Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 165 of 373
Found at i:55221930 original size:93 final size:93
Alignment explanation
Indices: 55221771--55221943 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
55221761 AGGATATTTG
* * * * *
55221771 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAGCTCATTGAG
55221836 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55221864 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACAAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAGCTCATTGAG
55221929 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
55221944 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55225823 original size:12 final size:13
Alignment explanation
Indices: 55225789--55225828 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
55225779 TTTTTTTAAG
55225789 TAGTTTATTGATA
1 TAGTTTATTGATA
55225802 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
55225816 TAGTTTATTGATA
1 TAGTTTATTGATA
55225829 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:55234930 original size:33 final size:33
Alignment explanation
Indices: 55234890--55234952 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
55234880 CCACCCTTCT
*
55234890 CCTCTTTCC-CCTCTCTT-TCTTTCCTTTCTCCTC
1 CCTCTTTCCTCCT-TCTTCCCTTT-CTTTCTCCTC
55234923 CCTCTTTCCTCCTTCTTCCCTTTCTTTCTC
1 CCTCTTTCCTCCTTCTTCCCTTTCTTTCTC
55234953 TTTTCCCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (33 bp):
CCTCTTTCCTCCTTCTTCCCTTTCTTTCTCCTC
Found at i:55236580 original size:3 final size:3
Alignment explanation
Indices: 55236572--55236603 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
55236562 GGACCCACAC
55236572 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
55236604 GAGTCATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:55236813 original size:6 final size:6
Alignment explanation
Indices: 55236802--55236837 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
55236792 ATTTATTTTA
*
55236802 TTTATT TTTATT TTTATT TTTATT TTT-CT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT T
55236838 AATTTTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:55241351 original size:15 final size:15
Alignment explanation
Indices: 55241331--55241359 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55241321 TTACCGATCA
55241331 ATACACATCATTCAC
1 ATACACATCATTCAC
55241346 ATACACATCATTCA
1 ATACACATCATTCA
55241360 TGTGCATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
ATACACATCATTCAC
Found at i:55241848 original size:17 final size:17
Alignment explanation
Indices: 55241826--55241874 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
55241816 GACCATCTAG
55241826 CATGACCGTGTGTCACA
1 CATGACCGTGTGTCACA
* *
55241843 CATGACC--ATGT-A-G
1 CATGACCGTGTGTCACA
55241856 CATGACCGTGTGTCACA
1 CATGACCGTGTGTCACA
55241873 CA
1 CA
55241875 CGACTGAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 8
0.67 0.11 0.22
Matches are distributed among these distances:
13 7 0.29
14 1 0.04
15 6 0.25
16 1 0.04
17 9 0.38
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (17 bp):
CATGACCGTGTGTCACA
Found at i:55241850 original size:30 final size:30
Alignment explanation
Indices: 55241810--55241878 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
55241800 ACCGCAGGGG
55241810 ACACACGACCATCTAGCATGACCGTGTGTC
1 ACACACGACCATCTAGCATGACCGTGTGTC
* *
55241840 ACACATGACCATGTAGCATGACCGTGTGTC
1 ACACACGACCATCTAGCATGACCGTGTGTC
55241870 ACACACGAC
1 ACACACGAC
55241879 TGAGACACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.19
Consensus pattern (30 bp):
ACACACGACCATCTAGCATGACCGTGTGTC
Found at i:55242811 original size:47 final size:47
Alignment explanation
Indices: 55242760--55242878 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
55242750 GTACATATAT
* *
55242760 CATGGCCTGTAGCAAAATCAAGGTAACTTATCTCGGAGTACCTAAAC
1 CATGGCCTGTAGCAAAATCAAGGTAACTCATCTCGGAATACCTAAAC
* * * *
55242807 CATGGCCTGTAGCCAAATCAAGGTAACTCCTCTCTGAATACCTATAC
1 CATGGCCTGTAGCAAAATCAAGGTAACTCATCTCGGAATACCTAAAC
**
55242854 CATGGCCCATAGCAAAATCAAGGTA
1 CATGGCCTGTAGCAAAATCAAGGTA
55242879 TTATTCGCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (47 bp):
CATGGCCTGTAGCAAAATCAAGGTAACTCATCTCGGAATACCTAAAC
Found at i:55246007 original size:48 final size:49
Alignment explanation
Indices: 55245842--55246025 Score: 139
Period size: 48 Copynumber: 3.8 Consensus size: 49
55245832 ACTCAGGAGT
* * * * *
55245842 CTCGCACACT-AAGTGCCAATATCATGGCCCGAAGGCAACTCAATA-T-AT
1 CTCGCAC-CTAAAGTGCCAATATCATGGCCCAAAGCCAAATTAA-AGTGAG
* * * ** *
55245890 CTTGCACCTGAAGTGCTAATATCATGGCCCGTAGCCAAA-T-CAGTGAAG
1 CTCGCACCTAAAGTGCCAATATCATGGCCCAAAGCCAAATTAAAGTG-AG
* * *
55245938 CTCACACCCGAAA-TTCCAATATCATGGCCCAAAGCCAAATTAAAGTGA-
1 CTCGCA-CCTAAAGTGCCAATATCATGGCCCAAAGCCAAATTAAAGTGAG
* *
55245986 CTCGCACCTAAAGTGCTAATATCATGGCCCATAGCCAAAT
1 CTCGCACCTAAAGTGCCAATATCATGGCCCAAAGCCAAAT
55246026 CAATGTATCC
Statistics
Matches: 106, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 7 0.07
48 87 0.82
49 6 0.06
50 4 0.04
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (49 bp):
CTCGCACCTAAAGTGCCAATATCATGGCCCAAAGCCAAATTAAAGTGAG
Found at i:55249324 original size:79 final size:80
Alignment explanation
Indices: 55249214--55249394 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
55249204 TACTCGTTCA
* **
55249214 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCTGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
55249278 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
**
55249294 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
55249357 TATAGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
55249373 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
55249395 GACATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.67
80 26 0.30
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:55249396 original size:40 final size:40
Alignment explanation
Indices: 55249193--55249396 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55249183 CGAAATTTAA
** *
55249193 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55249233 CCGGTTATAGTAACTCGCACAAATGCCTTCTGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55249273 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55249312 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
55249352 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55249392 CCGGA
1 CCGGA
55249397 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55262922 original size:33 final size:33
Alignment explanation
Indices: 55262884--55262949 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
55262874 GATGATATGG
55262884 TAGTTGCATGAGGTTATTAGCCGAATATACTAA
1 TAGTTGCATGAGGTTATTAGCCGAATATACTAA
55262917 TAGTTGCATGAGGTTATTAGCCGAATATACTAA
1 TAGTTGCATGAGGTTATTAGCCGAATATACTAA
55262950 CATACATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (33 bp):
TAGTTGCATGAGGTTATTAGCCGAATATACTAA
Found at i:55263372 original size:27 final size:27
Alignment explanation
Indices: 55263339--55263545 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
55263329 TAAATTGTGC
*
55263339 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
55263366 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
55263394 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
55263421 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
55263449 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55263476 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
55263504 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55263531 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55263546 GACTTAATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.54
28 77 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55263403 original size:55 final size:55
Alignment explanation
Indices: 55263339--55263545 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
55263329 TAAATTGTGC
55263339 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
55263394 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
55263449 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
55263504 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
55263546 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:55271178 original size:34 final size:33
Alignment explanation
Indices: 55271101--55271181 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
55271091 TGTGTTCGTA
* *
55271101 TACTGTACTGACATGGGCTAAGGCCCAGACTAC
1 TACTGTACTGAAATGGGCTAAGGCCCAAACTAC
* * **
55271134 CACTGATACTGAAATGGGCTCAGGCCCAAACTGT
1 TACTG-TACTGAAATGGGCTAAGGCCCAAACTAC
55271168 TACTGCTACTGAAA
1 TACTG-TACTGAAA
55271182 GAGGGGTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (33 bp):
TACTGTACTGAAATGGGCTAAGGCCCAAACTAC
Found at i:55276095 original size:42 final size:41
Alignment explanation
Indices: 55275969--55276119 Score: 176
Period size: 42 Copynumber: 3.6 Consensus size: 41
55275959 ATACCAATGT
* * * *
55275969 CATATCCTAGATATGGTCTTACATGTAATCTCGTATCGATGC
1 CATATCCCAAATATGGTCTTACACG-AATCTCATATCGATGC
* * *
55276011 CAATAGCCCAACTATGGTCTTACACGAAATCTCTTATCGATGC
1 C-ATATCCCAAATATGGTCTTACACG-AATCTCATATCGATGC
* *
55276054 CATATCCTAAATATGGTCTTACACGAAGTCTCATATTGATGC
1 CATATCCCAAATATGGTCTTACACGAA-TCTCATATCGATGC
*
55276096 CATATCCCAGATATGGTCTTACAC
1 CATATCCCAAATATGGTCTTACAC
55276120 ATAGACTTAG
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
41 2 0.02
42 56 0.60
43 35 0.38
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (41 bp):
CATATCCCAAATATGGTCTTACACGAATCTCATATCGATGC
Found at i:55284919 original size:29 final size:29
Alignment explanation
Indices: 55284864--55284978 Score: 144
Period size: 29 Copynumber: 4.0 Consensus size: 29
55284854 GTAATCATGA
* * *
55284864 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
55284892 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
55284921 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
55284950 ATATGAATGT-AATTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
55284978 A
1 A
55284979 AATACAGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
28 28 0.37
29 48 0.63
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:55284949 original size:58 final size:57
Alignment explanation
Indices: 55284877--55284987 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
55284867 TGAATGTGAC
* *
55284877 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATGT-AATTGGGCCTAATGGGCCAAATACAGGTGATT
* * *
55284935 TGGGCCTAATGGGCCATATGAATGTAATTGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAACGGGCCATATAAATGTAATTGGGCCTAATGGGCCAAATACAGGT
55284988 ATGTGAATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 25 0.52
58 23 0.48
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATGTAATTGGGCCTAATGGGCCAAATACAGGTGATT
Found at i:55287783 original size:26 final size:25
Alignment explanation
Indices: 55287746--55287838 Score: 114
Period size: 26 Copynumber: 3.6 Consensus size: 25
55287736 GAGTTTGCAA
* * *
55287746 CAAAGGCATTCTTTTCATATTCCACC
1 CAAAGGCTTTC-TTTCATATTACGCC
*
55287772 CAAAGGCTTTCTTTCATATTACGCTG
1 CAAAGGCTTTCTTTCATATTACGC-C
*
55287798 CAAAGCCTTTCTTTCATATTACGCC
1 CAAAGGCTTTCTTTCATATTACGCC
55287823 ACAAAGGCTTTCTTTC
1 -CAAAGGCTTTCTTTC
55287839 TTGATGTGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.19
26 47 0.81
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.37
Consensus pattern (25 bp):
CAAAGGCTTTCTTTCATATTACGCC
Found at i:55291124 original size:37 final size:37
Alignment explanation
Indices: 55291074--55291152 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55291064 TTATTACGAA
* * *
55291074 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55291111 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55291148 GTCTT
1 GTCTT
55291153 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55291358 original size:47 final size:47
Alignment explanation
Indices: 55291271--55291669 Score: 591
Period size: 47 Copynumber: 8.4 Consensus size: 47
55291261 CCTTTCGGGA
* * * * * * * *
55291271 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55291318 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55291365 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55291412 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55291459 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55291506 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55291553 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55291604 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55291651 CTTATCACACATATACACT
1 CTTATCACATATATACACT
55291670 CTCTTGGCTG
Statistics
Matches: 322, Mismatches: 26, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
47 272 0.84
48 1 0.00
49 10 0.03
50 1 0.00
51 38 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55299931 original size:40 final size:40
Alignment explanation
Indices: 55299898--55300022 Score: 205
Period size: 40 Copynumber: 3.1 Consensus size: 40
55299888 CCGGATGTCG
* *
55299898 TTCCAGCACGAACCCTGCGGGTCTTTCAGCCCGGATACAA
1 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA
* *
55299938 TTCCAGCACGAAGCCTACGGGTCTTTAAGCCTGGATACAA
1 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA
*
55299978 TTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACAA
1 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA
55300018 TTCCA
1 TTCCA
55300023 CATCAAATAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA
Found at i:55309992 original size:21 final size:20
Alignment explanation
Indices: 55309955--55309993 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
55309945 TATCTTATAT
55309955 ATTTTTAAATAAATTTTAAA
1 ATTTTTAAATAAATTTTAAA
55309975 ATTTTCTAAA-AAAGTTTTA
1 ATTTT-TAAATAAA-TTTTA
55309994 TTACTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTTTTAAATAAATTTTAAA
Found at i:55310218 original size:20 final size:20
Alignment explanation
Indices: 55310190--55310279 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
55310180 TAAAAAAATA
*
55310190 TTGTGATATAAATAGATATG
1 TTGTTATATAAATAGATATG
* *
55310210 TTGTTATATATTATAGATCTTGG
1 TTGTTATATA-AATAGAT-AT-G
* *
55310233 TAGTTGTTATAAA-A-ATA--
1 TTGTT-ATATAAATAGATATG
55310250 TTGTTATATAAATAGATATG
1 TTGTTATATAAATAGATATG
55310270 TTGTTATATA
1 TTGTTATATA
55310280 TTATAGATCT
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
16 6 0.11
17 5 0.09
18 3 0.06
20 19 0.36
21 8 0.15
22 2 0.04
23 6 0.11
24 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.47
Consensus pattern (20 bp):
TTGTTATATAAATAGATATG
Found at i:55310237 original size:60 final size:59
Alignment explanation
Indices: 55310075--55310332 Score: 260
Period size: 60 Copynumber: 4.4 Consensus size: 59
55310065 CTCATCACAT
* * * * * *
55310075 TATATAAATAGATACGTTGTTATCTATTATAGATTTTGGTAGTTGTTATAAAAAGTGTTG
1 TATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTTA-AAAAAATATTG
* * * ** * *
55310135 T-T-T-AATTGTTATATAAATTGATATATTATAGATTTTGATAGTTATTAAAAAAATATTG
1 TATATAAATAGATATGT-TGTT-ATATATTATAGATCTTGATAGTTGTTAAAAAAATATTG
* *
55310193 TGATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAATATTG
1 T-ATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTTAAAAAAATATTG
* *
55310253 TTATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTT-ATAAAAT-GT-
1 -TATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTTAAAAAAATATTG
*
55310310 TATATAAATAGATAT-ATGTTATA
1 TATATAAATAGATATGTTGTTATA
55310333 AACGAGTTTA
Statistics
Matches: 166, Mismatches: 25, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
55 7 0.04
56 15 0.09
57 7 0.04
58 14 0.08
59 30 0.18
60 81 0.49
61 4 0.02
62 8 0.05
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (59 bp):
TATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTTAAAAAAATATTG
Found at i:55310307 original size:119 final size:116
Alignment explanation
Indices: 55310076--55310332 Score: 297
Period size: 119 Copynumber: 2.2 Consensus size: 116
55310066 TCATCACATT
* * * *
55310076 ATATAAATAGATACGTTGTTATCTATTATAGATTTTGGTAGTTGTTATAAAAAGTGTTGTTTAAT
1 ATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAAGTATTGTTTAAT
*** * *
55310141 TGTTATATAAATTGATATATTATAGATTTTGATAGTTATTAAAAAAATATTGTG
66 AAATAGATAAATTGATATATTATAGATCTTGATAGTTATT-AAAAAA-A-TGTG
55310195 ATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAA-TATTG-TTATA
1 ATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAAGTATTGTTTA-A
** * * *
55310258 TAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTT-ATAAAATGTT
65 TAAATAGATAAATTG--ATATATTATAGATCTTGATAGTTATTAAAAAAATGTG
*
55310311 ATATAAATAGATAT-ATGTTATA
1 ATATAAATAGATATGTTGTTATA
55310333 AACGAGTTTA
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
115 7 0.06
116 17 0.14
117 4 0.03
118 18 0.15
119 50 0.42
120 24 0.20
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (116 bp):
ATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAAGTATTGTTTAAT
AAATAGATAAATTGATATATTATAGATCTTGATAGTTATTAAAAAAATGTG
Found at i:55310323 original size:29 final size:29
Alignment explanation
Indices: 55310233--55310334 Score: 77
Period size: 29 Copynumber: 3.4 Consensus size: 29
55310223 TAGATCTTGG
55310233 TAGTTGTTATAAAAATATTGTTATATAAATAGA
1 TAGTTGTTAT--AAA-A-TGTTATATAAATAGA
* * ** *
55310266 TATGTTGTTAT---ATATTATAGATCTTGA
1 TA-GTTGTTATAAAATGTTATATAAATAGA
55310293 TAGTTGTTATAAAATGTTATATAAATAGA
1 TAGTTGTTATAAAATGTTATATAAATAGA
55310322 TA-TATGTTATAAA
1 TAGT-TGTTATAAA
55310335 CGAGTTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
26 8 0.15
27 12 0.22
28 2 0.04
29 22 0.41
33 2 0.04
34 8 0.15
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (29 bp):
TAGTTGTTATAAAATGTTATATAAATAGA
Found at i:55313916 original size:36 final size:36
Alignment explanation
Indices: 55313869--55313978 Score: 148
Period size: 36 Copynumber: 3.1 Consensus size: 36
55313859 AAAAAATTCC
* * *
55313869 ATGACTGCAATAGTCTCCCTTAAGGCCACAATTGCT
1 ATGACCGCAATAGTCTCCCTTAAGCCCACAATTGCG
* *
55313905 ATGACCGCAATAGTCTCCCTTAAACCCGCAATTGCG
1 ATGACCGCAATAGTCTCCCTTAAGCCCACAATTGCG
* **
55313941 ATGACCACAATAGTCTCCCTTAAGCCTGCAATTGCG
1 ATGACCGCAATAGTCTCCCTTAAGCCCACAATTGCG
55313977 AT
1 AT
55313979 AAATGTGACA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (36 bp):
ATGACCGCAATAGTCTCCCTTAAGCCCACAATTGCG
Found at i:55318643 original size:25 final size:25
Alignment explanation
Indices: 55318609--55318659 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
55318599 AGTCTAAAGA
55318609 GAATCTATGGCTGAATGATAATTAT
1 GAATCTATGGCTGAATGATAATTAT
55318634 GAATCTATGGCTGAATGATAATTAT
1 GAATCTATGGCTGAATGATAATTAT
55318659 G
1 G
55318660 TTTGTTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (25 bp):
GAATCTATGGCTGAATGATAATTAT
Found at i:55320471 original size:9 final size:9
Alignment explanation
Indices: 55320457--55320525 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
55320447 GACACTTGCA
55320457 ATTAAACAC
1 ATTAAACAC
55320466 ATTAAA-AC
1 ATTAAACAC
*
55320474 ---AAACAT
1 ATTAAACAC
55320480 ATTAAACAC
1 ATTAAACAC
*
55320489 TTTTAAACAC
1 -ATTAAACAC
55320499 TTATTAAACAC
1 --ATTAAACAC
55320510 A--AAACAC
1 ATTAAACAC
55320517 ATTAAACAC
1 ATTAAACAC
55320526 TTAGCTTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 7 0.15
8 2 0.04
9 18 0.38
10 8 0.17
11 9 0.19
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (9 bp):
ATTAAACAC
Found at i:55320483 original size:23 final size:21
Alignment explanation
Indices: 55320457--55320510 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
55320447 GACACTTGCA
55320457 ATTAAACACATTAAAACAAACAT
1 ATTAAACACATTAAAAC--ACAT
* * *
55320480 ATTAAACACTTTTAAACACTT
1 ATTAAACACATTAAAACACAT
55320501 ATTAAACACA
1 ATTAAACACA
55320511 AAACACATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 12 0.44
23 15 0.56
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.28
Consensus pattern (21 bp):
ATTAAACACATTAAAACACAT
Found at i:55320507 original size:11 final size:11
Alignment explanation
Indices: 55320479--55320509 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
55320469 AAAACAAACA
55320479 TATTAAACACT
1 TATTAAACACT
55320490 T-TTAAACACT
1 TATTAAACACT
55320500 TATTAAACAC
1 TATTAAACAC
55320510 AAAACACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
TATTAAACACT
Found at i:55320515 original size:37 final size:33
Alignment explanation
Indices: 55320458--55320527 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 33
55320448 ACACTTGCAA
*
55320458 TTAAACACATTAAAACAAACATATTAAACACTT
1 TTAAACACATTAAAACAAACACATTAAACACTT
55320491 TTAAACACTTATTAAACACAAAACACATTAAACACTT
1 TTAAACAC--ATTAAA-AC-AAACACATTAAACACTT
55320528 AGCTTAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 8 0.25
35 6 0.19
36 2 0.06
37 16 0.50
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (33 bp):
TTAAACACATTAAAACAAACACATTAAACACTT
Found at i:55323335 original size:40 final size:41
Alignment explanation
Indices: 55323276--55323427 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 41
55323266 CATTTGAATG
* * *
55323276 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
55323316 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
55323356 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
55323396 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
55323428 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:55323439 original size:80 final size:80
Alignment explanation
Indices: 55323276--55323447 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
55323266 CATTTGAATG
* * * * *
55323276 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
55323341 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
55323356 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
55323420 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
55323436 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55323448 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 71 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:55331126 original size:40 final size:40
Alignment explanation
Indices: 55331067--55331217 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
55331057 CATTTGAATG
* * * *
55331067 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* *
55331107 TTATCCGGGCTAAGACCCGAAGGTATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
55331147 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
55331187 ATACCCGGGTTAAGACCCGAAGG-AATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
55331218 TTGTGGTTAT
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 7 0.07
40 88 0.90
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:55333295 original size:19 final size:18
Alignment explanation
Indices: 55333259--55333303 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
55333249 TTTCCACTCG
* *
55333259 TTTCTTTTTCAGGCTCTC
1 TTTCTTTTTCACGATCTC
55333277 TTTCTTTTTCCACGATCTC
1 TTTCTTTTT-CACGATCTC
55333296 TTT-TTTTT
1 TTTCTTTTT
55333304 TTGTTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.07, C:0.24, G:0.07, T:0.62
Consensus pattern (18 bp):
TTTCTTTTTCACGATCTC
Found at i:55333520 original size:20 final size:20
Alignment explanation
Indices: 55333488--55333534 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
55333478 TTTTTATTTC
55333488 CTTTTCTTTTTCT-TCCATGT
1 CTTTT-TTTTTCTCTCCATGT
* *
55333508 CTTTTTTTCTTCTCTCGATTT
1 CTTTTTTT-TTCTCTCCATGT
55333529 CTTTTT
1 CTTTTT
55333535 CTTGCTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.13
20 9 0.39
21 11 0.48
ACGTcount: A:0.04, C:0.23, G:0.04, T:0.68
Consensus pattern (20 bp):
CTTTTTTTTTCTCTCCATGT
Found at i:55333681 original size:56 final size:57
Alignment explanation
Indices: 55333612--55333727 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
55333602 AAGAGAGAAA
*
55333612 GAATCTTCATACAAAA-ATGATCATCTCTTCGAGATTGACCTTTCATGGATGAATAC
1 GAATCTTCATACAAAACATGATCATCTCTTCGAGATTGACCCTTCATGGATGAATAC
55333668 GAATCTTCATACAAAACATGATCATCTCTTCGAGATTGACCCTTCATGGATGAATAC
1 GAATCTTCATACAAAACATGATCATCTCTTCGAGATTGACCCTTCATGGATGAATAC
55333725 GAA
1 GAA
55333728 ACACGTTCAC
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 16 0.28
57 42 0.72
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (57 bp):
GAATCTTCATACAAAACATGATCATCTCTTCGAGATTGACCCTTCATGGATGAATAC
Found at i:55334516 original size:14 final size:14
Alignment explanation
Indices: 55334497--55334523 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55334487 GAACTTAAAC
55334497 AATTTTTTTTCACG
1 AATTTTTTTTCACG
55334511 AATTTTTTTTCAC
1 AATTTTTTTTCAC
55334524 TTGCAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.04, T:0.59
Consensus pattern (14 bp):
AATTTTTTTTCACG
Found at i:55334611 original size:15 final size:13
Alignment explanation
Indices: 55334567--55334605 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 13
55334557 AATGGAGACT
55334567 AATTTTTTTTGCACG
1 AATTTTTTTT-CA-G
55334582 AATTTTTTTTC-G
1 AATTTTTTTTCAG
55334594 AATTTTTTTTCA
1 AATTTTTTTTCA
55334606 AAGAATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 12 0.52
14 1 0.04
15 10 0.43
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (13 bp):
AATTTTTTTTCAG
Found at i:55335558 original size:83 final size:81
Alignment explanation
Indices: 55335377--55335588 Score: 205
Period size: 83 Copynumber: 2.5 Consensus size: 81
55335367 TTCAAAGGTA
** *
55335377 GCCACAAAGGCTTCCATTACAAAGATTTCCATAAAGACTTTCTTTAACAGAGATCACCACAACGA
1 GCCACAAAGGCTTCC-TTACAAAGATCGCCATAAAGACTTTCTTTAACAGAGATCACCACAAAGA
*
55335442 CTTCCTTTATAGAGATT
65 CTTCCTTTACAGAGATT
* ** * *
55335459 GTCACAAGAGTTTTCCTTA-ATAGAGATCGCCATAAAGGC-TTCTTTTAAGAGAGATCACCACAA
1 GCCACAA-AGGCTTCCTTACA-A-AGATCGCCATAAAGACTTTC-TTTAACAGAGATCACCACAA
*
55335522 AGTCTTCCTTTAACAGAGATCT
62 AGACTTCCTTT-ACAGAGAT-T
* * *
55335544 -CCACAAAGGCTTCCTTTACAAAGATTGCCACAAAGGCATTTCTTT
1 GCCACAAAGGCTTCC-TTACAAAGATCGCCATAAAGAC-TTTCTTT
55335589 CCATAAGATT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
81 1 0.01
82 13 0.12
83 67 0.64
84 19 0.18
85 5 0.05
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (81 bp):
GCCACAAAGGCTTCCTTACAAAGATCGCCATAAAGACTTTCTTTAACAGAGATCACCACAAAGAC
TTCCTTTACAGAGATT
Found at i:55335602 original size:29 final size:27
Alignment explanation
Indices: 55335361--55335724 Score: 138
Period size: 28 Copynumber: 13.0 Consensus size: 27
55335351 CACGAAGCCG
* * *
55335361 TTCCTTTTCAAAGGTAGCCACAAAGGC
1 TTCCTTTACAAAGATTGCCACAAAGGC
* * * *
55335388 TTCCATTACAAAGATTTCCATAAAGAC
1 TTCCTTTACAAAGATTGCCACAAAGGC
* * ** * *
55335415 TTTCTTTAACAGAGATCACCACAACGAC
1 TTCCTTT-ACAAAGATTGCCACAAAGGC
* * * **
55335443 TTCCTTTATAGAGATTGTCACAAGAGTT
1 TTCCTTTACAAAGATTGCCACAA-AGGC
* * * * *
55335471 TTCCTTAATAGAGATCGCCATAAAGGC
1 TTCCTTTACAAAGATTGCCACAAAGGC
* ** *
55335498 TTCTTTTA-AGAGAGATCACCACAAAGTC
1 TTCCTTTACA-A-AGATTGCCACAAAGGC
*
55335526 TTCCTTTAACAGAGATCT-CCACAAAGGC
1 TTCCTTT-ACAAAGAT-TGCCACAAAGGC
55335554 TTCCTTTACAAAGATTGCCACAAAGGC
1 TTCCTTTACAAAGATTGCCACAAAGGC
* * * *
55335581 ATTTCTTTCCATAAGATTGCCACGAAGTC
1 -TTCCTTTACA-AAGATTGCCACAAAGGC
* * ** ** *
55335610 ATCCATTTTCATTTACTACTCACCACAAAGAC
1 TTCC-TTTACA---AAGA-TTGCCACAAAGGC
* * *
55335642 TTTCTTTTCAAAAATTGCCACAAAGGC
1 TTCCTTTACAAAGATTGCCACAAAGGC
** * * *
55335669 GCCCTTTAAAAAGATTGCCATAAAGGTG
1 TTCCTTTACAAAGATTGCCACAAAGG-C
* *
55335697 TTTCTTTCACTAAGATTGCCACAAAGGC
1 TTCCTTT-ACAAAGATTGCCACAAAGGC
55335725 ATCCATTTTC
Statistics
Matches: 247, Mismatches: 74, Indels: 31
0.70 0.21 0.09
Matches are distributed among these distances:
26 2 0.01
27 91 0.37
28 96 0.39
29 37 0.15
30 1 0.00
31 9 0.04
32 11 0.04
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (27 bp):
TTCCTTTACAAAGATTGCCACAAAGGC
Found at i:55335791 original size:115 final size:113
Alignment explanation
Indices: 55335513--55335808 Score: 324
Period size: 115 Copynumber: 2.6 Consensus size: 113
55335503 TTAAGAGAGA
* *
55335513 TCACCACAAAGTCTTCCTTTAACAGAGATCTCCACAAAGGCTTCCTTTACAAAGATTGCCACAAA
1 TCACCACAAAGTCTTTCTTT--CAGAGATCGCCACAAAGGCTT-CTTTACAAAGATTGCCACAAA
* * *
55335578 GGCATTTCTTTCCATAAGATTGCCACGAAGTCATCCATTTTCATTTACTAC
63 GGCATTTCTTTCCATAAGATTGCCACAAAGGCATCCATTTTCATTCACTAC
* * * * ** * *
55335629 TCACCACAAAGACTTTCTTTTCAAAAATTGCCACAAAGGCGCCCTTTAAAAAGATTGCCATAAAG
1 TCACCACAAAGTCTTTC-TTTCAGAGATCGCCACAAAGGC-TTCTTTACAAAGATTGCCACAAAG
** * *
55335694 GTGTTTCTTT-CACTAAGATTGCCACAAAGGCATCCATTTTCCTTCAGTAC
64 GCATTTCTTTCCA-TAAGATTGCCACAAAGGCATCCATTTTCATTCACTAC
* * * *
55335744 TCACAACAAAGTCTTTTCTTTCAGAGATCGCTACAGAGGCATTCTTTACAAAGATTTCCACAAAG
1 TCACCACAAAGTC-TTTCTTTCAGAGATCGCCACAAAGGC-TTCTTTACAAAGATTGCCACAAAG
55335809 ACATCCCCCA
Statistics
Matches: 146, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
114 2 0.01
115 122 0.84
116 19 0.13
117 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (113 bp):
TCACCACAAAGTCTTTCTTTCAGAGATCGCCACAAAGGCTTCTTTACAAAGATTGCCACAAAGGC
ATTTCTTTCCATAAGATTGCCACAAAGGCATCCATTTTCATTCACTAC
Found at i:55337172 original size:29 final size:29
Alignment explanation
Indices: 55337097--55337213 Score: 146
Period size: 29 Copynumber: 4.1 Consensus size: 29
55337087 AAATTCACAT
* *
55337097 ACCTGTATTTGGCCCATTAAGCCC-AATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
** ** *
55337125 ATATCCATAGGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
**
55337154 ACCTGTATATGGCTTATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
55337183 ACCTGTATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
55337212 AC
1 AC
55337214 ATTTATATAG
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 17 0.24
29 55 0.76
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAGGCCCAAATC
Found at i:55337220 original size:29 final size:29
Alignment explanation
Indices: 55337100--55337243 Score: 139
Period size: 29 Copynumber: 5.0 Consensus size: 29
55337090 TTCACATACC
* * *
55337100 TGTATTTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
** * *
55337128 TCCATAGGGCCCATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
** *
55337157 TGTATATGGCTTATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
55337186 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * ** *
55337215 TTTATATAGATCGTTAGGCCC-AATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
55337243 T
1 T
55337244 TCATATTCAT
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 24 0.25
29 71 0.75
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:55337487 original size:16 final size:16
Alignment explanation
Indices: 55337466--55337496 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55337456 AAACTTTTGG
55337466 CTTTTCAACATTTCGA
1 CTTTTCAACATTTCGA
*
55337482 CTTTTCAGCATTTCG
1 CTTTTCAACATTTCG
55337497 GCATTTCGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.26, G:0.10, T:0.45
Consensus pattern (16 bp):
CTTTTCAACATTTCGA
Found at i:55338757 original size:15 final size:16
Alignment explanation
Indices: 55338726--55338757 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55338716 TAAAATTCAA
55338726 GATTTCGGGACTTTTG
1 GATTTCGGGACTTTTG
55338742 GATTTCGGGA-TTTTG
1 GATTTCGGGACTTTTG
55338757 G
1 G
55338758 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.12, C:0.09, G:0.34, T:0.44
Consensus pattern (16 bp):
GATTTCGGGACTTTTG
Found at i:55343283 original size:17 final size:18
Alignment explanation
Indices: 55343261--55343295 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
55343251 TCATATTGAA
55343261 GTGTTTT-AGTGAAAATC
1 GTGTTTTCAGTGAAAATC
*
55343278 GTGTTTTCATTGAAAATC
1 GTGTTTTCAGTGAAAATC
55343296 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAATC
Found at i:55344320 original size:17 final size:18
Alignment explanation
Indices: 55344298--55344331 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55344288 GCCTATTATG
55344298 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
55344315 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
55344332 TTTGGCCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:55345722 original size:16 final size:16
Alignment explanation
Indices: 55345701--55345733 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55345691 AAAAATTCAA
55345701 GATTTCAGGACTTTTG
1 GATTTCAGGACTTTTG
*
55345717 GATTTCAGGATTTTTG
1 GATTTCAGGACTTTTG
55345733 G
1 G
55345734 GGCGTTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.27, T:0.45
Consensus pattern (16 bp):
GATTTCAGGACTTTTG
Found at i:55346242 original size:20 final size:21
Alignment explanation
Indices: 55346205--55346245 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
55346195 AAAAAATAAA
*
55346205 AAAAATAATATTTCGAAAAAT
1 AAAAATAATATTTAGAAAAAT
*
55346226 AAAAAT-ATTTTTAGAAAAAT
1 AAAAATAATATTTAGAAAAAT
55346246 TAATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAAATAATATTTAGAAAAAT
Found at i:55350892 original size:40 final size:40
Alignment explanation
Indices: 55350813--55350980 Score: 232
Period size: 40 Copynumber: 4.2 Consensus size: 40
55350803 CGGATGATAA
* * * *
55350813 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
55350853 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
55350893 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
55350933 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
55350973 CC-GGCTAA
1 CCGGGCTAA
55350981 ATCCCGAGGA
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 8 0.07
40 102 0.91
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:55358872 original size:40 final size:40
Alignment explanation
Indices: 55358793--55358920 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 40
55358783 CGGATGATAA
* * ** *
55358793 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * *
55358833 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
*
55358873 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
55358913 CC-GGCTAA
1 CCGGGCTAA
55358921 ATCCCGAGGA
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
39 8 0.11
40 64 0.86
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:55360648 original size:24 final size:24
Alignment explanation
Indices: 55360601--55360655 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
55360591 TTCATTGTCG
55360601 GCACCACTGTAGCCACATGAAGAT
1 GCACCACTGTAGCCACATGAAGAT
* * ** *
55360625 GTACCACTGTTGCCGTATGGAGAT
1 GCACCACTGTAGCCACATGAAGAT
55360649 GCACCAC
1 GCACCAC
55360656 CGCGACTATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (24 bp):
GCACCACTGTAGCCACATGAAGAT
Found at i:55374357 original size:46 final size:46
Alignment explanation
Indices: 55374301--55374429 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
55374291 TGGTTGAGCA
* * *
55374301 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
55374347 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
55374393 CCCGAGCTCGTTGAGTTGAGTCCGATTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55374430 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:55381232 original size:46 final size:45
Alignment explanation
Indices: 55381176--55381351 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
55381166 TGGTTGAGCA
*
55381176 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
55381222 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
55381269 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
55381315 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55381352 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:55381332 original size:93 final size:93
Alignment explanation
Indices: 55381173--55381343 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55381163 GGATGGTTGA
* *
55381173 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
55381238 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
55381266 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
55381331 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55381344 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:55386495 original size:44 final size:44
Alignment explanation
Indices: 55386447--55386611 Score: 174
Period size: 44 Copynumber: 3.6 Consensus size: 44
55386437 TATTCGTGCT
55386447 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCC
* * *
55386491 GATGCATGTCCCAGACATGTCTTACACTGGCTC-TCGTC-TCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATC-TCGT--A-GCC
* * * *
55386537 AATGCATGTCCTAGACATGTCTTACACTAGCATTTCATAAT-GTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA---CAT-CTCGTAGCC
55386584 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
55386612 GGCTCACATA
Statistics
Matches: 99, Mismatches: 12, Indels: 17
0.77 0.09 0.13
Matches are distributed among these distances:
43 3 0.03
44 33 0.33
45 1 0.01
46 30 0.30
47 28 0.28
49 1 0.01
50 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCC
Found at i:55386559 original size:46 final size:45
Alignment explanation
Indices: 55386406--55386616 Score: 164
Period size: 44 Copynumber: 4.6 Consensus size: 45
55386396 CGATGCCATA
* * * *
55386406 TCCCAGATATGGTCTTACACTGGCTCTCACATATTCGTGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTCT-TCATAAT-GTGC-AATGCATG
* * * * *
55386455 TCCCAGACATGTCTTACACTAGCACATCTCGT-A-G-CCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTC-T-TCATAATGTGCAATGCATG
55386499 TCCCAGACATGTCTTACACTGGCTCTCGTC-TCAATGT-CAATGCATG
1 TCCCAGACATGTCTTACACTGGCTCT--TCAT-AATGTGCAATGCATG
* * *
55386545 TCCTAGACATGTCTTACACTAGCAT-TTCATAATGTGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGC-TCTTCATAATGT-G-CAATGCATG
55386592 TCCCAGACATGTCTTACACTGGCTC
1 TCCCAGACATGTCTTACACTGGCTC
55386617 ACATAACAGC
Statistics
Matches: 134, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
43 2 0.01
44 40 0.30
45 3 0.02
46 33 0.25
47 30 0.22
48 13 0.10
49 13 0.10
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (45 bp):
TCCCAGACATGTCTTACACTGGCTCTTCATAATGTGCAATGCATG
Found at i:55386610 original size:93 final size:90
Alignment explanation
Indices: 55386448--55386616 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 90
55386438 ATTCGTGCTG
*
55386448 ATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATGTCCCAGACATGTCT
1 ATGCATGTCCCAGACATGTCTTACACTAGCACATATCGTAGCCGATGCATGTCCCAGACATGTCT
55386513 TACACTGGCTCTCGTCTCAATGTCA
66 TACACTGGCTCTCGTCTCAATGTCA
* *
55386538 ATGCATGTCCTAGACATGTCTTACACTAGCATTTCATAAT-GTGGCCGATGCATGTCCCAGACAT
1 ATGCATGTCCCAGACATGTCTTACACTAGCA---CAT-ATCGTAGCCGATGCATGTCCCAGACAT
55386602 GTCTTACACTGGCTC
62 GTCTTACACTGGCTC
55386617 ACATAACAGC
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
90 30 0.42
93 41 0.57
94 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (90 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACATATCGTAGCCGATGCATGTCCCAGACATGTCT
TACACTGGCTCTCGTCTCAATGTCA
Found at i:55400705 original size:55 final size:53
Alignment explanation
Indices: 55400591--55400779 Score: 236
Period size: 55 Copynumber: 3.5 Consensus size: 53
55400581 AACTTACCAG
* * *
55400591 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
55400644 TGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
55400699 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
55400753 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
55400780 ATATCCTTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 35 0.30
55 44 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:55401646 original size:30 final size:31
Alignment explanation
Indices: 55401603--55401660 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
55401593 CTAACTCAAA
55401603 CTTTGGCAAAATTAAAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTAAAATTTTGCCCCTAAAC
* **
55401634 CTTT-GCAGAATTACCATTTTGCCCCTA
1 CTTTGGCAAAATTAAAATTTTGCCCCTA
55401661 GGATCGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (31 bp):
CTTTGGCAAAATTAAAATTTTGCCCCTAAAC
Found at i:55405191 original size:38 final size:38
Alignment explanation
Indices: 55405148--55405356 Score: 141
Period size: 38 Copynumber: 5.0 Consensus size: 38
55405138 TTTCAAATTA
55405148 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
55405186 ACATGTTTAACAGTGGTATGTCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
55405227 GAATCAATATATGTAACTGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
*
55405271 ACATGAATCAATATGTGTTATCGT-GCTATATCCACTTAGCACCACGTT
1 ACATG--T--ATA------ACCGTGGC-ATATCCACTTAGCACCACGTT
* * *
55405319 ACACGTATAACCATGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
55405357 TTTCCATTCC
Statistics
Matches: 134, Mismatches: 16, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
38 56 0.42
39 2 0.01
40 2 0.01
41 2 0.01
42 4 0.03
43 1 0.01
44 6 0.04
45 3 0.02
46 2 0.01
47 28 0.21
48 28 0.21
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:55405302 original size:48 final size:48
Alignment explanation
Indices: 55405206--55405321 Score: 175
Period size: 48 Copynumber: 2.4 Consensus size: 48
55405196 CAGTGGTATG
55405206 TCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACTGTGGCATA
1 TCCACTTAGCACCACGTTACATGAATCAATATATGTAACTGTGGCATA
* *
55405253 TCCACTTAGCACCACGTTACATGAATCAATATGTGTTA-TCGT-GCTATA
1 TCCACTTAGCACCACGTTACATGAATCAATATATGTAACT-GTGGC-ATA
55405301 TCCACTTAGCACCACGTTACA
1 TCCACTTAGCACCACGTTACA
55405322 CGTATAACCA
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
47 22 0.34
48 42 0.66
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (48 bp):
TCCACTTAGCACCACGTTACATGAATCAATATATGTAACTGTGGCATA
Found at i:55405343 original size:133 final size:131
Alignment explanation
Indices: 55405106--55405356 Score: 337
Period size: 133 Copynumber: 1.9 Consensus size: 131
55405096 TTGGGCTAAC
* * * *
55405106 ATGTAATTGTGGCATACGCACTTAGCACCACTTTTCAAATTAACATGTATAACCGTGGCATATCC
1 ATGTAACTGTGGCATACGCACTTAGCACCACGTTACAAATCAACATGTATAACCGTGGCATATCC
* * *
55405171 ACTTAGCACCACGTTACATGTTTAACAGTGGTATGTCCACTTAGCACCACGTTAATGAATCAATA
66 ACTTAGCACCACGTTACACGTATAACAGTGGTATATCCACTTAGCACCACGTTAATGAATCAATA
55405236 T
131 T
* * * *
55405237 ATGTAACTGTGGCATATC-CACTTAGCACCACGTTACATGAATCAATATGTGTTATCGT-GCTAT
1 ATGTAACTGTGGCATA-CGCACTTAGCACCACGTTACA--AATCAACATGTATAACCGTGGC-AT
55405300 ATCCACTTAGCACCACGTTACACGTATAACCA-TGGTATATCCACTTAGCACCACGTT
62 ATCCACTTAGCACCACGTTACACGTATAA-CAGTGGTATATCCACTTAGCACCACGTT
55405357 TTTCCATTCC
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
131 32 0.31
132 3 0.03
133 67 0.64
134 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (131 bp):
ATGTAACTGTGGCATACGCACTTAGCACCACGTTACAAATCAACATGTATAACCGTGGCATATCC
ACTTAGCACCACGTTACACGTATAACAGTGGTATATCCACTTAGCACCACGTTAATGAATCAATA
T
Found at i:55408054 original size:15 final size:15
Alignment explanation
Indices: 55408031--55408072 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
55408021 GAAGCCTAGA
*
55408031 ATAAGGAAATCTAAG
1 ATAAGGAAATCCAAG
* *
55408046 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
55408061 ATAAGGAAATCC
1 ATAAGGAAATCC
55408073 CATTTACAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:55409178 original size:9 final size:11
Alignment explanation
Indices: 55409152--55409183 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
55409142 TCTTACACAT
55409152 TATCATATACA
1 TATCATATACA
55409163 TATCATA-ACA
1 TATCATATACA
55409173 -ATCATATACA
1 TATCATATACA
55409183 T
1 T
55409184 CAGTCCAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.32
10 6 0.32
11 7 0.37
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
TATCATATACA
Found at i:55411341 original size:38 final size:38
Alignment explanation
Indices: 55411298--55411505 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
55411288 TTTCAAATTA
55411298 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
55411336 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTCAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGT---T
* * *
55411377 GAATCAATATATGTAACTGTGGCATATCCACCTAGCACCAC-TT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
**
55411420 ACATGTATCAATATGTGTAATCATGCTATATCCACTTAGCACCACGTT
1 ACATGTAT-AA-CCGTG-------GC-ATATCCACTTAGCACCACGTT
* *
55411468 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
55411506 TTTCCATTCC
Statistics
Matches: 136, Mismatches: 14, Indels: 40
0.72 0.07 0.21
Matches are distributed among these distances:
37 1 0.01
38 58 0.43
39 9 0.07
40 1 0.01
41 2 0.01
43 2 0.01
44 1 0.01
45 3 0.02
46 6 0.04
47 44 0.32
48 9 0.07
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:55411430 original size:47 final size:47
Alignment explanation
Indices: 55411343--55411475 Score: 137
Period size: 47 Copynumber: 2.8 Consensus size: 47
55411333 GTTACATGTT
* * * *
55411343 TAACCGTGGTATATCCACTTAGCACCACGT-CAATGAATCAATATATG
1 TAACTGTGGCATATCCACTTAGCACCACTTAC-ATGTATCAATATATG
* *
55411390 TAACTGTGGCATATCCACCTAGCACCACTTACATGTATCAATATGTG
1 TAACTGTGGCATATCCACTTAGCACCACTTACATGTATCAATATATG
* *
55411437 TAA-TCAT-GCTATATCCACTTAGCACCACGTTACACGTAT
1 TAACT-GTGGC-ATATCCACTTAGCACCAC-TTACATGTAT
55411476 AACCGTGGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
46 3 0.04
47 60 0.82
48 10 0.14
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (47 bp):
TAACTGTGGCATATCCACTTAGCACCACTTACATGTATCAATATATG
Found at i:55414842 original size:50 final size:50
Alignment explanation
Indices: 55414784--55415121 Score: 395
Period size: 50 Copynumber: 6.9 Consensus size: 50
55414774 TGATGCTAGG
* *
55414784 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGACCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
55414834 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGTACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * *
55414884 GAAATATGAGAGCTAGTGTAAGACCATGTTTGGGATATGGCAAT-GGCCTT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC-ATCGGCCTC
* *
55414934 GAGATATGAGAGCTAGTGTAAGACCGTGTCTAGGACATGGCATCGG-CT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * *
55414982 -TGATATGTG-TC-AGTGTAAGACCATGTCTGGGAAATGGTATTGGCACT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
* * * * *
55415029 GATAGATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATTGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* *
55415079 GATATACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCAT
55415122 TGACTTTGAT
Statistics
Matches: 246, Mismatches: 33, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
45 27 0.11
46 1 0.00
47 9 0.04
48 5 0.02
49 7 0.03
50 195 0.79
51 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:55420273 original size:39 final size:39
Alignment explanation
Indices: 55420219--55420334 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
55420209 TTCAGTGATG
*
55420219 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
55420258 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
55420297 TATATTCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
55420335 ATATGTCCAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:55420358 original size:39 final size:39
Alignment explanation
Indices: 55420219--55420371 Score: 148
Period size: 39 Copynumber: 3.9 Consensus size: 39
55420209 TTCAGTGATG
** * * *
55420219 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
** * *
55420258 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* *
55420297 TATATTCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * *
55420336 TATGTCCAGG-C-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCC-GGACTTAAAGT-CCGCAGGCTACGTGCTGG
55420372 TATTATACCG
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 5 0.05
39 95 0.93
40 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:55420358 original size:78 final size:78
Alignment explanation
Indices: 55420219--55420362 Score: 184
Period size: 78 Copynumber: 1.8 Consensus size: 78
55420209 TTCAGTGATG
* * * * **
55420219 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
55420284 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* *
55420297 TATATTCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCAGG-C-TAAAGTCCCGCAG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCC-GGACTTAAAGT-CCGCAG
55420360 GCT
64 GCT
55420363 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
77 4 0.07
78 50 0.89
79 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:55420371 original size:78 final size:78
Alignment explanation
Indices: 55420219--55420382 Score: 183
Period size: 78 Copynumber: 2.1 Consensus size: 78
55420209 TTCAGTGATG
* * * * **
55420219 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
55420284 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* *
55420297 TATATTCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCAGG-C-TAAAGTCCCGCAG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCC-GGACTTAAAGT-CCGCAG
*
55420360 GCT-TCGAGCTGGTAT
64 GCTAT-GAGCTGGAAT
55420375 TATA-CCGG
1 TATATCCGG
55420383 GTTTAAATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
77 8 0.11
78 62 0.86
79 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:55421949 original size:14 final size:14
Alignment explanation
Indices: 55421930--55421961 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
55421920 TTAAATTAAA
55421930 ATAATATAAAATTT
1 ATAATATAAAATTT
*
55421944 ATAATATAACATTT
1 ATAATATAAAATTT
55421958 ATAA
1 ATAA
55421962 AAATAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATATAAAATTT
Found at i:55427040 original size:26 final size:26
Alignment explanation
Indices: 55427010--55427061 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
55427000 TCATCTACTT
55427010 CACATTTTAACTAAGTGTAACATCTC
1 CACATTTTAACTAAGTGTAACATCTC
55427036 CACATTTTAACTAAGTGTAACATCTC
1 CACATTTTAACTAAGTGTAACATCTC
55427062 AATTTTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (26 bp):
CACATTTTAACTAAGTGTAACATCTC
Found at i:55430025 original size:22 final size:21
Alignment explanation
Indices: 55429984--55430041 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
55429974 ATTTTAATCG
**
55429984 AGATTTTATT-TACTTATTTA
1 AGATTTTATTATTTTTATTTA
* *
55430004 TGTTTTTATTCATTTTTATTTA
1 AGATTTTATT-ATTTTTATTTA
55430026 AGATTTTATTATTTTT
1 AGATTTTATTATTTTT
55430042 TTAAATTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 8 0.27
21 6 0.20
22 16 0.53
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.67
Consensus pattern (21 bp):
AGATTTTATTATTTTTATTTA
Found at i:55430042 original size:22 final size:22
Alignment explanation
Indices: 55429997--55430041 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
55429987 TTTTATTTAC
* *
55429997 TTATTTATGTTTTTATTCATTT
1 TTATTTAAGATTTTATTCATTT
55430019 TTATTTAAGATTTTATT-ATTT
1 TTATTTAAGATTTTATTCATTT
55430040 TT
1 TT
55430042 TTAAATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (22 bp):
TTATTTAAGATTTTATTCATTT
Found at i:55430424 original size:29 final size:29
Alignment explanation
Indices: 55430392--55430464 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
55430382 CATCTGTTAT
55430392 TTTATACATATAATTT-TTTTTAAAATATA
1 TTTATA-ATATAATTTGTTTTTAAAATATA
* *
55430421 TTTAT-ATATATTTGTGTTTTTAAAATTTA
1 TTTATAATATAATT-TGTTTTTAAAATATA
*
55430450 -TTACATATATAATTT
1 TTTATA-ATATAATTT
55430465 AAGATAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
27 7 0.19
28 4 0.11
29 18 0.50
30 7 0.19
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTATAATATAATTTGTTTTTAAAATATA
Found at i:55433549 original size:37 final size:37
Alignment explanation
Indices: 55433499--55433577 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55433489 TTATTACGAA
* * *
55433499 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55433536 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55433573 GTCTT
1 GTCTT
55433578 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55433769 original size:47 final size:47
Alignment explanation
Indices: 55433696--55434074 Score: 598
Period size: 47 Copynumber: 8.1 Consensus size: 47
55433686 CCCTTCGGGA
* ** * * *
55433696 CTTATCACATTTACGCACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55433743 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55433789 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
55433836 CTTATTACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55433883 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55433930 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55433977 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55434024 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55434071 CTTA
1 CTTA
55434075 CTATCATTTC
Statistics
Matches: 311, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 41 0.13
47 270 0.87
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55437486 original size:40 final size:40
Alignment explanation
Indices: 55437442--55437545 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 40
55437432 GAATACATGT
* * * *
55437442 CACCAGCATGATTGCTTTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * ***
55437482 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
*
55437522 CACTAGCACGAATGCTCTTCGGAA
1 CACCAGCACGAATGCTCTTCGGAA
55437546 TTTAGCCCAG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:55437591 original size:40 final size:41
Alignment explanation
Indices: 55437563--55437719 Score: 216
Period size: 40 Copynumber: 3.9 Consensus size: 41
55437553 CAGATTTAGT
55437563 AACTCGCACCAA-TGCCTTCGGGTCTTAGCCCGGATATATC
1 AACTCGCACCAATTGCCTTCGGGTCTTAGCCCGGATATATC
*
55437603 AACTTGCA-CAATTGCCTTCGGGTCTTAGCCCGGATATATC
1 AACTCGCACCAATTGCCTTCGGGTCTTAGCCCGGATATATC
* *
55437643 AATTCGCA-CAAATGCCTTCGGGTCTTAGCCCGGATATAATC
1 AACTCGCACCAATTGCCTTCGGGTCTTAGCCCGGATAT-ATC
* * *
55437684 -ACTAGC-TCAATTGCCTTCGGGACTTAGCCCGGATAT
1 AACTCGCACCAATTGCCTTCGGGTCTTAGCCCGGATAT
55437720 CATTCAAATG
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.94
41 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (41 bp):
AACTCGCACCAATTGCCTTCGGGTCTTAGCCCGGATATATC
Found at i:55437596 original size:80 final size:80
Alignment explanation
Indices: 55437487--55437719 Score: 226
Period size: 80 Copynumber: 2.9 Consensus size: 80
55437477 TATAACACCA
* ** * *
55437487 GCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGAA-TGCTCTTCGGAAT-TT
1 GCACAAATGC-CTTCGGGTCTTAGCCCGGATACATCAACTAGCAC-AATTGC-CTTCGG-ATCTT
*
55437549 AGCCCAGATTTAGT-AACTC
62 AGCCCAGATATA-TCAACTC
* * * *
55437568 GCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCACAATTGCCTTCGGATCTTAGCC
* *
55437633 CGGATATATCAATTC
66 CAGATATATCAACTC
* *
55437648 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCTCAATTGCCTTCGGGA-CTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA-CATCAACTAGCACAATTGCCTTC-GGATCTTAG
*
55437711 CCCGGATAT
64 CCCAGATAT
55437720 CATTCAAATG
Statistics
Matches: 130, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
79 2 0.02
80 104 0.80
81 24 0.18
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCACAATTGCCTTCGGATCTTAGCC
CAGATATATCAACTC
Found at i:55438047 original size:29 final size:29
Alignment explanation
Indices: 55438008--55438086 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
55437998 CTTAATAATC
*
55438008 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
55438038 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
55438067 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
55438087 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:55438129 original size:43 final size:43
Alignment explanation
Indices: 55438068--55438256 Score: 333
Period size: 43 Copynumber: 4.4 Consensus size: 43
55438058 TGCATTTCAA
*
55438068 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
55438111 GCCCGCACACTTAGTGCCAATCTCCCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
* *
55438154 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
55438197 GCCCACACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
55438240 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
55438257 TGAAAACCAA
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 138 1.00
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:55440172 original size:37 final size:37
Alignment explanation
Indices: 55440122--55440200 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55440112 TTATTACGAA
* * *
55440122 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55440159 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55440196 GTCTT
1 GTCTT
55440201 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55440392 original size:47 final size:47
Alignment explanation
Indices: 55440319--55440697 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
55440309 CCCTTCGGGA
* ** * * * *
55440319 CTTATCACATTTACGCACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55440366 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55440412 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
55440459 CTTATTACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55440506 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55440553 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55440600 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
55440647 CTTATCACCCATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55440694 CTTA
1 CTTA
55440698 CTATCATTTC
Statistics
Matches: 309, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 40 0.13
47 269 0.87
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55446242 original size:28 final size:28
Alignment explanation
Indices: 55446202--55446280 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
55446192 GCAATCAAAT
* * *
55446202 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
55446230 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
55446258 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
55446281 CGAATGATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:55448006 original size:57 final size:57
Alignment explanation
Indices: 55447923--55448166 Score: 346
Period size: 57 Copynumber: 4.2 Consensus size: 57
55447913 AAGTGAACAT
* * * * *
55447923 AGGCACTGTGTGTGTGAGTTCTGTAACCGAGTATTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
55447980 AGGCACTGTATGTGCGTGTTTCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
*
55448037 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
55448094 AGGCACTGTGTGTGCGAGTTCCATAACCAAGCACTGTGTGTGCAAGATCAGTTGTT-
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
55448150 AGGGCACTAAGTGTGTG
1 A-GGCACT--GTGTGTG
55448167 AAATGAGATC
Statistics
Matches: 168, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
56 1 0.01
57 160 0.95
59 7 0.04
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:55448044 original size:29 final size:29
Alignment explanation
Indices: 55447957--55448111 Score: 136
Period size: 29 Copynumber: 5.4 Consensus size: 29
55447947 AACCGAGTAT
55447957 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
* * * **** *
55447986 TGTATGTGCGTGTTTC-G-TAACCAAGCAC
1 TGTGTGTGCGAG-ATCGGTTGTTGAGGCAC
55448014 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
* * **** *
55448043 TGTGTGTGCGAGTTCCG-TAACCAAGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
*
55448071 TGTGTGTGCGAGATCGATTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
55448100 TGTGTGTGCGAG
1 TGTGTGTGCGAG
55448112 TTCCATAACC
Statistics
Matches: 91, Mismatches: 31, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
27 2 0.02
28 37 0.41
29 50 0.55
30 2 0.02
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.30
Consensus pattern (29 bp):
TGTGTGTGCGAGATCGGTTGTTGAGGCAC
Found at i:55448079 original size:28 final size:28
Alignment explanation
Indices: 55447982--55448136 Score: 123
Period size: 28 Copynumber: 5.5 Consensus size: 28
55447972 GGTTGTTGAG
* * *
55447982 GCACTGTATGTGCGTGTTTCGTAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCAA
* * **** *
55448010 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGTTCCG-TAACCAA
55448039 GCACTGTGTGTGCGAGTTCCGTAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCAA
* **** *
55448067 GCACTGTGTGTGCGAGAT-CGATTGTTGAG
1 GCACTGTGTGTGCGAGTTCCG--TAACCAA
*
55448096 GCACTGTGTGTGCGAGTTCCATAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCAA
55448124 GCACTGTGTGTGC
1 GCACTGTGTGTGC
55448137 AAGATCAGTT
Statistics
Matches: 93, Mismatches: 30, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
27 2 0.02
28 50 0.54
29 40 0.43
30 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCAA
Found at i:55449600 original size:17 final size:18
Alignment explanation
Indices: 55449570--55449609 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 18
55449560 TCATATGAGA
55449570 ATATTATCTATATATATTG
1 ATATTATC-ATATATATTG
55449589 ATATTATC-TATATATTG
1 ATATTATCATATATATTG
55449606 ATAT
1 ATAT
55449610 ATGAAAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (18 bp):
ATATTATCATATATATTG
Found at i:55451364 original size:40 final size:40
Alignment explanation
Indices: 55451271--55451486 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
55451261 AAGCCAAGTA
* * *
55451271 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
55451309 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55451349 CCTTCGGGACTTAGCCCGAATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55451389 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
55451429 CCTTCGGGACTTAGCCCGGA-ACTAGT-CCTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
55451468 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55451487 TTATCATCCA
Statistics
Matches: 160, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 12 0.08
39 47 0.29
40 101 0.63
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55454208 original size:13 final size:13
Alignment explanation
Indices: 55454190--55454217 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55454180 ACATATTATA
55454190 AATATTTTGTGTT
1 AATATTTTGTGTT
55454203 AATATTTTGTGTT
1 AATATTTTGTGTT
55454216 AA
1 AA
55454218 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:55455681 original size:40 final size:40
Alignment explanation
Indices: 55455633--55455958 Score: 501
Period size: 40 Copynumber: 8.2 Consensus size: 40
55455623 GGACTAAGAT
55455633 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
55455673 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
55455713 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
55455753 CCGAAGGCATTTGTACAAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
55455793 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
55455833 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
55455873 CCGAAGGCATTTGTGCTAGTAATTATATCCGAGCAAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
55455913 CCAAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
55455952 CCGAAGG
1 CCGAAGG
55455959 TACTTGGGTT
Statistics
Matches: 259, Mismatches: 27, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 12 0.05
40 247 0.95
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:55459996 original size:28 final size:28
Alignment explanation
Indices: 55459956--55460034 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
55459946 GCAATCAAAT
* * *
55459956 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
55459984 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
55460012 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
55460035 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:55463573 original size:18 final size:17
Alignment explanation
Indices: 55463543--55463598 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
55463533 GAAACTTTTT
* *
55463543 AAAAAAATCAAAATAAA
1 AAAAAAATAAAAAGAAA
55463560 AAAAGAAATAAAAAGAAA
1 AAAA-AAATAAAAAGAAA
**
55463578 AAATCCAA-AAAAAGAAA
1 AAA-AAAATAAAAAGAAA
55463595 AAAA
1 AAAA
55463599 GAACTAATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAAAATAAAAAGAAA
Found at i:55464777 original size:64 final size:64
Alignment explanation
Indices: 55464702--55464893 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
55464692 TCATTCATAA
* ** *
55464702 CACATCCAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
* * *
55464766 CACATCTAGTTAGGTGCATTTGATTCATTTTGATCATATCATCCTAATTATTTGACATAAACAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
*
55464830 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
55464894 GATACATGAA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 118 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
Found at i:55467000 original size:40 final size:39
Alignment explanation
Indices: 55466916--55467100 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
55466906 TTGAATGATG
* * * *
55466916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
55466956 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
55466996 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55467035 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
55467076 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
55467101 AACGAGCAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55467052 original size:79 final size:81
Alignment explanation
Indices: 55466916--55467100 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
55466906 TTGAATGATG
* *
55466916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
55466980 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
55466995 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
55467057 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* * *
55467075 ACTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55467101 AACGAGCAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:55467122 original size:79 final size:79
Alignment explanation
Indices: 55466969--55467123 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
55466959 GGACTAAGAT
* * ** *
55466969 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTCACTAA
55467034 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
55467048 CCGAAGGCAATTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-CAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTCA-C
*
55467111 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
55467124 ATTCTGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 37 0.58
80 25 0.39
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTCACTAA
ATCCGGGTTAAGTC
Found at i:55474987 original size:79 final size:81
Alignment explanation
Indices: 55474851--55475035 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
55474841 TTGAATGATG
* *
55474851 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
55474915 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
55474930 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
55474992 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
55475010 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55475036 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:55475049 original size:40 final size:40
Alignment explanation
Indices: 55474852--55475035 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
55474842 TGAATGATGT
* * * *
55474852 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
55474892 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
55474932 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
55474970 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55475011 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55475036 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:55475057 original size:79 final size:79
Alignment explanation
Indices: 55474904--55475068 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
55474894 GGACTAAGAT
* * **
55474904 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
55474969 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
55474983 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
55475046 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
55475062 CCGAAGG
1 CCGAAGG
55475069 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:55476690 original size:180 final size:179
Alignment explanation
Indices: 55476383--55476890 Score: 632
Period size: 180 Copynumber: 2.8 Consensus size: 179
55476373 CGGGGTGTTA
* * * *
55476383 CAGATCTTCACAGATGTCTAATCTTATCTCCATGTATCGGCAATGGGGCAGATTTAAGCCATCAG
1 CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATAGGCAATGGGGCAGATTTAAGCCACCAG
*
55476448 CCTTATCTCTCTGAGGTAATAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGTAA
66 CCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGTAA
* * **
55476513 GGAAGTAGACTGG-GAATTGAAAATTTTATCTCCCTGAAGTTGCAGCGGAG
131 GGAAGCAGACTGGCG-ATTGAAAATCTTATCTCCCT-AAGCAGCAGCGGAG
* **
55476563 CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATTGGCAATGGGGTGGATTTAAGCCACCAG
1 CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATAGGCAATGGGGCAGATTTAAGCCACCAG
*
55476628 CCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGTAA
66 CCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGTAA
* * * * *
55476693 GAAAGCGGATTGGCGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAG
131 GGAAGCAGACTGGCGATTGAAAATCTTATCTCCCTAAGCAGCAGCGGAG
* ** * * * * * * **
55476742 CAGA--TTGA-AAATGGAGAATCTTATATTCATTTACAGGCAATGGAGCAGATTTTAGCCACTGG
1 CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATAGGCAATGGGGCAGATTTAAGCCACCAG
*
55476804 CCTTATTTCTCTGAGG-AAGCAAGAGAGCAGGTTGAAG-ATGGTAGTCTTATCTTCCTGAGGTAG
66 CCTTATCTCTCTGAGGTAA-CAAGAGAGCAGGTTGAAGAAT-G-AGTCTTATCTTCCTGAGGTAG
* **
55476867 CAAGGAAGCAGACTGAAGATTGAA
128 TAAGGAAGCAGACTGGCGATTGAA
55476891 GATTGGAAGA
Statistics
Matches: 285, Mismatches: 39, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
175 4 0.01
176 75 0.26
177 41 0.14
179 15 0.05
180 149 0.52
181 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (179 bp):
CAGATCTTCACAAATGGCTAATCTTATCTCCATGTATAGGCAATGGGGCAGATTTAAGCCACCAG
CCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGTAA
GGAAGCAGACTGGCGATTGAAAATCTTATCTCCCTAAGCAGCAGCGGAG
Found at i:55477007 original size:43 final size:45
Alignment explanation
Indices: 55476953--55477047 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 45
55476943 GCCTCAAGCT
* **
55476953 TTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AG-TC
1 TTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
* *
55476996 TTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATC
1 TTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
55477041 TTATCTC
1 TTATCTC
55477048 CCTAAGCAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 34 0.77
44 2 0.05
45 8 0.18
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (45 bp):
TTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
Found at i:55477173 original size:323 final size:323
Alignment explanation
Indices: 55476582--55477216 Score: 930
Period size: 323 Copynumber: 2.0 Consensus size: 323
55476572 ACAAATGGCT
* * * *
55476582 AATCTTATCTCCATGTATTGGCAATGGGGTGGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAA
1 AATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAA
* * * **
55476647 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGTAAGAAAGCGGATTGGCGATTG
66 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
* * *
55476712 AAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATTGAAAATGGAGAATCTTATATTCATTTACA
131 AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAAATGGAGAATCTTATATCCATGTACA
* * *
55476777 GGCAATGGAGCAGATTTTAGCCACTGGCCTTATTTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGA
196 GACAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGA
55476842 TGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCA
261 TGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCA
* * * *
55476905 AATCTTATCTCTATGTATCGGCAATGGAGTAGATTTAAGCCTCAAGCTTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAA
* * * *
55476970 CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAAGATTG
66 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
* * * *
55477035 AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAGATGGCGAGTCTTATCTCCATGTATC
131 AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAAATGGAGAATCTTATATCCATGTA-C
* * * * **
55477100 -GATAATGGAGCAGATTTTAGCCATTAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAGGTTGGCG
195 AGACAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAG
* * *
55477164 ATTGTAGTCTTATCTTCTTGAGGTAGGAAGGAAGCAGACTGAAGATTGAAGAT
260 ATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
55477217 CTATTTCCGT
Statistics
Matches: 275, Mismatches: 36, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
323 274 1.00
324 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (323 bp):
AATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAA
CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAAATGGAGAATCTTATATCCATGTACA
GACAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGA
TGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCA
Found at i:55477232 original size:176 final size:176
Alignment explanation
Indices: 55476890--55477293 Score: 505
Period size: 176 Copynumber: 2.3 Consensus size: 176
55476880 TGAAGATTGA
* ** * *
55476890 AGATTGGAAGA-GGCAAATCTTATCTCTATGTATCGGCAATGGAGTAGATTTAAGCCTCAAGCTT
1 AGATT-GAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAGCCTCAAGCCT
55476954 TATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAA
65 TATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAA
*
55477019 AGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
130 AGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
* * * * *
55477066 AGATTGAAGATGGCGAGTCTTATCTCCATGTATCGATAATGGAGCAGATTTTAGCCAT-TAGCCT
1 AGATTGAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAGCC-TCAAGCCT
* ** *
55477130 TATCTCTCTGAGGTAGTAAGAGAGCAGGTTGGCGATTGTAGTCTTATC-TTCTTGAGGTAGGAAG
65 TATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTC-TGAGGTAGCAAG
* * * * **
55477194 GAAGCAGACTGAAGATTGAAGATC-TATTTCCGTAAGCAGTTGTGGAGC
128 AAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
* * * *
55477242 --ATCGAGGATGGAGAATCTTATCTCTATTTATCGAAAATGGAGCAGATTTAAG
1 AGATTGAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAG
55477294 TCACCAGTCC
Statistics
Matches: 196, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
174 44 0.22
175 5 0.03
176 104 0.53
177 43 0.22
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (176 bp):
AGATTGAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAGCCTCAAGCCTT
ATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAA
GCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
Found at i:55488981 original size:48 final size:48
Alignment explanation
Indices: 55488910--55489036 Score: 164
Period size: 48 Copynumber: 2.6 Consensus size: 48
55488900 ATATCGACGT
*
55488910 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGC
* * * * * *
55488958 CGATGACATGTTCCAAACATGGTCTTACACTTGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGC
* * *
55489006 AGACGCCGTGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
55489037 AACACACATA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGC
Found at i:55489001 original size:130 final size:130
Alignment explanation
Indices: 55488780--55489025 Score: 341
Period size: 130 Copynumber: 1.9 Consensus size: 130
55488770 ATGTCGAGGC
* ** * * * *
55488780 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTCTCAATGCTGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCAATGCCGATGACATGTCCCAAA
* *
55488845 CATGGTCTTACACTTACTCTCGTAATGTGGCCGACACCATGTCCCAGACATACACATATCGACGT
66 CATGGTCTTACACTTACTCTCATAATGTGGCAGACACCATGTCCCAGACATACACATATCGACGT
* * *
55488910 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-ATTGCCGATGACATGTTCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-ATCAATGCCGATGACATGTCCCAA
* * *
55488974 ACATGGTCTTACACTTGCTCTCATAATGTGGCAGACGCCGTGTCCCAGACAT
65 ACATGGTCTTACACTTACTCTCATAATGTGGCAGACACCATGTCCCAGACAT
55489026 GGTCTTACAC
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
130 99 0.99
131 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (130 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCAATGCCGATGACATGTCCCAAA
CATGGTCTTACACTTACTCTCATAATGTGGCAGACACCATGTCCCAGACATACACATATCGACGT
Found at i:55495704 original size:37 final size:37
Alignment explanation
Indices: 55495651--55495788 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
55495641 CAAATAGTCC
*
55495651 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
** *
55495688 CCACACGTAGTCATCGGGTCTTACCCAAACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
55495725 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
55495762 CCACACGTAGTCATCGGGTCTTACCCG
1 CCACACGTAGTCATCGGGTCTTACCCG
55495789 AAATATATTT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:55495991 original size:48 final size:48
Alignment explanation
Indices: 55495931--55497526 Score: 2471
Period size: 48 Copynumber: 32.9 Consensus size: 48
55495921 ATATACACAC
* * * *
55495931 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* * * *
55495979 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
*
55496027 ATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496075 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496123 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496171 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496219 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496267 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
*
55496315 ATCTCGTACATATTTCGAATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496363 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496411 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496459 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496507 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* *** * * * * * *
55496555 ATCTCGTACATTTTTTTTATTCTCGTACATATTTC-GCATTAGCCATTCGGCTTTAC-C
1 ATCTCGTACATATTTCGCA-T-TAG--C-CA-TTCGGCTTTA-CCA--C--ATATACAT
* * **
55496612 A-CAT-ATACATATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATC-TCGTACATATTTCG--CAT-TAGC-CATT-------CGGCTTTACCACATATACAT
55496670 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496718 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496766 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496814 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496862 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55496910 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
*
55496958 ATCTCGTACATATTTCGCATTAGCCATTCGGCATTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
55497006 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* * *
55497054 ATCTCGTACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* * *
55497102 ATCTCGTACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* *
55497150 ATCTCGTACATATTTCACATTAGCCATTCGGCATTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* ** *
55497198 ATCTCGTATATATTTAACATTAGACATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* *
55497246 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* *
55497294 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* *
55497342 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* * * *
55497390 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* * *
55497438 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCATATATACAT
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* * * *
55497486 ATCTCATATATATTTCACATTAGCCATTCGGATTTACCACA
1 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACA
55497527 CACATATATA
Statistics
Matches: 1461, Mismatches: 62, Indels: 50
0.93 0.04 0.03
Matches are distributed among these distances:
48 1387 0.95
49 1 0.00
50 2 0.00
52 1 0.00
53 6 0.00
54 8 0.01
55 6 0.00
56 11 0.01
57 11 0.01
58 7 0.00
59 12 0.01
61 4 0.00
62 5 0.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.35
Consensus pattern (48 bp):
ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
Found at i:55496599 original size:163 final size:163
Alignment explanation
Indices: 55496412--55496728 Score: 634
Period size: 163 Copynumber: 1.9 Consensus size: 163
55496402 CATATACATA
55496412 TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
1 TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
55496477 ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGCATTAGCCATTCGGCTTT
66 ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGCATTAGCCATTCGGCTTT
55496542 ACCACATATACATATCTCGTACATTTTTTTTAT
131 ACCACATATACATATCTCGTACATTTTTTTTAT
55496575 TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
1 TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
55496640 ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGCATTAGCCATTCGGCTTT
66 ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGCATTAGCCATTCGGCTTT
55496705 ACCACATATACATATCTCGTACAT
131 ACCACATATACATATCTCGTACAT
55496729 ATTTCGCATT
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 154 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.37
Consensus pattern (163 bp):
TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGCATTAGCCATTCGGCTTT
ACCACATATACATATCTCGTACATTTTTTTTAT
Found at i:55496662 original size:115 final size:115
Alignment explanation
Indices: 55496460--55496680 Score: 442
Period size: 115 Copynumber: 1.9 Consensus size: 115
55496450 CATATACATA
55496460 TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
1 TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
55496525 ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATTTTTTTTAT
66 ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATTTTTTTTAT
55496575 TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
1 TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
55496640 ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACAT
66 ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACAT
55496681 ATTTCGCATT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 106 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (115 bp):
TCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCGC
ATTAGCCATTCGGCTTTACCACATATACATATCTCGTACATTTTTTTTAT
Found at i:55500880 original size:40 final size:40
Alignment explanation
Indices: 55500836--55501114 Score: 441
Period size: 40 Copynumber: 7.0 Consensus size: 40
55500826 GAATCCACAT
* * *
55500836 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55500876 CACCAGCACGGATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
55500916 CACCAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55500956 CAGCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
55500996 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55501036 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55501076 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
55501115 TAACTCTCAA
Statistics
Matches: 221, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:55502654 original size:48 final size:48
Alignment explanation
Indices: 55502594--55502812 Score: 384
Period size: 48 Copynumber: 4.6 Consensus size: 48
55502584 ATATACACAC
* *
55502594 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55502642 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55502690 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55502738 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55502786 ATCTCGTACATATTTCACACTAGCCAT
1 ATCTCATACATATTTCACACTAGCCAT
55502813 GTGACAGCCC
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 164 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:55504638 original size:40 final size:40
Alignment explanation
Indices: 55504408--55504631 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 40
55504398 TGAATGATGT
* * * *
55504408 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
55504448 CCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
55504488 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55504526 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55504567 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55504607 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55504632 AACGAGTAGT
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Done.