Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 13 of 24
Found at i:1935639 original size:21 final size:21
Alignment explanation
Indices: 1935613--1935688 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1935603 CTGCCAAGAA
1935613 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1935634 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1935654 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1935675 ATGTATCGATACAT
1 ATGTATCGATACAT
1935689 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1935658 original size:20 final size:20
Alignment explanation
Indices: 1935633--1935706 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1935623 ACATCTTTTT
1935633 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1935653 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1935674 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1935694 CATGTATCGATAC
1 CATGTATCGATAC
1935707 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1935670 original size:41 final size:41
Alignment explanation
Indices: 1935613--1935706 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1935603 CTGCCAAGAA
1935613 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1935654 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1935695 ATGTATCGATAC
1 ATGTATCGATAC
1935707 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1936885 original size:21 final size:20
Alignment explanation
Indices: 1936835--1936889 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1936825 ACAATAGGGC
*
1936835 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAACTG
* **
1936855 AATATATCGATACATGTCTG
1 AATGTATCGATACATAACTG
1936875 AAATGTATCGATACA
1 -AATGTATCGATACA
1936890 AGACCATATC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATAACTG
Found at i:1937037 original size:52 final size:50
Alignment explanation
Indices: 1936924--1937064 Score: 183
Period size: 52 Copynumber: 2.8 Consensus size: 50
1936914 TTTTGGAATG
* * * * *
1936924 AAAATGTATTGATACATTTTTTATTATATCAATACATTCTGGGTTTTGAC
1 AAAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGATTTTGAC
* *
1936974 ACAAATGTATCGATACATTCTTCATTGTATCGATATATTCTGGATTATTGACC
1 A-AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGATT-TTGA-C
*
1937027 AAAATGTATCGATACATTTTTCAATGTATCGATACATT
1 AAAATGTATCGATACATTTTTCATTGTATCGATACATT
1937065 TTTCATGTAG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.01
51 37 0.47
52 38 0.49
53 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (50 bp):
AAAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGATTTTGAC
Found at i:1937072 original size:19 final size:20
Alignment explanation
Indices: 1937029--1937073 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1937019 TATTGACCAA
1937029 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
1937049 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
1937069 -ATGTA
1 AATGTA
1937074 GGCAAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:1940034 original size:33 final size:33
Alignment explanation
Indices: 1939997--1940063 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1939987 TTCAACGATT
1939997 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1940030 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1940063 T
1 T
1940064 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1940035 original size:13 final size:13
Alignment explanation
Indices: 1940017--1940041 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1940007 CATAAAATGT
1940017 TGTATCGATACAA
1 TGTATCGATACAA
1940030 TGTATCGATACA
1 TGTATCGATACA
1940042 TATTTTTTTG
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:1940128 original size:13 final size:13
Alignment explanation
Indices: 1940110--1940134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1940100 ATTACTCACA
1940110 TGTATCGATACAT
1 TGTATCGATACAT
1940123 TGTATCGATACA
1 TGTATCGATACA
1940135 CTGATCTTTG
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):
TGTATCGATACAT
Found at i:1940199 original size:52 final size:52
Alignment explanation
Indices: 1940143--1940267 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
1940133 CACTGATCTT
* *
1940143 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
* *
1940195 TGTATCGATACATGCAGGCAAAGTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
*
1940247 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1940268 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1945431 original size:33 final size:35
Alignment explanation
Indices: 1945357--1945474 Score: 127
Period size: 33 Copynumber: 3.5 Consensus size: 35
1945347 TTCTATAGAC
* * * *
1945357 TCTGTCTGAGGTAGTGTTTGAGTATGAGT-AA-AT
1 TCTGTTTGAGGTAGTGTTTAAGGATGTGTAAAGAT
* * *
1945390 TCTGTTTGAGGTAGTGTTTCAGG-T-TGTATAGGT
1 TCTGTTTGAGGTAGTGTTTAAGGATGTGTAAAGAT
* *
1945423 TCTATTTGAGGTAGTGTTTAAGGATGTGTAAAGAC
1 TCTGTTTGAGGTAGTGTTTAAGGATGTGTAAAGAT
1945458 TCTGTTTGAGGTAGTGT
1 TCTGTTTGAGGTAGTGT
1945475 AAACTCTTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
31 2 0.03
32 2 0.03
33 42 0.61
34 1 0.01
35 22 0.32
ACGTcount: A:0.21, C:0.06, G:0.31, T:0.42
Consensus pattern (35 bp):
TCTGTTTGAGGTAGTGTTTAAGGATGTGTAAAGAT
Found at i:1956783 original size:22 final size:19
Alignment explanation
Indices: 1956726--1956783 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 19
1956716 TAAATTTGAG
1956726 GGGTAGTTTTTAAAAAAAT
1 GGGTAGTTTTTAAAAAAAT
*
1956745 GGGTAGTTTTTTTAAAAAATTT
1 GGGTAG--TTTTTAAAAAA-AT
*
1956767 GGGTAGTTGTTAAAAAA
1 GGGTAGTTTTTAAAAAA
1956784 TAAGTATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 6 0.18
20 10 0.29
21 11 0.32
22 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.40
Consensus pattern (19 bp):
GGGTAGTTTTTAAAAAAAT
Found at i:1956784 original size:20 final size:20
Alignment explanation
Indices: 1956726--1956785 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
1956716 TAAATTTGAG
1956726 GGGTAGTTTTTAAAAAA-AT
1 GGGTAGTTTTTAAAAAATAT
*
1956745 GGGTAGTTTTTTTAAAAAATTT
1 GGGTAG--TTTTTAAAAAATAT
*
1956767 GGGTAGTTGTTAAAAAATA
1 GGGTAGTTTTTAAAAAATA
1956786 AGTATTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
21 11 0.31
22 7 0.20
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.40
Consensus pattern (20 bp):
GGGTAGTTTTTAAAAAATAT
Found at i:1957250 original size:3 final size:3
Alignment explanation
Indices: 1957242--1957291 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
1957232 TTTAGATTCT
1957242 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1957290 AT
1 AT
1957292 TGGAGTTTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1957895 original size:1 final size:1
Alignment explanation
Indices: 1957891--1957915 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1957881 ATAAAAACGT
1957891 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
1957916 GAATGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1958986 original size:27 final size:24
Alignment explanation
Indices: 1958930--1958986 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 24
1958920 AAAAATTAAT
**
1958930 TCTTTTTTTTATTAATTGAACTTT
1 TCTTTTTTTTATTAATTGAACTAA
*
1958954 TTTTTTTTTATAATTGAATTGAACTAA
1 TCTTTTTTT-T-ATT-AATTGAACTAA
1958981 TCTTTT
1 TCTTTT
1958987 ATAGGTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 8 0.31
25 1 0.04
26 3 0.12
27 14 0.54
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.63
Consensus pattern (24 bp):
TCTTTTTTTTATTAATTGAACTAA
Found at i:1963420 original size:52 final size:52
Alignment explanation
Indices: 1963356--1964013 Score: 347
Period size: 51 Copynumber: 12.6 Consensus size: 52
1963346 GAAATAAGGA
* * *
1963356 GGTTAGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
* * * * * * * *
1963408 AGTTGGAGTATCCCCGATTAAAGGAAAATAGGTG-TTTTGAAAACAAAACCAG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
* * * * *
1963460 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
* * *** * * **
1963511 GGTTAGAGTATCCCCGATTATGAGAAATCAATATTTTAGG-AATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
**** * *** * ** * *
1963562 GGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCTGATGAGAT--AA-CGA
1 GGTTGGAGTATCCCCGATTATG-AA--AAATTGGTGT-T-TTTG--GAAATAAAATCGG
* * *
1963618 GGTTGGAGTATCCTCGATTTTGAAAATTTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
* * * *
1963670 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
* * * * * *
1963722 GGTTTGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
* * *** * * **
1963773 GGTTGGAGTATCCTCGATTATGAGAAATCAAT-ATTTTGGGAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
* *** * *** *
1963824 GGTTGGAGTATCTCCTCGGAGGTAATG--GGGTTGGAGTATCCCCGATGAAAT--AA-CGA
1 GGTTGGAGTATC-CC-C-GA--TTATGAAAAATTGGTGT-T-TTTG--GAAATAAAATCGG
* *
1963880 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
* * * * *
1963932 AGTTGGAGTATCCCCGATTAAAGGAAAATAGGTG-TTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
*
1963984 GGTTGGAGTATCCCCGATTATGAACAATTG
1 GGTTGGAGTATCCCCGATTATGAAAAATTG
1964014 AGAAACTTAA
Statistics
Matches: 441, Mismatches: 134, Indels: 63
0.69 0.21 0.10
Matches are distributed among these distances:
49 9 0.02
51 167 0.38
52 163 0.37
53 45 0.10
54 6 0.01
55 4 0.01
56 37 0.08
57 3 0.01
58 1 0.00
59 6 0.01
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGG
Found at i:1963563 original size:262 final size:261
Alignment explanation
Indices: 1963255--1964002 Score: 1300
Period size: 262 Copynumber: 2.9 Consensus size: 261
1963245 AACGGAGTTG
*
1963255 GAGTAT-CCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCCGATTATGAGAAATCAATATTTTGG-AATAAAGCCGGGGTTGGAGTATCCCCTCGG
* *
1963319 AGGTAACGGGGTTGGAGTATCCCCGATGAAATAAGGAGGTTAGAGTATCCTCGATTGTGAAAAAT
65 AGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAT
1963384 TGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATAGGTGTTTTGAA
130 TGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATAGGTGTTTTGAA
* * * **
1963449 AACAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAATTGGGGT
195 AATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGT
1963514 TA
260 TA
1963516 GAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCCGATTATGAGAAATCAATATTTT-GGAATAAAGCCGGGGTTGGAGTATCCCCTCGG
* * * *
1963581 AGGTAACGGGGTTGGAGTATCCCTGATGAGATAACGAGGTTGGAGTATCCTCGATTTTGAAAATT
65 AGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAT
*
1963646 TGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAA
130 TGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATAGGTGTTTTGAA
*
1963711 AATAAAATCGGGGTTTGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGT
195 AATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGT
*
1963776 TG
260 TA
* *
1963778 GAGTATCCTCGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCTCCTCGG
1 GAGTATCCCCGATTATGAGAAATCAATATTTT-GGAATAAAGCCGGGGTTGGAGTATCCCCTCGG
*
1963843 AGGTAATGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAT
65 AGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAT
1963908 TGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATAGGTGTTTTGAA
130 TGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATAGGTGTTTTGAA
1963973 AATAAAATCGGGGTTGGAGTATCCCCGATT
195 AATAAAATCGGGGTTGGAGTATCCCCGATT
1964003 ATGAACAATT
Statistics
Matches: 460, Mismatches: 25, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
261 6 0.01
262 452 0.98
263 2 0.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (261 bp):
GAGTATCCCCGATTATGAGAAATCAATATTTTGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGA
GGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATT
GGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATAGGTGTTTTGAAA
ATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGTT
A
Found at i:1963599 original size:28 final size:28
Alignment explanation
Indices: 1963559--1963630 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
1963549 GGAATAAAGC
*
1963559 CGGGGTTGGAGTATCCCCTCG-GAGGTAA
1 CGGGGTTGGAGTATCCCCT-GAGAGATAA
1963587 CGGGGTTGGAGTAT-CCCTGATGAGATAA
1 CGGGGTTGGAGTATCCCCTGA-GAGATAA
*
1963615 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1963631 TCGATTTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 33 0.85
29 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAGATAA
Found at i:1966399 original size:34 final size:33
Alignment explanation
Indices: 1966356--1966422 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
1966346 AACCTCCTAG
* *
1966356 ATGTATCGATACAAAGAATAGATGTATTGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
* *
1966390 ATGTATCGATGCACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
1966423 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:1966464 original size:13 final size:13
Alignment explanation
Indices: 1966446--1966497 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1966436 AGCTTCCTAG
1966446 CGATACATTGTAT
1 CGATACATTGTAT
1966459 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1966478 CGATACATTGTAT
1 CGATACATTGTAT
1966491 CGATACA
1 CGATACA
1966498 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1966478 original size:19 final size:19
Alignment explanation
Indices: 1966454--1966539 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
1966444 AGCGATACAT
1966454 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1966473 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
1966486 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
1966505 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
1966526 TGTATCGATACAAA
1 TGTATCGATACAAA
1966540 TTATTGGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1966487 original size:32 final size:32
Alignment explanation
Indices: 1966446--1966518 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1966436 AGCTTCCTAG
1966446 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1966478 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1966510 CGATACATT
1 CGATACATT
1966519 TACTGAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1967731 original size:16 final size:14
Alignment explanation
Indices: 1967698--1967757 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 14
1967688 TATTTTAAGA
1967698 AAAAATTGAAAAAAAT
1 AAAAATTG--AAAAAT
1967714 AAGAAATTGAAAACAT
1 AA-AAATTGAAAA-AT
1967730 AAAAATTATGAAAAAT
1 AAAAA-T-TGAAAAAT
*
1967746 AAAAATAGAAAA
1 AAAAATTGAAAA
1967758 TTTAAATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 5 0.13
15 8 0.21
16 14 0.36
17 12 0.31
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (14 bp):
AAAAATTGAAAAAT
Found at i:1968180 original size:62 final size:62
Alignment explanation
Indices: 1968080--1968204 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
1968070 AAAGGTTGGT
* *
1968080 TTTGCTTTGGTAGATCAACACCTTGAACTCTAAGTTTTGAGTCCTCGTAGAAGCATACCCAA
1 TTTGCTTTGGTAGATCAACACCTTGAACTCCAAATTTTGAGTCCTCGTAGAAGCATACCCAA
* *
1968142 TTTGCTTTGGTAGATCAATACCTTGAACTCCAAATTTTGAGTCCTTGTAGAAGCATACCCAA
1 TTTGCTTTGGTAGATCAACACCTTGAACTCCAAATTTTGAGTCCTCGTAGAAGCATACCCAA
1968204 T
1 T
1968205 CACTCACAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (62 bp):
TTTGCTTTGGTAGATCAACACCTTGAACTCCAAATTTTGAGTCCTCGTAGAAGCATACCCAA
Found at i:1968750 original size:18 final size:18
Alignment explanation
Indices: 1968729--1968804 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 18
1968719 TTCCTTTCTA
*
1968729 AATTTTATTTGATTTTTC
1 AATTTGATTTGATTTTTC
*
1968747 AATTTGATTTTATTTTTATCTC
1 AATTTGATTTGA--TTT-T-TC
1968769 AATTTTGATTTTGA-TTTTC
1 AA-TTTGA-TTTGATTTTTC
*
1968788 ACTTTGATTTTGATTTT
1 AATTTGA-TTTGATTTT
1968805 GATTCGATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
18 21 0.45
19 6 0.13
20 4 0.09
21 3 0.06
22 4 0.09
23 5 0.11
24 4 0.09
ACGTcount: A:0.21, C:0.07, G:0.08, T:0.64
Consensus pattern (18 bp):
AATTTGATTTGATTTTTC
Found at i:1968779 original size:6 final size:6
Alignment explanation
Indices: 1968770--1968808 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
1968760 TTTTATCTCA
* *
1968770 ATTTTG ATTTTG ATTTTC ACTTTG ATTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATT
1968809 CGATTTCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.18, C:0.05, G:0.13, T:0.64
Consensus pattern (6 bp):
ATTTTG
Found at i:1968826 original size:12 final size:12
Alignment explanation
Indices: 1968811--1968850 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1968801 TTTTGATTCG
*
1968811 ATTTCAATTTCA
1 ATTTCTATTTCA
*
1968823 ATTTCTATTTCG
1 ATTTCTATTTCA
*
1968835 ATTTCTATTTTA
1 ATTTCTATTTCA
1968847 ATTT
1 ATTT
1968851 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.60
Consensus pattern (12 bp):
ATTTCTATTTCA
Found at i:1968854 original size:7 final size:7
Alignment explanation
Indices: 1968842--1968884 Score: 50
Period size: 7 Copynumber: 5.6 Consensus size: 7
1968832 TCGATTTCTA
1968842 TTTTAAT
1 TTTTAAT
1968849 TTTTAAT
1 TTTTAAT
1968856 TTTTATAT
1 TTTTA-AT
1968864 ATTTTAAT
1 -TTTTAAT
1968872 TGATTTAAT
1 T--TTTAAT
1968881 TTTT
1 TTTT
1968885 TATTGATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 16 0.50
8 4 0.12
9 12 0.38
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (7 bp):
TTTTAAT
Found at i:1968884 original size:16 final size:16
Alignment explanation
Indices: 1968843--1968893 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
1968833 CGATTTCTAT
1968843 TTTAATTTTTAATT--
1 TTTAATTTTTAATTGA
1968857 TTTATATATTTTAATTGA
1 TTTA-AT-TTTTAATTGA
*
1968875 TTTAATTTTTTATTGA
1 TTTAATTTTTAATTGA
1968891 TTT
1 TTT
1968894 TATTAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.12
15 2 0.06
16 20 0.62
17 2 0.06
18 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTAATTTTTAATTGA
Found at i:1968902 original size:25 final size:25
Alignment explanation
Indices: 1968840--1968903 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
1968830 TTTCGATTTC
1968840 TATTTTAATT--TTTAATTTTTATA
1 TATTTTAATTAATTTAATTTTTATA
*
1968863 TATTTTAATTGATTTAATTTTT-TA
1 TATTTTAATTAATTTAATTTTTATA
1968887 TTGATTTT-ATTAATTTA
1 -T-ATTTTAATTAATTTA
1968904 CTTGGTATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 10 0.28
24 2 0.06
25 19 0.53
26 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (25 bp):
TATTTTAATTAATTTAATTTTTATA
Found at i:1972838 original size:3 final size:3
Alignment explanation
Indices: 1972802--1972826 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1972792 GATTTATAGA
1972802 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
1972827 TGTGAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1973416 original size:2 final size:2
Alignment explanation
Indices: 1973409--1973462 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
1973399 TCATATCACC
* * *
1973409 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AC AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1973451 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1973463 TTCATTTAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1975614 original size:13 final size:12
Alignment explanation
Indices: 1975585--1975628 Score: 70
Period size: 12 Copynumber: 3.6 Consensus size: 12
1975575 TATATATAGC
1975585 TAAAAAAGAAAT
1 TAAAAAAGAAAT
1975597 TAAAAAAGAAAT
1 TAAAAAAGAAAT
*
1975609 TAAAAAAGTAAT
1 TAAAAAAGAAAT
1975621 TAGAAAAA
1 TA-AAAAA
1975629 TGATGATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 25 0.83
13 5 0.17
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (12 bp):
TAAAAAAGAAAT
Found at i:1978812 original size:21 final size:20
Alignment explanation
Indices: 1978775--1978813 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1978765 CACCAACTTG
1978775 AAAAATTATTTTTGAATTGT
1 AAAAATTATTTTTGAATTGT
1978795 AAAATATT-TTTTTAGAATT
1 AAAA-ATTATTTTT-GAATT
1978814 ATTTGATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
AAAAATTATTTTTGAATTGT
Found at i:1981094 original size:27 final size:27
Alignment explanation
Indices: 1981055--1981111 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
1981045 GGATCTTGTA
* *
1981055 AAAAAACGGGATTGGAGTATCTCATCG
1 AAAAAACGAGATTGGAGTATCCCATCG
* *
1981082 AAAAAGCGAGATTGGAGTATCCCCTCG
1 AAAAAACGAGATTGGAGTATCCCATCG
1981109 AAA
1 AAA
1981112 GAGTGAGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (27 bp):
AAAAAACGAGATTGGAGTATCCCATCG
Found at i:1985643 original size:52 final size:52
Alignment explanation
Indices: 1985573--1985693 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1985563 GAAAATTTAT
*
1985573 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1985625 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1985677 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1985694 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1985706 original size:52 final size:51
Alignment explanation
Indices: 1985573--1985713 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1985563 GAAAATTTAT
1985573 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1985625 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1985677 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1985714 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1985720 original size:13 final size:13
Alignment explanation
Indices: 1985702--1985726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1985692 CAAAGATCAG
1985702 TGTATCGATACAA
1 TGTATCGATACAA
1985715 TGTATCGATACA
1 TGTATCGATACA
1985727 TGTGAGTAAT
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:1985809 original size:13 final size:13
Alignment explanation
Indices: 1985791--1985815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1985781 CAAAAAAATA
1985791 TGTATCGATACAT
1 TGTATCGATACAT
1985804 TGTATCGATACA
1 TGTATCGATACA
1985816 ACATTTTATG
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):
TGTATCGATACAT
Found at i:1985811 original size:33 final size:33
Alignment explanation
Indices: 1985769--1985835 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1985759 AGTAGCTTAA
1985769 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1985802 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1985835 A
1 A
1985836 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1990417 original size:13 final size:13
Alignment explanation
Indices: 1990399--1990423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1990389 TACAAAAATC
1990399 AATGTATCGATAT
1 AATGTATCGATAT
1990412 AATGTATCGATA
1 AATGTATCGATA
1990424 CATTGAATAA
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:1990439 original size:20 final size:20
Alignment explanation
Indices: 1990410--1990447 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1990400 ATGTATCGAT
*
1990410 ATAATGTATCGATACATTGA
1 ATAATATATCGATACATTGA
1990430 ATAATATATCGATACATT
1 ATAATATATCGATACATT
1990448 TCCTTGGCAG
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:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
ATAATATATCGATACATTGA
Found at i:1991493 original size:39 final size:39
Alignment explanation
Indices: 1991439--1991584 Score: 148
Period size: 39 Copynumber: 3.5 Consensus size: 39
1991429 GGTGCCGATA
*
1991439 TGCTGATTCAAGGCCAACGATATTGGGCTTATACCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATG
* ** * * *
1991478 TGCTGATTTAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGGCTT-------A--TACCAATG
1991526 TGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATG
1991565 TGCTGATTCAAGGCCAGCGA
1 TGCTGATTCAAGGCCAGCGA
1991585 CGTTGGTCTT
Statistics
Matches: 85, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
39 51 0.60
41 1 0.01
46 1 0.01
48 32 0.38
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATG
Found at i:1991531 original size:87 final size:87
Alignment explanation
Indices: 1991384--1991636 Score: 434
Period size: 87 Copynumber: 2.9 Consensus size: 87
1991374 GAGAAGAAAG
* * * *
1991384 CCAATGTGCTGATTTAAGGCCAACGACATTGGGTTTTAAAGACAAGGTGCCGATATGCTGATTCA
1 CCAATGTGCTGATTTAAGGCCAGCGACGTT-GGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
*
1991449 AGGCCAACGATATTGGGCTTATA
65 AGGCCAGCGATATTGGGCTTATA
1991472 CCAATGTGCTGATTTAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
1 CCAATGTGCTGATTTAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
1991537 GGCCAGCGATATTGGGCTTATA
66 GGCCAGCGATATTGGGCTTATA
* *
1991559 CCAATGTGCTGATTCAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTGCCAATATGATGATTCAA
1 CCAATGTGCTGATTTAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
1991624 GGCCAGCGATATT
66 GGCCAGCGATATT
1991637 AGCTTTAGAA
Statistics
Matches: 158, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 130 0.82
88 28 0.18
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
CCAATGTGCTGATTTAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGGCTTATA
Found at i:1991543 original size:48 final size:48
Alignment explanation
Indices: 1991472--1991632 Score: 187
Period size: 48 Copynumber: 3.5 Consensus size: 48
1991462 TGGGCTTATA
* *
1991472 CCAATGTGCTGATTTAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTG
** * *
1991520 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A--TA
1 CCAATATGCTGATTCAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTG
*
1991559 CCAATGTGCTGATTCAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTG
*
1991607 CCAATATGATGATTCAAGGCCAGCGA
1 CCAATATGCTGATTCAAGGCCAGCGA
1991633 TATTAGCTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
39 33 0.36
41 1 0.01
46 1 0.01
48 56 0.62
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
CCAATATGCTGATTCAAGGCCAGCGACGTTGGTCTTAAAGACAAGGTG
Found at i:1991788 original size:29 final size:29
Alignment explanation
Indices: 1991638--1992013 Score: 420
Period size: 29 Copynumber: 13.2 Consensus size: 29
1991628 AGCGATATTA
* * *
1991638 GCTTTAGAAGAAGATGCCACCAACTTGTATGG
1 GCTTTTGAA-AAGGTGCCACTAACTTG--TGG
* * * *
1991670 GCGTTTGAAAGGGTTG-CACCAACTTGTGT
1 GCTTTTGAAAAGG-TGCCACTAACTTGTGG
*
1991699 GCTTTTG--AAGGTTGCCACTACCTTGTGG
1 GCTTTTGAAAAGG-TGCCACTAACTTGTGG
1991727 GC-TTTG--AAGGTTGCCACTAACTTGTGG
1 GCTTTTGAAAAGG-TGCCACTAACTTGTGG
1991754 GC-TTTGAAAAGGTGCCACTAACTTGTGG
1 GCTTTTGAAAAGGTGCCACTAACTTGTGG
*
1991782 GCTTTTGAAAAGATGCCACTAACTTGTGG
1 GCTTTTGAAAAGGTGCCACTAACTTGTGG
* * *
1991811 GCTTTTGAAAAGATGCCACTGACTTATGG
1 GCTTTTGAAAAGGTGCCACTAACTTGTGG
*
1991840 GCTTTTG--AAGGTTGCCACTACCTTGTGG
1 GCTTTTGAAAAGG-TGCCACTAACTTGTGG
1991868 GC-TTTG--AAGGTTGCCACTAACTTGTGG
1 GCTTTTGAAAAGG-TGCCACTAACTTGTGG
1991895 GC-TTTGAAAAGGTGCCACTAACTTGTGG
1 GCTTTTGAAAAGGTGCCACTAACTTGTGG
* *
1991923 GCTTTTGAAAAGATGCCACTGACTTGTGG
1 GCTTTTGAAAAGGTGCCACTAACTTGTGG
*
1991952 GC-TTTGAAAAGATGCCACTAACTTGTGG
1 GCTTTTGAAAAGGTGCCACTAACTTGTGG
* *
1991980 GCTTTTGAAAAGATGCCACTGACTTGTGG
1 GCTTTTGAAAAGGTGCCACTAACTTGTGG
1992009 GCTTT
1 GCTTT
1992014 GGAAGGTGAG
Statistics
Matches: 311, Mismatches: 23, Indels: 23
0.87 0.06 0.06
Matches are distributed among these distances:
27 69 0.22
28 90 0.29
29 131 0.42
31 12 0.04
32 9 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (29 bp):
GCTTTTGAAAAGGTGCCACTAACTTGTGG
Found at i:1991814 original size:57 final size:57
Alignment explanation
Indices: 1991638--1992014 Score: 444
Period size: 57 Copynumber: 6.6 Consensus size: 57
1991628 AGCGATATTA
* * * * * *
1991638 GCTTTAGAAGAAGATGCCACCAACTTGTATGGGCGTTTGAAAGGGTTG-CACCAACTTGTGT
1 GCTTTTGAA-AAGATGCCACTAACTTG--TGGGC-TTTGAAA-AGATGCCACTAACTTGTGG
* * * * *
1991699 GCTTTTG-AAGGTTGCCACTACCTTGTGGGCTTTG-AAGGTTGCCACTAACTTGTGG
1 GCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGG
*
1991754 GC-TTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTAACTTGTGG
1 GCTTTTGAAAAGATGCCACTAACTTGTGGGC-TTTGAAAAGATGCCACTAACTTGTGG
* * * * *
1991811 GCTTTTGAAAAGATGCCACTGACTTATGGGCTTTTG-AAGGTTGCCACTACCTTGTGG
1 GCTTTTGAAAAGATGCCACTAACTTGTGGGC-TTTGAAAAGATGCCACTAACTTGTGG
* * *
1991868 GC-TTTG-AAGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGG
1 GCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGG
*
1991923 GCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGG
1 GCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGG
*
1991980 GCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
1 GCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTG
1992015 GAAGGTGAGG
Statistics
Matches: 279, Mismatches: 29, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
54 13 0.05
55 74 0.27
56 16 0.06
57 126 0.45
58 30 0.11
59 13 0.05
60 1 0.00
61 6 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (57 bp):
GCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGG
Found at i:1991921 original size:141 final size:140
Alignment explanation
Indices: 1991638--1992020 Score: 563
Period size: 141 Copynumber: 2.7 Consensus size: 140
1991628 AGCGATATTA
* * * * * * *
1991638 GCTTTAGAAGAAGATGCCACCAACTTGTATGGGCGTTTGAAAGGGTTG-CACCAACTTGTGTGCT
1 GCTTTTGAA-AAGATGCCACTAACTTG--TGGGC-TTTGAAA-AGATGCCACTAACTTATGGGCT
1991702 TTTGAAGGTTGCCACTACCTTGTGGGCTTTGAAGGTTGCCACTAACTTGTGGGCTTTGAAAAGGT
61 TTTGAAGGTTGCCACTACCTTGTGGGCTTTGAAGGTTGCCACTAACTTGTGGGCTTTGAAAAGGT
1991767 GCCACTAACTTGTGG
126 GCCACTAACTTGTGG
*
1991782 GCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTATGGGCTTTTG
1 GCTTTTGAAAAGATGCCACTAACTTGTGGGC-TTTGAAAAGATGCCACTAACTTATGGGCTTTTG
1991847 AAGGTTGCCACTACCTTGTGGGCTTTGAAGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCA
65 AAGGTTGCCACTACCTTGTGGGCTTTGAAGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCA
1991912 CTAACTTGTGG
130 CTAACTTGTGG
* *
1991923 GCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGA
1 GCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTATGGGCTTTTG-
* *
1991988 AAAGATGCCACTGA-CTTGTGGGCTTTGGAAGGT
65 AAGGTTGCCACT-ACCTTGTGGGCTTT-GAAGGT
1992021 GAGGAATGTC
Statistics
Matches: 221, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
140 34 0.15
141 156 0.71
142 7 0.03
143 16 0.07
144 8 0.04
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (140 bp):
GCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTATGGGCTTTTGA
AGGTTGCCACTACCTTGTGGGCTTTGAAGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCAC
TAACTTGTGG
Found at i:1994365 original size:79 final size:79
Alignment explanation
Indices: 1994252--1994538 Score: 362
Period size: 79 Copynumber: 3.6 Consensus size: 79
1994242 GAGATAGTAA
* * * * *
1994252 CGGGATTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-A
* **
1994317 TTTGA-AAATAAAAT
65 TTTTAGAAATAAAGC
* * * *
1994331 CGGGGTTAGAGTATCCCCTCGGAGATAAAGGGGTTGGAGTATCCCCGATTATGAAAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAT
1994396 TTTAGAAATAAAGC
66 TTTAGAAATAAAGC
* * * *
1994410 CGGGGTTGGAGTATCCCTTCGGAAATAACA-AGGTTGGAGTATCCCCGATTATGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA-AGGGGTTGGAGTATCCCCGATTATGAAAAATCAATA
*
1994474 TTTTAGGAATAAAGC
65 TTTTAGAAATAAAGC
* *
1994489 CGGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGAT
1 C-GGGGTTGGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCGAT
1994539 GATTAACGGG
Statistics
Matches: 180, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
78 5 0.03
79 132 0.73
80 43 0.24
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAT
TTTAGAAATAAAGC
Found at i:1994530 original size:28 final size:29
Alignment explanation
Indices: 1994491--1994561 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 29
1994481 AATAAAGCCG
1994491 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTATCCCCTCGATAAATAAC
* *
1994519 GGGGTTGGAGTAT--CCTCGATGATTAAC
1 GGGGTTGGAGTATCCCCTCGATAAATAAC
1994546 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
1994562 TGATTGTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 6 0.16
27 18 0.47
28 13 0.34
29 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCTCGATAAATAAC
Found at i:1994699 original size:51 final size:51
Alignment explanation
Indices: 1994545--1994731 Score: 250
Period size: 52 Copynumber: 3.6 Consensus size: 51
1994535 CGATGATTAA
* * *
1994545 CGGGGTTGGAGTATCCCTGATTGTGAAAAATTAGTGTTTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTGAAAATAAAAC
* * * *
1994597 CGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAAC
*
1994649 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT-AGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGA-AAATAAAAC
**
1994700 CGGGGTTGGAGTATCCTTGATTATGAAAAATT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATT
1994732 GAGAAACTTA
Statistics
Matches: 118, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
50 1 0.01
51 52 0.44
52 55 0.47
53 10 0.08
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAAC
Found at i:1997087 original size:21 final size:21
Alignment explanation
Indices: 1997063--1997104 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1997053 GTATCGAGAC
1997063 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
1997084 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
1997105 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:1997153 original size:19 final size:20
Alignment explanation
Indices: 1997129--1997182 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
1997119 AGCGATACAT
*
1997129 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTAAA
**
1997148 TGTATCGATACATTTACTAAA
1 TGTATCGATACA-AAACTAAA
1997169 TGTATCGATACAAA
1 TGTATCGATACAAA
1997183 TTATTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTAAA
Found at i:1998131 original size:43 final size:43
Alignment explanation
Indices: 1997959--1998182 Score: 264
Period size: 42 Copynumber: 5.2 Consensus size: 43
1997949 CGTCTCATTT
* *
1997959 TTTGAGGACAAAGGA-AAAAGGGAAATGAAA-TACGTCCTGCTC
1 TTTGAGGACAAAGGAGAAAAGGAAAAT-AAAGTGCGTCCTGCTC
*
1998001 TTTGAGGACAAAAG-GAAAAGGAAAATAAAGTGCGTCCTGCTC
1 TTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTC
* *
1998043 TTTGAGGACTAGAAGG-GAAAAGAAGAAAATAAAGAGCGTCTTGCTC
1 TTTGAGGAC-A-AAGGAGAAAAG--GAAAATAAAGTGCGTCCTGCTC
* *
1998089 TTTGAGGACAAAGGAGAAAAGGAAAACGAAA-TGCGTCATGCTC
1 TTTGAGGACAAAGGAGAAAAGGAAAA-TAAAGTGCGTCCTGCTC
*
1998132 TTTGAGGACAAA--AAAAAGAGGAAAATAAAGTGCGTCCTGCTC
1 TTTGAGGACAAAGGAGAAA-AGGAAAATAAAGTGCGTCCTGCTC
1998174 TTTGAGGAC
1 TTTGAGGAC
1998183 TACAAAGTGC
Statistics
Matches: 160, Mismatches: 12, Indels: 20
0.83 0.06 0.10
Matches are distributed among these distances:
41 10 0.06
42 70 0.44
43 28 0.17
44 16 0.10
45 7 0.04
46 29 0.18
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (43 bp):
TTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTC
Found at i:1998235 original size:62 final size:58
Alignment explanation
Indices: 1998152--1998360 Score: 200
Period size: 55 Copynumber: 3.6 Consensus size: 58
1998142 AAAAAAAGAG
* *
1998152 GAAAATAAAGTGCGTCCTGCTCTTTGAGGACTACAAAGTGCCACCAACTTGAGTGGGCTTT
1 GAAAA-AAAG-GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
1998213 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGGAGGGTGCTAGCAACTCGTGTGGGATTT
1 G--AA-AAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
*
1998275 ----AAAAGGCGTCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
*
1998330 G----AAAGGCGTCCTACTCTTTGAGGACTAAAGG
1 GAAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
1998361 GTGAAAAGAG
Statistics
Matches: 126, Mismatches: 17, Indels: 17
0.79 0.11 0.11
Matches are distributed among these distances:
54 5 0.04
55 71 0.56
61 1 0.01
62 41 0.33
63 6 0.05
64 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (58 bp):
GAAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:1998469 original size:61 final size:55
Alignment explanation
Indices: 1998374--1998624 Score: 337
Period size: 55 Copynumber: 4.5 Consensus size: 55
1998364 AAAAGAGAGA
*
1998374 GCATCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
*
1998435 GCATCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTCGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * **
1998490 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
1998545 GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
1998599 GCGTCCTGCTCTTTGAGGACTA-AAGG
1 GCATCCTGCTCTTTGAGGACTAGAAGG
1998625 GTGAAGGGAG
Statistics
Matches: 178, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
54 58 0.33
55 72 0.40
56 1 0.01
61 43 0.24
62 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (55 bp):
GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:1998478 original size:210 final size:211
Alignment explanation
Indices: 1998166--1998570 Score: 645
Period size: 210 Copynumber: 1.9 Consensus size: 211
1998156 ATAAAGTGCG
* *
1998166 TCCTGCTCTTTGAGGACTACAAAGTGCCACCAACTTGAGTGGGCTTTGAAAAGAAAAAGGCGTCC
1 TCCTACTCTTTGAGGACTACAAAGTGCCACCAACTTGAGTGGGCTTTGAAAAGAAAAAGGCATCC
* * *
1998231 TGCTCTTTGAGGACTGGAGGGTGCTAGCAACTCGTGTGGGATTTAAAAGGCGTCATGCTCTTTGA
66 TGCTCTTTGAGGACTGGAGAGTGCCACCAACTCGTGTGGGATTTAAAAGGCGTCATGCTCTTTGA
*
1998296 GGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAG
131 GGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAG
1998360 GGTGAAAAGAGAGAGCA
195 GGTGAAAAGAGAGAGCA
* * * *
1998377 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCC
1 TCCTACTCTTTGAGGACTACAAAGTGCCACCAACTTGAGTGGGCTTTGAAAAGAAAAAGGCATCC
* * *
1998441 TGCTCTTTGAGGACT-GAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
66 TGCTCTTTGAGGACTGGAG-AGTGCCACCAACTCGTGTGGGATTTAAAAGGCGTCATGCTCTTTG
*
1998505 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAG
130 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAG
1998570 G
195 G
1998571 TGCCACCAAC
Statistics
Matches: 178, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
209 3 0.02
210 128 0.72
211 47 0.26
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (211 bp):
TCCTACTCTTTGAGGACTACAAAGTGCCACCAACTTGAGTGGGCTTTGAAAAGAAAAAGGCATCC
TGCTCTTTGAGGACTGGAGAGTGCCACCAACTCGTGTGGGATTTAAAAGGCGTCATGCTCTTTGA
GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAGG
GTGAAAAGAGAGAGCA
Found at i:1998569 original size:25 final size:25
Alignment explanation
Indices: 1998541--1998624 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
1998531 GTGGGCTTTG
1998541 AAAGGCGTCCTGCTCTTTGAGGACT
1 AAAGGCGTCCTGCTCTTTGAGGACT
* ** * * *
1998566 AAAGGTG-CCACCAACTTGTGTGGGCTTT
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--T
1998594 AAAAGGCGTCCTGCTCTTTGAGGACT
1 -AAAGGCGTCCTGCTCTTTGAGGACT
1998620 AAAGG
1 AAAGG
1998625 GTGAAGGGAG
Statistics
Matches: 41, Mismatches: 12, Indels: 12
0.63 0.18 0.18
Matches are distributed among these distances:
24 3 0.07
25 14 0.34
26 6 0.15
28 6 0.15
29 9 0.22
30 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (25 bp):
AAAGGCGTCCTGCTCTTTGAGGACT
Found at i:1998612 original size:109 final size:112
Alignment explanation
Indices: 1998377--1998620 Score: 352
Period size: 109 Copynumber: 2.2 Consensus size: 112
1998367 AGAGAGAGCA
* **
1998377 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCATCCT
*
1998442 GCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
62 GCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCG
* *
1998493 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-G-AAAGGCGTCCTGCTC
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTC
*
1998556 TTTGAGGACT-A-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
66 TTTGAGGACTGAGAA-GTGCCACCAACTCGTGTGGGCTTTAAAAGGCG
1998602 TCCTGCTCTTTGAGGACTA
1 TCCTGCTCTTTGAGGACTA
1998621 AAGGGTGAAG
Statistics
Matches: 119, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
108 2 0.02
109 49 0.41
110 24 0.20
111 1 0.01
116 43 0.36
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (112 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTC
TTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCG
Found at i:1998739 original size:60 final size:60
Alignment explanation
Indices: 1998644--1998807 Score: 209
Period size: 60 Copynumber: 2.8 Consensus size: 60
1998634 GAGGGCGTCT
* *
1998644 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGTGT-GGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGG-AAAGACATCC
* *
1998704 TTCTCTTTAAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTT-----GAAAGACATCC
1 TGCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAGACATCC
*
1998759 TGCTCTTTGAGGACT-A-AATGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TGCTCTTTGAGGACTGAGAA-GTGCCACCAACTCGTGTGGGCTTTAAAAGG
1998808 CGTCCTGCTT
Statistics
Matches: 90, Mismatches: 7, Indels: 15
0.80 0.06 0.13
Matches are distributed among these distances:
53 2 0.02
54 24 0.27
55 22 0.24
56 1 0.01
59 1 0.01
60 34 0.38
61 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (60 bp):
TGCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAGACATCC
Found at i:1998762 original size:208 final size:209
Alignment explanation
Indices: 1998435--1998929 Score: 754
Period size: 208 Copynumber: 2.4 Consensus size: 209
1998425 AAAGGAAAAG
*
1998435 GCATCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTC
1 GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGTGTGGGCTTTAAAGGAAAAGGCGTC
* * *
1998495 CTGCTCTTTGAGGACTG-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
66 CTGCTCTTTGAGGACTGAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGACATCCTGCTCTTT
1998559 GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAG
131 GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAG
* *
1998624 GGTGAAGGGAGAGG
196 GGTGAAAGGAGAGA
* * *
1998638 GCGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGTGT-GGCTTTAAAAGGAAAAGGCAT
1 GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGTGTGGGCTTT-AAAGGAAAAGGCGT
* * *
1998702 CCTTCTCTTTAAGGACTGAG-AAGTGCCACCAACTCGTGTGGGCTTTGAAAGACATCCTGCTCTT
65 CCTGCTCTTTGAGGACTGAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGACATCCTGCTCTT
* *
1998766 TGAGGACTAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGGACTAAA
130 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAA
*
1998831 GGGTGAAATGAGAGA
195 GGGTGAAAGGAGAGA
* * *
1998846 GCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTACAAGGAGAAGGCGT
1 GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGTGTGGGCTTTA-AAGGAAAAGGCGT
1998911 CCTGCTCTTTGAGGACTGA
65 CCTGCTCTTTGAGGACTGA
1998930 AAAGCGGAAG
Statistics
Matches: 260, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
202 6 0.02
203 40 0.15
207 1 0.00
208 178 0.68
209 35 0.13
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (209 bp):
GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGTGTGGGCTTTAAAGGAAAAGGCGTC
CTGCTCTTTGAGGACTGAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGACATCCTGCTCTTT
GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAG
GGTGAAAGGAGAGA
Found at i:1998772 original size:154 final size:148
Alignment explanation
Indices: 1998489--1998776 Score: 391
Period size: 154 Copynumber: 1.9 Consensus size: 148
1998479 GGCTTTGAAA
* *
1998489 GGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
1 GGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGC
* * * *
1998554 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
66 TCTTTAAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGACATCCTGCTCTTTGAGGAC
1998619 TAAAGGGTGAAGGGAGAG
131 TAAAGGGTGAAGGGAGAG
* * *
1998637 GGCGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGTGT-GGCTTTAAAAGGAAAAGGCA
1 GGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTT-----G-AAAGGCA
* *
1998701 TCCTTCTCTTTAAGGACTGAGAA-GTGCCACCAACTCGTGTGGGCTTTGAAAGACATCCTGCTCT
60 TCCTGCTCTTTAAGGACT-A-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAGACATCCTGCTCT
1998765 TTGAGGACTAAA
123 TTGAGGACTAAA
1998777 TGTGCCACCA
Statistics
Matches: 121, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
147 6 0.05
148 40 0.33
152 1 0.01
153 22 0.18
154 50 0.41
155 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (148 bp):
GGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGC
TCTTTAAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGACATCCTGCTCTTTGAGGAC
TAAAGGGTGAAGGGAGAG
Found at i:1998796 original size:54 final size:53
Alignment explanation
Indices: 1998644--1998831 Score: 198
Period size: 54 Copynumber: 3.4 Consensus size: 53
1998634 GAGGGCGTCT
*
1998644 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTCGTGT-GGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACT--AAAGTGCCACCAACTCGTGTGGGCTTT------AAAAGGCATCC
* * * *
1998704 TTCTCTTTAAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGACATCC
1 TGCTCTTTGAGGACT-A-AAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCC
* *
1998759 TGCTCTTTGAGGACTAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
1 TGCTCTTTGAGGACTAAA-GTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCC
*
1998813 TGCTTTTTGAGGACTAAAG
1 TGCTCTTTGAGGACTAAAG
1998832 GGTGAAATGA
Statistics
Matches: 113, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
53 3 0.03
54 49 0.43
55 22 0.19
59 1 0.01
60 32 0.28
61 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (53 bp):
TGCTCTTTGAGGACTAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCC
Found at i:1998931 original size:93 final size:87
Alignment explanation
Indices: 1998754--1998931 Score: 207
Period size: 93 Copynumber: 1.9 Consensus size: 87
1998744 CTTTGAAAGA
*
1998754 CATCCTGCTCTTTGAGGACTAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTT
1 CATCCTGCTCTTTGAGGACTAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1998819 TTGAGGACTAAAGGGTGAAATGAGAGAG
66 TTGAGGAC---A---TGAAATGAGAGAG
1998847 CATCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTACAAGGAGAAGGCGT
1 CATCCTGCTCTTTGAGGACTA--AATGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCGT
1998911 CCTGCTCTTTGAGGAC-TGAAA
58 CCTGCTCTTTGAGGACATGAAA
1998932 AGCGGAAGGA
Statistics
Matches: 76, Mismatches: 1, Indels: 16
0.82 0.01 0.17
Matches are distributed among these distances:
93 26 0.34
94 24 0.32
95 2 0.03
97 1 0.01
99 1 0.01
100 22 0.29
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (87 bp):
CATCCTGCTCTTTGAGGACTAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
TTGAGGACATGAAATGAGAGAG
Found at i:1999936 original size:16 final size:15
Alignment explanation
Indices: 1999917--1999969 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 15
1999907 CTTTTCTCTC
1999917 TTTTTTCTTTGTTTTG
1 TTTTTT-TTTGTTTTG
1999933 TTTTTTTTTTGTTTT-
1 -TTTTTTTTTGTTTTG
1999948 TTTTTATTTT-TTTTG
1 TTTTT-TTTTGTTTTG
1999963 TTTTTTT
1 TTTTTTT
1999970 AAATTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.32
15 9 0.26
16 8 0.24
17 6 0.18
ACGTcount: A:0.02, C:0.02, G:0.08, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTGTTTTG
Found at i:1999939 original size:19 final size:15
Alignment explanation
Indices: 1999897--1999969 Score: 67
Period size: 16 Copynumber: 4.7 Consensus size: 15
1999887 GCTTAAGCAA
*
1999897 GTTTTTTTTTCTTTT
1 GTTTTTTTTTTTTTT
* * * *
1999912 CTCTCTTTTTTCTTT
1 GTTTTTTTTTTTTTT
1999927 GTTTTGTTTTTTTTTT
1 GTTTT-TTTTTTTTTT
1999943 GTTTTTTTTTATTTTT
1 GTTTTTTTTT-TTTTT
1999959 -TTTGTTTTTTT
1 GTTT-TTTTTTT
1999970 AAATTTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
15 21 0.46
16 25 0.54
ACGTcount: A:0.01, C:0.07, G:0.07, T:0.85
Consensus pattern (15 bp):
GTTTTTTTTTTTTTT
Found at i:1999975 original size:19 final size:19
Alignment explanation
Indices: 1999935--1999980 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1999925 TTGTTTTGTT
**
1999935 TTTTTTTTGTTTTTTTTTA
1 TTTTTTTTGTTTTTTTAAA
1999954 TTTTTTTTGTTTTTTTAAA
1 TTTTTTTTGTTTTTTTAAA
1999973 TTTTTTTT
1 TTTTTTTT
1999981 AGAAGAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.04, T:0.87
Consensus pattern (19 bp):
TTTTTTTTGTTTTTTTAAA
Found at i:1999978 original size:30 final size:30
Alignment explanation
Indices: 1999917--1999980 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
1999907 CTTTTCTCTC
* **
1999917 TTTTTTCTTTGTTTTGTTTTTTTTTTGTTT
1 TTTTTTATTTGTTTTGTTTTTTTAATGTTT
* *
1999947 TTTTTTATTTTTTTTGTTTTTTTAA-ATTT
1 TTTTTTATTTGTTTTGTTTTTTTAATGTTT
1999976 TTTTT
1 TTTTT
1999981 AGAAGAGAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.06, C:0.02, G:0.06, T:0.86
Consensus pattern (30 bp):
TTTTTTATTTGTTTTGTTTTTTTAATGTTT
Found at i:1999980 original size:1 final size:1
Alignment explanation
Indices: 1999898--1999969 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
1999888 CTTAAGCAAG
* * * * * * * * * *
1999898 TTTTTTTTTCTTTTCTCTCTTTTTTCTTTGTTTTGTTTTTTTTTTGTTTTTTTTTATTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1999963 TTTTTTT
1 TTTTTTT
1999970 AAATTTTTTT
Statistics
Matches: 51, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.01, C:0.07, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:2013894 original size:52 final size:52
Alignment explanation
Indices: 2013816--2013944 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2013806 CGAAATATGA
*
2013816 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
2013868 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
2013920 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2013945 AAGATCATTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:2013957 original size:52 final size:51
Alignment explanation
Indices: 2013816--2013964 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 51
2013806 CGAAATATGA
* *
2013816 AAATTTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATATCAT--TGTATCGATACATCTAGGC
* *
2013868 AAATTTGCCTGCATGTATCGATACATTTTAT-AGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA--ATATCATTGTATCGATACATCTAGGC
*
2013920 AAATTTGCCTGCATGTATCGATACAAAGATCATTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAC-AATATCATTGTATCGATACA
2013965 ATGTATCAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
51 2 0.02
52 79 0.93
53 1 0.01
54 1 0.01
55 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAATATCATTGTATCGATACATCTAGGC
Found at i:2014044 original size:19 final size:18
Alignment explanation
Indices: 2014020--2014117 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
2014010 TAGCTTACAT
2014020 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2014039 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2014052 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2014071 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2014084 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
2014104 TGTATCGATACAAA
1 TGTATCGATACAAA
2014118 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2014056 original size:32 final size:32
Alignment explanation
Indices: 2014015--2014115 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
2014005 GGCAGTAGCT
*
2014015 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
2014047 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
2014079 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
2014112 TACA
1 TACA
2014116 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:2014057 original size:13 final size:13
Alignment explanation
Indices: 2014039--2014095 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2014029 ACAAAACTTA
2014039 TGTATCGATACAT
1 TGTATCGATACAT
2014052 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
2014070 ATGTATCGATACAT
1 -TGTATCGATACAT
2014084 TGTATCGATACA
1 TGTATCGATACA
2014096 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2016145 original size:51 final size:51
Alignment explanation
Indices: 2016078--2016196 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
2016068 TTGAAAATAA
* * *
2016078 TGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGA-TTTGGAAATAAAAC
1 TGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-ATTTTAGAAATAAAAC
* * *
2016129 TGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGC
1 TGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAAC
*
2016180 CGGGGTTGGAGTATCCC
1 TGGGGTTGGAGTATCCC
2016197 TTCGGAAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 59 0.98
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAAC
Found at i:2016215 original size:79 final size:80
Alignment explanation
Indices: 2016130--2016304 Score: 300
Period size: 79 Copynumber: 2.2 Consensus size: 80
2016120 AAATAAAACT
*
2016130 GGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCC-GGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGGTTGGAGTAT
*
2016194 C-CCTTCGGAAATAAC
66 CTCC-TCGAAAATAAC
*
2016209 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGGTTGGAGTAT
2016274 CTCCTCGAAAATAAC
66 CTCCTCGAAAATAAC
2016289 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
2016305 TGATGATTAA
Statistics
Matches: 91, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
79 49 0.54
80 40 0.44
81 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (80 bp):
GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGGTTGGAGTAT
CTCCTCGAAAATAAC
Found at i:2016323 original size:27 final size:27
Alignment explanation
Indices: 2016261--2016358 Score: 153
Period size: 27 Copynumber: 3.6 Consensus size: 27
2016251 AATAAAGCCG
* *
2016261 GGGGTTGGAGTATCTCCTCGA-AAATAAC
1 GGGGTTGGAGTATC-CCT-GATGATTAAC
2016289 GGGGTTGGAGTATCCCTGATGATTAAC
1 GGGGTTGGAGTATCCCTGATGATTAAC
2016316 GGGGTTGGAGTATCCCTGATGATTAAC
1 GGGGTTGGAGTATCCCTGATGATTAAC
2016343 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
2016359 CGATTGTGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
26 2 0.03
27 51 0.76
28 14 0.21
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCTGATGATTAAC
Found at i:2016501 original size:51 final size:51
Alignment explanation
Indices: 2016342--2016528 Score: 277
Period size: 52 Copynumber: 3.6 Consensus size: 51
2016332 TGATGATTAA
*
2016342 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTGAAAATAAAAT
* * * * *
2016394 CGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAAT
*
2016446 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT-AGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGA-AAATAAAAT
2016497 CGGGGTTGGAGTATCCCCGATTATGAAAAATT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATT
2016529 GAGAAACTTA
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.01
51 53 0.44
52 56 0.47
53 10 0.08
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAAT
Found at i:2018990 original size:19 final size:19
Alignment explanation
Indices: 2018966--2019038 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
2018956 AACGATACAT
*
2018966 TGTATCGATACAAAATTTA
1 TGTATCGATACAAAACTTA
2018985 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
* ** *
2019004 TGTATCAATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
2019025 TGTATCGATACAAA
1 TGTATCGATACAAA
2019039 TTATTGAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 29 0.66
20 3 0.07
21 12 0.27
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2019529 original size:14 final size:13
Alignment explanation
Indices: 2019502--2019546 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
2019492 ATCCGGACCC
2019502 TTTTTTTTTGTT-
1 TTTTTTTTTGTTG
*
2019514 TTTTGTTTTG--G
1 TTTTTTTTTGTTG
2019525 TTTTTTTTTGTTG
1 TTTTTTTTTGTTG
2019538 TTTTTTTTT
1 TTTTTTTTT
2019547 TGCGAAGGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 9 0.32
13 10 0.36
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTGTTG
Found at i:2019530 original size:23 final size:24
Alignment explanation
Indices: 2019502--2019546 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
2019492 ATCCGGACCC
2019502 TTTTTTTTTGTT-TTTTGTTTTGG
1 TTTTTTTTTGTTGTTTTGTTTTGG
*
2019525 TTTTTTTTTGTTGTTTTTTTTT
1 TTTTTTTTTGTTGTTTTGTTTT
2019547 TGCGAAGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (24 bp):
TTTTTTTTTGTTGTTTTGTTTTGG
Found at i:2026826 original size:294 final size:294
Alignment explanation
Indices: 2026297--2028062 Score: 3388
Period size: 294 Copynumber: 6.0 Consensus size: 294
2026287 TGAGTGCGAG
2026297 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
1 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
2026362 AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
66 AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
2026427 TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
131 TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
2026492 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
196 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
2026557 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
261 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
2026591 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
1 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
2026656 AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
66 AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
2026721 TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
131 TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
2026786 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
196 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
2026851 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
261 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
2026885 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
1 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
2026950 AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
66 AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
2027015 TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
131 TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
2027080 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
196 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
2027145 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
261 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
* *
2027179 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTGGTGGTGCCTGAGGGGCAGGTGTA
1 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
* *
2027244 GGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAAGGGAT
66 AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
*
2027309 TTCAGTGTTAGGGGATCATTCCTCATTTCAACAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
131 TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
*
2027374 CATCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
196 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
2027439 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
261 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
* *
2027473 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTGGTGGTGCTTGAGGGGCAGGTGCA
1 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
*
2027538 GGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
66 AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
*
2027603 TTCAGTGTTAGGGGATCATTCCTCATTTCAACAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
131 TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
2027668 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
196 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
2027733 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
261 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
*
2027767 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTGGTGGTGCCTGAGGGGCAGGTGCA
1 GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
*
2027832 GGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
66 AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
* **
2027897 TTCAGTGTTTGGGGATCATTCCTTGTTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
131 TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
*
2027962 CGTCATGATTTCCATGAGTTTCATGATCTGGGCTTGCATTTCGTCTTGTTGACGATTCATTTGAT
196 CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
2028027 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
261 CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
2028061 GA
1 GA
2028063 TCCTGGCCTG
Statistics
Matches: 1456, Mismatches: 16, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
294 1456 1.00
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.35
Consensus pattern (294 bp):
GAATGAATTGGCTTGCCGCCATGGGATTTAGGTAGATAACTAGTGGTGCCTGAGGGGCAGGTGCA
AGAACGGGACATGGTTCTTGTCTAGCTTCTCCTTGAGTGGGTTTTGGATTACTAGCGGAGGGGAT
TTCAGTGTTAGGGGATCATTCCTCATTTCAGCAATGCTTGCTTGCCCTTTTTCTTTTAGGGATGT
CGTCATGATTTCCATGAGTTTCATGATCTGGGCCTGCATTTCGTCTTGTTGACGATTCATTTGAT
CTTGGGCTTCCTTATACATCAACTCGAGCTGCTC
Found at i:2038061 original size:13 final size:13
Alignment explanation
Indices: 2038043--2038070 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2038033 ATACAAAGAT
2038043 CAATGTATCGATA
1 CAATGTATCGATA
2038056 CAATGTATCGATA
1 CAATGTATCGATA
2038069 CA
1 CA
2038071 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2038067 original size:33 final size:33
Alignment explanation
Indices: 2038025--2038090 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2038015 AATTTCCCAG
2038025 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
2038058 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
2038091 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:2038120 original size:30 final size:30
Alignment explanation
Indices: 2038079--2038172 Score: 82
Period size: 30 Copynumber: 3.5 Consensus size: 30
2038069 CATTGAATAA
*
2038079 TGTATCGATACATTTCCTTGGCAGTAGCTT
1 TGTAGCGATACATTTCCTTGGCAGTAGCTT
* *
2038109 TGTAGCGATACA-----TT-G-AATA---A
1 TGTAGCGATACATTTCCTTGGCAGTAGCTT
*
2038129 TGTATCGATACATTTCCTTGGCAGTAGCTT
1 TGTAGCGATACATTTCCTTGGCAGTAGCTT
2038159 TGTAGCGATACATT
1 TGTAGCGATACATT
2038173 GTATCGATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 20
0.64 0.09 0.27
Matches are distributed among these distances:
20 11 0.23
23 3 0.06
24 1 0.02
25 4 0.09
26 1 0.02
27 3 0.06
30 24 0.51
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (30 bp):
TGTAGCGATACATTTCCTTGGCAGTAGCTT
Found at i:2038126 original size:50 final size:50
Alignment explanation
Indices: 2038059--2038173 Score: 221
Period size: 50 Copynumber: 2.3 Consensus size: 50
2038049 ATCGATACAA
*
2038059 TGTATCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTT
1 TGTAGCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTT
2038109 TGTAGCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTT
1 TGTAGCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTT
2038159 TGTAGCGATACATTG
1 TGTAGCGATACATTG
2038174 TATCGATACA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (50 bp):
TGTAGCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTT
Found at i:2040016 original size:21 final size:21
Alignment explanation
Indices: 2039990--2040038 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
2039980 GCATAGAAGC
2039990 ATCCGAGTACCTCGAAATGAA
1 ATCCGAGTACCTCGAAATGAA
2040011 ATCCGAGTACCTCGAAATGAA
1 ATCCGAGTACCTCGAAATGAA
2040032 ATCCGAG
1 ATCCGAG
2040039 AGAGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (21 bp):
ATCCGAGTACCTCGAAATGAA
Found at i:2042064 original size:13 final size:13
Alignment explanation
Indices: 2042046--2042070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2042036 CAAAAATCAG
2042046 TGTATCGATACAA
1 TGTATCGATACAA
2042059 TGTATCGATACA
1 TGTATCGATACA
2042071 TTGGGGTAGT
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:2042488 original size:37 final size:37
Alignment explanation
Indices: 2042367--2042493 Score: 113
Period size: 37 Copynumber: 3.6 Consensus size: 37
2042357 AGCTATCTAA
* * *
2042367 GCCACCAACTCGTATGGGCTTAGACTCAAACTTAGGT
1 GCCACCAACTCGTGTGGGCTTAGACTTAGACTTAGGT
* ** * *
2042404 GCCACCAGCTTTTGTGAGCTTTGAC-TAG-----GGT
1 GCCACCAACTCGTGTGGGCTTAGACTTAGACTTAGGT
*
2042435 GCCACCAACTCATGTGGGCTTAGACTTAGACTTAGGT
1 GCCACCAACTCGTGTGGGCTTAGACTTAGACTTAGGT
* *
2042472 GCTACCAACTTGTGTGGGCTTA
1 GCCACCAACTCGTGTGGGCTTA
2042494 TAAAAGAGGA
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
31 23 0.34
32 3 0.04
36 1 0.01
37 41 0.60
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.28
Consensus pattern (37 bp):
GCCACCAACTCGTGTGGGCTTAGACTTAGACTTAGGT
Found at i:2042576 original size:34 final size:35
Alignment explanation
Indices: 2042518--2042585 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
2042508 ATATGAGTAG
* * *
2042518 GCATCCTGCTTTTTAAGGATAAAGG-AAAAGAAAT
1 GCATCCTACTCTTTAAGGACAAAGGAAAAAGAAAT
*
2042552 GCATCCTACTCTTTGAGGACAAAGGAAAAAGAAA
1 GCATCCTACTCTTTAAGGACAAAGGAAAAAGAAA
2042586 AATGAAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 21 0.72
35 8 0.28
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.22
Consensus pattern (35 bp):
GCATCCTACTCTTTAAGGACAAAGGAAAAAGAAAT
Found at i:2042593 original size:42 final size:41
Alignment explanation
Indices: 2042532--2042811 Score: 143
Period size: 40 Copynumber: 7.0 Consensus size: 41
2042522 CCTGCTTTTT
* * * *
2042532 AAGGATAAAGGAAAAGAAATGCATCCTACTCTTTGAGGACA
1 AAGGAAAAAGAAAAAGAAATGCGTCCTGCTCTTTGAGGACA
*
2042573 AAGGAAAAAGAAAAATGAAATAG-GTCCTGCTCCTTGAGGACA
1 AAGGAAAAAGAAAAA-GAAAT-GCGTCCTGCTCTTTGAGGACA
* * * *
2042615 AAGGAAAAAGGAAAAAAGGAATGCGTCTTGCTATTTAAGGACA
1 AAGGAAAAA-G-AAAAAGAAATGCGTCCTGCTCTTTGAGGACA
** * * * * * *
2042658 AAGGGAAAAA-AAGACTGAAGTGTGTCTTGCTCCTTAAAG-CA
1 AA-GGAAAAAGAA-AAAGAAATGCGTCCTGCTCTTTGAGGACA
* * * * * *
2042699 AAGG-----G-AAAAGAATTACATCTTGCTCTTCGAGGATA
1 AAGGAAAAAGAAAAAGAAATGCGTCCTGCTCTTTGAGGACA
* * * * *
2042734 AAGGAAAAAG-AAATGAAGTGCATCCTACTCCTTGAGGACA
1 AAGGAAAAAGAAAAAGAAATGCGTCCTGCTCTTTGAGGACA
* *
2042774 AAAGAAAAA-ACAAAA-AAATGTGTCCTGCTCTTTGAGGA
1 AAGGAAAAAGA-AAAAGAAATGCGTCCTGCTCTTTGAGGA
2042812 TGAAGGGTGT
Statistics
Matches: 179, Mismatches: 44, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
34 16 0.09
35 6 0.03
40 51 0.28
41 22 0.12
42 49 0.27
43 23 0.13
44 12 0.07
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (41 bp):
AAGGAAAAAGAAAAAGAAATGCGTCCTGCTCTTTGAGGACA
Found at i:2042656 original size:43 final size:42
Alignment explanation
Indices: 2042567--2042667 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 42
2042557 CTACTCTTTG
* * *
2042567 AGGACAAAGGAAAAAGAAAAATGAAATAGGTCCTGCTCCTTG
1 AGGACAAAGGAAAAAGAAAAAAGAAATAGGTCCTGCTACTTA
* * *
2042609 AGGACAAAGGAAAAAGGAAAAAAGGAAT-GCGTCTTGCTATTTA
1 AGGACAAAGGAAAAA-GAAAAAAGAAATAG-GTCCTGCTACTTA
2042652 AGGACAAAGGGAAAAA
1 AGGACAAA-GGAAAAA
2042668 AAGACTGAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 16 0.32
43 27 0.54
44 7 0.14
ACGTcount: A:0.49, C:0.11, G:0.26, T:0.15
Consensus pattern (42 bp):
AGGACAAAGGAAAAAGAAAAAAGAAATAGGTCCTGCTACTTA
Found at i:2049928 original size:22 final size:22
Alignment explanation
Indices: 2049896--2049963 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
2049886 AATTATAACT
2049896 CCTTAATTAAAAAATTTTCTCCC
1 CCTTAA-TAAAAAATTTTCTCCC
***
2049919 CCTTAATAAATTTTTTTCTCCC
1 CCTTAATAAAAAATTTTCTCCC
2049941 CCTTAAT--AAAATTTT-TCCC
1 CCTTAATAAAAAATTTTCTCCC
2049960 CCTT
1 CCTT
2049964 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 8 0.21
20 5 0.13
22 20 0.51
23 6 0.15
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (22 bp):
CCTTAATAAAAAATTTTCTCCC
Found at i:2052279 original size:146 final size:145
Alignment explanation
Indices: 2052111--2052390 Score: 497
Period size: 146 Copynumber: 1.9 Consensus size: 145
2052101 AAAATCATTC
*
2052111 AAACAAATTATCAAAAGTGCAACATAACATATCATGTGACCATAAACATGCATATTTGGCATTGT
1 AAACAAATTATCAAAAGTGCAACAGAACATATCATGTGACCATAAACATGCATATTTGGCATTGT
2052176 GAACATATTTGGTAATTCAATATGATTTTACAAATAAAAACATTAAAAACACAAGTAAAAGAAAT
66 GAACATATTTGGTAATTCAATATGATTTTACAAA-AAAAACATTAAAAACACAAGTAAAAGAAAT
2052241 ATCAAAATAGGTACAT
130 ATCAAAATAGGTACAT
*
2052257 AAACAAATTATCAAAAGTGCAACAGAACCTATCATGTGACCATAAACATGCATATTTGGCATTGT
1 AAACAAATTATCAAAAGTGCAACAGAACATATCATGTGACCATAAACATGCATATTTGGCATTGT
* * * *
2052322 GAACATATTTGGTCATTCAATATGATTTTACAGAAAAAACATTAAAAACACATGTAAATGAAATA
66 GAACATATTTGGTAATTCAATATGATTTTACAAAAAAAACATTAAAAACACAAGTAAAAGAAATA
2052387 TCAA
131 TCAA
2052391 GTACATAAAC
Statistics
Matches: 128, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
145 33 0.26
146 95 0.74
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (145 bp):
AAACAAATTATCAAAAGTGCAACAGAACATATCATGTGACCATAAACATGCATATTTGGCATTGT
GAACATATTTGGTAATTCAATATGATTTTACAAAAAAAACATTAAAAACACAAGTAAAAGAAATA
TCAAAATAGGTACAT
Found at i:2057927 original size:13 final size:13
Alignment explanation
Indices: 2057909--2057933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2057899 CATAAAGTGT
2057909 TGTATCGATACAA
1 TGTATCGATACAA
2057922 TGTATCGATACA
1 TGTATCGATACA
2057934 TATTTTTTTG
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:2058014 original size:13 final size:13
Alignment explanation
Indices: 2057996--2058020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2057986 ATTACTCAAA
2057996 TGTATCGATACAT
1 TGTATCGATACAT
2058009 TGTATCGATACA
1 TGTATCGATACA
2058021 CTGATCTTTG
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):
TGTATCGATACAT
Found at i:2058085 original size:52 final size:52
Alignment explanation
Indices: 2058029--2058153 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
2058019 CACTGATCTT
*
2058029 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2058081 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2058133 TGTGTCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2058154 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2061836 original size:27 final size:27
Alignment explanation
Indices: 2061805--2061879 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
2061795 AATTTTGAAG
*
2061805 AAAAGCAGGGTTGGAGTATCCCTTCCC
1 AAAAGCAGGGTTGGAGTATCCCCTCCC
* *
2061832 AAAAGCGGGGTTGGAGTATCCCCTCGC
1 AAAAGCAGGGTTGGAGTATCCCCTCCC
*
2061859 AAAAGCAAGGTTGGAGTATCC
1 AAAAGCAGGGTTGGAGTATCC
2061880 TCGACGATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (27 bp):
AAAAGCAGGGTTGGAGTATCCCCTCCC
Found at i:2063918 original size:32 final size:32
Alignment explanation
Indices: 2063848--2063921 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
2063838 CTGCAAAATG
* *
2063848 TATCGACACATCTAGGTCAAAAACCCAGAATG
1 TATCGATACATCTAGGTCAAAAACCCAGAATA
*
2063880 TATCGATACATCTAGGTCAAAAACCTAGAATA
1 TATCGATACATCTAGGTCAAAAACCCAGAATA
2063912 TATCGATACA
1 TATCGATACA
2063922 AAGAAAATGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.23
Consensus pattern (32 bp):
TATCGATACATCTAGGTCAAAAACCCAGAATA
Found at i:2064574 original size:31 final size:31
Alignment explanation
Indices: 2064507--2064880 Score: 259
Period size: 31 Copynumber: 11.9 Consensus size: 31
2064497 CTCGGACATA
* * *
2064507 GGTGCCACCAATTTGTGTGGGTTTTGACTCA-
1 GGTGCCGCCAACTTGTGTGGGCTTTGACT-AG
* * *
2064538 AGTGCCGCCAACTCGTGTTGGCTTTGACTAG
1 GGTGCCGCCAACTTGTGTGGGCTTTGACTAG
* * *
2064569 GGTGCCACCAACTTATGTGGGCTTAGACTTAG
1 GGTGCCGCCAACTTGTGTGGGCTTTGAC-TAG
* ** * * *
2064601 GTTTAGGTGCCACAGCTTATGTGGGCTTAGACTCG
1 G-GT-GCCGCCA-A-CTTGTGTGGGCTTTGACTAG
* * * * *
2064636 GGTGTCGTCAACTTATGCGGGCTTTGATTAG
1 GGTGCCGCCAACTTGTGTGGGCTTTGACTAG
*
2064667 GGTGCCACCAACTTGTGTGGGCTTTGACTTA-
1 GGTGCCGCCAACTTGTGTGGGCTTTGAC-TAG
* * *
2064698 GGTGCCGTCAGCTTTTGTGGGCTTTGACTAG
1 GGTGCCGCCAACTTGTGTGGGCTTTGACTAG
*
2064729 GGTGCCACCAACTTGTGTGGGCTTTGACTTA-
1 GGTGCCGCCAACTTGTGTGGGCTTTGAC-TAG
* * * * ** *
2064760 GGTGCTGCTAGCTTGTGCGAACTTTGATTAG
1 GGTGCCGCCAACTTGTGTGGGCTTTGACTAG
* * * *
2064791 GGTGCCACCAACTTATGTGGCCTTTGACTCG
1 GGTGCCGCCAACTTGTGTGGGCTTTGACTAG
* *** *
2064822 GGTGCTGCCAACTTGTGCAAGCTTTAACTAG
1 GGTGCCGCCAACTTGTGTGGGCTTTGACTAG
* * *
2064853 GGTGCCACCAACTTTTATGGGCTTTGAC
1 GGTGCCGCCAACTTGTGTGGGCTTTGAC
2064881 ATTCTAAGGC
Statistics
Matches: 259, Mismatches: 74, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
30 5 0.02
31 214 0.83
32 9 0.03
33 5 0.02
34 5 0.02
35 4 0.02
36 17 0.07
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (31 bp):
GGTGCCGCCAACTTGTGTGGGCTTTGACTAG
Found at i:2064764 original size:93 final size:92
Alignment explanation
Indices: 2064522--2064880 Score: 301
Period size: 93 Copynumber: 3.8 Consensus size: 92
2064512 CACCAATTTG
* * * ** *
2064522 TGTGGGTTTTGACTCA-AGTGCCGCCAACTCGTGTTGGCTTTGACTAGGGTGCCACCAACTTATG
1 TGTGGGCTTTGACT-AGGGTGCCGCCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTTGTG
*
2064586 TGGGCTTAGACTTAGGTTTAGGTGCCACAGCTTA
65 TGGGCTTTGAC------TTAGGTGCCACAGCTTA
* * * * * *
2064620 TGTGGGCTTAGACTCGGGTGTCGTCAACTTATGCGGGCTTTGATTAGGGTGCCACCAACTTGTGT
1 TGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTTGTGT
* *
2064685 GGGCTTTGACTTAGGTGCCGTCAGCTTT
66 GGGCTTTGACTTAGGTGCC-ACAGCTTA
* * ** * *
2064713 TGTGGGCTTTGACTAGGGTGCCACCAACTTGTGTGGGCTTTGACTTA-GGTGCTGCTAGCTTGTG
1 TGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGCGGGCTTTGAC-TAGGGTGCCACCAACTTGTG
* ** *
2064777 CGAACTTTGA-TTAGGGTGCCACCAACTTA
65 TGGGCTTTGACTTA-GGTGCCA-CAGCTTA
* * * ** * * *
2064806 TGTGGCCTTTGACTCGGGTGCTGCCAACTTGTGCAAGCTTTAACTAGGGTGCCACCAACTTTTAT
1 TGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTTGTGT
2064871 GGGCTTTGAC
66 GGGCTTTGAC
2064881 ATTCTAAGGC
Statistics
Matches: 204, Mismatches: 50, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
92 14 0.07
93 127 0.62
94 2 0.01
98 61 0.30
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (92 bp):
TGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTTGTGT
GGGCTTTGACTTAGGTGCCACAGCTTA
Found at i:2064802 original size:124 final size:124
Alignment explanation
Indices: 2064657--2064880 Score: 322
Period size: 124 Copynumber: 1.8 Consensus size: 124
2064647 CTTATGCGGG
* * * * * * ***
2064657 CTTTGATTAGGGTGCCACCAACTTGTGTGGGCTTTGACTTAGGTGCCGTCAGCTTTTGTGGGCTT
1 CTTTGATTAGGGTGCCACCAACTTATGTGGCCTTTGACTCAGGTGCCGCCAACTTGTGCAAGCTT
* *
2064722 TGACTAGGGTGCCACCAACTTGTGTGGGCTTTGACTTAGGTGCTGCTAGCTTGTGCGAA
66 TAACTAGGGTGCCACCAACTTGTATGGGCTTTGACTTAGGTGCTGCTAGCTTGTGCGAA
* *
2064781 CTTTGATTAGGGTGCCACCAACTTATGTGGCCTTTGACTCGGGTGCTGCCAACTTGTGCAAGCTT
1 CTTTGATTAGGGTGCCACCAACTTATGTGGCCTTTGACTCAGGTGCCGCCAACTTGTGCAAGCTT
*
2064846 TAACTAGGGTGCCACCAACTTTTATGGGCTTTGAC
66 TAACTAGGGTGCCACCAACTTGTATGGGCTTTGAC
2064881 ATTCTAAGGC
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
124 86 1.00
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.33
Consensus pattern (124 bp):
CTTTGATTAGGGTGCCACCAACTTATGTGGCCTTTGACTCAGGTGCCGCCAACTTGTGCAAGCTT
TAACTAGGGTGCCACCAACTTGTATGGGCTTTGACTTAGGTGCTGCTAGCTTGTGCGAA
Found at i:2065130 original size:40 final size:41
Alignment explanation
Indices: 2065049--2065187 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 41
2065039 ATCTTGCTCT
* * * * *
2065049 TTGAGGACAAAGAAAAAAGAGAATGAAATGGGTCTTGCTCC
1 TTGAGGACAAAGGAAAAGGAGAATGAAATGAGTCCTACTCC
* *
2065090 TTGAGGATAAAGGAAAAGGAG-ATGAAGTGAGTCCTACTCC
1 TTGAGGACAAAGGAAAAGGAGAATGAAATGAGTCCTACTCC
* *
2065130 TTAAGGACAAAGGGAAAAGGA-AA-GAAA-GCA-TCCTACTTC
1 TTGAGGACAAA-GGAAAAGGAGAATGAAATG-AGTCCTACTCC
*
2065169 TCGAGGACAAAGGGAAAAG
1 TTGAGGACAAA-GGAAAAG
2065188 AATGCGTCCT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
39 26 0.32
40 28 0.34
41 28 0.34
ACGTcount: A:0.42, C:0.13, G:0.28, T:0.17
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAGGAGAATGAAATGAGTCCTACTCC
Found at i:2078353 original size:19 final size:19
Alignment explanation
Indices: 2078324--2078384 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
2078314 GCTTTGTATC
* *
2078324 GATACATTGTATTGATGCAT
1 GATA-ATTGTATCGATACAT
2078344 GATAATTGTATCGATACAT
1 GATAATTGTATCGATACAT
*
2078363 GGACAATTGTATCGATACAT
1 -GATAATTGTATCGATACAT
2078383 GA
1 GA
2078385 GATTGGCAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.41
20 22 0.59
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:2086708 original size:20 final size:19
Alignment explanation
Indices: 2086685--2086763 Score: 97
Period size: 20 Copynumber: 4.1 Consensus size: 19
2086675 CACACCCAGA
* **
2086685 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-AAT
2086705 TGTATCGATACATGATAAT
1 TGTATCGATACATGATAAT
*
2086724 TGTATCGATACATGGACAAT
1 TGTATCGATACAT-GATAAT
2086744 TGTATCGATACATGA-AAT
1 TGTATCGATACATGATAAT
2086762 TG
1 TG
2086764 GTAGTAGTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
18 5 0.09
19 16 0.30
20 33 0.61
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATGATAAT
Found at i:2086804 original size:13 final size:13
Alignment explanation
Indices: 2086786--2086812 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2086776 CTACCACTGT
2086786 TTGTATCGATACA
1 TTGTATCGATACA
2086799 TTGTATCGATACA
1 TTGTATCGATACA
2086812 T
1 T
2086813 GATGAATTGT
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:2097458 original size:15 final size:15
Alignment explanation
Indices: 2097414--2097461 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
2097404 GTTAGTTGAA
* * *
2097414 AAAGAGAGAAAAAAA
1 AAAGAAAGAAAAGAG
2097429 AAAGAAAGAAAAGAG
1 AAAGAAAGAAAAGAG
2097444 AAAGAAA-AAATAGAG
1 AAAGAAAGAAA-AGAG
2097459 AAA
1 AAA
2097462 ATAGATAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 3 0.10
15 26 0.90
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (15 bp):
AAAGAAAGAAAAGAG
Found at i:2097471 original size:22 final size:21
Alignment explanation
Indices: 2097418--2097483 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
2097408 GTTGAAAAAG
* *
2097418 AGAGAAAAAAAAAAGAAAGAAA
1 AGAGAAAGAAAAAA-TAAGAAA
2097440 AGAGAAAGAAAAAATAGAGAAA
1 AGAGAAAGAAAAAATA-AGAAA
* *
2097462 ATAGATAGAAAAACATAAGAAA
1 AGAGAAAGAAAAA-ATAAGAAA
2097484 CCAAACTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.89
23 3 0.08
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AGAGAAAGAAAAAATAAGAAA
Found at i:2107277 original size:78 final size:76
Alignment explanation
Indices: 2107145--2107403 Score: 277
Period size: 78 Copynumber: 3.3 Consensus size: 76
2107135 CAGATGCTAG
* * * * *
2107145 ATGATATTGGTGCATCACAAGGCCAAAAAGGGCACTTCCCACACATTCCTAATCATATCCTTCCT
1 ATGATATTGGTGCATCACATGGCC-AAAAGGG-ATTTCCCATACATTCCCAATCATATCCTTCAT
*
2107210 CCCTAAACACCAT
64 CCCTAAACACCAC
* *
2107223 ATGATATTGGTGCATCACATGGCCAAAAGGGATGTTTCCCATACATTCCCAATCATATCTTTAAT
1 ATGATATTGGTGCATCACATGGCCAAAAGGGA--TTTCCCATACATTCCCAATCATATCCTTCAT
*
2107288 CCCTAAACACCAG
64 CCCTAAACACCAC
* * ** * * *
2107301 ATGATATTGGTGCATCACATGGCCAAGAAGGACATTTCCTATACGCTCCCAATCGTATCCCTCTT
1 ATGATATTGGTGCATCACATGGCCAA-AAGG-GATTTCCCATACATTCCCAATCATATCCTTC-A
*
2107366 TCCCTAAA-ACTAC
63 TCCCTAAACACCAC
* *
2107379 ATGGTATTGATGCATCACATGGCCA
1 ATGATATTGGTGCATCACATGGCCA
2107404 CAAGAGGCAC
Statistics
Matches: 155, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
76 1 0.01
77 7 0.05
78 134 0.86
79 12 0.08
80 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (76 bp):
ATGATATTGGTGCATCACATGGCCAAAAGGGATTTCCCATACATTCCCAATCATATCCTTCATCC
CTAAACACCAC
Found at i:2107951 original size:42 final size:43
Alignment explanation
Indices: 2107905--2107988 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
2107895 CTAGACGCCC
2107905 ATCGGCTCAAACCTAGG-AGAC-TCTTTTATCAATCGTCTACCT
1 ATCGGCTC-AACCTAGGAAGACTTCTTTTATCAATCGTCTACCT
* ** * *
2107947 ATCGGTTCAGTCTCGGAAGACTTTTTTTATCAATCGTCTACC
1 ATCGGCTCAACCTAGGAAGACTTCTTTTATCAATCGTCTACC
2107989 CGTCGACTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
41 5 0.14
42 11 0.31
43 19 0.54
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (43 bp):
ATCGGCTCAACCTAGGAAGACTTCTTTTATCAATCGTCTACCT
Found at i:2108041 original size:42 final size:42
Alignment explanation
Indices: 2107980--2108467 Score: 301
Period size: 42 Copynumber: 11.5 Consensus size: 42
2107970 TTTTTATCAA
* * * * *
2107980 TCGTCTACCCGTCGACTTAGATTTAGGAGACTTTTTCATCTT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTTTTCATCTT
* * * *
2108022 TTGTCTGCTCATCGGCTTAGACCTGGGAGACTTCCTTT-ATCAAT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTT--TTTCATC-TT
* * *
2108066 T-GTCTGCCCATCGGCTCAAACTTGGGAGACTTCTTCATCTT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTTTTCATCTT
*
2108107 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCATCTT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTTTTCATCTT
* * ** * * *
2108149 TCGTCTACCCGTCAACTCAGACTTGAGAAACTTCCTTT-ATCAATT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTT--TTTCATC--TT
* * * * * * *
2108194 T--TCTGCTCGTTGGCTCAGACTCGGAAGACTTATTCATCTT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTTTTCATCTT
*
2108234 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCATCTT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTTTTCATCTT
* * * * *
2108276 TCGTCTACCCATCAGCTCAGACTTGAGAAACTTCCTTT-ATCAATT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTT--TTTCATC--TT
* * * * * * *
2108321 T--TTTGCTCGTTGGCTTAGACTCGGAAGACTTATTCATCTT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTTTTCATCTT
* * * * * **
2108361 TCGTCTACCTATCGGCTTAGTCTCGGGAGACTTTCTTTATCAA
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTT-TTCATCTT
* * * * *
2108404 TCATCTGCCCGTCGGCTCAGACTCGAGAGACTTCTTT-ATCTT
1 TCGTCTGCCCATCGGCTTAGACTTGGGAGACTT-TTTCATCTT
** *
2108446 TCGTCTGCTTATCGGATTAGAC
1 TCGTCTGCCCATCGGCTTAGAC
2108468 CCAGGAGATT
Statistics
Matches: 338, Mismatches: 87, Indels: 42
0.72 0.19 0.09
Matches are distributed among these distances:
40 6 0.02
41 8 0.02
42 199 0.59
43 109 0.32
44 10 0.03
45 6 0.02
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.36
Consensus pattern (42 bp):
TCGTCTGCCCATCGGCTTAGACTTGGGAGACTTTTTCATCTT
Found at i:2108136 original size:127 final size:127
Alignment explanation
Indices: 2107953--2108393 Score: 558
Period size: 127 Copynumber: 3.5 Consensus size: 127
2107943 ACCTATCGGT
* * * ** * * * * *
2107953 TCAGTCTCGGAAGACTTTTTTTATCAATCGTCTACCCGTCGACTTAGATTTAGGAGACTTTTTCA
1 TCAGACTCGGAAGAC-TTATTCATCTTTCGTCTACCCATCGGCTTAGACTTGGGAGACTTATTCA
* * * * * * * * * * * *
2108018 TCTTTTGTCTGCTCATCGGCTTAGACCTGGGAGACTTCCTTTATCAATTGTCTGCCCATCGGC
65 TCTTTCGTCTACCCATCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
* * * * *
2108081 TCAAACTTGGGAGACTTCTTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCAT
1 TCAGACTCGGAAGACTTATTCATCTTTCGTCTACCCATCGGCTTAGACTTGGGAGACTTATTCAT
* *
2108146 CTTTCGTCTACCCGTCAACTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
66 CTTTCGTCTACCCATCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
*
2108208 TCAGACTCGGAAGACTTATTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCAT
1 TCAGACTCGGAAGACTTATTCATCTTTCGTCTACCCATCGGCTTAGACTTGGGAGACTTATTCAT
*
2108273 CTTTCGTCTACCCATCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTTTGCTCGTTGGC
66 CTTTCGTCTACCCATCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
* * * *
2108335 TTAGACTCGGAAGACTTATTCATCTTTCGTCTACCTATCGGCTTAGTCTCGGGAGACTT
1 TCAGACTCGGAAGACTTATTCATCTTTCGTCTACCCATCGGCTTAGACTTGGGAGACTT
2108394 TCTTTATCAA
Statistics
Matches: 273, Mismatches: 40, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
127 262 0.96
128 11 0.04
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.37
Consensus pattern (127 bp):
TCAGACTCGGAAGACTTATTCATCTTTCGTCTACCCATCGGCTTAGACTTGGGAGACTTATTCAT
CTTTCGTCTACCCATCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
Found at i:2108441 original size:127 final size:127
Alignment explanation
Indices: 2107953--2108443 Score: 552
Period size: 127 Copynumber: 3.9 Consensus size: 127
2107943 ACCTATCGGT
* * * ** * * * * * *
2107953 TCAGTCTCGGAAGACTTTTTTTATCAATCGTCTACCCGTCGACTTAGATTTAGGAGACTTTTTCA
1 TCAGACTCGGAAGAC-TTATTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCA
* * * * * * * * * * * * *
2108018 TCTTTTGTCTGCTCATCGGCTTAGACCTGGGAGACTTCCTTTATCAATTGTCTGCCCATCGGC
65 TCTTTCGTCTACCCGTCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
* * * *
2108081 TCAAACTTGGGAGACTTCTTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCAT
1 TCAGACTCGGAAGACTTATTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCAT
*
2108146 CTTTCGTCTACCCGTCAACTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
66 CTTTCGTCTACCCGTCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
2108208 TCAGACTCGGAAGACTTATTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCAT
1 TCAGACTCGGAAGACTTATTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCAT
* *
2108273 CTTTCGTCTACCCATCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTTTGCTCGTTGGC
66 CTTTCGTCTACCCGTCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
* * * * * * *
2108335 TTAGACTCGGAAGACTTATTCATCTTTCGTCTACCTATCGGCTTAGTCTCGGGAGACTTTCTTTA
1 TCAGACTCGGAAGACTTATTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGAC-TTATTCA
** * * * * *
2108400 TCAATCATCTGCCCGTCGGCTCAGACTCGAGAGACTT-CTTTATC
65 TCTTTCGTCTACCCGTCAGCTCAGACTTGAGAAACTTCCTTTATC
2108444 TTTCGTCTGC
Statistics
Matches: 312, Mismatches: 50, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
127 267 0.86
128 45 0.14
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (127 bp):
TCAGACTCGGAAGACTTATTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCAT
CTTTCGTCTACCCGTCAGCTCAGACTTGAGAAACTTCCTTTATCAATTTTCTGCTCGTTGGC
Found at i:2108475 original size:85 final size:85
Alignment explanation
Indices: 2107964--2108548 Score: 344
Period size: 85 Copynumber: 6.9 Consensus size: 85
2107954 CAGTCTCGGA
* * * * * *
2107964 AGACTTTTTTTATCAATCGTCTACCCGTCGACTTAGA-TTTAGGAGACTT-TTTCATCTTTTGTC
1 AGACTTTCTTTATCAATCGTCTGCCCGTCGGCTCAGACTTGA-GAGACTTCTTT-ATCTTTCGTC
* *
2108027 TGCTCATCGGCTTAGACCTGGG
64 TGCCCATCGGCTTAGACCCGGG
* * * * * *
2108049 AGACTTCCTTTATCAATTGTCTGCCCATCGGCTCAAACTTGGGAGACTTCTTCATCTTTCGTCTG
1 AGACTTTCTTTATCAATCGTCTGCCCGTCGGCTCAGACTTGAGAGACTTCTTTATCTTTCGTCTG
**
2108114 CCCATCGGCTTAGACTTGGG
66 CCCATCGGCTTAGACCCGGG
* * ** * ** *
2108134 AGAC-TTATTCATCTTTCGTCTACCCGTCAACTCAGACTTGAGAAACTTCCTTTATCAATTT--T
1 AGACTTTCTTTATCAATCGTCTGCCCGTCGGCTCAGACTTGAGAGACTT-CTTTATC--TTTCGT
* * * * * *
2108196 CTGCTCGTTGGCTCAGACTCGGA
63 CTGCCCATCGGCTTAGACCCGGG
* * ** * * * * * *
2108219 AGAC-TTATTCATCTTTCGTCTGCCCATCGGCTTAGACTTGGGAGACTTATTCATCTTTCGTCTA
1 AGACTTTCTTTATCAATCGTCTGCCCGTCGGCTCAGACTTGAGAGACTTCTTTATCTTTCGTCTG
* * ** *
2108283 CCCATCAGCTCAGACTTGAG
66 CCCATCGGCTTAGACCCGGG
* * ** * * * * * * *
2108303 AAACTTCCTTTATCAATTTTTTGCTCGTTGGCTTAGACTCG-GAAGACTTATTCATCTTTCGTCT
1 AGACTTTCTTTATCAATCGTCTGCCCGTCGGCTCAGACTTGAG-AGACTTCTTTATCTTTCGTCT
* * * *
2108367 ACCTATCGGCTTAGTCTCGGG
65 GCCCATCGGCTTAGACCCGGG
* *
2108388 AGACTTTCTTTATCAATCATCTGCCCGTCGGCTCAGACTCGAGAGACTTCTTTATCTTTCGTCTG
1 AGACTTTCTTTATCAATCGTCTGCCCGTCGGCTCAGACTTGAGAGACTTCTTTATCTTTCGTCTG
** * *
2108453 CTTATCGGATTAGACCCAGG
66 CCCATCGGCTTAGACCCGGG
** ** * * *
2108473 AGA-TTTCCTCCATCAATTATCTGCCCATCGGCTCA-AGCCTGAGAGACTTCCTTTAT-TAATCG
1 AGACTTT-CTTTATCAATCGTCTGCCCGTCGGCTCAGA-CTTGAGAGACTT-CTTTATCT-TTCG
*
2108535 TCTGCCCGTCGGCT
62 TCTGCCCATCGGCT
2108549 CAAGCCCAAG
Statistics
Matches: 389, Mismatches: 97, Indels: 27
0.76 0.19 0.05
Matches are distributed among these distances:
82 3 0.01
84 60 0.15
85 299 0.77
86 24 0.06
87 3 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (85 bp):
AGACTTTCTTTATCAATCGTCTGCCCGTCGGCTCAGACTTGAGAGACTTCTTTATCTTTCGTCTG
CCCATCGGCTTAGACCCGGG
Found at i:2108583 original size:42 final size:43
Alignment explanation
Indices: 2108387--2108613 Score: 131
Period size: 42 Copynumber: 5.3 Consensus size: 43
2108377 TTAGTCTCGG
* * * * * *
2108387 GAGACTTTCTTTATCAATCATCTGCCCGTCGGCTC-AGACTCGA
1 GAGACTTCCTTCATCAATCGTCTGCCCATCGGCTCAAG-CCCAA
* ** ** * * *
2108430 GAGACTT-CTTTATCTTTCGTCTGCTTATCGGAT-TAGACCCAG
1 GAGACTTCCTTCATCAATCGTCTGCCCATCGGCTCAAG-CCCAA
* * ** **
2108472 GAGATTTCCTCCATCAATTATCTGCCCATCGGCTCAAGCCTGA
1 GAGACTTCCTTCATCAATCGTCTGCCCATCGGCTCAAGCCCAA
* * *
2108515 GAGACTTCCTTTATTAATCGTCTGCCCGTCGGCTCAAGCCCAA
1 GAGACTTCCTTCATCAATCGTCTGCCCATCGGCTCAAGCCCAA
* * * * * * *
2108558 GGGAC-TCCTTCATCAATCGTTTGCCCATCGACTTAGGGCCAG
1 GAGACTTCCTTCATCAATCGTCTGCCCATCGGCTCAAGCCCAA
2108600 GAGACTT-CTTCATC
1 GAGACTTCCTTCATC
2108614 CATCATTGAC
Statistics
Matches: 136, Mismatches: 44, Indels: 9
0.72 0.23 0.05
Matches are distributed among these distances:
42 69 0.51
43 65 0.48
44 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (43 bp):
GAGACTTCCTTCATCAATCGTCTGCCCATCGGCTCAAGCCCAA
Found at i:2110169 original size:163 final size:164
Alignment explanation
Indices: 2109983--2110515 Score: 581
Period size: 163 Copynumber: 3.2 Consensus size: 164
2109973 TTTTTGGGAA
**
2109983 GATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCTA
1 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCTA
* *
2110048 TTTTTAAAAATTCATTCATTTTCATGAGTTTTGA-TTTTTCTTTGAAATTTCTCTTTTTTTGAAA
66 TTTTTAAAAATTCATTCATTTTCATAAATTTTGATTTTTTCTTTGAAATTTCTCTTTTTTTGAAA
*
2110112 TATGGTGTTTTCTACT-TCGTAAATTTTTTC-AGGG
131 TATGGTATTTTCTACTCT-GTAAATTTTTTCGA-GG
*
2110146 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAGTTC-A
1 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCTA
* * * *
2110210 GTTTTTAAAAATTCATTCATTTTCATTTATTTTTTATTTTTTTCCTTGAAA---CTCTTTTTTTC
66 -TTTTTAAAAATTCATTCATTTTCA-TAAATTTTGA-TTTTTTCTTTGAAATTTCTCTTTTTTT-
*
2110272 GAAATATGGTATTTTCTACTCTGTAATTTTTTTCGAGG
127 GAAATATGGTATTTTCTACTCTGTAAATTTTTTCGAGG
* * * * * * *
2110310 GATTTTCCTCGGTTTTCAATTTTTAAAATTTATCAAACATCATTATTTGA-GTCATATTAATT-T
1 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT-ATTTCATATTAATTCT
* * *
2110373 ATTTTTAAAAATTAATTCATTTTCATAAATTTTGAATTTTTTCTTTG-AATTTTTCCTTTTTCTG
65 ATTTTTAAAAATTCATTCATTTTCATAAATTTTG-ATTTTTTCTTTGAAATTTCT-CTTTTTTTG
* *
2110437 AAAAAT--TAAGTTTTCTTCTCTGTAAATATTTTT-G-GG
128 AAATATGGT-A-TTTTCTACTCTGTAAAT-TTTTTCGAGG
* * ** * *
2110473 GAGATTTTCTTTGGTCTAAAATTTTTAAAATGCATCTAATATT
1 GA-TTTTTC-TTGGTTTTTAATTTTTAAAATTCATCAAATATT
2110516 GTCATTGAAC
Statistics
Matches: 313, Mismatches: 38, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
161 2 0.01
162 18 0.06
163 123 0.39
164 119 0.38
165 39 0.12
166 12 0.04
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (164 bp):
GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCTA
TTTTTAAAAATTCATTCATTTTCATAAATTTTGATTTTTTCTTTGAAATTTCTCTTTTTTTGAAA
TATGGTATTTTCTACTCTGTAAATTTTTTCGAGG
Found at i:2110402 original size:18 final size:18
Alignment explanation
Indices: 2110365--2110403 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2110355 TTTGAGTCAT
* *
2110365 ATTAATTTATTTTTAAAA
1 ATTAATTCATTTTCAAAA
*
2110383 ATTAATTCATTTTCATAA
1 ATTAATTCATTTTCAAAA
2110401 ATT
1 ATT
2110404 TTGAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTAATTCATTTTCAAAA
Found at i:2110460 original size:164 final size:162
Alignment explanation
Indices: 2109995--2110515 Score: 533
Period size: 164 Copynumber: 3.2 Consensus size: 162
2109985 TTTTTCTTAA
2109995 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCTATTTTTAAAAATT
1 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATT-TATTTTTAAAAATT
* * * *
2110060 CATTCATTTTCATGAGTTTTG-A-TTTTTCTTTGAAATTTCTCTTTTTTTGAAATATGGT-GTTT
65 CATTCATTTTCATAAATTTTGAATTTTTTCTTTGAATTTTC-CTTTTTCTGAAATAT--TAGTTT
* *
2110122 TCTACT-TCGTAAATTTTTTCAGGGGATTTTTCTTGG
127 TCTACTCT-GTAAATTTTTTCAGGGGATTTTCCTCGG
* *
2110158 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAGTTCAGTTTTTAAAAATT
1 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTTA-TTTTTAAAAATT
* * * * * *
2110223 CATTCATTTTCATTTATTTTTTATTTTTTTCCTTGAAACTCTT--TTTTTC-GAAATATGGTA-T
65 CATTCATTTTCA-TAAATTTTGAATTTTTTCTTTG-AA-TTTTCCTTTTTCTGAAATAT--TAGT
*
2110284 TTTCTACTCTGTAATTTTTTTC-GAGGGATTTTCCTCGG
125 TTTCTACTCTGTAAATTTTTTCAG-GGGATTTTCCTCGG
* * * * *
2110322 TTTTCAATTTTTAAAATTTATCAAACATCATTATTTGA-GTCATATTAATTTATTTTTAAAAATT
1 TTTTTAATTTTTAAAATTCATCAAATATTATTATTT-ATTTCATATTAATTTATTTTTAAAAATT
* *
2110386 AATTCATTTTCATAAATTTTGAATTTTTTCTTTGAATTTTTCCTTTTTCTGAAAAATTAAGTTTT
65 CATTCATTTTCATAAATTTTGAATTTTTTCTTTGAA-TTTTCCTTTTTCTGAAATATT-AGTTTT
* * * *
2110451 CTTCTCTGTAAATATTTTT-GGGGAGATTTTCTTTGG
128 CTACTCTGTAAAT-TTTTTCAGGG-GATTTTCCTCGG
* ** * *
2110487 TCTAAAATTTTTAAAATGCATCTAATATT
1 TTTTTAATTTTTAAAATTCATCAAATATT
2110516 GTCATTGAAC
Statistics
Matches: 299, Mismatches: 41, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
161 5 0.02
162 19 0.06
163 104 0.35
164 114 0.38
165 44 0.15
166 9 0.03
167 2 0.01
168 2 0.01
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (162 bp):
TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTTATTTTTAAAAATTC
ATTCATTTTCATAAATTTTGAATTTTTTCTTTGAATTTTCCTTTTTCTGAAATATTAGTTTTCTA
CTCTGTAAATTTTTTCAGGGGATTTTCCTCGG
Found at i:2113291 original size:38 final size:38
Alignment explanation
Indices: 2113249--2113335 Score: 129
Period size: 38 Copynumber: 2.3 Consensus size: 38
2113239 CTCGTGGGCC
* * *
2113249 GGAAGCTGCTGCTGCTATTGGTGGATGCTATTGCTGCT
1 GGAAGCTGCTGCTACTATTGGTGGATGCTATCGCTACT
* *
2113287 GGAAGCTGCTGCTACTGTTGGTGGATGCTGTCGCTACT
1 GGAAGCTGCTGCTACTATTGGTGGATGCTATCGCTACT
2113325 GGAAGCTGCTG
1 GGAAGCTGCTG
2113336 GAGCTACTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.14, C:0.20, G:0.36, T:0.31
Consensus pattern (38 bp):
GGAAGCTGCTGCTACTATTGGTGGATGCTATCGCTACT
Done.