Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold358
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: 583678
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 4
Found at i:607 original size:15 final size:15
Alignment explanation
Indices: 587--617 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
577 TAAAAATGTC
*
587 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
602 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
617 C
1 C
618 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2658 original size:20 final size:20
Alignment explanation
Indices: 2633--2710 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
2623 ATGTCCAAAA
2633 TGTATCGATACATGTTTCTG
1 TGTATCGATACATGTTTCTG
* *
2653 TGTATCGATACATCTGGAAATTCAG
1 TGTATCGATACA--T-G--TTTCTG
* *
2678 TGTATCGATACATTTTTCTT
1 TGTATCGATACATGTTTCTG
2698 TGTATCGATACAT
1 TGTATCGATACAT
2711 TGTATCGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATGTTTCTG
Found at i:2715 original size:13 final size:13
Alignment explanation
Indices: 2697--2722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2687 ACATTTTTCT
2697 TTGTATCGATACA
1 TTGTATCGATACA
2710 TTGTATCGATACA
1 TTGTATCGATACA
2723 GGGGGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2887 original size:20 final size:20
Alignment explanation
Indices: 2844--2890 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
2834 AAATCTTTTG
2844 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2865 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2885 CAAAAT
1 CAAAAT
2891 CAGCCTCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:5403 original size:19 final size:20
Alignment explanation
Indices: 5379--5418 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
5369 GACTATATTT
5379 TCAAATA-TGTATCGATACA
1 TCAAATATTGTATCGATACA
5398 TCAAATATTGTATCGATACA
1 TCAAATATTGTATCGATACA
5418 T
1 T
5419 TCACACGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
TCAAATATTGTATCGATACA
Found at i:8350 original size:13 final size:13
Alignment explanation
Indices: 8332--8395 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
8322 ATAAACCCTT
*
8332 TGTATCGATACAC
1 TGTATCGATACAA
8345 TGTATCGATACAA
1 TGTATCGATACAA
*
8358 TGTATCGATACAC
1 TGTATCGATACAA
8371 TGTATCGATACAA
1 TGTATCGATACAA
8384 TGTATCGATACA
1 TGTATCGATACA
8396 GAGAATGCTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8361 original size:26 final size:26
Alignment explanation
Indices: 8332--8395 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
8322 ATAAACCCTT
8332 TGTATCGATACACTGTATCGATACAA
1 TGTATCGATACACTGTATCGATACAA
8358 TGTATCGATACACTGTATCGATACAA
1 TGTATCGATACACTGTATCGATACAA
8384 TGTATCGATACA
1 TGTATCGATACA
8396 GAGAATGCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (26 bp):
TGTATCGATACACTGTATCGATACAA
Found at i:8727 original size:79 final size:78
Alignment explanation
Indices: 8596--9012 Score: 354
Period size: 79 Copynumber: 5.3 Consensus size: 78
8586 TCAACAACGA
* * * * *
8596 AAATAACGGGGTTAGAGTATGCCTGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCAAGGTTG
1 AAATAAC-GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGAGGTTG
* **
8661 GAATATCTCCTGGG
65 GAGTATCTCCTCAG
* * **
8675 AAATAACGGGATTAGAGTATCCCCAATTATGAAAAATCGATGTTTTGGAAATAAAAACTAAGGTT
1 AAATAACGGG-TTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAAT-AAAACCGAGGTT
*
8740 GGAGTATCT-CTCAA
64 GGAGTATCTCCTCAG
* * * * * ** * *
8754 AAATAACGAGATTGGAGCATTCTCGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTTG
1 AAATAACG-GGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGAGGTTG
*
8819 GAGTATATCCTCAG
65 GAGTATCTCCTCAG
* * * * * * * * * *
8833 AAATAACAGCGTCAGAATATCCCCAATAATGAAAAATTGAAGTTTTGGTAATAAAATCGGGGTTA
1 AAATAAC-GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGAGGTTG
*
8898 GAGTATC-CTTTCAG
65 GAGTATCTC-CTCAG
* ** * *
8912 AAATAACGGGGTTGGAGTATCCTTGATTATGAAAAATTGATGTTTTGAAAATAAAAATCGAGGTT
1 AAATAAC-GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAAT-AAAACCGAGGTT
*
8977 GGAGTATCCCCTC-G
64 GGAGTATCTCCTCAG
*
8991 AAAATAACAGGGTTGGAGTATC
1 -AAATAAC-GGGTTAGAGTATC
9013 TTCGATGGTA
Statistics
Matches: 267, Mismatches: 62, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
78 22 0.08
79 183 0.69
80 61 0.23
81 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (78 bp):
AAATAACGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGAGGTTGG
AGTATCTCCTCAG
Found at i:8886 original size:158 final size:158
Alignment explanation
Indices: 8624--9000 Score: 436
Period size: 158 Copynumber: 2.4 Consensus size: 158
8614 ATGCCTGATT
* * * * * *
8624 GTGAAAAATTGGTGTTTTGGAAATAAAACCAAGGTTGGAATATCTCCTGGGAAATAAC-GGGATT
1 GTGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCTCCT-CGAAATAACAGCGATC
* * * *
8688 AGAGTATCCCCAATTATGAAAAATCGATGTTTTGGAAATAAAAACTAAGGTTGGAGTAT-CTCTC
65 AGAATATCCCCAATAATGAAAAATCGAAGTTTTGGAAATAAAAAC-AAGGTTAGAGTATCCTCTC
*
8752 AAAAATAACGAGATTGGAGCATTCTCGATG
129 AAAAATAACGAGATTGGAGCATCCTCGATG
*
8782 GTGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATATCCTCAGAAATAACAGCG-TC
1 GTGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCTCCTC-GAAATAACAGCGATC
* * * ** *
8846 AGAATATCCCCAATAATGAAAAATTGAAGTTTTGGTAATAAAATCGGGGTTAGAGTATCCTTTCA
65 AGAATATCCCCAATAATGAAAAATCGAAGTTTTGGAAATAAAAACAAGGTTAGAGTATCCTCTCA
* * * * * *
8911 GAAATAACGGGGTTGGAGTATCCTTGATT
130 AAAATAACGAGATTGGAGCATCCTCGATG
* * * *
8940 ATGAAAAATTGATGTTTTGAAAATAAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAG
1 GTGAAAAATTGGTGTTTTGAAAAT-AAAACCGAGGTTGGAGTATCTCCTCG-AAATAACAG
9001 GGTTGGAGTA
Statistics
Matches: 185, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
157 10 0.05
158 142 0.77
159 33 0.18
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (158 bp):
GTGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCTCCTCGAAATAACAGCGATCA
GAATATCCCCAATAATGAAAAATCGAAGTTTTGGAAATAAAAACAAGGTTAGAGTATCCTCTCAA
AAATAACGAGATTGGAGCATCCTCGATG
Found at i:11495 original size:50 final size:50
Alignment explanation
Indices: 11420--11583 Score: 211
Period size: 50 Copynumber: 3.3 Consensus size: 50
11410 TACATTGAGA
*
11420 AATGTATCGATACATTTGGGTAAAACTCAAAATGTATTGATATAATAAAT
1 AATGTATCGATACATTTGGGTAAAACCCAAAATGTATTGATATAATAAAT
* * * **
11470 AATGTATCGATACATCTGGGTAAAACCCAAAATATATCGATATAATGGAT
1 AATGTATCGATACATTTGGGTAAAACCCAAAATGTATTGATATAATAAAT
* * * * * *
11520 AATGTATTGATACATTTAGGTAAAACCCAGAATGTATTAATACAATAAAG
1 AATGTATCGATACATTTGGGTAAAACCCAAAATGTATTGATATAATAAAT
*
11570 AATGTATTGATACA
1 AATGTATCGATACA
11584 AATTGTGAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 97 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (50 bp):
AATGTATCGATACATTTGGGTAAAACCCAAAATGTATTGATATAATAAAT
Found at i:11574 original size:100 final size:100
Alignment explanation
Indices: 11400--11583 Score: 262
Period size: 100 Copynumber: 1.8 Consensus size: 100
11390 AAAATGCTTG
* * * * *
11400 AATATATCGATACATTGAGAAATGTATCGATACATTTGGGTAAAACTCAAAATGTATTGATATAA
1 AATATATCGATACAATGAGAAATGTATCGATACATTTAGGTAAAACCCAAAATGTATTAATACAA
*
11465 TAAATAATGTATCGATACATCTGGGTAAAACCCAA
66 TAAAGAATGTATCGATACATCTGGGTAAAACCCAA
* * *
11500 AATATATCGATATAATG-GATAATGTATTGATACATTTAGGTAAAACCCAGAATGTATTAATACA
1 AATATATCGATACAATGAGA-AATGTATCGATACATTTAGGTAAAACCCAAAATGTATTAATACA
*
11564 ATAAAGAATGTATTGATACA
65 ATAAAGAATGTATCGATACA
11584 AATTGTGAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 2 0.03
100 71 0.97
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (100 bp):
AATATATCGATACAATGAGAAATGTATCGATACATTTAGGTAAAACCCAAAATGTATTAATACAA
TAAAGAATGTATCGATACATCTGGGTAAAACCCAA
Found at i:17760 original size:79 final size:79
Alignment explanation
Indices: 17586--18329 Score: 643
Period size: 79 Copynumber: 9.4 Consensus size: 79
17576 ATTCCCAATG
** * * * *
17586 GTGAAAAATTAATGTTTTGGAAATAAAAC-CAGAGTTGGAGTATCCCCTCAGAAATGA-TGGGTT
1 GTGAAAAATCGATGTTTTGAAAATAAAACATAG-GTTGGAGTATCCCCTCAGAAATAACGGGGTT
*
17649 GGAGTATCCCCAATT
65 GGAGTATCCCCGATT
* * ** *
17664 GTGAAAAATTGGTGTTTTGAAAATAAAACATAGGTTGGAGTATCCATTCAGAAATAACGGGGTTA
1 GTGAAAAATCGATGTTTTGAAAATAAAACATAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
17729 GAGTATCCCCGATT
66 GAGTATCCCCGATT
* * * **
17743 GTGAAAAATCGATGTTTTGAAAATAAAAC-TAGGGTTGGAGTATGCGCTCGGAAATAGTGGGGTT
1 GTGAAAAATCGATGTTTTGAAAATAAAACATA-GGTTGGAGTATCCCCTCAGAAATAACGGGGTT
* *
17807 GGAGTATCCTCAATT
65 GGAGTATCCCCGATT
* * * * * * *
17822 ATGAAAAATTGGTGTTTT-AGAAATAAAA-ATCGGGGTTGGAGTATCTCTTCAGAAATAATGGGG
1 GTGAAAAATCGATGTTTTGA-AAATAAAACAT--AGGTTGGAGTATCCCCTCAGAAATAACGGGG
* *
17885 TTGGAGCATCCCCGATG
63 TTGGAGTATCCCCGATT
* ** * * *
17902 GTGAAAAATC-A-GTATTTTAGAAATAAAACCGAGGTTGAAGTATCCCGTCAAAAATAACGGGGT
1 GTGAAAAATCGATGT-TTTGA-AAATAAAACATAGGTTGGAGTATCCCCTCAGAAATAACGGGGT
* **
17965 CGGAGTATCTTCGATT
64 TGGAGTATCCCCGATT
* * * *
17981 GTGAAAAATCGGTGTTTTGAAAAT-AAA-ATCGGGATTGGAGTATCCCCTTAGAAATAACGAGGT
1 GTGAAAAATCGATGTTTTGAAAATAAAACAT-AGG-TTGGAGTATCCCCTCAGAAATAACGGGGT
*** * *
18044 CAAAGAATCCCAGATT
64 TGGAGTATCCCCGATT
* * *** *
18060 GT-AGAAAATCAATTTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGTGTT
1 GTGA-AAAATCGATGTTTTGAAAATAAAACATAGGTTGGAGTATCCCCTCAGAAATAACGGGGTT
* *
18124 GGAGTATCTCCGACT
65 GGAGTATCCCCGATT
* * ** * *
18139 GTGGAAAATCGATGTTTTGGAAATAAAATC-GGGGTTGCAGTATCTCCTCAGAAATAACGGGGTT
1 GTGAAAAATCGATGTTTTGAAAATAAAA-CATAGGTTGGAGTATCCCCTCAGAAATAACGGGGTT
18203 GGAGTATCCCCGATT
65 GGAGTATCCCCGATT
* * *
18218 GTGAAAAATTGGTGTTTTGAAAATAAAA-ATCAAGGTTGGAGTATCTCCTC-GAAAATAACGGGG
1 GTGAAAAATCGATGTTTTGAAAATAAAACAT--AGGTTGGAGTATCCCCTCAG-AAATAACGGGG
* *
18281 TTGGAATATTCCCGATT
63 TTGGAGTATCCCCGATT
* *
18298 GTGGAAAATCGGTGTTTT-AGAAATGAAAACAT
1 GTGAAAAATCGATGTTTTGA-AAAT-AAAACAT
18330 GCATGAAATT
Statistics
Matches: 538, Mismatches: 102, Indels: 48
0.78 0.15 0.07
Matches are distributed among these distances:
78 58 0.11
79 344 0.64
80 128 0.24
81 6 0.01
82 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
GTGAAAAATCGATGTTTTGAAAATAAAACATAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
GAGTATCCCCGATT
Found at i:18102 original size:158 final size:158
Alignment explanation
Indices: 17586--18320 Score: 772
Period size: 158 Copynumber: 4.6 Consensus size: 158
17576 ATTCCCAATG
* * * * *
17586 GTGAAAAATTAATGTTTTGGAAATAAAACCAGAGTTGGAGTATCCCCTCAGAAATGA-TGGGTTG
1 GTGAAAAATCAATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
* * * ** *
17650 GAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAA-CATAGGTTGGAGTATCCATTCA
66 GAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATC-GGGGTTGGAGTATCCCTTCA
17714 GAAATAACGGGGTTAGAGTATCCCCGATT
130 GAAATAACGGGGTTAGAGTATCCCCGATT
* * * * * **
17743 GTGAAAAATCGATGTTTTGAAAATAAAACTAGGGTTGGAGTATGCGCTCGGAAATAGTGGGGTTG
1 GTGAAAAATCAATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
* * * *
17808 GAGTATC-CTCAATTATGAAAAATTGGTGTTTT-AGAAATAAAAATCGGGGTTGGAGTATCTCTT
66 GAGTATCTC-CGATTGTGAAAAATCGGTGTTTTGA-AAAT-AAAATCGGGGTTGGAGTATCCCTT
* * * *
17871 CAGAAATAATGGGGTTGGAGCATCCCCGATG
128 CAGAAATAACGGGGTTAGAGTATCCCCGATT
* * * * *
17902 GTGAAAAATCAGTATTTT-AGAAATAAAACC-GAGGTTGAAGTATCCCGTCAAAAATAACGGGGT
1 GTGAAAAATCAATGTTTTGA-AAATAAAACCAG-GGTTGGAGTATCCCCTCAGAAATAACGGGGT
* * *
17965 CGGAGTATCTTCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGGATTGGAGTATCCCCTT
64 TGGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTAT-CCCTT
* * * * *
18030 -AGAAATAACGAGGTCAAAGAATCCCAGATT
128 CAGAAATAACGGGGTTAGAGTATCCCCGATT
* * *
18060 GT-AGAAAATCAATTTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGTGTT
1 GTGA-AAAATCAATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTT
* * * * *
18124 GGAGTATCTCCGACTGTGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGCAGTATCTCC-TC
65 GGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATC-CCTTC
*
18188 AGAAATAACGGGGTTGGAGTATCCCCGATT
129 AGAAATAACGGGGTTAGAGTATCCCCGATT
*** * * *
18218 GTGAAAAATTGGTGTTTTGAAAATAAAAATCAAGGTTGGAGTATCTCCTC-GAAAATAACGGGGT
1 GTGAAAAATCAATGTTTTGAAAAT-AAAACCAGGGTTGGAGTATCCCCTCAG-AAATAACGGGGT
* *
18282 TGGAATAT-TCCCGATTGTGGAAAATCGGTGTTTTAGAAA
64 TGGAGTATCT-CCGATTGTGAAAAATCGGTGTTTT-GAAA
18321 TGAAAACATG
Statistics
Matches: 478, Mismatches: 80, Indels: 37
0.80 0.13 0.06
Matches are distributed among these distances:
157 52 0.11
158 229 0.48
159 192 0.40
160 5 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (158 bp):
GTGAAAAATCAATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
GAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCTTCAG
AAATAACGGGGTTAGAGTATCCCCGATT
Found at i:18209 original size:237 final size:232
Alignment explanation
Indices: 17587--18277 Score: 726
Period size: 238 Copynumber: 2.9 Consensus size: 232
17577 TTCCCAATGG
* * * *
17587 TGAAAAATTAATGTTTTGGAAATAAAACCAGAGTTGGAGTATCCCCTCAGAAATGATGGGTTGGA
1 TGAAAAATTAATGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAATGGGTTGGA
* * * * * * *
17652 GTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAACATAGGTTGGAGTATCCATTCAGAA
66 GTATCCCCGA-TGTGAAAAATCGATGTTTTGGAAATAAAAC-GAGGTTGAAGTATCC-CTCAGAA
* * *
17717 ATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGAAAATAAAACTAGGGTTGGA
128 ATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAA-TCGGGTTGGA
* * * ** * *** *
17782 GTATGCGCTCGGAAATAGTGGGGTTGGAGTATCCTCAATTA
192 GTATCCCCTCAGAAATAACGAGGTCAAAGAATCCTCAATTA
** * * *
17823 TGAAAAATTGGTGTTTT-AGAAATAAAAATCGGGGTTGGAGTATCTCTTCAGAAATAATGGGGTT
1 TGAAAAATTAATGTTTTGA-AAAT-AAAACCGGGGTTGGAGTATCCCCTCAGAAATAAT-GGGTT
* * *
17887 GGAGCATCCCCGATGGTGAAAAATC-AGTATTTTAGAAATAAAACCGAGGTTGAAGTATCCCGTC
63 GGAGTATCCCCGAT-GTGAAAAATCGA-TGTTTTGGAAATAAAA-CGAGGTTGAAGTATCCC-TC
* * **
17951 AAAAATAACGGGGTCGGAGTATCTTCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGGAT
124 AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGG-T
* *
18016 TGGAGTATCCCCTTAGAAATAACGAGGTCAAAGAATCC-CAGATTG
188 TGGAGTATCCCCTCAGAAATAACGAGGTCAAAGAATCCTCA-ATTA
* * *
18061 T-AGAAAATCAATTTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGTGTTG
1 TGA-AAAATTAATGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAATGG-GTTG
* * * *
18125 GAGTATCTCCGACTGTGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGCAGTATCTCCTCAG
64 GAGTATCCCCGA-TGTGAAAAATCGATGTTTTGGAAATAAAA-CGAGGTTGAAGTATC-CCTCAG
* *
18190 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAAATCAAGGTT
126 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGAAAAT-AAAATC-GGGTT
*
18255 GGAGTATCTCCTC-GAAAATAACG
189 GGAGTATCCCCTCAG-AAATAACG
18278 GGGTTGGAAT
Statistics
Matches: 375, Mismatches: 62, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
236 21 0.06
237 168 0.45
238 182 0.49
239 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (232 bp):
TGAAAAATTAATGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAATGGGTTGGA
GTATCCCCGATGTGAAAAATCGATGTTTTGGAAATAAAACGAGGTTGAAGTATCCCTCAGAAATA
ACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGGTTGGAGTAT
CCCCTCAGAAATAACGAGGTCAAAGAATCCTCAATTA
Found at i:18275 original size:317 final size:313
Alignment explanation
Indices: 17565--18328 Score: 835
Period size: 317 Copynumber: 2.4 Consensus size: 313
17555 CGGGGTACAC
* * * * *
17565 GGTTGGAGTACATTCCCAATGGTGAAAAATTAATGTTTTGGAAATAAAACCAGAGTTGGAGTATC
1 GGTTGGAG--CATCCCCGATGGTGAAAAATTAGTGTTTTGAAAATAAAACAAG-GTTGGAGTAT-
* * * * *
17630 CCCTCAGAAATGA-TGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAACA
62 CCCTCA-AAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAACA
* * * * * *
17694 TAGGTTGGAGTATCCATTCAGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTT
126 -AGGTTGGAGTATCCATTCAGAAATAACGAGGTCAAAGAATCCCAGATTGTGAAAAATCAATGTT
* * * * ** *
17759 TTGAAAATAAAACTAGGGTTGGAGTATGCGCTCGGAAATAGTGGGGTTGGAGTATCCTCAATTAT
190 TTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCAACTAT
* * * * *
17824 GAAAAATTGGTGTTTTAGAAATAAAAATCGGGGTTGGAGTATCTCTTCAGAAATAATGG
255 GAAAAATCGATGTTTTAGAAATAAAAATCGGGGTTGCAGTATCTCCTCAGAAATAACGG
* * * *
17883 GGTTGGAGCATCCCCGATGGTGAAAAATCAGTATTTT-AGAAATAAAACCGAGGTTGAAGTATCC
1 GGTTGGAGCATCCCCGATGGTGAAAAATTAGTGTTTTGA-AAATAAAA-CAAGGTTGGAGTATCC
* *
17947 CGTCAAAAATAACGGGGTCGGAGTATCTTCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATC-
64 C-TC-AAAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAA-CA
* * *
18011 GGGATTGGAGTATCCCCTT-AGAAATAACGAGGTCAAAGAATCCCAGATTGT-AGAAAATCAATT
126 AGG-TTGGAGTAT-CCATTCAGAAATAACGAGGTCAAAGAATCCCAGATTGTGA-AAAATCAATG
* * *
18074 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGTGTTGGAGTAT-CTCCGAC
188 TTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCT-CAAC
* * *
18138 TGTGGAAAATCGATGTTTTGGAAAT-AAAATCGGGGTTGCAGTATCTCCTCAGAAATAACGG
252 TATGAAAAATCGATGTTTTAGAAATAAAAATCGGGGTTGCAGTATCTCCTCAGAAATAACGG
* * *
18199 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAAATCAAGGTTGGAGTATCT
1 GGTTGGAGCATCCCCGATGGTGAAAAATTAGTGTTTTGAAAAT-AAAA-CAAGGTTGGAGTATC-
* *
18264 CCTCGAAAATAACGGGGTTGGAATAT-TCCCGATTGTGGAAAATCGGTGTTTT-AGAAATGAAAA
63 CCTC-AAAATAACGGGGTTGGAGTATCT-CCGATTGTGAAAAATCGGTGTTTTGA-AAAT-AAAA
18327 CA
124 CA
18329 TGCATGAAAT
Statistics
Matches: 374, Mismatches: 55, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
315 3 0.01
316 124 0.33
317 228 0.61
318 19 0.05
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (313 bp):
GGTTGGAGCATCCCCGATGGTGAAAAATTAGTGTTTTGAAAATAAAACAAGGTTGGAGTATCCCT
CAAAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAACAAGGTT
GGAGTATCCATTCAGAAATAACGAGGTCAAAGAATCCCAGATTGTGAAAAATCAATGTTTTGAAA
ATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCAACTATGAAAAA
TCGATGTTTTAGAAATAAAAATCGGGGTTGCAGTATCTCCTCAGAAATAACGG
Found at i:20749 original size:50 final size:49
Alignment explanation
Indices: 20666--20799 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 49
20656 AAATGGTCCT
* * * * *
20666 GAATGTATCGATACATTGAGAAATATATTGATACATCTAGGTAAAACCTA
1 GAATGTATCGATACAATGA-AAATGTATCGATACATATAGGTAAAACCCA
*
20716 GAATGTATCGATACAATGAATAATGTATCGATACATATGGGTAAAACCCA
1 GAATGTATCGATACAATGAA-AATGTATCGATACATATAGGTAAAACCCA
* *
20766 AAATGTATCGATACAATTAAGAATGTATCGATAC
1 GAATGTATCGATACAATGAA-AATGTATCGATAC
20800 GAATTGTGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 73 0.99
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (49 bp):
GAATGTATCGATACAATGAAAATGTATCGATACATATAGGTAAAACCCA
Found at i:22897 original size:24 final size:24
Alignment explanation
Indices: 22840--22887 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22830 TAATATGAGG
22840 ATAAAAAATAATTATATATGTTGA
1 ATAAAAAATAATTATATATGTTGA
22864 ATAAAAAATAATTATATATGTTGA
1 ATAAAAAATAATTATATATGTTGA
22888 GTTTTGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (24 bp):
ATAAAAAATAATTATATATGTTGA
Found at i:24545 original size:16 final size:16
Alignment explanation
Indices: 24502--24545 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
24492 TATGTAAATA
*
24502 TAAATTTTAAAAATTT
1 TAAATTTTTAAAATTT
* *
24518 TAAATATATAAAATTT
1 TAAATTTTTAAAATTT
24534 TAAATTTTTAAA
1 TAAATTTTTAAA
24546 TATCAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATTTTTAAAATTT
Found at i:25747 original size:18 final size:21
Alignment explanation
Indices: 25693--25750 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 21
25683 AAAAATATAT
* *
25693 AATATTTAAATTTAATTATAAA
1 AATATATAATTTTAA-TATAAA
*
25715 AATATATAATATTAATAT-AA
1 AATATATAATTTTAATATAAA
25735 AATA-AT-ATTTTAATAT
1 AATATATAATTTTAATAT
25751 TTTTAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.28
19 2 0.06
20 6 0.19
21 3 0.09
22 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATATAATTTTAATATAAA
Found at i:26897 original size:2 final size:2
Alignment explanation
Indices: 26880--26924 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
26870 CAGTTTTTCA
* *
26880 TC TC TC CC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
26922 TC T
1 TC T
26925 TTAAGCAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:30031 original size:5 final size:5
Alignment explanation
Indices: 30018--30048 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
30008 TTTTATTAGC
*
30018 CATCC CATCT CATCT CATCT CATCT CATCT C
1 CATCT CATCT CATCT CATCT CATCT CATCT C
30049 TGAATTGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.19, C:0.45, G:0.00, T:0.35
Consensus pattern (5 bp):
CATCT
Found at i:30664 original size:15 final size:15
Alignment explanation
Indices: 30644--30675 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30634 AATTTAAAAA
*
30644 ATTAAATATATTTTT
1 ATTAAATATATATTT
30659 ATTAAATATATATTT
1 ATTAAATATATATTT
30674 AT
1 AT
30676 ATTTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTAAATATATATTT
Found at i:31320 original size:25 final size:22
Alignment explanation
Indices: 31290--31340 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
31280 GATATAATTT
*
31290 TATTTTAAAAATAAATATAAATAA
1 TATTTTTAAAATAAA-AT-AATAA
**
31314 TATTTTTTTAATAAAATAATAA
1 TATTTTTAAAATAAAATAATAA
31336 TATTT
1 TATTT
31341 GGTTTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
24 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATTTTTAAAATAAAATAATAA
Found at i:32924 original size:13 final size:13
Alignment explanation
Indices: 32906--32932 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32896 ATATTATGCT
32906 TTGTATCGATACA
1 TTGTATCGATACA
32919 TTGTATCGATACA
1 TTGTATCGATACA
32932 T
1 T
32933 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:32964 original size:29 final size:29
Alignment explanation
Indices: 32906--32991 Score: 136
Period size: 29 Copynumber: 2.9 Consensus size: 29
32896 ATATTATGCT
32906 TTGTATCGATACATTGTATCGATACATGTTCA
1 TTGTATCGATACA---TATCGATACATGTTCA
32938 TTGTATCGATACATATCGATACATGTTCA
1 TTGTATCGATACATATCGATACATGTTCA
*
32967 TTGTATTGATACATATCGATACATG
1 TTGTATCGATACATATCGATACATG
32992 AAACTGGCAG
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
29 40 0.75
32 13 0.25
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (29 bp):
TTGTATCGATACATATCGATACATGTTCA
Found at i:33059 original size:13 final size:13
Alignment explanation
Indices: 33041--33065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33031 CATGGCACAT
33041 TGTATCGATACAA
1 TGTATCGATACAA
33054 TGTATCGATACA
1 TGTATCGATACA
33066 TGATGAATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:33079 original size:33 final size:33
Alignment explanation
Indices: 33021--33085 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
33011 TACCACTGTT
*
33021 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATGGTATCGATACAA
33054 TGTATCGATACATGATG-A-ATGGTATCGATACA
1 TGTATCGATACATG--GCACATGGTATCGATACA
33086 TTCCTTCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGGCACATGGTATCGATACAA
Found at i:35547 original size:10 final size:10
Alignment explanation
Indices: 35532--35556 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35522 TTTGAAAATA
35532 TAGCCGTTAC
1 TAGCCGTTAC
35542 TAGCCGTTAC
1 TAGCCGTTAC
35552 TAGCC
1 TAGCC
35557 AATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.28
Consensus pattern (10 bp):
TAGCCGTTAC
Found at i:35702 original size:20 final size:21
Alignment explanation
Indices: 35655--35707 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
35645 GCCAATGACC
**
35655 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
35676 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
35696 TGTATCGATACA
1 TGTATCGATACA
35708 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:35713 original size:13 final size:13
Alignment explanation
Indices: 35695--35723 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
35685 ACATTTGGTC
35695 ATGTATCGATACA
1 ATGTATCGATACA
35708 ATGTATCGATACA
1 ATGTATCGATACA
35721 ATG
1 ATG
35724 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:35734 original size:20 final size:20
Alignment explanation
Indices: 35709--35759 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
35699 ATCGATACAA
*
35709 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
35729 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
35749 TGTATCGATAC
1 TGTATCGATAC
35760 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:43182 original size:13 final size:13
Alignment explanation
Indices: 43164--43189 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43154 ACATTTTGGG
43164 ATGTATCGATACA
1 ATGTATCGATACA
43177 ATGTATCGATACA
1 ATGTATCGATACA
43190 TATTCTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:43297 original size:20 final size:21
Alignment explanation
Indices: 43250--43302 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
43240 GCCAATCACC
*
43250 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
43271 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
43291 TGTATCGATACA
1 TGTATCGATACA
43303 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:43308 original size:13 final size:13
Alignment explanation
Indices: 43290--43314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43280 ACATTTGGTC
43290 ATGTATCGATACA
1 ATGTATCGATACA
43303 ATGTATCGATAC
1 ATGTATCGATAC
43315 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:43346 original size:20 final size:20
Alignment explanation
Indices: 43303--43354 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
43293 TATCGATACA
**
43303 ATGTATCGATACTGTGCATT
1 ATGTATCGATACTGTGCAAG
43323 ATGTATCGATACTGTAG-AAG
1 ATGTATCGATACTGT-GCAAG
43343 ATGTATCGATAC
1 ATGTATCGATAC
43355 ATTCAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACTGTGCAAG
Found at i:43731 original size:16 final size:19
Alignment explanation
Indices: 43691--43740 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 19
43681 CTACCACTGT
43691 TTGTATCGATACATGACACA
1 TTGTATCGATACATGA-ACA
43711 TTGTATCGATA-ATG-A-A
1 TTGTATCGATACATGAACA
43727 TTGTATCGATACAT
1 TTGTATCGATACAT
43741 TGCTTCTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 12 0.41
17 3 0.10
19 3 0.10
20 11 0.38
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATGAACA
Found at i:45753 original size:2 final size:2
Alignment explanation
Indices: 45746--45778 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45736 AGATTTATGA
45746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45779 CGTAATCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45928 original size:19 final size:21
Alignment explanation
Indices: 45881--45928 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
45871 AAACTAAAAT
45881 TAAT-ATTATTTTTAGCTAAA
1 TAATAATTATTTTTAGCTAAA
*
45901 TATTAATTA-TTTTAGCTAAA
1 TAATAATTATTTTTAGCTAAA
45921 -AATAATTA
1 TAATAATTA
45929 CAAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 14 0.56
21 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
TAATAATTATTTTTAGCTAAA
Found at i:45945 original size:10 final size:10
Alignment explanation
Indices: 45917--45948 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
45907 TTATTTTAGC
45917 TAAAAATAAT
1 TAAAAATAAT
45927 TACAAAATAAT
1 TA-AAAATAAT
45938 TAAAAATAAT
1 TAAAAATAAT
45948 T
1 T
45949 TTTTTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:50846 original size:19 final size:19
Alignment explanation
Indices: 50822--50895 Score: 112
Period size: 19 Copynumber: 3.8 Consensus size: 19
50812 TGTACCGATA
50822 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
50841 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
* **
50860 CATTGTATCGTTACATGGA
1 CATTGTATCGATACATGTT
50879 CAATTGTATCGATACAT
1 C-ATTGTATCGATACAT
50896 AAGATTGGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 36 0.72
20 14 0.28
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:50951 original size:20 final size:20
Alignment explanation
Indices: 50926--50963 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
50916 TACCACTGTT
50926 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
*
50946 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
50964 TGATACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:50969 original size:33 final size:33
Alignment explanation
Indices: 50925--50993 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
50915 CTACCACTGT
50925 TTGTATCGATACATGGTAT-AA-TGTATCGATACA
1 TTGTATCGATACAT-G-ATGAATTGTATCGATACA
*
50958 TTGTATTGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
50991 TTG
1 TTG
50994 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 28 0.85
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:57169 original size:13 final size:13
Alignment explanation
Indices: 57151--57177 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57141 ACAACATTCG
57151 TTGTATCGATACA
1 TTGTATCGATACA
57164 TTGTATCGATACA
1 TTGTATCGATACA
57177 T
1 T
57178 AGGGTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:59072 original size:22 final size:21
Alignment explanation
Indices: 59047--59126 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 21
59037 ATAAATTTTT
*
59047 TTAAAGGGGAGAAATGCCTTGA
1 TTAAAGGGGAGAAAT-CTTTGA
*
59069 TT-AAGAGGGAGAAAATTTTTGA
1 TTAAAG-GGGAG-AAATCTTTGA
*
59091 TTAAAGGGGAGAAATTCTTTAA
1 TTAAAGGGGAGAAA-TCTTTGA
*
59113 TTAAGGGGGAGAAA
1 TTAAAGGGGAGAAA
59127 AATGAAAACT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
21 6 0.12
22 36 0.73
23 7 0.14
ACGTcount: A:0.40, C:0.04, G:0.30, T:0.26
Consensus pattern (21 bp):
TTAAAGGGGAGAAATCTTTGA
Found at i:59100 original size:44 final size:42
Alignment explanation
Indices: 59039--59127 Score: 124
Period size: 44 Copynumber: 2.1 Consensus size: 42
59029 GAAAATAAAT
*
59039 AAATTTTTTTAAAGGGGAGAAATGCCTTGATTAAGAGGGAGA
1 AAATTTTTTTAAAGGGGAGAAATGCCTTAATTAAGAGGGAGA
* * *
59081 AAATTTTTGATTAAAGGGGAGAAATTCTTTAATTAAGGGGGAGA
1 AAATTTTT--TTAAAGGGGAGAAATGCCTTAATTAAGAGGGAGA
59125 AAA
1 AAA
59128 ATGAAAACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 8 0.20
44 33 0.80
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.29
Consensus pattern (42 bp):
AAATTTTTTTAAAGGGGAGAAATGCCTTAATTAAGAGGGAGA
Found at i:59727 original size:20 final size:19
Alignment explanation
Indices: 59681--59737 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
59671 TTATATCGAT
* *
59681 ACATTGTATCTATACATGT
1 ACATTGTATCGATACATGG
*
59700 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
59719 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
59738 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:59792 original size:20 final size:20
Alignment explanation
Indices: 59766--59819 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
59756 CTACCACTGT
59766 TTGTATCGATACATGGTAT-AA
1 TTGTATCGATACAT-G-ATGAA
59787 -TGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
59806 TTGTATCGATACAT
1 TTGTATCGATACAT
59820 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.06
19 3 0.10
20 26 0.84
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:60861 original size:23 final size:22
Alignment explanation
Indices: 60835--60878 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
60825 TTAAGTATAG
60835 ATGTTTTCCAAGCAATAAATAAA
1 ATGTTTTCCAAGCAA-AAATAAA
* *
60858 ATGTTTTTCAAGTAAAAATAA
1 ATGTTTTCCAAGCAAAAATAA
60879 TTCTAAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (22 bp):
ATGTTTTCCAAGCAAAAATAAA
Found at i:60994 original size:13 final size:13
Alignment explanation
Indices: 60976--61000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60966 ATATTACTTA
60976 GTATCGATACATT
1 GTATCGATACATT
60989 GTATCGATACAT
1 GTATCGATACAT
61001 GTTCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:60998 original size:33 final size:32
Alignment explanation
Indices: 60955--61018 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
60945 CACACCCAGA
*
60955 TGTATTGATACATATT-ACTTAGTATCGATACAT
1 TGTATCGATACATATTCA-TT-GTATCGATACAT
*
60988 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATATTCATTGTATCGATACA
61019 CCTTGAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.39
33 16 0.57
34 1 0.04
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATATTCATTGTATCGATACAT
Found at i:65005 original size:13 final size:13
Alignment explanation
Indices: 64987--65012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64977 CAATTTTTTG
64987 TGTATCGATACAT
1 TGTATCGATACAT
65000 TGTATCGATACAT
1 TGTATCGATACAT
65013 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:66298 original size:79 final size:78
Alignment explanation
Indices: 66200--66458 Score: 333
Period size: 79 Copynumber: 3.3 Consensus size: 78
66190 TTTGGAGATA
* *
66200 AAAATGGGGTTGGAGTATCCCCTCGAAAATGATGGGGTTGGAGTATCCCCAATGGTA-G-AAAAT
1 AAAATCGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAAT--TATGAAAAAT
*
66263 CGATGTTTTAGAAAT
64 TGATGTTTTAGAAAT
* * * *
66278 AAAATCAGGGTTAGAATATCCCCTCAAAAATAATGGGGTTGAAGTATCCCCAATTATGAAAAATT
1 AAAATC-GGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATT
*
66343 GATGCTTTAGAAAT
65 GATGTTTTAGAAAT
* * * *
66357 AAAGCTGGGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTATGAAAAATT
1 AAA-ATCGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATT
* *
66422 GGTGTTTTGGAAAT
65 GATGTTTTAGAAAT
66436 AAAATCGGGATTGGAGTATCCCC
1 AAAATCGGG-TTGGAGTATCCCC
66459 GATTGTGAAA
Statistics
Matches: 155, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
77 2 0.01
78 10 0.06
79 142 0.92
80 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
AAAATCGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATTG
ATGTTTTAGAAAT
Found at i:66487 original size:51 final size:51
Alignment explanation
Indices: 66395--66506 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
66385 AATAATAGGG
*** * **
66395 TTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGGA
1 TTGGAGTATCCCCGATTATGAAAAATCAATGGTTTAAAAATAAAATCGGGA
* *
66446 TTGGAGTATCCCCGATTGTGAAAAATCAATGGTTTAAAAATAAAATCGGGG
1 TTGGAGTATCCCCGATTATGAAAAATCAATGGTTTAAAAATAAAATCGGGA
*
66497 TTAGAGTATC
1 TTGGAGTATC
66507 TCCTCAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTATGAAAAATCAATGGTTTAAAAATAAAATCGGGA
Found at i:66565 original size:130 final size:130
Alignment explanation
Indices: 66320--66569 Score: 288
Period size: 130 Copynumber: 1.9 Consensus size: 130
66310 ATGGGGTTGA
** * * *
66320 AGTATCCCCAATTATGAAAAATTGATGCTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTCGAA
1 AGTATCCCCAATTATGAAAAATCAATGCTTTAAAAATAAAGCTGGGGTTAGAGTATCCCCTCAAA
* ** * * ** * *
66385 AATAATAGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGGATTGG
66 AATAAGAGAATTGGAGTATCCCCGATGATAAAAAATCAGTATTTTAGAAATAAAATCGGGATTGG
* * * * *
66450 AGTATCCCCGATTGTGAAAAATCAATGGTTTAAAAATAAA-ATCGGGGTTAGAGTATCTCCTCAA
1 AGTATCCCCAATTATGAAAAATCAATGCTTTAAAAATAAAGCT-GGGGTTAGAGTATCCCCTCAA
*
66514 AAATAACGA-AATTGGAGTATCCCCGATGGTAAAAAATCAGTATTTTAGAAATAAAA
65 AAATAA-GAGAATTGGAGTATCCCCGATGATAAAAAATCAGTATTTTAGAAATAAAA
66570 AACATGAATA
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
129 1 0.01
130 96 0.98
131 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (130 bp):
AGTATCCCCAATTATGAAAAATCAATGCTTTAAAAATAAAGCTGGGGTTAGAGTATCCCCTCAAA
AATAAGAGAATTGGAGTATCCCCGATGATAAAAAATCAGTATTTTAGAAATAAAATCGGGATTGG
Found at i:68887 original size:50 final size:51
Alignment explanation
Indices: 68768--68903 Score: 193
Period size: 50 Copynumber: 2.7 Consensus size: 51
68758 AAAAATGCCT
* * * *
68768 AAATGTATCGATACATTGAGAAATGTATCGATACATCTGGGTTAAATCCCA
1 AAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTTAAAACCCA
68819 AAATGTATCGATACAATGAAAAATGTATCGATACATCTAGG-TAAAACCCA
1 AAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTTAAAACCCA
* ** *
68869 TAATGTATCGATACAATGAAGGACGTATCGATACA
1 AAATGTATCGATACAATGAAAAATGTATCGATACA
68904 AATTGTGAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 39 0.51
51 38 0.49
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (51 bp):
AAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTTAAAACCCA
Found at i:74705 original size:13 final size:13
Alignment explanation
Indices: 74687--74711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74677 ATATTACTTA
74687 GTATCGATACATT
1 GTATCGATACATT
74700 GTATCGATACAT
1 GTATCGATACAT
74712 GTTCAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:76009 original size:76 final size:76
Alignment explanation
Indices: 75871--76013 Score: 178
Period size: 76 Copynumber: 1.9 Consensus size: 76
75861 AGACTCAGTT
* * * *
75871 TTAAGGTATTATTACCAAAATAACCCTAATGAACATGTTTTGACATAAAAGTTCCCATATGATCC
1 TTAAGGTACTATTACCAAAATAACCCTAATGAACATGTTTCGACACAAAAGTTCCCACATGATCC
75936 TAGAATTGATC
66 TAGAATTGATC
** * * * ***
75947 TTAAGGTACTATTATTAAAATAACCTTAATGGACATGTTTCGATACAAAAGTTTTTACATGATCC
1 TTAAGGTACTATTACCAAAATAACCCTAATGAACATGTTTCGACACAAAAGTTCCCACATGATCC
76012 TA
66 TA
76014 ATAGACATGT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 55 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (76 bp):
TTAAGGTACTATTACCAAAATAACCCTAATGAACATGTTTCGACACAAAAGTTCCCACATGATCC
TAGAATTGATC
Found at i:76166 original size:190 final size:190
Alignment explanation
Indices: 75815--76169 Score: 427
Period size: 190 Copynumber: 1.9 Consensus size: 190
75805 AAAATTCCGT
* * * *
75815 ATGACCTAATGGACATATATTGACACGAAGGTTTCCACATGAATCTAGACTCAGTTTTAAGGTAT
1 ATGACCTAATAGACATATATTGACACGAAGGTTCCCACATGAATCTAGAATCAGTTTTAAGGTAC
* * *
75880 TATTACCAAAATAACCCTAATGAACATGTTTTGACATAAAAGTTCCCATATGATCCTAGAATTGA
66 TATTACCAAAATAACCCTAAGGAACATGTTTCGACATAAAAGTTCCCACATGATCCTAGAATTGA
* *
75945 TCTTAAGGTACTATTATTAAAATAACCTTAATGGACATGTTTCGATACAAAAGTTTTTAC
131 TCTTAAGGTAATACTATTAAAATAACCTTAATGGACATGTTTCGATACAAAAGTTTTTAC
*
76005 ATGATCCTAATAGACATGTATT-AGCACGAAGGTTCCCACATG-ATCCTAGAATC-GATTTTAAG
1 ATGA-CCTAATAGACATATATTGA-CACGAAGGTTCCCACATGAAT-CTAGAATCAG-TTTTAAG
** * * **
76067 GTACT-TTACCAAAATAACTTTAAGGGACATGTTTCGACATGAAAGTTCTTACATGATTCC-AG-
62 GTACTATTACCAAAATAACCCTAAGGAACATGTTTCGACATAAAAGTTCCCACATGA-TCCTAGA
* * *
76129 ATTCGATTTTAAGGTAATACTATCT-AGATACCCTTAATGGA
126 ATT-GATCTTAAGGTAATACTAT-TAAAATAACCTTAATGGA
76170 TATGCATGAA
Statistics
Matches: 139, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
189 3 0.02
190 82 0.59
191 54 0.39
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (190 bp):
ATGACCTAATAGACATATATTGACACGAAGGTTCCCACATGAATCTAGAATCAGTTTTAAGGTAC
TATTACCAAAATAACCCTAAGGAACATGTTTCGACATAAAAGTTCCCACATGATCCTAGAATTGA
TCTTAAGGTAATACTATTAAAATAACCTTAATGGACATGTTTCGATACAAAAGTTTTTAC
Found at i:76837 original size:58 final size:57
Alignment explanation
Indices: 76790--76991 Score: 200
Period size: 58 Copynumber: 3.5 Consensus size: 57
76780 ACAATGATCC
76790 TAAAATGCATGAGAATGCATAAATAGTCCTAAATCA-TGAAAGTTTACTAAAATGACAT
1 TAAAATGCATGA-AATGCATAAATAGTCCTAAATCATTGAAA-TTTACTAAAATGACAT
* * *
76848 TAAAATGCATGAAATGTATAAATGGTCCTCAATCATTGAAATTTACTAAAATGACAT
1 TAAAATGCATGAAATGCATAAATAGTCCTAAATCATTGAAATTTACTAAAATGACAT
* * * * * *
76905 TAAAATGCAT-AAATTAGCATAAA-AATCCCTAATTTATGGAGAA-TGACTAAAATGATA-
1 TAAAATGCATGAAA-T-GCATAAATAGT-CCTAAATCATTGA-AATTTACTAAAATGACAT
*
76962 TACAAATACATGAAATGACATAAA-AGTCCT
1 TA-AAATGCATGAAATG-CATAAATAGTCCT
76992 TAATATGCAT
Statistics
Matches: 122, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
56 3 0.02
57 54 0.44
58 60 0.49
59 5 0.04
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (57 bp):
TAAAATGCATGAAATGCATAAATAGTCCTAAATCATTGAAATTTACTAAAATGACAT
Found at i:76896 original size:57 final size:57
Alignment explanation
Indices: 76790--76927 Score: 199
Period size: 57 Copynumber: 2.4 Consensus size: 57
76780 ACAATGATCC
76790 TAAAATGCATGAGAATGCATAAATAGTCCTAAATCATGAAAGTTTACTAAAATGACAT
1 TAAAATGCATGA-AATGCATAAATAGTCCTAAATCATGAAAGTTTACTAAAATGACAT
* * *
76848 TAAAATGCATGAAATGTATAAATGGTCCTCAATCATTGAAA-TTTACTAAAATGACAT
1 TAAAATGCATGAAATGCATAAATAGTCCTAAATCA-TGAAAGTTTACTAAAATGACAT
76905 TAAAATGCAT-AAATTAGCATAAA
1 TAAAATGCATGAAA-T-GCATAAA
76928 AATCCCTAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
56 3 0.04
57 47 0.64
58 23 0.32
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (57 bp):
TAAAATGCATGAAATGCATAAATAGTCCTAAATCATGAAAGTTTACTAAAATGACAT
Found at i:77404 original size:217 final size:212
Alignment explanation
Indices: 77032--77468 Score: 739
Period size: 217 Copynumber: 2.0 Consensus size: 212
77022 GCAAAATGAT
* *
77032 CCATAAAAGTTTTAACATCACAAATGTGCCGATAAACATTTCATTTCACCAATAAAGAAAAAGCA
1 CCATAAAAGTTTGAACATCACAAATGTGCCGATAAACATTTCATTTCACCAATAAACAAAAAGCA
77097 TGGTGCAATACATGTTTTTTTCTCTCAAAACACCATACTAACATGCAAATAGCTAGATTTACTAA
66 TGGTGCAATACATGTTTTTTTCTCTCAAAACACCATACTAACATGCAAATAGCTAGATTTACTAA
*
77162 TATGCAGAATGATGTTGCCATAATCATAATATAATCATGGAAAATGCATGGACAAATAAATCATG
131 TATGCAGAATGATATTGCCATAATCATAATATAATCATGGAAAA--CATGGACAAATAAATCATG
* * *
77227 AGATTAGTGCATAAAGATA
194 ACAATAGTGCATAAAGAAA
77246 CCATAAAAGTTTGAACATCACAAATGTGCCGATAAACATTTCATTTCACCAATAAACAAAGAAGC
1 CCATAAAAGTTTGAACATCACAAATGTGCCGATAAACATTTCATTTCACCAATAAACAAA-AAGC
*
77311 ATGGTGCAATACATGATTGTTTTTCTCTTAAAACACCATACTAACATGCAAATAGCTAGATTTAC
65 ATGGTGCAATACATG-TT-TTTTTCTCTCAAAACACCATACTAACATGCAAATAGCTAGATTTAC
* *
77376 TAATATGCATAATGATATTGCCATAATCATAATATAATCATGGAAAACATGGACATATAAATCAT
128 TAATATGCAGAATGATATTGCCATAATCATAATATAATCATGGAAAACATGGACAAATAAATCAT
77441 GACAATAGTGCATAAAGAAA
193 GACAATAGTGCATAAAGAAA
*
77461 TCATAAAA
1 CCATAAAA
77469 TGCACATCAT
Statistics
Matches: 210, Mismatches: 10, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
214 58 0.28
215 60 0.29
216 2 0.01
217 90 0.43
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.28
Consensus pattern (212 bp):
CCATAAAAGTTTGAACATCACAAATGTGCCGATAAACATTTCATTTCACCAATAAACAAAAAGCA
TGGTGCAATACATGTTTTTTTCTCTCAAAACACCATACTAACATGCAAATAGCTAGATTTACTAA
TATGCAGAATGATATTGCCATAATCATAATATAATCATGGAAAACATGGACAAATAAATCATGAC
AATAGTGCATAAAGAAA
Found at i:82325 original size:19 final size:19
Alignment explanation
Indices: 82297--82353 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
82287 TTGTATCGAT
* *
82297 ACATTATATCGGTACATGC
1 ACATTGTATCGATACATGC
* *
82316 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
82335 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
82354 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:82419 original size:13 final size:13
Alignment explanation
Indices: 82398--82451 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
82388 CGATACATGG
*
82398 TACAATGTATCGA
1 TACATTGTATCGA
82411 TACATTGTATCGA
1 TACATTGTATCGA
82424 TACA-TG-AT-GA
1 TACATTGTATCGA
82434 -A-ATTGTATCGA
1 TACATTGTATCGA
82445 TACATTG
1 TACATTG
82452 CTTGCAACGG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
8 1 0.03
9 3 0.09
10 4 0.11
11 4 0.11
12 3 0.09
13 20 0.57
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:82424 original size:33 final size:34
Alignment explanation
Indices: 82382--82451 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
82372 CTGCCACTGC
*
82382 TTGTATCGATACATGGT-ACAA-TGTATCGATACA
1 TTGTATCGATACATGATGA-AATTGTATCGATACA
82415 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATTGTATCGATACA
82449 TTG
1 TTG
82452 CTTGCAACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 18 0.53
34 16 0.47
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (34 bp):
TTGTATCGATACATGATGAAATTGTATCGATACA
Found at i:83986 original size:13 final size:13
Alignment explanation
Indices: 83968--84009 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
83958 ACAACATTCC
*
83968 TTGTATCAATACA
1 TTGTATCGATACA
83981 TTGTATCGATACA
1 TTGTATCGATACA
*
83994 CTGTATCGATACA
1 TTGTATCGATACA
84007 TTG
1 TTG
84010 GGTACTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:85974 original size:22 final size:20
Alignment explanation
Indices: 85903--85975 Score: 53
Period size: 22 Copynumber: 3.6 Consensus size: 20
85893 TTATTTGACA
*
85903 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAATTC-TT-ATT
85925 AAGGGGGAG-AATT-TT-TT
1 AAGGGGGAGAAATTCTTATT
* * *
85942 AAAGAGAAGAAATTCCTTAATT
1 AAGGGGGAGAAATT-CTT-ATT
85964 AAGGGGGAGAAA
1 AAGGGGGAGAAA
85976 AATGAAAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
17 8 0.21
18 4 0.10
19 2 0.05
20 2 0.05
21 3 0.08
22 20 0.51
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.25
Consensus pattern (20 bp):
AAGGGGGAGAAATTCTTATT
Found at i:86574 original size:20 final size:19
Alignment explanation
Indices: 86528--86584 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
86518 TTGTATCAAT
86528 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
86547 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
86566 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
86585 AGATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:86660 original size:21 final size:21
Alignment explanation
Indices: 86613--86667 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
86603 CTACCACTGT
*
86613 TTGTATCGATACATGGTACAA
1 TTGTATCGATACATGATACAA
86634 -TGTATCGATACATGATGA-AA
1 TTGTATCGATACATGAT-ACAA
*
86654 TTGTATCAATACAT
1 TTGTATCGATACAT
86668 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (21 bp):
TTGTATCGATACATGATACAA
Found at i:89908 original size:17 final size:18
Alignment explanation
Indices: 89886--89919 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
89876 TTTAGAAATC
89886 AAAAAG-AAAAGTCAACA
1 AAAAAGTAAAAGTCAACA
89903 AAAAAGTAAAAGTCAAC
1 AAAAAGTAAAAGTCAAC
89920 TATAGGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.09
Consensus pattern (18 bp):
AAAAAGTAAAAGTCAACA
Found at i:92851 original size:13 final size:13
Alignment explanation
Indices: 92833--92857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92823 CATTATGCTT
92833 TGTATCGATACAA
1 TGTATCGATACAA
92846 TGTATCGATACA
1 TGTATCGATACA
92858 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:92870 original size:19 final size:20
Alignment explanation
Indices: 92842--92898 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
92832 TTGTATCGAT
*
92842 ACAA-TGTATCGATACATGT
1 ACAACTGTATCGATACATGG
* * *
92861 TC-ATTGTATCGACACATGG
1 ACAACTGTATCGATACATGG
92880 ACAACTGTATCGATACATG
1 ACAACTGTATCGATACATG
92899 AAATTGGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.50
20 14 0.47
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (20 bp):
ACAACTGTATCGATACATGG
Found at i:108364 original size:19 final size:20
Alignment explanation
Indices: 108322--108371 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
108312 ACAAGCCAAC
108322 GTATCGATACATTTGGTCAT
1 GTATCGATACATTTGGTCAT
108342 GTATCGATACATCTT-GT-AT
1 GTATCGATACAT-TTGGTCAT
108361 GTATCGATACA
1 GTATCGATACA
108372 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.45
20 14 0.48
21 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTTGGTCAT
Found at i:117095 original size:13 final size:13
Alignment explanation
Indices: 117077--117102 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117067 ACATTTGGTC
117077 ATGTATCGATACA
1 ATGTATCGATACA
117090 ATGTATCGATACA
1 ATGTATCGATACA
117103 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:117097 original size:33 final size:32
Alignment explanation
Indices: 117055--117122 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
117045 CGTTACAAGC
117055 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
117088 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
117120 CAA
1 CAA
117123 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:117209 original size:19 final size:20
Alignment explanation
Indices: 117185--117234 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
117175 TTCTTTGCAA
*
117185 GTATCGATACAGAG-GTTAT
1 GTATCGATACAGAGCATTAT
* *
117204 GTATCGATACTGTGCATTAT
1 GTATCGATACAGAGCATTAT
117224 GTATCGATACA
1 GTATCGATACA
117235 TCTGAAGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (20 bp):
GTATCGATACAGAGCATTAT
Found at i:123296 original size:164 final size:163
Alignment explanation
Indices: 122984--123661 Score: 573
Period size: 164 Copynumber: 4.1 Consensus size: 163
122974 TTCAAACATC
* * * * * *
122984 AAAATTCTTCAAATATTATCATTTAATCTTCATCA--AA-TCAGTTTTCAAAAATTCTTTAATTT
1 AAAATTCATCAAATATTATTATTT-AT-TTCAT-ATTAATTCAATTTTTAAAAATTCATTCATTT
* * * * * * * * * * **
123046 TCATTAGTTTTTGAATTTTTCCTTGAAATTTTTCTTTTTTTGAAATATGATTTTTTCTACTCCAT
63 CCATGA-ATTTTGAATTTTT-CTTTAAAATTCTCCTTTTTCGAAATACGATGTTTTCTACTCTGT
* *
123111 AAATTTTTTCGAGGGTATTTTTCTTGATTTTTAATTTTT
126 -AATTTTTTTGAGGGTATTTTTCTTGGTTTTTAATTTTT
* * *
123150 AAAATTTATCAAATATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTCATTCATTTCTA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAATTCAATTTTTAAAAATTCATTCATTTCCA
* * *
123215 TGAATTTTGAA-TTTT-TTTGAAGTTC-CCATTTTTTTCGAAGTACGGA-GTTTTCTACTCTGTG
66 TGAATTTTGAATTTTTCTTTAAAATTCTCC---TTTTTCGAAATAC-GATGTTTTCTACTCTGT-
123276 AATTTTTTTG-GCGGTATTTTTCTTGGTTTTTAATTTTT
126 AATTTTTTTGAG-GGTATTTTTCTTGGTTTTTAATTTTT
* *
123314 AAAATTCATCAAATATTATTATTT-TATTCATATTAATTTATTTTTTAAAAATTCATTCATTTCC
1 AAAATTCATCAAATATTATTATTTAT-TTCATATTAATTCAATTTTTAAAAATTCATTCATTTCC
*
123378 ATGAATTTTGAATTTTTCTTTAAAATTCTCCTTTTTCGAAATACGATGTTATCTACT-TCGTAAT
65 ATGAATTTTGAATTTTTCTTTAAAATTCTCCTTTTTCGAAATACGATGTTTTCTACTCT-GTAA-
* *
123442 TTTTTTTTGAGGGGA-TTTTCTTGGTTTTTAATTTTC
128 -TTTTTTTGAGGGTATTTTTCTTGGTTTTTAATTTTT
* * * * * *
123478 AAAATTCATTAAATATTATCATTTGA-TTCATATTAAATCAATTTTGAAAAATTAATTCATTTTC
1 AAAATTCATCAAATATTATTATTT-ATTTCATATTAATTCAATTTTTAAAAATTCATTCATTTCC
* * * * * **
123542 AT-AAGTTTTAAATTTTTTCTTTGAAAA-TC-CCTTTTTTTGAGAA-ACCAAGTTTTCTTCTCCA
65 ATGAA-TTTTGAA-TTTTTCTTT-AAAATTCTCC-TTTTTCGA-AATACGATGTTTTCTACTCTG
* * **
123603 TAATTTTTTCGGGAGGG-ATTTTTCTCGGTTTAAAATTTTT
125 TAATTTTTT--TGAGGGTATTTTTCTTGGTTTTTAATTTTT
123643 AAAATTCAT-ATAATATTAT
1 AAAATTCATCA-AATATTAT
123662 CAGTGAACTC
Statistics
Matches: 428, Mismatches: 55, Indels: 59
0.79 0.10 0.11
Matches are distributed among these distances:
161 1 0.00
162 6 0.01
163 16 0.04
164 243 0.57
165 99 0.23
166 61 0.14
167 2 0.00
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (163 bp):
AAAATTCATCAAATATTATTATTTATTTCATATTAATTCAATTTTTAAAAATTCATTCATTTCCA
TGAATTTTGAATTTTTCTTTAAAATTCTCCTTTTTCGAAATACGATGTTTTCTACTCTGTAATTT
TTTTGAGGGTATTTTTCTTGGTTTTTAATTTTT
Found at i:123610 original size:328 final size:330
Alignment explanation
Indices: 123054--123661 Score: 725
Period size: 328 Copynumber: 1.8 Consensus size: 330
123044 TTTCATTAGT
* * * * * * *
123054 TTTTGAATTTTTCCTTGAAATTTTTCTTTTTTTGAAATATGATTTTTTCTACTCCATAAATTTTT
1 TTTTGAATTTTTCCTTGAAAATTCTCCTTTTTCGAAATACGATGTTATCTACTCCATAAATTTTT
* * * *
123119 TCGAGGGTATTTTTCTTGATTTTTAATTTTTAAAATTTATCAAATATTATTATTTATTTCATATT
66 TCGAGGGGATTTTTCTTGATTTTTAATTTTCAAAATTCATCAAATATTATCATTTATTTCATATT
* * * * * **
123184 AATTCAGTTTTTAAAAATTCATTCATTTCTATGAATTTTGAATTTTTTTGAAGTTCCCATTTTTT
131 AAATCAATTTTGAAAAATTAATTCATTTCTATGAATTTTAAATTTTTTTGAAAATCCCATTTTTT
* ** ** * * * * **
123249 TCGAAGTACGGAGTTTTCTACTCTGTGAATTTTTT-TGGCGGTATTTTTCTTGGTTTTTAATTTT
196 TCGAAGAACCAAGTTTTCTACTCCATGAATTTTTTCGGGAGGGATTTTTCTCGGTTTAAAATTTT
123313 TAAAATTCATCA-AATATTATTATTTTATTCATATTAATTTATTTTTTAAAAATTCATTCATTTC
261 TAAAATTCAT-ATAATATTATTATTTTATTCATATTAATTTATTTTTTAAAAATTCATTCATTTC
123377 CATGAA
325 CATGAA
* * * *
123383 TTTTGAATTTTT-CTTTAAAATTCTCCTTTTTCGAAATACGATGTTATCTACTTCGTAATTTTTT
1 TTTTGAATTTTTCCTTGAAAATTCTCCTTTTTCGAAATACGATGTTATCTACTCCATAA-ATTTT
* * *
123447 TTTGAGGGGA-TTTTCTTGGTTTTTAATTTTCAAAATTCATTAAATATTATCATTTGA-TTCATA
65 TTCGAGGGGATTTTTCTTGATTTTTAATTTTCAAAATTCATCAAATATTATCATTT-ATTTCATA
123510 TTAAATCAATTTTGAAAAATTAATTCATTT-TCAT-AAGTTTTAAATTTTTTCTTTGAAAATCCC
129 TTAAATCAATTTTGAAAAATTAATTCATTTCT-ATGAA-TTTTAAA--TTTT-TTTGAAAATCCC
*
123573 -TTTTTTT-G-AGAAACCAAGTTTTCTTCTCCAT-AATTTTTTCGGGAGGGATTTTTCTCGGTTT
189 ATTTTTTTCGAAG-AACCAAGTTTTCTACTCCATGAATTTTTTCGGGAGGGATTTTTCTCGGTTT
123634 AAAATTTTTAAAATTCATATAATATTAT
253 AAAATTTTTAAAATTCATATAATATTAT
123662 CAGTGAACTC
Statistics
Matches: 232, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
327 3 0.01
328 127 0.55
329 81 0.35
330 11 0.05
331 10 0.04
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (330 bp):
TTTTGAATTTTTCCTTGAAAATTCTCCTTTTTCGAAATACGATGTTATCTACTCCATAAATTTTT
TCGAGGGGATTTTTCTTGATTTTTAATTTTCAAAATTCATCAAATATTATCATTTATTTCATATT
AAATCAATTTTGAAAAATTAATTCATTTCTATGAATTTTAAATTTTTTTGAAAATCCCATTTTTT
TCGAAGAACCAAGTTTTCTACTCCATGAATTTTTTCGGGAGGGATTTTTCTCGGTTTAAAATTTT
TAAAATTCATATAATATTATTATTTTATTCATATTAATTTATTTTTTAAAAATTCATTCATTTCC
ATGAA
Found at i:125820 original size:49 final size:50
Alignment explanation
Indices: 125723--125833 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 50
125713 AATTAACTAG
* *
125723 ATGTATTGATACATTGAAAAAAATATCGATACATTTGGGTAAAAAAACAGA
1 ATGTATCGATACATTGAAAAAAATATCGATACATCTGGGT-AAAAAACAGA
* *
125774 ATGTATCGGTACATT-AAAAAATGTATCGATACATCTGGGT-AAAAACAGA
1 ATGTATCGATACATTGAAAAAA-ATATCGATACATCTGGGTAAAAAACAGA
125823 ATGTATCGATA
1 ATGTATCGATA
125834 AATGTACTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
49 19 0.35
50 6 0.11
51 29 0.54
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAAAATATCGATACATCTGGGTAAAAAACAGA
Found at i:126333 original size:11 final size:12
Alignment explanation
Indices: 126309--126340 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
126299 GTCGCACCCT
126309 TTCTTTTTTCTC
1 TTCTTTTTTCTC
126321 TTCTTTTTT-TC
1 TTCTTTTTTCTC
126332 TT-TTTTTTC
1 TTCTTTTTTC
126341 AAATAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.32
11 4 0.21
12 9 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTCTTTTTTCTC
Found at i:127031 original size:158 final size:156
Alignment explanation
Indices: 126540--127041 Score: 541
Period size: 158 Copynumber: 3.1 Consensus size: 156
126530 GTGGTAAAAT
* * *
126540 TAAATTTTAATTAGTTTTTCCAATCTTTTGTACTCCTATGGGCATCCGTAGGGGTATAAAAG-TT
1 TAAATTTTAA-T--TTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATT
* * * * *
126604 TCAAAAACA-TTTCATATCCTTTCGGGCTTCCATTTGGGTACGAAATGGTATTTTCGAAATAAAT
63 TCAAAAACATTTTCGTATCCTTTAGGGCTTCCATTAGGGTACAAAATAGTATTTTCGAAATAAAT
*
126668 AAAAATTAAATTAAATTAAATTAATACTTTCATAATTGAAA
128 ----A--AAATTAAATTGAATTAATA-TTTC--AA--G-AA
* * *
126709 TAAATTTTAATCATCCTTTT-TAATCTTTTATATTCCTATGTGTATCCGTAAGGGTATAAAAGAT
1 TAAATTTTAAT--T--TTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGAT
* **
126773 TTCAAAAACATTTTCGAATCCTTTAGGGCTTCCATTAGGGTA-TGAATAGTATTTTCGAAAATAA
62 TTCAAAAACATTTTCGTATCCTTTAGGGCTTCCATTAGGGTACAAAATAGTATTTTCG-AAATAA
126837 ATAAAATTAAATTGAATTAATACTTTC--GAA
126 ATAAAATTAAATTGAATTAATA-TTTCAAGAA
126867 TTAAATTTTAATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAAGATTT
1 -TAAATTTTAATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTAT-AAAAGATTT
* * * *
126932 CAAAAACATTTTCGTATCTTTTGGGGCTTCTATTAGGATACAAAATAGTATTTTCGAGAATAAAT
64 CAAAAACATTTTCGTATCCTTTAGGGCTTCCATTAGGGTACAAAATAGTATTTTCGA-AATAAAT
*
126997 AAAATTAAATCGAATTAATATTCTCAAGAA
128 AAAATTAAATTGAATTAATATT-TCAAGAA
*
127027 -AAATTTTAATCTTTT
1 TAAATTTTAATTTTTT
127042 GCATTCCTAT
Statistics
Matches: 292, Mismatches: 28, Indels: 37
0.82 0.08 0.10
Matches are distributed among these distances:
155 4 0.01
156 34 0.12
157 48 0.16
158 57 0.20
159 12 0.04
160 3 0.01
165 23 0.08
167 1 0.00
168 2 0.01
169 46 0.16
170 27 0.09
171 35 0.12
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (156 bp):
TAAATTTTAATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCA
AAAACATTTTCGTATCCTTTAGGGCTTCCATTAGGGTACAAAATAGTATTTTCGAAATAAATAAA
ATTAAATTGAATTAATATTTCAAGAA
Found at i:131453 original size:21 final size:21
Alignment explanation
Indices: 131412--131455 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
131402 CTCCCCTTTA
* *
131412 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
131433 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
131454 TC
1 TC
131456 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:133277 original size:13 final size:13
Alignment explanation
Indices: 133259--133297 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
133249 ATAATCACCC
*
133259 TGTATCGATACAG
1 TGTATCGATACAA
133272 TGTATCGATACAA
1 TGTATCGATACAA
133285 TGTATCGATACAA
1 TGTATCGATACAA
133298 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:135395 original size:15 final size:15
Alignment explanation
Indices: 135375--135405 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
135365 ATTTCGTTTG
*
135375 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
135390 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
135405 G
1 G
135406 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:137256 original size:21 final size:21
Alignment explanation
Indices: 137209--137253 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
137199 AAGTTTTCAT
137209 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
137229 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
137251 TTT
1 TTT
137254 CATCTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:139487 original size:13 final size:13
Alignment explanation
Indices: 139469--139494 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139459 CAATTTTTTG
139469 TGTATCGATACAT
1 TGTATCGATACAT
139482 TGTATCGATACAT
1 TGTATCGATACAT
139495 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:142178 original size:14 final size:16
Alignment explanation
Indices: 142159--142194 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
142149 CTTAGTTAGA
142159 AAAAAAAAC-AAAA-T
1 AAAAAAAACTAAAACT
142173 AAAAAAAACTAAAACT
1 AAAAAAAACTAAAACT
142189 AAAAAA
1 AAAAAA
142195 TTGAGTGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAAAAACTAAAACT
Found at i:144072 original size:89 final size:86
Alignment explanation
Indices: 143857--144073 Score: 263
Period size: 89 Copynumber: 2.4 Consensus size: 86
143847 TCTTACCCCA
* *
143857 TTTATCCAACAACTAGATGATATTGAGGCACCACAAAACTTGATATCTTTGGGGCAAGGTGCAAC
1 TTTATCCAACAACTAGATGATATT-AGGCATCACAAAGCTTGATATCTTTGGGGCAAGGTGCAAC
143922 CCACACATTCCCAATCACATCT
65 CCACACATTCCCAATCACATCT
* * *
143944 TCTTCATCCAACTACTAGATGATATTGGTGCATCACAAAGCTTGATATCTTTGGGGTAAGGTGCA
1 T-TT-ATCCAACAACTAGATGATATTAG-GCATCACAAAGCTTGATATCTTTGGGGCAAGGTGCA
* * * *
144009 GCTCACACATTCCTAATCATATCCCT
63 ACCCACACATTCCCAATCACAT--CT
* * *
144035 TTTATCTAACCACCAGATGATATTAAGGCATCACAAAGC
1 TTTATCCAACAACTAGATGATATT-AGGCATCACAAAGC
144074 CTTATTTTTA
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
87 1 0.01
88 3 0.03
89 101 0.91
90 3 0.03
91 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (86 bp):
TTTATCCAACAACTAGATGATATTAGGCATCACAAAGCTTGATATCTTTGGGGCAAGGTGCAACC
CACACATTCCCAATCACATCT
Found at i:144558 original size:145 final size:141
Alignment explanation
Indices: 144287--144774 Score: 522
Period size: 145 Copynumber: 3.4 Consensus size: 141
144277 CCAAACAAAC
* * * * *
144287 TTTTTCATCTTCGTTTGACTATATTGGCGTTAGGACCTGGTCAAACTCTCTTTTTCTCTATTTGA
1 TTTTTCACCTT-GTTTGACTGTATTGGCATTA-GACCTAGTCAAACTCTCTTTTTCTCCATTTGA
* * * * * *
144352 CTATATTGGCATTA-AACCTGG-CTGAACTCTCTTTTACACTCTCATTTAACTATATTAGCATTA
64 CTATATTGGCGTTAGGACCTGGTC-AAACTCTC-TTT-CACCCTCATTTGACTATATTGGCATTA
**
144415 GGACCTAATCAAACTCT
126 -GACCTGGTCAAACTCT
*
144432 TTTTTCACCTCTGTTTGACTGTATTGGCAGTTGAGACCTGGTCAAACTCT-TTTTTCCTCCATTT
1 TTTTTCACCT-TGTTTGACTGTATTGGCA-TT-AGACCTAGTCAAACTCTCTTTTT-CTCCATTT
* *
144496 GACAATATTGGCGTTAGGACCTGGTCAAACTCTCTTTCACCCTCATTTGACTGTATTGGCATTAG
62 GACTATATTGGCGTTAGGACCTGGTCAAACTCTCTTTCACCCTCATTTGACTATATTGGCATTAG
144561 ACCTGGTCAAACTCT
127 ACCTGGTCAAACTCT
* * ** *
144576 CTCTTTCACTTTTGTTTGACTGTATTGGCATTAGACCTAGTTGAACTCTCTTTTTCTCCTTGTTT
1 -TTTTTCAC-CTTGTTTGACTGTATTGGCATTAGACCTAGTCAAACTCTCTTTTTCTCC--ATTT
* * * *
144641 GACTATATTGGTGTTAGGACCTGGTCAAACTC-CTTGCACCATTATTTGACTATATTGGCATTAA
62 GACTATATTGGCGTTAGGACCTGGTCAAACTCTCTTTCACCCTCATTTGACTATATTGGCATT-A
*
144705 GACTTGGTCAAA--CT
126 GACCTGGTCAAACTCT
* *
144719 TTTCTCACCATTGTTTGACTGTATTGGCATTAGTCCTAGTCAAACTC-CTTTCTTCT
1 TTTTTCACC-TTGTTTGACTGTATTGGCATTAGACCTAGTCAAACTCTCTTT-TTCT
144775 TTGCTCGACA
Statistics
Matches: 296, Mismatches: 33, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
141 4 0.01
142 44 0.15
143 20 0.07
144 47 0.16
145 122 0.41
146 44 0.15
147 14 0.05
148 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (141 bp):
TTTTTCACCTTGTTTGACTGTATTGGCATTAGACCTAGTCAAACTCTCTTTTTCTCCATTTGACT
ATATTGGCGTTAGGACCTGGTCAAACTCTCTTTCACCCTCATTTGACTATATTGGCATTAGACCT
GGTCAAACTCT
Found at i:144594 original size:49 final size:48
Alignment explanation
Indices: 144300--144769 Score: 372
Period size: 47 Copynumber: 9.8 Consensus size: 48
144290 TTCATCTTCG
* * *
144300 TTTGACTATATTGGCGTTAGGACCTGGTCAAACTCTCTTTT--TCTCTA
1 TTTGACTATATTGGCATTA-GACCTGGTCAAACTCTCTTTTCACCTTTA
* * *
144347 TTTGACTATATTGGCATTAAACCTGG-CTGAACTCTCTTTT-ACACTCTCA
1 TTTGACTATATTGGCATTAGACCTGGTC-AAACTCTCTTTTCAC-CT-TTA
* * ** * * *
144396 TTTAACTATATTAGCATTAGGACCTAATCAAACTCTTTTTTCACCTCTG
1 TTTGACTATATTGGCATTA-GACCTGGTCAAACTCTCTTTTCACCTTTA
* * **
144445 TTTGACTGTATTGGCAGTTGAGACCTGGTCAAACTCT-TTTT-TCCTCCA
1 TTTGACTATATTGGCA-TT-AGACCTGGTCAAACTCTCTTTTCACCTTTA
* * * *
144493 TTTGACAATATTGGCGTTAGGACCTGGTCAAACTCTC-TTTCACCCTCA
1 TTTGACTATATTGGCATTA-GACCTGGTCAAACTCTCTTTTCACCTTTA
* * *
144541 TTTGACTGTATTGGCATTAGACCTGGTCAAACTCTCTCTTTCACTTTTG
1 TTTGACTATATTGGCATTAGACCTGGTCAAACTCTCT-TTTCACCTTTA
* * ** * *
144590 TTTGACTGTATTGGCATTAGACCTAGTTGAACTCTCTTTTTCTCC-TTG
1 TTTGACTATATTGGCATTAGACCTGGTCAAACTCTC-TTTTCACCTTTA
** * *
144638 TTTGACTATATTGGTGTTAGGACCTGGTCAAACTC-C-TTGCACCATTA
1 TTTGACTATATTGGCATTA-GACCTGGTCAAACTCTCTTTTCACCTTTA
* * * *
144685 TTTGACTATATTGGCATTAAGACTTGGTCAAACT-T-TTCTCACCATTG
1 TTTGACTATATTGGCATT-AGACCTGGTCAAACTCTCTTTTCACCTTTA
* * *
144732 TTTGACTGTATTGGCATTAGTCCTAGTCAAACTC-CTTT
1 TTTGACTATATTGGCATTAGACCTGGTCAAACTCTCTTT
144770 CTTCTTTGCT
Statistics
Matches: 339, Mismatches: 62, Indels: 44
0.76 0.14 0.10
Matches are distributed among these distances:
45 1 0.00
46 35 0.10
47 114 0.34
48 60 0.18
49 92 0.27
50 33 0.10
51 4 0.01
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (48 bp):
TTTGACTATATTGGCATTAGACCTGGTCAAACTCTCTTTTCACCTTTA
Found at i:145230 original size:84 final size:85
Alignment explanation
Indices: 144848--145279 Score: 312
Period size: 84 Copynumber: 5.1 Consensus size: 85
144838 TTCATCTTTT
* * * *
144848 TTTACCTGTTGGCTTAGTCCCCAGTAAACCCATTAAC-CCTTATGGTGACCTGTTAGCTCAGTGT
1 TTTACCTGTTGACTTAGTCCCCGGTAAACCCATT-ACTCCTTATGGTGACCTGTCAGCTCAGTCT
* * *
144912 CCAGTCAACCTTCATCCATTA
65 TCGGTCAACCTTCATCCATTG
* * * * * * * * *
144933 TTTACCTGTTG-GTTGAGTCCTCGATAAACCCTTTCTCTCCTTA--GTGACTTGTTAGCTTAGTT
1 TTTACCTGTTGACTT-AGTCCCCGGTAAACCCATT-ACTCCTTATGGTGACCTGTCAGCTCAGTC
** * *
144995 TTCAATCAACCTTCATTCGTTG
64 TTCGGTCAACCTTCATCCATTG
* * * * * * *
145017 TTTACCTATCGACTCAGTCCCCGGTAAACCCCTT-CTCTCTT-TGGTGACTTGTCAACTCAATC-
1 TTTACCTGTTGACTTAGTCCCCGGTAAACCCATTACTC-CTTATGGTGACCTGTCAGCTCAGTCT
* * *
145079 TCTGATTAACCTTCATCTATTG
65 TC-GGTCAACCTTCATCCATTG
*** ** * * *
145101 TTTACCT-AACAGCTTAGTCCCCAATAAACCC-TTTCTCTCCT-TGGTGACCTCTCAGCTCAGTC
1 TTTACCTGTTGA-CTTAGTCCCCGGTAAACCCATTACTC-CTTATGGTGACCTGTCAGCTCAGTC
*
145163 TTCGGTCAACTTTCATCCATTG
64 TTCGGTCAACCTTCATCCATTG
* *
145185 TTTACCTGTTGACTTAGTCCCTGGTAAACCCATTAC-CCTTATGGTGACCTATCAGCTCAGTC-T
1 TTTACCTGTTGACTTAGTCCCCGGTAAACCCATTACTCCTTATGGTGACCTGTCAGCTCAGTCTT
* *
145248 CTGGTCAACCTCCATTCATTG
66 C-GGTCAACCTTCATCCATTG
*
145269 TTTACATGTTG
1 TTTACCTGTTG
145280 GCTCAATCCG
Statistics
Matches: 273, Mismatches: 60, Indels: 29
0.75 0.17 0.08
Matches are distributed among these distances:
82 3 0.01
83 12 0.04
84 219 0.80
85 34 0.12
86 5 0.02
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (85 bp):
TTTACCTGTTGACTTAGTCCCCGGTAAACCCATTACTCCTTATGGTGACCTGTCAGCTCAGTCTT
CGGTCAACCTTCATCCATTG
Found at i:145297 original size:84 final size:84
Alignment explanation
Indices: 145142--145299 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 84
145132 TTTCTCTCCT
* * * * * *
145142 TGGTGACCTCTCAGCTCAGTCTTCGGTCAACTTTCATCCATTGTTTACCTGTTGACTTAGTCCCT
1 TGGTGACCTATCAGCTCAGTCTTCGGTCAACCTCCATCCATTGTTTACATGTTGACTCAATCCCT
*
145207 GGTAAACCCATTACCCTTA
66 GATAAACCCATTACCCTTA
* *
145226 TGGTGACCTATCAGCTCAGTC-TCTGGTCAACCTCCATTCATTGTTTACATGTTGGCTCAATCCG
1 TGGTGACCTATCAGCTCAGTCTTC-GGTCAACCTCCATCCATTGTTTACATGTTGACTCAATCC-
145290 C-GATAAACCC
64 CTGATAAACCC
145300 TTTCTTTCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 2 0.03
84 60 0.95
85 1 0.02
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (84 bp):
TGGTGACCTATCAGCTCAGTCTTCGGTCAACCTCCATCCATTGTTTACATGTTGACTCAATCCCT
GATAAACCCATTACCCTTA
Found at i:145298 original size:168 final size:168
Alignment explanation
Indices: 144848--145358 Score: 499
Period size: 168 Copynumber: 3.0 Consensus size: 168
144838 TTCATCTTTT
* * * *
144848 TTTACCTGTTGGCTTAGTCCCCAGTAAACCCATTAACCCTTATGGTGACCTGTTAGCTCAGTGTC
1 TTTACCTGTTGACTTAGTCCCCGGTAAACCCATT-ACCCTTATGGTGACCTGTCAGCTCAGTCTC
** * * * * *
144913 CAGTCAACCTTCATCCATTATTTACCTGTTGGTTGAGTCCTCGATAAACCCTTTCTCTCCTTAGT
65 TGGTCAACCTTCATTCATTGTTTACCTGTTGGCTCAGTCCCCGATAAACCCTTTCTCTCCTTAGT
* * * ** * *
144978 GACTTGTTAGCTTAGTTTTCAATCAACCTTCATTCGTTG
130 GACATGTCAGCTTAGTCTTCGGTCAACCTTCATCCATTG
* * * * * * *
145017 TTTACCTATCGACTCAGTCCCCGGTAAACCCCTT-CTCTCTT-TGGTGACTTGTCAACTCAATCT
1 TTTACCTGTTGACTTAGTCCCCGGTAAACCCATTAC-C-CTTATGGTGACCTGTCAGCTCAGTCT
* * **** * * *
145080 CTGATTAACCTTCA-TCTATTGTTTACCTAACAGCTTAGTCCCCAATAAACCCTTTCTCTCCTTG
64 CTGGTCAACCTTCATTC-ATTGTTTACCTGTTGGCTCAGTCCCCGATAAACCCTTTCTCTCCTTA
* * * *
145144 GTGACCTCTCAGCTCAGTCTTCGGTCAACTTTCATCCATTG
128 GTGACATGTCAGCTTAGTCTTCGGTCAACCTTCATCCATTG
* *
145185 TTTACCTGTTGACTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTCTCT
1 TTTACCTGTTGACTTAGTCCCCGGTAAACCCATTACCCTTATGGTGACCTGTCAGCTCAGTCTCT
* * * * *
145250 GGTCAACCTCCATTCATTGTTTACATGTTGGCTCAATCCGCGATAAACCCTTTCT-TTCTTAGTG
66 GGTCAACCTTCATTCATTGTTTACCTGTTGGCTCAGTCCCCGATAAACCCTTTCTCTCCTTAGTG
* * * * *
145314 ACATGTCGGCTTAGTCCTCGGTCAACCCGTCATCCCTTA
131 ACATGTCAGCTTAGTCTTCGGTCAA-CCTTCATCCATTG
145353 TTTACC
1 TTTACC
145359 AATCGGCTCA
Statistics
Matches: 267, Mismatches: 68, Indels: 15
0.76 0.19 0.04
Matches are distributed among these distances:
167 32 0.12
168 201 0.75
169 34 0.13
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (168 bp):
TTTACCTGTTGACTTAGTCCCCGGTAAACCCATTACCCTTATGGTGACCTGTCAGCTCAGTCTCT
GGTCAACCTTCATTCATTGTTTACCTGTTGGCTCAGTCCCCGATAAACCCTTTCTCTCCTTAGTG
ACATGTCAGCTTAGTCTTCGGTCAACCTTCATCCATTG
Found at i:146681 original size:80 final size:79
Alignment explanation
Indices: 146548--146711 Score: 258
Period size: 80 Copynumber: 2.1 Consensus size: 79
146538 CAGTTTTCAA
* * *
146548 AAATTCTTTAATTTTCATTAGTTTTTGAATTTTTTTCTTAAAATTTTTCTTTTTTCGAAATACGA
1 AAATTCTTTAATTTTCATTAGTTTTTAAATTTTTTTCTTAAAATTCTCCTTTTTT-GAAATACGA
*
146613 TTTTTTTTACTCCGT
65 TTTTTTCTACTCCGT
*
146628 AAATTCTTTAATTTTCATTAGTTTTTAAATTTTTTT-TTAAAATTCTCCTTTTTTTGAAATACTA
1 AAATTCTTTAATTTTCATTAGTTTTTAAATTTTTTTCTTAAAATTCTCC-TTTTTTGAAATACGA
146692 TTTTTTCTACTCCGT
65 TTTTTTCTACTCCGT
146707 AAATT
1 AAATT
146712 TTTTGGGAGG
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
79 37 0.47
80 41 0.53
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.58
Consensus pattern (79 bp):
AAATTCTTTAATTTTCATTAGTTTTTAAATTTTTTTCTTAAAATTCTCCTTTTTTGAAATACGAT
TTTTTCTACTCCGT
Found at i:146709 original size:79 final size:80
Alignment explanation
Indices: 146548--146711 Score: 267
Period size: 79 Copynumber: 2.1 Consensus size: 80
146538 CAGTTTTCAA
* * *
146548 AAATTCTTTAATTTTCATTAGTTTTTGAATTTTTTTCTTAAAATTTTTCTTTTTTCGAAATACGA
1 AAATTCTTTAATTTTCATTAGTTTTTAAATTTTTTTCTTAAAATTCTCCTTTTTTCGAAATACGA
*
146613 TTTTTTTTACTCCGT
66 TTTTTTCTACTCCGT
* *
146628 AAATTCTTTAATTTTCATTAGTTTTTAAATTTTTTT-TTAAAATTCTCCTTTTTTTGAAATACTA
1 AAATTCTTTAATTTTCATTAGTTTTTAAATTTTTTTCTTAAAATTCTCCTTTTTTCGAAATACGA
146692 TTTTTTCTACTCCGT
66 TTTTTTCTACTCCGT
146707 AAATT
1 AAATT
146712 TTTTGGGAGG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 43 0.55
80 35 0.45
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.58
Consensus pattern (80 bp):
AAATTCTTTAATTTTCATTAGTTTTTAAATTTTTTTCTTAAAATTCTCCTTTTTTCGAAATACGA
TTTTTTCTACTCCGT
Found at i:146948 original size:163 final size:165
Alignment explanation
Indices: 146708--147224 Score: 510
Period size: 163 Copynumber: 3.1 Consensus size: 165
146698 CTACTCCGTA
* ** * * *
146708 AATTTTTTGGGAGGA-ATTTTTCTTGATTTTTAATTTTTAACATTTATCAAATATTATTATTTAT
1 AATTTTTT-CGAGGAGATTTTGATTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAT
* * * * * * *
146772 CTCGTAGTAATTCAGTTTTTAAAATTTTATTCATTTTCC-TGAATTTTGAGTTTTTTCTTTGAAG
65 TTCATATTAATTCAGTTTTTAAAAATTCATTCA-TTTCCATGAATTTTGA-ATTTTTCTTTGAAA
** * * *
146836 TT-TCATTTTTTTGAAA-TACGA-AGTATTCTAT-TCCGTG
128 TTCTCA-AATTTTCAAATTACGAGA-TATTCT-TCTCCATC
* *
146873 AA-TTTTTCGAGG-GATTTTGATTGGTTTTTACTTTTTAAAATTCATCAAATATTATCATTTATT
1 AATTTTTTCGAGGAGATTTTGATTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATT
* *
146936 TCATATTAATTCAATTTTTAAAAATTCATTCATTTCCTTGAATTTTGAAATTTTTCTTTGAAATT
66 TCATATTAATTCAGTTTTTAAAAATTCATTCATTTCCATGAATTTTG-AATTTTTCTTTGAAATT
* * * *
147001 CCTCAAATTTTCAAATTATGGGATTTTCTTCTCTATC
130 -CTCAAATTTTCAAATTACGAGATATTCTTCTCCATC
* * **
147038 AATTTTTTTGGGGAAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAT
1 AATTTTTTCGAGG-AGATTTTGATTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAT
* *
147103 TTCATATTAATTTAGTTTTCAAAAATTCATTCATTTCCATGAATTTTGAATTTTTCTTTGAAATT
65 TTCATATTAATTCAGTTTTTAAAAATTCATTCATTTCCATGAATTTTGAATTTTTCTTTGAAATT
* ** * * * * *
147168 CCCCTTATTTTCAAATTATGGGGTTTTCTTCTCCATA
130 -CTCAAATTTTCAAATTACGAGATATTCTTCTCCATC
**
147205 AATTTTTTCGAAAAGATTTT
1 AATTTTTTCGAGGAGATTTT
147225 TCTTAGATTT
Statistics
Matches: 296, Mismatches: 45, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
162 5 0.02
163 96 0.32
164 14 0.05
165 18 0.06
166 16 0.05
167 57 0.19
168 90 0.30
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (165 bp):
AATTTTTTCGAGGAGATTTTGATTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATT
TCATATTAATTCAGTTTTTAAAAATTCATTCATTTCCATGAATTTTGAATTTTTCTTTGAAATTC
TCAAATTTTCAAATTACGAGATATTCTTCTCCATC
Found at i:147108 original size:168 final size:166
Alignment explanation
Indices: 146694--147735 Score: 633
Period size: 165 Copynumber: 6.4 Consensus size: 166
146684 AAATACTATT
* * * * * *
146694 TTTTCTACTCCGTAAATTTTTTGGGAGGA-ATTTTTCTTGATTTTTAATTTTTAACATTTATCAA
1 TTTTCTTCTCCATAAATTTTTTTGG-GGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
* * * * * **
146758 ATATTATTATTTATCTCGTAGTAATTCAGTTTTTAAAATTTTATTCATTTTCCTGAATTTTGAGT
65 ATATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTCATTCA-TTTCCTGAATTTTGAAA
* * * * *
146823 TTTTTCTTTGAAGTT--TCATTTTTTTGAAA-TA-CGAA
129 TTTTTCTTTGAAATTCCTCA-TATTTTCAAATTATGGGA
* * * * * ** *
146858 GTATTCTAT-TCCGTGAA-TTTTTCGAGG-GATTTTGATTGGTTTTTACTTTTTAAAATTCATCA
1 -TTTTCT-TCTCCATAAATTTTTTTGGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
* *
146920 AATATTATCATTTATTTCATATTAATTCAATTTTTAAAAATTCATTCATTTCCTTGAATTTTGAA
64 AATATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTCATTCATTTCC-TGAATTTTGAA
*
146985 ATTTTTCTTTGAAATTCCTCAAATTTTCAAATTATGGGA
128 ATTTTTCTTTGAAATTCCTCATATTTTCAAATTATGGGA
* *
147024 TTTTCTTCTCTATCAATTTTTTTGGGGAAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
1 TTTTCTTCTCCATAAATTTTTTTGGGG-AGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
* *
147089 ATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTCCATGAATTTTG-AA
65 ATATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTCATTCATTTCC-TGAATTTTGAAA
* * *
147153 TTTTTCTTTGAAATTCCCCTTATTTTCAAATTATGGGG
129 TTTTTCTTTGAAATTCCTCATATTTTCAAATTATGGGA
* *** * * * * ***
147191 TTTTCTTCTCCATAAATTTTTTCGAAAAGATTTTTCTTAGATTTT-ATTATT---ATTTATTTTA
1 TTTTCTTCTCCATAAATTTTTTTGGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAA
* * * * ** * *
147252 CATTA--ATTTAGTTTTCAAAAATTCATTCA-TTTTCATGAATT--TTGAATTT--T--TTTCCT
66 TATTATTATTTA--TTTC--ATATTAATTCAGTTTTTAAAAATTCATT-CATTTCCTGAATT--T
* * *
147308 TGAAATTCCTT-TTT----TT--T-A-A--AT-A---TA-GTG-
124 TGAAATT-TTTCTTTGAAATTCCTCATATTTTCAAATTATGGGA
*
147335 TTCTT-TAT-TCCATAAATTTTTTTGGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAA
1 TT-TTCT-TCTCCATAAATTTTTTTGGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
* * *
147398 AATATTATTATTTATTTCATATTAATTTAGTTTTAAAAAATTCATTCATTTCCATGAATTTTTAA
64 AATATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTCATTCATTTCC-TGAATTTTGAA
* * * *
147463 TTTCTTTC-TTGAAATTTCC-CTTTTTTTTGAAA-TAT--GA
128 ATT-TTTCTTTGAAA-TTCCTC-ATATTTTCAAATTATGGGA
* ** * * * *
147500 TGTTCTAGTTCATAAATTTTTTCGAGGCA-ATTTTTCTTGGTTTTTAATTTTTAAAATTCATTAA
1 TTTTCTTCTCCATAAATTTTTTTG-GGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
* * * * * * * *
147564 ATATCATCATTTAATTCA-ATTAAATT-AGTTTTAAAAAATTAATTTATTTTCATGAGTTTTGAA
65 ATATTATTATTTATTTCATATT-AATTCAGTTTTTAAAAATTCATTCA-TTTCCTGAATTTTGAA
* * * * * * *
147627 TTTTTTCTTTGAAAATCCTCTTTTTTTGAAA-AACTGAG-
128 ATTTTTCTTTGAAATTCCTCATATTTTCAAATTA-TGGGA
* ** *
147665 TTTTCTTCTCCGTAAA-TTTTTTGGTGCG-GATTTTTCTTGGTTTAAAATTTTTAAAATTCATCT
1 TTTTCTTCTCCATAAATTTTTTTGG-G-GAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
147728 AATATTAT
64 AATATTAT
147736 CATTGAACTC
Statistics
Matches: 686, Mismatches: 124, Indels: 134
0.73 0.13 0.14
Matches are distributed among these distances:
144 34 0.05
145 10 0.01
146 10 0.01
147 9 0.01
148 18 0.03
149 3 0.00
150 6 0.01
151 12 0.02
152 1 0.00
153 2 0.00
156 4 0.01
157 2 0.00
159 4 0.01
160 12 0.02
161 4 0.01
162 24 0.03
163 126 0.18
164 73 0.11
165 155 0.23
166 30 0.04
167 57 0.08
168 90 0.13
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (166 bp):
TTTTCTTCTCCATAAATTTTTTTGGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAA
TATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTCATTCATTTCCTGAATTTTGAAATT
TTTCTTTGAAATTCCTCATATTTTCAAATTATGGGA
Found at i:147357 original size:145 final size:144
Alignment explanation
Indices: 147090--147356 Score: 389
Period size: 145 Copynumber: 1.8 Consensus size: 144
147080 ATTCATCAAA
*
147090 TATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTCCATGAATTTTGAATT
1 TATTATTATTTATTTCACATTAATTTAGTTTTCAAAAATTCATTCATTTCCATGAATTTTGAATT
* *
147155 TTTCTTTGAAATTCCCCTTATTTTCAAATTATGGGGTTTTCTTCTCCATAAATTTTTTCGAAAAG
66 TTTCCTTGAAATT-CCCTTATTTTCAAATTATAGGGTTTTCTTCTCCATAAATTTTTTCGAAAAG
147220 ATTTTTCTTAGATTT
130 ATTTTTCTTAGATTT
* *
147235 TATTATTATTTATTTTACATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAATTTTGAATT
1 TATTATTATTTATTTCACATTAATTTAGTTTTCAAAAATTCATTCATTTCCATGAATTTTGAA--
* * *
147300 TTTTTCCTTGAAATT-CCTTTTTTTTAAA-TATAGTGTTCTT-TAT-TCCATAAATTTTTT
64 TTTTTCCTTGAAATTCCCTTATTTTCAAATTATAGGGTT-TTCT-TCTCCATAAATTTTTT
147357 TGGGGAGATT
Statistics
Matches: 110, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
144 22 0.20
145 74 0.67
147 14 0.13
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.55
Consensus pattern (144 bp):
TATTATTATTTATTTCACATTAATTTAGTTTTCAAAAATTCATTCATTTCCATGAATTTTGAATT
TTTCCTTGAAATTCCCTTATTTTCAAATTATAGGGTTTTCTTCTCCATAAATTTTTTCGAAAAGA
TTTTTCTTAGATTT
Found at i:147411 original size:310 final size:313
Alignment explanation
Indices: 146922--147489 Score: 844
Period size: 310 Copynumber: 1.8 Consensus size: 313
146912 ATTCATCAAA
* * *
146922 TATTATCATTTATTTCATATTAATTCAATTTTTAAAAATTCATTCATTTCCTTGAATTTTGAAAT
1 TATTATCATTTATTTCACATTAATTCAATTTTCAAAAATTCATTCATTTCCATGAATTTTGAAAT
* * *
146987 TTTTCTTTGAAATTCCTCAAATTTTCAAATTATGGGATTTTCTTCTCTATCAATTTTTTTGGGGA
66 TTTTCCTTGAAATTCCT-AAATTTTCAAATTATGGGATTTTATTCTCTATAAATTTTTTTGGGGA
*
147052 AGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTTA
130 AGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATTTA
*
147117 GTTTTCAAAAATTCATTCATTTCCATGAATTTTGAA-TT-TTTCTTTGAAATTCCCCTTATTTTC
195 GTTTTAAAAAATTCATTCATTTCCATGAATTTTGAATTTCTTTC-TTGAAATTCCCCTTATTTTC
147180 AAATTATGGGGTTTTCTTCTCCATAAATTTTTTCGAAAAGATTTTTCTTAGATTT
259 AAATTATGGGGTTTTCTTCTCCATAAATTTTTTCGAAAAGATTTTTCTTAGATTT
* * * * * *
147235 TATTATTATTTATTTTACATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAATTTTGAATT
1 TATTATCATTTATTTCACATTAATTCAATTTTCAAAAATTCATTCATTTCCATGAATTTTGAA-A
** * * *
147300 TTTTTCCTTGAAATTCCT-TTTTTTTAAA-TATAGTGTTCTTTATTC-C-ATAAATTTTTTTGGG
65 TTTTTCCTTGAAATTCCTAAATTTTCAAATTAT-GGGAT-TTTATTCTCTATAAATTTTTTTGGG
147361 G-AGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATT
128 GAAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATT
* * *
147425 TAGTTTTAAAAAATTCATTCATTTCCATGAATTTTTAATTTCTTTCTTGAAATTTCCCTTTTTTT
193 TAGTTTTAAAAAATTCATTCATTTCCATGAATTTTGAATTTCTTTCTTGAAATTCCCCTTATTTT
147490 TGAAATATGA
Statistics
Matches: 228, Mismatches: 22, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
310 98 0.43
311 37 0.16
312 15 0.07
313 61 0.27
314 17 0.07
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (313 bp):
TATTATCATTTATTTCACATTAATTCAATTTTCAAAAATTCATTCATTTCCATGAATTTTGAAAT
TTTTCCTTGAAATTCCTAAATTTTCAAATTATGGGATTTTATTCTCTATAAATTTTTTTGGGGAA
GATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATTTAG
TTTTAAAAAATTCATTCATTTCCATGAATTTTGAATTTCTTTCTTGAAATTCCCCTTATTTTCAA
ATTATGGGGTTTTCTTCTCCATAAATTTTTTCGAAAAGATTTTTCTTAGATTT
Found at i:148749 original size:170 final size:171
Alignment explanation
Indices: 148416--148768 Score: 465
Period size: 170 Copynumber: 2.1 Consensus size: 171
148406 GTTAAGAACT
* * * *
148416 AAAATGCAAACATCTAAAGTTTAGGGACTTGTATGCAAAACCGATTTTTCTCTAGAAATGTTGTA
1 AAAATGCAAATATCTAAAGTATAGAGACTTGTATGCAAAACCGATTTTTCTCTAGAAATCTTGTA
* * * *
148481 CATGGCCAAACCGAAGATATTTCTTTGTTGTATTTTTGCTACTATTGTTAAGTTGATTTCATGCT
66 CATGGCCAAACCGAAGATATTTCTTGGCTGTAATTTTGCTACTATTGTTAAGTAGATTTCATGCT
* *
148546 TTAAATGATGTGTTCCCATGTTATTTTGATGTATAGGGACC
131 TTAAATGATGAGTGCCCATGTTATTTTGATGTATAGGGACC
** * *
148587 AAAATGCAAATATCTAAAGTATAGAGACTTGTATGCAAAATTGATTTTTCTTTAGAAATCTTGTG
1 AAAATGCAAATATCTAAAGTATAGAGACTTGTATGCAAAACCGATTTTTCTCTAGAAATCTTGTA
** * *** * * * *
148652 TTTGGCCGAATTTAAGATGTTTCTTGGCTG-AATTTTGTTGCTGTTGTTAAGTAGATTTCATGCT
66 CATGGCCAAACCGAAGATATTTCTTGGCTGTAATTTTGCTACTATTGTTAAGTAGATTTCATGCT
*
148716 TTAAATGATGAGTGCCCATGTTATTTTGATGTATATGGACC
131 TTAAATGATGAGTGCCCATGTTATTTTGATGTATAGGGACC
*
148757 AAGATGCAAATA
1 AAAATGCAAATA
148769 CTGAAAAGTT
Statistics
Matches: 156, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
170 78 0.50
171 78 0.50
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.39
Consensus pattern (171 bp):
AAAATGCAAATATCTAAAGTATAGAGACTTGTATGCAAAACCGATTTTTCTCTAGAAATCTTGTA
CATGGCCAAACCGAAGATATTTCTTGGCTGTAATTTTGCTACTATTGTTAAGTAGATTTCATGCT
TTAAATGATGAGTGCCCATGTTATTTTGATGTATAGGGACC
Found at i:149477 original size:159 final size:157
Alignment explanation
Indices: 148985--149487 Score: 557
Period size: 159 Copynumber: 3.1 Consensus size: 157
148975 CGGTAAATTT
* *
148985 AAATTTTAATTATTTTTTCAATCTTTTATATTCCTATGGGTATCCGTAGGGGTAGT-AAAGATTT
1 AAATTTTAATTATTTTTT-AATCTTTTATATTCCTATGGGCATCCGTAGAGGTA-TAAAAGATTT
** * * * *
149049 CAAAAA-CATTTCGTATCCTTTC-AGGTTTTCATTAGGGTACGAAATGGTATTTTCAAAATAAAT
64 CAAAAATGTTTTCGTATCCTTTCGA-GCTTCCATTAGGATACGAAATAGTATTTTCAAAATAAAT
149112 AAAAATTAAATTAAATTAAATTAATACTTTCATAATTGAAA
128 -AAAATTAAATTAAATT-AA-T-AT--TTTC--AA--G-AA
* * * *
149153 TAAATGTTAATCATCCTTTTTAATCTTTTATATTCCTATTGGCTTCCGTAGAGGTATAAAAGATT
1 -AAATTTTAATTAT--TTTTTAATCTTTTATATTCCTATGGGCATCCGTAGAGGTATAAAAGATT
* *
149218 TCAAAAATGTTTTCGTATCCTTTCGGGCTTCCATTAGGATACGAAATAGTATTTTTGAAAATAAA
63 TCAAAAATGTTTTCGTATCCTTTCGAGCTTCCATTAGGATACGAAATAGTA-TTTTCAAAATAAA
* * * * *
149283 TAATATTAAATTGAATTAACATTTTC-GGATT
127 TAAAATTAAATTAAATTAATATTTTCAAGA-A
149314 AAATTTTAATT-TTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGAGGTATAAAAAGATTT
1 AAATTTTAATTATTTTT-TAATCTTTTATATTCCTATGGGCATCCGTAGAGGTAT-AAAAGATTT
* *
149378 CAAAAATGTTTTCGTATCTTTTCGAGCTTCCATTAGGATACGAAATAGTATTTTCAAGAAGAAAT
64 CAAAAATGTTTTCGTATCCTTTCGAGCTTCCATTAGGATACGAAATAGTATTTTCAA-AATAAAT
* *
149443 AAAATTAAATCAAATTAATATTCTCAAGAA
128 AAAATTAAATTAAATTAATATTTTCAAGAA
*
149473 AAATTTTAATCATTT
1 AAATTTTAATTATTT
149488 GCATTCCTAT
Statistics
Matches: 287, Mismatches: 35, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
157 4 0.01
158 41 0.14
159 94 0.33
160 15 0.05
161 1 0.00
166 4 0.01
168 2 0.01
169 12 0.04
170 47 0.16
171 54 0.19
172 13 0.05
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (157 bp):
AAATTTTAATTATTTTTTAATCTTTTATATTCCTATGGGCATCCGTAGAGGTATAAAAGATTTCA
AAAATGTTTTCGTATCCTTTCGAGCTTCCATTAGGATACGAAATAGTATTTTCAAAATAAATAAA
ATTAAATTAAATTAATATTTTCAAGAA
Found at i:150974 original size:624 final size:622
Alignment explanation
Indices: 149751--150997 Score: 2009
Period size: 624 Copynumber: 2.0 Consensus size: 622
149741 AGTCTTGTTG
* * * *
149751 TAGAAACCTAGTCTTACGAAATTACCGGGTCTGCTTTTATGCTAAAGGTAAGGGTTAGGGTAGGT
1 TAGAAACCTAGTCCTACGAAATTACCGGGTCTGCTTCTATGCGAAAGGTAAGGGTTAAGGTAGGT
* *
149816 TTGTTTTTACCATTTTAAAACTTTAGGATCTTCGGGTACTTTTACGCCGATGGTAGGTCTTAAGG
66 TTGTTTTTACCATTTTAAAACTTTAGGATCTTCGGGTACTTTTACGCCAATGGTAGCTCTTAAGG
* ** *
149881 ACACCCCACCAAATTTCCTACGAAACCAAGTCCTAGATAACCACTGGTCCGCTTTTACGTCGAGG
131 ACACCCCACCAAATTTCCTACAAAACCAAGTCCTAGATAACCACTGGTCCGCTTTTACACCGAAG
*
149946 GTGGGCATTAAGGTTAGGTTCATTTACTCGTCAATTTTTTGTCCCTAGATTAGAATTAGTACCTT
196 GTGGGCATTAAGGTTAGGTTCATCTACTCGTCAATTTTTTGTCCCTAGATTAGAATTAGTACCTT
* *
150011 GGCGTCTAGATCGAGTCTTAGGATTTTATTTTTCTCTTAATTAAAAATTTGAATATTTTTATAAA
261 GGCATCTAGATCAAGTCTTAGGATTTTATTTTTCTCTTAATTAAAAATTTGAATATTTTTATAAA
* * * *
150076 ATAAAGGCAATGTCTTAGGATTAGAATAGTACGCAAATTTCTCCCATGCATATAGAGGGGTTTCA
326 ATAAAAGCAATATCTCAGAATTAGAATAGTACGCAAATTTCTCCCATGCATATAGAGGGGTTTCA
*
150141 CGAATTATCCTAGAAACGAGATATCATTTTTAAAATGAGAATCAGGGATTTTATGATTTTTAAAT
391 CGAATTATCCTAGAAACGAGATATCATTTTTAAAATAAGAATCAGGGATTTTATGATTTTTAAAT
* * * * *
150206 TTTAAAAACCTTTCGAATTCTCCTGAGGTTTTAGGAGGGTACAGAAGACATTTTGGTTTTTTAAA
456 TTTAAAAACCTTTCGAATTCTCCTGAGGTTTCAGAAGGGTACAAAAGAAATTTTGATTTTTTAAA
* * *
150271 ACCTTTTATATTCCATCGGGTTTCCAACGGGATGTAAAAGAGAATAATAAAAAGATTACGTGTTC
521 ACCTTTTATATTCCACCGAGTTTCCAACGGGATGTAAAAGAGAATAATAAAAAGATTACATGTTC
* *
150336 CAGTAGACTTCCATGGGGTGCGTGAGTGATTTCTATT
586 CACTAGACTTCCATGGGGCGCGTGAGTGATTTCTATT
* *
150373 TAGAAACCTAGTCCTACGAAATTATCGGGTCTGCTTCTATGCCGAAA-GTAGGGGTTAAGGTAGG
1 TAGAAACCTAGTCCTACGAAATTACCGGGTCTGCTTCTATG-CGAAAGGTAAGGGTTAAGGTAGG
150437 TTTGTTTTTACCATTTTAAAACTTTAGGATC-TCAGGGTACTTTTACGCCAATGGTAGCTCTTAA
65 TTTGTTTTTACCATTTTAAAACTTTAGGATCTTC-GGGTACTTTTACGCCAATGGTAGCTCTTAA
*
150501 GGACACCCCACCAAATTTCCTACAAAACCAAGTCCTAGATAACCACTGGGTCTGCTTTTACACCG
129 GGACACCCCACCAAATTTCCTACAAAACCAAGTCCTAGATAACCACT-GGTCCGCTTTTACACCG
* * *
150566 AAGGTGGGCATTAAGGTTAGGTTCATCTACTCGTTAATTTTTTGTCCCTGGATTCGAATTAGTAC
193 AAGGTGGGCATTAAGGTTAGGTTCATCTACTCGTCAATTTTTTGTCCCTAGATTAGAATTAGTAC
* *
150631 CTTGGCATCTAGATTAAGTCTTAGGATTTTATTTTTGTCTTAATTAAAAATTTGAATATTTTTAT
258 CTTGGCATCTAGATCAAGTCTTAGGATTTTATTTTTCTCTTAATTAAAAATTTGAATATTTTTAT
150696 AAAATAAAAGCAATATCTCAGAATTAGAATAGTACGCAAATTTCTCCCATGCATATGAGAGGGGT
323 AAAATAAAAGCAATATCTCAGAATTAGAATAGTACGCAAATTTCTCCCATGCATAT-AGAGGGGT
* * *
150761 TTCACGAATTATCTTAGAAACGAGATATCCTTTTTAAAATAAGAATCAGGGATTTT-TTATTTTT
387 TTCACGAATTATCCTAGAAACGAGATATCATTTTTAAAATAAGAATCAGGGATTTTATGA-TTTT
150825 TAAATTTTAAAAACCTTTCGAATTCT-CTCG-GGATTTCAGAAGGGTACAAAAGAAATTTTGATT
451 TAAATTTTAAAAACCTTTCGAATTCTCCT-GAGG-TTTCAGAAGGGTACAAAAGAAATTTTGATT
* * *
150888 TTTTAAAACCTTTTATGTTCCACCGAGTTTCTAACGGGATGTAAAAGAGAATAATAAAAAGCTTA
514 TTTTAAAACCTTTTATATTCCACCGAGTTTCCAACGGGATGTAAAAGAGAATAATAAAAAGATTA
*
150953 CATGTTCCACTAGACTTCCATGGGGCGTGTGAGTGATTTCTATT
579 CATGTTCCACTAGACTTCCATGGGGCGCGTGAGTGATTTCTATT
150997 T
1 T
150998 TAAAAATTAC
Statistics
Matches: 575, Mismatches: 43, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
621 2 0.00
622 158 0.27
623 197 0.34
624 218 0.38
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (622 bp):
TAGAAACCTAGTCCTACGAAATTACCGGGTCTGCTTCTATGCGAAAGGTAAGGGTTAAGGTAGGT
TTGTTTTTACCATTTTAAAACTTTAGGATCTTCGGGTACTTTTACGCCAATGGTAGCTCTTAAGG
ACACCCCACCAAATTTCCTACAAAACCAAGTCCTAGATAACCACTGGTCCGCTTTTACACCGAAG
GTGGGCATTAAGGTTAGGTTCATCTACTCGTCAATTTTTTGTCCCTAGATTAGAATTAGTACCTT
GGCATCTAGATCAAGTCTTAGGATTTTATTTTTCTCTTAATTAAAAATTTGAATATTTTTATAAA
ATAAAAGCAATATCTCAGAATTAGAATAGTACGCAAATTTCTCCCATGCATATAGAGGGGTTTCA
CGAATTATCCTAGAAACGAGATATCATTTTTAAAATAAGAATCAGGGATTTTATGATTTTTAAAT
TTTAAAAACCTTTCGAATTCTCCTGAGGTTTCAGAAGGGTACAAAAGAAATTTTGATTTTTTAAA
ACCTTTTATATTCCACCGAGTTTCCAACGGGATGTAAAAGAGAATAATAAAAAGATTACATGTTC
CACTAGACTTCCATGGGGCGCGTGAGTGATTTCTATT
Found at i:152656 original size:15 final size:16
Alignment explanation
Indices: 152640--152734 Score: 65
Period size: 16 Copynumber: 6.0 Consensus size: 16
152630 TTAAAAATCT
152640 AAACTCGAAAAAACT-
1 AAACTCGAAAAAACTC
* *
152655 AAA-TCCAAAATGACTC
1 AAACTCGAAAA-AACTC
*
152671 AAACTC-AAAATAGCTC
1 AAACTCGAAAA-AACTC
152687 AAA-TCTGAAAGAAAC-C
1 AAACTC-GAAA-AAACTC
* *
152703 GAACTCGAAAGAACTC
1 AAACTCGAAAAAACTC
*
152719 AAACTCAAAAAAACTC
1 AAACTCGAAAAAACTC
152735 GAACCCTAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 15
0.71 0.11 0.17
Matches are distributed among these distances:
14 6 0.10
15 11 0.18
16 35 0.56
17 9 0.15
18 1 0.02
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (16 bp):
AAACTCGAAAAAACTC
Found at i:153539 original size:16 final size:16
Alignment explanation
Indices: 153514--153557 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
153504 ACTAAATCAT
*
153514 AAAAACTCAAACTCAA
1 AAAAATTCAAACTCAA
*
153530 AAAAATTCAAACTCGA
1 AAAAATTCAAACTCAA
*
153546 AAAAGTTCAAAC
1 AAAAATTCAAAC
153558 CGCACAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.59, C:0.20, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAAATTCAAACTCAA
Found at i:154581 original size:12 final size:12
Alignment explanation
Indices: 154564--154611 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
154554 TTTATTGTAT
154564 TTTAAAATATAA
1 TTTAAAATATAA
*
154576 TTTAAAATAATAT
1 TTTAAAAT-ATAA
154589 TTTAATAATAT-A
1 TTTAA-AATATAA
154601 TTTAAAA-ATAA
1 TTTAAAATATAA
154612 ATATATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
10 2 0.06
11 3 0.10
12 13 0.42
13 10 0.32
14 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTAAAATATAA
Found at i:154592 original size:13 final size:13
Alignment explanation
Indices: 154561--154653 Score: 73
Period size: 13 Copynumber: 6.6 Consensus size: 13
154551 TAATTTATTG
154561 TATTTTAAAAT-A
1 TATTTTAAAATAA
*
154573 TAATTTAAAATAA
1 TATTTTAAAATAA
154586 TATTTTAATAAT-A
1 TATTTTAA-AATAA
*
154599 TATTTAAAAATAAATA
1 TATTTTAAAAT--A-A
154615 TATTATTAAAATAAA
1 TATT-TTAAAAT-AA
154630 TATTTTATTAAAATAA
1 TA--TT-TTAAAATAA
154646 TATTTTAA
1 TATTTTAA
154654 TATGTTATTC
Statistics
Matches: 68, Mismatches: 4, Indels: 17
0.76 0.04 0.19
Matches are distributed among these distances:
12 13 0.19
13 20 0.29
14 5 0.07
15 3 0.04
16 11 0.16
17 16 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTTAAAATAA
Found at i:154616 original size:16 final size:15
Alignment explanation
Indices: 154579--154653 Score: 61
Period size: 17 Copynumber: 5.1 Consensus size: 15
154569 AATATAATTT
154579 AAAAT-AATATTTTA
1 AAAATAAATATTTTA
*
154593 ATAAT--ATA-TTTA
1 AAAATAAATATTTTA
*
154605 AAAATAAATATATTATT
1 AAAATAAATAT-TT-TA
154622 AAAATAAATATTTTA
1 AAAATAAATATTTTA
154637 TTAAAAT-AATATTTTA
1 --AAAATAAATATTTTA
154653 A
1 A
154654 TATGTTATTC
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
12 8 0.16
13 3 0.06
14 8 0.16
15 1 0.02
16 13 0.26
17 17 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAAATAAATATTTTA
Found at i:154647 original size:20 final size:17
Alignment explanation
Indices: 154595--154645 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
154585 ATATTTTAAT
*
154595 AATATATT-TAAAAATA
1 AATATATTATTAAAATA
154611 AATATATTATTAAAATA
1 AATATATTATTAAAATA
*
154628 AATATTTTATTAAAATA
1 AATATATTATTAAAATA
154645 A
1 A
154646 TATTTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 8 0.25
17 24 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATATTATTAAAATA
Found at i:154804 original size:38 final size:37
Alignment explanation
Indices: 154733--154804 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
154723 AACAAAAAAA
**
154733 TATTTTATTTTATTTTAATTTTATAAAATAATTATTT
1 TATTTTATTTTATTTTAATTAAATAAAATAATTATTT
154770 TATTTTAATTTTATTTTAAGTTAAATAAAA-AATTA
1 TATTTT-ATTTTATTTTAA-TTAAATAAAATAATTA
154805 AATTAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 6 0.19
38 17 0.55
39 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
TATTTTATTTTATTTTAATTAAATAAAATAATTATTT
Found at i:155507 original size:12 final size:12
Alignment explanation
Indices: 155478--155538 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
155468 AGATGATGAT
*
155478 GAGGAGGAGGAG
1 GAGGAGGAGAAG
* *
155490 GGGGAGGAGAAA
1 GAGGAGGAGAAG
155502 GAGGAGGAGAAG
1 GAGGAGGAGAAG
*
155514 GAGAAGGAGAGAG
1 GAGGAGGAGA-AG
* *
155527 GAAGAGAAGAAG
1 GAGGAGGAGAAG
155539 AGAGTGAGAG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 30 0.77
13 9 0.23
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (12 bp):
GAGGAGGAGAAG
Found at i:155507 original size:18 final size:18
Alignment explanation
Indices: 155484--155528 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
155474 TGATGAGGAG
* *
155484 GAGGAGGGGGAGGAGAAA
1 GAGGAGGAGAAGGAGAAA
*
155502 GAGGAGGAGAAGGAGAAG
1 GAGGAGGAGAAGGAGAAA
155520 GAGAGAGGA
1 GAG-GAGGA
155529 AGAGAAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (18 bp):
GAGGAGGAGAAGGAGAAA
Found at i:155535 original size:16 final size:18
Alignment explanation
Indices: 155514--155557 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
155504 GGAGGAGAAG
155514 GAGAAGGAGAGAG-GA-A
1 GAGAAGGAGAGAGTGAGA
*
155530 GAGAAGAAGAGAGTGAGA
1 GAGAAGGAGAGAGTGAGA
*
155548 GTGAAGGAGA
1 GAGAAGGAGA
155558 ACAAAAAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 12 0.52
17 2 0.09
18 9 0.39
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.05
Consensus pattern (18 bp):
GAGAAGGAGAGAGTGAGA
Found at i:155730 original size:12 final size:12
Alignment explanation
Indices: 155713--155752 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
155703 GAAGACAATG
155713 ATGATGATGATA
1 ATGATGATGATA
* *
155725 ATGATGAAGAAA
1 ATGATGATGATA
*
155737 ATGAGGATGATA
1 ATGATGATGATA
155749 ATGA
1 ATGA
155753 CGAGGCAGGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (12 bp):
ATGATGATGATA
Found at i:158398 original size:45 final size:45
Alignment explanation
Indices: 158334--158423 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
158324 ATATATGTGC
*
158334 CCTTAAGCTTGAATAGTTAAGGATTCATGGCATTTATGGTTCTAT
1 CCTTAAGCATGAATAGTTAAGGATTCATGGCATTTATGGTTCTAT
158379 CCTTAAGCATGAATAGTTAAGGATTCATGGCATTTATGGTTCTAT
1 CCTTAAGCATGAATAGTTAAGGATTCATGGCATTTATGGTTCTAT
158424 GTTTGCGTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (45 bp):
CCTTAAGCATGAATAGTTAAGGATTCATGGCATTTATGGTTCTAT
Found at i:164721 original size:20 final size:20
Alignment explanation
Indices: 164696--164735 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
164686 TTTAAAAAGT
164696 CATTTCCCATATCTTGGATG
1 CATTTCCCATATCTTGGATG
164716 CATTTCCCATATCTTGGATG
1 CATTTCCCATATCTTGGATG
164736 GTATAACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (20 bp):
CATTTCCCATATCTTGGATG
Found at i:169012 original size:13 final size:13
Alignment explanation
Indices: 168994--169019 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
168984 CATTATTCAA
168994 TGTATCGATACAT
1 TGTATCGATACAT
169007 TGTATCGATACAT
1 TGTATCGATACAT
169020 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:169087 original size:20 final size:19
Alignment explanation
Indices: 169058--169131 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
169048 TTTACCCAGA
169058 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
* *
169078 TGTATTGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
169098 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
169118 TGTATCGATACATT
1 TGTATCGATACATT
169132 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:171583 original size:28 final size:28
Alignment explanation
Indices: 171499--171600 Score: 132
Period size: 28 Copynumber: 3.6 Consensus size: 28
171489 TTTCACAATC
* ***
171499 GGGGATACTCCAACCCTGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
*
171527 GGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
*
171555 GGGGATACTCCAACCCCGTCATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
* *
171583 GGGGATAATTCAACCCCG
1 GGGGATACTCCAACCCCG
171601 ATTTTATTTC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:171718 original size:79 final size:79
Alignment explanation
Indices: 171555--171719 Score: 242
Period size: 79 Copynumber: 2.1 Consensus size: 79
171545 TTATTTTCGA
*
171555 GGGGATACTCCAACCCCGTCATTTCCGAGGGGATAATTCAACCCCGATTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTCATTTCCGAGGGGATAATTCAACCCCGATTTTATTTCTAAAACACC
* * *
171620 AATTTTTCATAATC
66 AATTCTCCACAATC
* * * *
171634 AGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTTCAACCCC-AGTTTTATTTCTAAAACAC
1 GGGGATACTCCAACCCCGTCATTTCCGAGGGGATAATTCAACCCCGA-TTTTATTTCTAAAACAC
171698 CAATTCTCCACAATC
65 CAATTCTCCACAATC
171713 GGGGATA
1 GGGGATA
171720 TTCTAACACC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
78 1 0.01
79 75 0.99
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTCATTTCCGAGGGGATAATTCAACCCCGATTTTATTTCTAAAACACC
AATTCTCCACAATC
Found at i:171817 original size:130 final size:130
Alignment explanation
Indices: 171397--171807 Score: 347
Period size: 130 Copynumber: 3.1 Consensus size: 130
171387 TTTTCATCTT
* * * * * * * * *
171397 GGGGATACTCCAATCCCA-ATTCCATTTCCAAAACATCGATTTTTCACAATCGGGGATATTTCAA
1 GGGGATACTCCAACCCCAGCTT-TATTTCTAAAACACCAATTCTCCACAATCGGGGATAATTCAA
* * * * * * *
171461 CTCCGATTTTATTTCCAAAACACTATTTTTTCACAATCGGGGATACTCCAACCCTGTTA-TTTC-
65 CACCGATTTTATTTCCAAAACACCAATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTTCG
171524 A
130 A
* * * * * *
171525 TCGGGGATACTCCAACCCC-G--TTATTTTCGAGGGGATACTCCAA--CCCCGTCATTTCCGAGG
1 --GGGGATACTCCAACCCCAGCTTTA-TTTCTA----AAACACCAATTCTCC-ACA-AT-C--GG
* * * *
171585 GGATAATTCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCAGGGATACTCCAACCC
54 GGATAATTCAACACCGATTTTATTTCCAAAACACCAATTTCTCATAATCAGGGATACTCCAACCC
171650 CGTTATTTTCGA
119 CGTTATTTTCGA
* *
171662 GGGGATACTTCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGAT-ATTCTAA
1 GGGGATACTCCAACCCCAGCTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATAATTC-AA
* *
171726 CACCGATTTTATTTCCAAAACACCAATTTCTCATAGTCGGGGATACTCCAACCCCGTTA-TTTCT
65 CACCGATTTTATTTCCAAAACACCAATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTTC-
171790 GA
129 GA
171792 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
171808 TGACTTTATT
Statistics
Matches: 226, Mismatches: 35, Indels: 40
0.75 0.12 0.13
Matches are distributed among these distances:
127 1 0.00
128 6 0.03
129 8 0.04
130 95 0.42
131 2 0.01
132 7 0.03
133 9 0.04
134 2 0.01
135 82 0.36
136 5 0.02
137 6 0.03
138 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (130 bp):
GGGGATACTCCAACCCCAGCTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATAATTCAAC
ACCGATTTTATTTCCAAAACACCAATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTTCGA
Found at i:172229 original size:19 final size:18
Alignment explanation
Indices: 172201--172259 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
172191 TTGTATCGAT
*
172201 ACATTATATCGATACATG
1 ACATTGTATCGATACATG
*
172219 TTCATTGTATCGATACATAG
1 -ACATTGTATCGATACAT-G
172239 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
172259 A
1 A
172260 AACTGACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 16 0.47
20 3 0.09
21 15 0.44
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Done.