Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold264
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: 1000627
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Warning! 64 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:2670 original size:13 final size:13
Alignment explanation
Indices: 2652--2677 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2642 TACACCAAGT
2652 ATGTATCGATACA
1 ATGTATCGATACA
2665 ATGTATCGATACA
1 ATGTATCGATACA
2678 CAAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2675 original size:32 final size:32
Alignment explanation
Indices: 2634--2696 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
2624 TAGCCAAACT
* *
2634 TGTATCGATACAC-CAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAT-TGTATCGATACAA
2666 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
2697 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:3197 original size:34 final size:35
Alignment explanation
Indices: 3134--3200 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3124 CTAAGTGATT
3134 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
3170 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
3201 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:8176 original size:13 final size:13
Alignment explanation
Indices: 8158--8183 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8148 TACACCAAGT
8158 ATGTATCGATACA
1 ATGTATCGATACA
8171 ATGTATCGATACA
1 ATGTATCGATACA
8184 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8181 original size:32 final size:33
Alignment explanation
Indices: 8140--8203 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
8130 TAGCCAAACT
* **
8140 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
8172 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
8204 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:8704 original size:34 final size:35
Alignment explanation
Indices: 8641--8707 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
8631 CTAAGTGATT
8641 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
8677 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
8708 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:9932 original size:13 final size:13
Alignment explanation
Indices: 9914--9938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9904 AACTCACTCA
9914 GTATCGATACATT
1 GTATCGATACATT
9927 GTATCGATACAT
1 GTATCGATACAT
9939 GATGAATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:19070 original size:51 final size:52
Alignment explanation
Indices: 18930--19160 Score: 398
Period size: 52 Copynumber: 4.5 Consensus size: 52
18920 CGAAATATGA
*
18930 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
18982 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
*
19034 AAA-TTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
19085 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
19137 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
19161 AAGATCAGTG
Statistics
Matches: 172, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
50 5 0.03
51 65 0.38
52 92 0.53
53 10 0.06
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:19113 original size:103 final size:103
Alignment explanation
Indices: 18934--19160 Score: 454
Period size: 103 Copynumber: 2.2 Consensus size: 103
18924 ATATGAAAAT
18934 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTA
1 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTA
18999 TCGATACATTTTAAAATGTATCGATACATCTGGGCAAA
66 TCGATACATTTTAAAATGTATCGATACATCTGGGCAAA
19037 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTA
1 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTA
19102 TCGATACATTTTAAAATGTATCGATACATCTGGGCAAA
66 TCGATACATTTTAAAATGTATCGATACATCTGGGCAAA
19140 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
19161 AAGATCAGTG
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 124 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (103 bp):
TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTA
TCGATACATTTTAAAATGTATCGATACATCTGGGCAAA
Found at i:19187 original size:13 final size:13
Alignment explanation
Indices: 19169--19194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19159 CAAAGATCAG
19169 TGTATCGATACAA
1 TGTATCGATACAA
19182 TGTATCGATACAA
1 TGTATCGATACAA
19195 AGATCAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:21391 original size:21 final size:21
Alignment explanation
Indices: 21351--21414 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
21341 GGAGAGTATT
* *
21351 AAAT-TTTTTTTAA-GGAGAG
1 AAATATTTTATTAAGGGGGAG
21370 AAATATTTTATTAAGGGGGAG
1 AAATATTTTATTAAGGGGGAG
*
21391 AAATATTTTATTAAGAGGGAG
1 AAATATTTTATTAAGGGGGAG
21412 AAA
1 AAA
21415 AATAATCAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 4 0.10
20 8 0.20
21 28 0.70
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.34
Consensus pattern (21 bp):
AAATATTTTATTAAGGGGGAG
Found at i:21827 original size:19 final size:20
Alignment explanation
Indices: 21803--21854 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
21793 ACACTCAGAT
*
21803 GTATCGATACATATT-AATA
1 GTATCGATACATATTGAAAA
**
21822 GTATCGATACACCTTGAAAA
1 GTATCGATACATATTGAAAA
21842 GTATCGATACATA
1 GTATCGATACATA
21855 AAACTAGGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
GTATCGATACATATTGAAAA
Found at i:21846 original size:20 final size:19
Alignment explanation
Indices: 21780--21852 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
21770 AAAACCCTAG
* *
21780 AAAGTATTGATACACACTCA
1 AAAGTATCGATACACA-TTA
* * *
21800 GATGTATCGATACATATTA
1 AAAGTATCGATACACATTA
* *
21819 ATAGTATCGATACACCTTGA
1 AAAGTATCGATACACATT-A
21839 AAAGTATCGATACA
1 AAAGTATCGATACA
21853 TAAAACTAGG
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 15 0.37
20 26 0.63
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACACATTA
Found at i:21900 original size:13 final size:13
Alignment explanation
Indices: 21882--21906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21872 AACACACTTA
21882 GTATCGATACATT
1 GTATCGATACATT
21895 GTATCGATACAT
1 GTATCGATACAT
21907 GATGAATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:27311 original size:165 final size:163
Alignment explanation
Indices: 26978--27684 Score: 607
Period size: 165 Copynumber: 4.3 Consensus size: 163
26968 ATATACAAAC
* * * ** ** * * *
26978 AAATTCAAAATTAATG-AAATAAATTGAATTTTTTAAACCTGAATTAATGGGAGTTCAATGACAA
1 AAATTCAAAACTAATGAAAATAAATT-TATTTTTTAAAACTGAATTAATATGAAATAAATAATAA
* * ** * * * * * *
27042 TATTAGATGCATTTTAAAAATTTTAGACCAAAAAAAATCCCCCCAAAAATAATTATGGAGTAGAA
65 TATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAAT-CCTCTAAAAA-AATTACGGAGTAGAA
* * * * * * *
27107 AACTCAGTTTTTCGGAGAAATG-G-GATTTCAAGGAAA
128 AA-TCCGTATTTC-AAAAAAAGAGAAATTTTAAGGAAA
* * * * *
27143 AAATTCAAAATTTATGAAAATCAATTTATTTTTTAAAACGGAATTAATATGAAATAAATAATGAT
1 AAATTCAAAACTAATGAAAATAAATTTATTTTTTAAAACTGAATTAATATGAAATAAATAATAAT
* *
27208 GTTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCTAAAAAAATTAC-AATGTAGAAAA
66 ATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCTAAAAAAATTACGGA-GTAGAAAA
* *
27272 TACCGTATTTCAAAAAAAGAGAAATTTCAAAGAAAA
130 T-CCGTATTTCAAAAAAAGAGAAATTT-TAAGGAAA
* * * * *
27308 AAATCCAAAACTCATGAAAATGAATTTATTTTTTAAAACTAAATTAATATGAGATAAATAATAAT
1 AAATTCAAAACTAATGAAAATAAATTTATTTTTTAAAACTGAATTAATATGAAATAAATAATAAT
* * * * *
27373 ATTTGATGACTTTTAAAAATTAAAAACAAAG-AAAATCCCCTCGAAAAAATTTACGGAGTATAAA
66 ATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAAT--CCTCTAAAAAAATTACGGAGTAGAAA
* *
27437 ACTCCGTATTTCGAAAAAAGGGAAATTTTAAGGAAA
129 A-TCCGTATTTCAAAAAAAGAGAAATTTTAAGGAAA
* * *** * * *
27473 AATTTAAAAACTAATGAAAATAAAAGAATTTTTGAAAACTGAATTATTATGAAATAAATAAAAAT
1 AAATTCAAAACTAATGAAAATAAATTTATTTTTTAAAACTGAATTAATATGAAATAAATAATAAT
* * * *
27538 ATTTGATTAATTTTCAAAATTAAAAAAAACTAAGAAAAATCCCCTCAAGAAAATTCACGGAGTAG
66 ATTTGATGAATTTTAAAAATT---AAAAACTAAGAAAAATCCTCT-AAAAAAATT-ACGGAGTAG
* *
27603 TAAACTCTGTATTTCAGAAAAAAGA-AAATTTTAAGGAAA
126 -AAAATCCGTATTTCA-AAAAAAGAGAAATTTTAAGGAAA
*** *
27642 AAATTCACAAACTAATGAAAATAAAAGAATTTTTGAAAACTGA
1 AAATTCA-AAACTAATGAAAATAAATTTATTTTTTAAAACTGA
27685 TTTTATGAGG
Statistics
Matches: 443, Mismatches: 80, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
162 7 0.02
163 21 0.05
164 17 0.04
165 239 0.54
166 52 0.12
167 5 0.01
168 16 0.04
169 41 0.09
170 45 0.10
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (163 bp):
AAATTCAAAACTAATGAAAATAAATTTATTTTTTAAAACTGAATTAATATGAAATAAATAATAAT
ATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCTAAAAAAATTACGGAGTAGAAAAT
CCGTATTTCAAAAAAAGAGAAATTTTAAGGAAA
Found at i:31394 original size:19 final size:18
Alignment explanation
Indices: 31369--31426 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
31359 ATGTATCAAT
31369 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
31387 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACAT-G
31407 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
31426 A
1 A
31427 AACTGGCAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.51
20 17 0.46
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:31415 original size:20 final size:20
Alignment explanation
Indices: 31370--31425 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
31360 TGTATCAATA
31370 CATTGTATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
31389 CATTGTATCGATACATGGA-
1 CATTGTATCGATACATGGAT
31408 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
31426 AAACTGGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:40259 original size:21 final size:22
Alignment explanation
Indices: 40235--40284 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
40225 ATCAAATCTT
* *
40235 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
40256 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
40278 --TCAAAAT
1 CTTCAAAAT
40285 TATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:42748 original size:33 final size:33
Alignment explanation
Indices: 42704--42768 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
42694 TACCACTGTT
* * *
42704 TGTATCGATACATGGT-ACATTGTATTGATACAA
1 TGTATCAATACATGATGA-ATTGTATCGATACAA
42737 TGTATCAATACATGATGAATTGTATCGATACA
1 TGTATCAATACATGATGAATTGTATCGATACA
42769 TTGCTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCAATACATGATGAATTGTATCGATACAA
Found at i:51783 original size:43 final size:43
Alignment explanation
Indices: 51735--51907 Score: 133
Period size: 42 Copynumber: 4.1 Consensus size: 43
51725 CAATCAACTT
* *
51735 TTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTGGGTAAATCC
1 TTTTATCCTTTGTTTACCTATCAGCTTAATCCTGGGTAAATCC
* * ** * * *
51778 TTTTATCCTATG-TTAGCT-TGTTGGTTAAATCCTGGTTAACT-C
1 TTTTATCCTTTGTTTACCTAT-CAGCTT-AATCCTGGGTAAATCC
* * * *
51820 TTTTATCTTTTGTTTACCTATCGGCTTAATCCCGAGTAAATCC
1 TTTTATCCTTTGTTTACCTATCAGCTTAATCCTGGGTAAATCC
* *
51863 TTTGAT-C-TTGTGTTACCTATCAGCATAAT-CTCGGGTAAATCC
1 TTTTATCCTTTGT-TTACCTATCAGCTTAATCCT-GGGTAAATCC
51905 TTT
1 TTT
51908 CACCCTGTGT
Statistics
Matches: 99, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
41 6 0.06
42 56 0.57
43 36 0.36
44 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.45
Consensus pattern (43 bp):
TTTTATCCTTTGTTTACCTATCAGCTTAATCCTGGGTAAATCC
Found at i:51851 original size:42 final size:42
Alignment explanation
Indices: 51730--51851 Score: 113
Period size: 43 Copynumber: 2.9 Consensus size: 42
51720 AATCCCAATC
* * *
51730 AACTTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTGGGT
1 AACTCTTTTATCCTTTGTTTACCTGTCGGCTTAATCCTGGGT
* * * * *
51772 AAATCCTTTTATCCTATG-TTAGCTTGTTGG-TTAAATCCTGGTT
1 AACT-CTTTTATCCTTTGTTTA-CCTGTCGGCTT-AATCCTGGGT
* *
51815 AACTCTTTTATCTTTTGTTTACCTATCGGCTTAATCC
1 AACTCTTTTATCCTTTGTTTACCTGTCGGCTTAATCC
51852 CGAGTAAATC
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
42 29 0.48
43 32 0.52
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (42 bp):
AACTCTTTTATCCTTTGTTTACCTGTCGGCTTAATCCTGGGT
Found at i:51917 original size:42 final size:42
Alignment explanation
Indices: 51833--51918 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
51823 TATCTTTTGT
* * * * *
51833 TTACCTATCGGCTTAATCCCGAGTAAATCCTTTGATCTTGTG
1 TTACCTATCAGCATAATCCCGAGTAAATCCTTTCACCCTGTG
* *
51875 TTACCTATCAGCATAATCTCGGGTAAATCCTTTCACCCTGTG
1 TTACCTATCAGCATAATCCCGAGTAAATCCTTTCACCCTGTG
51917 TT
1 TT
51919 GACTTGTCGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (42 bp):
TTACCTATCAGCATAATCCCGAGTAAATCCTTTCACCCTGTG
Found at i:51969 original size:42 final size:42
Alignment explanation
Indices: 51917--52084 Score: 128
Period size: 42 Copynumber: 4.0 Consensus size: 42
51907 TCACCCTGTG
* *
51917 TTGACTTGTCGATTCAATCTCGGTCAACTCTTTTATACTTTC
1 TTGACTTGTCGATTCAATCTCGGTCAACTCTTTTATCCTTTA
* * * * * * *
51959 TTTACTTGTCGGTTTAGTCCCAGAT-AAATCCTTTTA-CCTTGTA
1 TTGACTTGTCGATTCAATCTC-GGTCAACT-CTTTTATCCTT-TA
*
52002 TTGACTTGTCGATTCAATCTCAGTCAACTCTTTTATCCTTTA
1 TTGACTTGTCGATTCAATCTCGGTCAACTCTTTTATCCTTTA
* * * * *
52044 TTTG-CCTATCGACTT-AGTATTGGTCAACTCTTTTATCCTTT
1 -TTGACTTGTCGA-TTCAATCTCGGTCAACTCTTTTATCCTTT
52085 GTCTACCTAT
Statistics
Matches: 96, Mismatches: 23, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
42 59 0.61
43 37 0.39
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.46
Consensus pattern (42 bp):
TTGACTTGTCGATTCAATCTCGGTCAACTCTTTTATCCTTTA
Found at i:52061 original size:85 final size:85
Alignment explanation
Indices: 51898--52061 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 85
51888 TAATCTCGGG
* * *
51898 TAAATCCTTTCACCCTGTGTTGACTTGTCGATTCAATCTCGGTCAACTCTTTTATACTTTCTTTA
1 TAAATCCTTTCACCCTGTATTGACTTGTCGATTCAATCTCAGTCAACTCTTTTATACTTTATTTA
* * **
51963 CTTGTCGGTTTAGTCCCAGA
66 CCTATCGACTTAGTCCCAGA
* * * *
51983 TAAATCCTTTTACCTTGTATTGACTTGTCGATTCAATCTCAGTCAACTCTTTTATCCTTTATTTG
1 TAAATCCTTTCACCCTGTATTGACTTGTCGATTCAATCTCAGTCAACTCTTTTATACTTTATTTA
52048 CCTATCGACTTAGT
66 CCTATCGACTTAGT
52062 ATTGGTCAAC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (85 bp):
TAAATCCTTTCACCCTGTATTGACTTGTCGATTCAATCTCAGTCAACTCTTTTATACTTTATTTA
CCTATCGACTTAGTCCCAGA
Found at i:52069 original size:127 final size:127
Alignment explanation
Indices: 51938--52166 Score: 311
Period size: 127 Copynumber: 1.8 Consensus size: 127
51928 ATTCAATCTC
* * * *
51938 GGTCAACTCTTTTATACTTTCTTTACTTGTCGGTTTAGTCCC-AGATAAATCCTTTTACCTTGT-
1 GGTCAACTCTTTTATACTTTCTCTACCTATCAGTTTAGTCCCGAG-TAAATCCTTTTACCTTGTG
* *
52001 ATTGACTTGTCGATTCAATCTC-AGTCAACTCTTTTATCCTTTATTTGCCTATCGACTTAGTATT
65 A-TGACTTATCGATTCAATCTCGA-TCAACTCTTTCATCCTTTATTTGCCTATCGACTTAGTATT
* * * *
52065 GGTCAACTCTTTTATCCTTTGTCTACCTATTAGTTTAGTCCCGAGTAAATCCTTTTATCTTGTGA
1 GGTCAACTCTTTTATACTTTCTCTACCTATCAGTTTAGTCCCGAGTAAATCCTTTTACCTTGTGA
*
52130 TGACTTATCGGTTCAATCTCGATCAACTCTTTCATCC
66 TGACTTATCGATTCAATCTCGATCAACTCTTTCATCC
52167 CTTGTTTACC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
127 84 0.95
128 4 0.05
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (127 bp):
GGTCAACTCTTTTATACTTTCTCTACCTATCAGTTTAGTCCCGAGTAAATCCTTTTACCTTGTGA
TGACTTATCGATTCAATCTCGATCAACTCTTTCATCCTTTATTTGCCTATCGACTTAGTATT
Found at i:52203 original size:127 final size:128
Alignment explanation
Indices: 51970--52214 Score: 286
Period size: 127 Copynumber: 1.9 Consensus size: 128
51960 TTACTTGTCG
*
51970 GTTTAGTCCCAGATAAATCCTTTTACCTTGTATTGACTTGTCGATTCAATCTCAGTCAACTCTTT
1 GTTTAGTCCCAGATAAATCCTTTTACCTTGTATTGACTTATCGATTCAATCTCAGTCAACTCTTT
* * * * * *
52035 TATCCTTTATTTGCCTATCGACTTAGTATTGGTCAACTC-TTTTATCCTTTGTCTACCTATTA
66 CATCCCTTATTTACCTATAGACTTAGTACTGGTCAAATCTTTTTATCCTTTGTCTACCTATTA
* *
52097 GTTTAGTCCC-GAGTAAATCCTTTTATCTTGTGA-TGACTTATCGGTTCAATCTC-GATCAACTC
1 GTTTAGTCCCAGA-TAAATCCTTTTACCTTGT-ATTGACTTATCGATTCAATCTCAG-TCAACTC
* * * *
52159 TTTCATCCCTTGTTTACCTGTTAG-CTTGGTCCTGAGT-AAATCTTTTTATCCTTTGT
63 TTTCATCCCTTATTTACCT-ATAGACTTAGTACTG-GTCAAATCTTTTTATCCTTTGT
52215 TAGCTTGTCG
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
126 3 0.03
127 78 0.79
128 18 0.18
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (128 bp):
GTTTAGTCCCAGATAAATCCTTTTACCTTGTATTGACTTATCGATTCAATCTCAGTCAACTCTTT
CATCCCTTATTTACCTATAGACTTAGTACTGGTCAAATCTTTTTATCCTTTGTCTACCTATTA
Found at i:52224 original size:212 final size:212
Alignment explanation
Indices: 51706--52273 Score: 524
Period size: 212 Copynumber: 2.7 Consensus size: 212
51696 TTTAATTTGT
* * * *
51706 TGACTTATCGGTTCAATCCCAATCAACTTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTGGG
1 TGACTTATCGGTTCAATCTCGATCAACTCTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTGAG
* * * * * * *
51771 TAAATCCTTTTATCCTATGTTAGCTTGTTGGTTAAATCCTGGTTAACTCTTTTATCTTTTGTTTA
66 TAAATCCTTTTATCCTTTGTTAGCTTGTCGATTAAATCCTAGTCAACTCTTTTATCCTTTATTTA
* * * *
51836 CCTATCGGCTTAATCCCGAGTAAATCCTTTGATCTTGTGTTACCTATCAGCATAATCTCGGGTAA
131 CCTATCGACTTAATACCGAGTAAATCCTTTGATCTTGTGTTACCTATCAGCATAATCCCGAGTAA
*
51901 ATCCTTTCACCCTGTGT
196 ATCCTTTCACCCTGTGA
* * * * * * * * *
51918 TGACTTGTCGATTCAATCTCGGTCAACTCTTTTATACTTTCTTTACTTGTCGGTTTAGTCC-CAG
1 TGACTTATCGGTTCAATCTCGATCAACTCTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTGAG
* *
51982 ATAAATCCTTTTA-CC-TTGTATTGACTTGTCGATTCAAT-CTCAGTCAACTCTTTTATCCTTTA
66 -TAAATCCTTTTATCCTTTGT-TAG-CTTGTCGATTAAATCCT-AGTCAACTCTTTTATCCTTTA
* * ** * * * ** *
52044 TTTGCCTATCGACTTAGTATTG-GTCAA-CTCTTTTATCCTT-TGTCTACCTATTAGTTTAGTCC
127 TTTACCTATCGACTTAATACCGAGTAAATC-CTTTGAT-CTTGTGT-TACCTATCAGCATAATCC
* * *
52106 CGAGTAAATCCTTTTATCTTGTGA
189 CGAGTAAATCCTTTCACCCTGTGA
* * * *
52130 TGACTTATCGGTTCAATCTCGATCAACTCTTTCATCCCTTGTTTACCTGTTAGCTTGGTCCTGAG
1 TGACTTATCGGTTCAATCTCGATCAACTCTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTGAG
* * * * *
52195 TAAATCTTTTTATCCTTTGTTAGCTTGTCGGTTTAA-CCTCGATCAACAT-TTGTATCCTTTATC
66 TAAATCCTTTTATCCTTTGTTAGCTTGTCGATTAAATCCTAG-TCAAC-TCTTTTATCCTTTAT-
*
52258 TCTACCTGTCGACTTA
128 T-TACCTATCGACTTA
52274 GTCTCAAGTA
Statistics
Matches: 280, Mismatches: 61, Indels: 28
0.76 0.17 0.08
Matches are distributed among these distances:
210 4 0.01
211 21 0.08
212 231 0.82
213 8 0.03
214 16 0.06
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (212 bp):
TGACTTATCGGTTCAATCTCGATCAACTCTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTGAG
TAAATCCTTTTATCCTTTGTTAGCTTGTCGATTAAATCCTAGTCAACTCTTTTATCCTTTATTTA
CCTATCGACTTAATACCGAGTAAATCCTTTGATCTTGTGTTACCTATCAGCATAATCCCGAGTAA
ATCCTTTCACCCTGTGA
Found at i:52226 original size:85 final size:85
Alignment explanation
Indices: 52067--52241 Score: 210
Period size: 85 Copynumber: 2.1 Consensus size: 85
52057 TTAGTATTGG
* * *
52067 TCAACTCTTTTATCCTTTGTCTACCTATTAGTTTAGTCCCGAGTAAATCCTTTTATCTTGTGATG
1 TCAACTCTTTCATCCCTTGTCTACCTATTAGCTTAGTCCCGAGTAAATCCTTTTATCTTGTGATG
*
52132 ACTTATCGGTTCAATCTCGA
66 ACTTATCGGTTCAACCTCGA
* * * * *
52152 TCAACTCTTTCATCCCTTGTTTACCTGTTAGCTTGGTCCTGAGTAAATCTTTTTATCCTT-TG-T
1 TCAACTCTTTCATCCCTTGTCTACCTATTAGCTTAGTCCCGAGTAAATCCTTTTAT-CTTGTGAT
* * *
52215 TAGCTTGTCGGTTTAACCTCGA
65 GA-CTTATCGGTTCAACCTCGA
52237 TCAAC
1 TCAAC
52242 ATTTGTATCC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
84 2 0.03
85 71 0.93
86 3 0.04
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.43
Consensus pattern (85 bp):
TCAACTCTTTCATCCCTTGTCTACCTATTAGCTTAGTCCCGAGTAAATCCTTTTATCTTGTGATG
ACTTATCGGTTCAACCTCGA
Found at i:53754 original size:329 final size:329
Alignment explanation
Indices: 53210--53906 Score: 744
Period size: 329 Copynumber: 2.1 Consensus size: 329
53200 TTCAACACCA
* * * * *
53210 AAATTCTTTAAATATTATTATTT-AATCACTATTAAATTAGTTTTAAAATTTCATTCATTTTATA
1 AAATTCATCAAATATTATCATTTAAATCA-TATTAAATCAGTTTAAAAATTTCATTCATTTTATA
* * *
53274 AGTTTTTTAATTTTTTCTTGAAATTCTTTTGTTTTCAAAATACGAAGTTTTCTACTTCATAAATA
65 AGTTTTTCAATTTTTTCTTAAAATTCTTTTATTTTCAAAATACGAAGTTTTCTACTTCATAAATA
* * *
53339 TTTTCAGGAGGATTTTTCTTGGTTTATAATTTTTAAAATTCATAAATTATTATTATTTAATCCAT
130 TTTTCAGGAGGAATTTTCTTGATTTATAATTTTTAAAATTCATAAATTATCATTATTTAATCCAT
** **
53404 ATTAAATCAGTTTTGAAAAATTCATTCATTTTCATTCATTTTTCATTTTTTC-TTAAAATTT-TC
195 ATTAAATCAGTTTTGAAAAATTCATTCA-TTTCATGAATTTTGAATTTTTTCTTTAAAATTTCTC
**** * * ** *
53467 TTGTTTTTGAAATA-CGAAGTTTTCTACTTCGTAAATATTTTTTA-AGGGATTTTTCTTAGTTTA
259 TTGTTACCAAAAAATC-AAATTTTCTACTTAATAAATA-TTTTCAGAGGGATTTTTCTTAGTTTA
*
53530 TAATTTTT
322 AAATTTTT
* *
53538 AAAATTTATCAAATATCATCATTTAAATCATATTAAATCAGTTCCTAAAAATTT-ACTT-ATTTT
1 -AAATTCATCAAATATTATCATTTAAATCATATTAAATCAGTT--TAAAAATTTCA-TTCATTTT
* * **
53601 CATGAGTTTTTCATTTTTTTCTTAAAATT-TTCTTATTTTTGAAATAC-AGAGTTTTCTAC-TCT
62 -ATAAGTTTTTCAATTTTTTCTTAAAATTCTT-TTATTTTCAAAATACGA-AGTTTTCTACTTC-
* *
53663 GTAAATATTTTTC-GG-GGAATTTTCATT-ATTTTTAA-TTTTAAAATTCATCAAA-TATCATTA
123 ATAAATA-TTTTCAGGAGGAATTTTC-TTGATTTATAATTTTTAAAATTCAT-AAATTATCATTA
* * *
53723 TTTAATTCATATTAAAT-ATGTTTTTAAAAATTCATTTATTTCATGAATTTTGAATTTTTTCTTT
185 TTTAATCCATATTAAATCA-GTTTTGAAAAATTCATTCATTTCATGAATTTTGAATTTTTTCTTT
* *
53787 GAAATTTCTCTTGTTACCAAAAAATCAAATTTTCTATTTAATAAATATTTTCAGAGGGATTTTTC
249 AAAATTTCTCTTGTTACCAAAAAATCAAATTTTCTACTTAATAAATATTTTCAGAGGGATTTTTC
*
53852 TTGGTTTAAAATTTTT
314 TTAGTTTAAAATTTTT
* * *
53868 AAATTCATCCAATATTGTCA-TTAAATTCACATTAAATCA
1 AAATTCATCAAATATTATCATTTAAA-TCATATTAAATCA
53907 ATTTTTCAAA
Statistics
Matches: 307, Mismatches: 44, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
328 25 0.08
329 124 0.40
330 86 0.28
331 67 0.22
332 5 0.02
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.51
Consensus pattern (329 bp):
AAATTCATCAAATATTATCATTTAAATCATATTAAATCAGTTTAAAAATTTCATTCATTTTATAA
GTTTTTCAATTTTTTCTTAAAATTCTTTTATTTTCAAAATACGAAGTTTTCTACTTCATAAATAT
TTTCAGGAGGAATTTTCTTGATTTATAATTTTTAAAATTCATAAATTATCATTATTTAATCCATA
TTAAATCAGTTTTGAAAAATTCATTCATTTCATGAATTTTGAATTTTTTCTTTAAAATTTCTCTT
GTTACCAAAAAATCAAATTTTCTACTTAATAAATATTTTCAGAGGGATTTTTCTTAGTTTAAAAT
TTTT
Found at i:53904 original size:165 final size:164
Alignment explanation
Indices: 53239--53948 Score: 676
Period size: 165 Copynumber: 4.3 Consensus size: 164
53229 ATTTAATCAC
* * * * *
53239 TATTAAATTAG-TTTTAAAATTTCATTCATTTTAT-AAGTTTTTTAATTTTTTCTTGAAATTCTT
1 TATTAAATCAGTTTTTAAAAATTCATTTATTTCATGAA--TTTTTAATTTTTTCTTAAAATT-TT
53302 -TTGTTTTCAAAATACGAAGTTTTCTACTTCATAAATA-TTTTCAGGAGGATTTTTCTTGGTTTA
63 CTTGTTTTCAAAATACGAAGTTTTCTACTTCATAAATATTTTTCAGG-GGATTTTTCTTGGTTTA
* * * *
53365 TAATTTTTAAAATTCAT-AAATTATTATTATTTAATCCA
127 TAATTTTTAAAATTCATCAAA-TATCATCATTAAATTCA
* * ** *
53403 TATTAAATCAGTTTTGAAAAATTCATTCATTTTCATTCATTTTTCATTTTTTCTTAAAATTTTCT
1 TATTAAATCAGTTTTTAAAAATTCATTTA-TTTCATGAATTTTTAATTTTTTCTTAAAATTTTCT
** * * * *
53468 TGTTTTTGAAATACGAAGTTTTCTACTTCGTAAATATTTTTTAAGGGATTTTTCTTAGTTTATAA
65 TGTTTTCAAAATACGAAGTTTTCTACTTCATAAATATTTTTCAGGGGATTTTTCTTGGTTTATAA
*
53533 TTTTTAAAATTTATCAAATATCATCATTTAAA-TCA
130 TTTTTAAAATTCATCAAATATCATCA-TTAAATTCA
** * * * *
53568 TATTAAATCAGTTCCTAAAAATTTACTTATTTTCATGAGTTTTTCATTTTTTTCTTAAAATTTTC
1 TATTAAATCAGTTTTTAAAAATTCATTTA-TTTCATGAATTTTT-AATTTTTTCTTAAAATTTTC
* ** * * *
53633 TTATTTTTGAAATAC-AGAGTTTTCTAC-TCTGTAAATATTTTTC-GGGGAATTTTCATT-ATTT
64 TTGTTTTCAAAATACGA-AGTTTTCTACTTC-ATAAATATTTTTCAGGGGATTTTTC-TTGGTTT
* * *
53694 TTAA-TTTTAAAATTCATCAAATATCATTATTTAATTCA
126 ATAATTTTTAAAATTCATCAAATATCATCATTAAATTCA
* *
53732 TATTAAAT-ATGTTTTTAAAAATTCATTTATTTCATGAATTTTGAATTTTTTCTTTGAAATTTCT
1 TATTAAATCA-GTTTTTAAAAATTCATTTATTTCATGAATTTTTAATTTTTTC-TTAAAATTT-T
** * * * *
53796 CTTGTTACCAAAAAATC-AAATTTTCTATTTAATAAATA-TTTTCAGAGGGATTTTTCTTGGTTT
63 CTTGTTTTCAAAATA-CGAAGTTTTCTACTTCATAAATATTTTTCAG-GGGATTTTTCTTGGTTT
* * **
53859 AAAATTTTT-AAATTCATCCAATATTGTCATTAAATTCA
126 ATAATTTTTAAAATTCATCAAATATCATCATTAAATTCA
* * * * *
53897 CATTAAATCAATTTTTCAAAATTCAAATTATTTCATGAATTTTGAATTTTTT
1 TATTAAATCAGTTTTTAAAAATTC-ATTTATTTCATGAATTTTTAATTTTTT
53949 GTACTATTGA
Statistics
Matches: 454, Mismatches: 69, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
162 8 0.02
163 30 0.07
164 88 0.19
165 222 0.49
166 105 0.23
167 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (164 bp):
TATTAAATCAGTTTTTAAAAATTCATTTATTTCATGAATTTTTAATTTTTTCTTAAAATTTTCTT
GTTTTCAAAATACGAAGTTTTCTACTTCATAAATATTTTTCAGGGGATTTTTCTTGGTTTATAAT
TTTTAAAATTCATCAAATATCATCATTAAATTCA
Found at i:54095 original size:5 final size:5
Alignment explanation
Indices: 54082--54120 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
54072 TAGTATGATA
* * *
54082 TTTAC TTTAT TTTAT TTTAT TGTAT TGTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
54121 AATCTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:55549 original size:152 final size:154
Alignment explanation
Indices: 55293--55660 Score: 451
Period size: 152 Copynumber: 2.4 Consensus size: 154
55283 AATTTTTCAA
* * * *
55293 AATTTCTAATATTCCTATAGGTATCCTTAGGGGTATGAAAATTTTCAAAACTTTTTGTGTCTTTT
1 AATTTCTCATATTCCTATGGGTATCCGTAGGGGTATGAAAATTTTCAAAACTTTTTGTATCTTTT
* * *
55358 TAGCCTCCATTAAGGCACGAAATGAAAATTTTCAAAAAAAATAAAATAATTTTTTTAATT-CTAC
66 CAGCCTCCATTAAGGCACGAAATGAAAATTTTCAAAAAAAACAAAATAATTGTTTTAATTACTAC
*
55422 TCCATTATAAAAAATTTCTTTT-C
131 TCCATTATAAAAAATTTATTTTAC
*
55445 AATTTCTCATATTCCTATGGGTATCCGTAGGGGTATGAAAATTTTCAAAATTTTTTGTATCTTTT
1 AATTTCTCATATTCCTATGGGTATCCGTAGGGGTATGAAAATTTTCAAAACTTTTTGTATCTTTT
* ** *
55510 CGGTCCTCCATTAA-G-ACTGAAAATGAAAATTTT-TGAAAAAACAAAATAATTGTTTTAATTAT
66 CAG-CCTCCATTAAGGCAC-G-AAATGAAAATTTTCAAAAAAAACAAAATAATTGTTTTAATTAC
* *
55572 TACTCCGTTATAAAAATTTTATTTTAC
128 TACTCCATTATAAAAAATTTATTTTAC
* * * * * * **
55599 GATTTCTCATATTTCTATGGTTATCTGTAGAGGTAT-AGAAGTTCACAAAACTTTTTGTATCT
1 AATTTCTCATATTCCTATGGGTATCCGTAGGGGTATGA-AAATTTTCAAAACTTTTTGTATCT
55661 CCTAATTTTT
Statistics
Matches: 186, Mismatches: 24, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
151 2 0.01
152 86 0.46
153 46 0.25
154 52 0.28
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (154 bp):
AATTTCTCATATTCCTATGGGTATCCGTAGGGGTATGAAAATTTTCAAAACTTTTTGTATCTTTT
CAGCCTCCATTAAGGCACGAAATGAAAATTTTCAAAAAAAACAAAATAATTGTTTTAATTACTAC
TCCATTATAAAAAATTTATTTTAC
Found at i:59474 original size:28 final size:28
Alignment explanation
Indices: 59442--59499 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
59432 GCGCAGACCT
59442 AGATAAGCTTTCTTAAAAACAATGTATC
1 AGATAAGCTTTCTTAAAAACAATGTATC
59470 AGATAAGCTTTCTTAAAAACAATGTATC
1 AGATAAGCTTTCTTAAAAACAATGTATC
59498 AG
1 AG
59500 GAGTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (28 bp):
AGATAAGCTTTCTTAAAAACAATGTATC
Found at i:62481 original size:20 final size:19
Alignment explanation
Indices: 62435--62491 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
62425 TTATATCGAT
*
62435 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
62454 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
62473 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
62492 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:62562 original size:33 final size:33
Alignment explanation
Indices: 62520--62588 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
62510 CTATCACTGT
* *
62520 TTGTATCGATACATGGTAGAA-TGTGTCGATACA
1 TTGTATCGATACATGAT-GAATTGTATCGATACA
62553 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
62586 TTG
1 TTG
62589 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:65958 original size:154 final size:155
Alignment explanation
Indices: 65680--66080 Score: 420
Period size: 156 Copynumber: 2.6 Consensus size: 155
65670 GATAAAAAAT
* * *
65680 TAAGACTTA-GTTCTAAAAAAAATATGAAAATACCCCTATGAGTATACCTTTGACATTA-AAGCA
1 TAAGAC-TAGGTTCTAAAAAAAATACGAAAATACCCTTATAAG-ATACCTTTGAC-TTAGAAGCA
*
65743 TCCTAATAACCCTAAAAGACTTAAAAAGGATTATAAATGGATGAACATATCCTAAATACCCATCT
63 -CCTAATAACCCTAAAAGACTTAAAAAGGATTATAAATGGATGAACATATCCTAAATACCCACCT
* * *
65808 TTAGCACAAAAGCAGACC-GGTGACAACC
127 TCAGCACAAAAACAGACCTGATGACAACC
* * * * *
65836 TAAGATTCGGTTCTAAAAAAATTACAAAAATACCCTTATAAGATACCTTCGACTTAGAATGC-CC
1 TAAGACTAGGTTCTAAAAAAAATACGAAAATACCCTTATAAGATACCTTTGACTTAGAA-GCACC
* * * * *
65900 -AATACCCCTAAAAGACTTTAAAAGGATTATAGATGGGATGAACCTATCTTAAATACCCACCTTC
65 TAATAACCCTAAAAGACTTAAAAAGGATTATAAAT-GGATGAACATATCCTAAATACCCACCTTC
* ** *
65964 GGCTTAAAAACAGACCTGATGACAACG
129 AGCACAAAAACAGACCTGATGACAACC
* *
65991 TAAGACTAGGTTCTAAAAAAAAGTACGAAAATA-CCTT-TAAGGGATACTTTTGACTTAGAAGTA
1 TAAGACTAGGTTCTAAAAAAAA-TACGAAAATACCCTTATAA--GATACCTTTGACTTAGAAGCA
* ** *
66054 TCTCGGTAAGCCTAAAAGACTTAAAAA
63 CCT-AATAACCCTAAAAGACTTAAAAA
66081 TGATAAGTAA
Statistics
Matches: 200, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
153 31 0.16
154 45 0.22
155 45 0.22
156 61 0.31
158 18 0.09
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (155 bp):
TAAGACTAGGTTCTAAAAAAAATACGAAAATACCCTTATAAGATACCTTTGACTTAGAAGCACCT
AATAACCCTAAAAGACTTAAAAAGGATTATAAATGGATGAACATATCCTAAATACCCACCTTCAG
CACAAAAACAGACCTGATGACAACC
Found at i:66562 original size:141 final size:138
Alignment explanation
Indices: 66246--66776 Score: 548
Period size: 141 Copynumber: 3.8 Consensus size: 138
66236 TGAAAATCTT
* * * * * * *
66246 ATTTCGTACTTTAATAGAGATTTGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATGG
1 ATTTCATACCTTAATAGAGAATCGAAAAGATACGAAAAGTTTTGAAGATTTTTATACCCCTATGA
* * * * *
66311 AAAACCATAGGAATA-TAGAAATCTTGAAAAATTAGGACAATAGTTTTTATTT--TATT--TTCA
66 AAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTAATTTA
66371 AAAAATTC
131 AAAAATTC
* * * * * **
66379 AATTAATATCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAGATTTTTATACCCCTACAA
1 ATTTCATACCTTAATAGAGAATCGAAAAGATACGAAAAGTTTTGAAGATTTTTATACCCCTATGA
* * *
66444 AAAACTATATGAATATTAGAAATCTTAAAAAATTAAGACAATAATTTTTAATTTAATTTTAAATT
66 AAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGACAATAATTTTT-ATTTAATTTT-AATT
66509 TAAACAAATTC
129 TAAA-AAATTC
* ** *
66520 ATTTCTTACCTTAATAGAGAATCGAAAAGATACGAAAAGTTTTGAAGATTTTTATACTTCTATGT
1 ATTTCATACCTTAATAGAGAATCGAAAAGATACGAAAAGTTTTGAAGATTTTTATACCCCTATGA
66585 AAAACCA-AAGAAATATTAGAAATCTTGAAAAATTAAGACAATAATTTTTTATTTAATTTTTAAT
66 AAAACCATAAG-AATATTAGAAATCTTGAAAAATTAAGACAATAA-TTTTTATTTAA-TTTTAAT
*
66649 TTAAAAAAAATC
128 TT-AAAAAATTC
* * * * *
66661 ATTTCATA-TTTAATAGAGAAAT-GAAACGATACGAAAAGTTTTGAAAATTTTCATACCTCC-AC
1 ATTTCATACCTTAATAGAG-AATCGAAAAGATACGAAAAGTTTTGAAGATTTTTATACC-CCTAT
* *
66723 G-AATACCAATGAA-AATATTAGAAAT-TCTGAAAAATTGAGGA-AATAATTTTTATT
64 GAAAAACC-AT-AAGAATATTAGAAATCT-TGAAAAATT-AAGACAATAATTTTTATT
66777 AGATGAAATA
Statistics
Matches: 333, Mismatches: 46, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
133 64 0.19
134 30 0.09
135 4 0.01
137 3 0.01
139 14 0.04
140 76 0.23
141 128 0.38
142 14 0.04
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.35
Consensus pattern (138 bp):
ATTTCATACCTTAATAGAGAATCGAAAAGATACGAAAAGTTTTGAAGATTTTTATACCCCTATGA
AAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTAATTTA
AAAAATTC
Found at i:74111 original size:13 final size:13
Alignment explanation
Indices: 74093--74117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74083 CAACATTCTC
74093 TGTATCGATACAG
1 TGTATCGATACAG
74106 TGTATCGATACA
1 TGTATCGATACA
74118 AAGTGTTTAT
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:75985 original size:17 final size:17
Alignment explanation
Indices: 75960--75994 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
75950 GGAGAAAGAT
*
75960 ACATTTGATTAAAGGAA
1 ACATGTGATTAAAGGAA
75977 ACATGTGATTAAAGGAA
1 ACATGTGATTAAAGGAA
75994 A
1 A
75995 TTGTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (17 bp):
ACATGTGATTAAAGGAA
Found at i:76032 original size:21 final size:22
Alignment explanation
Indices: 75991--76036 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
75981 GTGATTAAAG
75991 GAAATTGTTTTATTAAGGGGGA
1 GAAATTGTTTTATTAAGGGGGA
76013 GAAATT-TTTTGATTAAGGGGGA
1 GAAATTGTTTT-ATTAAGGGGGA
76035 GA
1 GA
76037 GAAAAGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (22 bp):
GAAATTGTTTTATTAAGGGGGA
Found at i:76566 original size:20 final size:20
Alignment explanation
Indices: 76541--76581 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
76531 AAAGGTCAAA
76541 ACCTTCAAATGTATCGATAC
1 ACCTTCAAATGTATCGATAC
*
76561 ACCTTCAGATGTATCGATAC
1 ACCTTCAAATGTATCGATAC
76581 A
1 A
76582 TAATGCACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.29
Consensus pattern (20 bp):
ACCTTCAAATGTATCGATAC
Found at i:76712 original size:13 final size:13
Alignment explanation
Indices: 76694--76721 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
76684 TTGTATTGTA
76694 TGTATCGATACAT
1 TGTATCGATACAT
76707 TGTATCGATACAT
1 TGTATCGATACAT
76720 TG
1 TG
76722 GCTTGTAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:81624 original size:26 final size:24
Alignment explanation
Indices: 81568--81674 Score: 70
Period size: 24 Copynumber: 4.8 Consensus size: 24
81558 TTTATTTTTA
*
81568 ATTATATTTTTATATAATATAAAT
1 ATTATATATTTATATAATATAAAT
**
81592 AAAATATATTTATAT-A-AT-AAT
1 ATTATATATTTATATAATATAAAT
81613 -TTA-ATA-TTATATAATATAACAT
1 ATTATATATTTATATAATATAA-AT
* * *
81635 ATCATTTATATTATAT--TATATAT
1 ATTATATAT-TTATATAATATAAAT
*
81658 ATTATATA-ATATATAAT
1 ATTATATATTTATATAAT
81675 TATTTTTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 21
0.66 0.12 0.22
Matches are distributed among these distances:
18 6 0.10
19 4 0.06
20 3 0.05
21 9 0.15
22 4 0.06
23 12 0.19
24 18 0.29
26 6 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTATATATTTATATAATATAAAT
Found at i:81650 original size:14 final size:14
Alignment explanation
Indices: 81616--81677 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
81606 TAATAATTTA
81616 ATATTATAT-A-AT
1 ATATTATATCATAT
** *
81628 ATAACATATCATTT
1 ATATTATATCATAT
*
81642 ATATTATATTATAT
1 ATATTATATCATAT
*
81656 ATATTATATAATAT
1 ATATTATATCATAT
81670 ATAATTAT
1 AT-ATTAT
81678 TTTTTATAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
12 7 0.18
13 1 0.03
14 26 0.67
15 5 0.13
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTATATCATAT
Found at i:81701 original size:22 final size:22
Alignment explanation
Indices: 81659--81701 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
81649 ATTATATATA
*
81659 TTATATAATATATAATTATTTT
1 TTATATAATATATAATAATTTT
81681 TTATAATAATATA-AATAATTT
1 TTAT-ATAATATATAATAATTT
81702 ATATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTATATAATATATAATAATTTT
Found at i:83161 original size:2 final size:2
Alignment explanation
Indices: 83154--83178 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
83144 AAGAAAATTA
83154 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
83179 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:83183 original size:2 final size:2
Alignment explanation
Indices: 83178--83211 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
83168 ATATATATAT
83178 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
83212 GGAAAAGACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:85560 original size:135 final size:135
Alignment explanation
Indices: 85369--85632 Score: 519
Period size: 135 Copynumber: 2.0 Consensus size: 135
85359 CCATCAAACC
85369 AAAAAAAAAAAAAAGAAACGAGAAGATTGATTAGGAAAAGATATATCAATAAAAAATGGAAGATA
1 AAAAAAAAAAAAAAGAAACGAGAAGATTGATTAGGAAAAGATATATCAATAAAAAATGGAAGATA
85434 CCATAAAAACCACAAATTCATCTTATTCTTCGATTGGGAAGACAGCCCAATATGCAACAAAGATC
66 CCATAAAAACCACAAATTCATCTTATTCTTCGATTGGGAAGACAGCCCAATATGCAACAAAGATC
85499 CAAAA
131 CAAAA
85504 AAAAAAAAAAAAAAGAAACGAGAAGATTGATTAGGAAAAGATATATCAATAAAAAATGGAAGATA
1 AAAAAAAAAAAAAAGAAACGAGAAGATTGATTAGGAAAAGATATATCAATAAAAAATGGAAGATA
*
85569 CCATAAAAACCACGAATTCATCTTATTCTTCGATTGGGAAGACAGCCCAATATGCAACAAAGAT
66 CCATAAAAACCACAAATTCATCTTATTCTTCGATTGGGAAGACAGCCCAATATGCAACAAAGAT
85633 TAACAACATA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 128 1.00
ACGTcount: A:0.53, C:0.14, G:0.15, T:0.19
Consensus pattern (135 bp):
AAAAAAAAAAAAAAGAAACGAGAAGATTGATTAGGAAAAGATATATCAATAAAAAATGGAAGATA
CCATAAAAACCACAAATTCATCTTATTCTTCGATTGGGAAGACAGCCCAATATGCAACAAAGATC
CAAAA
Found at i:93355 original size:16 final size:16
Alignment explanation
Indices: 93334--93380 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
93324 GATGAAGATG
*
93334 TTCCATGAAGGTTTTA
1 TTCCATGAAGGTGTTA
*
93350 TTCCATGAAGGTGTTG
1 TTCCATGAAGGTGTTA
93366 TTCCATGAAGGTGTT
1 TTCCATGAAGGTGTT
93381 TTGTGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (16 bp):
TTCCATGAAGGTGTTA
Found at i:93387 original size:29 final size:31
Alignment explanation
Indices: 93332--93406 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 31
93322 TTGATGAAGA
* **
93332 TGTTCCATGAAGGTTTTATTCCATGAAGGTGT
1 TGTTCCATGAAGGTGTTATT-CATGAAAATGT
*
93364 TGTTCCATGAAGGTGTT-TT-GTGAAAATGT
1 TGTTCCATGAAGGTGTTATTCATGAAAATGT
* *
93393 TGTTTCGTGAAGGT
1 TGTTCCATGAAGGT
93407 ACCACCATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 19 0.51
31 2 0.05
32 16 0.43
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.41
Consensus pattern (31 bp):
TGTTCCATGAAGGTGTTATTCATGAAAATGT
Found at i:97965 original size:21 final size:21
Alignment explanation
Indices: 97941--98123 Score: 104
Period size: 21 Copynumber: 9.1 Consensus size: 21
97931 CCAACCCAGC
*
97941 ACCTACAGTACCCCAAACAGA
1 ACCTACAGTACCTCAAACAGA
* *
97962 ACCTACAGCACCTCAAACTGA
1 ACCTACAGTACCTCAAACAGA
*
97983 ACCTATAGTAACC-CAAACA-A
1 ACCTACAGT-ACCTCAAACAGA
* * *
98003 CACCTATAGCACCTTAAACAG-
1 -ACCTACAGTACCTCAAACAGA
*
98024 AGC--CAGTACCTCAAACAGA
1 ACCTACAGTACCTCAAACAGA
* *
98043 AACTACAATACC-CTAAACA-A
1 ACCTACAGTACCTC-AAACAGA
* *
98063 CACCCACAGCACCTCAAACAGA
1 -ACCTACAGTACCTCAAACAGA
* * *
98085 ACC-A-A-TAACTCAGATAGA
1 ACCTACAGTACCTCAAACAGA
98103 ACC-A-A-TACCTCAAACAGA
1 ACCTACAGTACCTCAAACAGA
98121 ACC
1 ACC
98124 ACAAACAACA
Statistics
Matches: 126, Mismatches: 25, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
18 39 0.31
19 3 0.02
20 9 0.07
21 70 0.56
22 5 0.04
ACGTcount: A:0.45, C:0.34, G:0.08, T:0.13
Consensus pattern (21 bp):
ACCTACAGTACCTCAAACAGA
Found at i:98096 original size:18 final size:18
Alignment explanation
Indices: 98075--98124 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
98065 CCCACAGCAC
98075 CTCAAACAGAACCAATAA
1 CTCAAACAGAACCAATAA
* * *
98093 CTCAGATAGAACCAATAC
1 CTCAAACAGAACCAATAA
98111 CTCAAACAGAACCA
1 CTCAAACAGAACCA
98125 CAAACAACAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.50, C:0.30, G:0.08, T:0.12
Consensus pattern (18 bp):
CTCAAACAGAACCAATAA
Found at i:99098 original size:166 final size:166
Alignment explanation
Indices: 98824--99155 Score: 637
Period size: 166 Copynumber: 2.0 Consensus size: 166
98814 ATCTGGGAGA
98824 GAGCAAAATTGTAGACTAAGGAAGGCATTGCATGGGCTTAAACAGTCACCTAAAGCTTGGTTTGG
1 GAGCAAAATTGTAGACTAAGGAAGGCATTGCATGGGCTTAAACAGTCACCTAAAGCTTGGTTTGG
*
98889 GCGATTCACAAAGGTAATGATAGCTACTGGTTTTAAACAAAGTCAAGGGAACCATACCTTGTTTG
66 GAGATTCACAAAGGTAATGATAGCTACTGGTTTTAAACAAAGTCAAGGGAACCATACCTTGTTTG
*
98954 TTAAGCAATCCAATATCGGGGGACTTACTACTCTAT
131 TTAAGCAATCCAATATCGGGGGACTTACTACCCTAT
*
98990 GAGCAAAATTGTAGACTAAGGAAGGCATTGCATGGGCTTAAACAGTCACCTAGAGCTTGGTTTGG
1 GAGCAAAATTGTAGACTAAGGAAGGCATTGCATGGGCTTAAACAGTCACCTAAAGCTTGGTTTGG
99055 GAGATTCACAAAGGTAATGATAGCTACTGGTTTTAAACAAAGTCAAGGGAACCATACCTTGTTTG
66 GAGATTCACAAAGGTAATGATAGCTACTGGTTTTAAACAAAGTCAAGGGAACCATACCTTGTTTG
99120 TTAAGCAATCCAATATCGGGGGACTTACTACCCTAT
131 TTAAGCAATCCAATATCGGGGGACTTACTACCCTAT
99156 TAGTGTACGT
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 163 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (166 bp):
GAGCAAAATTGTAGACTAAGGAAGGCATTGCATGGGCTTAAACAGTCACCTAAAGCTTGGTTTGG
GAGATTCACAAAGGTAATGATAGCTACTGGTTTTAAACAAAGTCAAGGGAACCATACCTTGTTTG
TTAAGCAATCCAATATCGGGGGACTTACTACCCTAT
Found at i:100777 original size:2 final size:2
Alignment explanation
Indices: 100772--100820 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
100762 TATATATATA
* *
100772 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG CG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
100814 TG TG TG T
1 TG TG TG T
100821 ACCGAAGATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.04, G:0.49, T:0.47
Consensus pattern (2 bp):
TG
Found at i:105392 original size:29 final size:27
Alignment explanation
Indices: 105330--105392 Score: 63
Period size: 29 Copynumber: 2.3 Consensus size: 27
105320 TTAAATAAAT
* *
105330 AAAAAAAAAAAAAAGAAGAAGAAAATCAT
1 AAAAAAAAAAAAAAGAAAAAGAAAA--AA
* * *
105359 TAAAAAAAAAGAAGGAAAAAGAAAAAA
1 AAAAAAAAAAAAAAGAAAAAGAAAAAA
105386 AAAAAAA
1 AAAAAAA
105393 GAGAAATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 7 0.25
29 21 0.75
ACGTcount: A:0.83, C:0.02, G:0.11, T:0.05
Consensus pattern (27 bp):
AAAAAAAAAAAAAAGAAAAAGAAAAAA
Found at i:105404 original size:25 final size:24
Alignment explanation
Indices: 105331--105412 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 24
105321 TAAATAAATA
*
105331 AAAAAAAAAAAAAGAAGAAGAAAAT
1 AAAAAAAAAAAAAGAAGAA-AAAAG
* ** *
105356 CATTAAAAAAAAAGAAGGAAAAAG
1 AAAAAAAAAAAAAGAAGAAAAAAG
105380 AAAAAAAAAAAAAG-AGAAATTAAAG
1 AAAAAAAAAAAAAGAAGAAA--AAAG
*
105405 AAACAAAA
1 AAAAAAAA
105413 CAACTAAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
23 4 0.09
24 15 0.33
25 26 0.58
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.06
Consensus pattern (24 bp):
AAAAAAAAAAAAAGAAGAAAAAAG
Found at i:105897 original size:17 final size:18
Alignment explanation
Indices: 105875--105910 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
105865 AGTTCTTTTC
105875 TTTCTATTATA-TAGTAT
1 TTTCTATTATATTAGTAT
*
105892 TTTCTATTCTATTAGTAT
1 TTTCTATTATATTAGTAT
105910 T
1 T
105911 AGATTAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (18 bp):
TTTCTATTATATTAGTAT
Found at i:111458 original size:15 final size:16
Alignment explanation
Indices: 111438--111488 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 16
111428 GTTATTGTTG
*
111438 ATTTTAAGTAT-AATT
1 ATTTTAAATATAAATT
*
111453 ATTTTAAATTTAAATT
1 ATTTTAAATATAAATT
* *
111469 ATTTT-TATTTAAATT
1 ATTTTAAATATAAATT
111484 ATTTT
1 ATTTT
111489 TTATTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 23 0.72
16 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
ATTTTAAATATAAATT
Found at i:111470 original size:16 final size:16
Alignment explanation
Indices: 111449--111550 Score: 102
Period size: 16 Copynumber: 6.5 Consensus size: 16
111439 TTTTAAGTAT
*
111449 AATTATTTTAAATTTA
1 AATTATTTTATATTTA
111465 AATTATTTT-TATTTA
1 AATTATTTTATATTTA
*
111480 AATTATTTTTTATTTA
1 AATTATTTTATATTTA
* *
111496 TAA-TATTTTAGATTTG
1 -AATTATTTTATATTTA
* *
111512 AGTT-TTTTTTATTTA
1 AATTATTTTATATTTA
* *
111527 TATTATTTTTTATTTA
1 AATTATTTTATATTTA
111543 AATTATTT
1 AATTATTT
111551 AAAATTAATA
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
15 25 0.35
16 44 0.62
17 2 0.03
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
AATTATTTTATATTTA
Found at i:111484 original size:31 final size:31
Alignment explanation
Indices: 111449--111556 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 31
111439 TTTTAAGTAT
111449 AATTATTTTAAATTTAAATTATTTTTATTTA
1 AATTATTTTAAATTTAAATTATTTTTATTTA
** * *
111480 AATTATTTTTTATTTATAA-TATTTTAGATTTG
1 AATTATTTTAAATTTA-AATTATTTT-TATTTA
* ** *
111512 AGTT-TTTTTTATTTATATTATTTTTTATTTA
1 AATTATTTTAAATTTAAATTA-TTTTTATTTA
*
111543 AATTATTTAAAATT
1 AATTATTTTAAATT
111557 AATATTCGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
30 1 0.02
31 40 0.67
32 19 0.32
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (31 bp):
AATTATTTTAAATTTAAATTATTTTTATTTA
Found at i:111521 original size:47 final size:48
Alignment explanation
Indices: 111446--111556 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 48
111436 TGATTTTAAG
111446 TATAATTATTTTAAATTTAAATTATTTTTATTTAAATTATTTTTTATT
1 TATAATTATTTTAAATTTAAATTATTTTTATTTAAATTATTTTTTATT
* * * * *
111494 TATAA-TATTTTAGATTTGAGTTTTTTTTATTTATATTATTTTTTATT
1 TATAATTATTTTAAATTTAAATTATTTTTATTTAAATTATTTTTTATT
*
111541 TA-AATTATTTAAAATT
1 TATAATTATTTTAAATT
111557 AATATTCGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
46 2 0.04
47 48 0.87
48 5 0.09
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (48 bp):
TATAATTATTTTAAATTTAAATTATTTTTATTTAAATTATTTTTTATT
Found at i:112005 original size:21 final size:20
Alignment explanation
Indices: 111981--112027 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
111971 TTATTCAAAA
*
111981 TATATATTATAATATATTAAT
1 TATATATTA-AATAAATTAAT
*
112002 TATAAAATTAAATAAATTAAT
1 TAT-ATATTAAATAAATTAAT
112023 TATAT
1 TATAT
112028 TAAATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATATTAAATAAATTAAT
Found at i:113566 original size:20 final size:20
Alignment explanation
Indices: 113543--113580 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
113533 GGCGAACACT
*
113543 AGTTAAATTTGATCAAACCA
1 AGTTAAACTTGATCAAACCA
*
113563 AGTTAAACTTGGTCAAAC
1 AGTTAAACTTGATCAAAC
113581 TTGATCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (20 bp):
AGTTAAACTTGATCAAACCA
Found at i:113885 original size:28 final size:28
Alignment explanation
Indices: 113845--113946 Score: 134
Period size: 28 Copynumber: 3.7 Consensus size: 28
113835 TTTACCTTTG
* * *
113845 AATTTTTAATTAAACTTTTCACAAATAA
1 AATTTTAAATTAAACTTTTTACATATAA
113873 AATTTTAAATTAAACTTTTTACATATAA
1 AATTTTAAATTAAACTTTTTACATATAA
* * *
113901 AATTTTAAATTAAATTTTTTACTTATAG
1 AATTTTAAATTAAACTTTTTACATATAA
*
113929 AATTTTCAATTAAA-TTTT
1 AATTTTAAATTAAACTTTT
113947 GTACGTGAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
27 4 0.06
28 63 0.94
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (28 bp):
AATTTTAAATTAAACTTTTTACATATAA
Found at i:115493 original size:16 final size:16
Alignment explanation
Indices: 115472--115510 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
115462 TCGAATCAAG
*
115472 TCATTTTAAATTTCGA
1 TCATTTTAAATTTAGA
*
115488 TCATTTTAATTTTAGA
1 TCATTTTAAATTTAGA
*
115504 TTATTTT
1 TCATTTT
115511 TGGATTAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (16 bp):
TCATTTTAAATTTAGA
Found at i:115767 original size:32 final size:32
Alignment explanation
Indices: 115707--115769 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
115697 ATAAAATATA
* **
115707 TTTATAATTAAATATTATTTTTAATATTAATT
1 TTTATAATTAAATATTAATAATAATATTAATT
* *
115739 TTTATAATTATATATTAATAATATTATTAAT
1 TTTATAATTAAATATTAATAATAATATTAAT
115770 AAAATATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
TTTATAATTAAATATTAATAATAATATTAATT
Found at i:115775 original size:14 final size:14
Alignment explanation
Indices: 115758--115811 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
115748 ATATATTAAT
115758 AATATTATTAATAA
1 AATATTATTAATAA
* *
115772 AATATTATCATTTAA
1 AATATTATTA-ATAA
* *
115787 TTATATTATAAATAA
1 -AATATTATTAATAA
115802 AATATTATTA
1 AATATTATTA
115812 TTTAATTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
14 17 0.55
15 6 0.19
16 8 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
AATATTATTAATAA
Found at i:115818 original size:30 final size:30
Alignment explanation
Indices: 115745--115818 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
115735 AATTTTTATA
* *
115745 ATTA-TATATTAATAATATTATTAATAAAAT
1 ATTATTAT-TTAATTATATTATAAATAAAAT
*
115775 ATTATCATTTAATTATATTATAAATAAAAT
1 ATTATTATTTAATTATATTATAAATAAAAT
115805 ATTATTATTTAATT
1 ATTATTATTTAATT
115819 TAATGGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 37 0.95
31 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTATTATTTAATTATATTATAAATAAAAT
Found at i:118689 original size:7 final size:7
Alignment explanation
Indices: 118679--118712 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
118669 AATTATTTGG
118679 TTTTTA-
1 TTTTTAT
118685 TTTTTAT
1 TTTTTAT
118692 TTTTTAT
1 TTTTTAT
118699 TTTTTAT
1 TTTTTAT
118706 TTTTTAT
1 TTTTTAT
118713 GATTATGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:124059 original size:22 final size:21
Alignment explanation
Indices: 124024--124073 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
124014 TTTGTTGATG
*
124024 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
124044 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
124065 AATTTGAAG
1 ATTTTGAAG
124074 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:124070 original size:21 final size:22
Alignment explanation
Indices: 124031--124073 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
124021 ATGATTTTGA
* *
124031 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
124053 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
124074 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:124253 original size:20 final size:21
Alignment explanation
Indices: 124223--124261 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
124213 ATCTGGGTTT
124223 TTCAGATGTATCGATACATCC
1 TTCAGATGTATCGATACATCC
124244 TTCA-ATGTATCGATACAT
1 TTCAGATGTATCGATACAT
124262 TCTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (21 bp):
TTCAGATGTATCGATACATCC
Found at i:130906 original size:18 final size:18
Alignment explanation
Indices: 130868--130918 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
130858 AATAAAAAGA
* *
130868 TATAACTA-TTAAATGGT
1 TATAACTATTTGAATAGT
*
130885 TATATCTATTTGAATAGT
1 TATAACTATTTGAATAGT
*
130903 TATAACTATTTTAATA
1 TATAACTATTTGAATA
130919 AATACCTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (18 bp):
TATAACTATTTGAATAGT
Found at i:132090 original size:13 final size:13
Alignment explanation
Indices: 132072--132096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132062 CAATTCCTCA
132072 TGTATCGATACAT
1 TGTATCGATACAT
132085 TGTATCGATACA
1 TGTATCGATACA
132097 ATGTGCCATG
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:132094 original size:33 final size:33
Alignment explanation
Indices: 132052--132116 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
132042 TTAGAAGTAA
132052 TGTATCGATACAAT-TCCTCATGTATCGATACAT
1 TGTATCGATACAATGTCC-CATGTATCGATACAT
*
132085 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTCCCATGTATCGATACA
132117 AACAATGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTCCCATGTATCGATACAT
Found at i:132190 original size:19 final size:20
Alignment explanation
Indices: 132146--132200 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
132136 CTGCCAGTTT
* **
132146 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATAGAA
132166 CATGTATCGATACAA-AGAA
1 CATGTATCGATACAATAGAA
132185 CATGTATCGATACAAT
1 CATGTATCGATACAAT
132201 GTATCGATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATAGAA
Found at i:132208 original size:32 final size:33
Alignment explanation
Indices: 132167--132231 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
132157 ACAATTGTCC
132167 ATGTATCGATACAAAGAAC-ATGTATCGATACA
1 ATGTATCGATACAAAGAACAATGTATCGATACA
* *
132199 ATGTATCGATGCAAAGCACAATGTATCGATACA
1 ATGTATCGATACAAAGAACAATGTATCGATACA
132232 TCTGAGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAACAATGTATCGATACA
Found at i:132824 original size:27 final size:27
Alignment explanation
Indices: 132793--132847 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
132783 TTGGTTAAAA
*
132793 AGATTTTCTCCCTCTTGATAAAAATTT
1 AGATTTTCTCCCCCTTGATAAAAATTT
132820 AGATTTTCTCCCCCTTGATAAAAATTT
1 AGATTTTCTCCCCCTTGATAAAAATTT
132847 A
1 A
132848 TTTTCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (27 bp):
AGATTTTCTCCCCCTTGATAAAAATTT
Found at i:153075 original size:1 final size:1
Alignment explanation
Indices: 153069--153111 Score: 68
Period size: 1 Copynumber: 43.0 Consensus size: 1
153059 AAAGTGTTTG
**
153069 AAAAAAAAAAAAAAAAAAAAAATGAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
153112 TTTAAATGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.95, C:0.00, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:153098 original size:20 final size:20
Alignment explanation
Indices: 153073--153110 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
153063 TGTTTGAAAA
153073 AAAAAAAAAAAAAAAAAATG
1 AAAAAAAAAAAAAAAAAATG
153093 AAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAA
153111 ATTTAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.95, C:0.00, G:0.03, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAAAATG
Found at i:153098 original size:21 final size:21
Alignment explanation
Indices: 153072--153112 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
153062 GTGTTTGAAA
153072 AAAAAAAAAAAAAAAAAAATG
1 AAAAAAAAAAAAAAAAAAATG
153093 AAAAAAAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAAAAAAT
153113 TTAAATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.93, C:0.00, G:0.02, T:0.05
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAAAATG
Found at i:153140 original size:21 final size:21
Alignment explanation
Indices: 153116--153172 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
153106 AAAAAATTTA
153116 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
153137 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
153158 AATGTATCGATACAT
1 AATGTATCGATACAT
153173 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:153252 original size:19 final size:19
Alignment explanation
Indices: 153228--153295 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
153218 AATTCAACAA
153228 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
153247 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
153262 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
153279 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
153296 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:153267 original size:13 final size:13
Alignment explanation
Indices: 153249--153273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
153239 ACATAAGTTT
153249 TGTATCGATACAA
1 TGTATCGATACAA
153262 TGTATCGATACA
1 TGTATCGATACA
153274 TAAGTATTGT
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:153271 original size:32 final size:32
Alignment explanation
Indices: 153230--153292 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
153220 TTCAACAATT
*
153230 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
153262 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
153293 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:153353 original size:13 final size:13
Alignment explanation
Indices: 153335--153360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
153325 CATTTTTCTG
153335 TGTATCGATACAT
1 TGTATCGATACAT
153348 TGTATCGATACAT
1 TGTATCGATACAT
153361 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:153357 original size:33 final size:33
Alignment explanation
Indices: 153315--153381 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
153305 GCCAAGGAAA
***
153315 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
153348 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
153381 T
1 T
153382 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:155885 original size:52 final size:51
Alignment explanation
Indices: 155812--155981 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 51
155802 TTATTTTCGA
*
155812 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCCACAATC
* **
155864 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTA-TTTCAAAACACCAATTTTTCC-ACAATC
* *
155916 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCCACAATC
*
155968 GAGGATACTCCAAC
1 GGGGATACTCCAAC
155982 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
51 14 0.14
52 69 0.69
53 13 0.13
54 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCCACAATC
Found at i:156001 original size:28 final size:28
Alignment explanation
Indices: 155965--156038 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
155955 ATTTTTCACA
* *
155965 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
155993 ATCGGGGATACTCCAACCTCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
156021 CGAGGGGATACTCCAACC
1 ATCGGGGATACTCCAACC
156039 CCGGCTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:156115 original size:28 final size:28
Alignment explanation
Indices: 156075--156128 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
156065 TCTCATAATT
156075 AGGGATACTCCAACCCCG-TTATTTTCGA
1 AGGGATACTCCAACCCCGATT-TTTTCGA
*
156103 AGGGATACTCCAATCCCGATTTTTTC
1 AGGGATACTCCAACCCCGATTTTTTC
156129 TAATCATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (28 bp):
AGGGATACTCCAACCCCGATTTTTTCGA
Found at i:164051 original size:15 final size:15
Alignment explanation
Indices: 164031--164061 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
164021 TAAAAATGTC
*
164031 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
164046 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
164061 C
1 C
164062 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:165207 original size:21 final size:21
Alignment explanation
Indices: 165178--165222 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
165168 AAGTTTTCAT
*
165178 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
165198 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
165220 TTT
1 TTT
165223 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:167454 original size:13 final size:13
Alignment explanation
Indices: 167436--167461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
167426 CAATTTTTTG
167436 TGTATCGATACAT
1 TGTATCGATACAT
167449 TGTATCGATACAT
1 TGTATCGATACAT
167462 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:167526 original size:21 final size:21
Alignment explanation
Indices: 167500--167575 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
167490 CTGCCAAGAA
167500 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
167521 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
167541 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
167562 ATGTATCGATACAT
1 ATGTATCGATACAT
167576 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:167545 original size:20 final size:20
Alignment explanation
Indices: 167520--167593 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
167510 ACATCTTTTT
167520 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
167540 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
167561 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
167581 CATGTATCGATAC
1 CATGTATCGATAC
167594 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:167557 original size:41 final size:41
Alignment explanation
Indices: 167500--167593 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
167490 CTGCCAAGAA
167500 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
167541 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
167582 ATGTATCGATAC
1 ATGTATCGATAC
167594 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:181672 original size:33 final size:33
Alignment explanation
Indices: 181630--181692 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
181620 TGGGACAATG
* ** *
181630 TATCGATACAATTTGTTATGTATTGATACATTA
1 TATCGATACAATGTGCCATGTATCGATACATTA
181663 TATCGATACAATGTGCCATGTATCGATACA
1 TATCGATACAATGTGCCATGTATCGATACA
181693 AACAGTGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (33 bp):
TATCGATACAATGTGCCATGTATCGATACATTA
Found at i:181747 original size:20 final size:20
Alignment explanation
Indices: 181722--181773 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
181712 CTGCCAGTTT
181722 CATGTATCGATACAACTATG
1 CATGTATCGATACAACTATG
181742 CATGTATCGATACAACTATG
1 CATGTATCGATACAACTATG
181762 CATGTATCGATA
1 CATGTATCGATA
181774 TAATGAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAACTATG
Found at i:185600 original size:13 final size:13
Alignment explanation
Indices: 185582--185606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185572 TACTATAAAC
185582 ATGTATCGATACA
1 ATGTATCGATACA
185595 ATGTATCGATAC
1 ATGTATCGATAC
185607 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:185624 original size:33 final size:32
Alignment explanation
Indices: 185564--185627 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
185554 CTTTTCAAGG
185564 TGTATCGATACTATAAACATGTATCGATACAA
1 TGTATCGATACTATAAACATGTATCGATACAA
*
185596 TGTATCGATACTA-AGCAATATGTATCGATACA
1 TGTATCGATACTATA--AACATGTATCGATACA
185628 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 13 0.45
33 15 0.52
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (32 bp):
TGTATCGATACTATAAACATGTATCGATACAA
Found at i:190862 original size:32 final size:33
Alignment explanation
Indices: 190821--190884 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
190811 CTTTTCAAGG
* *
190821 TGTATCGATACTATG-AACATGTATGGATACAA
1 TGTATCGATACTAAGCAACATGTATCGATACAA
*
190853 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACTAAGCAACATGTATCGATACA
190885 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (33 bp):
TGTATCGATACTAAGCAACATGTATCGATACAA
Found at i:191256 original size:20 final size:20
Alignment explanation
Indices: 191231--191270 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
191221 AACAATCACA
191231 AGCTTTATTGTCTTAATCCT
1 AGCTTTATTGTCTTAATCCT
191251 AGCTTTATTGTCTTAATCCT
1 AGCTTTATTGTCTTAATCCT
191271 TCCTTACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (20 bp):
AGCTTTATTGTCTTAATCCT
Found at i:191823 original size:20 final size:21
Alignment explanation
Indices: 191798--191836 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
191788 CATAATTTTT
*
191798 TTCTC-TATTCTTTCTTTTGA
1 TTCTCTTAGTCTTTCTTTTGA
191818 TTCTCTTAGTCTTTCTTTT
1 TTCTCTTAGTCTTTCTTTT
191837 AGTCATCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.08, C:0.21, G:0.05, T:0.67
Consensus pattern (21 bp):
TTCTCTTAGTCTTTCTTTTGA
Found at i:191845 original size:21 final size:21
Alignment explanation
Indices: 191806--191846 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
191796 TTTTCTCTAT
*
191806 TCTTTCTTTTGATTCTCTTAG
1 TCTTTCTTTTGAGTCTCTTAG
191827 TCTTTCTTTT-AGTCATCTTA
1 TCTTTCTTTTGAGTC-TCTTA
191847 TCCTCTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.12, C:0.20, G:0.07, T:0.61
Consensus pattern (21 bp):
TCTTTCTTTTGAGTCTCTTAG
Found at i:194286 original size:4 final size:4
Alignment explanation
Indices: 194277--194306 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
194267 ATAACAATAG
194277 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
194307 TATATTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:198832 original size:327 final size:327
Alignment explanation
Indices: 198238--198893 Score: 1170
Period size: 327 Copynumber: 2.0 Consensus size: 327
198228 AATGGGTTTA
*
198238 TAAATACCAAAGAGATGCCATGCATAAGAAAAACACCATTTTTAAAAAAAATTCAAATTTTTATC
1 TAAATACCAAAAAGATGCCATGCATAAGAAAAACACCATTTTTAAAAAAAATTCAAATTTTTATC
* *
198303 CAAACACTCTCTAATTTCCTTAAAGGAAAGCTTCTATTTGCATTTTGACTTAATCTTGTGTTTTT
66 CAAACACTCTCCAATTTCCTTAAAGGAAAGCTTCGATTTGCATTTTGACTTAATCTTGTGTTTTT
*
198368 ACTTGAAAAATGTTTAGATCTAGTTTTGTTTTCAATTCATGCTTGGTATTAAGGTTGAATTCAAA
131 ACCTGAAAAATGTTTAGATCTAGTTTTGTTTTCAATTCATGCTTGGTATTAAGGTTGAATTCAAA
* *
198433 TCTTCAAAGCTGCATTCACAATTTCATGCTAATGTTGCATCTTTATATTCATGATTCAAGCTTAG
196 TCTTCAAAGCTGCATTCACAATTTCATGCTAATGTTGCATCTTTATATTAATGATTCAAGCTTAC
* *
198498 AAATGCATGAAAAAGTCTCTGCCATGATGATTTTCATGAGGTTATATCCAGGTCTTGGCTGAAAA
261 AAATGCATGAAAAAGTCTCTGCCATGATGATTTTCATGAGGTTAGATCCAAGTCTTGGCTGAAAA
198563 TT
326 TT
*
198565 TAAATACCAAAAAGATGCCATGCATAAGAAAAACATCATTTTT-AAAAAAATTCAAATTTTTATC
1 TAAATACCAAAAAGATGCCATGCATAAGAAAAACACCATTTTTAAAAAAAATTCAAATTTTTATC
*
198629 CAAACACTCTCCAATTTTCCTTAAAGGAAAGCTTCGATTTGCGTTTTGACTTAATCTTGTGTTTT
66 CAAACACTCTCCAA-TTTCCTTAAAGGAAAGCTTCGATTTGCATTTTGACTTAATCTTGTGTTTT
*
198694 TACCTGAAAAATGTTTAGATCTAGTTTTGTTTTCAATTCATGCTTGGTATTAAGGTTGGATTCAA
130 TACCTGAAAAATGTTTAGATCTAGTTTTGTTTTCAATTCATGCTTGGTATTAAGGTTGAATTCAA
* *
198759 ATCTTCAAAGCTTCATTCACAATTTCATGCTAATGTTGCATCTTTATGTTAATGATTCAAGCTTA
195 ATCTTCAAAGCTGCATTCACAATTTCATGCTAATGTTGCATCTTTATATTAATGATTCAAGCTTA
*
198824 CAAATGCATGAAAAAGTCTTTGCCATGATGATTTTCATGAGGTTAGATCCAAGTCTTGGCTGAAA
260 CAAATGCATGAAAAAGTCTCTGCCATGATGATTTTCATGAGGTTAGATCCAAGTCTTGGCTGAAA
198889 ATT
325 ATT
198892 TA
1 TA
198894 TTTCATCATG
Statistics
Matches: 314, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
326 34 0.11
327 280 0.89
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (327 bp):
TAAATACCAAAAAGATGCCATGCATAAGAAAAACACCATTTTTAAAAAAAATTCAAATTTTTATC
CAAACACTCTCCAATTTCCTTAAAGGAAAGCTTCGATTTGCATTTTGACTTAATCTTGTGTTTTT
ACCTGAAAAATGTTTAGATCTAGTTTTGTTTTCAATTCATGCTTGGTATTAAGGTTGAATTCAAA
TCTTCAAAGCTGCATTCACAATTTCATGCTAATGTTGCATCTTTATATTAATGATTCAAGCTTAC
AAATGCATGAAAAAGTCTCTGCCATGATGATTTTCATGAGGTTAGATCCAAGTCTTGGCTGAAAA
TT
Found at i:198974 original size:21 final size:19
Alignment explanation
Indices: 198950--198990 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
198940 ACATGTTTGG
198950 TCATGGTGATTGCATGCATCT
1 TCATGGTGATT-CATG-ATCT
*
198971 TCATGTTGATTCATGATCT
1 TCATGGTGATTCATGATCT
198990 T
1 T
198991 ATCACATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 4 0.21
21 10 0.53
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (19 bp):
TCATGGTGATTCATGATCT
Found at i:201533 original size:21 final size:19
Alignment explanation
Indices: 201507--201560 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
201497 TTTTACCATT
201507 TGTATCGATACAAATAGTACA
1 TGTATCGATACAAA-AGT-CA
* **
201528 TGTATCGATACATAAGTTT
1 TGTATCGATACAAAAGTCA
201547 TGTATCGATACAAA
1 TGTATCGATACAAA
201561 GCTACCCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAAGTCA
Found at i:201552 original size:19 final size:21
Alignment explanation
Indices: 201504--201560 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
201494 AATTTTTACC
201504 ATTTGTATCGATACAAATAGT
1 ATTTGTATCGATACAAATAGT
** *
201525 ACATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAATAGT
201545 -TTTGTATCGATACAAA
1 ATTTGTATCGATACAAA
201561 GCTACCCTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (21 bp):
ATTTGTATCGATACAAATAGT
Found at i:205015 original size:84 final size:83
Alignment explanation
Indices: 204890--205048 Score: 221
Period size: 84 Copynumber: 1.9 Consensus size: 83
204880 AAACTTGTCC
* * * *
204890 TAATAAGACAATATGGATAAGGTTCCCTTAACAAGATAATGT-TCAAAATAAACATGTGTTAAGA
1 TAATAAGAAAATATGAATAAGGTTACCTTAACAAGATAATGTCT-AAAATAAACATGTGGTAAGA
204954 CAATATGGATAAACATATTT
65 -AATATGGATAAACATATTT
* * * *
204974 TAATAAGAAAATATGAATAAGGTTATCTTAACAAGATAATGTCTAAAGTAGACGTGTGGTAAGAA
1 TAATAAGAAAATATGAATAAGGTTACCTTAACAAGATAATGTCTAAAATAAACATGTGGTAAGAA
205039 ATATGGATAA
66 ATATGGATAA
205049 GCTTGTCTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 11 0.17
84 54 0.82
85 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (83 bp):
TAATAAGAAAATATGAATAAGGTTACCTTAACAAGATAATGTCTAAAATAAACATGTGGTAAGAA
ATATGGATAAACATATTT
Found at i:205093 original size:56 final size:55
Alignment explanation
Indices: 204977--205093 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
204967 CATATTTTAA
* * * **
204977 TAAGAAAATATGAATAAGGTTATCTTAACAAGATAATGTCTAAAGTAGACGTGTGG
1 TAAG-AAATATGAATAAGCTTATCTTAACAAGATAATGTCTAAAGTAAACATGTCC
* * * *
205033 TAAGAAATATGGATAAGCTTGTCTTATCAAGATAATGTTTTAAAGTAAACATGTCC
1 TAAGAAATATGAATAAGCTTATCTTAACAAGATAATG-TCTAAAGTAAACATGTCC
205089 TAAGA
1 TAAGA
205094 TAAGTTGTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 29 0.57
56 22 0.43
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.31
Consensus pattern (55 bp):
TAAGAAATATGAATAAGCTTATCTTAACAAGATAATGTCTAAAGTAAACATGTCC
Found at i:208584 original size:79 final size:79
Alignment explanation
Indices: 208455--209287 Score: 991
Period size: 79 Copynumber: 10.6 Consensus size: 79
208445 GGAAAATCGA
* * * *
208455 TGTTTTCGAAATAAAATCGGGGTTGGAGTATCTCCTCAAAAATAACGGGGTTAGAGTATCCCTGA
1 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGA
208520 TTGTGAAAAATTAG
66 TTGTGAAAAATTAG
* * * * *
208534 TGTTTTGAAAATAAAATCGGGGTTGGAGCATCCCCTCAGAAATTATGGGGTTGGAGTATCCCCGA
1 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGA
*
208599 TTGTGGAAAATTAG
66 TTGTGAAAAATTAG
* *
208613 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTC-GAAAATAACGGGGTTAGAGTATTCTCG
1 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTAGAGTATCCCCG
208677 ATTGTGAAAAATTAG
65 ATTGTGAAAAATTAG
* * ** * *
208692 TGTTTTGGAAATAAAA-CTAGGGTTGGAGTATCCTCTC-GAAAATAATAGAGTTAGAGTATCTCC
1 TGTTTTGGAAATAAAATC-GGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTAGAGTATCCCC
208755 GATTGTGAAAAATTAG
64 GATTGTGAAAAATTAG
* * * * *
208771 TGTTTTGGAAATAAAA-CTGGGGTTAGAGCATCCCCTCGGAAATAACGGAGTTGGAGTAT-CCCG
1 TGTTTTGGAAATAAAATC-GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCG
*
208834 ATTGTGAAAAATTGG
65 ATTGTGAAAAATTAG
* * * * * * * *
208849 TATTTTAGAAATAAAAGCGAGGTTGGAGCATCCCCTCGGAAATAACGTGGTTAGAGTATCCCCAA
1 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGA
208914 TTGTGAAAAATTAG
66 TTGTGAAAAATTAG
* ** * * *
208928 TGTTTTGGAAATAAAACCGATGTTGGAGTATCCCCTCAGAAATAACGAGGTTATAGTATCCCTGA
1 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGA
*
208993 TTGTGAAAAATTGG
66 TTGTGAAAAATTAG
* * *
209007 TG-TTTGAGAAATAAAA-CAGGGGTTGGAGCATCCCCTCAGAAATAACAGGGTTGGAGTATCCCC
1 TGTTTTG-GAAATAAAATC-GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCC
*
209070 TG-TTGTGAAAAATTGG
64 -GATTGTGAAAAATTAG
* * * * *
209086 TGTTTTGGAAATAAAACCGGGGTTGGAGCATTCCCTCGGAAATAACGGGGTTGGAGTATCCCCGA
1 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGA
*
209151 TTGTGAAAAATTGG
66 TTGTGAAAAATTAG
* * * * **
209165 TGTTTTAGAAATAAAATTGGGGTTAGAGTAT-CCCTCAAAAATAACGGGGTGGGAGTATCCCCGA
1 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGA
*
209229 TTCTGAAAAATTAG
66 TTGTGAAAAATTAG
* * * * *
209243 TGTTTTGGGAACAAAACCGGGGTTAGAGTATCCCCTCGGAAATAA
1 TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAA
209288 AAACATGAAT
Statistics
Matches: 659, Mismatches: 83, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
78 143 0.22
79 509 0.77
80 7 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
TGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGA
TTGTGAAAAATTAG
Found at i:209091 original size:315 final size:314
Alignment explanation
Indices: 208455--209287 Score: 1106
Period size: 315 Copynumber: 2.6 Consensus size: 314
208445 GGAAAATCGA
* * * ** *
208455 TGTTTTCGAAATAAAA-TCGGGGTTGGAGTATCTCCTCAAAAATAACGGGGTTAGAGTATCCCTG
1 TGTTTTGGAAATAAAACT-GGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGTATCCC-G
* * *
208519 ATTGTGAAAAATTAGTGTTTT-GAAAATAAAATCGGGGTTGGAGCATCCCCTCAGAAATTATGGG
64 ATTGTGAAAAATTGGTGTTTTAG-AAATAAAATCGGGGTTGGAGCATCCCCTCAGAAATAACGGG
* *
208583 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCC
128 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
* *
208648 TCGAAAATAACGGGGTTAGAGTATTCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACTAGG
193 TCG-AAATAACGAGGTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACTAGG
* * * *
208713 GTTGGAGTATCCTCTCGAAAATAATAGAGTTAGAGTATCTCCGATTGTGAAAAATTAG
257 GTTGGAGCATCCCCTCGAAAATAACAGAGTTAGAGTATCCCCGATTGTGAAAAATTAG
* *
208771 TGTTTTGGAAATAAAACTGGGGTTAGAGCATCCCCTCGGAAATAACGGAGTTGGAGTATCCCGAT
1 TGTTTTGGAAATAAAACTGGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGTATCCCGAT
* * * * *
208836 TGTGAAAAATTGGTATTTTAGAAATAAAAGCGAGGTTGGAGCATCCCCTCGGAAATAACGTGGTT
66 TGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGCATCCCCTCAGAAATAACGGGGTT
* * **
208901 AGAGTATCCCCAATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGATGTTGGAGTATCCCCTCA
131 GGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTC-
* *
208966 GAAATAACGAGGTTATAGTATCC-CTGATTGTGAAAAATTGGTG-TTTGAGAAATAAAAC-AGGG
195 GAAATAACGAGGTTAGAGTATCCTC-GATTGTGAAAAATTAGTGTTTTG-GAAATAAAACTA-GG
* * *
209028 GTTGGAGCATCCCCTC-AGAAATAACAGGGTTGGAGTATCCCCTG-TTGTGAAAAATTGG
257 GTTGGAGCATCCCCTCGA-AAATAACAGAGTTAGAGTATCCCC-GATTGTGAAAAATTAG
* *
209086 TGTTTTGGAAATAAAACCGGGGTTGGAGCATTCCCTCGGAAATAACGGGGTTGGAGTATCCCCGA
1 TGTTTTGGAAATAAAACTGGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGTAT-CCCGA
* * * *
209151 TTGTGAAAAATTGGTGTTTTAGAAATAAAATTGGGGTTAGAGTAT-CCCTCAAAAATAACGGGGT
65 TTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGCATCCCCTCAGAAATAACGGGGT
* * * * *
209215 GGGAGTATCCCCGATTCTGAAAAATTAGTGTTTTGGGAACAAAACCGGGGTTAGAGTATCCCCTC
130 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTC
209280 GGAAATAA
195 -GAAATAA
209288 AAACATGAAT
Statistics
Matches: 452, Mismatches: 56, Indels: 19
0.86 0.11 0.04
Matches are distributed among these distances:
314 7 0.02
315 345 0.76
316 99 0.22
317 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (314 bp):
TGTTTTGGAAATAAAACTGGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGTATCCCGAT
TGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGCATCCCCTCAGAAATAACGGGGTT
GGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCG
AAATAACGAGGTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACTAGGGTTG
GAGCATCCCCTCGAAAATAACAGAGTTAGAGTATCCCCGATTGTGAAAAATTAG
Found at i:211636 original size:20 final size:20
Alignment explanation
Indices: 211611--211685 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
211601 AAATGCCTGG
* *
211611 ATGTATCAATACATTGAAAA
1 ATGTATCAATACAATGAACA
*
211631 ATGTATCGATACAATGAACA
1 ATGTATCAATACAATGAACA
*
211651 ATAGT-GCAAGTACAATGAACA
1 AT-GTATCAA-TACAATGAACA
*
211672 ATGTATCGATACAA
1 ATGTATCAATACAA
211686 ATTGTGAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 28 0.62
21 17 0.38
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (20 bp):
ATGTATCAATACAATGAACA
Found at i:213008 original size:252 final size:254
Alignment explanation
Indices: 212503--213009 Score: 714
Period size: 254 Copynumber: 2.0 Consensus size: 254
212493 TTTCATAAAC
* * * *
212503 TTGTGAACTACCAATGTTTTCAACCTAGAGTGAGGGTGTTTTGGAGTTTTTCCTCATGTACCATA
1 TTGTGAACTACCAATGTTTTCAACCAAAAGTAAGGGTGTTTCGGAGTTTTTCCTCATGTACCATA
* *
212568 GGGTAGATCCAGGTGCTAAGTTCATCCATCTTCATTTCCATTGGTTGTAGCAACCAAAGTGGTAG
66 GGGTAGATCCAGGTGCTAAGTTCAGCCATCTTCATTTCCATTGGTTGTAGCAACCAAAGTGGTAA
* * *
212633 AGCAAATTGCTTTTTACAGTATGAAAATGGAAAAAAAACCAGTTATAGCCTTGAACAAATCATAT
131 AGCAAATTACTTTTTACAGTATAAAAAT-GAAAAAAAACCAGCTATAGCCTTGAACAAATCATAT
* * * *
212698 TTTGTGATGAAAAAGTCCTAACTTCTTAGCTATTTAGGCTTAAAAAATCAATTAAATCCA
195 TTTGTCATGAAAAAGTCCTAACTTCCTAACTATTTAGGCTTAAAAAATCAACTAAATCCA
* *
212758 TTGTGAACTACCAATGTTTTCAACCAAAAGTAAGGGTGTTTCGGAGTTTTT-CTTATGTACCTTA
1 TTGTGAACTACCAATGTTTTCAACCAAAAGTAAGGGTGTTTCGGAGTTTTTCCTCATGTACCATA
* * ** * * *
212822 TGGTGGATGTAGGTGCTAAGTTTAGCCATCTTTATTTCCATTGGTTGTAGCAACCAATGTGGTAA
66 GGGTAGATCCAGGTGCTAAGTTCAGCCATCTTCATTTCCATTGGTTGTAGCAACCAAAGTGGTAA
* * * * *
212887 AGCAGATTACTTTTTATAGTCTAAAAAT-AAAGAAAACCTGCTATAGCCTTGAACAAATCATATT
131 AGCAAATTACTTTTTACAGTATAAAAATGAAAAAAAACCAGCTATAGCCTTGAACAAATCATATT
* *
212951 TTGTCATGAAAAAGTCCTAATTTCCTAACTATTTGGGCCTT-AAAAATCAACTAAATCCA
196 TTGTCATGAAAAAGTCCTAACTTCCTAACTATTTAGG-CTTAAAAAATCAACTAAATCCA
213010 ATTTAAAACC
Statistics
Matches: 222, Mismatches: 29, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
252 82 0.37
253 3 0.01
254 90 0.41
255 47 0.21
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (254 bp):
TTGTGAACTACCAATGTTTTCAACCAAAAGTAAGGGTGTTTCGGAGTTTTTCCTCATGTACCATA
GGGTAGATCCAGGTGCTAAGTTCAGCCATCTTCATTTCCATTGGTTGTAGCAACCAAAGTGGTAA
AGCAAATTACTTTTTACAGTATAAAAATGAAAAAAAACCAGCTATAGCCTTGAACAAATCATATT
TTGTCATGAAAAAGTCCTAACTTCCTAACTATTTAGGCTTAAAAAATCAACTAAATCCA
Found at i:213753 original size:82 final size:82
Alignment explanation
Indices: 213616--213769 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 82
213606 ACACTAATGT
* * * * * * * * *
213616 CTTAATAAGACAATATGGATAAGCTTGTCTAAACAAGATAATTTTTAAAGTAAACATGTCTTAAG
1 CTTAATAAAACAATATGGATAAGATTCTCTAAACAAGACAATGTCTAAAGTAAACAGGCCTTAAC
213681 ATAAATTATCTTGATGA
66 ATAAATTATCTTGATGA
213698 CTTAATAAAACAATATGGATAAGATTACT-TAAACAAGACAATGTCTAAAGTAAACAGGCCTTAA
1 CTTAATAAAACAATATGGATAAGATT-CTCTAAACAAGACAATGTCTAAAGTAAACAGGCCTTAA
213762 CATAAATT
65 CATAAATT
213770 GTTTTGGCTG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
82 61 0.98
83 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (82 bp):
CTTAATAAAACAATATGGATAAGATTCTCTAAACAAGACAATGTCTAAAGTAAACAGGCCTTAAC
ATAAATTATCTTGATGA
Found at i:219298 original size:80 final size:79
Alignment explanation
Indices: 219126--219622 Score: 437
Period size: 80 Copynumber: 6.2 Consensus size: 79
219116 ACGTCAAAAA
* * * ** * *
219126 GGGATACTCCAACCTCGTTTTTACTTCTAAAATACTGATTTTTTTTTTATCTTTGGGGATACTCC
1 GGGATACTCCAACCTCGTTTTTACTTCCAAAAT-GTCA--AATTTCTCATCTTTGGGGATACTCC
* **
219191 AACCCCACTATCTTTGAG
63 AA-CCCACCATCTCCGAG
** * * *
219209 CAGATACTCCAACCTCATTTTTACTTCCAAAATGCCAAATTTCTCATCTTTGGGGATACACCAAC
1 GGGATACTCCAACCTCGTTTTTACTTCCAAAATGTCAAATTTCTCATCTTTGGGGATACTCCAAC
219274 CCTACCATCTCCGAG
66 CC-ACCATCTCCGAG
* * * **
219289 GGGATACTCCAACC-CTGTTTTTACTTTCGAAATGCCAAAATTT-TCATCTTAAGGGATACTCCA
1 GGGATACTCCAACCTC-GTTTTTACTTCCAAAATGTC-AAATTTCTCATCTTTGGGGATACTCCA
**
219352 ACCCTACCATCTTTGAG
64 ACCC-ACCATCTCCGAG
* ** **
219369 GGGATACTCCAACCTTGTTTTTACTTCCAAAACATTGAA-TTCTTCATCTTTGGGGATACTCCAA
1 GGGATACTCCAACCTCGTTTTTACTTCCAAAATGTCAAATTTC-TCATCTTTGGGGATACTCCAA
* *
219433 TCCCATCATCTCCGAA
65 -CCCACCATCTCCGAG
* * *
219449 GGGATACTCCAACCCCGTTTTTACTTCCAAAATGTTGAAATTT-TCATCTTTGGGGATACTTCAA
1 GGGATACTCCAACCTCGTTTTTACTTCCAAAATG-TCAAATTTCTCATCTTTGGGGATAC-TCCA
* *
219513 AACCACCATCTCTGAG
64 ACCCACCATCTCCGAG
* * * ** ** *
219529 GGGATACTCCAACCACATTTTTACCTCCAAAACATTGAA-TTCTTCATCTTTGGGGATACTTCAA
1 GGGATACTCCAACCTCGTTTTTACTTCCAAAATGTCAAATTTC-TCATCTTTGGGGATACTCCAA
* *
219593 CCCCACCATCTCCAAT
65 -CCCACCATCTCCGAG
219609 GGGATACTCCAACC
1 GGGATACTCCAACC
219623 CTAGTTTTCA
Statistics
Matches: 338, Mismatches: 63, Indels: 29
0.79 0.15 0.07
Matches are distributed among these distances:
78 4 0.01
79 12 0.04
80 274 0.81
81 16 0.05
82 3 0.01
83 29 0.09
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCTCGTTTTTACTTCCAAAATGTCAAATTTCTCATCTTTGGGGATACTCCAAC
CCACCATCTCCGAG
Found at i:219368 original size:160 final size:158
Alignment explanation
Indices: 219181--219630 Score: 562
Period size: 160 Copynumber: 2.8 Consensus size: 158
219171 TTTATCTTTG
* ** *****
219181 GGGATACTCCAACCCCACTATCTTTGAGCAGATACTCCAACCTCATTTTTACTTCCAAAATGCCA
1 GGGATACTCCAA-CCCACCATCTTTGAGGGGATACTCCAACCTCATTTTTACTTCCAAAACATTG
* *
219246 AATT-TCTCATCTTTGGGGATACACCAACCCTACCATCTCCGAGGGGATACTCCAACCCTGTTTT
65 AATTCT-TCATCTTTGGGGATACTCCAACCC-ACCATCTCCGAAGGGATACTCCAACCCTGTTTT
* *
219310 TACTTTCGAAATGCCAAAATTTTCATCTTAA
128 TACTTCCAAAATGCCAAAATTTTCATCTTAA
**
219341 GGGATACTCCAACCCTACCATCTTTGAGGGGATACTCCAACCTTGTTTTTACTTCCAAAACATTG
1 GGGATACTCCAACCC-ACCATCTTTGAGGGGATACTCCAACCTCATTTTTACTTCCAAAACATTG
* *
219406 AATTCTTCATCTTTGGGGATACTCCAATCCCATCATCTCCGAAGGGATACTCCAACCCCGTTTTT
65 AATTCTTCATCTTTGGGGATACTCCAA-CCCACCATCTCCGAAGGGATACTCCAACCCTGTTTTT
*** **
219471 ACTTCCAAAATGTTGAAATTTTCATCTTTG
129 ACTTCCAAAATGCCAAAATTTTCATCTTAA
* * * * *
219501 GGGATACTTCAAAACCACCATCTCTGAGGGGATACTCCAACCACATTTTTACCTCCAAAACATTG
1 GGGATAC-TCCAACCCACCATCTTTGAGGGGATACTCCAACCTCATTTTTACTTCCAAAACATTG
*
219566 AATTCTTCATCTTTGGGGATACTTCAACCCCACCATCTCC-AATGGGATACTCCAACCCTAGTTT
65 AATTCTTCATCTTTGGGGATACTCCAA-CCCACCATCTCCGAA-GGGATACTCCAACCCT-GTTT
219630 T
127 T
219631 CACCTAAAAA
Statistics
Matches: 252, Mismatches: 32, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
159 5 0.02
160 232 0.92
161 15 0.06
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (158 bp):
GGGATACTCCAACCCACCATCTTTGAGGGGATACTCCAACCTCATTTTTACTTCCAAAACATTGA
ATTCTTCATCTTTGGGGATACTCCAACCCACCATCTCCGAAGGGATACTCCAACCCTGTTTTTAC
TTCCAAAATGCCAAAATTTTCATCTTAA
Found at i:219577 original size:240 final size:240
Alignment explanation
Indices: 219126--219622 Score: 551
Period size: 240 Copynumber: 2.1 Consensus size: 240
219116 ACGTCAAAAA
* * * * *
219126 GGGATACTCCAACCTCGTTTTTACTTCTAAAATACTGATTTTTTTTTTATCTTTGGGGATACTCC
1 GGGATACTCCAACCTCGTTTTTACTTCCAAAACACTGA--TATTCTTCATCTTTGGGGATACTCC
** *
219191 AACCCCACTATCTTTGAGCAGATACTCCAACCTCATTTTTACTTCCAAAATGCCAAATTTCTCAT
64 AACCCCACTATCTCCGAGCAGATACTCCAACCCCATTTTTACTTCCAAAATGCCAAATTTCTCAT
* * * * *
219256 CTTTGGGGATACACCAACCCTACCATCTCCGAGGGGATACTCCAACCCTGTTTTTACTTTCGAAA
129 CTTTGGGGATACACAAAACCTACCATCTCCGAGGGGATACTCCAACCCTATTTTTACTCTCCAAA
* * ***
219321 TGCCAAAATTTTCATCTTAAGGGATACTCCAACCCTACCATCTTTGAG
194 -GACAAAATTTTCATCTTAAGGGATACTCCAACCCCACCATCTCCAAG
* *
219369 GGGATACTCCAACCTTGTTTTTACTTCCAAAACATTGA-ATTCTTCATCTTTGGGGATACTCCAA
1 GGGATACTCCAACCTCGTTTTTACTTCCAAAACACTGATATTCTTCATCTTTGGGGATACTCCAA
* * * **
219433 TCCCA-TCATCTCCGAAG-GGATACTCCAACCCCGTTTTTACTTCCAAAATGTTGAAATTT-TCA
66 CCCCACT-ATCTCCG-AGCAGATACTCCAACCCCATTTTTACTTCCAAAATG-CCAAATTTCTCA
* *
219495 TCTTTGGGGATACTTCAAAACC-ACCATCTCTGAGGGGATACTCCAACCAC-ATTTTTAC-CTCC
128 TCTTTGGGGATAC-ACAAAACCTACCATCTCCGAGGGGATACTCCAACC-CTATTTTTACTCTCC
* ** * *
219557 AAA-ACATTGAATTCTTCATCTTTGGGGATACTTCAACCCCACCATCTCCAAT
191 AAAGACA--AAATT-TTCATCTTAAGGGATACTCCAACCCCACCATCTCCAAG
219609 GGGATACTCCAACC
1 GGGATACTCCAACC
219623 CTAGTTTTCA
Statistics
Matches: 214, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
237 2 0.01
239 10 0.05
240 154 0.72
241 14 0.07
243 34 0.16
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.33
Consensus pattern (240 bp):
GGGATACTCCAACCTCGTTTTTACTTCCAAAACACTGATATTCTTCATCTTTGGGGATACTCCAA
CCCCACTATCTCCGAGCAGATACTCCAACCCCATTTTTACTTCCAAAATGCCAAATTTCTCATCT
TTGGGGATACACAAAACCTACCATCTCCGAGGGGATACTCCAACCCTATTTTTACTCTCCAAAGA
CAAAATTTTCATCTTAAGGGATACTCCAACCCCACCATCTCCAAG
Found at i:221862 original size:26 final size:26
Alignment explanation
Indices: 221813--221864 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
221803 AAAGAAAAAA
* *
221813 AAACAAAGATTGGCTAGGTATTTGGT
1 AAACAAAGATTGGCCAAGTATTTGGT
* *
221839 AAACTAAGATTGGCCAAGTTTTTGGT
1 AAACAAAGATTGGCCAAGTATTTGGT
221865 CTTTAGGCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (26 bp):
AAACAAAGATTGGCCAAGTATTTGGT
Done.