36
27084659 TTATATAATT
* * * *
27084669 AAATTGTTTAATTAAGTCATTGGGCTTAATTGATTA
1 AAATTGTTTAATTAAATTATTGGGCCTAATTCATTA
27084705 AAATTGTTTAATTAAATTATTGGGCCTAATTCATTA
1 AAATTGTTTAATTAAATTATTGGGCCTAATTCATTA
27084741 AAATTGTTTAATTAAATTATTG
1 AAATTGTTTAATTAAATTATTG
27084763 AATTAATTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (36 bp):
AAATTGTTTAATTAAATTATTGGGCCTAATTCATTA
Found at i:27087539 original size:36 final size:36
Alignment explanation
Indices: 27087497--27087569 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
27087487 GAAAAAGAAA
27087497 AAATAAATAAAAGATAAAAGAAAACCAGAAATCACC
1 AAATAAATAAAAGATAAAAGAAAACCAGAAATCACC
*
27087533 AAATAAATAAAAGATAAGAGAAAACCAGAAATCACC
1 AAATAAATAAAAGATAAAAGAAAACCAGAAATCACC
27087569 A
1 A
27087570 TAAATCAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.66, C:0.14, G:0.10, T:0.11
Consensus pattern (36 bp):
AAATAAATAAAAGATAAAAGAAAACCAGAAATCACC
Found at i:27090587 original size:84 final size:84
Alignment explanation
Indices: 27090489--27090646 Score: 246
Period size: 84 Copynumber: 1.9 Consensus size: 84
27090479 CCTAACATGG
* * *
27090489 GTAGCAAAATGAAAAAGAAAATACAATTAAG-AGAATTTGAACCTGCATTAACAAAGTCATGAGA
1 GTAGCAAAATGAAAAAGAAAACACAACT-AGCAGAATTTGAACATGCATTAACAAAGTCATGAGA
27090553 CTTTAAAAAACATCAAGAAA
65 CTTTAAAAAACATCAAGAAA
* * *
27090573 GTAGCAAAATGAAAAAGAAAACGCAACTAGCAGGATTTGAACATGCATTAACAAAGTTATGAGAC
1 GTAGCAAAATGAAAAAGAAAACACAACTAGCAGAATTTGAACATGCATTAACAAAGTCATGAGAC
27090638 TTTAAAAAA
66 TTTAAAAAA
27090647 TATCCTTTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 2 0.03
84 65 0.97
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (84 bp):
GTAGCAAAATGAAAAAGAAAACACAACTAGCAGAATTTGAACATGCATTAACAAAGTCATGAGAC
TTTAAAAAACATCAAGAAA
Found at i:27090729 original size:70 final size:70
Alignment explanation
Indices: 27090616--27090752 Score: 238
Period size: 70 Copynumber: 2.0 Consensus size: 70
27090606 GATTTGAACA
*
27090616 TGCATTAACAAAGTTATGAGACTTTAAAAAATATCCTTTAACTACTACACTAAAGAAGCATCCTT
1 TGCATTAACAAAGTCATGAGACTTTAAAAAATATCCTTTAACTACTACACTAAAGAAGCATCCTT
27090681 AAACT
66 AAACT
* * *
27090686 TGCATTAATAAAGTCATGAGACTTTAAAAAATATCCTTTAACTATTACACTAAGGAAGCATCCTT
1 TGCATTAACAAAGTCATGAGACTTTAAAAAATATCCTTTAACTACTACACTAAAGAAGCATCCTT
27090751 AA
66 AA
27090753 GATGATACTG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (70 bp):
TGCATTAACAAAGTCATGAGACTTTAAAAAATATCCTTTAACTACTACACTAAAGAAGCATCCTT
AAACT
Found at i:27092046 original size:19 final size:19
Alignment explanation
Indices: 27092018--27092055 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
27092008 CCATTTAACT
*
27092018 TATTGCAGTATGATTTGAG
1 TATTGCAGTATAATTTGAG
*
27092037 TATTGGAGTATAATTTGAG
1 TATTGCAGTATAATTTGAG
27092056 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTGCAGTATAATTTGAG
Found at i:27092262 original size:28 final size:29
Alignment explanation
Indices: 27092221--27092280 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
27092211 GTCTATGGGC
* *
27092221 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
27092249 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
27092279 AA
1 AA
27092281 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:27100527 original size:18 final size:19
Alignment explanation
Indices: 27100492--27100546 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 19
27100482 ATAAAATTAA
27100492 TATATAACTTATACTTAAT-CT
1 TATATAAC-TA-A-TTAATACT
27100513 TATATAACTAATTAATACT
1 TATATAACTAATTAATACT
* *
27100532 T-TAAAAATAATTAAT
1 TATATAACTAATTAAT
27100547 TTAGTTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 17 0.55
19 4 0.13
20 2 0.06
21 8 0.26
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (19 bp):
TATATAACTAATTAATACT
Found at i:27102170 original size:19 final size:19
Alignment explanation
Indices: 27102143--27102180 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
27102133 CCATTTAACT
* *
27102143 TATTGGAGTATGATTTGAG
1 TATTAGAGTATAATTTGAG
27102162 TATTAGAGTATAATTTGAG
1 TATTAGAGTATAATTTGAG
27102181 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATAATTTGAG
Found at i:27102387 original size:28 final size:29
Alignment explanation
Indices: 27102346--27102405 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
27102336 GTCTATGGGC
* *
27102346 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
27102374 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
27102404 AA
1 AA
27102406 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:27106428 original size:26 final size:26
Alignment explanation
Indices: 27106376--27106429 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
27106366 GTTTGATTTG
* ** **
27106376 TTTGCTTTGTCTTGTTTTTTTTTTTT
1 TTTGCTTGGTCTTGTTTTGATAGTTT
27106402 TTTGCTTGGTCTTGTTTTGATAGTTT
1 TTTGCTTGGTCTTGTTTTGATAGTTT
27106428 TT
1 TT
27106430 GTTTTGGGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.04, C:0.07, G:0.17, T:0.72
Consensus pattern (26 bp):
TTTGCTTGGTCTTGTTTTGATAGTTT
Found at i:27122936 original size:28 final size:28
Alignment explanation
Indices: 27122860--27122938 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 28
27122850 CACGTCCATC
27122860 GTCATGTGATCATGTTAGTCAATAAAA-
1 GTCATGTGATCATGTTAGTCAATAAAAT
* * *
27122887 -TCATAT-ATTAAG-TA-T-ATATAAAAT
1 GTCATGTGATCATGTTAGTCA-ATAAAAT
27122911 GTCATGTGATCATGTTAGTCAATAAAAT
1 GTCATGTGATCATGTTAGTCAATAAAAT
27122939 CATATACTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
22 1 0.03
23 7 0.18
24 2 0.05
25 9 0.23
26 9 0.23
27 2 0.05
28 8 0.21
29 1 0.03
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (28 bp):
GTCATGTGATCATGTTAGTCAATAAAAT
Found at i:27122936 original size:51 final size:51
Alignment explanation
Indices: 27122860--27122965 Score: 185
Period size: 51 Copynumber: 2.1 Consensus size: 51
27122850 CACGTCCATC
*
27122860 GTCATGTGATCATGTTAGTCAATAAAATCATATATTAAGTATATATAAAAT
1 GTCATGTGATCATGTTAGTCAATAAAATCATATACTAAGTATATATAAAAT
* *
27122911 GTCATGTGATCATGTTAGTCAATAAAATCATATACTACGTATATATGAAAT
1 GTCATGTGATCATGTTAGTCAATAAAATCATATACTAAGTATATATAAAAT
27122962 GTCA
1 GTCA
27122966 ACTGATAGTG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (51 bp):
GTCATGTGATCATGTTAGTCAATAAAATCATATACTAAGTATATATAAAAT
Found at i:27123343 original size:33 final size:33
Alignment explanation
Indices: 27123306--27123392 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 33
27123296 GATAAATATT
27123306 AATATTTAAT-TTGAAATATTAAAAAAATTTAAA
1 AATA-TTAATATTGAAATATTAAAAAAATTTAAA
* * * *
27123339 AATATTAATATTTAACTTTTAAAAAATTTTAACTTAA
1 AATATTAATATTGAAATATTAAAAAAATTT-A---AA
27123376 AATATTAATATTGAAAT
1 AATATTAATATTGAAAT
27123393 TATTCAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
32 5 0.12
33 20 0.47
34 1 0.02
37 17 0.40
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (33 bp):
AATATTAATATTGAAATATTAAAAAAATTTAAA
Found at i:27126894 original size:15 final size:15
Alignment explanation
Indices: 27126874--27126913 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
27126864 TTATTTGATG
27126874 TTATTATTATTATTT
1 TTATTATTATTATTT
*
27126889 TTATTATAATTATTT
1 TTATTATTATTATTT
*
27126904 TTATAATTAT
1 TTATTATTAT
27126914 AGATTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTATTATTATTT
Found at i:27126981 original size:9 final size:9
Alignment explanation
Indices: 27126964--27126993 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27126954 ATATTTTTAT
27126964 TTAATCGTG
1 TTAATCGTG
*
27126973 TTAAACGTG
1 TTAATCGTG
27126982 TTAATCGTG
1 TTAATCGTG
27126991 TTA
1 TTA
27126994 TTAATCGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (9 bp):
TTAATCGTG
Found at i:27127573 original size:5 final size:5
Alignment explanation
Indices: 27127565--27127603 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
27127555 GTAATATAAT
27127565 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAA
27127604 GAGAGCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:27132472 original size:9 final size:9
Alignment explanation
Indices: 27132438--27132485 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
27132428 ACACGATTAA
*
27132438 TAACACGTT
1 TAACACGAT
*
27132447 TAACACGTT
1 TAACACGAT
27132456 TAACACGAT
1 TAACACGAT
* *
27132465 TAATACGAC
1 TAACACGAT
27132474 TAACACGAT
1 TAACACGAT
27132483 TAA
1 TAA
27132486 ATAAAAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (9 bp):
TAACACGAT
Found at i:27133754 original size:54 final size:54
Alignment explanation
Indices: 27133684--27133796 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
27133674 CATTCTATTG
* * * *
27133684 TCTTTTGATATTAGAGCC-TATACTATTGTTTACTTCTTTGTGTCTATTATACTA
1 TCTTTTGATATCAGAGCCGT-TACTATGGTTTACTTCTTTGAGTCTATGATACTA
* *
27133738 TCTTTTGATATCAGAGCCGTTATTATGGTTTACTTCTTTGAGTCTATGATACTG
1 TCTTTTGATATCAGAGCCGTTACTATGGTTTACTTCTTTGAGTCTATGATACTA
27133792 TCTTT
1 TCTTT
27133797 GGTATTAGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.50
Consensus pattern (54 bp):
TCTTTTGATATCAGAGCCGTTACTATGGTTTACTTCTTTGAGTCTATGATACTA
Found at i:27142455 original size:30 final size:31
Alignment explanation
Indices: 27142398--27142455 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
27142388 CTTTGTTCCT
* * *
27142398 TTATAATAACCTTTATCAGAAGGTGTGTCAA
1 TTATAATAACCTTTATAAAAAGATGTGTCAA
*
27142429 TTAT-ATAACTTTTATAAAAAGATGTGT
1 TTATAATAACCTTTATAAAAAGATGTGT
27142456 AGGTTACGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (31 bp):
TTATAATAACCTTTATAAAAAGATGTGTCAA
Found at i:27154438 original size:31 final size:29
Alignment explanation
Indices: 27154360--27154445 Score: 136
Period size: 29 Copynumber: 2.9 Consensus size: 29
27154350 ATATGACGTA
* *
27154360 TAACAACAATATTTTTTCAACATGGCGTT
1 TAACAACAATATTTTTTCAATATGGCATT
27154389 TAACAACAATATTTTTTCAATATGGCATT
1 TAACAACAATATTTTTTCAATATGGCATT
27154418 TAACAACAATATTTTTTTTCAATATGGC
1 TAACAACAATA--TTTTTTCAATATGGC
27154446 TTGTAATAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 38 0.72
31 15 0.28
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (29 bp):
TAACAACAATATTTTTTCAATATGGCATT
Found at i:27154554 original size:21 final size:21
Alignment explanation
Indices: 27154530--27154570 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27154520 TATTTTTGTA
*
27154530 CATGATATGTAACAACCTAAC
1 CATGACATGTAACAACCTAAC
* *
27154551 CATGACGTGTAACAATCTAA
1 CATGACATGTAACAACCTAA
27154571 TCGTGACGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (21 bp):
CATGACATGTAACAACCTAAC
Found at i:27154577 original size:21 final size:21
Alignment explanation
Indices: 27154537--27154581 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27154527 GTACATGATA
27154537 TGTAACAACCTAACCATGACG
1 TGTAACAACCTAACCATGACG
* * *
27154558 TGTAACAATCTAATCGTGACG
1 TGTAACAACCTAACCATGACG
27154579 TGT
1 TGT
27154582 CACATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (21 bp):
TGTAACAACCTAACCATGACG
Found at i:27157813 original size:3 final size:3
Alignment explanation
Indices: 27157805--27157841 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
27157795 AATACATGTA
27157805 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27157842 AAACTCTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:27158873 original size:159 final size:158
Alignment explanation
Indices: 27158585--27158905 Score: 543
Period size: 159 Copynumber: 2.0 Consensus size: 158
27158575 GATCAATTGC
* * *
27158585 TTAATCAATGATATCCCCACTGGCTACAGCATCATTTGTTTTTGTGGCGTTTTCTTCCTCTTGTC
1 TTAATCAATGATATCCCCACTAGCTACAGCATCATTTGTGTTTGTGGCGTTTTCTTCCACTTGTC
* * *
27158650 GTATTCTTTATCTTTTCCTTTCATGGTCATTGTCTTACGAAAAATCATAGAAAAGTCTATATAAT
66 CTATTCTTTATCTTTCCCTTTCATGGTCATTGTCTTACGAAAAATCATAGAAAAGTCTACATAAT
27158715 ATCTTTATTTTGTAATTTTATTTAAATT
131 ATCTTTATTTTGTAATTTTATTTAAATT
*
27158743 TTAATCAATGATATCCCCACTAGCTACAGCATCTTTTGTGTTTGTGGCGTTTTACTTCCACTTGT
1 TTAATCAATGATATCCCCACTAGCTACAGCATCATTTGTGTTTGTGGCGTTTT-CTTCCACTTGT
* * *
27158808 CCTATTCTTTATCTTTCCCTTTCATGGTTATTGTCTTACGAAGAATCGTAGAAAAGTCTACATAA
65 CCTATTCTTTATCTTTCCCTTTCATGGTCATTGTCTTACGAAAAATCATAGAAAAGTCTACATAA
27158873 TATCTTTATTTTGTAATTTTATTTAAATT
130 TATCTTTATTTTGTAATTTTATTTAAATT
27158902 TTAA
1 TTAA
27158906 ATAGCATTTT
Statistics
Matches: 152, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
158 50 0.33
159 102 0.67
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (158 bp):
TTAATCAATGATATCCCCACTAGCTACAGCATCATTTGTGTTTGTGGCGTTTTCTTCCACTTGTC
CTATTCTTTATCTTTCCCTTTCATGGTCATTGTCTTACGAAAAATCATAGAAAAGTCTACATAAT
ATCTTTATTTTGTAATTTTATTTAAATT
Found at i:27159909 original size:21 final size:20
Alignment explanation
Indices: 27159885--27159954 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
27159875 AATCCTACCC
27159885 ATATTAATATTTGTAAATAAA
1 ATATTAATATTT-TAAATAAA
* *
27159906 ATATTAATATTTAAAGATCAA
1 ATATTAATATTTTAA-ATAAA
27159927 ATATTAATATTTTAAATAAA
1 ATATTAATATTTTAAATAAA
*
27159947 TTATTAAT
1 ATATTAAT
27159955 TATTAATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 13 0.30
21 30 0.70
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (20 bp):
ATATTAATATTTTAAATAAA
Found at i:27160079 original size:45 final size:40
Alignment explanation
Indices: 27159999--27160110 Score: 112
Period size: 38 Copynumber: 2.9 Consensus size: 40
27159989 GTAATAACAT
27159999 TTAAATTATAAATAAAAATTATTAAATAATATATTAATGA
1 TTAAATTATAAATAAAAATTATTAAATAATATATTAATGA
* *
27160039 TTAAATTAT-AAT-AAAA-TATTAAATTAA-ATGATCAATTA
1 TTAAATTATAAATAAAAATTATTAAA-TAATAT-ATTAATGA
* *
27160077 TTAATATTTTAAAT--AAATTA-TAAATAAAATATTA
1 TTAA-ATTATAAATAAAAATTATTAAATAATATATTA
27160111 CTATTTTATA
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
37 9 0.15
38 23 0.37
39 16 0.26
40 14 0.23
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (40 bp):
TTAAATTATAAATAAAAATTATTAAATAATATATTAATGA
Found at i:27160193 original size:15 final size:15
Alignment explanation
Indices: 27160173--27160205 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
27160163 TAATAAAAGT
27160173 TTTTTTATCTTTTTA
1 TTTTTTATCTTTTTA
*
27160188 TTTTTTATTTTTTTA
1 TTTTTTATCTTTTTA
27160203 TTT
1 TTT
27160206 CAAAAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTATCTTTTTA
Found at i:27160568 original size:22 final size:20
Alignment explanation
Indices: 27160533--27160573 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
27160523 AAATTTTAAT
27160533 TAATATTATTATGTAATATC
1 TAATATTATTATGTAATATC
27160553 TAATATTAAATTATGTAATAT
1 TAATATT--ATTATGTAATAT
27160574 GATGTAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (20 bp):
TAATATTATTATGTAATATC
Found at i:27162982 original size:27 final size:29
Alignment explanation
Indices: 27162946--27162999 Score: 78
Period size: 27 Copynumber: 1.9 Consensus size: 29
27162936 TAATTTTTCT
27162946 ATTTACTATATG-TTTT-TTT-TTAGACA
1 ATTTACTATATGCTTTTATTTGTTAGACA
27162972 ATTTAGCTATATGCTTTTATTTGTTAGA
1 ATTTA-CTATATGCTTTTATTTGTTAGA
27163000 AAAGGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 5 0.21
27 7 0.29
28 4 0.17
29 3 0.12
30 5 0.21
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (29 bp):
ATTTACTATATGCTTTTATTTGTTAGACA
Found at i:27164430 original size:48 final size:48
Alignment explanation
Indices: 27164341--27164450 Score: 123
Period size: 48 Copynumber: 2.2 Consensus size: 48
27164331 CCTGCAAGAA
* * * *
27164341 AACACAAGCTCAATCAAAAATCAACCCCTGTACAATAATTCCCCATTGTC
1 AACAAAAGCTCAAT-AAAAACCAACACCTGTACAATAATTCCCCACTG-C
* *
27164391 AACAAAAGCTCAAT-AAAACCAACACCTGTACGATCATTCCCCACTGC
1 AACAAAAGCTCAATAAAAACCAACACCTGTACAATAATTCCCCACTGC
*
27164438 AAAAAAATGCTCA
1 AACAAAA-GCTCA
27164451 CAGTTGATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 7 0.13
48 32 0.62
50 13 0.25
ACGTcount: A:0.43, C:0.31, G:0.07, T:0.19
Consensus pattern (48 bp):
AACAAAAGCTCAATAAAAACCAACACCTGTACAATAATTCCCCACTGC
Found at i:27165439 original size:23 final size:23
Alignment explanation
Indices: 27165413--27165515 Score: 98
Period size: 23 Copynumber: 4.4 Consensus size: 23
27165403 GTTTAGAGTT
* *
27165413 TGTGAAACGGCATGTTGGGAATG
1 TGTGACACGGCATGGTGGGAATG
27165436 TGTGACACGGCATGGTGGGAATG
1 TGTGACACGGCATGGTGGGAATG
* *** *
27165459 TGTGACACGGCAGGGTTCAAAGTT
1 TGTGACACGGCATGGTGGGAA-TG
* * * *
27165483 TGTAACACGCCATGGAGGGAATC
1 TGTGACACGGCATGGTGGGAATG
27165506 TGTGACACGG
1 TGTGACACGG
27165516 TAGCGTTCAG
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
23 47 0.76
24 15 0.24
ACGTcount: A:0.25, C:0.16, G:0.37, T:0.22
Consensus pattern (23 bp):
TGTGACACGGCATGGTGGGAATG
Found at i:27165503 original size:47 final size:47
Alignment explanation
Indices: 27165436--27165934 Score: 567
Period size: 47 Copynumber: 10.7 Consensus size: 47
27165426 GTTGGGAATG
* * * * *
27165436 TGTGACACGGCATGGTGGGAATGTGTGACACGGCAGGGTTCAAAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGCGTTCAGAGTT
* *
27165483 TGTAACACGCCATGGAGGGAATCTGTGACACGGTAGCGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGCGTTCAGAGTT
* * * *
27165530 TGTGACACGCGATGGAAGGAATCTGTGATACGACAAG-GTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGC-AGCGTTCAGAGTT
** * *
27165577 TGTGACACGCCATGGAGGGAATCTGTGACATTGCAGCATTTAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGCGTTCAGAGTT
* * * * * *
27165624 TGAGACATGCCATGGAGGGAATTTGTGACACGGTAGGGTTTAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGCGTTCAGAGTT
* * * * * * * *
27165671 TGTGACACTCCATGGAGGGAATTTGTGACACAGTAACTTTTAAAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGCGTTCAGAGTT
** * * *
27165718 TGTGACACGCCATAAAGAGAATCTGTGACACGACAGGGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGCGTTCAGAGTT
* *
27165765 TGTGACACGCCATGGAGGGAATTTGTGATACGGCAGCGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGCGTTCAGAGTT
27165812 TGTGACACGCCATGGAGGGAATCTAG-GACACGGCAGCGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCT-GTGACACGGCAGCGTTCAGAGTT
* **
27165859 TGTGACACGCCATGGAAGGAATCTGTGACACGGCAGTATTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGCGTTCAGAGTT
* * *
27165906 TGTCAAACTCCATGGA--G-ATCTGTGACACG
1 TGTGACACGCCATGGAGGGAATCTGTGACACG
27165935 ACAATGTTTA
Statistics
Matches: 383, Mismatches: 65, Indels: 11
0.83 0.14 0.02
Matches are distributed among these distances:
44 12 0.03
45 1 0.00
46 3 0.01
47 364 0.95
48 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (47 bp):
TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGCGTTCAGAGTT
Found at i:27165653 original size:23 final size:23
Alignment explanation
Indices: 27165575--27165653 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
27165565 AGGTTCAGAG
*
27165575 TTTGTGACACGCCATGGAGGGAA
1 TTTGTGACATGCCATGGAGGGAA
* ** *
27165598 TCTGTGACATTGCAGCATTTA--GAG
1 TTTGTGACA-TGC--CATGGAGGGAA
*
27165622 TTTGAGACATGCCATGGAGGGAA
1 TTTGTGACATGCCATGGAGGGAA
27165645 TTTGTGACA
1 TTTGTGACA
27165654 CGGTAGGGTT
Statistics
Matches: 40, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
21 4 0.10
23 21 0.52
24 11 0.28
26 4 0.10
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (23 bp):
TTTGTGACATGCCATGGAGGGAA
Found at i:27165772 original size:24 final size:24
Alignment explanation
Indices: 27165741--27165820 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
27165731 AAAGAGAATC
27165741 TGTGACACGACAGGGTTCAGAGTT
1 TGTGACACGACAGGGTTCAGAGTT
* * *** *
27165765 TGTGACACGCCATGG-AGGGAATT
1 TGTGACACGACAGGGTTCAGAGTT
* * *
27165788 TGTGATACGGCAGCGTTCAGAGTT
1 TGTGACACGACAGGGTTCAGAGTT
27165812 TGTGACACG
1 TGTGACACG
27165821 CCATGGAGGG
Statistics
Matches: 40, Mismatches: 15, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
23 15 0.38
24 25 0.62
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (24 bp):
TGTGACACGACAGGGTTCAGAGTT
Found at i:27165980 original size:23 final size:23
Alignment explanation
Indices: 27165950--27165993 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
27165940 GTTTATAGTG
*
27165950 TGTGACACGGCATGGCTTGAACA
1 TGTGACACGACATGGCTTGAACA
*
27165973 TGTGACACGACATGGTTTGAA
1 TGTGACACGACATGGCTTGAA
27165994 AAAGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (23 bp):
TGTGACACGACATGGCTTGAACA
Found at i:27166564 original size:31 final size:31
Alignment explanation
Indices: 27166529--27166732 Score: 241
Period size: 31 Copynumber: 6.6 Consensus size: 31
27166519 ATGTCAGCAT
* * *
27166529 TGGCGTGTAATAACAATTGACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
27166560 TGGCGTGTAACAACATTTTACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
* *
27166591 TGGCGTGTAACAACATTTGACTTGATACGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
* * *
27166622 TGGCGTGTTACAACACTTTA-TGTTATATGCA
1 TGGCGTGTAACAACATTTTACT-TGATATGCA
* * * *
27166653 TGGTGTGTAATAAAATTTTACGTT-ATATGTA
1 TGGCGTGTAACAACATTTTAC-TTGATATGCA
* * *
27166684 TGGCATGTAACAACATTTTACTGGATATGTA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
27166715 TGGCGTGTAACAACATTT
1 TGGCGTGTAACAACATTT
27166733 ATTTCTTTCT
Statistics
Matches: 147, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
30 2 0.01
31 143 0.97
32 1 0.01
33 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (31 bp):
TGGCGTGTAACAACATTTTACTTGATATGCA
Found at i:27168388 original size:145 final size:144
Alignment explanation
Indices: 27168170--27168635 Score: 535
Period size: 145 Copynumber: 3.2 Consensus size: 144
27168160 CCAATAAGGA
* * * *
27168170 CGGTTCTAACAGTTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATCTGTATTTGTA
1 CGGTTCTAACAGTTTGTGTTAAACAATTCCATATGTGATTATCGAATAACATATATGTGTTTGTA
* * * * * *
27168235 GTTTGACCATGCGACGATAACTCCACAACCACTGAA-AGGTCCTCTTTAGACTCACAATGCTAAC
66 GTTGGACCATGCGACGACAGCTCCTCAACCACT-AAGAGGTCCTCTTTAGACGCACAGTGCTAAC
27168299 GAGCCTTCGATAAGAT
130 GAGCC-TCGATAAGAT
** * * *
27168315 CGGTTCTAATGGTTTGTGTTAAAAAATTCCATATGTGATTATCCAATAACATATTTGTGTTTGTA
1 CGGTTCTAACAGTTTGTGTTAAACAATTCCATATGTGATTATCGAATAACATATATGTGTTTGTA
* * * * *
27168380 GTTGGACCATGCAATGACAGCTCTTCAACCACCAAGAGGT-CTTTCTTAGACGCACAGTGCTAAC
66 GTTGGACCATGCGACGACAGCTCCTCAACCACTAAGAGGTCCTCT-TTAGACGCACAGTGCTAAC
*
27168444 GAGTCCTCGGTAAGAT
130 GAG-CCTCGATAAGAT
* * * * ** * *
27168460 CAGTTTTAATAGTTTATGTTTGACAATTCCATATGTGATTATCGAATAGCATATATGTGTTTGCA
1 CGGTTCTAACAGTTTGTGTTAAACAATTCCATATGTGATTATCGAATAACATATATGTGTTTGTA
*
27168525 GTTGGACCATGCGACGACAGCTCCTCAACCACTAAGAGGTCCTCTTCAGACGCACAGTGCTAACG
66 GTTGGACCATGCGACGACAGCTCCTCAACCACTAAGAGGTCCTCTTTAGACGCACAGTGCTAACG
*
27168590 A-CTCGTCAATAAGAT
131 AGC-C-TCGATAAGAT
* * *
27168605 CGGTTATAAC-GATTTGTGTTCAACATTTCCA
1 CGGTTCTAACAG-TTTGTGTTAAACAATTCCA
27168636 CATATGTTTA
Statistics
Matches: 268, Mismatches: 46, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
143 1 0.00
144 7 0.03
145 255 0.95
146 5 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (144 bp):
CGGTTCTAACAGTTTGTGTTAAACAATTCCATATGTGATTATCGAATAACATATATGTGTTTGTA
GTTGGACCATGCGACGACAGCTCCTCAACCACTAAGAGGTCCTCTTTAGACGCACAGTGCTAACG
AGCCTCGATAAGAT
Found at i:27173144 original size:2 final size:2
Alignment explanation
Indices: 27173137--27173161 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27173127 TTATTTGCAA
27173137 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27173162 AACAAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27173392 original size:2 final size:2
Alignment explanation
Indices: 27173387--27173415 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27173377 TAATATTGTA
27173387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27173416 AACAGCATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27184479 original size:25 final size:25
Alignment explanation
Indices: 27184444--27184494 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
27184434 AATGCAGCCG
*
27184444 TATCAAAGTCTAACATTCAATTCAT
1 TATCAAAGTCTAACAGTCAATTCAT
*
27184469 TATCAATGTCTAACAGTCAATTCAT
1 TATCAAAGTCTAACAGTCAATTCAT
27184494 T
1 T
27184495 TTAACATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (25 bp):
TATCAAAGTCTAACAGTCAATTCAT
Found at i:27184725 original size:43 final size:43
Alignment explanation
Indices: 27184661--27184757 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
27184651 TTTCTTAATT
* * *
27184661 ATATCCTTGATTTGTAATGCTA-TGTTTTCAAGCATAATGCTTG
1 ATATCCTTGATCTGTAATGCTACAGTTCT-AAGCATAATGCTTG
* **
27184704 ATATCCTTGATCTG-AGGTGCTACAGTTCTAATTATAATGCTTG
1 ATATCCTTGATCTGTA-ATGCTACAGTTCTAAGCATAATGCTTG
27184747 ATATCCTTGAT
1 ATATCCTTGAT
27184758 ATGTCGTGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 41 0.89
44 4 0.09
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (43 bp):
ATATCCTTGATCTGTAATGCTACAGTTCTAAGCATAATGCTTG
Found at i:27185251 original size:43 final size:43
Alignment explanation
Indices: 27185179--27185279 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
27185169 TTGCTTAATT
* * *
27185179 ATATCCTTGATTTGTAGTGTTATGTTTCCAAGCATAATGCTCG
1 ATATCCTTGATTTGTAGTGCTAAGTTTCCAAGCATAATACTCG
** *
27185222 ATATCCTTGATTTG-AGGTGCTACAG-TTCCAATTATAATACTGG
1 ATATCCTTGATTTGTA-GTGCTA-AGTTTCCAAGCATAATACTCG
*
27185265 ATATCATTGATTTGT
1 ATATCCTTGATTTGT
27185280 CTTGATATCT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 1 0.02
43 46 0.96
44 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (43 bp):
ATATCCTTGATTTGTAGTGCTAAGTTTCCAAGCATAATACTCG
Found at i:27185268 original size:108 final size:108
Alignment explanation
Indices: 27185071--27185275 Score: 259
Period size: 108 Copynumber: 1.9 Consensus size: 108
27185061 ATTATACTTG
* * * * *
27185071 ATATCCTTGATTTGTAGTGCTACGCTTCCAAGCCTAATGCTTGATATCCTTGATCTGGGGTATTC
1 ATATCCTTGATTTGTAGTGCTACGCTTCCAAGCATAATGCTCGATATCCTTGATCTGAGGTACTA
* *
27185136 CTGTTCCAAGCATAATAGATGATATCCTTGATATTGCTTAATT
66 CAGTTCCAAGCATAATAGATGATATCATTGATATTGCTTAATT
* * * * *
27185179 ATATCCTTGATTTGTAGTGTTATGTTTCCAAGCATAATGCTCGATATCCTTGATTTGAGGTGCTA
1 ATATCCTTGATTTGTAGTGCTACGCTTCCAAGCATAATGCTCGATATCCTTGATCTGAGGTACTA
** *
27185244 CAGTTCCAATTATAATA-CTGGATATCATTGAT
66 CAGTTCCAAGCATAATAGAT-GATATCATTGAT
27185276 TTGTCTTGAT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
107 1 0.01
108 80 0.99
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (108 bp):
ATATCCTTGATTTGTAGTGCTACGCTTCCAAGCATAATGCTCGATATCCTTGATCTGAGGTACTA
CAGTTCCAAGCATAATAGATGATATCATTGATATTGCTTAATT
Found at i:27188706 original size:18 final size:18
Alignment explanation
Indices: 27188669--27188707 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
27188659 ACACCATTAA
* *
27188669 TAACATGTTTAACACGAT
1 TAACACGTTTAACACAAT
*
27188687 TAACACGTTTAATACAAT
1 TAACACGTTTAACACAAT
27188705 TAA
1 TAA
27188708 ATAAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (18 bp):
TAACACGTTTAACACAAT
Found at i:27188990 original size:18 final size:18
Alignment explanation
Indices: 27188969--27189014 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
27188959 TGTCACGTAT
*
27188969 ACACGTTTAAACACGATA
1 ACACGATTAAACACGATA
*
27188987 ACACGATTAAATACGATA
1 ACACGATTAAACACGATA
27189005 ACACGATTAA
1 ACACGATTAA
27189015 GTAAATGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.22
Consensus pattern (18 bp):
ACACGATTAAACACGATA
Found at i:27196278 original size:2 final size:2
Alignment explanation
Indices: 27196271--27196333 Score: 92
Period size: 2 Copynumber: 32.0 Consensus size: 2
27196261 TGTGGCTCAA
* **
27196271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AN CC A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27196312 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
27196334 TGGTCATAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:27199984 original size:55 final size:55
Alignment explanation
Indices: 27199888--27200011 Score: 176
Period size: 55 Copynumber: 2.3 Consensus size: 55
27199878 CATTATTTTA
* * *
27199888 GTGTCACGGCTGTTCTTGGCATGTAGTGGGTTAACTAGTTTTTTGGGTTATTAGC
1 GTGTCACGGCTGTTCCTGGCATGTAGTGGATAAACTAGTTTTTTGGGTTATTAGC
* * * *
27199943 GTGTCACGGCTGTTCCTGGCGTGTTGTGGATAAACTGGTTTTTTGGGTTTTTAGC
1 GTGTCACGGCTGTTCCTGGCATGTAGTGGATAAACTAGTTTTTTGGGTTATTAGC
*
27199998 GTGTCACGGTTGTT
1 GTGTCACGGCTGTT
27200012 GGTGTAACGA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.12, C:0.14, G:0.32, T:0.42
Consensus pattern (55 bp):
GTGTCACGGCTGTTCCTGGCATGTAGTGGATAAACTAGTTTTTTGGGTTATTAGC
Found at i:27200049 original size:46 final size:46
Alignment explanation
Indices: 27199996--27200099 Score: 154
Period size: 46 Copynumber: 2.3 Consensus size: 46
27199986 TGGGTTTTTA
** *
27199996 GCGTGTCACGGTTGTTGGTGTAACGAGTCAGTAATTACAGTGATTG
1 GCGTGTCACGACTGTTGGTGTAACGAGTCAGTAATTACAATGATTG
*
27200042 GCGTGTCACGACTGTTGGTGTAACGAGTTAGTAATTACAATGATTG
1 GCGTGTCACGACTGTTGGTGTAACGAGTCAGTAATTACAATGATTG
* *
27200088 GCATGTTACGAC
1 GCGTGTCACGAC
27200100 AGTGATGCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (46 bp):
GCGTGTCACGACTGTTGGTGTAACGAGTCAGTAATTACAATGATTG
Found at i:27203951 original size:118 final size:117
Alignment explanation
Indices: 27203733--27203974 Score: 261
Period size: 118 Copynumber: 2.1 Consensus size: 117
27203723 AAGTCTTGTG
* * * * * *
27203733 GTGACATGCTAAGTGAATGCAGACTTATGATGTGACACGCAGACCTGTTGCAGTCTTGGCGGGTG
1 GTGACACGCTAAGTGAATGCAGACTTATGATGTGACACGCAGACCTGGTGCAGTATCGGCAGGTC
* * * *
27203798 ACACGGCATGAGCCAATTGTGGTGACACGTTGAGTGCAAGCAGACTTATAGC
66 ACACGGCACGACCCAATTGTGATGACACGCTGAGTGCAAGCAGACTTATAGC
* * * * * *
27203850 GTGACACGCTAAGTTAATTCAGACTTATGGTGTGACACGGCTGACTTGGTGCAGTATCGTCAGGT
1 GTGACACGCTAAGTGAATGCAGACTTATGATGTGACAC-GCAGACCTGGTGCAGTATCGGCAGGT
* * * * *
27203915 CACAC-GCGACGACCCAATTGTTATGACACGCTGAGTGGAAGTAGATTTATGGC
65 CACACGGC-ACGACCCAATTGTGATGACACGCTGAGTGCAAGCAGACTTATAGC
*
27203968 GTCACAC
1 GTGACAC
27203975 ACTGAGTATC
Statistics
Matches: 101, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
117 36 0.36
118 65 0.64
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (117 bp):
GTGACACGCTAAGTGAATGCAGACTTATGATGTGACACGCAGACCTGGTGCAGTATCGGCAGGTC
ACACGGCACGACCCAATTGTGATGACACGCTGAGTGCAAGCAGACTTATAGC
Found at i:27204121 original size:31 final size:32
Alignment explanation
Indices: 27204086--27204195 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 32
27204076 ATTTACAACA
27204086 TGACACGCTGACTTCTTA-CAGATTTATGGGG
1 TGACACGCTGACTTCTTAGCAGATTTATGGGG
* * * * * *
27204117 TGACACGCTAAGTGC-AAGCAGATGTATGCGG
1 TGACACGCTGACTTCTTAGCAGATTTATGGGG
* ** *
27204148 AGACACGCTGA-TTGGTAGCAGATTTATGGCG
1 TGACACGCTGACTTCTTAGCAGATTTATGGGG
*
27204179 TCACACGCTGACTTCTT
1 TGACACGCTGACTTCTT
27204196 GCGATTGTGT
Statistics
Matches: 58, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
30 2 0.03
31 53 0.91
32 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (32 bp):
TGACACGCTGACTTCTTAGCAGATTTATGGGG
Found at i:27204339 original size:14 final size:16
Alignment explanation
Indices: 27204315--27204383 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
27204305 AAAAAGATCT
* *
27204315 AATTCTGTATACAATG
1 AATTATGTATACAATA
*
27204331 AA-T-TGTATAAAATA
1 AATTATGTATACAATA
*
27204345 AATTATGTATACAAAA
1 AATTATGTATACAATA
* * *
27204361 AATTTGTGTATAAAATT
1 AA-TTATGTATACAATA
27204378 AATTAT
1 AATTAT
27204384 ATAAAAATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 11 0.27
15 2 0.05
16 16 0.39
17 12 0.29
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AATTATGTATACAATA
Found at i:27204353 original size:16 final size:16
Alignment explanation
Indices: 27204334--27204405 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
27204324 TACAATGAAT
27204334 TGTATAAAATAAATTA
1 TGTATAAAATAAATTA
*
27204350 TGTATACAAA-AAATTTG
1 TGTATA-AAATAAA-TTA
*
27204367 TGTATAAAATTAATTA
1 TGTATAAAATAAATTA
* *
27204383 TATA-AAAAT-AATTC
1 TGTATAAAATAAATTA
27204397 TGTATAAAA
1 TGTATAAAA
27204406 AAAAAGTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
14 7 0.15
15 9 0.20
16 17 0.37
17 13 0.28
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (16 bp):
TGTATAAAATAAATTA
Found at i:27204381 original size:17 final size:16
Alignment explanation
Indices: 27204334--27204405 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 16
27204324 TACAATGAAT
*
27204334 TGTATAAAATAAATTA
1 TGTATAAAATAATTTA
* *
27204350 TGTATACAAAAAATTTG
1 TGTATA-AAATAATTTA
27204367 TGTATAAAATTAA-TTA
1 TGTATAAAA-TAATTTA
* *
27204383 TATA-AAAATAA-TTC
1 TGTATAAAATAATTTA
27204397 TGTATAAAA
1 TGTATAAAA
27204406 AAAAAGTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
14 8 0.18
15 8 0.18
16 14 0.31
17 15 0.33
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (16 bp):
TGTATAAAATAATTTA
Found at i:27204384 original size:29 final size:30
Alignment explanation
Indices: 27204344--27204405 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
27204334 TGTATAAAAT
* *
27204344 AAATTATGTATACAAAAA-ATTTGTGTATA
1 AAATTATGTATACAAAAATAATTCTGTATA
*
27204373 AAATTAAT-TATATAAAAATAATTCTGTATA
1 AAATT-ATGTATACAAAAATAATTCTGTATA
27204403 AAA
1 AAA
27204406 AAAAAGTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.37
Consensus pattern (30 bp):
AAATTATGTATACAAAAATAATTCTGTATA
Found at i:27204387 original size:47 final size:47
Alignment explanation
Indices: 27204320--27204409 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
27204310 GATCTAATTC
* * *
27204320 TGTATACAATGAATTGTAT-AAAATAAATTATGTATACAAAAAATTTG
1 TGTATAAAATGAATTATATAAAAAT-AATTATGTATAAAAAAAATTTG
* *
27204367 TGTATAAAATTAATTATATAAAAATAATTCTGTATAAAAAAAA
1 TGTATAAAATGAATTATATAAAAATAATTATGTATAAAAAAAA
27204410 AGTATAGACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
47 32 0.86
48 5 0.14
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (47 bp):
TGTATAAAATGAATTATATAAAAATAATTATGTATAAAAAAAATTTG
Found at i:27205973 original size:31 final size:31
Alignment explanation
Indices: 27205938--27206205 Score: 290
Period size: 31 Copynumber: 8.6 Consensus size: 31
27205928 TACCACAAAC
*
27205938 CATAACAAGTAAAATGTTGTGACATGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
27205969 CATAACAAGTAAAATGTTGTGACACGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* * * * *
27206000 GATAATACGCAAAATGTTTTGACACGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* * *
27206031 CATAACAAGTTAAACGTTGTGACACACCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* * *
27206062 CA-ACACAAGCAAAATGTTCTGACATGCCATG
1 CATA-ACAAGTAAAATGTTGTGACACGCCATG
* ** * * *
27206093 GATGCCCTA-CAAAATGTTCTGACACGCCAT-
1 CAT-AACAAGTAAAATGTTGTGACACGCCATG
* *
27206123 CTATAACAAGTGAAACGTTGTGACACGCCATG
1 C-ATAACAAGTAAAATGTTGTGACACGCCATG
* *
27206155 CATAACAAGTAAATTGTTCTGACACGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
27206186 CATAACAAGTAAAATGTTGT
1 CATAACAAGTAAAATGTTGT
27206206 CACAAGCTAA
Statistics
Matches: 192, Mismatches: 39, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
30 3 0.02
31 186 0.97
32 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (31 bp):
CATAACAAGTAAAATGTTGTGACACGCCATG
Found at i:27206200 original size:93 final size:93
Alignment explanation
Indices: 27205938--27206203 Score: 331
Period size: 93 Copynumber: 2.9 Consensus size: 93
27205928 TACCACAAAC
* * *
27205938 CATAACAAGTAAAATGTTGTGACATGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGGAT
1 CATAACAAGTAAAACGTTGTGACACGCCATGCATAACAAGTAAAATGTTCTGACACGCCATGGAT
* * *
27206003 AATACGCAAAATGTTTTGACACGCCATG
66 AACAAGCAAAATGTTCTGACACGCCATG
* * * *
27206031 CATAACAAGTTAAACGTTGTGACACACCATGCA-ACACAAGCAAAATGTTCTGACATGCCATGGA
1 CATAACAAGTAAAACGTTGTGACACGCCATGCATA-ACAAGTAAAATGTTCTGACACGCCATGGA
** *
27206095 TGCCCTA-CAAAATGTTCTGACACGCCAT-
65 T-AACAAGCAAAATGTTCTGACACGCCATG
* * *
27206123 CTATAACAAGTGAAACGTTGTGACACGCCATGCATAACAAGTAAATTGTTCTGACACGCCATGCA
1 C-ATAACAAGTAAAACGTTGTGACACGCCATGCATAACAAGTAAAATGTTCTGACACGCCATGGA
*
27206188 TAACAAGTAAAATGTT
65 TAACAAGCAAAATGTT
27206204 GTCACAAGCT
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
92 4 0.03
93 140 0.97
94 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (93 bp):
CATAACAAGTAAAACGTTGTGACACGCCATGCATAACAAGTAAAATGTTCTGACACGCCATGGAT
AACAAGCAAAATGTTCTGACACGCCATG
Found at i:27208814 original size:31 final size:31
Alignment explanation
Indices: 27208399--27208810 Score: 486
Period size: 31 Copynumber: 13.3 Consensus size: 31
27208389 AATAAGGAAT
* * *
27208399 AAATGTTGTGAAACGCCAAGCATAACAAG-C
1 AAATGTTGTGACACGCCATGCATATCAAGTC
* **
27208429 AAAATATTGTGACACGCCATGCATCGCAAG-C
1 -AAATGTTGTGACACGCCATGCATATCAAGTC
* *
27208460 AAACTGTTGTGACACGCCATGCATAACAAGTA
1 AAA-TGTTGTGACACGCCATGCATATCAAGTC
* *
27208492 AAATATTGTGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTC
** * * * *
27208523 AAATGTTGTGACATACAATGCCTAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTC
* *
27208554 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTC
* *
27208585 AAATCTTGTAACACGCCATGCATATCAAGTC
1 AAATGTTGTGACACGCCATGCATATCAAGTC
*
27208616 AAATGTTGTGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTC
* *
27208647 AAATGTTGTGATACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTC
* * * *
27208678 AAATGTTGTAACATGTCATGAATATCAAGTC
1 AAATGTTGTGACACGCCATGCATATCAAGTC
27208709 AAATGTTGTGACACGCCATGCATATCAAGTC
1 AAATGTTGTGACACGCCATGCATATCAAGTC
* * *
27208740 AAATGTTGTCAAACGCCATGCATATCGAGTC
1 AAATGTTGTGACACGCCATGCATATCAAGTC
* * * *
27208771 AAATATTGTCACACGCCAAGCATATCGAGTC
1 AAATGTTGTGACACGCCATGCATATCAAGTC
27208802 AAATGTTGT
1 AAATGTTGT
27208811 CACATGCTAA
Statistics
Matches: 333, Mismatches: 46, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
30 3 0.01
31 327 0.98
32 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATATCAAGTC
Found at i:27209329 original size:29 final size:29
Alignment explanation
Indices: 27209284--27209343 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
27209274 GTCAGCCGTT
27209284 CAAGAAATGCCGCGTCACACACTCTAAAC
1 CAAGAAATGCCGCGTCACACACTCTAAAC
* *
27209313 CAAGCAATGCCGTGTCACACACTCTAAAC
1 CAAGAAATGCCGCGTCACACACTCTAAAC
27209342 CA
1 CA
27209344 TGGCGTGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.35, G:0.13, T:0.15
Consensus pattern (29 bp):
CAAGAAATGCCGCGTCACACACTCTAAAC
Found at i:27209397 original size:23 final size:24
Alignment explanation
Indices: 27209323--27209400 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 24
27209313 CAAGCAATGC
27209323 CGTGTCACACACTCTAAACCATGG
1 CGTGTCACACACTCTAAACCATGG
*
27209347 CGTGT--CA-ACT-TAACAAGCAAT-G
1 CGTGTCACACACTCT-A-AA-CCATGG
27209369 CTGTGTCACACACTCTAAA-CATGG
1 C-GTGTCACACACTCTAAACCATGG
27209393 CGTGTCAC
1 CGTGTCAC
27209401 CAACTCTGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 19
0.67 0.03 0.30
Matches are distributed among these distances:
20 1 0.02
21 4 0.09
22 6 0.14
23 16 0.37
24 7 0.16
25 4 0.09
26 4 0.09
27 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (24 bp):
CGTGTCACACACTCTAAACCATGG
Found at i:27209555 original size:141 final size:141
Alignment explanation
Indices: 27209388--27209870 Score: 582
Period size: 141 Copynumber: 3.4 Consensus size: 141
27209378 ACACTCTAAA
* * * * *
27209388 CATGGCGTGTCACCAACTCTGAACTCT-AGCTTGTCACA-ACTTCCTTCCATGGCGTGTCACTAA
1 CATGTCGTGTCACCAACTCTGAACTCTGA-CGTGTCACAGA-TTCCCTCCATGGCGTCTCACCAA
* * * *
27209451 CTCTGAACTCTAACATGTCATAAATTCCTTCCATGCCGTCTCACCAACTCTGAACGCTGACGTGT
64 CTCTGAACTCTAACATGTCACAAATTCCCTCCATGACGTCTCACCAACTTTGAACGCTGACGTGT
*
27209516 CACAGATTTCCTC
129 CACAGATTCCCTC
* * * * * *
27209529 CATGCCGTGTCACCAACTCTAAACTCTGGCTTGTCACAGATTCCTTCCATGGCGTCACACCAACT
1 CATGTCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTCCATGGCGTCTCACCAACT
* * ** * * * *
27209594 CTGAACGCTGATGTGCCACAAATTCCCTCCATGGCGTCACACCAACTTTGAACTCT-AGCGTGTC
66 CTGAACTCTAACATGTCACAAATTCCCTCCATGACGTCTCACCAACTTTGAACGCTGA-CGTGTC
*
27209658 ATAGATTCCCTC
130 ACAGATTCCCTC
* * * *
27209670 CATGTTGTCTCACCAACTTTGAA-TGCTGACGTGTCACAGATTCCCTCCAT-GCTGTGTCACCAA
1 CATGTCGTGTCACCAACTCTGAACT-CTGACGTGTCACAGATTCCCTCCATGGC-GTCTCACCAA
* *
27209733 CTCTGAACTCTAGCATGTCACAAATTCCCTCCATGACGTCTCAACAACTTTGAACGCTAGA-GTG
64 CTCTGAACTCTAACATGTCACAAATTCCCTCCATGACGTCTCACCAACTTTGAACGCT-GACGTG
27209797 TCACAGATTCCCTC
128 TCACAGATTCCCTC
*
27209811 CATGTCATGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTCCATGGCGTCTCAC
1 CATGTCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTCCATGGCGTCTCAC
27209871 AAATTCCCAC
Statistics
Matches: 288, Mismatches: 45, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
140 4 0.01
141 279 0.97
142 4 0.01
143 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (141 bp):
CATGTCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTCCATGGCGTCTCACCAACT
CTGAACTCTAACATGTCACAAATTCCCTCCATGACGTCTCACCAACTTTGAACGCTGACGTGTCA
CAGATTCCCTC
Found at i:27209845 original size:47 final size:47
Alignment explanation
Indices: 27209388--27209870 Score: 494
Period size: 47 Copynumber: 10.3 Consensus size: 47
27209378 ACACTCTAAA
* * *
27209388 CATGGCGTGTCACCAACTCTGAACTCT-AGCTTGTCACA-ACTTCCTTC
1 CATGGCGTCTCACCAACTCTGAACTCTGA-CGTGTCACAGA-TTCCCTC
* * * * * * *
27209435 CATGGCGTGTCACTAACTCTGAACTCTAACATGTCATAAATTCCTTC
1 CATGGCGTCTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTC
* * *
27209482 CATGCCGTCTCACCAACTCTGAACGCTGACGTGTCACAGATTTCCTC
1 CATGGCGTCTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTC
* * * * * *
27209529 CATGCCGTGTCACCAACTCTAAACTCTGGCTTGTCACAGATTCCTTC
1 CATGGCGTCTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTC
* * * * *
27209576 CATGGCGTCACACCAACTCTGAACGCTGATGTGCCACAAATTCCCTC
1 CATGGCGTCTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTC
* * *
27209623 CATGGCGTCACACCAACTTTGAACTCT-AGCGTGTCATAGATTCCCTC
1 CATGGCGTCTCACCAACTCTGAACTCTGA-CGTGTCACAGATTCCCTC
** *
27209670 CATGTTGTCTCACCAACTTTGAA-TGCTGACGTGTCACAGATTCCCTC
1 CATGGCGTCTCACCAACTCTGAACT-CTGACGTGTCACAGATTCCCTC
* * *
27209717 CAT-GCTGTGTCACCAACTCTGAACTCT-AGCATGTCACAAATTCCCTC
1 CATGGC-GTCTCACCAACTCTGAACTCTGA-CGTGTCACAGATTCCCTC
* * * *
27209764 CATGACGTCTCAACAACTTTGAACGCTAGA-GTGTCACAGATTCCCTC
1 CATGGCGTCTCACCAACTCTGAACTCT-GACGTGTCACAGATTCCCTC
* * *
27209811 CATGTCATGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTC
1 CATGGCGTCTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTC
27209858 CATGGCGTCTCAC
1 CATGGCGTCTCAC
27209871 AAATTCCCAC
Statistics
Matches: 361, Mismatches: 63, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
46 5 0.01
47 350 0.97
48 5 0.01
49 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (47 bp):
CATGGCGTCTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTC
Found at i:27209871 original size:70 final size:70
Alignment explanation
Indices: 27209797--27209937 Score: 201
Period size: 70 Copynumber: 2.0 Consensus size: 70
27209787 CGCTAGAGTG
* * * * * *
27209797 TCACAGATTCCCTCCATGTCATGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTCCATG
1 TCACAAATTCCCACCATGACATGTCACCAACTCTGAACACTAACATGTCACAGATTCCCTCCATG
27209862 GCGTC
66 GCGTC
* **
27209867 TCACAAATTCCCACCATGACGTGTCACCAACTCTTTACACTAACATGTCACAGATTCCCTCCATG
1 TCACAAATTCCCACCATGACATGTCACCAACTCTGAACACTAACATGTCACAGATTCCCTCCATG
27209932 GCGTC
66 GCGTC
27209937 T
1 T
27209938 TACCAACTCT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.27
Consensus pattern (70 bp):
TCACAAATTCCCACCATGACATGTCACCAACTCTGAACACTAACATGTCACAGATTCCCTCCATG
GCGTC
Found at i:27209876 original size:23 final size:23
Alignment explanation
Indices: 27209837--27209893 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
27209827 CTCTGAACTC
* * *
27209837 TGACGTGTCACAGATTCCCTCCA
1 TGACGTCTCACAAATTCCCACCA
*
27209860 TGGCGTCTCACAAATTCCCACCA
1 TGACGTCTCACAAATTCCCACCA
*
27209883 TGACGTGTCAC
1 TGACGTCTCAC
27209894 CAACTCTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (23 bp):
TGACGTCTCACAAATTCCCACCA
Found at i:27224148 original size:14 final size:14
Alignment explanation
Indices: 27224131--27224173 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
27224121 TAAAATTTTA
*
27224131 AAAAAATCCTAAAT
1 AAAAAATACTAAAT
27224145 AAAAAATACTAAAT
1 AAAAAATACTAAAT
*
27224159 AAAAAATATTAAAT
1 AAAAAATACTAAAT
27224173 A
1 A
27224174 TTAAAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAATACTAAAT
Found at i:27225392 original size:18 final size:18
Alignment explanation
Indices: 27225358--27225392 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27225348 AACAGTTTAA
*
27225358 CTATTTTTGGATGCTCTG
1 CTATTTTTGGATCCTCTG
*
27225376 CTATTTTTTGATCCTCT
1 CTATTTTTGGATCCTCT
27225393 TCAATTAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.20, G:0.14, T:0.54
Consensus pattern (18 bp):
CTATTTTTGGATCCTCTG
Found at i:27229379 original size:73 final size:73
Alignment explanation
Indices: 27229284--27229486 Score: 298
Period size: 73 Copynumber: 2.8 Consensus size: 73
27229274 GAAGATGGTC
* * * *
27229284 GGTTCAGAGACAGAGACGACTTAATCAACTAAGAAGCATAGTTAGTTGACTAAGAGCTTACTGCT
1 GGTTCAGAGACAAAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTGCC
*
27229349 GGAAACCA
66 AGAAACCA
* *
27229357 GGTTCAGAGACAAAGATGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGTTTACTGCC
1 GGTTCAGAGACAAAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTGCC
* *
27229422 AGAAATCG
66 AGAAACCA
* * *
27229430 GGTTCAAAGACAAAGACAACTTAATTGACTAAGAAGCATAGTTAGTCGACTAAGAGC
1 GGTTCAGAGACAAAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGC
27229487 ATTTTGTCTG
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 116 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (73 bp):
GGTTCAGAGACAAAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTGCC
AGAAACCA
Found at i:27242127 original size:73 final size:72
Alignment explanation
Indices: 27241945--27242141 Score: 286
Period size: 72 Copynumber: 2.7 Consensus size: 72
27241935 TGGCTGATTT
* * * *
27241945 AGAGACAGAGACGACTTAATTGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTATTGCTAGAAA
1 AGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTGCGAAAAA
27242010 CCGGTTC
66 CCGGTTC
* * *
27242017 AAAGACAAAGACGACTTAATCGACTAAGAAGCATAGTTAATCGACTAAGAGCTTACTGCGAAAAA
1 AGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTGCGAAAAA
*
27242082 CTGGGTTC
66 C-CGGTTC
* * *
27242090 AGAGATAGAGACGACTTAATCGACTCAGAAACATAGTTAGTCGACTAAGAGC
1 AGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGC
27242142 ATTTTGTCTG
Statistics
Matches: 110, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 59 0.54
73 51 0.46
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (72 bp):
AGAGACAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTGCGAAAAA
CCGGTTC
Found at i:27256436 original size:13 final size:13
Alignment explanation
Indices: 27256412--27256444 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27256402 TAATGCTATC
27256412 CGTTGG-AAATTT
1 CGTTGGAAAATTT
27256424 CGTTGGAAAATTT
1 CGTTGGAAAATTT
*
27256437 CATTGGAA
1 CGTTGGAA
27256445 GGAGCTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (13 bp):
CGTTGGAAAATTT
Found at i:27258860 original size:10 final size:10
Alignment explanation
Indices: 27258845--27258874 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
27258835 TTCAGACAAA
27258845 AAATTTAAAC
1 AAATTTAAAC
27258855 AAATTTAAAC
1 AAATTTAAAC
27258865 AAATTATAAA
1 AAATT-TAAA
27258875 AGCATCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (10 bp):
AAATTTAAAC
Found at i:27261462 original size:27 final size:28
Alignment explanation
Indices: 27261405--27261462 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
27261395 GGAAAAATGT
*
27261405 CCTGGTGGTGGAAAATTACAATTTTGCC
1 CCTGGTGGTGGAAAATTACAATTTTGAC
*
27261433 CCTGG-GGTGGCAAAATTACCATTTT-AC
1 CCTGGTGGTGG-AAAATTACAATTTTGAC
27261460 CCT
1 CCT
27261463 TTTACTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACAATTTTGAC
Found at i:27261533 original size:20 final size:20
Alignment explanation
Indices: 27261516--27261553 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27261506 CCTCAAATCT
27261516 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
27261536 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
27261554 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:27262422 original size:6 final size:6
Alignment explanation
Indices: 27262411--27262458 Score: 60
Period size: 6 Copynumber: 7.5 Consensus size: 6
27262401 ATAACAAGTT
*
27262411 TCTTCA TCTTCA TCTTCA TCTTCAA CTTCTTCT TCTTCA TCTTCA TCT
1 TCTTCA TCTTCA TCTTCA TCTTC-A --TCTTCA TCTTCA TCTTCA TCT
27262459 CTTTCCATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 31 0.84
7 1 0.03
9 5 0.14
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCA
Found at i:27262482 original size:30 final size:30
Alignment explanation
Indices: 27262441--27262511 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
27262431 TTCAACTTCT
*
27262441 TCTTCTTCATCTTCATCTCTTTCCATGTCA
1 TCTTCTTCATCTTCATATCTTTCCATGTCA
**
27262471 TCTGT-TTCATCTTCATATCTTTGTATGTCA
1 TCT-TCTTCATCTTCATATCTTTCCATGTCA
27262501 TCTTCTTCATC
1 TCTTCTTCATC
27262512 CTCAATCAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 1 0.03
30 34 0.94
31 1 0.03
ACGTcount: A:0.14, C:0.28, G:0.06, T:0.52
Consensus pattern (30 bp):
TCTTCTTCATCTTCATATCTTTCCATGTCA
Found at i:27262486 original size:15 final size:15
Alignment explanation
Indices: 27262413--27262492 Score: 56
Period size: 15 Copynumber: 5.1 Consensus size: 15
27262403 AACAAGTTTC
27262413 TTCATCTTCATCTTCAT
1 TTCATCTTCATC-TC-T
* *
27262430 CTTCAACTTCTTCT-T
1 -TTCATCTTCATCTCT
27262445 CTTCATCTTCATCTCT
1 -TTCATCTTCATCTCT
* *
27262461 TTCCAT-GTCATCTGT
1 TT-CATCTTCATCTCT
*
27262476 TTCATCTTCATATCT
1 TTCATCTTCATCTCT
27262491 TT
1 TT
27262493 GTATGTCATC
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
14 3 0.06
15 32 0.64
16 4 0.08
17 1 0.02
18 10 0.20
ACGTcount: A:0.15, C:0.30, G:0.03, T:0.53
Consensus pattern (15 bp):
TTCATCTTCATCTCT
Found at i:27269060 original size:164 final size:160
Alignment explanation
Indices: 27268877--27269185 Score: 548
Period size: 164 Copynumber: 1.9 Consensus size: 160
27268867 TCTTTGAAAA
27268877 TTTCAAAACTAGCTAATAATGTAGTATACGGTGCAAAACACATATTTCATAATCAAAA-ATAATG
1 TTTCAAAACTAGCTAATAATGTAGTATACGGTGCAAAACACATATTTCATAATCAAAATA-AAT-
27268941 TTGGATGTCTAAAACATTTGTTTAAAAATGAAATTATGACTATTAGAATAAAATAAAAATATTGA
64 TTGGATGTCTAAAACATTTGTTT-AAAATGAAATTATGAC-ATTAGAAT-AAATAAAAATATTGA
*
27269006 ATAAAATATTCAATTTTCTCGTAAAACAATATTTT
126 ATAAAATATCCAATTTTCTCGTAAAACAATATTTT
*
27269041 TTTCGAAACTAGCTAATAATGTAGTATACGGTGCAAAACACATATTTCATAATCAAAATAAATTT
1 TTTCAAAACTAGCTAATAATGTAGTATACGGTGCAAAACACATATTTCATAATCAAAATAAATTT
27269106 GGATGTCTAAAACATTTGTTTAAAATGAAATTATGACATTAGAATAAATAAAAATATTGAATAAA
66 GGATGTCTAAAACATTTGTTTAAAATGAAATTATGACATTAGAATAAATAAAAATATTGAATAAA
27269171 ATATCCAATTTTCTC
131 ATATCCAATTTTCTC
27269186 NNNNNNNNNN
Statistics
Matches: 142, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
160 34 0.24
161 8 0.06
162 16 0.11
163 23 0.16
164 60 0.42
165 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (160 bp):
TTTCAAAACTAGCTAATAATGTAGTATACGGTGCAAAACACATATTTCATAATCAAAATAAATTT
GGATGTCTAAAACATTTGTTTAAAATGAAATTATGACATTAGAATAAATAAAAATATTGAATAAA
ATATCCAATTTTCTCGTAAAACAATATTTT
Found at i:27275860 original size:83 final size:82
Alignment explanation
Indices: 27275721--27275886 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 82
27275711 CCAACACTTG
*
27275721 TCATGCCTAAGTATTTCATCCATTAACATTTTATATTATGGATAATTGAGATATTTTATGTGGTG
1 TCATGCCTAAGGATTTCATCCATTAACATTTTATATTATGGATAATTGAGATATTTTATGTGGTG
27275786 GTGAAAGAAAGCTTAGT
66 GTGAAAGAAAGCTTAGT
27275803 NTCATGCCTAAGGATTTCATCCATTAACATTTTATATTATGGATAATTGAGATATTTTATGTGGT
1 -TCATGCCTAAGGATTTCATCCATTAACATTTTATATTATGGATAATTGAGATATTTTATGTGGT
27275868 GGTGAAAGAAAGCTTAGT
65 GGTGAAAGAAAGCTTAGT
27275886 T
1 T
27275887 GTTAAGTGTT
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 1 0.01
83 81 0.99
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (82 bp):
TCATGCCTAAGGATTTCATCCATTAACATTTTATATTATGGATAATTGAGATATTTTATGTGGTG
GTGAAAGAAAGCTTAGT
Found at i:27284928 original size:2 final size:2
Alignment explanation
Indices: 27284921--27284945 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27284911 ACCATGTGGT
27284921 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
27284946 TATGCAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27286983 original size:28 final size:29
Alignment explanation
Indices: 27286925--27286985 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
27286915 TCATTTCTTC
27286925 ATGGAGTAGTAATAATCTTTTTTTTCCTA
1 ATGGAGTAGTAATAATCTTTTTTTTCCTA
27286954 ATGGAGTAGTAATAATC-TTTTTTTCCTA
1 ATGGAGTAGTAATAATCTTTTTTTTCCTA
27286982 ATGG
1 ATGG
27286986 TGTAATGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (29 bp):
ATGGAGTAGTAATAATCTTTTTTTTCCTA
Found at i:27289459 original size:18 final size:18
Alignment explanation
Indices: 27289428--27289467 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27289418 AAATGTTGAT
*
27289428 TTATGAGTTATTTATGAA
1 TTATGAGTTATTTATAAA
* *
27289446 TTATGTGTTCTTTATAAA
1 TTATGAGTTATTTATAAA
27289464 TTAT
1 TTAT
27289468 TTGTAGAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (18 bp):
TTATGAGTTATTTATAAA
Found at i:27289833 original size:32 final size:31
Alignment explanation
Indices: 27289792--27289854 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
27289782 AATAACTTTT
27289792 AAGCTTAAAAAAAAA-ATCAAGCCAAGCAAGC
1 AAGCTTAAAAAAAAATA-CAAGCCAAGCAAGC
27289823 NAAGCTTAAAAAAAAATACAAGCCAAGCAAGC
1 -AAGCTTAAAAAAAAATACAAGCCAAGCAAGC
27289855 TCATAATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.57, C:0.19, G:0.13, T:0.10
Consensus pattern (31 bp):
AAGCTTAAAAAAAAATACAAGCCAAGCAAGC
Found at i:27295195 original size:28 final size:28
Alignment explanation
Indices: 27295163--27295217 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
27295153 TGTTGAAACT
27295163 TTATTTATGTTT-GATGTAATTTATTTGC
1 TTATTTATGTTTAG-TGTAATTTATTTGC
27295191 TTATTTATGTTTAGTGTAATTTATTTG
1 TTATTTATGTTTAGTGTAATTTATTTG
27295218 TCTGTAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.22, C:0.02, G:0.15, T:0.62
Consensus pattern (28 bp):
TTATTTATGTTTAGTGTAATTTATTTGC
Found at i:27305949 original size:14 final size:16
Alignment explanation
Indices: 27305924--27305957 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
27305914 GTAGCTAGGC
27305924 TTTTGAGATTTTAG-A
1 TTTTGAGATTTTAGCA
27305939 TTTTG-GATTTTAGCA
1 TTTTGAGATTTTAGCA
27305954 TTTT
1 TTTT
27305958 AAGTGTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.59
Consensus pattern (16 bp):
TTTTGAGATTTTAGCA
Found at i:27309018 original size:21 final size:22
Alignment explanation
Indices: 27308989--27309032 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
27308979 GAGTGGTTAA
27308989 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
* *
27309010 TTTATGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
27309032 T
1 T
27309033 ACTTTAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:27316439 original size:19 final size:19
Alignment explanation
Indices: 27316415--27316513 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
27316405 TTCCCGTGTG
27316415 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
27316434 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
*
27316453 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
* ** *
27316472 CACGATGGTGCCGGCTATGTG
1 CACGAT-GTG-GGGGGATGTA
27316493 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
27316512 CA
1 CA
27316514 TGAGCTGGGT
Statistics
Matches: 56, Mismatches: 20, Indels: 8
0.67 0.24 0.10
Matches are distributed among these distances:
18 3 0.05
19 33 0.59
20 9 0.16
21 11 0.20
ACGTcount: A:0.20, C:0.17, G:0.41, T:0.21
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:27316462 original size:38 final size:40
Alignment explanation
Indices: 27316411--27316513 Score: 149
Period size: 38 Copynumber: 2.6 Consensus size: 40
27316401 ATAGTTCCCG
*
27316411 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* *
27316449 TGTGCACGATGTGGGGGGATGCACACGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
27316489 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
27316514 TGAGCTGGGT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
38 28 0.48
39 4 0.07
40 26 0.45
ACGTcount: A:0.19, C:0.17, G:0.42, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:27318257 original size:20 final size:20
Alignment explanation
Indices: 27318232--27318282 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27318222 GATACATTGA
27318232 GACAATGTATCAATAAACGG
1 GACAATGTATCAATAAACGG
* * *
27318252 GACAATCTATCAATACATGG
1 GACAATGTATCAATAAACGG
27318272 GACTAATGTAT
1 GAC-AATGTAT
27318283 TGATAGATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (20 bp):
GACAATGTATCAATAAACGG
Found at i:27320082 original size:159 final size:158
Alignment explanation
Indices: 27319788--27320113 Score: 627
Period size: 159 Copynumber: 2.1 Consensus size: 158
27319778 ATAATTTTTA
27319788 AACAT-TAAAATCATAGAAAATAAATTTTATGTAACATAAAAAAGAAGAACATGGCAAGTAAAAG
1 AACATATAAAATCATAGAAAATAAATTTTATGTAACATAAAAAAGAAGAACATGGCAAGTAAAAG
27319852 GTAGATACCACATATTACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAAT
66 GTAGATACCACATATTACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAAT
*
27319917 TTGAGAAAGAATATTTATAGAAATTTAT
131 TTGAGAAAGAATATTTATAGAAACTTAT
27319945 AACATANTAAAATCATAGAAAATAAATTTTATGTAACATAAAAAAGAAGAACATGGCAAGTAAAA
1 AACATA-TAAAATCATAGAAAATAAATTTTATGTAACATAAAAAAGAAGAACATGGCAAGTAAAA
27320010 GGTAGATACCACATATTACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAA
65 GGTAGATACCACATATTACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAA
27320075 TTTGAGAAAGAATATTTATAGAAACTTAT
130 TTTGAGAAAGAATATTTATAGAAACTTAT
27320104 AACATATAAA
1 AACATATAAA
27320114 CAAATAAAAT
Statistics
Matches: 166, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
157 5 0.03
158 4 0.02
159 157 0.95
ACGTcount: A:0.54, C:0.07, G:0.13, T:0.26
Consensus pattern (158 bp):
AACATATAAAATCATAGAAAATAAATTTTATGTAACATAAAAAAGAAGAACATGGCAAGTAAAAG
GTAGATACCACATATTACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAAT
TTGAGAAAGAATATTTATAGAAACTTAT
Found at i:27320109 original size:78 final size:78
Alignment explanation
Indices: 27319868--27320109 Score: 188
Period size: 78 Copynumber: 3.1 Consensus size: 78
27319858 ACCACATATT
27319868 ACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAATTTGAGAAAGAATATTT
1 ACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAATTTGAGAAAGAATATTT
*
27319933 ATAGAAATTTATA
66 ATAGAAACTTATA
** * ** * **** * *
27319946 ACATANTAAAATCATAGAAA-ATAAATTTTAT-GTAACATAAAAAAGAAGAACA--TG-GCAAGT
1 ACATAACAAAA--A-AGAAAGAAAAATAATATGGTTA-AT-AGTTTGTAGAA-ATTTGAGAAAG-
* ** * * * * *
27320006 AAAAGGTAGATACCACATATT
59 AATATTTATAGA-AACTTATA
27320027 ACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAATTTGAGAAAGAATATTT
1 ACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAATTTGAGAAAGAATATTT
27320092 ATAGAAACTTATA
66 ATAGAAACTTATA
27320105 ACATA
1 ACATA
27320110 TAAACAAATA
Statistics
Matches: 110, Mismatches: 41, Indels: 26
0.62 0.23 0.15
Matches are distributed among these distances:
77 1 0.01
78 30 0.27
79 27 0.25
80 27 0.25
81 24 0.22
82 1 0.01
ACGTcount: A:0.54, C:0.06, G:0.13, T:0.27
Consensus pattern (78 bp):
ACATAACAAAAAAGAAAGAAAAATAATATGGTTAATAGTTTGTAGAAATTTGAGAAAGAATATTT
ATAGAAACTTATA
Found at i:27320120 original size:15 final size:15
Alignment explanation
Indices: 27320102--27320148 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
27320092 ATAGAAACTT
*
27320102 ATAACATATAAACAA
1 ATAACATATAAATAA
* *
27320117 ATAAAATAAAAATAA
1 ATAACATATAAATAA
27320132 ATAAC-TATAAATAA
1 ATAACATATAAATAA
27320146 ATA
1 ATA
27320149 TCAATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAACATATAAATAA
Found at i:27324424 original size:13 final size:13
Alignment explanation
Indices: 27324406--27324430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27324396 AGAGAAATTG
27324406 TGATTTTATAAAA
1 TGATTTTATAAAA
27324419 TGATTTTATAAA
1 TGATTTTATAAA
27324431 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:27325792 original size:15 final size:14
Alignment explanation
Indices: 27325768--27325809 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 14
27325758 AGATCAGATA
27325768 TTTTGATTTTAAAG
1 TTTTGATTTTAAAG
27325782 TTTTGGATTTTAAAG
1 TTTT-GATTTTAAAG
27325797 TTTTTGATTTTAA
1 -TTTTGATTTTAA
27325810 GGTTGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (14 bp):
TTTTGATTTTAAAG
Found at i:27331925 original size:13 final size:13
Alignment explanation
Indices: 27331907--27331931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27331897 AGAGAAATTT
27331907 TGATTTTATAAAA
1 TGATTTTATAAAA
27331920 TGATTTTATAAA
1 TGATTTTATAAA
27331932 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:27338368 original size:35 final size:35
Alignment explanation
Indices: 27338329--27338416 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
27338319 CTGTTCTACG
* * * *
27338329 TGAAGTAGTGCATCACTTGTTTTAGTTGTTTTG-T
1 TGAAGTAGTACTTCACTTGTTCTAATTGTTTTGCT
*
27338363 CTGAAGTAGTATTTCACTTGTTCTAATTGTTTTGCT
1 -TGAAGTAGTACTTCACTTGTTCTAATTGTTTTGCT
27338399 TGAAGTAGTACTTCACTT
1 TGAAGTAGTACTTCACTT
27338417 AATCTAGTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 45 0.98
36 1 0.02
ACGTcount: A:0.20, C:0.12, G:0.19, T:0.48
Consensus pattern (35 bp):
TGAAGTAGTACTTCACTTGTTCTAATTGTTTTGCT
Found at i:27338428 original size:35 final size:35
Alignment explanation
Indices: 27338351--27338428 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
27338341 TCACTTGTTT
* **
27338351 TAGTTGTTTTGTCTGAAGTAGTATTTCACTTGTTC
1 TAGTTGTTTTGTCTGAAGTAGTACTTCACTTAATC
*
27338386 TAATTGTTTTG-CTTGAAGTAGTACTTCACTTAATC
1 TAGTTGTTTTGTC-TGAAGTAGTACTTCACTTAATC
27338421 TAGTTGTT
1 TAGTTGTT
27338429 CTCATTATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 1 0.03
35 36 0.97
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.50
Consensus pattern (35 bp):
TAGTTGTTTTGTCTGAAGTAGTACTTCACTTAATC
Found at i:27338663 original size:15 final size:15
Alignment explanation
Indices: 27338643--27338692 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
27338633 CACATTAAAC
*
27338643 AGTAATGCTTTAGGT
1 AGTAATGCCTTAGGT
*
27338658 AGTAATACCTTAGGT
1 AGTAATGCCTTAGGT
*
27338673 AGTAATGCCCTAGGT
1 AGTAATGCCTTAGGT
27338688 AGTAA
1 AGTAA
27338693 CATGTTCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (15 bp):
AGTAATGCCTTAGGT
Found at i:27339323 original size:17 final size:17
Alignment explanation
Indices: 27339297--27339344 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
27339287 TTCTTCATTC
* * *
27339297 AAATTTAAAGTAAAGCA
1 AAATTCAAAGCAAAACA
27339314 AAATTCAAAGCAAAACA
1 AAATTCAAAGCAAAACA
*
27339331 AAATTCAGAGCAAA
1 AAATTCAAAGCAAA
27339345 GTCAATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.17
Consensus pattern (17 bp):
AAATTCAAAGCAAAACA
Found at i:27339771 original size:24 final size:24
Alignment explanation
Indices: 27339744--27339791 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
27339734 CTTTTGTGTC
**
27339744 AAGTGACATGAGCTTTTTTATTTG
1 AAGTGACACAAGCTTTTTTATTTG
* *
27339768 AAGTGCCACAAGTTTTTTTATTTG
1 AAGTGACACAAGCTTTTTTATTTG
27339792 TTGTTATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.46
Consensus pattern (24 bp):
AAGTGACACAAGCTTTTTTATTTG
Found at i:27342240 original size:48 final size:48
Alignment explanation
Indices: 27342132--27342242 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
27342122 TACTGTTGAA
* * * * * * *
27342132 GTTGTTCATGATATAAGAGTTGATGCTGGAGCTACTCTAAATGTTGAG
1 GTTGTTCATGATGTTAGAGTTGATCCTAGAGCCACTCCAAATGTTCAG
* * *
27342180 GTTGTTTATGATGTTAGAGTTGATCCTAGAGCCACTCCGAATGTTCTG
1 GTTGTTCATGATGTTAGAGTTGATCCTAGAGCCACTCCAAATGTTCAG
27342228 GTTGTTCATGATGTT
1 GTTGTTCATGATGTT
27342243 GGAGCAACAA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (48 bp):
GTTGTTCATGATGTTAGAGTTGATCCTAGAGCCACTCCAAATGTTCAG
Found at i:27346368 original size:21 final size:21
Alignment explanation
Indices: 27346344--27346406 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
27346334 AGACAGAATG
*
27346344 CTCTTAGTTGACTAAGTGCCT
1 CTCTTAGTCGACTAAGTGCCT
*
27346365 CTCTTAGTCAACTAAGTGCCT
1 CTCTTAGTCGACTAAGTGCCT
27346386 CTCTTAGTCGACTAAGTGCCT
1 CTCTTAGTCGACTAAGTGCCT
27346407 ACTATCTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTTAGTCGACTAAGTGCCT
Found at i:27356608 original size:35 final size:34
Alignment explanation
Indices: 27356559--27356672 Score: 106
Period size: 35 Copynumber: 3.3 Consensus size: 34
27356549 CTACTTGTAT
* *
27356559 TAGTTTTTCCACATGAAGTAGTGTTCCACTTATTC
1 TAGTTGTTCTACATGAAGTAGTGTT-CACTTATTC
*
27356594 CAGTTGTTCTACATGGAA-TAGTGCTTCACTTATT-
1 TAGTTGTTCTACAT-GAAGTAGTG-TTCACTTATTC
* * * * *
27356628 TAATTGTTTTACATGAAGTACTATTTCACTTGTTC
1 TAGTTGTTCTACATGAAGTAGT-GTTCACTTATTC
27356663 TAGTTGTTCT
1 TAGTTGTTCT
27356673 TATTATTCTT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
33 3 0.05
34 23 0.37
35 32 0.51
36 5 0.08
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.46
Consensus pattern (34 bp):
TAGTTGTTCTACATGAAGTAGTGTTCACTTATTC
Found at i:27364081 original size:69 final size:69
Alignment explanation
Indices: 27363944--27364073 Score: 181
Period size: 69 Copynumber: 1.9 Consensus size: 69
27363934 AGATGCAAAT
* * * * *
27363944 ACAGTCAATGCAGTTGGAGATCCAATGGGCGATGTAGATGCAGATGCAATCAATGCAGTTAGAGA
1 ACAGTCAATGCAGTTGGAGATCCAACGAGCGATGCAGATGCAGACGCAATCAATGCAGTGAGAGA
27364009 TCTA
66 TCTA
* * *
27364013 ACAGTCAATGCAGTTGGAGATCCAGCGAGCGATGCAGATGCAGACGCAGTCACTGCA-TGAG
1 ACAGTCAATGCAGTTGGAGATCCAACGAGCGATGCAGATGCAGACGCAATCAATGCAGTGAG
27364074 CATATCTAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
68 3 0.06
69 50 0.94
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (69 bp):
ACAGTCAATGCAGTTGGAGATCCAACGAGCGATGCAGATGCAGACGCAATCAATGCAGTGAGAGA
TCTA
Found at i:27368061 original size:70 final size:70
Alignment explanation
Indices: 27367987--27368157 Score: 263
Period size: 70 Copynumber: 2.4 Consensus size: 70
27367977 GAATCGTGTG
*
27367987 AGTAGTAAATATGGATCGCGTGAACT-GTTAAGATTTAGAATCGCGTGAGTATTTGATATTGACT
1 AGTAGTAAATATGGATCGCGT-AACTAGTTAAGATTTAGAATCGCATGAGTATTTGATATTGACT
*
27368051 CCCGTT
65 CCCATT
*
27368057 AGTAGTAAATATGGATCGCGTTACTAGTTAAGATTTAGAATCGCATGAGTATTTGATATTGACTC
1 AGTAGTAAATATGGATCGCGTAACTAGTTAAGATTTAGAATCGCATGAGTATTTGATATTGACTC
27368122 CCATT
66 CCATT
** * *
27368127 AGTAGTAAATATCAATCACGTTACTAGTTAA
1 AGTAGTAAATATGGATCGCGTAACTAGTTAA
27368158 TATGGAAGCG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
69 3 0.03
70 91 0.97
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (70 bp):
AGTAGTAAATATGGATCGCGTAACTAGTTAAGATTTAGAATCGCATGAGTATTTGATATTGACTC
CCATT
Found at i:27368138 original size:23 final size:23
Alignment explanation
Indices: 27368042--27368138 Score: 54
Period size: 23 Copynumber: 4.2 Consensus size: 23
27368032 TGAGTATTTG
*
27368042 ATATTGACTCCCGTTAGTAGTAA
1 ATATTGACTCCCATTAGTAGTAA
* * * *
27368065 ATATGGA-TCGCGTTACTAGTTAA
1 ATATTGACTCCCATTAGTAG-TAA
* * * * **
27368088 GAT-TTAGAATCGCATGAGTATTTG
1 -ATATT-GACTCCCATTAGTAGTAA
27368112 ATATTGACTCCCATTAGTAGTAA
1 ATATTGACTCCCATTAGTAGTAA
27368135 ATAT
1 ATAT
27368139 CAATCACGTT
Statistics
Matches: 53, Mismatches: 16, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
22 10 0.19
23 28 0.53
24 7 0.13
25 8 0.15
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (23 bp):
ATATTGACTCCCATTAGTAGTAA
Found at i:27368449 original size:23 final size:23
Alignment explanation
Indices: 27368399--27368452 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
27368389 TTATTGAATA
*
27368399 GCGTGACTAGATGATATGGGATC
1 GCGTGACTAGATGATATGGCATC
* * * *
27368422 ACGTGACTAGTTGATCTTGCATC
1 GCGTGACTAGATGATATGGCATC
27368445 GCGTGACT
1 GCGTGACT
27368453 CACCTATTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (23 bp):
GCGTGACTAGATGATATGGCATC
Found at i:27374057 original size:22 final size:22
Alignment explanation
Indices: 27374031--27374078 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
27374021 CACCACTCTT
*
27374031 GCAATACATAACAAT-AGGTCAC
1 GCAATACATAAAAATCA-GTCAC
*
27374053 GCAATATATAAAAATCAGTCAC
1 GCAATACATAAAAATCAGTCAC
27374075 GCAA
1 GCAA
27374079 GCCTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (22 bp):
GCAATACATAAAAATCAGTCAC
Done.