Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 82 of 343
Found at i:27113468 original size:23 final size:24
Alignment explanation
Indices: 27113442--27113487 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
27113432 AGCCATGTGA
*
27113442 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
27113465 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTTTGGTATATGA
27113488 AATGTGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.52
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:27115151 original size:55 final size:54
Alignment explanation
Indices: 27115016--27115223 Score: 203
Period size: 55 Copynumber: 3.8 Consensus size: 54
27115006 ATACACGGGT
* * * ** *
27115016 ACCTTACCATTTCCATGACTTTTCATGGTCTTACATG-GTATCCTTGTCTTATG-A
1 ACCTTACCAATGCCATGCCTTGGCATGGTCTTACATGAG-ATCCTTGCCTTA-GAA
* *
27115070 A-CTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGA-CCTTTGCCTTCTAGTA
1 ACCTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCC-TTGCC-T-TAGAA
* * * *
27115125 A-CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAA
1 ACCTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCCTTGCCTTAGAA
27115178 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATG-GTATCCTT
1 ACCTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGAG-ATCCTT
27115224 ATACCTTAAT
Statistics
Matches: 128, Mismatches: 17, Indels: 17
0.79 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 39 0.30
54 12 0.09
55 73 0.57
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (54 bp):
ACCTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCCTTGCCTTAGAA
Found at i:27122831 original size:55 final size:54
Alignment explanation
Indices: 27122696--27122903 Score: 185
Period size: 55 Copynumber: 3.8 Consensus size: 54
27122686 ATACACGGGT
* * * ** *
27122696 ACCTTACCATTTCCATGACTTTTCATGGTCTTACATG-GTATCCTTGTCTTATG-A
1 ACCTTACCAATGCCATGTCTTGGCATGGTCTTACATGAG-ATCCTTGCCTTA-GAA
* * *
27122750 A-CTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGA-CCTTTGCCTTCTAGTA
1 ACCTTACCAATGCCATGTCTTGGCATGGTCTTACATGAGATCC-TTGCC-T-TAGAA
* * *
27122805 A-CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAA
1 ACCTTACCAATGCCATGTCTTGGCATGGTCTTACATGAGATCCTTGCCTTAGAA
* *
27122858 ACCTTACCAATTGCCATGTCGTGGCATTGTCTTACATG-GTATCCTT
1 ACCTTACCAA-TGCCATGTCTTGGCATGGTCTTACATGAG-ATCCTT
27122904 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 17
0.78 0.11 0.10
Matches are distributed among these distances:
52 2 0.02
53 39 0.31
54 12 0.09
55 72 0.57
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (54 bp):
ACCTTACCAATGCCATGTCTTGGCATGGTCTTACATGAGATCCTTGCCTTAGAA
Found at i:27126789 original size:45 final size:45
Alignment explanation
Indices: 27126725--27126810 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
27126715 TAGAATGAAC
* *
27126725 CTTTCGACAGGGAAGAAGACCAA-CGAACCAGAGAAGGACTGAAGA
1 CTTTCGACAGCGAAGAAGA-CAAGCGAACCAAAGAAGGACTGAAGA
*
27126770 CTTTCGACAGCGAAGAAGACAAGCGAACCAAATAAGGACTG
1 CTTTCGACAGCGAAGAAGACAAGCGAACCAAAGAAGGACTG
27126811 GAGAAATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 3 0.08
45 34 0.92
ACGTcount: A:0.42, C:0.21, G:0.27, T:0.10
Consensus pattern (45 bp):
CTTTCGACAGCGAAGAAGACAAGCGAACCAAAGAAGGACTGAAGA
Found at i:27128621 original size:235 final size:235
Alignment explanation
Indices: 27128210--27128676 Score: 810
Period size: 235 Copynumber: 2.0 Consensus size: 235
27128200 TGAGTAAGTC
* *
27128210 ACAATCATTTACTTCTAAGAAATTAAATGTGACAGCTCTAACCCATATCAGTTGCTGGAATAGGG
1 ACAATCATTTACTTCTAAGAAATTAAATGTGACAACTCTAACCCATATAAGTTGCTGGAATAGGG
* *
27128275 TTACGAGGGATTACCGGACATATCGGAACATTCAGATATACTTCAACATAACATAATCAAAACAT
66 TTACGAGGGATTACCGGACATATCGGAACATTCACATACACTTCAACATAACATAATCAAAACAT
*
27128340 ATAATAATCGTTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGGG
131 ATAATAATCATTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGGG
*
27128405 GTTGGGACTAAACTGAGCTCATACAAAATTTTTCAAAACT
196 GTTGGGACTAAACCGAGCTCATACAAAATTTTTCAAAACT
27128445 ACAATCATTTACTTCTAAGAAATTAAATGTGACAACTCTAACCCATATAAGTTGCTGGAATAGGG
1 ACAATCATTTACTTCTAAGAAATTAAATGTGACAACTCTAACCCATATAAGTTGCTGGAATAGGG
* * *
27128510 TTACGATGGATTACTGGACATATCGGAACATTCACATACACTT-AAGCATAACATAGTCAAAACA
66 TTACGAGGGATTACCGGACATATCGGAACATTCACATACACTTCAA-CATAACATAATCAAAACA
* * *
27128574 TATAATAATCATTCACAATTTTCCGTTATATAGGTCTAGGAGACCTTAAACATGCTTTAGAAAGG
130 TATAATAATCATTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGG
27128639 GGTTGGGACTAAACCGAGCTCATACAAAATTTTTCAAA
195 GGTTGGGACTAAACCGAGCTCATACAAAATTTTTCAAA
27128677 GTTATAAAGG
Statistics
Matches: 219, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
234 2 0.01
235 217 0.99
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (235 bp):
ACAATCATTTACTTCTAAGAAATTAAATGTGACAACTCTAACCCATATAAGTTGCTGGAATAGGG
TTACGAGGGATTACCGGACATATCGGAACATTCACATACACTTCAACATAACATAATCAAAACAT
ATAATAATCATTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGGG
GTTGGGACTAAACCGAGCTCATACAAAATTTTTCAAAACT
Found at i:27133870 original size:42 final size:43
Alignment explanation
Indices: 27133794--27133943 Score: 128
Period size: 42 Copynumber: 3.5 Consensus size: 43
27133784 TAGAGGTTGT
* * *
27133794 CTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGG
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAGGGG
* **
27133837 CTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACACGAT
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAGGGG
* * * *
27133879 CTTACACATAAATCATAAGT-T-GATGCCAACGTCCCAGAC-GTAGT
1 CTTACAC-GAAATCA-AA-TATCGATGCCAATGTCCCAGACAG-GGG
* *
27133923 CTTACACGAAAACACATATCG
1 CTTACACGAAATCAAATATCG
27133944 GATCCTATGT
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.34
43 28 0.33
44 27 0.31
45 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAGGGG
Found at i:27135233 original size:24 final size:24
Alignment explanation
Indices: 27135201--27135297 Score: 149
Period size: 24 Copynumber: 4.0 Consensus size: 24
27135191 AGGCTGTCAA
*
27135201 GAGAAGATTTAGGAGCTAATAAGG
1 GAGAAGATTTAGGAGCTGATAAGG
*
27135225 GAGAGGATTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTGATAAGG
* *
27135249 GAGAGGATTTAGGAGCTGATAAAG
1 GAGAAGATTTAGGAGCTGATAAGG
27135273 GAGAAGATTTAGGAGCTGATCAAGG
1 GAGAAGATTTAGGAGCTGAT-AAGG
27135298 AGTGGGAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 64 0.96
25 3 0.04
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (24 bp):
GAGAAGATTTAGGAGCTGATAAGG
Found at i:27137012 original size:32 final size:32
Alignment explanation
Indices: 27136937--27137012 Score: 75
Period size: 32 Copynumber: 2.4 Consensus size: 32
27136927 TCTGAATAGG
* *
27136937 GGGCTAAGGCCCAGTTTAATGTAATCTGAAAA
1 GGGCTTAGGCCCAGTTCAATGTAATCTGAAAA
* * *
27136969 GGGCTCT-GGCCCAGTATCACTGTTATCTG-AAT
1 GGGCT-TAGGCCCAGT-TCAATGTAATCTGAAAA
27137001 GGGCTTAGGCCC
1 GGGCTTAGGCCC
27137013 GATAGGCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
31 1 0.03
32 25 0.69
33 10 0.28
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (32 bp):
GGGCTTAGGCCCAGTTCAATGTAATCTGAAAA
Found at i:27137862 original size:21 final size:22
Alignment explanation
Indices: 27137824--27137875 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
27137814 ACTTGTTTTT
*
27137824 TTTCAAAAGTTTGAAAAATGGA
1 TTTCAAAAGTTTGAAAAACGGA
*
27137846 TTTCAAAGGTTTGAAAAACGGA
1 TTTCAAAAGTTTGAAAAACGGA
27137868 TTTCAAAA
1 TTTCAAAA
27137876 AGCCTAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (22 bp):
TTTCAAAAGTTTGAAAAACGGA
Found at i:27139548 original size:24 final size:25
Alignment explanation
Indices: 27139512--27139558 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
27139502 AGAGGATGGT
27139512 GTTAAGGACTATTGAGG-ATGAAAA
1 GTTAAGGACTATTGAGGAATGAAAA
* * *
27139536 GTTAATGATTATTGGGGAATGAA
1 GTTAAGGACTATTGAGGAATGAA
27139559 GAGATTACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.38, C:0.02, G:0.30, T:0.30
Consensus pattern (25 bp):
GTTAAGGACTATTGAGGAATGAAAA
Found at i:27143040 original size:24 final size:23
Alignment explanation
Indices: 27142942--27143042 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 23
27142932 AAAGGCTGTC
*
27142942 AGGAGAAGATTTAGAAGCTGATA
1 AGGAGAAGATTTAGGAGCTGATA
*
27142965 AGAGAGAGGATTTAGGAGCTGATA
1 AG-GAGAAGATTTAGGAGCTGATA
*
27142989 AGGGAGAGGATTTAGGAGCTGATAA
1 A-GGAGAAGATTTAGGAGCTGAT-A
27143014 AGGAGAAGATTTAGGAGCTGATCA
1 AGGAGAAGATTTAGGAGCTGAT-A
27143038 AGGAG
1 AGGAG
27143043 CAGGAGTTGG
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
23 2 0.03
24 66 0.93
25 3 0.04
ACGTcount: A:0.39, C:0.05, G:0.37, T:0.20
Consensus pattern (23 bp):
AGGAGAAGATTTAGGAGCTGATA
Found at i:27150541 original size:25 final size:25
Alignment explanation
Indices: 27150513--27150582 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
27150503 CTCTTTTAAT
*
27150513 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
27150538 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
27150563 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
27150583 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:27151521 original size:27 final size:27
Alignment explanation
Indices: 27151491--27151598 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
27151481 GTAAATCTAC
27151491 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
27151518 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
27151544 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
27151574 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
27151599 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 41 0.60
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:27151596 original size:56 final size:54
Alignment explanation
Indices: 27151488--27151657 Score: 175
Period size: 54 Copynumber: 3.1 Consensus size: 54
27151478 TTGGTAAATC
* * *
27151488 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTC-GTAATTTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * *
27151543 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTC-GTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
** ***
27151598 TACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCG-TAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
27151652 TACAAA
1 TACAAA
27151658 CTAGGGGTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
53 1 0.01
54 45 0.46
55 14 0.14
56 37 0.38
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:27151604 original size:27 final size:27
Alignment explanation
Indices: 27151540--27151710 Score: 134
Period size: 27 Copynumber: 6.3 Consensus size: 27
27151530 TTTCTATAAT
* *
27151540 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
27151568 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * *
27151595 TTTTACAAAT-TGAGGGTATTTCGATAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * *
27151622 TTTCACAAACCAGTGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
27151649 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* ** *
27151676 TTCTATCCTA-CAGGGGTATTTTAGTAA
1 TTTTA-CAAATCAGGGGTATTTTGGTAA
*
27151703 TTTCACAA
1 TTTTACAA
27151711 TCAATGGTAA
Statistics
Matches: 114, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.04
27 99 0.87
28 11 0.10
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:27160831 original size:21 final size:20
Alignment explanation
Indices: 27160782--27160833 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
27160772 AAATATTTAA
*
27160782 TTATGGTTTAAGGGTTGGGGT
1 TTATGGTTT-AGGGTTAGGGT
* *
27160803 TAAGGGTTTAGGGTTTAGGGT
1 TTATGGTTTAGGG-TTAGGGT
27160824 TTATGGTTTA
1 TTATGGTTTA
27160834 TCATTTAGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.44
Consensus pattern (20 bp):
TTATGGTTTAGGGTTAGGGT
Found at i:27160834 original size:7 final size:7
Alignment explanation
Indices: 27160786--27160833 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
27160776 ATTTAATTAT
27160786 GGTTTAAG
1 GGTTT-AG
*
27160794 GG-TTGG
1 GGTTTAG
*
27160800 GGTTAAG
1 GGTTTAG
27160807 GGTTTAG
1 GGTTTAG
27160814 GGTTTAG
1 GGTTTAG
*
27160821 GGTTTAT
1 GGTTTAG
27160828 GGTTTA
1 GGTTTA
27160834 TCATTTAGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
6 3 0.09
7 29 0.85
8 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:27160977 original size:15 final size:14
Alignment explanation
Indices: 27160957--27161008 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
27160947 ATGTTTATTA
27160957 TTTTGGATTTAGAGT
1 TTTTGG-TTTAGAGT
*
27160972 TTTTGGTTTAGGGT
1 TTTTGGTTTAGAGT
* * *
27160986 TTATAGTTTATAGT
1 TTTTGGTTTAGAGT
*
27161000 TTGTGGTTT
1 TTTTGGTTT
27161009 TTTGTTTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 24 0.80
15 6 0.20
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (14 bp):
TTTTGGTTTAGAGT
Found at i:27161001 original size:21 final size:22
Alignment explanation
Indices: 27160964--27161027 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 22
27160954 TTATTTTGGA
* *
27160964 TTTAGAGTTTT-TGGTTTAGGG
1 TTTATAGTTTTATAGTTTAGGG
27160985 TTTATAG-TTTATAGTTT-GTGG
1 TTTATAGTTTTATAGTTTAG-GG
* *
27161006 TTTTTTGTTTTATAG-TTAGGG
1 TTTATAGTTTTATAGTTTAGGG
27161027 T
1 T
27161028 CGTGGTACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.11
21 23 0.66
22 8 0.23
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.58
Consensus pattern (22 bp):
TTTATAGTTTTATAGTTTAGGG
Found at i:27161188 original size:7 final size:7
Alignment explanation
Indices: 27161176--27161248 Score: 60
Period size: 7 Copynumber: 10.6 Consensus size: 7
27161166 AATATATATA
27161176 TTTAGGG
1 TTTAGGG
27161183 TTTAGGG
1 TTTAGGG
* *
27161190 TGT-CGG
1 TTTAGGG
*
27161196 TTTATGG
1 TTTAGGG
*
27161203 TTTATGG
1 TTTAGGG
*
27161210 TTTATGG
1 TTTAGGG
*
27161217 TTTATGG
1 TTTAGGG
27161224 TTT-GAGG
1 TTTAG-GG
*
27161231 TTTAAGG
1 TTTAGGG
27161238 TTTAGGG
1 TTTAGGG
27161245 TTTA
1 TTTA
27161249 CTGTTGGAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
6 4 0.07
7 52 0.93
ACGTcount: A:0.15, C:0.01, G:0.34, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:27161213 original size:14 final size:14
Alignment explanation
Indices: 27161194--27161248 Score: 76
Period size: 14 Copynumber: 3.9 Consensus size: 14
27161184 TTAGGGTGTC
27161194 GGTTTATGGTTTAT
1 GGTTTATGGTTTAT
27161208 GGTTTATGGTTTAT
1 GGTTTATGGTTTAT
*
27161222 GGTTTGA-GGTTTAA
1 GGTTT-ATGGTTTAT
*
27161236 GGTTTAGGGTTTA
1 GGTTTATGGTTTA
27161249 CTGTTGGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
13 1 0.03
14 36 0.95
15 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (14 bp):
GGTTTATGGTTTAT
Found at i:27161220 original size:21 final size:20
Alignment explanation
Indices: 27161194--27161248 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
27161184 TTAGGGTGTC
*
27161194 GGTTTATGGTTTATGGTTTAT
1 GGTTTATGGTTTA-GGTTTAA
27161215 GGTTTATGGTTTGAGGTTTAA
1 GGTTTATGGTTT-AGGTTTAA
*
27161236 GGTTTAGGGTTTA
1 GGTTTATGGTTTA
27161249 CTGTTGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (20 bp):
GGTTTATGGTTTAGGTTTAA
Found at i:27161472 original size:18 final size:17
Alignment explanation
Indices: 27161440--27161473 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27161430 TATTTATTTT
27161440 AATATATTAAAATTATC
1 AATATATTAAAATTATC
*
27161457 AATATAATTTAAATTAT
1 AATAT-ATTAAAATTAT
27161474 TTTAGAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATATTAAAATTATC
Found at i:27163994 original size:29 final size:29
Alignment explanation
Indices: 27163923--27164027 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 29
27163913 CATATAACCC
* *
27163923 ACTAGGCCCAA-TCTTATTCAAATGGCCT
1 ACTAGGCCCAATTCATATTCATATGGCCT
* * * *
27163951 ATCT-GGCCTAGTTCATATTCTTATGGTCT
1 A-CTAGGCCCAATTCATATTCATATGGCCT
** *
27163980 ACTAGGCCCAATTCACCTTCATATGGCCC
1 ACTAGGCCCAATTCATATTCATATGGCCT
* *
27164009 ATTAGGCCCAAATCATATT
1 ACTAGGCCCAATTCATATT
27164028 ATACTCATGC
Statistics
Matches: 57, Mismatches: 17, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
28 8 0.14
29 49 0.86
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (29 bp):
ACTAGGCCCAATTCATATTCATATGGCCT
Found at i:27164133 original size:19 final size:19
Alignment explanation
Indices: 27164100--27164146 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
27164090 TGGGCCCAAC
*
27164100 AGCCCA-TCAGGCCCATTT
1 AGCCCATTCTGGCCCATTT
27164118 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
* *
27164137 GGCCAATTCT
1 AGCCCATTCT
27164147 CAACCCAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.28
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Found at i:27169820 original size:43 final size:43
Alignment explanation
Indices: 27169670--27169919 Score: 168
Period size: 42 Copynumber: 5.9 Consensus size: 43
27169660 TTTAGTGGCC
* * * **
27169670 TTTTTGGGGAAAGCATTGCTAAAGGTCAT-ATCTTTAGCGGCA
1 TTTTTGGGGAAAGCACTACTAAAGGTCATGTTCTTTAGCGGTG
** * * * * * ***
27169712 TTTGAGGAGAAAGCACCATTAAAGATCATG-TCTTTAGTGACA
1 TTTTTGGGGAAAGCACTACTAAAGGTCATGTTCTTTAGCGGTG
* *
27169754 TTTTTGGGGAAA--ATGTCACTAAAGCTCATGTTCTTTAGCGGTG
1 TTTTTGGGGAAAGCA-CT-ACTAAAGGTCATGTTCTTTAGCGGTG
* * *
27169797 TTTTTGGGGAAAGCACTATTAAAGGTCGTGTTCTTTAGAGGTG
1 TTTTTGGGGAAAGCACTACTAAAGGTCATGTTCTTTAGCGGTG
* * * * * *
27169840 GTTTTGGGAAAAGCGCTGCTAAAGGTCATGTTCTGTAGTGGTG
1 TTTTTGGGGAAAGCACTACTAAAGGTCATGTTCTTTAGCGGTG
* * * **
27169883 TTTCT-GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAG
1 TTTTTGGGGAAAGCACTACTAAAGGTCATGTTCTTTAG
27169920 TGGCATTTCT
Statistics
Matches: 164, Mismatches: 38, Indels: 12
0.77 0.18 0.06
Matches are distributed among these distances:
40 1 0.01
42 81 0.49
43 80 0.49
44 1 0.01
45 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
TTTTTGGGGAAAGCACTACTAAAGGTCATGTTCTTTAGCGGTG
Found at i:27169903 original size:42 final size:42
Alignment explanation
Indices: 27169772--27169937 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 42
27169762 GAAAATGTCA
* * * * * **
27169772 CTAAAGCTCATGTTCTTTAGCGGTGTTTTTGGGGAAAGCACTA
1 CTAAAGGTCATGTTCTTTAGTGGTGTTTCT-GGAAAAGCGCCG
* * * *
27169815 TTAAAGGTCGTGTTCTTTAGAGGTGGTTT-TGGGAAAAGCGCTG
1 CTAAAGGTCATGTTCTTTAGTGGT-GTTTCT-GGAAAAGCGCCG
*
27169858 CTAAAGGTCATGTTCTGTAGTGGTGTTTCTGGAAAAGCGCCG
1 CTAAAGGTCATGTTCTTTAGTGGTGTTTCTGGAAAAGCGCCG
**
27169900 CTAAAGGTCATGTTCTTTAGTGGCATTTCTGGTAAAAG
1 CTAAAGGTCATGTTCTTTAGTGGTGTTTCTGG-AAAAG
27169938 TGTGGTTAAG
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 44 0.42
43 57 0.54
44 4 0.04
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (42 bp):
CTAAAGGTCATGTTCTTTAGTGGTGTTTCTGGAAAAGCGCCG
Found at i:27174267 original size:47 final size:48
Alignment explanation
Indices: 27174194--27174556 Score: 251
Period size: 46 Copynumber: 7.7 Consensus size: 48
27174184 AGGGTATAAT
*
27174194 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATC-CATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAA
* * * * *
27174241 GTCAATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATC-AA
* * * **
27174290 GCC-AGCGCCATGTCCCAGACAAGGTCTTACACTAGCTC-TCACATATCCGT
1 GCCGA-TGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAC--AT-CAA
* * * * *
27174340 GCCGATGCCATGTCCTAGACATGTTCTTACACTGACAT-ATCTCGT--A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATCACATCAA
*
27174386 GCCGATG-CGTGTCCCAGACAT-GTCTTACACTGGCGT-A-CATC-TCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATCA-CATCAA
* * ** *
27174431 GGTCGATG-CATGTCCCAGACAT-GTCTTACATTATCTC-TCATATCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAA
* * *
27174477 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAAT-ATG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-CATCA-A
27174526 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
27174557 AGCATACAAT
Statistics
Matches: 250, Mismatches: 44, Indels: 45
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 14 0.06
45 14 0.06
46 61 0.24
47 59 0.24
48 28 0.11
49 36 0.14
50 30 0.12
51 6 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAA
Found at i:27174474 original size:94 final size:94
Alignment explanation
Indices: 27174191--27174554 Score: 254
Period size: 94 Copynumber: 3.9 Consensus size: 94
27174181 CATAGGGTAT
* * * * *
27174191 AATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCCATCA-A--GTCAATGCCATG
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-T-CATAATATGGCCGATG-CATG
* * *
27174253 TCCCAGACATGGTCTTACACTGA-CTATCGAAATC
63 TCCCAGACAT-GTCTTACA-TTATCTCTC-ATATC
* * * * * * *
27174287 GAGGCC-AGCGCCATGTCCCAGACAAGGTCTTACACTAGCTCTCA-CATATCCGTGCCGATGCCA
1 AATGCCGA-TGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATAT--G-GCCGATG-CA
* **
27174350 TGTCCTAGACATGTTCTTAC---A-CTGACATATC
61 TGTCCCAGACATG-TCTTACATTATCTCTCATATC
** * * * *
27174381 TCGTAGCCGATG-CGTGTCCCAGACAT-GTCTTACACTGGCGTACATC-TCA-A-GGTCGATGCA
1 -AAT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGC-T-C-TCATAATATGGCCGATGCA
27174441 TGTCCCAGACATGTCTTACATTATCTCTCATATC
61 TGTCCCAGACATGTCTTACATTATCTCTCATATC
27174475 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCC
27174540 CAGACATGTCTTACA
66 CAGACATGTCTTACA
27174555 CTAGCATACA
Statistics
Matches: 215, Mismatches: 29, Indels: 50
0.73 0.10 0.17
Matches are distributed among these distances:
90 6 0.03
91 16 0.07
92 16 0.07
93 19 0.09
94 69 0.32
95 19 0.09
96 39 0.18
97 5 0.02
98 1 0.00
99 25 0.12
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (94 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCC
CAGACATGTCTTACATTATCTCTCATATC
Found at i:27178243 original size:22 final size:22
Alignment explanation
Indices: 27178215--27178290 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
27178205 TTCCACATCC
27178215 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
27178237 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
27178261 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
27178284 ATCACAT
1 ATCACAT
27178291 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:27178250 original size:47 final size:47
Alignment explanation
Indices: 27178187--27178722 Score: 783
Period size: 47 Copynumber: 11.3 Consensus size: 47
27178177 CCCTTCGGGA
* * *
27178187 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
27178234 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
27178281 CTTATCACATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
27178328 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
27178375 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
27178422 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
27178469 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
27178516 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTCGGC
* *
27178565 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
27178612 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
27178661 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
27178710 CTTATCACATATA
1 CTTATCACATATA
27178723 CTATCATGTA
Statistics
Matches: 456, Mismatches: 27, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 317 0.70
49 137 0.30
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:27180213 original size:56 final size:56
Alignment explanation
Indices: 27180146--27180265 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
27180136 TATTAGTTTA
27180146 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
27180202 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27180258 TTGCCCAT
1 TTGCCCAT
27180266 CATCCCTTGC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:27181579 original size:40 final size:40
Alignment explanation
Indices: 27181534--27181849 Score: 411
Period size: 40 Copynumber: 7.9 Consensus size: 40
27181524 CGAATACACG
* * * *
27181534 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
27181574 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27181614 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
27181654 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
27181694 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
27181734 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27181774 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGTTATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** *
27181813 GTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGAT
1 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
27181850 TTAGTAACTC
Statistics
Matches: 246, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
39 19 0.08
40 227 0.92
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:27181684 original size:80 final size:79
Alignment explanation
Indices: 27181547--27181887 Score: 389
Period size: 80 Copynumber: 4.3 Consensus size: 79
27181537 CCAGCATGAT
* * * * ** *
27181547 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
27181612 TATCACTAGCACGAA
65 CATCACTAGCACGAA
* *
27181627 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
27181692 CATCACTAGCATGAA
65 CATCACTAGCACGAA
* *
27181707 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
27181772 CATCACTAGCATGAA
65 CATCACTAGCACGAA
* * * * * * *
27181787 TGCTCTTCGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGATT
1 TGCTCTTCGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* * * *
27181851 TAGTAACTCGCACCAA
65 CA-TCACTAGCACGAA
*
27181867 TGC-CTTCGGGCTTAGCCCGGA
1 TGCTCTTCGGACTTAGCCCGGA
27181888 CATCATTCGA
Statistics
Matches: 228, Mismatches: 29, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
79 53 0.23
80 173 0.76
81 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
ATCACTAGCACGAA
Found at i:27181752 original size:120 final size:120
Alignment explanation
Indices: 27181534--27181849 Score: 456
Period size: 120 Copynumber: 2.6 Consensus size: 120
27181524 CGAATACACG
* * * * * * *
27181534 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGGA
* * *
27181599 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
66 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
27181654 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGGA
*
27181719 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
66 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
27181774 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATA-TCACTAGCACGAATGCTCTTCGGG
*
27181837 ACTTAACCCGGAT
65 ACTTAGCCCGGAT
27181850 TTAGTAACTC
Statistics
Matches: 176, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
119 36 0.20
120 140 0.80
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGGA
CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:27181855 original size:40 final size:41
Alignment explanation
Indices: 27181551--27181887 Score: 188
Period size: 40 Copynumber: 8.5 Consensus size: 41
27181541 CATGATTGCT
* *
27181551 CTTCGGGACCTAGCCCGGA-TATA--ACAC-CAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTATAGTA-ACTC-GCACAAATGC
** * * * *
27181590 TCTTCGGGGTTTAGCACGGA-TATA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
* * * * **
27181630 TCTTCGGAACTTAGCCCGGA-TACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
* * * **
27181670 TCTTCGGGACTTAGCCCGG-TTACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
* * * **
27181710 TCTTCGGGACTTAGCCCGGA-TACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
* * * * **
27181750 TCTTCGGAACTTAGCCCGGA-TACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
27181790 TCTTC-GGACTTAGCCCGG-TTATAGTAACTCGCACAAATGC
1 -CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
* *
27181830 CTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
27181870 CTTCGGG-CTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
27181888 CATCATTCGA
Statistics
Matches: 266, Mismatches: 23, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
39 29 0.11
40 235 0.88
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGC
Found at i:27181869 original size:120 final size:120
Alignment explanation
Indices: 27181534--27181887 Score: 450
Period size: 120 Copynumber: 3.0 Consensus size: 120
27181524 CGAATACACG
* * * *
27181534 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGG--ATATAACACCAGCACGAATGCTCTTCGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATAAC-TC-GCACGAATGCTCTTCGG
** *
27181597 GGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
64 GACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * *
27181654 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATAACTCGCACGAATGCTCTTCGGGA
* *
27181719 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
66 CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
*
27181774 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATA-TAACTCGCACGAATGCTCTTCGGG
* * * * * *
27181837 ACTTAACCCGGATTTAGTAACTCGCACCAATGC-CTTCGG-GCTTAGCCCGGA
65 ACTTAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGA
27181888 CATCATTCGA
Statistics
Matches: 204, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
118 11 0.05
119 43 0.21
120 145 0.71
122 5 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATAACTCGCACGAATGCTCTTCGGGA
CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:27184213 original size:47 final size:47
Alignment explanation
Indices: 27184150--27184729 Score: 861
Period size: 47 Copynumber: 12.3 Consensus size: 47
27184140 CCCTTCGGGA
* * *
27184150 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
27184197 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
27184244 CTTATCACATATATCCA-TTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
27184290 CTTATCTC--ATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
27184335 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
27184382 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
27184429 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
27184476 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
27184525 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
27184572 CTTATCACATATATACACCTTCACATTCATCAC-TTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATT-GGCCATTCGGC
*
27184619 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
27184668 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
27184717 CTTATCACATATA
1 CTTATCACATATA
27184730 CTATCATGTA
Statistics
Matches: 499, Mismatches: 24, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
44 7 0.01
45 35 0.07
46 37 0.07
47 283 0.57
49 134 0.27
50 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:27184548 original size:143 final size:140
Alignment explanation
Indices: 27184171--27184730 Score: 840
Period size: 143 Copynumber: 4.0 Consensus size: 140
27184161 TATACACTTC
*
27184171 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
* *
27184236 CATTCGGCCTTATCACATATATCCATTTCACATTCATCACATTGGCCATTCGGCCTTAT--CTCA
66 CATTCGGCCTTATCACATATATACATTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
*
27184299 TATACATGTT
131 TACACATGTT
* *
27184309 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCACATTGG
* *
27184373 CCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
65 CCATTCGGCCTTATCACATATATACAT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACA
27184438 CATACACATGTT
129 CATACACATGTT
27184450 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
* *
27184515 GCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
64 GCCATTCGGCCTTATCACATATATACA-TTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* * **
27184580 ATATATACACCTT
128 ACATACACATGTT
*
27184593 CACATTCATCAC-TTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATT
1 CACATTCATCACATT-GGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATT
*
27184657 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT
63 GGCCATTCGGCCTTATCAC--ATATATACA-TTTCACATTCATCACATTGGCCATTCGGCCTTAT
*
27184722 CACATATAC
125 CACACATAC
27184731 TATCATGTAC
Statistics
Matches: 389, Mismatches: 22, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
137 1 0.00
138 84 0.22
139 33 0.08
141 46 0.12
142 2 0.01
143 171 0.44
144 2 0.01
145 50 0.13
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (140 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
CATTCGGCCTTATCACATATATACATTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
TACACATGTT
Found at i:27186221 original size:56 final size:56
Alignment explanation
Indices: 27186154--27186273 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
27186144 TATTAGTTTA
27186154 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
27186210 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27186266 TTGCCCAT
1 TTGCCCAT
27186274 CATCCCTTGC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:27189707 original size:43 final size:43
Alignment explanation
Indices: 27189659--27189745 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
27189649 GATTAACGAG
* * * *
27189659 ATGTGATTATGTGTAGGATCAAGTCTGGGACATTGGCATCATT
1 ATGTGATTAGGTGTAAGACCAAGTCTGGGACATTAGCATCATT
* * *
27189702 ATGTGATTAGGTGTAAGACCATGTTTGGGACTTTAGCATCATT
1 ATGTGATTAGGTGTAAGACCAAGTCTGGGACATTAGCATCATT
27189745 A
1 A
27189746 ATTAATTTCG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (43 bp):
ATGTGATTAGGTGTAAGACCAAGTCTGGGACATTAGCATCATT
Found at i:27207715 original size:30 final size:30
Alignment explanation
Indices: 27207679--27207747 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
27207669 CACACGGGCA
* *
27207679 GACACACGGGCGTGTGTCTAGACCGTGTGT
1 GACACACGGGCGTGTGTCAAAACCGTGTGT
* *
27207709 GACACACAGGCGTGTGTCAAAACCGTGTTT
1 GACACACGGGCGTGTGTCAAAACCGTGTGT
*
27207739 GATACACGG
1 GACACACGG
27207748 CCTGGTAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (30 bp):
GACACACGGGCGTGTGTCAAAACCGTGTGT
Found at i:27209340 original size:48 final size:48
Alignment explanation
Indices: 27209253--27209534 Score: 235
Period size: 48 Copynumber: 5.8 Consensus size: 48
27209243 ATACTAGGGT
* * * *
27209253 TATGTGAGCCAGTGTAAGACCATGT-TTGGAACATCGCATCGGCATTTA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATCTA
* * * ** *
27209301 TATGAGAGCTAGTGTAAGATCATGTCTAGGACATGGCATCGACCCCGA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCTA
* * * * *
27209349 CATGTGAGCCAATGTAAGACCATGT-TTGGAACATGGCATCGGCATTTA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATCTA
* * * * * * *
27209397 TATGATATCTAGTGTAAGACCATGTCTGGGACATGGCATAGGCCTCGA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCTA
* * ** * * *
27209445 CATGTGAGATAGTGTAAGACCATGTTTAGAACATGGCATCGGCACCGATA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATC--TA
* *
27209495 TATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
27209535 AGCTTCTTAC
Statistics
Matches: 177, Mismatches: 52, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
47 3 0.02
48 135 0.76
49 6 0.03
50 33 0.19
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCTA
Found at i:27209421 original size:96 final size:96
Alignment explanation
Indices: 27209254--27209534 Score: 400
Period size: 96 Copynumber: 2.9 Consensus size: 96
27209244 TACTAGGGTT
* *
27209254 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATCGCATCGGCATTTATATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAAAGCTAGTGTAAG
* *
27209319 ATCATGTCTAGGACATGGCATCGACCCCGAC
66 ACCATGTCTGGGACATGGCATCGACCCCGAC
* * *
27209350 ATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGATATCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAAAGCTAGTGTAAG
* * *
27209415 ACCATGTCTGGGACATGGCATAGGCCTCGAC
66 ACCATGTCTGGGACATGGCATCGACCCCGAC
** * ** *
27209446 ATGTGAGATAGTGTAAGACCATGTTTAGAACATGGCATCGGCACCGATATATGAAAGCCAGTGTA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTATATGAAAGCTAGTGTA
27209511 AGACCATGTCTGGGACATGGCATC
64 AGACCATGTCTGGGACATGGCATC
27209535 AGCTTCTTAC
Statistics
Matches: 164, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 126 0.77
98 38 0.23
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (96 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAAAGCTAGTGTAAG
ACCATGTCTGGGACATGGCATCGACCCCGAC
Found at i:27212707 original size:64 final size:64
Alignment explanation
Indices: 27212599--27212725 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
27212589 CAGATTACCT
* *
27212599 GTCTGGGCTAAATCCATAATGCACATGTATTCTTCGGGAAGCTCAATCATCCAAAGGAACACCC
1 GTCTGGGCTAAATCCATAATGCACAAGTATTCTTCAGGAAGCTCAATCATCCAAAGGAACACCC
* * *
27212663 GTCTGGGCTAAATCTATAATGCACAAGTATTCTTTAGGAGGCTCAATCATCCAAAGGAACACC
1 GTCTGGGCTAAATCCATAATGCACAAGTATTCTTCAGGAAGCTCAATCATCCAAAGGAACACC
27212726 TATCCGGGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (64 bp):
GTCTGGGCTAAATCCATAATGCACAAGTATTCTTCAGGAAGCTCAATCATCCAAAGGAACACCC
Found at i:27220073 original size:63 final size:64
Alignment explanation
Indices: 27219970--27220099 Score: 201
Period size: 63 Copynumber: 2.0 Consensus size: 64
27219960 CGAATTACCT
* * *
27219970 GTCTGGGCTAAATCCATAATGTACATGTATTCTTCGGGAGGCTCAATCAT-CAAAGGAACACCC
1 GTCTGGGCTAAATCCATAATGCACATGTATTCTTCAGGAGGCTCAATCATCCAAAAGAACACCC
*
27220033 GTCTGGGCTAAATCCATAATGCACATGTATTCCTT-AGGAGGTTCAATCATCCAAAAGAACACCC
1 GTCTGGGCTAAATCCATAATGCACATGTATT-CTTCAGGAGGCTCAATCATCCAAAAGAACACCC
27220097 GTC
1 GTC
27220100 CAGGCTAGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
63 43 0.70
64 18 0.30
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (64 bp):
GTCTGGGCTAAATCCATAATGCACATGTATTCTTCAGGAGGCTCAATCATCCAAAAGAACACCC
Found at i:27231392 original size:46 final size:46
Alignment explanation
Indices: 27231342--27231514 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
27231332 TGGTTGAGCA
27231342 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27231388 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
27231433 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27231481 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27231515 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27231498 original size:93 final size:93
Alignment explanation
Indices: 27231339--27231509 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
27231329 GGATGGTTGA
***
27231339 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
27231404 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
27231432 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
27231497 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27231510 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27234273 original size:43 final size:43
Alignment explanation
Indices: 27234202--27234283 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
27234192 GATATATGTG
* *
27234202 GCATTCGAGCTCGTTGAGTGCTTCGAGTTAATTATGGATACGA
1 GCATCCGAGCTCGTTGAGTGCTTCGAGTTAATAATGGATACGA
* *
27234245 GCATCCGAGCTCGTTGAGTG-GTCTGAGTTCATAATGGAT
1 GCATCCGAGCTCGTTGAGTGCTTC-GAGTTAATAATGGAT
27234284 GCGATACATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.06
43 32 0.94
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGTGCTTCGAGTTAATAATGGATACGA
Found at i:27248391 original size:40 final size:40
Alignment explanation
Indices: 27248331--27248507 Score: 225
Period size: 40 Copynumber: 4.4 Consensus size: 40
27248321 AACCAAGTAA
* * *
27248331 CTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATGC
1 CTTCGGGACTTACCCCGGATATAG-TAACTCGCACAAATGC
**
27248370 CTTCGGGACTTACCCCGGATATAGTAGTTCGCACAAATGC
1 CTTCGGGACTTACCCCGGATATAGTAACTCGCACAAATGC
*
27248410 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTACCCCGGATATAGTAACTCGCACAAATGC
* * *
27248450 CTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGC
1 CTTCGGGACTTACCCCGGATA-TAGTAACTCGCACAAATGC
27248490 CTTCGGGACTTAGCCCCG
1 CTTCGGGACTTA-CCCCG
27248508 TTATCATCCG
Statistics
Matches: 123, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 13 0.11
40 106 0.86
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTACCCCGGATATAGTAACTCGCACAAATGC
Found at i:27253429 original size:13 final size:13
Alignment explanation
Indices: 27253404--27253437 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
27253394 CTACTCAAAA
27253404 CTTACTCTATATGC
1 CTTACT-TATATGC
27253418 CTTACTTATATGC
1 CTTACTTATATGC
27253431 CTTACTT
1 CTTACTT
27253438 CTATAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.21, C:0.26, G:0.06, T:0.47
Consensus pattern (13 bp):
CTTACTTATATGC
Found at i:27259441 original size:13 final size:14
Alignment explanation
Indices: 27259378--27259443 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 14
27259368 TTAAATGCCT
*
27259378 AATTCCATATAG-C
1 AATTTCATATAGTC
*
27259391 AAATTCATATATGTC
1 AATTTCATATA-GTC
**
27259406 CCTTTCATA-AGTC
1 AATTTCATATAGTC
27259419 AATTTCCATATAG-C
1 AATTT-CATATAGTC
27259433 AATTTCATATA
1 AATTTCATATA
27259444 ACTCATTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
13 21 0.50
14 12 0.29
15 9 0.21
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (14 bp):
AATTTCATATAGTC
Found at i:27261981 original size:43 final size:43
Alignment explanation
Indices: 27261920--27262146 Score: 237
Period size: 43 Copynumber: 5.3 Consensus size: 43
27261910 GTGCCACTAT
* * *
27261920 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCAGAA
1 ACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAA
* * *
27261963 ACGCCACTAAAGAACATGACCTTTTGTGGCGCTTTTCCCAGAA
1 ACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAA
* * *
27262006 ACGCCGCTAAACAACATGACCTTTAGCGGCGCTTTCCCCAAAA
1 ACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAA
* * * *
27262049 AC-ACAGCTAAAGAACATGATCTTTAACGGCACTTTCTCCTC--AA
1 ACGCCA-CTAAAGAACATGACCTTTAGCGGCGCTTT-TCC-CAAAA
* * * *
27262092 ACGCCGCTAAAG-ACATCACCTTTAGCGACGCTTTCCCCAAAA
1 ACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAA
*
27262134 ACACCACTAAAGA
1 ACGCCACTAAAGA
27262147 CCATATCAAT
Statistics
Matches: 150, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 30 0.20
43 113 0.75
44 3 0.02
45 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
ACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAA
Found at i:27262065 original size:86 final size:84
Alignment explanation
Indices: 27261920--27262146 Score: 269
Period size: 86 Copynumber: 2.6 Consensus size: 84
27261910 GTGCCACTAT
** * *
27261920 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCAGAAACGCCACTAAAGAACATGACCT
1 ACGCCGCTAAA-AACATGACCTTTAGCGGCGCTTTCCCCAAAAAC-ACACTAAAGAACATGACCT
*** *
27261985 TTTGTGGCGCTTT-TCC-CAGAA
64 TTAACGGCACTTTCTCCTC--AA
*
27262006 ACGCCGCTAAACAACATGACCTTTAGCGGCGCTTTCCCCAAAAACACAGCTAAAGAACATGATCT
1 ACGCCGCTAAA-AACATGACCTTTAGCGGCGCTTTCCCCAAAAACACA-CTAAAGAACATGACCT
27262071 TTAACGGCACTTTCTCCTCAA
64 TTAACGGCACTTTCTCCTCAA
* * *
27262092 ACGCCGCTAAAGACATCACCTTTAGCGACGCTTTCCCCAAAAACACCACTAAAGA
1 ACGCCGCTAAAAACATGACCTTTAGCGGCGCTTTCCCCAAAAACA-CACTAAAGA
27262147 CCATATCAAT
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
85 40 0.32
86 80 0.65
87 3 0.02
88 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (84 bp):
ACGCCGCTAAAAACATGACCTTTAGCGGCGCTTTCCCCAAAAACACACTAAAGAACATGACCTTT
AACGGCACTTTCTCCTCAA
Found at i:27267459 original size:7 final size:7
Alignment explanation
Indices: 27267449--27267482 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
27267439 CCATATCCCC
27267449 TAAACCA
1 TAAACCA
*
27267456 TAAAACA
1 TAAACCA
*
27267463 TAAAACA
1 TAAACCA
27267470 TAAACCA
1 TAAACCA
27267477 TAAACC
1 TAAACC
27267483 TTTAACCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCA
Found at i:27268505 original size:40 final size:40
Alignment explanation
Indices: 27268446--27268580 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
27268436 TGGTCAACCA
* *
27268446 ATAGCGGCATTTTTCAAAAAGCT-CCGCTAATGCTCGATCTT
1 ATAGCGGCGTTTTTCAAAAAG-TGCCACTAATGCTCGATC-T
*
27268487 ATAGCGGCGTTTTTAAAAAAGTGCCACTAATGCTCGATCT
1 ATAGCGGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCT
* *** *
27268527 ATAGCTGCGTTTTTCAAAAAGTGTTGCTAATGCTCGGTCT
1 ATAGCGGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCT
* *
27268567 ATAGCAGTGTTTTT
1 ATAGCGGCGTTTTT
27268581 GGTCCTAGTG
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
40 48 0.59
41 34 0.41
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (40 bp):
ATAGCGGCGTTTTTCAAAAAGTGCCACTAATGCTCGATCT
Found at i:27268705 original size:22 final size:23
Alignment explanation
Indices: 27268644--27268792 Score: 124
Period size: 23 Copynumber: 6.4 Consensus size: 23
27268634 AACTCATAAA
*
27268644 AGCTTATTGTTTCAGCTCATTGG
1 AGCTTACTGTTTCAGCTCATTGG
27268667 AGCTTACTGTTTCAGCTCATTGG
1 AGCTTACTGTTTCAGCTCATTGG
* *
27268690 ATCTTACTG-TTCAGCTCGA-TAG
1 AGCTTACTGTTTCAGCTC-ATTGG
* * *
27268712 AGCTTACCGATTCAGCTCGA-TAG
1 AGCTTACTGTTTCAGCTC-ATTGG
* * * *
27268735 AGCTTACCGATTCAGCTCAATAG
1 AGCTTACTGTTTCAGCTCATTGG
**
27268758 AGCTTACTGTTCATCAGCTCAAGAGG
1 AGCTTACTGTT--TCAGCTC-ATTGG
27268784 AGCTTACTG
1 AGCTTACTG
27268793 ATTATGGCTC
Statistics
Matches: 110, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
22 18 0.16
23 74 0.67
25 7 0.06
26 11 0.10
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTCATTGG
Found at i:27268705 original size:45 final size:44
Alignment explanation
Indices: 27268654--27268782 Score: 127
Period size: 45 Copynumber: 2.8 Consensus size: 44
27268644 AGCTTATTGT
* * * *
27268654 TTCAGCTCATTGGAGCTTACTGTTTCAGCTCATTGGATCTTACTG-
1 TTCAGCTCA-TAGAGCTTACTGTTTCAGCTCA-TAGAGCTTACCGA
* *
27268699 TTCAGCTCGATAGAGCTTACCGATTCAGCTCGATAGAGCTTACCGA
1 TTCAGCTC-ATAGAGCTTACTGTTTCAGCTC-ATAGAGCTTACCGA
27268745 TTCAGCTCAATAGAGCTTACTGTTCATCAGCTCA-AGAG
1 TTCAGCTC-ATAGAGCTTACTGTT--TCAGCTCATAGAG
27268783 GAGCTTACTG
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
45 35 0.50
46 27 0.39
47 1 0.01
48 7 0.10
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (44 bp):
TTCAGCTCATAGAGCTTACTGTTTCAGCTCATAGAGCTTACCGA
Found at i:27270481 original size:47 final size:47
Alignment explanation
Indices: 27270413--27270582 Score: 322
Period size: 47 Copynumber: 3.6 Consensus size: 47
27270403 ATCCATAAGT
* *
27270413 GAACTCAGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
27270460 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
27270507 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
27270554 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
27270583 CATTCGCATC
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 121 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:27270647 original size:46 final size:45
Alignment explanation
Indices: 27270362--27270639 Score: 123
Period size: 47 Copynumber: 6.0 Consensus size: 45
27270352 AACCCGCCCC
* * ** * *
27270362 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGAATGCGCAACCA
* *
27270408 TAAGTGAACTCAGACTCAACTCAACGAGTTTGG-ATGC-CTAGTTA-CA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGC-A---ACCA
* *
27270454 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTA-CA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGC-A---ACCA
* *
27270501 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTA-CA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGC-A---ACCA
* * * *
27270548 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCA
* *
27270595 TAAGTGAACTCGGACTCAACTCAATGAGTTCGG-ATGCTCAACCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCA
27270639 T
1 T
27270640 CCTAGTGACA
Statistics
Matches: 204, Mismatches: 17, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
43 1 0.00
44 12 0.06
45 4 0.02
46 58 0.28
47 122 0.60
48 2 0.01
49 4 0.02
50 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCA
Found at i:27271085 original size:30 final size:30
Alignment explanation
Indices: 27271051--27271110 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
27271041 ATTTAATATG
27271051 AACTTTAGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* * *
27271081 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
27271111 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:27272480 original size:18 final size:18
Alignment explanation
Indices: 27272459--27272532 Score: 94
Period size: 18 Copynumber: 4.1 Consensus size: 18
27272449 GAACAATTAT
* *
27272459 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
27272477 TTATTCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
* *
27272495 TTATTCAATAATAATCAA
1 TTATTCAGTAACAATCAA
* *
27272513 TTATTCACTATCAATCAA
1 TTATTCAGTAACAATCAA
27272531 TT
1 TT
27272533 GATCTGTTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:27272499 original size:36 final size:36
Alignment explanation
Indices: 27272450--27272532 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
27272440 AGTCAACCAG
* * * * * *
27272450 AACAATTATTTATTCAGTAACAGTCAGTTATTCAGT
1 AACAATCAATTATTCAATAACAATCAATTATTCACT
*
27272486 AACAATCAATTATTCAATAATAATCAATTATTCACT
1 AACAATCAATTATTCAATAACAATCAATTATTCACT
*
27272522 ATCAATCAATT
1 AACAATCAATT
27272533 GATCTGTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (36 bp):
AACAATCAATTATTCAATAACAATCAATTATTCACT
Found at i:27273988 original size:7 final size:7
Alignment explanation
Indices: 27273976--27274001 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27273966 TGTTTTGTTT
27273976 ATATATA
1 ATATATA
27273983 ATATATA
1 ATATATA
27273990 ATATATA
1 ATATATA
27273997 ATATA
1 ATATA
27274002 ATAACATTAA
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:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATATA
Found at i:27274240 original size:22 final size:24
Alignment explanation
Indices: 27274198--27274244 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
27274188 TGTATTACAA
27274198 ATGTATGTACATTATTTATCACAC
1 ATGTATGTACATTATTTATCACAC
*
27274222 ATGTAT-TTCATT-TTTATCACAC
1 ATGTATGTACATTATTTATCACAC
27274244 A
1 A
27274245 CTTGGCACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 5 0.23
24 6 0.27
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (24 bp):
ATGTATGTACATTATTTATCACAC
Found at i:27275310 original size:43 final size:43
Alignment explanation
Indices: 27275248--27275337 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
27275238 CACGGGCGTG
* *
27275248 TGTCTCAGCCGTGTACGACATACGGTCATGTTGCACAGCCGTA
1 TGTCTCAGCCGTGTACGACATACAGTCATATTGCACAGCCGTA
* * * * *
27275291 TGTCTCAGTCGTGTGCGACATACAGTTATATTGCACAGTCGTG
1 TGTCTCAGCCGTGTACGACATACAGTCATATTGCACAGCCGTA
27275334 TGTC
1 TGTC
27275338 CCTTAGGGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTCTCAGCCGTGTACGACATACAGTCATATTGCACAGCCGTA
Found at i:27291623 original size:40 final size:40
Alignment explanation
Indices: 27291568--27291757 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
27291558 CGGATGATAA
*
27291568 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
27291608 CCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
27291648 -CTGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
27291686 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
27291726 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27291758 AGCTATATCC
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 26 0.20
39 17 0.13
40 90 0.68
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:27291708 original size:78 final size:80
Alignment explanation
Indices: 27291564--27291757 Score: 284
Period size: 78 Copynumber: 2.5 Consensus size: 80
27291554 TATTCGGATG
* * *
27291564 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCA
**
27291629 TTTTTGCGAGTTACT
66 TTGGTGCGAGTTACT
** *
27291644 A-ATTCTGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCA
27291707 TTGGTGCGAGTTACT
66 TTGGTGCGAGTTACT
* *
27291722 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27291758 AGCTATATCC
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
78 61 0.62
79 17 0.17
80 21 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCA
TTGGTGCGAGTTACT
Found at i:27299656 original size:39 final size:39
Alignment explanation
Indices: 27299601--27299789 Score: 283
Period size: 39 Copynumber: 4.8 Consensus size: 39
27299591 CGGATGATAA
27299601 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
27299640 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-T
*
27299680 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAT
* *
27299719 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
* *
27299759 CCGGGCTATGT-CCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27299790 AGCTATATCC
Statistics
Matches: 137, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 91 0.66
40 46 0.34
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27299801 original size:79 final size:78
Alignment explanation
Indices: 27299597--27299789 Score: 289
Period size: 79 Copynumber: 2.4 Consensus size: 78
27299587 TATTCGGATG
*
27299597 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGTCCCGAAGGCAT
*
27299662 TTGTGCGAGTTACT
65 TGGTGCGAGTTACT
* * *
27299676 A-ATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCA
1 ATA-ACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTA-CTAATCCGGGCTAAGTCCCGAAGGCA
27299740 TTGGTGCGAGTTACT
64 TTGGTGCGAGTTACT
* *
27299755 ATAACCGGGCTATGTCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGT
27299790 AGCTATATCC
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
78 23 0.23
79 78 0.76
80 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGTCCCGAAGGCATT
GGTGCGAGTTACT
Found at i:27301574 original size:25 final size:25
Alignment explanation
Indices: 27301546--27301593 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27301536 TAAGCGAGAC
*
27301546 ATATCAGGAAGCTCAAAAAGAGCCT
1 ATATCAAGAAGCTCAAAAAGAGCCT
* *
27301571 ATATCAAGACGCTCATAAAGAGC
1 ATATCAAGAAGCTCAAAAAGAGC
27301594 TGCGTTTGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (25 bp):
ATATCAAGAAGCTCAAAAAGAGCCT
Found at i:27303762 original size:26 final size:26
Alignment explanation
Indices: 27303733--27303790 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
27303723 ACCCTCAGCT
27303733 AAATTTTGAT-GATTTTACCCC-GAGTA
1 AAATTTTG-TCGATTTTACCCCTGA-TA
*
27303759 AAATTTTGTCGATTTTGCCCCTGATA
1 AAATTTTGTCGATTTTACCCCTGATA
27303785 AAATTT
1 AAATTT
27303791 CAAGAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 1 0.03
26 26 0.90
27 2 0.07
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (26 bp):
AAATTTTGTCGATTTTACCCCTGATA
Found at i:27307056 original size:30 final size:30
Alignment explanation
Indices: 27307022--27307082 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
27307012 GTGTGTCTCA
27307022 GCTGTGTATGACACACAGTTATGTTCCACG
1 GCTGTGTATGACACACAGTTATGTTCCACG
* * *
27307052 GCTGTTTGTGACACACGGTTATGTTCCACG
1 GCTGTGTATGACACACAGTTATGTTCCACG
27307082 G
1 G
27307083 TCATGTGTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (30 bp):
GCTGTGTATGACACACAGTTATGTTCCACG
Found at i:27310347 original size:48 final size:48
Alignment explanation
Indices: 27310291--27310730 Score: 641
Period size: 48 Copynumber: 9.0 Consensus size: 48
27310281 TTGATGCATA
*
27310291 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
27310339 AGATATGTATATGTGGTAAAGCCGAATGGCTAATATGGAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
27310387 AGATGTGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG----A-A-ATATGTATG
27310441 AGATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
27310487 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
* * *
27310537 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
*
27310587 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
*
27310637 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
27310685 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
27310731 GGTGATGTGT
Statistics
Matches: 364, Mismatches: 18, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
46 16 0.04
47 1 0.00
48 161 0.44
49 4 0.01
50 139 0.38
52 27 0.07
53 1 0.00
54 15 0.04
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:27310480 original size:148 final size:146
Alignment explanation
Indices: 27310291--27310727 Score: 667
Period size: 148 Copynumber: 2.9 Consensus size: 146
27310281 TTGATGCATA
*
27310291 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* * *
27310356 AAAGCCGAATGGCTAATATGGAATATGTATGAGATGTGTATATGTGGTAAAGCCGAATGGCTAAT
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
27310421 GCGAAATATATATATGTATG
129 GTGAAATATATATATG-A-G
27310441 AGATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 AGATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* * * *
27310506 AGCCGAATGGCTAATGCGAAATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAAT
66 AGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
27310571 GTGAAATATATATATGAG
129 GTGAAATATATATATGAG
* * * *
27310589 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGT
1 AGATATGTATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGT
* *
27310654 AAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGT
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
27310719 GTGAAATAT
129 GTGAAATAT
27310728 GTAGGTGATG
Statistics
Matches: 264, Mismatches: 19, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
148 154 0.58
149 6 0.02
150 104 0.39
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (146 bp):
AGATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
GAAATATATATATGAG
Found at i:27310496 original size:100 final size:98
Alignment explanation
Indices: 27310291--27310727 Score: 653
Period size: 100 Copynumber: 4.4 Consensus size: 98
27310281 TTGATGCATA
* * * *
27310291 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGAGATATATATGTG
* *
27310354 GTAAAGCCGAATGGCTAATATGGAATATGTATG
66 GTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
27310387 AGATGTGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATGTATGAGATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG-A-GAGATATATATG
27310452 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
64 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
27310487 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATGAGATATGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGAGATATATATGTG
* * *
27310552 GTAAAGCTGAATGGTTAATGTGAAATATATATATG
66 GTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
* *
27310587 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGAGATATATATGTG
*
27310652 GTAAAGCCGAATGGCTAGTGTGAAATATGTATG
66 GTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
27310685 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
27310728 GTAGGTGATG
Statistics
Matches: 313, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
96 34 0.11
97 2 0.01
98 89 0.28
99 6 0.02
100 182 0.58
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (98 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGAGATATATATGTG
GTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:27310984 original size:37 final size:37
Alignment explanation
Indices: 27310876--27310984 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
27310866 GGAAATATAT
* *
27310876 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
27310913 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
27310950 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
27310985 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:27313133 original size:24 final size:23
Alignment explanation
Indices: 27313106--27313162 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
27313096 GTCATTATAT
*
27313106 ATTTTATATTATTATTAAATT-TTA
1 ATTTTATATT-TTAAT-AATTGTTA
*
27313130 ATTTATAAATTTTAATAATTGTTA
1 ATTT-TATATTTTAATAATTGTTA
27313154 ATTTTATAT
1 ATTTTATAT
27313163 CTTTTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 8 0.29
24 15 0.54
25 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTTATATTTTAATAATTGTTA
Found at i:27313343 original size:11 final size:11
Alignment explanation
Indices: 27313322--27313354 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27313312 AAAATAAATA
27313322 ATTTTTA-TTT
1 ATTTTTATTTT
27313332 ATTTTTATTTT
1 ATTTTTATTTT
*
27313343 ATTTCTATTTT
1 ATTTTTATTTT
27313354 A
1 A
27313355 AGTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:27316748 original size:67 final size:67
Alignment explanation
Indices: 27316659--27316799 Score: 264
Period size: 67 Copynumber: 2.1 Consensus size: 67
27316649 CACTAACTCC
* *
27316659 AATCAATATGCACAAATATTTTTATATATATTAGATTTGCGAGATATTATTTGTTTAAAACATTA
1 AATCCATATCCACAAATATTTTTATATATATTAGATTTGCGAGATATTATTTGTTTAAAACATTA
27316724 GT
66 GT
27316726 AATCCATATCCACAAATATTTTTATATATATTAGATTTGCGAGATATTATTTGTTTAAAACATTA
1 AATCCATATCCACAAATATTTTTATATATATTAGATTTGCGAGATATTATTTGTTTAAAACATTA
27316791 GT
66 GT
27316793 AATCCAT
1 AATCCAT
27316800 CTATATTTTA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 72 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (67 bp):
AATCCATATCCACAAATATTTTTATATATATTAGATTTGCGAGATATTATTTGTTTAAAACATTA
GT
Found at i:27327885 original size:34 final size:34
Alignment explanation
Indices: 27327801--27327886 Score: 136
Period size: 36 Copynumber: 2.5 Consensus size: 34
27327791 ATTCAATACA
*
27327801 AATATTAGTTAAGTATATAATCTGCCAAAGTCAT
1 AATATTAGTTAAGTATATAATCTGACAAAGTCAT
*
27327835 ACTATTATAGTTAAGTATATAATCTGACAAAGTCAT
1 AATA-T-TAGTTAAGTATATAATCTGACAAAGTCAT
27327871 AATATTAGTTAAGTAT
1 AATATTAGTTAAGTAT
27327887 CAAACCTGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
34 14 0.30
35 2 0.04
36 31 0.66
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (34 bp):
AATATTAGTTAAGTATATAATCTGACAAAGTCAT
Found at i:27329273 original size:7 final size:7
Alignment explanation
Indices: 27329261--27329286 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27329251 AAGAAATGGA
27329261 AAAAAAT
1 AAAAAAT
27329268 AAAAAAT
1 AAAAAAT
27329275 AAAAAAT
1 AAAAAAT
27329282 AAAAA
1 AAAAA
27329287 GAAGAAGAAG
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:27337490 original size:27 final size:27
Alignment explanation
Indices: 27337450--27337561 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
27337440 AGGAAGCGTC
*
27337450 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
27337477 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
27337504 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
27337532 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
27337558 CTGG
1 CTGG
27337562 AAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:27337554 original size:54 final size:54
Alignment explanation
Indices: 27337450--27337561 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
27337440 AGGAAGCGTC
*
27337450 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
27337504 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
27337558 CTGG
1 CTGG
27337562 AAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:27345493 original size:27 final size:27
Alignment explanation
Indices: 27345453--27345564 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
27345443 AGGAGGCGTC
*
27345453 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
27345480 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
27345507 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
27345535 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
27345561 CTGG
1 CTGG
27345565 CAGCCGTGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:27345557 original size:54 final size:54
Alignment explanation
Indices: 27345453--27345564 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
27345443 AGGAGGCGTC
*
27345453 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
27345507 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
27345561 CTGG
1 CTGG
27345565 CAGCCGTGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:27359254 original size:20 final size:20
Alignment explanation
Indices: 27359204--27359254 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
27359194 AAGGAAAAAT
* *
27359204 ACACACCCGTATGCTTGGGG
1 ACACGCCCGTGTGCTTGGGG
27359224 ACACGCCCGTGTGCTTGGGG
1 ACACGCCCGTGTGCTTGGGG
27359244 ACACGCCCGTG
1 ACACGCCCGTG
27359255 CCCCTCTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTGGGG
Found at i:27361527 original size:17 final size:17
Alignment explanation
Indices: 27361505--27361538 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27361495 CTGTTTGGGT
27361505 TTCCCAAGACCTAGTTG
1 TTCCCAAGACCTAGTTG
27361522 TTCCCAAGACCTAGTTG
1 TTCCCAAGACCTAGTTG
27361539 CTTAAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (17 bp):
TTCCCAAGACCTAGTTG
Found at i:27369245 original size:57 final size:57
Alignment explanation
Indices: 27369180--27369296 Score: 180
Period size: 57 Copynumber: 2.1 Consensus size: 57
27369170 ATGCAAATGT
* * * *
27369180 ATGAATGGGTTGACCGTGGATCAATTAAGGCAATGACACAAGTATTATAGATAGAAA
1 ATGAATGGGTAGACCCTAGATCAATTAAGGCAATGACACAAGTATTATACATAGAAA
**
27369237 ATGAATGGGTAGACCCTAGATCAATTAAGGCAATGACATGAGTATTATACATAGAAA
1 ATGAATGGGTAGACCCTAGATCAATTAAGGCAATGACACAAGTATTATACATAGAAA
27369294 ATG
1 ATG
27369297 TACCCGTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (57 bp):
ATGAATGGGTAGACCCTAGATCAATTAAGGCAATGACACAAGTATTATACATAGAAA
Found at i:27374640 original size:93 final size:93
Alignment explanation
Indices: 27374528--27374700 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
27374518 CCACCCATAA
* *
27374528 ACGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAATT
1 ACGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACT
27374592 CAACGAGTTCGGATGCCTAGTTACATCTC
65 CAACGAGTTCGGATGCCTAGTTACATCTC
*
27374621 ACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 ACGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
27374686 AACGAGTTCGGATGC
66 AACGAGTTCGGATGC
27374701 TCAATCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
ACGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
AACGAGTTCGGATGCCTAGTTACATCTC
Found at i:27374695 original size:46 final size:46
Alignment explanation
Indices: 27374530--27374697 Score: 193
Period size: 46 Copynumber: 3.6 Consensus size: 46
27374520 ACCCATAAAC
* *
27374530 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGT
* * * *
27374576 GAACTCGGACTCAATTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
27374623 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
27374669 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
27374698 TGCTCAATCA
Statistics
Matches: 102, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 53 0.52
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:27382380 original size:54 final size:54
Alignment explanation
Indices: 27382318--27382426 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
27382308 ATTAATCATA
*
27382318 TAAGGCTCATTTTTGGTTACTAAAAGGTGTTAAACTTCCTATATTAGGTACTGG
1 TAAGGCTCATTTTTGGTTACTAAAAGGTGTTAAACATCCTATATTAGGTACTGG
* * * *
27382372 TAAGGCTCATTTTTTGTTACTAAAAGGTGTTGAACATCTTATTTTAGGTACTGG
1 TAAGGCTCATTTTTGGTTACTAAAAGGTGTTAAACATCCTATATTAGGTACTGG
27382426 T
1 T
27382427 GGTCTCAGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (54 bp):
TAAGGCTCATTTTTGGTTACTAAAAGGTGTTAAACATCCTATATTAGGTACTGG
Found at i:27408536 original size:28 final size:29
Alignment explanation
Indices: 27408450--27408540 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
27408440 GAAAGCATGA
27408450 ATATGAAT-ATGACTTGGGCCTAATGGGCC
1 ATATGAATGA-GACTTGGGCCTAATGGGCC
* * * *
27408479 ATACGAATGTGATTTGAGCCTAATGGGCC
1 ATATGAATGAGACTTGGGCCTAATGGGCC
*
27408508 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGACTTGGGCCTAATGGGCC
27408536 ATATG
1 ATATG
27408541 CATGTATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
28 19 0.36
29 34 0.64
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATGAGACTTGGGCCTAATGGGCC
Found at i:27416283 original size:28 final size:29
Alignment explanation
Indices: 27416201--27416290 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
27416191 AAAGCATGAC
27416201 TATGAATGTGACTTGGGCCTAATGGGCCA
1 TATGAATGTGACTTGGGCCTAATGGGCCA
* *
27416230 TACGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGACTTGGGCCTAATGGGCCA
* **
27416259 TATGAATGAGA-TTGGGCCTGGTGGGCCA
1 TATGAATGTGACTTGGGCCTAATGGGCCA
27416287 TATG
1 TATG
27416291 CAAAACTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 19 0.35
29 36 0.65
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (29 bp):
TATGAATGTGACTTGGGCCTAATGGGCCA
Found at i:27420329 original size:43 final size:41
Alignment explanation
Indices: 27420266--27420346 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
27420256 AGAGATTACG
* * *
27420266 TGTAAGACCCTGTCTAGGATAGAGGCATTGGTATGTGATAACA
1 TGTAAGACCATATCTAGGATA-AGGCATT-ATATGTGATAACA
* *
27420309 TGTAAGACCATATCTGGGATATGGCATTATATGTGATA
1 TGTAAGACCATATCTAGGATAAGGCATTATATGTGATA
27420347 TAAGTGTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 9 0.27
42 6 0.18
43 18 0.55
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (41 bp):
TGTAAGACCATATCTAGGATAAGGCATTATATGTGATAACA
Found at i:27425919 original size:46 final size:48
Alignment explanation
Indices: 27425767--27426031 Score: 239
Period size: 46 Copynumber: 5.6 Consensus size: 48
27425757 TCCATCAAGT
* *
27425767 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATC-CGTGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATATCAAG-GC
* * ** *
27425817 CGATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATTTTGTA-GT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTACA-TATCAAGGC
* *
27425863 CGATG-CATGTCCTAGACATGTCTTACACTGGCT-TACATCTCAAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATATCAAGGC
* * * *
27425909 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATATCAAGGC
* **
27425955 CGATGCCATGTCCCAGACATTGTCTTACACTTGCTCT-CATAAT-GTGGC
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCTACAT-ATCAAGGC
27426003 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACATGTCTTACACT
27426032 AGCACACAAA
Statistics
Matches: 183, Mismatches: 22, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
44 10 0.05
45 17 0.09
46 69 0.38
47 29 0.16
48 26 0.14
49 1 0.01
50 31 0.17
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATATCAAGGC
Found at i:27425979 original size:94 final size:92
Alignment explanation
Indices: 27425761--27426037 Score: 296
Period size: 94 Copynumber: 3.0 Consensus size: 92
27425751 GGCTCATCCA
* * * *
27425761 TCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCCGTGCCGATGCCAT
1 TCAAGCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCT-ACATATCAG-GCCGATG-CAT
*
27425826 GTCCCAGACATGGTCTTACACT-GACACATTT
63 GTCCCAGACAT-GTCTTACACTAG-CACATTC
** * * *
27425857 TGTAGTCGATG-CATGTCCTAGACA-TGTCTTACACTGGCT-TACATCTCAAGGCCGATGCATGT
1 TCAAGCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCTACATATC-AGGCCGATGCATGT
*
27425919 CCCAGACATGTCTTACACTAGCTC-TCGTC
65 CCCAGACATGTCTTACACTAGCACAT--TC
* **
27425948 TCAATGCCGATGCCATGTCCCAGACATTGTCTTACACTTGCTCT-CATAATGTGGCCGATGCATG
1 TCAA-GCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCTACAT-ATCAGGCCGATGCATG
27426012 TCCCAGACATGTCTTACACTAGCACA
64 TCCCAGACATGTCTTACACTAGCACA
27426038 CAAATGACCC
Statistics
Matches: 153, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
89 1 0.01
90 12 0.08
91 18 0.12
92 19 0.12
93 14 0.09
94 66 0.43
95 14 0.09
96 9 0.06
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (92 bp):
TCAAGCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTCTACATATCAGGCCGATGCATGTC
CCAGACATGTCTTACACTAGCACATTC
Found at i:27426021 original size:140 final size:141
Alignment explanation
Indices: 27425767--27426031 Score: 358
Period size: 140 Copynumber: 1.9 Consensus size: 141
27425757 TCCATCAAGT
**
27425767 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCCGTGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCT-ACATATCAATGCCGATGCCATGTCCCA
** * *
27425832 GACATGGTCTTACACTGACACATTTTGTAGTCGATGCATGTCCTAGACATGTCTTACACTGGCTT
65 GACATGGTCTTACACTGACACATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
27425897 ACATCTCAAGGC
130 ACATCTCAAGGC
* *
27425909 CGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCT-CGTCTCAATGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTACATATCAATGCCGATGCCATGTCCCA
* * * *
27425970 GACATTGTCTTACACTTGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
65 GACATGGTCTTACAC-TG-ACACATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACT
27426032 AGCACACAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
138 36 0.33
139 3 0.03
140 50 0.46
141 14 0.13
142 5 0.05
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTACATATCAATGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACACATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
CATCTCAAGGC
Found at i:27431253 original size:57 final size:58
Alignment explanation
Indices: 27431189--27431310 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 58
27431179 ATTAAACCTT
* * * * *
27431189 AAAAAAGCTTA-AGTACCAAATT-AG-GAAAAGTGTCAAGTTTATGTACCAAATTGGATA
1 AAAAAAGCTTAGA-TACCAAATTAAGAAAAAAATATCAAGTTTAAGTACCAAATTAGA-A
27431246 AAAAAAGCTTAGATACCAAATTAAGAAAAAAAATATCAAGTTTAAGTACCAAATTAGAA
1 AAAAAAGCTTAGATACCAAATTAAG-AAAAAAATATCAAGTTTAAGTACCAAATTAGAA
27431305 AAAAAA
1 AAAAAA
27431311 TGTTAAATTC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
57 20 0.36
58 3 0.05
59 7 0.12
60 26 0.46
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (58 bp):
AAAAAAGCTTAGATACCAAATTAAGAAAAAAATATCAAGTTTAAGTACCAAATTAGAA
Found at i:27431713 original size:28 final size:30
Alignment explanation
Indices: 27431681--27431738 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
27431671 AAATGTTTGA
27431681 ATTTTA-T-ATAAAAATATATTTTAATAAT
1 ATTTTATTAATAAAAATATATTTTAATAAT
* *
27431709 ATTTTATTAAATGAAAATATTTTTTAATAA
1 ATTTTATT-AATAAAAATATATTTTAATAA
27431739 ATGAAATTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 1 0.04
31 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATTTTATTAATAAAAATATATTTTAATAAT
Found at i:27431727 original size:21 final size:20
Alignment explanation
Indices: 27431707--27431744 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27431697 TATTTTAATA
*
27431707 ATATTTTATTAAATGAAAAT
1 ATATTTTAATAAATGAAAAT
*
27431727 ATTTTTTAATAAATGAAA
1 ATATTTTAATAAATGAAA
27431745 TTGCAGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATTTTAATAAATGAAAAT
Found at i:27433047 original size:20 final size:20
Alignment explanation
Indices: 27433019--27433057 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27433009 ATTTTTTGTA
27433019 AAATATTAAGAA-TATTATTT
1 AAATATTAA-AATTATTATTT
*
27433039 AAATTTTAAAATTATTATT
1 AAATATTAAAATTATTATT
27433058 AACTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
AAATATTAAAATTATTATTT
Found at i:27435962 original size:20 final size:20
Alignment explanation
Indices: 27435896--27435953 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
27435886 ATTTTGATAA
*
27435896 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
27435916 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
27435936 ACATGATATGTATGATAT
1 ACATGATATGTATGATAT
27435954 CCACGTGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:27436066 original size:24 final size:23
Alignment explanation
Indices: 27436012--27436162 Score: 205
Period size: 24 Copynumber: 6.4 Consensus size: 23
27436002 GAGGAAGTGA
*
27436012 AAAAGGGCTTAGGCCCC-GTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
27436034 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
27436057 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
27436081 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
27436105 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
27436128 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
27436153 AAAAGAGGCT
1 AAAAG-GGCT
27436163 AGGCCTCTAG
Statistics
Matches: 116, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
22 15 0.13
23 26 0.22
24 70 0.60
25 5 0.04
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:27436113 original size:47 final size:46
Alignment explanation
Indices: 27436013--27436155 Score: 207
Period size: 47 Copynumber: 3.1 Consensus size: 46
27436003 AGGAAGTGAA
* * *
27436013 AAAGGGCTTAGGCCCC-GTTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
*
27436059 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
27436106 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
27436153 AAA
1 AAA
27436156 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
46 15 0.17
47 52 0.59
48 21 0.24
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:27436127 original size:71 final size:70
Alignment explanation
Indices: 27436012--27436162 Score: 248
Period size: 71 Copynumber: 2.1 Consensus size: 70
27436002 GAGGAAGTGA
* *
27436012 AAAAGGGCTTAGGCCCCGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTACGCCCCGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAG
27436077 TTATC
66 TTATC
*
27436082 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCC-GTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
27436147 GTTATT
65 GTTATC
27436153 AAAAGAGGCT
1 AAAAG-GGCT
27436163 AGGCCTCTAG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 16 0.21
71 55 0.73
72 4 0.05
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAG
TTATC
Found at i:27436409 original size:31 final size:31
Alignment explanation
Indices: 27436371--27436433 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
27436361 GTTTACAGTC
*
27436371 AAGGCTTCAGCCCAGTAATATGAAATTTGAA
1 AAGGCTTCAGCCCAGTAATATGAAATATGAA
* **
27436402 AAGGCTTCGGCCCAGTGTTATGAAATATGAA
1 AAGGCTTCAGCCCAGTAATATGAAATATGAA
27436433 A
1 A
27436434 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAGGCTTCAGCCCAGTAATATGAAATATGAA
Found at i:27439033 original size:37 final size:37
Alignment explanation
Indices: 27438974--27439082 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
27438964 AGCTCAGACG
* *
27438974 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
27439011 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
27439048 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
27439083 ATATATTTCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:27439404 original size:22 final size:22
Alignment explanation
Indices: 27439378--27439449 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
27439368 GTTCATATTC
27439378 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
27439400 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
27439424 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
27439447 ATC
1 ATC
27439450 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:27439406 original size:47 final size:47
Alignment explanation
Indices: 27439282--27439478 Score: 225
Period size: 47 Copynumber: 4.1 Consensus size: 47
27439272 ATATATATAT
* * *
27439282 TCACATTGACCATTCGGCTTTACCACATATATGCATATCTCATACATAT-T
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATAT-TC--ACAT-TCA
* * * * *
27439332 TCACATTAGCCATTCGACTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
* *
27439379 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
* * * *
27439426 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
27439473 TCACAT
1 TCACAT
27439479 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
46 1 0.01
47 94 0.72
49 2 0.02
50 34 0.26
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
Found at i:27439413 original size:97 final size:98
Alignment explanation
Indices: 27439226--27439414 Score: 260
Period size: 97 Copynumber: 1.9 Consensus size: 98
27439216 GCACATCGCC
* *
27439226 TACATATTTCACACTAGCCATTCGGCTTTACACATATACATATCTCATATATATATTCACATTGA
1 TACATATTTCACACTAGCCATTCGACTTTACACATATACATATCTCATATATACATTCACATTGA
*
27439291 CCATTCGGCTTTACCACATATATGCATATCTCA
66 CCATTCGGCCTTACCACATATATGCATATCTCA
* *
27439324 TACATATTTCACATTAGCCATTCGACTTTACCACATATATGCATGT-TCATAT-T-CA-TCACAT
1 TACATATTTCACACTAGCCATTCGACTTTA-CACATATA--CATATCTCATATATACATTCACAT
* *
27439385 TGGCCATTCGGCCTTATCACATATATGCAT
63 TGACCATTCGGCCTTACCACATATATGCAT
27439415 GTTCACATTC
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
97 33 0.41
98 29 0.36
99 9 0.11
100 6 0.07
101 4 0.05
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.36
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGACTTTACACATATACATATCTCATATATACATTCACATTGA
CCATTCGGCCTTACCACATATATGCATATCTCA
Found at i:27443453 original size:40 final size:40
Alignment explanation
Indices: 27443421--27443692 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
27443411 CCAGCATGAT
* * * *
27443421 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
27443461 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
27443501 TGCTCTTCGGGACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27443541 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27443581 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
27443621 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27443661 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
27443693 CTCAATTCTC
Statistics
Matches: 219, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:27445006 original size:37 final size:37
Alignment explanation
Indices: 27444960--27445068 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
27444950 TAGCTCAGAC
* *
27444960 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
27444997 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
27445034 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
27445069 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:27445342 original size:100 final size:96
Alignment explanation
Indices: 27445213--27445403 Score: 267
Period size: 100 Copynumber: 1.9 Consensus size: 96
27445203 GCACATCGCC
*
27445213 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA-CATATCTCATATATATATTTCACAT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACCATAT-TCATAT-T-CA--TCACAT
*
27445277 TGACCATTCGGCTTTACCACATATATGCATATCTCA
61 TGACCATTCGGCCTTACCACATATATGCATATCTCA
* * *
27445313 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATCCATGTTCATATTCATCACATTGGC
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA-CCATATTCATATTCATCACATTGAC
*
27445378 CATTCGGCCTTATCACATATATGCAT
65 CATTCGGCCTTACCACATATATGCAT
27445404 GTTCACATTC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
97 33 0.40
99 1 0.01
100 39 0.47
101 6 0.07
102 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACCATATTCATATTCATCACATTGACC
ATTCGGCCTTACCACATATATGCATATCTCA
Found at i:27445352 original size:50 final size:50
Alignment explanation
Indices: 27445213--27445403 Score: 225
Period size: 50 Copynumber: 3.9 Consensus size: 50
27445203 GCACATCGCC
*
27445213 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTC--A
*
27445263 TATATATTTCACATT-GACCATTCGGCTTTACCACATATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATATGCATATCTCA
* *
27445313 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATCCATGT-TCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
* * * *
27445362 T--AT-TCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCAT
27445404 GTTCACATTC
Statistics
Matches: 126, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
46 1 0.01
47 34 0.27
49 5 0.04
50 77 0.61
51 1 0.01
52 8 0.06
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.36
Consensus pattern (50 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
Found at i:27445393 original size:22 final size:22
Alignment explanation
Indices: 27445367--27445438 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
27445357 GTTCATATTC
27445367 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
27445389 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
27445413 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
27445436 ATC
1 ATC
27445439 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:27445395 original size:47 final size:47
Alignment explanation
Indices: 27445271--27445467 Score: 225
Period size: 47 Copynumber: 4.1 Consensus size: 47
27445261 TATATATATT
* * *
27445271 TCACATTGACCATTCGGCTTTACCACATATATGCATATCTCATACATAT-T
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATAT-TC--ACAT-TCA
* * * * *
27445321 TCACATTAGCCATTCGGCTTTACCACATATATCCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
* *
27445368 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
* * * *
27445415 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
27445462 TCACAT
1 TCACAT
27445468 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
46 1 0.01
47 94 0.72
49 2 0.02
50 34 0.26
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCA
Found at i:27445462 original size:94 final size:96
Alignment explanation
Indices: 27445214--27445467 Score: 239
Period size: 94 Copynumber: 2.6 Consensus size: 96
27445204 CACATCGCCT
* * * * * *
27445214 ACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT-ATATAT-TTCACAT
1 ACATATATCACATTAGCCATTCGGCCTTACCACATAT--ATA-CACAT-TCACAT-TCATCACAT
*
27445277 TGACCATTCGGCTTTACCACATATATGCATATCTCA
61 TGACCATTCGGCCTTACCACATATATGCATATCTCA
* * * ** * *
27445313 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATCCATGTTCATATTCATCACATTGGC
1 -ACATATATCACATTAGCCATTCGGCCTTACCACATATATACACATTCACATTCATCACATTGAC
* *
27445378 CATTCGGCCTTATCACATATATGCATGT-TC-
65 CATTCGGCCTTACCACATATATGCATATCTCA
* * *
27445408 ACAT-TCATCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 ACATAT-ATCACATTAGCCATTCGGCCTTACCACATATATACACATTCACATTCATCACAT
27445468 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
93 1 0.01
94 49 0.37
96 4 0.03
97 40 0.30
98 2 0.02
100 36 0.27
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (96 bp):
ACATATATCACATTAGCCATTCGGCCTTACCACATATATACACATTCACATTCATCACATTGACC
ATTCGGCCTTACCACATATATGCATATCTCA
Found at i:27448212 original size:98 final size:98
Alignment explanation
Indices: 27448034--27448215 Score: 310
Period size: 98 Copynumber: 1.9 Consensus size: 98
27448024 GTTGTTTCTC
* *
27448034 GTCCTCAAGTAAACGAAAAACAGAAACAAAAATAGACAAGCTAAAAATAAGATGAAAAGAAAACA
1 GTCCTCAAGTAAACGAAAAACAGAAACAAAAATAGACAAACTAAAAATAAGAAGAAAAGAAAACA
* *
27448099 CATTATTAAAACTAAAGTACTAAGCCATTGCTT
66 CATGACTAAAACTAAAGTACTAAGCCATTGCTT
*
27448132 GTCCTCAAGTAAACGAAAAACAGAAACAAAAATAGACAAACTAGAAATAAGAAGAAAAGAAAACA
1 GTCCTCAAGTAAACGAAAAACAGAAACAAAAATAGACAAACTAAAAATAAGAAGAAAAGAAAACA
*
27448197 CATGACTAAAGCTAAAGTA
66 CATGACTAAAACTAAAGTA
27448216 TTTGAGCAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 78 1.00
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (98 bp):
GTCCTCAAGTAAACGAAAAACAGAAACAAAAATAGACAAACTAAAAATAAGAAGAAAAGAAAACA
CATGACTAAAACTAAAGTACTAAGCCATTGCTT
Found at i:27451259 original size:44 final size:44
Alignment explanation
Indices: 27451167--27451290 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
27451157 TATGTCAAAC
* * *
27451167 TCCATGGTTGTACTATGACAATTAAGGAAGAATTGACAGAAAAT
1 TCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACAGAAAAG
27451211 TCCATGGTTGTACCATGGCAATTAAGGAAGAATTGAC-GAAAAAG
1 TCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACAG-AAAAG
* * * *
27451255 TCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 TCCATGGTT-GTACCATGGCAATTAAGGAAGAATTGA
27451291 GGTTAAGGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
43 4 0.06
44 67 0.94
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (44 bp):
TCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACAGAAAAG
Done.