Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 167 of 203
Found at i:52882687 original size:82 final size:83
Alignment explanation
Indices: 52882549--52882712 Score: 240
Period size: 82 Copynumber: 2.0 Consensus size: 83
52882539 CGACTTTATA
* * * ** *
52882549 TTAATAATATTCAGGCTTTATGCCTAGCAGGCTTTATGTCGGTGAATTATAACAGGCTTTATGTC
1 TTAATAATATTCAGGCTTTATGCCTAGCACGCTTCATGCCGGTGAACCATAACAGGCTTTATGCC
52882614 TAGCAGGCTTTATGCCGG
66 TAGCAGGCTTTATGCCGG
* *
52882632 TTAATAATA-TCAGGCTTTATGCCTAGCACGCTTCATGCCGGTGTACCATATCAGGCTTTATGCC
1 TTAATAATATTCAGGCTTTATGCCTAGCACGCTTCATGCCGGTGAACCATAACAGGCTTTATGCC
*
52882696 TAGCAGGCTTTGTGCCG
66 TAGCAGGCTTTATGCCG
52882713 ATGTATCATA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 63 0.88
83 9 0.12
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (83 bp):
TTAATAATATTCAGGCTTTATGCCTAGCACGCTTCATGCCGGTGAACCATAACAGGCTTTATGCC
TAGCAGGCTTTATGCCGG
Found at i:52883114 original size:15 final size:16
Alignment explanation
Indices: 52883094--52883125 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
52883084 CTAAGTTAGC
52883094 TTATTTGT-ATTGTTT
1 TTATTTGTCATTGTTT
52883109 TTATTTGTCATTGTTT
1 TTATTTGTCATTGTTT
52883125 T
1 T
52883126 ATAGATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.72
Consensus pattern (16 bp):
TTATTTGTCATTGTTT
Found at i:52890565 original size:23 final size:23
Alignment explanation
Indices: 52890539--52890593 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
52890529 AGTTTAACAA
52890539 ATTAATTAATCAA-CAATAAAACT
1 ATTAATTAATCAATCAATAAAA-T
* *
52890562 ATTAA-TATTCAATTTAATAAAAT
1 ATTAATTAATCAA-TCAATAAAAT
52890585 ATTAATTAA
1 ATTAATTAA
52890594 AGGAAGCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 6 0.23
23 11 0.42
24 9 0.35
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTAATTAATCAATCAATAAAAT
Found at i:52891059 original size:22 final size:22
Alignment explanation
Indices: 52891028--52891107 Score: 85
Period size: 22 Copynumber: 3.8 Consensus size: 22
52891018 AGGGTTTAAA
* *
52891028 TTATTTAATTATGGTTTAGGGT
1 TTATTAAATTAGGGTTTAGGGT
*
52891050 TTATTAAATTAGGGTTTAGTG-
1 TTATTAAATTAGGGTTTAGGGT
* *
52891071 TT-TT-AATTAGGGCTTAAGGT
1 TTATTAAATTAGGGTTTAGGGT
*
52891091 TTATAAAATTAGGGTTT
1 TTATTAAATTAGGGTTT
52891108 TAGTATTCTA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 12 0.26
20 4 0.09
21 3 0.06
22 28 0.60
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.49
Consensus pattern (22 bp):
TTATTAAATTAGGGTTTAGGGT
Found at i:52891063 original size:42 final size:41
Alignment explanation
Indices: 52891016--52891107 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 41
52891006 CCCGTGTTTT
* * * *
52891016 TTAGGGTTTAAAT-TATTTAATTATGGTTTAGGGTTTATTAAA
1 TTAGGGTTT-AATGT-TTTAATTAGGGCTTAAGGTTTATAAAA
*
52891058 TTAGGGTTTAGTGTTTTAATTAGGGCTTAAGGTTTATAAAA
1 TTAGGGTTTAATGTTTTAATTAGGGCTTAAGGTTTATAAAA
52891099 TTAGGGTTT
1 TTAGGGTTT
52891108 TAGTATTCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
41 34 0.77
42 10 0.23
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (41 bp):
TTAGGGTTTAATGTTTTAATTAGGGCTTAAGGTTTATAAAA
Found at i:52891092 original size:19 final size:19
Alignment explanation
Indices: 52891056--52891106 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 19
52891046 GGGTTTATTA
*
52891056 AATTAGGGTTTAGTGTTTT
1 AATTAGGGTTAAGTGTTTT
52891075 AATTAGGGCTTAAG-GTTTAT
1 AATTAGGG-TTAAGTGTTT-T
52891095 AAAATTAGGGTT
1 --AATTAGGGTT
52891107 TTAGTATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 12 0.44
20 5 0.19
21 2 0.07
22 8 0.30
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.43
Consensus pattern (19 bp):
AATTAGGGTTAAGTGTTTT
Found at i:52891298 original size:27 final size:28
Alignment explanation
Indices: 52891241--52891296 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
52891231 GGTTATGAAA
*
52891241 AATAATTTTGACGAGATGGGTTCTAAAAAT
1 AATAATTTTGAAGAGATGGGTTCT--AAAT
*
52891271 AATAATTTTGAAGATATGGGTTCTAA
1 AATAATTTTGAAGAGATGGGTTCTAA
52891297 TACAATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
30 22 0.92
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (28 bp):
AATAATTTTGAAGAGATGGGTTCTAAAT
Found at i:52892340 original size:59 final size:58
Alignment explanation
Indices: 52892245--52892362 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 58
52892235 ATGGAATACA
* * * *
52892245 CGACCCCTACACGACACTTAGTTAGTAGATGAGACATGAACTTCGGTGGGTCGATGTT
1 CGACCCCTACACGACACTCAGTTAGTAGATGAGACATAAACCTCGGTGAGTCGATGTT
* * *
52892303 NCGACCCCTACACGACACTCAGTTAGTGGATGGGACATAAACCTCGGTGAGTTGATGTT
1 -CGACCCCTACACGACACTCAGTTAGTAGATGAGACATAAACCTCGGTGAGTCGATGTT
52892362 C
1 C
52892363 AACGCAGGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
58 1 0.02
59 51 0.98
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (58 bp):
CGACCCCTACACGACACTCAGTTAGTAGATGAGACATAAACCTCGGTGAGTCGATGTT
Found at i:52893088 original size:15 final size:15
Alignment explanation
Indices: 52893049--52893090 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
52893039 GTAAAGTACT
*
52893049 ATTAGGGTTTTATTA
1 ATTAGAGTTTTATTA
*
52893064 ATGA-AGGTTTTATTA
1 ATTAGA-GTTTTATTA
52893079 ATTAGAGTTTTA
1 ATTAGAGTTTTA
52893091 CATACTGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (15 bp):
ATTAGAGTTTTATTA
Found at i:52898777 original size:28 final size:27
Alignment explanation
Indices: 52898728--52898856 Score: 116
Period size: 28 Copynumber: 4.5 Consensus size: 27
52898718 ATATGTTTAG
52898728 GGTTTAGGGTTTTTAAAAATAAATTAT
1 GGTTTAGGGTTTTTAAAAATAAATTAT
*
52898755 GGTTTATGGTTTTTAAAAAATAAATTAAATT
1 GGTTTAGGGTTTTT-AAAAATAAATT--A-T
** * *
52898786 AGGATTTATTGTTTATAAAAAATAAATTAG
1 -GG-TTTAGGGTTT-TTAAAAATAAATTAT
52898816 GGTTTAGGGATTTTTAAAAATAAATT-T
1 GGTTTAGGG-TTTTTAAAAATAAATTAT
*
52898843 GTGTTTAAGGTTTT
1 G-GTTTAGGGTTTT
52898857 AGGGTTTTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
27 18 0.21
28 35 0.42
29 5 0.06
30 1 0.01
31 2 0.02
32 2 0.02
33 20 0.24
34 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (27 bp):
GGTTTAGGGTTTTTAAAAATAAATTAT
Found at i:52898794 original size:33 final size:31
Alignment explanation
Indices: 52898728--52898814 Score: 101
Period size: 33 Copynumber: 2.9 Consensus size: 31
52898718 ATATGTTTAG
*
52898728 GGTTTAGGGTTTTT-AAAAATAAATT-A-T-
1 GGTTTATGGTTTTTAAAAAATAAATTAATTA
52898755 GGTTTATGGTTTTTAAAAAATAAATTAAATTA
1 GGTTTATGGTTTTTAAAAAATAAATT-AATTA
* *
52898787 GGATTTATTGTTTATAAAAAATAAATTA
1 GG-TTTATGGTTTTTAAAAAATAAATTA
52898815 GGGTTTAGGG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 13 0.25
28 11 0.22
30 1 0.02
31 1 0.02
32 3 0.06
33 22 0.43
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.44
Consensus pattern (31 bp):
GGTTTATGGTTTTTAAAAAATAAATTAATTA
Found at i:52899087 original size:125 final size:126
Alignment explanation
Indices: 52898942--52899622 Score: 949
Period size: 126 Copynumber: 5.4 Consensus size: 126
52898932 TTTTTGTTTA
* * *
52898942 GTCAGCAAAAGTAGTGAAAAAAGCTCCCACATGGACTCTTTTTTTCTACAGTAGTTTTTG-AAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACTCTCTTTTTCTACAGTAGTTTCTGAAAAA
* * * * * *
52899006 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGTCTTAAAATCGCTTCAAACAGAATGCACT
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAGCAGGATGCACT
* * * * * * * *
52899067 TTTAGCAAAAGTACTAAAAAAAACACCCATATAGACT-TCATTTTTCTATAGTAGTTTCTGAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACTCTC-TTTTTCTACAGTAGTTTCTGAAAA
* *
52899131 AATAATTTTGAGAAGATGATTCTGAAAAAATAGTGTCAAAAACTCTTCAAGCAGGATGCACT
65 AATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAGCAGGATGCACT
* ** * *
52899193 GTCAGCAAAAGTACTGAAAAAAGCTCCCACCTTAACGCTCTTTTTCTATAGTAGTTTCTGAAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACTCTCTTTTTCTACAGTAGTTTCTGAAAAA
* ** *
52899258 ATAACTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACA
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAGCAGGATGCACT
* * *
52899319 GTCAGCAAAAGTACTGAAAAAAGCTCTCACATTGACGCTCTTTTTCTACAGTAGTTTCTGAAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACTCTCTTTTTCTACAGTAGTTTCTGAAAAA
*
52899384 ATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACACTTCAAGCAGGATGCACT
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAGCAGGATGCACT
*
52899445 GTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGA-TGCTCTTTTTCTACAGTAGTTTCT-AAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACT-CTCTTTTTCTACAGTAGTTTCTGAAAA
* * ** *
52899508 AATGATTTTGAGAAGATGGTTTTGAAAAAATAGTGTCAAAAACACTTCAAATAAGATGCACT
65 AATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAGCAGGATGCACT
*
52899570 GTCAGCAAAAGTACTGAAAAAAGCTCCCACCTGGA-TGCTCTTTTTCTACAGTA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACT-CTCTTTTTCTACAGTA
52899623 CATCCTGCTT
Statistics
Matches: 499, Mismatches: 53, Indels: 8
0.89 0.09 0.01
Matches are distributed among these distances:
124 1 0.00
125 159 0.32
126 337 0.68
127 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
GTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACTCTCTTTTTCTACAGTAGTTTCTGAAAAA
ATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAGCAGGATGCACT
Found at i:52899719 original size:25 final size:25
Alignment explanation
Indices: 52899690--52899780 Score: 130
Period size: 25 Copynumber: 3.6 Consensus size: 25
52899680 TTATAGCAAG
* *
52899690 AGAAATT-ATAGAATTTCATAAGAAT
1 AGAAATTGA-AGAAGTTCAGAAGAAT
*
52899715 TGAAATTGAAGAAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
52899740 AGAAATTGAAGAAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
*
52899765 ATAAATTGAAGAAGTT
1 AGAAATTGAAGAAGTT
52899781 GGGTGTTGGT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 59 0.98
26 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.26
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAGAAT
Found at i:52901337 original size:50 final size:50
Alignment explanation
Indices: 52901215--52901357 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 50
52901205 GATAATAACA
**
52901215 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCGG
* * * * ** * *
52901266 TGCCCATGTCATGTCCCAGACATAGTCTTACGGGGGACCTCTCCTCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
52901316 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
52901358 TTACCCAAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 45 0.59
51 31 0.41
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:52902953 original size:14 final size:14
Alignment explanation
Indices: 52902930--52902966 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
52902920 CCACTAATAT
*
52902930 TATTTCATTTGTAA
1 TATTTAATTTGTAA
52902944 TATTTAATTTGTAA
1 TATTTAATTTGTAA
52902958 TATTTAATT
1 TATTTAATT
52902967 GCCACTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (14 bp):
TATTTAATTTGTAA
Found at i:52904356 original size:18 final size:18
Alignment explanation
Indices: 52904330--52904372 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
52904320 GACTAGGAAA
* *
52904330 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
52904348 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
52904366 AGGATAC
1 AGGATAC
52904373 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:52911327 original size:12 final size:12
Alignment explanation
Indices: 52911310--52911335 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52911300 GTATCTGACT
52911310 AACACTGTTAAA
1 AACACTGTTAAA
52911322 AACACTGTTAAA
1 AACACTGTTAAA
52911334 AA
1 AA
52911336 GATTGATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AACACTGTTAAA
Found at i:52917016 original size:125 final size:125
Alignment explanation
Indices: 52916879--52917184 Score: 477
Period size: 125 Copynumber: 2.4 Consensus size: 125
52916869 GTTTAAGGTT
* * *
52916879 TTTAACAAAAAAAATTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAA
1 TTTATCAAAAAAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAAAA
*
52916944 AAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAACACTTCAAGCAGGATAC
66 AAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACACTTCAAGCAGGATAC
* * * *
52917004 TTTATCAAAAAAATTTCTGAAATCGCGCTCACATGGACGCGCTTTTGCTATAGTAAGTCCTAAAA
1 TTTATCAAAAAAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAAAA
* *
52917069 AAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGCAGGATGC
66 AAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACACTTCAAGCAGGATAC
* * * * *
52917129 TTTATCAGAAGAATTTATGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGTAG
1 TTTATCAAAAAAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
52917185 CATATTTGGG
Statistics
Matches: 162, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 162 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (125 bp):
TTTATCAAAAAAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAAAA
AAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACACTTCAAGCAGGATAC
Found at i:52920266 original size:56 final size:56
Alignment explanation
Indices: 52920204--52920376 Score: 185
Period size: 56 Copynumber: 3.1 Consensus size: 56
52920194 AAAATATTTT
*
52920204 GTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTA
1 GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTATTAATTGTTA
* ** * ** **
52920260 GTAAAAT-TACCAAATT-ATA-TCAAATTATTAATTGTTAGTACCAGTCAAAACATT-TT-
1 GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTA--A-TTGT-ATTA-ATTGTTA
52920316 GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTATTAATTGTTA
1 GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTATTAATTGTTA
52920372 GTAAA
1 GTAAA
52920377 TTTATCAAAT
Statistics
Matches: 90, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
53 17 0.19
54 5 0.06
55 11 0.12
56 23 0.26
57 11 0.12
58 5 0.06
59 18 0.20
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (56 bp):
GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTATTAATTGTTA
Found at i:52920386 original size:112 final size:112
Alignment explanation
Indices: 52920185--52920398 Score: 383
Period size: 112 Copynumber: 1.9 Consensus size: 112
52920175 ATATTTTTTT
*
52920185 GTACCAGTCAAAATATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTA
1 GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTA
52920250 TTAATTGTTAGTAAAATTACCAAATTATATCAAATTATTAATTGTTA
66 TTAATTGTTAGTAAAATTACCAAATTATATCAAATTATTAATTGTTA
*
52920297 GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTA
1 GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTA
* * *
52920362 TTAATTGTTAGTAAATTTATCAAATTATATCATATTA
66 TTAATTGTTAGTAAAATTACCAAATTATATCAAATTA
52920399 GGGTTAGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 97 1.00
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (112 bp):
GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTA
TTAATTGTTAGTAAAATTACCAAATTATATCAAATTATTAATTGTTA
Found at i:52920532 original size:42 final size:42
Alignment explanation
Indices: 52920467--52920677 Score: 334
Period size: 42 Copynumber: 4.9 Consensus size: 42
52920457 AGGGTTACGG
52920467 TTAGGGTTGTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTT-TTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
* *
52920510 TTAGGATTTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
*
52920552 TTAGGGTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGT
*
52920595 TTATGGTTTTTAAGTTAA-GGTTAGGGTTTTTAAGTTAAGGGT
1 TTA-GGGTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
52920637 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
1 TTAGGG-TTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG
52920678 AGATAGGGTT
Statistics
Matches: 155, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.01
42 86 0.55
43 35 0.23
44 32 0.21
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (42 bp):
TTAGGGTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
Found at i:52920687 original size:21 final size:22
Alignment explanation
Indices: 52920467--52920677 Score: 335
Period size: 22 Copynumber: 9.9 Consensus size: 22
52920457 AGGGTTACGG
*
52920467 TTAGGGTTGTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
52920488 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
52920510 TTA-GGATTTTAAGTTAAAGG-
1 TTAGGGTTTTTAAGTTAAGGGT
52920530 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
52920552 TTAGGG-TTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
52920573 TTAAGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
52920595 TTATGGTTTTTAAGTTAA-GG-
1 TTAGGGTTTTTAAGTTAAGGGT
52920615 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
52920637 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
52920659 TTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAAGTTAAG
52920678 AGATAGGGTT
Statistics
Matches: 176, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
20 20 0.11
21 74 0.42
22 82 0.47
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGT
Found at i:52921941 original size:7 final size:7
Alignment explanation
Indices: 52921931--52921956 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
52921921 TTATATACAT
52921931 AATACTA
1 AATACTA
52921938 AATACTA
1 AATACTA
52921945 AATACTA
1 AATACTA
52921952 AATAC
1 AATAC
52921957 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:52923164 original size:51 final size:51
Alignment explanation
Indices: 52923103--52923200 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
52923093 AAATAATTAA
*
52923103 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGAAAATTAAAATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGCAAATTGAGAGAAAATTAAAATT
* * * *
52923154 AAATATGGATTTGAGAGAAATTTGGAAGCAAATTGAGAGGAAATTAA
1 AAATAGGGATTTAAGAGAAATTTAGAAGCAAATTGAGAGAAAATTAA
52923201 GAAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.23, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGCAAATTGAGAGAAAATTAAAATT
Found at i:52923771 original size:9 final size:9
Alignment explanation
Indices: 52923757--52923832 Score: 100
Period size: 9 Copynumber: 8.4 Consensus size: 9
52923747 TTTGGTTAAA
52923757 AATTAACCG
1 AATTAACCG
52923766 AATTAACCG
1 AATTAACCG
*
52923775 AATTACCCG
1 AATTAACCG
52923784 AATTAACCG
1 AATTAACCG
52923793 AATT-ACCTG
1 AATTAACC-G
*
52923802 AATTACCCG
1 AATTAACCG
*
52923811 AATTAACCA
1 AATTAACCG
*
52923820 AATTAACCA
1 AATTAACCG
52923829 AATT
1 AATT
52923833 GAATCACTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
8 3 0.05
9 55 0.92
10 2 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:52923795 original size:27 final size:27
Alignment explanation
Indices: 52923757--52923832 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
52923747 TTTGGTTAAA
52923757 AATTAACCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
52923784 AATTAACCGAATT-ACCTGAATTACCCG
1 AATTAACCGAATTAACC-GAATTACCCG
* *
52923811 AATTAACCAAATTAACCAAATT
1 AATTAACCGAATTAACCGAATT
52923833 GAATCACTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.07
27 39 0.87
28 3 0.07
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:52923979 original size:18 final size:18
Alignment explanation
Indices: 52923939--52923982 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
52923929 TAATTTTATG
**
52923939 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
52923957 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
52923975 CTTGGGTT
1 ATTGGGTT
52923983 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:52925425 original size:4 final size:4
Alignment explanation
Indices: 52925386--52925414 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
52925376 GATTAAGTCC
52925386 TAAT TAAT TAA- TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
52925415 TGTTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:52930556 original size:20 final size:20
Alignment explanation
Indices: 52930531--52930575 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
52930521 TAAATACACA
52930531 TAATTAAAACT-AGACACAAT
1 TAATT-AAACTAAGACACAAT
**
52930551 TAATTAAGTTAAGACACAAT
1 TAATTAAACTAAGACACAAT
52930571 TAATT
1 TAATT
52930576 CGGTTAGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATTAAACTAAGACACAAT
Found at i:52930581 original size:20 final size:19
Alignment explanation
Indices: 52930541--52930585 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
52930531 TAATTAAAAC
52930541 TAGACACAATTAATTAAGT
1 TAGACACAATTAATTAAGT
**
52930560 TAAGACACAATTAATTCGGT
1 T-AGACACAATTAATTAAGT
52930580 TAGACA
1 TAGACA
52930586 GGACATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (19 bp):
TAGACACAATTAATTAAGT
Found at i:52930993 original size:18 final size:17
Alignment explanation
Indices: 52930970--52931003 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52930960 CAAAAATCAC
52930970 TTAACAAAACAAGTTTAT
1 TTAAC-AAACAAGTTTAT
*
52930988 TTAACAACCAAGTTTA
1 TTAACAAACAAGTTTA
52931004 ATAGTCTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (17 bp):
TTAACAAACAAGTTTAT
Found at i:52932094 original size:14 final size:13
Alignment explanation
Indices: 52932075--52932104 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
52932065 AATTTATTTT
52932075 TTAATTAAATTTAA
1 TTAATTAAA-TTAA
52932089 TTAATTAAATTAA
1 TTAATTAAATTAA
52932102 TTA
1 TTA
52932105 TGATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:52934006 original size:5 final size:5
Alignment explanation
Indices: 52933996--52934029 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
52933986 TTAATTTGAT
52933996 TATTA TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATT
52934030 TAGATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:52934091 original size:16 final size:17
Alignment explanation
Indices: 52934072--52934113 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
52934062 AAGTATATTG
52934072 AATTAAAATTATAAA-A
1 AATTAAAATTATAAACA
* *
52934088 AATTAATATTGTAAACA
1 AATTAAAATTATAAACA
52934105 AATTAAAAT
1 AATTAAAAT
52934114 ATTAGCAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AATTAAAATTATAAACA
Found at i:52942111 original size:6 final size:6
Alignment explanation
Indices: 52942074--52942108 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
52942064 CAACAGCAAT
*
52942074 TGAAGG TGAAGG TGAAGG TGAAGG TGAAGT TGAAG
1 TGAAGG TGAAGG TGAAGG TGAAGG TGAAGG TGAAG
52942109 TTGTTTTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.46, T:0.20
Consensus pattern (6 bp):
TGAAGG
Found at i:52943281 original size:26 final size:27
Alignment explanation
Indices: 52943252--52943306 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
52943242 TATTCATTCA
52943252 TATTTAATAT-ATTCTCTAATCCAATT
1 TATTTAATATGATTCTCTAATCCAATT
* *
52943278 TATTTAATATGTTTCTCTAATTCAATT
1 TATTTAATATGATTCTCTAATCCAATT
52943305 TA
1 TA
52943307 ATTTTAGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.53
Consensus pattern (27 bp):
TATTTAATATGATTCTCTAATCCAATT
Found at i:52946259 original size:22 final size:22
Alignment explanation
Indices: 52946215--52946259 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52946205 ACAGCAGTAC
* * *
52946215 AATGGCAACAAAACAATAGCAA
1 AATGGCAAAAAAACAACAACAA
52946237 AATGGCAAAAAAACAACAACAA
1 AATGGCAAAAAAACAACAACAA
52946259 A
1 A
52946260 CAACAGTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.18, G:0.11, T:0.07
Consensus pattern (22 bp):
AATGGCAAAAAAACAACAACAA
Found at i:52949899 original size:21 final size:21
Alignment explanation
Indices: 52949870--52949913 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
52949860 AAACCCTCGA
*
52949870 AATCTCTTTCCCTATCATATG
1 AATCGCTTTCCCTATCATATG
* *
52949891 AATCGCTTTCCCTTTCATCTG
1 AATCGCTTTCCCTATCATATG
52949912 AA
1 AA
52949914 AGCATTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.41
Consensus pattern (21 bp):
AATCGCTTTCCCTATCATATG
Found at i:52950181 original size:27 final size:26
Alignment explanation
Indices: 52950143--52950195 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
52950133 GCAACATTAT
* *
52950143 TGGCTTCTCTTCTAATTCTGCTGAAC
1 TGGCTTCCCTTCTAATCCTGCTGAAC
52950169 NTGGCTTCCCTTCTAATCCTGCTGAAC
1 -TGGCTTCCCTTCTAATCCTGCTGAAC
52950196 CTGCAGTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.30, G:0.15, T:0.38
Consensus pattern (26 bp):
TGGCTTCCCTTCTAATCCTGCTGAAC
Found at i:52952444 original size:16 final size:16
Alignment explanation
Indices: 52952405--52952464 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
52952395 ATTTATATTT
*
52952405 TAATA-ATTTTATTAAA
1 TAATATATTTTAAT-AA
* *
52952421 TTATATATTTTAATTA
1 TAATATATTTTAATAA
52952437 TAATATA-TTTAATAA
1 TAATATATTTTAATAA
52952452 TAAT-TATGTTTAA
1 TAATATAT-TTTAA
52952465 ATATGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 16 0.44
17 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATTTTAATAA
Found at i:52952449 original size:15 final size:15
Alignment explanation
Indices: 52952414--52952455 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
52952404 TTAATAATTT
*
52952414 TATTAAATTAT-ATA
1 TATTTAATTATAATA
52952428 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
52952442 TATTTAATAATAAT
1 TATTTAATTATAAT
52952456 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:52952696 original size:16 final size:16
Alignment explanation
Indices: 52952675--52952742 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
52952665 GATTTGCTAT
52952675 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52952691 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
52952707 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
52952723 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52952739 TACA
1 TACA
52952743 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:52954524 original size:24 final size:25
Alignment explanation
Indices: 52954495--52954563 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
52954485 CAAATAATAA
52954495 AATAATAATACAACATAACTTTTA-
1 AATAATAATACAACATAACTTTTAG
*
52954519 AGTAATAATACATA-ATAA-TTTTAG
1 AATAATAATACA-ACATAACTTTTAG
52954543 AATAATAATAC-ACGATAACTT
1 AATAATAATACAAC-ATAACTT
52954564 CAAAAATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 1 0.03
23 5 0.13
24 29 0.76
25 3 0.08
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (25 bp):
AATAATAATACAACATAACTTTTAG
Found at i:52955400 original size:13 final size:13
Alignment explanation
Indices: 52955382--52955406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52955372 AAAAGAATCC
52955382 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
52955395 AAAGAAGAAAAA
1 AAAGAAGAAAAA
52955407 TCTGCAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:52955689 original size:15 final size:15
Alignment explanation
Indices: 52955666--52955697 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52955656 GCTGCAGGTA
52955666 TGGCCTGGAGGAGCG
1 TGGCCTGGAGGAGCG
*
52955681 TGGCGTGGAGGAGCG
1 TGGCCTGGAGGAGCG
52955696 TG
1 TG
52955698 TGTTGCGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.16, G:0.56, T:0.16
Consensus pattern (15 bp):
TGGCCTGGAGGAGCG
Found at i:52961405 original size:20 final size:20
Alignment explanation
Indices: 52961362--52961408 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
52961352 CATTTCATTT
***
52961362 TTATTTTAATATTTGATTCT
1 TTATTTTAATATTTGATAAA
*
52961382 TTATTTTAATATTTTATAAA
1 TTATTTTAATATTTGATAAA
52961402 TTATTTT
1 TTATTTT
52961409 TCTAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTTAATATTTGATAAA
Found at i:52967519 original size:16 final size:16
Alignment explanation
Indices: 52967498--52967529 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52967488 AGTAAGTGAA
52967498 GAGCGTCGAAAGGAAC
1 GAGCGTCGAAAGGAAC
52967514 GAGCGTCGAAAGGAAC
1 GAGCGTCGAAAGGAAC
52967530 AACTTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.38, T:0.06
Consensus pattern (16 bp):
GAGCGTCGAAAGGAAC
Found at i:52967841 original size:19 final size:19
Alignment explanation
Indices: 52967817--52967863 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
52967807 TCGACGCCTT
*
52967817 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
*
52967836 TTTGCATTAGATTACATCA
1 TTTGCATTACATTACATCA
52967855 TTTGCATTA
1 TTTGCATTA
52967864 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:52975041 original size:47 final size:47
Alignment explanation
Indices: 52974967--52975056 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 47
52974957 GGAGAAGGGG
*
52974967 CCAAGGTGAAAACCCAAAAAGGATGCTTTGAGTCCTAAAAAAAAAGA
1 CCAAGGAGAAAACCCAAAAAGGATGCTTTGAGTCCTAAAAAAAAAGA
* * * *
52975014 CCAAGGAGAAAATCCACAAAGGGTGCTTTGAGTCGTAAAAAAA
1 CCAAGGAGAAAACCCAAAAAGGATGCTTTGAGTCCTAAAAAAA
52975057 TAGAAAAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.16
Consensus pattern (47 bp):
CCAAGGAGAAAACCCAAAAAGGATGCTTTGAGTCCTAAAAAAAAAGA
Found at i:52976581 original size:49 final size:45
Alignment explanation
Indices: 52976442--52976608 Score: 146
Period size: 45 Copynumber: 3.6 Consensus size: 45
52976432 AATTCTTATA
* *
52976442 TCCCTAAAGTTGTAGTGGAGCAGACTAAAGATAGCAAATCTCAT-T-
1 TCCCTGAAGTTGTAGTGGAGCAGATTAAAGATA-CAAATCT-ATCTC
* * **
52976487 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-AATTATAGATCTC
1 TCCCTGAAGTTGTAGTGGAGCAGATTAAAGATACAA--ATCTATCTC
*
52976533 ATCTCTCTGAAGTTGTAGTGGAGCAGGTTAAAGATACAAATCCTATCTC
1 -TC-C-CTGAAGTTGTAGTGGAGCAGATTAAAGATACAAAT-CTATCTC
* *
52976582 -CCC-GAAGTTGCAGTGGAACAGATTAAA
1 TCCCTGAAGTTGTAGTGGAGCAGATTAAA
52976609 ATGATGAATC
Statistics
Matches: 99, Mismatches: 14, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.02
44 23 0.23
45 33 0.33
46 1 0.01
47 3 0.03
48 3 0.03
49 32 0.32
50 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (45 bp):
TCCCTGAAGTTGTAGTGGAGCAGATTAAAGATACAAATCTATCTC
Found at i:52976633 original size:44 final size:44
Alignment explanation
Indices: 52976448--52976639 Score: 122
Period size: 44 Copynumber: 4.2 Consensus size: 44
52976438 TATATCCCTA
* * * * *
52976448 AAGTTGTAGTGGAGCAGACTAAAGATAGCAAAT-CTCATTTCCCTG
1 AAGTTGCAGTGGAACAGATTAAAGATA-CAAATCCT-ATCTCTCTG
* * *
52976493 AAGTTGCAGTGGAGCAGATTAAAGCTA-AATTATAGATCTCATCTCTCTG
1 AAGTTGCAGTGGAACAGATTAAAGATACAA--AT---CCT-ATCTCTCTG
* * * * *
52976542 AAGTTGTAGTGGAGCAGGTTAAAGATACAAATCCTATCTCCCCG
1 AAGTTGCAGTGGAACAGATTAAAGATACAAATCCTATCTCTCTG
**
52976586 AAGTTGCAGTGGAACAGATTAAA-ATGATGAATCCTATAC-CTCTG
1 AAGTTGCAGTGGAACAGATTAAAGAT-ACAAATCCTAT-CTCTCTG
*
52976630 AAGTTACAGT
1 AAGTTGCAGT
52976640 AGGTCGAATT
Statistics
Matches: 119, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
43 4 0.03
44 48 0.40
45 29 0.24
48 2 0.02
49 34 0.29
50 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGGAACAGATTAAAGATACAAATCCTATCTCTCTG
Found at i:52976792 original size:45 final size:45
Alignment explanation
Indices: 52976699--52976793 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
52976689 TGTAACAGAC
* * **
52976699 TGAAGATATCAAAATTTATCTCTCTGAAGTTACAATGCAGCAGGT
1 TGAAGATATCAAAATTTATCCCTCTAAAGTTACAATGCAGCAAAT
* **
52976744 TGAAGATATC-AAATCTTATCCCTCTAAAGTTACAGTGGGGCAAAT
1 TGAAGATATCAAAAT-TTATCCCTCTAAAGTTACAATGCAGCAAAT
52976789 TGAAG
1 TGAAG
52976794 CCATAAGTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 4 0.10
45 38 0.90
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (45 bp):
TGAAGATATCAAAATTTATCCCTCTAAAGTTACAATGCAGCAAAT
Found at i:52978615 original size:20 final size:20
Alignment explanation
Indices: 52978572--52978618 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
52978562 CATTTCATTT
***
52978572 TTATTTTAATATTTGATTCT
1 TTATTTTAATATTTGATAAA
*
52978592 TTATTTTAATATTTTATAAA
1 TTATTTTAATATTTGATAAA
52978612 TTATTTT
1 TTATTTT
52978619 TCTAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTTAATATTTGATAAA
Found at i:52979044 original size:34 final size:33
Alignment explanation
Indices: 52979014--52979114 Score: 114
Period size: 33 Copynumber: 3.0 Consensus size: 33
52979004 CTTCATTGTA
52979014 TGAGTTTTAAAAATCAAAGGACAAACTCATTTT
1 TGAGTTTTAAAAATCAAAGGACAAACTCATTTT
** * * ** *
52979047 TGAGGATGAGAAACATCATA-TCCTAACTCATTTT
1 TGAGTTTTA-AAA-ATCAAAGGACAAACTCATTTT
52979081 TGAGTTTTAAAAATCAAAGGACAAACTCATTTT
1 TGAGTTTTAAAAATCAAAGGACAAACTCATTTT
52979114 T
1 T
52979115 AAGGATGAGA
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
32 5 0.10
33 21 0.41
34 20 0.39
35 5 0.10
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (33 bp):
TGAGTTTTAAAAATCAAAGGACAAACTCATTTT
Found at i:52979122 original size:67 final size:67
Alignment explanation
Indices: 52979014--52979145 Score: 246
Period size: 67 Copynumber: 2.0 Consensus size: 67
52979004 CTTCATTGTA
* *
52979014 TGAGTTTTAAAAATCAAAGGACAAACTCATTTTTGAGGATGAGAAACATCATATCCTAACTCATT
1 TGAGTTTTAAAAATCAAAGGACAAACTCATTTTTAAGGATGAGAAAAATCATATCCTAACTCATT
52979079 TT
66 TT
52979081 TGAGTTTTAAAAATCAAAGGACAAACTCATTTTTAAGGATGAGAAAAATCATATCCTAACTCATT
1 TGAGTTTTAAAAATCAAAGGACAAACTCATTTTTAAGGATGAGAAAAATCATATCCTAACTCATT
52979146 GGGTGACATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (67 bp):
TGAGTTTTAAAAATCAAAGGACAAACTCATTTTTAAGGATGAGAAAAATCATATCCTAACTCATT
TT
Found at i:52983632 original size:64 final size:64
Alignment explanation
Indices: 52983558--52983678 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
52983548 CGAGCATCTC
* *
52983558 GATCGGTATTGATCCTGCATGTTTTGCAGAAATA-TCGCAGCTCTTTGTGAGCATCCTGTTATAT
1 GATCGGTATTGATCCTGCATGTATTGCAGAAATACT-GCAGCTCTTTATGAGCATCCTGTTATAT
* * *
52983622 GATCGGTATTGATCTTGCATGTATTGTAGACATACTGCAGCTCTTTATGAGCATCCT
1 GATCGGTATTGATCCTGCATGTATTGCAGAAATACTGCAGCTCTTTATGAGCATCCT
52983679 AATATAGGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 50 0.98
65 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (64 bp):
GATCGGTATTGATCCTGCATGTATTGCAGAAATACTGCAGCTCTTTATGAGCATCCTGTTATAT
Found at i:52986062 original size:40 final size:40
Alignment explanation
Indices: 52986025--52986135 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
52986015 GAAATTTGGG
* *
52986025 ATAGCTTCTG-CTATTTATTGCACTTAGTGTGCGATTTGAA
1 ATAGCTTC-GACTATATATGGCACTTAGTGTGCGATTTGAA
** *
52986065 ATAGCTTCGACTATATATGGCACTTAGTGTGCGAGACTGAT
1 ATAGCTTCGACTATATATGGCACTTAGTGTGCGA-TTTGAA
* *
52986106 ATAGCTTC-AGCTATGTAAGGCACTTAGTGT
1 ATAGCTTCGA-CTATATATGGCACTTAGTGT
52986136 ACGAGATTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
39 1 0.02
40 31 0.51
41 29 0.48
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (40 bp):
ATAGCTTCGACTATATATGGCACTTAGTGTGCGATTTGAA
Found at i:52986128 original size:41 final size:39
Alignment explanation
Indices: 52986025--52986155 Score: 136
Period size: 41 Copynumber: 3.2 Consensus size: 39
52986015 GAAATTTGGG
* * ** *
52986025 ATAGCTTCTGCTATTTATTGCACTTAGTGTGCGATTTGAA
1 ATAGCTTC-GCTATATATGGCACTTAGTGTGCGAGATGAT
52986065 ATAGCTTCGACTATATATGGCACTTAGTGTGCGAGACTGAT
1 ATAGCTTCG-CTATATATGGCACTTAGTGTGCGAGA-TGAT
* * * *
52986106 ATAGCTTCAGCTATGTAAGGCACTTAGTGTACGAGATTAT
1 ATAGCTTC-GCTATATATGGCACTTAGTGTGCGAGATGAT
52986146 AATAGCTTCG
1 -ATAGCTTCG
52986156 GTTTTACGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 34 0.44
41 42 0.54
42 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (39 bp):
ATAGCTTCGCTATATATGGCACTTAGTGTGCGAGATGAT
Found at i:52986926 original size:23 final size:23
Alignment explanation
Indices: 52986865--52987058 Score: 228
Period size: 23 Copynumber: 8.4 Consensus size: 23
52986855 TTACATGTTA
*
52986865 TAATGCTGTCCATTTTGA-GCATAT
1 TAATGCTGTCCAATTTGATG--TAT
*
52986889 TAATGCTGCCCAATTTGATGTAT
1 TAATGCTGTCCAATTTGATGTAT
* *
52986912 AAATGCTGTCAAATTTGATGTAT
1 TAATGCTGTCCAATTTGATGTAT
* * *
52986935 TAATGTTGTCCAATTTAATGCAT
1 TAATGCTGTCCAATTTGATGTAT
* * *
52986958 AAATGCTATCCAATTTGATATAT
1 TAATGCTGTCCAATTTGATGTAT
*
52986981 TAATGCTGTCCAATTTAATGTAT
1 TAATGCTGTCCAATTTGATGTAT
* * *
52987004 TAATGTTATGCAATTTGATGTAT
1 TAATGCTGTCCAATTTGATGTAT
*
52987027 AAATGCTGTCCAATTTGATGTAT
1 TAATGCTGTCCAATTTGATGTAT
52987050 TAATGCTGT
1 TAATGCTGT
52987059 AATACCAGAC
Statistics
Matches: 140, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
23 123 0.88
24 16 0.11
25 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (23 bp):
TAATGCTGTCCAATTTGATGTAT
Found at i:52994481 original size:57 final size:56
Alignment explanation
Indices: 52994339--52994519 Score: 247
Period size: 57 Copynumber: 3.2 Consensus size: 56
52994329 AAAGATGATA
* *
52994339 CAAGAAAAGACAAGTGAGCAGGAAATATTCTCTGGAAAAAACAGTAAATATT-CTTG
1 CAAGAAAAGACAAGTGAGCA-GAAATATTCTCTGGCAAAAACAGTAAATATTCCCTG
* ** *
52994395 CAAGAAAAGACAAGTGAACATGAAATATTCTCTGGCGTAAACAATAAATATTCCCTG
1 CAAGAAAAGACAAGTGAGCA-GAAATATTCTCTGGCAAAAACAGTAAATATTCCCTG
**
52994452 CAAGAAAAGACAAGTGAGCAGAAAATATTCTCTAACAAAAACAGTAAATATTCCCTG
1 CAAGAAAAGACAAGTGAGCAG-AAATATTCTCTGGCAAAAACAGTAAATATTCCCTG
*
52994509 TAAGAAAAGAC
1 CAAGAAAAGAC
52994520 GCATGAATAG
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
56 47 0.43
57 62 0.57
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (56 bp):
CAAGAAAAGACAAGTGAGCAGAAATATTCTCTGGCAAAAACAGTAAATATTCCCTG
Found at i:52994535 original size:57 final size:57
Alignment explanation
Indices: 52994339--52994542 Score: 236
Period size: 57 Copynumber: 3.6 Consensus size: 57
52994329 AAAGATGATA
* * *
52994339 CAAGAAAAGACAAGTGAGCAGGAAATATTCTCTGGA-AAAAACAGTAAATATT-CTTG
1 CAAGAAAAGACAAGTGAACAGTAAATATTCTCT-GACAAAAACAGTAAATATTCCCTG
* ** *
52994395 CAAGAAAAGACAAGTGAACA-TGAAATATTCTCTGGCGTAAACAATAAATATTCCCTG
1 CAAGAAAAGACAAGTGAACAGT-AAATATTCTCTGACAAAAACAGTAAATATTCCCTG
* * *
52994452 CAAGAAAAGACAAGTGAGCAGAAAATATTCTCTAACAAAAACAGTAAATATTCCCTG
1 CAAGAAAAGACAAGTGAACAGTAAATATTCTCTGACAAAAACAGTAAATATTCCCTG
* * *
52994509 TAAGAAAAGACGCA-TGAATAGTAAATATTCTCTG
1 CAAGAAAAGAC-AAGTGAACAGTAAATATTCTCTG
52994543 TAGTTTGTAT
Statistics
Matches: 123, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
55 1 0.01
56 43 0.35
57 78 0.63
58 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (57 bp):
CAAGAAAAGACAAGTGAACAGTAAATATTCTCTGACAAAAACAGTAAATATTCCCTG
Found at i:52994862 original size:23 final size:23
Alignment explanation
Indices: 52994835--52994898 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
52994825 AAATTTAAAT
*
52994835 TGTATTAATGCTGTCCAATTTGA
1 TGTATAAATGCTGTCCAATTTGA
*
52994858 TGTATAAATGATGTCCAATTTGA
1 TGTATAAATGCTGTCCAATTTGA
*
52994881 TATATAAATGCTGTCCAA
1 TGTATAAATGCTGTCCAA
52994899 AACATGGTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (23 bp):
TGTATAAATGCTGTCCAATTTGA
Found at i:53001240 original size:25 final size:25
Alignment explanation
Indices: 53001206--53001265 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
53001196 CTACACTAAT
*
53001206 CAAAGTTTAAGTGGGAAACTAAAAA
1 CAAAGTTTAAGTGAGAAACTAAAAA
53001231 CATAA-TTTAAGTGAGAAACTAAAAA
1 CA-AAGTTTAAGTGAGAAACTAAAAA
53001256 CAAAGTTTAA
1 CAAAGTTTAA
53001266 CTAGGAGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 2 0.06
25 28 0.88
26 2 0.06
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.23
Consensus pattern (25 bp):
CAAAGTTTAAGTGAGAAACTAAAAA
Found at i:53002765 original size:44 final size:44
Alignment explanation
Indices: 53002677--53002767 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
53002667 ACAAGTCAAA
* * **
53002677 TAATATTAAAATAGCCTACACTAATCAGAGTTTAAGCGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAACGAAAAAC
* *
53002721 TAATATTAAAATAACTTACACTAATCAGAGTTTAAATGAAAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAACGAAAAAC
53002765 TAA
1 TAA
53002768 AAGTAGAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.27
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAAACGAAAAAC
Found at i:53002967 original size:7 final size:7
Alignment explanation
Indices: 53002955--53002980 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
53002945 CCTAATTGAG
53002955 ATTTTAA
1 ATTTTAA
53002962 ATTTTAA
1 ATTTTAA
53002969 ATTTTAA
1 ATTTTAA
53002976 ATTTT
1 ATTTT
53002981 TTATAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTAA
Found at i:53003677 original size:27 final size:27
Alignment explanation
Indices: 53003647--53003725 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
53003637 TTTTGTGTAA
*
53003647 ATTAGGATAATTAGGAGTTTAAATTAT
1 ATTAAGATAATTAGGAGTTTAAATTAT
* *
53003674 ATTATGATAATTA-GAGTTTTAATT-T
1 ATTAAGATAATTAGGAGTTTAAATTAT
*
53003699 AGTTAAGATAATTAGGAATTTAAATTA
1 A-TTAAGATAATTAGGAGTTTAAATTA
53003726 ATAGGTTAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 21 0.48
27 21 0.48
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (27 bp):
ATTAAGATAATTAGGAGTTTAAATTAT
Found at i:53004855 original size:68 final size:68
Alignment explanation
Indices: 53004780--53004925 Score: 229
Period size: 68 Copynumber: 2.1 Consensus size: 68
53004770 GAGTTAGATG
* * * *
53004780 ATTTAAGATCGCAACTCCTAAACAACTCGTTGACCTACGTTTGTAGCTGATATTATATAGGTTAG
1 ATTTAAGATCGCAACTCCTAAACAACTCGCTGACCTACATTTATAGCTGATATTATAAAGGTTAG
53004845 CTA
66 CTA
* * *
53004848 ATTTAAGATTGCAACTCCTAAACAGCTCGCTGACCTACATTTATAGTTGATATTATAAAGGTTAG
1 ATTTAAGATCGCAACTCCTAAACAACTCGCTGACCTACATTTATAGCTGATATTATAAAGGTTAG
53004913 CTA
66 CTA
53004916 ATTTAAGATC
1 ATTTAAGATC
53004926 ATAACATAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (68 bp):
ATTTAAGATCGCAACTCCTAAACAACTCGCTGACCTACATTTATAGCTGATATTATAAAGGTTAG
CTA
Found at i:53017292 original size:18 final size:18
Alignment explanation
Indices: 53017271--53017314 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
53017261 TTTTCTAATT
* *
53017271 TTTTTTTCAATTTAAATA
1 TTTTTTACAAATTAAATA
*
53017289 TTTTTTAGAAATTAAATA
1 TTTTTTACAAATTAAATA
53017307 TATTTTTA
1 T-TTTTTA
53017315 AATATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTTTACAAATTAAATA
Found at i:53032465 original size:4 final size:4
Alignment explanation
Indices: 53032458--53032488 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
53032448 TTGATATATA
53032458 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
53032489 AAAAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:53034020 original size:16 final size:16
Alignment explanation
Indices: 53033999--53034036 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
53033989 CTAGCTCGAG
53033999 TATTAAATTCTAAAAA
1 TATTAAATTCTAAAAA
* *
53034015 TATTAAATTTTTAAAA
1 TATTAAATTCTAAAAA
53034031 TATTAA
1 TATTAA
53034037 CATCGATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTAAATTCTAAAAA
Found at i:53034996 original size:27 final size:28
Alignment explanation
Indices: 53034966--53035035 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
53034956 AAACCTGACC
* *
53034966 CACAGCTTGTGTGAGC-AACCCAAATAT
1 CACAGCTTGTGTAAGCAAACACAAATAT
* ** *
53034993 CACAACTTGTACAAGCAAATACAAATAT
1 CACAGCTTGTGTAAGCAAACACAAATAT
53035021 CACAGCTTGTGTAAG
1 CACAGCTTGTGTAAG
53035036 AAAATTGAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
27 12 0.36
28 21 0.64
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (28 bp):
CACAGCTTGTGTAAGCAAACACAAATAT
Found at i:53035880 original size:23 final size:22
Alignment explanation
Indices: 53035850--53035892 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
53035840 ATATATATTA
53035850 TTTCTTTCTTTTCTCTTCTTCT
1 TTTCTTTCTTTTCTCTTCTTCT
53035872 TTTCATTTCTTTTCTCTTCTT
1 TTTC-TTTCTTTTCTCTTCTT
53035893 TCGATCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTCTTTCTTTTCTCTTCTTCT
Found at i:53036035 original size:7 final size:7
Alignment explanation
Indices: 53036023--53036069 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
53036013 TTAATTGCTC
53036023 TTTCTCT
1 TTTCTCT
53036030 TTTCTCT
1 TTTCTCT
*
53036037 TTTCCCT
1 TTTCTCT
53036044 TTTCTCT
1 TTTCTCT
53036051 TTTCTCT
1 TTTCTCT
53036058 TTTCTCT
1 TTTCTCT
53036065 TTTCT
1 TTTCT
53036070 TTTCATCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTCTCT
Found at i:53036462 original size:7 final size:7
Alignment explanation
Indices: 53036450--53036474 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53036440 GTTGAAAGTG
53036450 ATTTCTA
1 ATTTCTA
53036457 ATTTCTA
1 ATTTCTA
53036464 ATTTCTA
1 ATTTCTA
53036471 ATTT
1 ATTT
53036475 GGTTACATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTCTA
Found at i:53047926 original size:26 final size:26
Alignment explanation
Indices: 53047870--53047927 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
53047860 ATTTTTGGTT
* *
53047870 TTAACATTTTAAACTGAATAAACTGA
1 TTAAGATTTTAAACTGAATAAACTAA
53047896 TTAAGATTTTAAACTGAATAAACTAA
1 TTAAGATTTTAAACTGAATAAACTAA
53047922 TTAAGA
1 TTAAGA
53047928 CAATAAGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (26 bp):
TTAAGATTTTAAACTGAATAAACTAA
Found at i:53048221 original size:2 final size:2
Alignment explanation
Indices: 53048214--53048238 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53048204 TTATCACTTT
53048214 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
53048239 TTCATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53048287 original size:38 final size:38
Alignment explanation
Indices: 53048239--53048378 Score: 262
Period size: 38 Copynumber: 3.7 Consensus size: 38
53048229 ATATATATAT
* *
53048239 TTCATAAAAATTAAATGATAAATATTTCATTTGTGATA
1 TTCATAAAAATTAAATGATAAATTTTTTATTTGTGATA
53048277 TTCATAAAAATTAAATGATAAATTTTTTATTTGTGATA
1 TTCATAAAAATTAAATGATAAATTTTTTATTTGTGATA
53048315 TTCATAAAAATTAAATGATAAATTTTTTATTTGTGATA
1 TTCATAAAAATTAAATGATAAATTTTTTATTTGTGATA
53048353 TTCATAAAAATTAAATGATAAATTTT
1 TTCATAAAAATTAAATGATAAATTTT
53048379 ATATACCCCA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 100 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (38 bp):
TTCATAAAAATTAAATGATAAATTTTTTATTTGTGATA
Found at i:53049772 original size:32 final size:32
Alignment explanation
Indices: 53049736--53049812 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
53049726 CAAAATAAAT
*
53049736 TATGAAAAGTTACGAATGTGAAAAGACTTGAA
1 TATGAAAAGTTACGAATGCGAAAAGACTTGAA
* ** *
53049768 TATGAAGAGTTAATAATGCGAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCGAAAAGACTTGAA
*
53049800 GATGAAAAGTTAC
1 TATGAAAAGTTAC
53049813 ACACATGCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCGAAAAGACTTGAA
Found at i:53049907 original size:36 final size:39
Alignment explanation
Indices: 53049821--53049907 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
53049811 ACACACATGC
* * *
53049821 ATGAATAGTCACAACTCCTATAGTATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATATAA
*
53049860 ATGAATAGTCACAACTCCTA-A-CATTT-AGTGATATAG
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATATAA
53049896 ATGAATAGTCAC
1 ATGAATAGTCAC
53049908 TTATATGTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 19 0.43
37 4 0.09
38 1 0.02
39 20 0.45
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCATTTAAGTGATATAA
Found at i:53054260 original size:32 final size:32
Alignment explanation
Indices: 53054224--53054300 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
53054214 CAAAATAAAT
*
53054224 TATGAAAAGTTACGAATGTGAAAAGACTTGAA
1 TATGAAAAGTTACGAATGCGAAAAGACTTGAA
* ** *
53054256 TATGAAGAGTTAATAATGCGAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCGAAAAGACTTGAA
*
53054288 AATGAAAAGTTAC
1 TATGAAAAGTTAC
53054301 ACACATGCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCGAAAAGACTTGAA
Found at i:53054395 original size:36 final size:38
Alignment explanation
Indices: 53054309--53054395 Score: 115
Period size: 36 Copynumber: 2.3 Consensus size: 38
53054299 ACACACATGC
* * *
53054309 ATGAATAGTCACAACTCCTATAGTATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCC-ATAGCATTTAAGTGATATAA
*
53054348 ATGAATAGTCACAACTCC-TAGCATTT-AGTGATATAG
1 ATGAATAGTCACAACTCCATAGCATTTAAGTGATATAA
53054384 ATGAATAGTCAC
1 ATGAATAGTCAC
53054396 TTACAACTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 19 0.43
37 7 0.16
39 18 0.41
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (38 bp):
ATGAATAGTCACAACTCCATAGCATTTAAGTGATATAA
Found at i:53054523 original size:21 final size:21
Alignment explanation
Indices: 53054497--53054547 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
53054487 CATACAAAAT
53054497 TTATTTCTC-TTTTCTATTATA
1 TTATTTCTCATTTTCT-TTATA
* * *
53054518 TTATTTATCATTTTCTTTGTT
1 TTATTTCTCATTTTCTTTATA
53054539 TTATTTCTC
1 TTATTTCTC
53054548 CAAATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.16, C:0.14, G:0.02, T:0.69
Consensus pattern (21 bp):
TTATTTCTCATTTTCTTTATA
Found at i:53059415 original size:59 final size:59
Alignment explanation
Indices: 53059346--53059463 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
53059336 TTCTTTCCAC
*
53059346 CTAATGTAGGAGTATTATGCATGTCACATAAATCA-TCATGTATCAAATCAAGCAATTTT
1 CTAATGTAGGAGTATTATGCAAGTCACATAAATCACT-ATGTATCAAATCAAGCAATTTT
53059405 CTAATGTAGGAGTATTATGCAAGTCACATAAATCACTATGTATCAAATCAAGCAATTTT
1 CTAATGTAGGAGTATTATGCAAGTCACATAAATCACTATGTATCAAATCAAGCAATTTT
53059464 GTCTTCCTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 56 0.98
60 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (59 bp):
CTAATGTAGGAGTATTATGCAAGTCACATAAATCACTATGTATCAAATCAAGCAATTTT
Found at i:53069975 original size:25 final size:25
Alignment explanation
Indices: 53069941--53069995 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
53069931 TCACAAAGGG
*
53069941 AAAGTCCTAATAGAATTCCCAATTT
1 AAAGTCCTAATAAAATTCCCAATTT
*
53069966 AAAGTCCTAATAAAATTCCTAATTT
1 AAAGTCCTAATAAAATTCCCAATTT
53069991 AAAGT
1 AAAGT
53069996 TTATAAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (25 bp):
AAAGTCCTAATAAAATTCCCAATTT
Found at i:53079588 original size:21 final size:18
Alignment explanation
Indices: 53079562--53079608 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
53079552 ATCATGTTCA
53079562 TATTTTTTAACATAATTTAAT
1 TATTTTTT-A-AT-ATTTAAT
*
53079583 TATTTTATAATATTTAAT
1 TATTTTTTAATATTTAAT
53079601 TATTTTTT
1 TATTTTTT
53079609 GATAAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.58
19 2 0.08
20 1 0.04
21 7 0.29
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTTTTAATATTTAAT
Found at i:53086566 original size:36 final size:35
Alignment explanation
Indices: 53086486--53086678 Score: 181
Period size: 36 Copynumber: 5.3 Consensus size: 35
53086476 ACTATTTGTT
* * *
53086486 TTGGTGTGTTTTCTGTTGGACTAGCTCTT-TAGAGCCA
1 TTGGTGTG-TTTCGGATAGACTAGCTCTTAT-GAG-CA
* * *
53086523 TTGGTGTGTTATCGAATAGACTGGCTCGTATGAGCA
1 TTGGTGTGTT-TCGGATAGACTAGCTCTTATGAGCA
* *
53086559 TTGGTGTGTTATCGGATAGACTGGCTCATATGAGCA
1 TTGGTGTGTT-TCGGATAGACTAGCTCTTATGAGCA
* * *
53086595 TTTGGTGTGTTTTGGATGGATTAGCTCTTATGAGCA
1 -TTGGTGTGTTTCGGATAGACTAGCTCTTATGAGCA
* *
53086631 TCTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
1 T-TGGTGTGTTTCGGATAGACTAGCTCTTATGAGCA
*
53086667 TCTAGTGTGTTT
1 T-TGGTGTGTTT
53086679 TGGTTGGAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
35 1 0.01
36 102 0.74
37 33 0.24
38 1 0.01
ACGTcount: A:0.18, C:0.13, G:0.30, T:0.40
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATAGACTAGCTCTTATGAGCA
Found at i:53088928 original size:61 final size:62
Alignment explanation
Indices: 53088863--53088983 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 62
53088853 AATTCATTGG
*
53088863 ATTTTTTAGAATTAGAA-CTAAAATGACA-AATTTTGCAAACATT-GAAGGCTAAATTTGTTGA
1 ATTTTTTAGAATTAGAATC-AAAATGACAGAA-TGTGCAAACATTAGAAGGCTAAATTTGTTGA
* * * * * *
53088924 ATTTTTTATATTTAGCATCAAAATGATAGAATGTGCAAACATTAGAGGGCTAATTTTGTT
1 ATTTTTTAGAATTAGAATCAAAATGACAGAATGTGCAAACATTAGAAGGCTAAATTTGTT
53088984 ACTAGAGGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
61 33 0.66
62 17 0.34
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (62 bp):
ATTTTTTAGAATTAGAATCAAAATGACAGAATGTGCAAACATTAGAAGGCTAAATTTGTTGA
Found at i:53097609 original size:22 final size:21
Alignment explanation
Indices: 53097570--53097615 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
53097560 GTAACATATT
53097570 ATAAAACTTATAAAAATAAGAA
1 ATAAAACTTATAAAAATAA-AA
*
53097592 ATAAAATTTA-AAAGAATAAAA
1 ATAAAACTTATAAA-AATAAAA
53097613 ATA
1 ATA
53097616 TTTAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
ATAAAACTTATAAAAATAAAA
Found at i:53099096 original size:25 final size:26
Alignment explanation
Indices: 53099049--53099097 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
53099039 TTTCATAATA
53099049 TTTTTACAATTTTAATAAATATATAT
1 TTTTTACAATTTTAATAAATATATAT
* *
53099075 TTTTTATAATTTTAA-AATTATAT
1 TTTTTACAATTTTAATAAATATAT
53099098 CCAAAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTTTACAATTTTAATAAATATATAT
Found at i:53099254 original size:18 final size:17
Alignment explanation
Indices: 53099231--53099265 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53099221 TTTTAATATT
*
53099231 TATTTTTCATTCTTTTTA
1 TATTTTTAATT-TTTTTA
53099249 TATTTTTAATTTTTTTA
1 TATTTTTAATTTTTTTA
53099266 AATAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTAATTTTTTTA
Found at i:53104432 original size:12 final size:11
Alignment explanation
Indices: 53104413--53104448 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
53104403 TTAAGAAAAG
53104413 AAAGAAAGAAA
1 AAAGAAAGAAA
53104424 AAGAGAAAGAAGA
1 AA-AGAAAGAA-A
53104437 AAAGAAAGAAA
1 AAAGAAAGAAA
53104448 A
1 A
53104449 TGCACGGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.17
12 16 0.70
13 3 0.13
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:53119296 original size:111 final size:110
Alignment explanation
Indices: 53119084--53119304 Score: 381
Period size: 111 Copynumber: 2.0 Consensus size: 110
53119074 ATATGAAAAA
**
53119084 TGATTTTACTCATCATTCGGCACAAATTTTATTAGGAAGACCTTTTAAAAAAAAATCTAAACTAA
1 TGATTTTACTCATCATTCAACACAAATTTTATTAGGAAGACCTTTTAAAAAAAAATCTAAACTAA
*
53119149 AATTGACATGTATGAAGGCATGAAGGTGAGGTAACTAAGTTCAAT
66 AATTGACATGCATGAAGGCATGAAGGTGAGGTAACTAAGTTCAAT
*
53119194 TGATTTTACTCATCATTCAACACAAATTTTATTAGGAAGACCTTTTCAAAAAAACATCTAAACTA
1 TGATTTTACTCATCATTCAACACAAATTTTATTAGGAAGACCTTTT-AAAAAAAAATCTAAACTA
53119259 AAATTGACATGCATGAAGGCAT-AATGGTGAGGTAACTAAGTTCAAT
65 AAATTGACATGCATGAAGGCATGAA-GGTGAGGTAACTAAGTTCAAT
53119305 ATTTATGATG
Statistics
Matches: 105, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
110 46 0.44
111 59 0.56
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (110 bp):
TGATTTTACTCATCATTCAACACAAATTTTATTAGGAAGACCTTTTAAAAAAAAATCTAAACTAA
AATTGACATGCATGAAGGCATGAAGGTGAGGTAACTAAGTTCAAT
Found at i:53119686 original size:18 final size:18
Alignment explanation
Indices: 53119663--53119698 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
53119653 CTCTAGGTTG
*
53119663 CATGTGCATTAGCATTTT
1 CATGTGCATTAACATTTT
53119681 CATGTGCATTAACATTTT
1 CATGTGCATTAACATTTT
53119699 TTTTGCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (18 bp):
CATGTGCATTAACATTTT
Found at i:53129220 original size:22 final size:22
Alignment explanation
Indices: 53129181--53129222 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
53129171 CTTAATTTAA
* **
53129181 AATAAAATAGTATTTATTATAT
1 AATAAAATAATACATATTATAT
53129203 AATAAAATAATACATATTAT
1 AATAAAATAATACATATTAT
53129223 TAACAATACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AATAAAATAATACATATTATAT
Found at i:53129313 original size:22 final size:21
Alignment explanation
Indices: 53129283--53129323 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
53129273 ATTGTATCTA
*
53129283 ATAAATAATTTAAATTAATTGT
1 ATAAATAA-TTAAAATAATTGT
*
53129305 ATAATTAATTAAAATAATT
1 ATAAATAATTAAAATAATT
53129324 ACAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAAATAATTAAAATAATTGT
Found at i:53130632 original size:13 final size:13
Alignment explanation
Indices: 53130614--53130638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53130604 ATTTACAAGA
53130614 TTACATAATCAAT
1 TTACATAATCAAT
53130627 TTACATAATCAA
1 TTACATAATCAA
53130639 ATCTAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:53131170 original size:27 final size:28
Alignment explanation
Indices: 53131132--53131184 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
53131122 GGCCCGGCCC
* * *
53131132 ATTTTTAAAATA-AACATTAAAAAAATT
1 ATTTTAAAAATAGAAAAATAAAAAAATT
53131159 ATTTTAAAAATAGAAAAATAAAAAAA
1 ATTTTAAAAATAGAAAAATAAAAAAA
53131185 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
ATTTTAAAAATAGAAAAATAAAAAAATT
Found at i:53131190 original size:28 final size:27
Alignment explanation
Indices: 53131132--53131194 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
53131122 GGCCCGGCCC
* * * **
53131132 ATTTTTAAAATAAACATTAAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAAAA
53131159 ATTTTAAAAATAGAAAAATAAAAAAAAA
1 ATTTTAAAAATA-AAAAATAAAAAAAAA
53131187 A-TTTAAAA
1 ATTTTAAAA
53131195 GTATTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAATAAAAAAAAA
Found at i:53134463 original size:19 final size:19
Alignment explanation
Indices: 53134439--53134476 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
53134429 TTCAAATATG
*
53134439 TGTAATCTTATATATGATA
1 TGTAATCTTAGATATGATA
53134458 TGTAATCTTAGATATGATA
1 TGTAATCTTAGATATGATA
53134477 CGATTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (19 bp):
TGTAATCTTAGATATGATA
Found at i:53141378 original size:50 final size:50
Alignment explanation
Indices: 53141261--53141504 Score: 344
Period size: 50 Copynumber: 4.9 Consensus size: 50
53141251 AATCATAACA
* ** *
53141261 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** *
53141312 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
53141362 TGCCAACACCATGTCCCAAACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
53141412 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
53141462 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
53141505 TACCCAAATG
Statistics
Matches: 170, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 137 0.81
51 33 0.19
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:53148123 original size:21 final size:21
Alignment explanation
Indices: 53148053--53148138 Score: 56
Period size: 21 Copynumber: 4.1 Consensus size: 21
53148043 ATTTGATCCT
*
53148053 AATTCTAAAAAAT-T-TAAAAA
1 AATT-TAAAAAATATATAAATA
* *
53148073 AATAT-AAAAATACATAAAT-
1 AATTTAAAAAATATATAAATA
*
53148092 ATTTTCAAAAAA-ATATAATAATA
1 AATTT-AAAAAATATAT-A-AATA
*
53148115 AATTTAAAATATATATAAATA
1 AATTTAAAAAATATATAAATA
53148136 AAT
1 AAT
53148139 AAAAACACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
18 6 0.12
19 4 0.08
20 10 0.20
21 13 0.26
22 9 0.18
23 8 0.16
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTTAAAAAATATATAAATA
Found at i:53148143 original size:20 final size:19
Alignment explanation
Indices: 53148100--53148143 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
53148090 ATATTTTCAA
53148100 AAAAATATAATAATAAATT
1 AAAAATATAATAATAAATT
*
53148119 TAAAATATATATAAATAAA-T
1 AAAAATATA-AT-AATAAATT
53148139 AAAAA
1 AAAAA
53148144 CACATAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 8 0.38
20 7 0.33
21 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAATATAATAATAAATT
Found at i:53151440 original size:51 final size:51
Alignment explanation
Indices: 53151364--53151483 Score: 231
Period size: 51 Copynumber: 2.4 Consensus size: 51
53151354 ACTTCTGATC
*
53151364 AGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
53151415 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
53151466 AGTGACAAGTGATAAGTG
1 AGTGACAAGTGATAAGTG
53151484 ACAAGTGATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:53151471 original size:7 final size:7
Alignment explanation
Indices: 53151459--53151503 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
53151449 TTATCTGATC
53151459 AGTGACA
1 AGTGACA
53151466 AGTGACA
1 AGTGACA
*
53151473 AGTGATA
1 AGTGACA
53151480 AGTGACA
1 AGTGACA
*
53151487 AGTGATA
1 AGTGACA
*
53151494 AGTGATA
1 AGTGACA
53151501 AGT
1 AGT
53151504 AGTAGCTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.42, C:0.07, G:0.29, T:0.22
Consensus pattern (7 bp):
AGTGACA
Found at i:53151482 original size:14 final size:14
Alignment explanation
Indices: 53151459--53151503 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
53151449 TTATCTGATC
*
53151459 AGTGACAAGTGACA
1 AGTGATAAGTGACA
53151473 AGTGATAAGTGACA
1 AGTGATAAGTGACA
*
53151487 AGTGATAAGTGATA
1 AGTGATAAGTGACA
53151501 AGT
1 AGT
53151504 AGTAGCTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.29, T:0.22
Consensus pattern (14 bp):
AGTGATAAGTGACA
Found at i:53151483 original size:21 final size:21
Alignment explanation
Indices: 53151454--53151503 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
53151444 TACACTTATC
*
53151454 TGATCAGTGACAAGTGACAAG
1 TGATAAGTGACAAGTGACAAG
*
53151475 TGATAAGTGACAAGTGATAAG
1 TGATAAGTGACAAGTGACAAG
53151496 TGATAAGT
1 TGATAAGT
53151504 AGTAGCTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (21 bp):
TGATAAGTGACAAGTGACAAG
Found at i:53151539 original size:71 final size:72
Alignment explanation
Indices: 53151403--53151554 Score: 261
Period size: 71 Copynumber: 2.1 Consensus size: 72
53151393 TGCACTTATC
* *
53151403 TGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
1 TGATAAGTGACAAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
53151468 TGACAAG
66 TGACAAG
*
53151475 TGATAAGTGACAAGTGATAAGTGATAAGTAGTAGC-TTAGCTACACTTATCTGATCAGTGACAAG
1 TGATAAGTGACAAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
*
53151539 TGATAAG
66 TGACAAG
53151546 TGATAAGTG
1 TGATAAGTG
53151555 GTAGCTTAGC
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 44 0.58
72 32 0.42
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (72 bp):
TGATAAGTGACAAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
TGACAAG
Found at i:53151559 original size:50 final size:50
Alignment explanation
Indices: 53151475--53151604 Score: 224
Period size: 50 Copynumber: 2.6 Consensus size: 50
53151465 AAGTGACAAG
* *
53151475 TGATAAGTGACAAGTGATAAGTGATAAGTAGTAGCTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATC
53151525 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATC
* *
53151575 TGATCAGTGACAAGAGATAAATGATAAGTG
1 TGATCAGTGACAAGTGATAAGTGATAAGTG
53151605 ATTCCATGGA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (50 bp):
TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATC
Found at i:53158113 original size:20 final size:20
Alignment explanation
Indices: 53158043--53158113 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
53158033 GCATCATAGA
* *
53158043 TGCATAACAGAAGCACCGAAG
1 TGCA-AACAGAGGCACCAAAG
*
53158064 TGCAAACAAAGGCA-CAAATG
1 TGCAAACAGAGGCACCAAA-G
*
53158084 TGCAATCAGAGGCACCAAAG
1 TGCAAACAGAGGCACCAAAG
53158104 TGCAAACAGA
1 TGCAAACAGA
53158114 AACATCGAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 3 0.07
20 31 0.74
21 8 0.19
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (20 bp):
TGCAAACAGAGGCACCAAAG
Found at i:53168086 original size:41 final size:41
Alignment explanation
Indices: 53168001--53168131 Score: 122
Period size: 41 Copynumber: 3.2 Consensus size: 41
53167991 TGATTCGGTA
* * * * *
53168001 CACCGGCTTTTAGCCTGCTAGACTTATAGTC-CAA-AACGTAT
1 CACCGGCATTAAGCCTGCTAGACCTATAGTCTGAATAA--TTT
*
53168042 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACCTATAGTCTGAATAATTT
* * * * *
53168083 CACCAGCATCAAGTCTGCTAGACCTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTATAGTCTGAATAATTT
*
53168124 CACTGGCA
1 CACCGGCA
53168132 ATAAATCCGA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 71 0.95
42 2 0.03
43 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTATAGTCTGAATAATTT
Found at i:53170413 original size:18 final size:19
Alignment explanation
Indices: 53170387--53170428 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
53170377 TTTTAATATA
* *
53170387 TTTGATTCAC-CAGTTTAT
1 TTTGTTTCACTCAATTTAT
*
53170405 TTTGTTTCACTTAATTTAT
1 TTTGTTTCACTCAATTTAT
53170424 TTTGT
1 TTTGT
53170429 AATCATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (19 bp):
TTTGTTTCACTCAATTTAT
Found at i:53171523 original size:25 final size:25
Alignment explanation
Indices: 53171475--53171563 Score: 106
Period size: 25 Copynumber: 3.6 Consensus size: 25
53171465 ATGAGGTGTA
* * * *
53171475 AACGGTAAGCTCCTCCGAGTTGAAT
1 AACGGGAAGCTCATGCGAGCTGAAT
*
53171500 AACGGGAAGCTCATGTGAGCTGAAT
1 AACGGGAAGCTCATGCGAGCTGAAT
* *
53171525 AAGGGGAAGCTCATGCGAGCTGAGT
1 AACGGGAAGCTCATGCGAGCTGAAT
*
53171550 ATCGGGAAGCTCAT
1 AACGGGAAGCTCAT
53171564 AAAAGCTGGA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATGCGAGCTGAAT
Found at i:53174773 original size:15 final size:15
Alignment explanation
Indices: 53174749--53174779 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53174739 ACGTGGAGGG
*
53174749 GACGCTTGGTGATGC
1 GACGCGTGGTGATGC
53174764 GACGCGTGGTGATGC
1 GACGCGTGGTGATGC
53174779 G
1 G
53174780 GCGCTGAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.19, G:0.45, T:0.23
Consensus pattern (15 bp):
GACGCGTGGTGATGC
Found at i:53175483 original size:45 final size:45
Alignment explanation
Indices: 53175432--53175748 Score: 329
Period size: 45 Copynumber: 7.1 Consensus size: 45
53175422 GACTGGTGTT
* * * * * * *
53175432 TTCGATCTTCTTCACTGCTAGTACAGAAAGATAAGATCTGCTCTC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
53175477 TTCGATCTACTTCGCTGTCAATACAGGAAGACAAGGTCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
53175522 TTCGATCTACTTCGTTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * *
53175567 TTCGATCTATTTCACTGCCAATACAGAAAGACAAGACCTGCCATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
53175612 TTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * ** * * * * *
53175657 TTC-AGTCT-GTCCCGCTGTAAACT-CAAGG-AGGCGAG-GCTGGTGTC
1 TTCGA-TCTACT-TCGCTGCCAA-TAC-AGGAAGACAAGATCTGCTATC
*
53175701 TTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
53175746 TTC
1 TTC
53175749 AACCTACTCC
Statistics
Matches: 219, Mismatches: 44, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
43 4 0.02
44 26 0.12
45 185 0.84
46 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (45 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:53181117 original size:14 final size:16
Alignment explanation
Indices: 53181087--53181126 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
53181077 CTCTGCTCAA
53181087 TCTTGTCCTTCTTTTC
1 TCTTGTCCTTCTTTTC
53181103 TCTTG-CCTT-TTTTC
1 TCTTGTCCTTCTTTTC
*
53181117 TATT-TCCTTC
1 TCTTGTCCTTC
53181127 ATCTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 12 0.57
15 4 0.19
16 5 0.24
ACGTcount: A:0.03, C:0.30, G:0.05, T:0.62
Consensus pattern (16 bp):
TCTTGTCCTTCTTTTC
Found at i:53187389 original size:10 final size:10
Alignment explanation
Indices: 53187374--53187403 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
53187364 TTCAAATAAA
53187374 AAAGAAAAAG
1 AAAGAAAAAG
53187384 AAAGAAAAAG
1 AAAGAAAAAG
53187394 AAAGAAAAAG
1 AAAGAAAAAG
53187404 GAAACTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:53204483 original size:21 final size:21
Alignment explanation
Indices: 53204431--53204493 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
53204421 AGTATACAAT
*
53204431 ACATAAAGTGCCTGAA-ACGAC
1 ACATATAGTGCCT-AATACGAC
** *
53204452 ACACGTGGTGCCTAATACGAC
1 ACATATAGTGCCTAATACGAC
*
53204473 ACATATAGTGCCTGAT-CGAC
1 ACATATAGTGCCTAATACGAC
53204493 A
1 A
53204494 AAGCCGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
20 7 0.21
21 26 0.79
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (21 bp):
ACATATAGTGCCTAATACGAC
Found at i:53205450 original size:3 final size:3
Alignment explanation
Indices: 53205444--53205492 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
53205434 ATATATTAGT
* *
53205444 TAA TAA TAT TAA TAA TAA TACA TTA TAA TAA T-A TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
53205488 TAA TA
1 TAA TA
53205493 TTTAATTCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:53205474 original size:16 final size:14
Alignment explanation
Indices: 53205444--53205492 Score: 64
Period size: 13 Copynumber: 3.4 Consensus size: 14
53205434 ATATATTAGT
53205444 TAATAATATTAATAA
1 TAATAATA-TAATAA
53205459 TAATACATTATAATAA
1 TAATA-A-TATAATAA
53205475 T-ATAATATAATAA
1 TAATAATATAATAA
53205488 TAATA
1 TAATA
53205493 TTTAATTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.29
14 4 0.13
15 8 0.26
16 8 0.26
17 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:53205493 original size:16 final size:16
Alignment explanation
Indices: 53205446--53205493 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
53205436 ATATTAGTTA
53205446 ATAATATTAATAATAAT
1 ATAATA-TAATAATAAT
*
53205463 A-CAT-T-ATAATAAT
1 ATAATATAATAATAAT
53205476 ATAATATAATAATAAT
1 ATAATATAATAATAAT
53205492 AT
1 AT
53205494 TTAATTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
13 9 0.35
14 3 0.12
15 1 0.04
16 12 0.46
17 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATATAATAATAAT
Done.