Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 43
Found at i:1928511 original size:12 final size:13
Alignment explanation
Indices: 1928494--1928522 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1928484 CTTAATAGCG
1928494 AAAATTAAAA-TT
1 AAAATTAAAATTT
1928506 AAAATTAAAATTT
1 AAAATTAAAATTT
1928519 AAAA
1 AAAA
1928523 CAAAACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:1928728 original size:26 final size:26
Alignment explanation
Indices: 1928681--1928754 Score: 62
Period size: 26 Copynumber: 2.8 Consensus size: 26
1928671 AAAAACAATG
* *
1928681 AAAAAAATAAA-ACACAATATATCAAA
1 AAAAAAATAAATAAATAA-ATATCAAA
* * *
1928707 AGAAAAAAT-ATTAAATAAATATGAGA
1 A-AAAAAATAAATAAATAAATATCAAA
*
1928733 ATAAAAATAAATAAATAAATAT
1 AAAAAAATAAATAAATAAATAT
1928755 TAATGTTACA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
25 6 0.16
26 21 0.55
27 11 0.29
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (26 bp):
AAAAAAATAAATAAATAAATATCAAA
Found at i:1928832 original size:15 final size:14
Alignment explanation
Indices: 1928800--1928855 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
1928790 AGAATTGAGC
*
1928800 AAAAAATAATAATA
1 AAAAAATAAAAATA
*
1928814 AAAAAATAAAAAATG
1 AAAAAAT-AAAAATA
*
1928829 AAAAAAT-GAAATA
1 AAAAAATAAAAATA
1928842 AAAAGTAATAAAAA
1 AAAA--AATAAAAA
1928856 GGGTTAAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
13 8 0.24
14 7 0.21
15 15 0.45
16 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:1928903 original size:18 final size:17
Alignment explanation
Indices: 1928873--1928906 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1928863 ATCTTGAAAT
*
1928873 AAAAAAAATAAAAATAA
1 AAAAAAAAGAAAAATAA
1928890 AAAAAAGAAGAAAAATA
1 AAAAAA-AAGAAAAATA
1928907 TTAATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAAAAGAAAAATAA
Found at i:1928936 original size:10 final size:10
Alignment explanation
Indices: 1928923--1928947 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1928913 TAAATTAGTG
1928923 AACAAAATAA
1 AACAAAATAA
1928933 AACAAAATAA
1 AACAAAATAA
1928943 AACAA
1 AACAA
1928948 GAGTAGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (10 bp):
AACAAAATAA
Found at i:1932272 original size:31 final size:30
Alignment explanation
Indices: 1932234--1932352 Score: 96
Period size: 31 Copynumber: 3.8 Consensus size: 30
1932224 TAGGTCCATA
1932234 AGGAATTACCAGTCGGTGCTGAACCTATCTG
1 AGGAATTACCA-TCGGTGCTGAACCTATCTG
* * * * * *
1932265 AGGAATTACGAACAGCGACTGAACCT-GCATA
1 AGGAATTACCATCGGTG-CTGAACCTATC-TG
* *
1932296 AGGAATTACCATTCGGTGCTTAACCTATCCG
1 AGGAATTACCA-TCGGTGCTGAACCTATCTG
* *
1932327 AGGAATTACCAACAGTGACTGAACCT
1 AGGAATTACCATCGGTG-CTGAACCT
1932353 GCCAGAGTCT
Statistics
Matches: 66, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
30 8 0.12
31 54 0.82
32 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (30 bp):
AGGAATTACCATCGGTGCTGAACCTATCTG
Found at i:1932330 original size:62 final size:62
Alignment explanation
Indices: 1932230--1932354 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
1932220 CCCTTAGGTC
* *
1932230 CATAAGGAATTACCAGTCGGTGCTGAACCTATCTGAGGAATTACGAACAGCGACTGAACCTG
1 CATAAGGAATTACCAGTCGGTGCTGAACCTATCCGAGGAATTACCAACAGCGACTGAACCTG
* * *
1932292 CATAAGGAATTACCATTCGGTGCTTAACCTATCCGAGGAATTACCAACAGTGACTGAACCTG
1 CATAAGGAATTACCAGTCGGTGCTGAACCTATCCGAGGAATTACCAACAGCGACTGAACCTG
1932354 C
1 C
1932355 CAGAGTCTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (62 bp):
CATAAGGAATTACCAGTCGGTGCTGAACCTATCCGAGGAATTACCAACAGCGACTGAACCTG
Found at i:1933646 original size:16 final size:16
Alignment explanation
Indices: 1933625--1933655 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1933615 TTAGAAATGC
*
1933625 ATAACATGAAATATAA
1 ATAACAAGAAATATAA
1933641 ATAACAAGAAATATA
1 ATAACAAGAAATATA
1933656 TTTGTAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAACAAGAAATATAA
Found at i:1936810 original size:147 final size:149
Alignment explanation
Indices: 1936532--1936835 Score: 585
Period size: 147 Copynumber: 2.1 Consensus size: 149
1936522 TTATCTACTC
1936532 TTGTGTCATCTTTTTATGATTGGATTTAACTCGTCTCTCTAAATTCAAATGGAGTTTATTTGATT
1 TTGTGTCATCTTTTTATGATTGGATTTAACTCGTCTCTCTAAATTCAAATGGAGTTTATTTGATT
1936597 ATTCTATTGAATTATCTTTGCTTTGAACTCTCAAACGGGTTATTGATATACGCTCACAATCACCG
66 ATTCTATTGAATTATCTTTGCTTTGAACTCTCAAACGGGTTATTGATATACGCTCACAATCACCG
1936662 ATGTTAGATTACGATTG-A
131 ATGTTAGATTACGATTGAA
1936680 TTGTGTCATC-TTTTATGATTGGATTTAACTCGTCTCTCTAAATTCAAATGGAGTTTATTTGATT
1 TTGTGTCATCTTTTTATGATTGGATTTAACTCGTCTCTCTAAATTCAAATGGAGTTTATTTGATT
*
1936744 ATTCTATTGAATTATCTTTGCTTTGGACTCTCAAACGGGTTATTGATATACGCTCACAATCACCG
66 ATTCTATTGAATTATCTTTGCTTTGAACTCTCAAACGGGTTATTGATATACGCTCACAATCACCG
1936809 ATGTTAGATTACGATTGAA
131 ATGTTAGATTACGATTGAA
1936828 TTGTGTCA
1 TTGTGTCA
1936836 ATACCATATT
Statistics
Matches: 154, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
147 135 0.88
148 19 0.12
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (149 bp):
TTGTGTCATCTTTTTATGATTGGATTTAACTCGTCTCTCTAAATTCAAATGGAGTTTATTTGATT
ATTCTATTGAATTATCTTTGCTTTGAACTCTCAAACGGGTTATTGATATACGCTCACAATCACCG
ATGTTAGATTACGATTGAA
Found at i:1938775 original size:2 final size:2
Alignment explanation
Indices: 1938768--1938805 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1938758 GTCGTTTATT
1938768 TC TC TC TC TC TC TC TC -C TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1938806 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1938810 original size:2 final size:2
Alignment explanation
Indices: 1938805--1938864 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
1938795 TCTCTCTCTC
1938805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1938846 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
1938865 GGGTTAGGAC
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1939132 original size:29 final size:29
Alignment explanation
Indices: 1939095--1939251 Score: 88
Period size: 29 Copynumber: 5.3 Consensus size: 29
1939085 TTTAAATTAG
*
1939095 TCCTTAAACTTTTAAACATTCTAATTTCA
1 TCCTCAAACTTTTAAACATTCTAATTTCA
* * *
1939124 TCCTCAAAC-TATAACTCTCATTCTAA-ATCA
1 TCCTCAAACTTTTAA---ACATTCTAATTTCA
* * *
1939154 GTCCTTAAACTTTTAAACATTCCAATTTTA
1 -TCCTCAAACTTTTAAACATTCTAATTTCA
** * * * **
1939184 TCCTCAAACAATGAATGTCATTCTAAATTGG
1 TCCTCAAACTTTTAA--ACATTCTAATTTCA
1939215 TCC-CTAAACTTTTAAATC-TTCTAATTTCA
1 TCCTC-AAACTTTTAAA-CATTCTAATTTCA
1939244 TCCTCAAA
1 TCCTCAAA
1939252 TTCATCCAAA
Statistics
Matches: 91, Mismatches: 26, Indels: 22
0.65 0.19 0.16
Matches are distributed among these distances:
28 4 0.04
29 40 0.44
30 8 0.09
31 35 0.38
32 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (29 bp):
TCCTCAAACTTTTAAACATTCTAATTTCA
Found at i:1939151 original size:60 final size:60
Alignment explanation
Indices: 1939087--1939251 Score: 235
Period size: 60 Copynumber: 2.8 Consensus size: 60
1939077 ATCCTTATTT
*
1939087 TAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCTCAAACTAT-AACTCTCATTC
1 TAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCTCAAACAATGAA-TCTCATTC
* * * *
1939147 TAAATCAGTCCTTAAACTTTTAAACATTCCAATTTTATCCTCAAACAATGAATGTCATTC
1 TAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCTCAAACAATGAATCTCATTC
* *
1939207 TAAATTGGTCCCTAAACTTTTAAATC-TTCTAATTTCATCCTCAAA
1 TAAATTAGTCCTTAAACTTTTAAA-CATTCTAATTTCATCCTCAAA
1939252 TTCATCCAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
60 90 0.97
61 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (60 bp):
TAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCTCAAACAATGAATCTCATTC
Found at i:1941635 original size:9 final size:9
Alignment explanation
Indices: 1941621--1941646 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1941611 TCAAACAAAA
1941621 TAAATTAAG
1 TAAATTAAG
1941630 TAAATTAAG
1 TAAATTAAG
1941639 TAAATTAA
1 TAAATTAA
1941647 ATTGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (9 bp):
TAAATTAAG
Found at i:1951285 original size:51 final size:52
Alignment explanation
Indices: 1951209--1951307 Score: 191
Period size: 51 Copynumber: 1.9 Consensus size: 52
1951199 ACATATCCAC
1951209 ACTCTTCATAACCTGTTATTTCATGCAATAAGAGAATT-ACGATATTAACAT
1 ACTCTTCATAACCTGTTATTTCATGCAATAAGAGAATTAACGATATTAACAT
1951260 ACTCTTCATAACCTGTTATTTCATGCAATAAGAGAATTAACGATATTA
1 ACTCTTCATAACCTGTTATTTCATGCAATAAGAGAATTAACGATATTA
1951308 GTTAATTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 38 0.81
52 9 0.19
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (52 bp):
ACTCTTCATAACCTGTTATTTCATGCAATAAGAGAATTAACGATATTAACAT
Found at i:1951993 original size:27 final size:27
Alignment explanation
Indices: 1951955--1952008 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1951945 GTCAGAGGTG
1951955 CCATATACTGAAATAATGACTGAGTCA
1 CCATATACTGAAATAATGACTGAGTCA
**
1951982 CCATATACTGAAATGTTGACTGAGTCA
1 CCATATACTGAAATAATGACTGAGTCA
1952009 AGTGAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
CCATATACTGAAATAATGACTGAGTCA
Found at i:1953154 original size:13 final size:13
Alignment explanation
Indices: 1953122--1953159 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1953112 TAATTTTTTT
1953122 TAAAT-ATTATAAA
1 TAAATAATTA-AAA
1953135 TAAATAATTAAAA
1 TAAATAATTAAAA
*
1953148 TAAATAAATAAA
1 TAAATAATTAAA
1953160 CATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATAATTAAAA
Found at i:1953608 original size:4 final size:4
Alignment explanation
Indices: 1953599--1953724 Score: 58
Period size: 4 Copynumber: 29.0 Consensus size: 4
1953589 ATATCCCTTC
* * * **
1953599 AAAT AAAT AAAT TAAT AAAT AATT CAAAAT AAAT AAAT AAAT AATTT ATTT
1 AAAT AAAT AAAT AAAT AAAT AAAT --AAAT AAAT AAAT AAAT AA-AT AAAT
* **
1953650 GAAAT AAAT GAAT ACGAAT AAAAT AAATT ATTT GAAAT AAAT AAA- AAATT
1 -AAAT AAAT AAAT A--AAT -AAAT AAA-T AAAT -AAAT AAAT AAAT AAA-T
1953700 CAAAGT AAAT AAAT AAAT AAA- AAAT
1 -AAA-T AAAT AAAT AAAT AAAT AAAT
1953725 TACCTCCGGA
Statistics
Matches: 94, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
3 6 0.06
4 63 0.67
5 14 0.15
6 10 0.11
7 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:1953630 original size:22 final size:22
Alignment explanation
Indices: 1953603--1953644 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1953593 CCCTTCAAAT
*
1953603 AAATAAATTAATAAATAATTCA
1 AAATAAATAAATAAATAATTCA
1953625 AAATAAATAAATAAATAATT
1 AAATAAATAAATAAATAATT
1953645 TATTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAAATAAATAAATAATTCA
Found at i:1953654 original size:26 final size:26
Alignment explanation
Indices: 1953599--1953698 Score: 85
Period size: 26 Copynumber: 3.6 Consensus size: 26
1953589 ATATCCCTTC
* * **
1953599 AAATAAATAAATTAATAAATAATTCA
1 AAATAAATAAATAAATAAATTATTTG
*
1953625 AAATAAATAAATAAATAATTTATTTG
1 AAATAAATAAATAAATAAATTATTTG
1953651 AAATAAATGAATACGAATAAAATAAATTATTTG
1 AAAT--A--AATA--AAT-AAATAAATTATTTG
1953684 AAATAAATAAA-AAAT
1 AAATAAATAAATAAAT
1953699 TCAAAGTAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
25 4 0.07
26 25 0.41
27 2 0.03
28 1 0.02
29 4 0.07
30 4 0.07
31 1 0.02
32 3 0.05
33 17 0.28
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAATAAATAAATAAATAAATTATTTG
Found at i:1955224 original size:8 final size:8
Alignment explanation
Indices: 1955213--1955261 Score: 91
Period size: 8 Copynumber: 6.2 Consensus size: 8
1955203 TATTATAATA
1955213 TTTTTCC-
1 TTTTTCCT
1955220 TTTTTCCT
1 TTTTTCCT
1955228 TTTTTCCT
1 TTTTTCCT
1955236 TTTTTCCT
1 TTTTTCCT
1955244 TTTTTCCT
1 TTTTTCCT
1955252 TTTTTCCT
1 TTTTTCCT
1955260 TT
1 TT
1955262 CCTTCGTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 7 0.17
8 34 0.83
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCCT
Found at i:1955471 original size:8 final size:8
Alignment explanation
Indices: 1955454--1955590 Score: 123
Period size: 8 Copynumber: 17.2 Consensus size: 8
1955444 ATGCTCCTCG
1955454 TGTATATA
1 TGTATATA
*
1955462 TGTATGTA
1 TGTATATA
1955470 TGTATATA
1 TGTATATA
*
1955478 TATATATA
1 TGTATATA
*
1955486 TATATATA
1 TGTATATA
*
1955494 TCTATATA
1 TGTATATA
*
1955502 TATATATA
1 TGTATATA
*
1955510 TATATATA
1 TGTATATA
*
1955518 TATATATA
1 TGTATATA
*
1955526 TATAT-TA
1 TGTATATA
*
1955533 TATATATA
1 TGTATATA
*
1955541 TATATATA
1 TGTATATA
*
1955549 TATATATA
1 TGTATATA
*
1955557 TATATATA
1 TGTATATA
*
1955565 TATATATA
1 TGTATATA
* *
1955573 TATATACA
1 TGTATATA
*
1955581 TGTATGTA
1 TGTATATA
1955589 TG
1 TG
1955591 CAAGTAAGCC
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
7 7 0.06
8 112 0.94
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (8 bp):
TGTATATA
Found at i:1955477 original size:2 final size:2
Alignment explanation
Indices: 1955456--1955578 Score: 203
Period size: 2 Copynumber: 62.0 Consensus size: 2
1955446 GCTCCTCGTG
* * * *
1955456 TA TA TA TG TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1955498 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1955539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1955579 CATGTATGTA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
1 1 0.01
2 111 0.99
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1960063 original size:54 final size:54
Alignment explanation
Indices: 1959791--1960070 Score: 310
Period size: 54 Copynumber: 5.2 Consensus size: 54
1959781 CTATGTGTAC
* * * * * *
1959791 TATCGACTCTATGTGTGAAACCCATGTAATTCATAATGAGTTTGTGAATTACTG
1 TATCGACACTATGTATGCAACCCACGGAATTCATAATGAGTTTGTGAATTACCG
* * * * *
1959845 TATCGACAGTATGTTTGCAACCCACAGAATTCATAATGAGTTTGTGAATGATCG
1 TATCGACACTATGTATGCAACCCACGGAATTCATAATGAGTTTGTGAATTACCG
* ** * **
1959899 TATAGGTAATATGTATGCAACCCACATAATTCATAATGAGTTTGTGAATTACCG
1 TATCGACACTATGTATGCAACCCACGGAATTCATAATGAGTTTGTGAATTACCG
* * * *
1959953 TATCGACATTATGTATGCAACCCACGGAATTCGTAATGAGTTTCTGAATTACCA
1 TATCGACACTATGTATGCAACCCACGGAATTCATAATGAGTTTGTGAATTACCG
* * ** *
1960007 TATC-AGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTTTCA
1 TATCGA-CACTATGTATGCAACCCACGGAATTCATAATGAGTTTGTGAATTACCG
1960061 TATCGACACT
1 TATCGACACT
1960071 TAGGTGCAAT
Statistics
Matches: 190, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 188 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (54 bp):
TATCGACACTATGTATGCAACCCACGGAATTCATAATGAGTTTGTGAATTACCG
Found at i:1965733 original size:54 final size:54
Alignment explanation
Indices: 1965647--1965910 Score: 286
Period size: 54 Copynumber: 4.9 Consensus size: 54
1965637 CTATATGTAC
* * * **
1965647 TATCGAAACTATATGTTCAACCCACGGTATTCATAATGAGTTTGTGAATTACCG
1 TATCGGAACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* * *
1965701 TATCGGAACTATGTGTACAACCCATGAAATTCATAATGAGTTTGTGAATTACTG
1 TATCGGAACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* * * *
1965755 TATCGGCACTATGTATGCAACCCACGGAATTCATAATGAGTTTGTGAATTATCG
1 TATCGGAACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* * * *
1965809 TATCGGCATTATGTGTGCAACCCAC-AGAATTCATAATAAG--TGTGAATTAGCG
1 TATCGGAACTATGTGTGCAACCCACGA-AATTCATAATGAGTTTGTGAATTACCG
* * * *
1965861 TATC-GACATTATGTGTGCAACCCA-TACAATTCATAACGAGTTTATGAATT
1 TATCGGA-ACTATGTGTGCAACCCACGA-AATTCATAATGAGTTTGTGAATT
1965911 TCCATATCAG
Statistics
Matches: 181, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
51 1 0.01
52 44 0.24
54 136 0.75
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (54 bp):
TATCGGAACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
Found at i:1971111 original size:59 final size:60
Alignment explanation
Indices: 1970981--1971112 Score: 146
Period size: 59 Copynumber: 2.2 Consensus size: 60
1970971 AACTGCATCC
* * * *
1970981 ATAAGGACTTACCCTAGGCCCGACGGCGTAGGTGCCAACCTAAGGGAGCACCTTGAGTCT
1 ATAAGGACTTACCCTAGGCCCGACAGCGTAGGTGCCAACCTAAGGGAACACCTTAAGCCT
* * *
1971041 ATAAGGTCTTACCCTA-G-CCGA-AGCGTAGGTGTCC-ACCTGAGGGGAATACCCTTAAGCCT
1 ATAAGGACTTACCCTAGGCCCGACAGCGTAGGTG-CCAACCT-AAGGGAACA-CCTTAAGCCT
1971100 ATAAGGACTTACC
1 ATAAGGACTTACC
1971113 TAATGTACAC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
57 13 0.21
58 12 0.20
59 21 0.34
60 15 0.25
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (60 bp):
ATAAGGACTTACCCTAGGCCCGACAGCGTAGGTGCCAACCTAAGGGAACACCTTAAGCCT
Found at i:1971570 original size:13 final size:13
Alignment explanation
Indices: 1971532--1971576 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
1971522 TGTGGACATG
* *
1971532 ATATTTTAAACAG
1 ATATTTCAAACAA
1971545 ATATTTCAAACAA
1 ATATTTCAAACAA
1971558 ATATTTCAAACAA
1 ATATTTCAAACAA
*
1971571 TTATTT
1 ATATTT
1971577 AAAAAAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTCAAACAA
Found at i:1975634 original size:45 final size:44
Alignment explanation
Indices: 1975509--1975671 Score: 195
Period size: 45 Copynumber: 3.6 Consensus size: 44
1975499 CAATACTTTA
* *
1975509 ATTATTATGTTGCCGAAAGTATAAT-AAAAGGATTAGTTCCCTTTG
1 ATTATTATGTTGCC-AAAGTAAAATCAAAA-GATTAGTTCCTTTTG
* *
1975554 ATTATT-TGGTTGTCAAAGTAAAATCAAACGATTAGTTCCTTTTG
1 ATTATTAT-GTTGCCAAAGTAAAATCAAAAGATTAGTTCCTTTTG
*
1975598 ATTATTATGCTGCCAACAGTAAAATCAAAAGATTAGTTCCTTTTG
1 ATTATTATGTTGCCAA-AGTAAAATCAAAAGATTAGTTCCTTTTG
* * *
1975643 AATATTATATTGTCAAAAGTAAAATCAAA
1 ATTATTATGTTG-CCAAAGTAAAATCAAA
1975672 TGGTTAGCTC
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
44 36 0.35
45 63 0.62
46 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (44 bp):
ATTATTATGTTGCCAAAGTAAAATCAAAAGATTAGTTCCTTTTG
Found at i:1975687 original size:45 final size:45
Alignment explanation
Indices: 1975524--1975693 Score: 175
Period size: 45 Copynumber: 3.8 Consensus size: 45
1975514 TATGTTGCCG
* * * *
1975524 AAAGTATAAT-AAAAGGATTAGTTCCCTTTGATTATT-TGGTTGTC-
1 AAAGTAAAATCAAAA-GATTAGTTCCTTTTGAATATTAT-ATTGTCA
* * ** *
1975568 AAAGTAAAATCAAACGATTAGTTCCTTTTGATTATTATGCTGCCA
1 AAAGTAAAATCAAAAGATTAGTTCCTTTTGAATATTATATTGTCA
*
1975613 ACAGTAAAATCAAAAGATTAGTTCCTTTTGAATATTATATTGTCA
1 AAAGTAAAATCAAAAGATTAGTTCCTTTTGAATATTATATTGTCA
* * * *
1975658 AAAGTAAAATCAAATGGTTAGCTCATTTTGAATATT
1 AAAGTAAAATCAAAAGATTAGTTCCTTTTGAATATT
1975694 GAGTTGTGAA
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
44 33 0.31
45 74 0.69
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (45 bp):
AAAGTAAAATCAAAAGATTAGTTCCTTTTGAATATTATATTGTCA
Found at i:1975999 original size:58 final size:58
Alignment explanation
Indices: 1975930--1976415 Score: 490
Period size: 58 Copynumber: 8.4 Consensus size: 58
1975920 GATTCTAATA
* *
1975930 GAAAATAAATTGTTGAATTTATTTCCTTGGGAATCTAGAATGATTCTAACTTTGTTAG
1 GAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAATGATTCTAACTTTGTAAG
* * * * *
1975988 GAAAATGAATTGTTGCA-TT-TTTCTTTGAGAATCTAGAATTATTCTAACTTTATAAG
1 GAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAATGATTCTAACTTTGTAAG
** * * *
1976044 GGGAA-AAATCGTTGAATTTTTTTCCTTGAGAATCTAGAATGACTT-TAACTTTATTAA-
1 GAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAATGA-TTCTAACTTT-GTAAG
* * * **
1976101 GAAAATGAATTGTTGAATTTATTTTCTTG-GAATC-ATGAACGAATTCTAA-TTTCACAAG
1 GAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTA-GAATG-ATTCTAACTTT-GTAAG
* * * * *
1976159 GAAAATTAATTGTTTAATTTATTTCCTTGAAAAT-TAAGAGTGATTCTAACTTTGTTAG
1 GAAAATAAATTGTTGAATTTATTTCCTTGAGAATCT-AGAATGATTCTAACTTTGTAAG
* * *
1976217 GAAAATGAATTGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTTTGTAAA
1 GAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAATGATTCTAACTTTGTAAG
* * * * *
1976275 AATAAATAAATTGTTGAATTTATATCATTGAGAATCTTGAATGATTTTAACTTTGTAAG
1 GA-AAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAATGATTCTAACTTTGTAAG
* * * *
1976334 GAAAATAAATAGTTGAATTTATTTCCTTTAGAATCTTGAATGATTCT-A-TTCTGTAAAA
1 GAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAATGATTCTAACTT-TGT-AAG
* *
1976392 GTAAATAAATTATTGAATTTATTT
1 GAAAATAAATTGTTGAATTTATTT
1976416 TCTTAGGAAT
Statistics
Matches: 354, Mismatches: 57, Indels: 34
0.80 0.13 0.08
Matches are distributed among these distances:
55 8 0.02
56 40 0.11
57 52 0.15
58 191 0.54
59 62 0.18
60 1 0.00
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (58 bp):
GAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAATGATTCTAACTTTGTAAG
Found at i:1976209 original size:116 final size:114
Alignment explanation
Indices: 1975930--1976381 Score: 454
Period size: 117 Copynumber: 3.9 Consensus size: 114
1975920 GATTCTAATA
*
1975930 GAAAATAAATTGTTGAATTTATTTCCTTGGGAATCTAGAATGATTCTAACTTTGTTAGGAAAATG
1 GAAAAT-AATTGTTGAATTTATTTCCTTGAGAATCTAGAATGATTCTAACTTTGTTAGGAAAATG
* * * *
1975995 AATTGTTGCATTT-TTCT-TTGAGAATCTAGAATTATTCTAACTTTATAAGG
65 AATTGTTGAATTTATTTTCTTGAGAATCT-GAA-GATTCTAACTTTACAAGG
* * * * *
1976045 GGAAA-AATCGTTGAATTTTTTTCCTTGAGAATCTAGAATGACTT-TAACTTTATTAAGAAAATG
1 GAAAATAATTGTTGAATTTATTTCCTTGAGAATCTAGAATGA-TTCTAACTTTGTTAGGAAAATG
1976108 AATTGTTGAATTTATTTTCTTG-GAATCATGAACGAATTCTAA-TTTCACAA-G
65 AATTGTTGAATTTATTTTCTTGAGAATC-TGAA-G-ATTCTAACTTT-ACAAGG
* * *
1976159 GAAAATTAATTGTTTAATTTATTTCCTTGAAAAT-TAAGAGTGATTCTAACTTTGTTAGGAAAAT
1 GAAAA-TAATTGTTGAATTTATTTCCTTGAGAATCT-AGAATGATTCTAACTTTGTTAGGAAAAT
* ** *
1976223 GAATTGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTTTGTAA-A
64 GAATTGTTGAATTTATTTTCTTGAGAATC-TGAA-GATTCTAACTTTACAAGG
* * * * * *
1976275 AATAAATAAATTGTTGAATTTATATCATTGAGAATCTTGAATGATTTTAACTTTGTAAGGAAAAT
1 GA-AAAT-AATTGTTGAATTTATTTCCTTGAGAATCTAGAATGATTCTAACTTTGTTAGGAAAAT
* * * *
1976340 AAATAGTTGAATTTATTTCCTTTAGAATCTTGAATGATTCTA
64 GAATTGTTGAATTTATTTTCTTGAGAATC-TGAA-GATTCTA
1976382 TTCTGTAAAA
Statistics
Matches: 285, Mismatches: 37, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
113 62 0.22
114 21 0.07
115 21 0.07
116 78 0.27
117 102 0.36
118 1 0.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (114 bp):
GAAAATAATTGTTGAATTTATTTCCTTGAGAATCTAGAATGATTCTAACTTTGTTAGGAAAATGA
ATTGTTGAATTTATTTTCTTGAGAATCTGAAGATTCTAACTTTACAAGG
Found at i:1976453 original size:116 final size:117
Alignment explanation
Indices: 1975932--1976472 Score: 337
Period size: 116 Copynumber: 4.7 Consensus size: 117
1975922 TTCTAATAGA
* * * * * * * * *
1975932 AAATAAATTGTTGAATTTATTTCCTTGGGAATCTAGAATGATTCTAACTTTGTTAGGAAAATGAA
1 AAATAAATTATTGAATTTATATCATTGAGAATCTTGAAGGATCCTAACTTTGTAAGGAAAATAAA
* * * * * * ***
1975997 TTGTTGCA-TT-TTTCTTTGAGAATCTAGAATTATTCTAACTTTAT-AAGGG
66 TAGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTTTGTAAAAAT
* ** * * * * * * * *
1976046 GAA-AAATCGTTGAATTTTTTTCCTTGAGAATCTAGAATGA-CTTTAACTTTATTAA-GAAAATG
1 AAATAAATTATTGAATTTATATCATTGAGAATCTTGAAGGATC-CTAACTTT-GTAAGGAAAATA
* * * * * *
1976108 AATTGTTGAATTTATTTTCTTG-GAATCATGAACGAATTCTAA-TTT-CACAAGGA-
64 AATAGTTGAATTTATTTCCTTGAGAATCTTGAATG-ATTCTAACTTTGTA-AA-AAT
* * * * * * * * * *
1976161 AAATTAATTGTTTAATTTATTTCCTTGA-AA-ATTAAGAGTGATTCTAACTTTGTTAGGAAAATG
1 AAATAAATTATTGAATTTATATCATTGAGAATCTTGA-AG-GATCCTAACTTTGTAAGGAAAATA
*
1976224 AATTGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTTTGTAAAAAT
64 AATAGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTTTGTAAAAAT
* * **
1976278 AAATAAATTGTTGAATTTATATCATTGAGAATCTTGAATGATTTTAACTTTGTAAGGAAAATAAA
1 AAATAAATTATTGAATTTATATCATTGAGAATCTTGAAGGATCCTAACTTTGTAAGGAAAATAAA
* *
1976343 TAGTTGAATTTATTTCCTTTAGAATCTTGAATGATTCT-A-TTCTGTAAAAGT
66 TAGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTT-TGTAAAAAT
*
1976394 AAATAAATTATTGAATTTATTTTC-TT-AGGAATCTTGAAGGATCCT-A-TTATGTAAAGG-AAA
1 AAATAAATTATTGAATTTA-TATCATTGA-GAATCTTGAAGGATCCTAACTT-TGT-AAGGAAAA
* * *
1976454 TAAATCGTAGCATTTATTT
62 TAAATAGTTGAATTTATTT
1976473 TCCTGTTTTG
Statistics
Matches: 347, Mismatches: 56, Indels: 47
0.77 0.12 0.10
Matches are distributed among these distances:
113 57 0.16
114 21 0.06
115 48 0.14
116 113 0.33
117 101 0.29
118 4 0.01
119 3 0.01
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (117 bp):
AAATAAATTATTGAATTTATATCATTGAGAATCTTGAAGGATCCTAACTTTGTAAGGAAAATAAA
TAGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTTTGTAAAAAT
Found at i:1976476 original size:116 final size:117
Alignment explanation
Indices: 1976204--1976472 Score: 318
Period size: 117 Copynumber: 2.3 Consensus size: 117
1976194 AAGAGTGATT
* * * *
1976204 CTAACTTTGTTAGGAAAATGAATTGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTT
1 CTAACTTTGTAAGGAAAATAAATAGTAGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTT
* * *
1976269 TGTAAAAATAAATAAATTGTTGAATTTATATCATTGAGAATCTTGAATGATT
66 TGTAAAAATAAATAAATTATTGAATTTATATCATTGAGAATCTTGAAGGATC
* * *
1976321 TTAACTTTGTAAGGAAAATAAATAGTTGAATTTATTTCCTTTAGAATCTTGAATGATTCT-A-TT
1 CTAACTTTGTAAGGAAAATAAATAGTAGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTT
* *
1976384 CTGTAAAAGTAAATAAATTATTGAATTTATTTTC-TT-AGGAATCTTGAAGGATC
66 -TGTAAAAATAAATAAATTATTGAATTTA-TATCATTGA-GAATCTTGAAGGATC
* *
1976437 CT-A-TTATGTAAAGG-AAATAAATCGTAGCATTTATTT
1 CTAACTT-TGT-AAGGAAAATAAATAGTAGAATTTATTT
1976473 TCCTGTTTTG
Statistics
Matches: 133, Mismatches: 14, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
114 2 0.02
115 26 0.20
116 47 0.35
117 58 0.44
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (117 bp):
CTAACTTTGTAAGGAAAATAAATAGTAGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTT
TGTAAAAATAAATAAATTATTGAATTTATATCATTGAGAATCTTGAAGGATC
Found at i:1976549 original size:96 final size:95
Alignment explanation
Indices: 1976385--1976607 Score: 270
Period size: 96 Copynumber: 2.3 Consensus size: 95
1976375 GATTCTATTC
* * * *
1976385 TGTAAAAGTAAATAAATTATTGAATTTATTTTCTTAGGAATCTTGAAGGATCCTATTATGTAAAG
1 TGTAAAAGAAAATAAATCATTGAATTTA-TTTCCTAAGAATCTTGAAGGATCCTATTATGTAAAG
* * *
1976450 GAAATAAATCGTAGCATTTATTTTCCTGTTT
65 GAAATAAATCGTAGAATTTATTTTCATGTTA
* * * *
1976481 TGTAAAAGAAAATAAATCAATGAATTTATTTCCTAAGAATCTT-ATATGATTCTGGTT-TGTAAA
1 TGTAAAAGAAAATAAATCATTGAATTTATTTCCTAAGAATCTTGA-AGGATCCT-ATTATGT-AA
1976544 AGGAAATAAATCGTAGAATTTATTTTCATGTTA
63 AGGAAATAAATCGTAGAATTTATTTTCATGTTA
* * *
1976577 TGTTAAAGGAAATAAATCATTGGATTTATTT
1 TGTAAAAGAAAATAAATCATTGAATTTATTT
1976608 TTTGCTTTTG
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
94 1 0.01
95 22 0.20
96 86 0.79
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (95 bp):
TGTAAAAGAAAATAAATCATTGAATTTATTTCCTAAGAATCTTGAAGGATCCTATTATGTAAAGG
AAATAAATCGTAGAATTTATTTTCATGTTA
Found at i:1976624 original size:39 final size:38
Alignment explanation
Indices: 1976536--1976647 Score: 127
Period size: 39 Copynumber: 2.9 Consensus size: 38
1976526 ATGATTCTGG
* * *
1976536 TTTGTAAAAGGAAATAAATCGTAGAATTTATTTTCATGT
1 TTTGTAAAAGGAAATAAATCATTGAATTTATTTT-TTGT
* * *
1976575 TATGTTAAAGGAAATAAATCATTGGATTTATTTTTTGCT
1 TTTGTAAAAGGAAATAAATCATTGAATTTATTTTTTG-T
* *
1976614 TTTGTAAAAGGAGATAAATCACTGAATTT-TTTTT
1 TTTGTAAAAGGAAATAAATCATTGAATTTATTTTT
1976648 AATCTTATAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
38 7 0.11
39 54 0.89
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (38 bp):
TTTGTAAAAGGAAATAAATCATTGAATTTATTTTTTGT
Found at i:1976705 original size:130 final size:133
Alignment explanation
Indices: 1976440--1976719 Score: 356
Period size: 130 Copynumber: 2.1 Consensus size: 133
1976430 AAGGATCCTA
*
1976440 TTATG-TAAAGGAAATAAATCGTAGCATTTATTTTCCTGTTTTGTAAAAGAAAATAAATCAATGA
1 TTATGTTAAAGGAAATAAATCATAGCATTTATTTTCCTGTTTTGTAAAAGAAAATAAATCAATGA
*
1976504 ATTTATTTCCTAAGAATCTTATATGATTCTGGTTTGTAAAAGGAAATAAATCGTAGAATTTATTT
66 ATTTATTT-CT-AGAATCTTATATGATTCTGGTTTGTAAAAGGAAATAAATCCTAGAATTTATTT
1976569 TCATG
129 TCATG
* * * * * *
1976574 TTATGTTAAAGGAAATAAATCATTGGATTTATTTT-TTGCTTTTGTAAAAGGAGATAAATCACTG
1 TTATGTTAAAGGAAATAAATCATAGCATTTATTTTCCTG-TTTTGTAAAAGAAAATAAATCAATG
* * *
1976638 AATTT-TTT-T-TAATCTTATATGATTTTTGTTTGTAAAAGGAAATAAATCCTACG-ATTTATTT
65 AATTTATTTCTAGAATCTTATATGATTCTGGTTTGTAAAAGGAAATAAATCCTA-GAATTTATTT
1976699 TCATG
129 TCATG
* * *
1976704 TTTTGTAAAAGAAAAT
1 TTATGTTAAAGGAAAT
1976720 GAATTGTTGG
Statistics
Matches: 129, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
130 64 0.50
131 1 0.01
132 1 0.01
134 10 0.08
135 53 0.41
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (133 bp):
TTATGTTAAAGGAAATAAATCATAGCATTTATTTTCCTGTTTTGTAAAAGAAAATAAATCAATGA
ATTTATTTCTAGAATCTTATATGATTCTGGTTTGTAAAAGGAAATAAATCCTAGAATTTATTTTC
ATG
Found at i:1979298 original size:19 final size:17
Alignment explanation
Indices: 1979261--1979299 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
1979251 CAATCGTCTA
*
1979261 TTTATTTTTATACTATT
1 TTTATTTTTATAATATT
1979278 TTTATTATTTAATAATATT
1 TTTATT-TTT-ATAATATT
1979297 TTT
1 TTT
1979300 TTCCTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTTTTATAATATT
Found at i:1984132 original size:22 final size:23
Alignment explanation
Indices: 1984091--1984133 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1984081 TGTGGTAGTT
*
1984091 AGTCAGCAGCTTCTAGAAGGTCC
1 AGTCAGCAGCTTATAGAAGGTCC
1984114 AGTCAGCAG-TTATAGAAGGT
1 AGTCAGCAGCTTATAGAAGGT
1984134 GGAAAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (23 bp):
AGTCAGCAGCTTATAGAAGGTCC
Found at i:1995234 original size:21 final size:20
Alignment explanation
Indices: 1995210--1995248 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1995200 CATCAAGGCC
1995210 TTTGTAGACGCCATGAAATCT
1 TTTGTAGACGCCAT-AAATCT
* *
1995231 TTTGTTGAGGCCATAAAT
1 TTTGTAGACGCCATAAAT
1995249 TCCTACAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTGTAGACGCCATAAATCT
Found at i:1997104 original size:6 final size:6
Alignment explanation
Indices: 1997085--1997115 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1997075 TATCACTTTC
*
1997085 ATGTTT ATGGTT ATGTTT ATGTTT ATGTTT A
1 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT A
1997116 GAAGAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (6 bp):
ATGTTT
Found at i:1997336 original size:16 final size:16
Alignment explanation
Indices: 1997315--1997345 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1997305 TCCGACAACA
1997315 TTCAATATTCAATATT
1 TTCAATATTCAATATT
1997331 TTCAATATTCAATAT
1 TTCAATATTCAATAT
1997346 AGTTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (16 bp):
TTCAATATTCAATATT
Found at i:1997992 original size:46 final size:46
Alignment explanation
Indices: 1997957--1998268 Score: 281
Period size: 45 Copynumber: 6.9 Consensus size: 46
1997947 ATTCAAGCTT
* *
1997957 ATAATGCACCATTATGCATTTTTATTTATGGCATCCTTTCATGCCG
1 ATAATGCACCATTATGCATTTTCAATTATGGCATCCTTTCATGCCG
*
1998003 ATAATGCACC-TATATGCA-TTTCAATTATGGAATCCTTTCATGCCG
1 ATAATGCACCAT-TATGCATTTTCAATTATGGCATCCTTTCATGCCG
* *
1998048 ATAATGCACCCA-TATGCA-TTTCAATTATGGTAT-CTTTAATGCCG
1 ATAATGCA-CCATTATGCATTTTCAATTATGGCATCCTTTCATGCCG
* *
1998092 ATAATGCACCCA-TATGCA-TTTCAATTATGACATCCTTTCATGTCG
1 ATAATGCA-CCATTATGCATTTTCAATTATGGCATCCTTTCATGCCG
*
1998137 ATAATGCAACTCA-TATGCATTTT-AATTATGGCATCCTTTCATGTCTG
1 ATAATGC-AC-CATTATGCATTTTCAATTATGGCATCCTTTCATG-CCG
* * * * * * *
1998184 TTATAT--ACTATTATACATTTT-ATTTACGGCATCCTTTCACGCCT
1 ATA-ATGCACCATTATGCATTTTCAATTATGGCATCCTTTCATGCCG
* * * * * *
1998228 TTTATACACTATTATACA-TTTCATTTATGGCATCCTTTCAT
1 ATAATGCACCATTATGCATTTTCAATTATGGCATCCTTTCAT
1998269 TCATTTTATA
Statistics
Matches: 230, Mismatches: 23, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
43 2 0.01
44 48 0.21
45 126 0.55
46 46 0.20
47 6 0.03
48 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (46 bp):
ATAATGCACCATTATGCATTTTCAATTATGGCATCCTTTCATGCCG
Found at i:1998104 original size:44 final size:45
Alignment explanation
Indices: 1997957--1998179 Score: 315
Period size: 45 Copynumber: 4.9 Consensus size: 45
1997947 ATTCAAGCTT
* *
1997957 ATAATGCA-CCATTATGCATTTTTATTTATGGCATCCTTTCATGCCG
1 ATAATGCACCCA-TATGCA-TTTCAATTATGGCATCCTTTCATGCCG
* *
1998003 ATAATGCACCTATATGCATTTCAATTATGGAATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* *
1998048 ATAATGCACCCATATGCATTTCAATTATGGTAT-CTTTAATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* *
1998092 ATAATGCACCCATATGCATTTCAATTATGACATCCTTTCATGTCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* *
1998137 ATAATGCAACTCATATGCATTTTAATTATGGCATCCTTTCATG
1 ATAATGC-ACCCATATGCATTTCAATTATGGCATCCTTTCATG
1998180 TCTGTTATAT
Statistics
Matches: 160, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
44 41 0.26
45 71 0.44
46 46 0.29
47 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
Found at i:1998110 original size:89 final size:90
Alignment explanation
Indices: 1997957--1998175 Score: 318
Period size: 89 Copynumber: 2.4 Consensus size: 90
1997947 ATTCAAGCTT
* * *
1997957 ATAATGCA-CCATTATGCATTTTTATTTATGGCATCCTTTCATGCCGATAATGCACCTATATGCA
1 ATAATGCACCCA-TATGCA-TTTTAATTATGGCATCCTTTAATGCCGATAATGCACCCATATGCA
1998021 TTTCAATTATGGA-ATCCTTTCATGCCG
64 TTTCAATTAT-GACATCCTTTCATGCCG
* *
1998048 ATAATGCACCCATATGCATTTCAATTATGGTAT-CTTTAATGCCGATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTTAATTATGGCATCCTTTAATGCCGATAATGCACCCATATGCATT
*
1998112 TCAATTATGACATCCTTTCATGTCG
66 TCAATTATGACATCCTTTCATGCCG
*
1998137 ATAATGCAACTCATATGCATTTTAATTATGGCATCCTTT
1 ATAATGC-ACCCATATGCATTTTAATTATGGCATCCTTT
1998176 CATGTCTGTT
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
88 2 0.02
89 57 0.50
90 35 0.30
91 18 0.16
92 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (90 bp):
ATAATGCACCCATATGCATTTTAATTATGGCATCCTTTAATGCCGATAATGCACCCATATGCATT
TCAATTATGACATCCTTTCATGCCG
Found at i:1998218 original size:45 final size:45
Alignment explanation
Indices: 1998154--1998342 Score: 261
Period size: 45 Copynumber: 4.2 Consensus size: 45
1998144 AACTCATATG
* * * *
1998154 CATTTTAATTATGGCATCCTTTCATGTCTGTTATATACTATTATA
1 CATTTTATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
* *
1998199 CATTTTATTTACGGCATCCTTTCACGCCTTTTATACACTATTATA
1 CATTTTATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
* * *
1998244 CATTTCATTTATGGCATCCTTTCATTCATTTTATACACTATTATA
1 CATTTTATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
* * *
1998289 CATTTCATTTATGGCATCCTTTTATGCCTTTTATACACTATTACA
1 CATTTTATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
1998334 CATTGTTAT
1 CATT-TTAT
1998343 ACATCTAGTC
Statistics
Matches: 127, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 124 0.98
46 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (45 bp):
CATTTTATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
Found at i:1998544 original size:81 final size:81
Alignment explanation
Indices: 1998351--1999081 Score: 1033
Period size: 81 Copynumber: 9.1 Consensus size: 81
1998341 ATACATCTAG
* * * * *
1998351 TCTTTTACTCAAAGGCATTTAATCTTTCAT-TAACTGGCATGATTGATACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
* * *
1998415 ACAGATAGGTCATTAT
66 ACAGCTAGGCCATTAA
* * * *
1998431 TC-TTTACTCAAAGGTATTTAACTTTTCATCTAACTGGAAAGAATGAAACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
1998495 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
1998511 TATTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGAATGACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
* *
1998576 ACAACTAGACCATTAA
66 ACAGCTAGGCCATTAA
* * * *
1998592 TCGTTTACTTAAAGGTATTTAACCTTTAATCTAACTGGCATGAATGTCACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
1998657 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
1998673 TCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTGGCATGATTGACACCTTT-TGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
* *
1998737 ACAACTAGGCCATTAT
66 ACAGCTAGGCCATTAA
* * * * * * *
1998753 TCTTTTACTAAAATGTATTTAACCTTTTATCTAACTAGCATGAATGACACATTTCTATCAATTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
1998818 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
1998834 TATTTTACTCAAA--TGTTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
**
1998897 ACAGCTAGATCATTAA
66 ACAGCTAGGCCATTAA
*
1998913 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACAT-GCATGAATGACATCTTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGGCATGAATGACACCTTTCTGTCAAATG
1998977 CACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * * *
1998994 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
1999059 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
1999075 TCTTTTA
1 TCTTTTA
1999082 TATTAGAACA
Statistics
Matches: 577, Mismatches: 67, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
79 93 0.16
80 119 0.21
81 364 0.63
82 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:1998937 original size:321 final size:322
Alignment explanation
Indices: 1998351--1999081 Score: 1105
Period size: 321 Copynumber: 2.3 Consensus size: 322
1998341 ATACATCTAG
* * *
1998351 TCTTTTACTCAAAGGCATTTAATCTTTCAT-TAACTGGCATGATTGATACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTT-TGTCAAATGC
* * *
1998415 ACAGA-TAGGTCATTATTC-TTTACTCAAAGGTATTTAACTTTTCATCTAACTGGAAAGAATGAA
65 ACA-ACTAGGCCATTATTCTTTTACTAAAAGGTATTTAACTTTTCATCTAACTAGAAAGAATGAA
* *
1998478 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCT
129 ACATTTCTATCAAATGCACAGCTAGGCCATTAATATTTTACTCAAA-GTATTTAACCTTTCATCT
*
1998543 AACTAGCATGAATGACACCTTTATGTCAAATGCACAACTAGACCATTAATCGTTTACTTAAAGGT
193 AACTAGCATGAATGACACCTTTATGTCAAATGCACAACTAGACCATTAATCGTTTACTCAAAGGT
*
1998608 ATTTAACCTTTAATCTAAC-TGGCATGAATGTCACCTTTCTGTCAAATGCACAGCTAGGCCATTA
258 ATTTAACCTTTAATCTAACAT-GCATGAATGACACCTTTCTGTCAAATGCACAGCTAGGCCATTA
1998672 A
322 A
* *
1998673 TCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTGGCATGATTGACACCTTTTGTCAAATGCA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTTGTCAAATGCA
* * * *
1998738 CAACTAGGCCATTATTCTTTTACTAAAATGTATTTAACCTTTT-ATCTAACTAGCATGAATGACA
66 CAACTAGGCCATTATTCTTTTACTAAAAGGTATTTAA-CTTTTCATCTAACTAGAAAGAATGAAA
* *
1998802 CATTTCTATCAATTGCACAGCTAGGCCATTAATATTTTACTCAAA-TGTTTAACCTTTCATCTAA
130 CATTTCTATCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGTATTTAACCTTTCATCTAA
* * * * * *
1998866 CTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGATCATTAATCTTTTACTCAAAGGTAT
195 CTAGCATGAATGACACCTTTATGTCAAATGCACAACTAGACCATTAATCGTTTACTCAAAGGTAT
* *
1998931 TTAACCTTTCATCTAACATGCATGAATGACATCTTTCTGTCAAATGCACAGCTAGGCCATTAA
260 TTAACCTTTAATCTAACATGCATGAATGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
*
1998994 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACA-TTTTGTCAAATGC
* *
1999059 ACAGCTAGGCCATTAATCTTTTA
65 ACAACTAGGCCATTATTCTTTTA
1999082 TATTAGAACA
Statistics
Matches: 372, Mismatches: 31, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
321 183 0.49
322 87 0.23
323 97 0.26
324 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (322 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTTGTCAAATGCA
CAACTAGGCCATTATTCTTTTACTAAAAGGTATTTAACTTTTCATCTAACTAGAAAGAATGAAAC
ATTTCTATCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGTATTTAACCTTTCATCTAAC
TAGCATGAATGACACCTTTATGTCAAATGCACAACTAGACCATTAATCGTTTACTCAAAGGTATT
TAACCTTTAATCTAACATGCATGAATGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
Found at i:2000312 original size:45 final size:47
Alignment explanation
Indices: 2000244--2000351 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 47
2000234 ACAGAATATA
* ** *
2000244 AAAAGGCATGAAAGAATGTCATAAAT-GAAGT-GTATAATAGTGTA-T
1 AAAAGGCATGAAAGGATACCAT-AATGGAAATGGTATAATAGTGTATT
*
2000289 AAAAGGCATGAAAGGATACCATAATGGAAATGGTATAATGGTGTATT
1 AAAAGGCATGAAAGGATACCATAATGGAAATGGTATAATAGTGTATT
* *
2000336 ATAA-GCATGAAGGGAT
1 AAAAGGCATGAAAGGAT
2000352 GATATCAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
44 3 0.06
45 23 0.43
46 23 0.43
47 4 0.08
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (47 bp):
AAAAGGCATGAAAGGATACCATAATGGAAATGGTATAATAGTGTATT
Found at i:2004777 original size:135 final size:135
Alignment explanation
Indices: 2004545--2004856 Score: 319
Period size: 135 Copynumber: 2.3 Consensus size: 135
2004535 TTCATTTAGA
* * * * *
2004545 GCATTCATTCATG-CTTATAATGCACCATTATACATTTTTATTTATGACATCCTTTCATGTCAAT
1 GCATTCTTTCATGCCTT-TTATACACTATTATACA-TTTTATTTATGACATCCTTTCATGCCAAT
* * * *
2004609 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGA-TAAT-GCATCCA-TATGCAT
64 AATACACCCATATACATTTCAATTATGGAATCCTTTCATGCC-ATTAATAG-A-CCATTATACAT
2004671 TTCAATTATG
126 TTCAATTATG
* ** *
2004681 GCATTCTTTCATGCCTTTTATACACTATTATACATTTTATTTATGGCATCCTTTCATGCCTTTTA
1 GCATTCTTTCATGCCTTTTATACACTATTATACATTTTATTTATGACATCCTTTCATGCCAATAA
* * * * * * *
2004746 TACA-CTATTATACATTTCATTTATGGAATCCTTTTATTCCATTTATAGACTATTATACATTTTA
66 TACACCCA-TATACATTTCAATTATGGAATCCTTTCATGCCATTAATAGACCATTATACATTTCA
*
2004810 TTTATG
130 ATTATG
* *
2004816 GCATCCTTTCATGCCTTTTAAACACTATTATACATTATTAT
1 GCATTCTTTCATGCCTTTTATACACTATTATACATT-TTAT
2004857 ACATCTAGTC
Statistics
Matches: 147, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
134 5 0.03
135 108 0.73
136 31 0.21
137 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (135 bp):
GCATTCTTTCATGCCTTTTATACACTATTATACATTTTATTTATGACATCCTTTCATGCCAATAA
TACACCCATATACATTTCAATTATGGAATCCTTTCATGCCATTAATAGACCATTATACATTTCAA
TTATG
Found at i:2004843 original size:45 final size:45
Alignment explanation
Indices: 2004571--2004856 Score: 288
Period size: 45 Copynumber: 6.3 Consensus size: 45
2004561 ATAATGCACC
* * ** * * *
2004571 ATTATACATTTTTATTTATGACATCCTTTCATGTCAATAATGCACCC
1 ATTATACA-TTTTATTTATGGCATCCTTTCATGCCTTTTATACA-CT
* * * ** * * *
2004618 A-TATGCATTTCAATTATGGCATCCTTTCATGCCGATAATGCATCC
1 ATTATACATTTTATTTATGGCATCCTTTCATGCCTTTTATACA-CT
* * * *
2004663 A-TATGCATTTCAATTATGGCATTCTTTCATGCCTTTTATACACT
1 ATTATACATTTTATTTATGGCATCCTTTCATGCCTTTTATACACT
2004707 ATTATACATTTTATTTATGGCATCCTTTCATGCCTTTTATACACT
1 ATTATACATTTTATTTATGGCATCCTTTCATGCCTTTTATACACT
* * * * * *
2004752 ATTATACATTTCATTTATGGAATCCTTTTATTCCATTTATAGACT
1 ATTATACATTTTATTTATGGCATCCTTTCATGCCTTTTATACACT
*
2004797 ATTATACATTTTATTTATGGCATCCTTTCATGCCTTTTAAACACT
1 ATTATACATTTTATTTATGGCATCCTTTCATGCCTTTTATACACT
2004842 ATTATACATTATTAT
1 ATTATACATT-TTAT
2004857 ACATCTAGTC
Statistics
Matches: 207, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
44 2 0.01
45 195 0.94
46 9 0.04
47 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.45
Consensus pattern (45 bp):
ATTATACATTTTATTTATGGCATCCTTTCATGCCTTTTATACACT
Found at i:2005000 original size:81 final size:81
Alignment explanation
Indices: 2004865--2005429 Score: 882
Period size: 81 Copynumber: 7.0 Consensus size: 81
2004855 ATACATCTAG
* *
2004865 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATGATTGATACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
*
2004930 ACAGCTATGCCATTAA
66 ACAGCTAGGCCATTAA
** * * *
2004946 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAACATGAATGACACATTTCTGACAAATGG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
*
2005011 GCAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
2005027 TCTTTTACTCAAACGTATTTAACTTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
* *
2005092 ATAGCTAGACCATTAA
66 ACAGCTAGGCCATTAA
* * *
2005108 TCTTTTACTCTAAGGTATTTAACATTTCATCTAACT-GCATGAATGACATC-TTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACA-CATTTCTGTCAAATG
*
2005171 CACAGCTAGGCCTTTAA
65 CACAGCTAGGCCATTAA
*
2005188 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATGATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
*
2005253 ACAGCTAGGCCGTTAA
66 ACAGCTAGGCCATTAA
* * *
2005269 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
2005334 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
2005350 TCCTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
2005415 ACAGCTAGGCCATTA
66 ACAGCTAGGCCATTA
2005430 TTGTTTTTTA
Statistics
Matches: 439, Mismatches: 42, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
80 73 0.17
81 366 0.83
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:2006500 original size:26 final size:26
Alignment explanation
Indices: 2006433--2006503 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 26
2006423 TTCTTAAAAC
2006433 ATCTTCCAAGAACATTTCCATCTAAG
1 ATCTTCCAAGAACATTTCCATCTAAG
***
2006459 ATCTTTTTA-AA-A----CATCTAAG
1 ATCTTCCAAGAACATTTCCATCTAAG
2006479 ATCTTCCAAGAACATTTCCATCTAA
1 ATCTTCCAAGAACATTTCCATCTAA
2006504 AAATCATAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
20 14 0.42
21 2 0.06
22 1 0.03
24 1 0.03
25 2 0.06
26 13 0.39
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
ATCTTCCAAGAACATTTCCATCTAAG
Found at i:2006616 original size:99 final size:99
Alignment explanation
Indices: 2006497--2006698 Score: 404
Period size: 99 Copynumber: 2.0 Consensus size: 99
2006487 AGAACATTTC
2006497 CATCTAAAAATCATAACACTTTTTCTAACATGTTCTTAATCTCATCCAATGCTTCTAATCTCTTA
1 CATCTAAAAATCATAACACTTTTTCTAACATGTTCTTAATCTCATCCAATGCTTCTAATCTCTTA
2006562 TTTACTTCTTTGACAAGTCAAATATACTAATAAA
66 TTTACTTCTTTGACAAGTCAAATATACTAATAAA
2006596 CATCTAAAAATCATAACACTTTTTCTAACATGTTCTTAATCTCATCCAATGCTTCTAATCTCTTA
1 CATCTAAAAATCATAACACTTTTTCTAACATGTTCTTAATCTCATCCAATGCTTCTAATCTCTTA
2006661 TTTACTTCTTTGACAAGTCAAATATACTAATAAA
66 TTTACTTCTTTGACAAGTCAAATATACTAATAAA
2006695 CATC
1 CATC
2006699 AGTAAAAACC
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 103 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (99 bp):
CATCTAAAAATCATAACACTTTTTCTAACATGTTCTTAATCTCATCCAATGCTTCTAATCTCTTA
TTTACTTCTTTGACAAGTCAAATATACTAATAAA
Found at i:2007320 original size:21 final size:21
Alignment explanation
Indices: 2007294--2007357 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
2007284 ATAAAGTCAA
2007294 CATATCACAAATATATCATAG
1 CATATCACAAATATATCATAG
* * *
2007315 CATATCACAAGTTTA-CAATTG
1 CATATCACAAATATATC-ATAG
2007336 CATATCACAAATGATTATCATA
1 CATATCACAAAT-A-TATCATA
2007358 AAAGCTCAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
20 1 0.03
21 27 0.82
23 4 0.12
24 1 0.03
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (21 bp):
CATATCACAAATATATCATAG
Found at i:2011406 original size:36 final size:37
Alignment explanation
Indices: 2011358--2011432 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
2011348 ATAGCAAAAG
*
2011358 AAATCGTCTTTATTCGAA-TTTTGCCAAAAATAGCAA
1 AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
2011394 AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
1 AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
2011431 AA
1 AA
2011433 TCCCGAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 17 0.46
37 20 0.54
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (37 bp):
AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
Found at i:2016652 original size:21 final size:21
Alignment explanation
Indices: 2016628--2016671 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2016618 CAGGTAGACT
2016628 TTGAAGTAGAAGTTCAGCACG
1 TTGAAGTAGAAGTTCAGCACG
2016649 TTGAAGTAGAAGTTCAGCACG
1 TTGAAGTAGAAGTTCAGCACG
2016670 TT
1 TT
2016672 CTTGTTCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (21 bp):
TTGAAGTAGAAGTTCAGCACG
Found at i:2022416 original size:26 final size:26
Alignment explanation
Indices: 2022387--2022448 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
2022377 TTTAGGTATG
*
2022387 CCCTGATCCTAGAATGGGGGAGCTAC
1 CCCTGATCCTAGAATGGGAGAGCTAC
* *
2022413 CCCTTATCCTAGACTGGGAGAGCTAC
1 CCCTGATCCTAGAATGGGAGAGCTAC
2022439 CCCTGA-CCTA
1 CCCTGATCCTA
2022449 AACTTTATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (26 bp):
CCCTGATCCTAGAATGGGAGAGCTAC
Found at i:2023730 original size:16 final size:15
Alignment explanation
Indices: 2023709--2023738 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2023699 AAGAATGGCA
2023709 GAAAATAGACATAAAT
1 GAAAATAGA-ATAAAT
2023725 GAAAATAGAATAAA
1 GAAAATAGAATAAA
2023739 AAGTATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.03, G:0.13, T:0.17
Consensus pattern (15 bp):
GAAAATAGAATAAAT
Found at i:2024769 original size:131 final size:131
Alignment explanation
Indices: 2024548--2024867 Score: 399
Period size: 131 Copynumber: 2.4 Consensus size: 131
2024538 ATGTCTAATT
* * * * * *
2024548 ATTTCCAATCTAGAATAAATGACAT-TTCATATTTTAAAACGATCATTTATTGCTCCAATCGAAA
1 ATTTCCAATCGAGAATAAATGACCTCTT-ATACTTTAAAGCAATCATTTATTGCTCCAATCAAAA
* * * * * * * * **
2024612 TGAAGAGATGTTACTATTTCGTCTTAAAATTCAATATCAATTCTAGTGAAAACGATAATATCTGA
65 TAAAGAGATGTCACCATTCCGTCTTAAAAATCAAAATCAATTCAAGAGAAAACGATAATATCAAA
2024677 TG
130 TG
2024679 ATTTCCAATCGAGAATAAATGACCTCTTATACTTTAAAGCAATCATTTATTGCTCCAATCAAAAT
1 ATTTCCAATCGAGAATAAATGACCTCTTATACTTTAAAGCAATCATTTATTGCTCCAATCAAAAT
**
2024744 AAAGAGATGTCACCATTCCGTCTTAAAAATCAAAATTGATTCAAGAGAAAACGATAATATCAAAT
66 AAAGAGATGTCACCATTCCGTCTTAAAAATCAAAATCAATTCAAGAGAAAACGATAATATCAAAT
*
2024809 T
131 G
* * * * * *
2024810 ATTTCCAATCGAAAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTACTCCAA
1 ATTTCCAATCGAGAATAAATGACCTCTTATACTTTAAAGCAATCATTTATTGCTCCAA
2024868 CTGAAATGAA
Statistics
Matches: 163, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
131 161 0.99
132 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (131 bp):
ATTTCCAATCGAGAATAAATGACCTCTTATACTTTAAAGCAATCATTTATTGCTCCAATCAAAAT
AAAGAGATGTCACCATTCCGTCTTAAAAATCAAAATCAATTCAAGAGAAAACGATAATATCAAAT
G
Found at i:2027613 original size:134 final size:134
Alignment explanation
Indices: 2027275--2027810 Score: 622
Period size: 134 Copynumber: 4.0 Consensus size: 134
2027265 CGTTAACTCG
* * * * * * *
2027275 TTCCACTATTTTTTAAGGAAGAATGAATTGACGTAGACTTGTTCCATTGTTACTCAGGGAATATC
1 TTCCACTATTCTTCAAGGAAGATTGAATCGACGCAGACTTGTTCCACTGTTACTCAGGGAAGATC
** * * * * *
2027340 AAATCTTGAAAGAGATTGATCTATTCCACTGCTTCCTGAGGGAAAATCAGATCTGAGAACGTTGA
66 AAATCTTGAAAGAGAGGGATCTATTCCGCTTCTTCTTGAGGAAAAATCAGATCTGAGGACGTTGA
2027405 TTCA
131 TTCA
* * * * * *
2027409 TTCCACTGTTCTTTTAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTCAGGGAATAT
1 TTCCACTATTC-TTCAAGGAAGATTGAATCGACGCAGACTTGTTCCACTGTTACTCAGGGAAGAT
* * * * * * * * * *
2027474 TAAATCTTGAAATATAGGGATCTATTCTGCTTTTTCTTGAGGAAAAATTAGATATGGGGACATTC
65 CAAATCTTGAAAGAGAGGGATCTATTCCGCTTCTTCTTGAGGAAAAATCAGATCTGAGGACGTTG
2027539 ATTCA
130 ATTCA
* * *
2027544 TTCCACTATTCTTCAAGGAAGATTGAATCGAGGCAGATTTGTTCCACTGTTACTCATGGAAGATC
1 TTCCACTATTCTTCAAGGAAGATTGAATCGACGCAGACTTGTTCCACTGTTACTCAGGGAAGATC
* * *
2027609 AAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCTTGAGGAAAAATCAGATCTGTGGACGTTGA
66 AAATCTTGAAAGAGAGGGATCTATTCCGCTTCTTCTTGAGGAAAAATCAGATCTGAGGACGTTGA
2027674 TTCA
131 TTCA
* * * * **
2027678 TTCCACTGTTCTTCAGGGAAGATTGAATCGACACAGACTTGTTCCACTGATACTCAATGAAGATC
1 TTCCACTATTCTTCAAGGAAGATTGAATCGACGCAGACTTGTTCCACTGTTACTCAGGGAAGATC
* * ** * *
2027743 AAATCTTGAAAGATATGGATCTATTCCTTTTTTTTCTTGAGGAAAAATCAGATCTGAGGACTTTG
66 AAATCTTGAAAGAGAGGGATCTATTCC-GCTTCTTCTTGAGGAAAAATCAGATCTGAGGACGTTG
2027808 ATT
130 ATT
2027811 GTAACATCCT
Statistics
Matches: 338, Mismatches: 62, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
134 194 0.57
135 144 0.43
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (134 bp):
TTCCACTATTCTTCAAGGAAGATTGAATCGACGCAGACTTGTTCCACTGTTACTCAGGGAAGATC
AAATCTTGAAAGAGAGGGATCTATTCCGCTTCTTCTTGAGGAAAAATCAGATCTGAGGACGTTGA
TTCA
Found at i:2027779 original size:269 final size:269
Alignment explanation
Indices: 2027275--2027795 Score: 722
Period size: 269 Copynumber: 1.9 Consensus size: 269
2027265 CGTTAACTCG
* * * * * *
2027275 TTCCACTATTTTTTAAGGAAGAATGAATTGACGTAGACTTGTTCCATTGTTACTCAGGGAATATC
1 TTCCACTATTCTTCAAGGAAGAATGAATCGACGCAGACTTGTTCCACTGTTACTCAGGGAAGATC
** *
2027340 AAATCTTGAAAGAGATTGATCTATTCCACTGCTTCCTGAGGGAAAATCAGATCTGAGAACGTTGA
66 AAATCTTGAAAGAGAGGGATCTATTCCACTGCTTCCTGAGGAAAAATCAGATCTGAGAACGTTGA
* ** *
2027405 TTCATTCCACTGTTCTTTTAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTCAGGGA
131 TTCATTCCACTGTTCTTTCAGGGAAGATTGAATCGACACAGACTTGTTCCACTATTACTCAAGGA
* * * *
2027470 ATATTAAATCTTGAAATATAGGGATCTATTCTGCTTTTTCTTGAGGAAAAATTAGATATGGGGAC
196 AGATCAAATCTTGAAAGATAGGGATCTATTCTGCTTTTTCTTGAGGAAAAATCAGATATGGGGAC
2027535 ATTCATTCA
261 ATTCATTCA
* * * *
2027544 TTCCACTATTCTTCAAGGAAGATTGAATCGAGGCAGATTTGTTCCACTGTTACTCATGGAAGATC
1 TTCCACTATTCTTCAAGGAAGAATGAATCGACGCAGACTTGTTCCACTGTTACTCAGGGAAGATC
* * * * * * *
2027609 AAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCTTGAGGAAAAATCAGATCTGTGGACGTTGA
66 AAATCTTGAAAGAGAGGGATCTATTCCACTGCTTCCTGAGGAAAAATCAGATCTGAGAACGTTGA
*
2027674 TTCATTCCACTGTTC-TTCAGGGAAGATTGAATCGACACAGACTTGTTCCACTGA-TACTCAATG
131 TTCATTCCACTGTTCTTTCAGGGAAGATTGAATCGACACAGACTTGTTCCACT-ATTACTCAAGG
* **
2027737 AAGATCAAATCTTGAAAGATATGGATCTATTCCTTTTTTTTCTTGAGGAAAAATCAGAT
195 AAGATCAAATCTTGAAAGATAGGGATCTATT-CTGCTTTTTCTTGAGGAAAAATCAGAT
2027796 CTGAGGACTT
Statistics
Matches: 218, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
268 68 0.31
269 150 0.69
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (269 bp):
TTCCACTATTCTTCAAGGAAGAATGAATCGACGCAGACTTGTTCCACTGTTACTCAGGGAAGATC
AAATCTTGAAAGAGAGGGATCTATTCCACTGCTTCCTGAGGAAAAATCAGATCTGAGAACGTTGA
TTCATTCCACTGTTCTTTCAGGGAAGATTGAATCGACACAGACTTGTTCCACTATTACTCAAGGA
AGATCAAATCTTGAAAGATAGGGATCTATTCTGCTTTTTCTTGAGGAAAAATCAGATATGGGGAC
ATTCATTCA
Found at i:2028733 original size:31 final size:31
Alignment explanation
Indices: 2028695--2028772 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
2028685 AGAGTCGAGG
* *
2028695 GTTTACCTATGTCTTTCGAGACATATGGATA
1 GTTTACCTAGGTCTTTCGAGACATATGGACA
* * *
2028726 GTTTACCTAGGTTTTTCGGGACCTATGGACA
1 GTTTACCTAGGTCTTTCGAGACATATGGACA
*
2028757 G-TTACCGAGGTTCTTT
1 GTTTACCTAGG-TCTTT
2028773 ATAACCTCTG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 8 0.21
31 31 0.79
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTAGGTCTTTCGAGACATATGGACA
Found at i:2028790 original size:30 final size:29
Alignment explanation
Indices: 2028746--2028816 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
2028736 GTTTTTCGGG
* *
2028746 ACCTATGGACAGTTACCGAGGTTCTTTATA
1 ACCTATGGATAGTTACCG-GGGTCTTTATA
* * *
2028776 ACCTCTGGATAGTTATCGGGGTCTTTATG
1 ACCTATGGATAGTTACCGGGGTCTTTATA
2028805 ACCTATGGATAG
1 ACCTATGGATAG
2028817 GTCCTTCGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 20 0.57
30 15 0.43
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (29 bp):
ACCTATGGATAGTTACCGGGGTCTTTATA
Found at i:2030333 original size:21 final size:21
Alignment explanation
Indices: 2030307--2030346 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2030297 TGGGGTTACC
2030307 AAAGTTATGAGGATCCAATAT
1 AAAGTTATGAGGATCCAATAT
*
2030328 AAAGTTATGAGGATGCAAT
1 AAAGTTATGAGGATCCAAT
2030347 GAAGATTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (21 bp):
AAAGTTATGAGGATCCAATAT
Found at i:2030447 original size:8 final size:8
Alignment explanation
Indices: 2030434--2030490 Score: 60
Period size: 8 Copynumber: 6.9 Consensus size: 8
2030424 ATAAGGAATA
2030434 AATAAAGG
1 AATAAAGG
2030442 AATAAAGG
1 AATAAAGG
*
2030450 AATAAAGA
1 AATAAAGG
2030458 AATGAAAGG
1 AAT-AAAGG
* *
2030467 GATAAAGA
1 AATAAAGG
2030475 AATGAAAGG
1 AAT-AAAGG
*
2030484 GATAAAG
1 AATAAAG
2030491 TTAAAGGATC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 28 0.70
9 12 0.30
ACGTcount: A:0.61, C:0.00, G:0.26, T:0.12
Consensus pattern (8 bp):
AATAAAGG
Found at i:2030465 original size:25 final size:25
Alignment explanation
Indices: 2030433--2030482 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2030423 TATAAGGAAT
*
2030433 AAATAAAGGAATAAAGGAAT-AAAG
1 AAATAAAGGAATAAAGAAATGAAAG
*
2030457 AAATGAAAGGGATAAAGAAATGAAAG
1 AAAT-AAAGGAATAAAGAAATGAAAG
2030483 GGATAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (25 bp):
AAATAAAGGAATAAAGAAATGAAAG
Found at i:2030471 original size:17 final size:17
Alignment explanation
Indices: 2030435--2030490 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
2030425 TAAGGAATAA
* *
2030435 ATAAAGGAAT-AAAGGA
1 ATAAAGAAATGAAAGGG
2030451 ATAAAGAAATGAAAGGG
1 ATAAAGAAATGAAAGGG
2030468 ATAAAGAAATGAAAGGG
1 ATAAAGAAATGAAAGGG
2030485 ATAAAG
1 ATAAAG
2030491 TTAAAGGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
16 9 0.24
17 28 0.76
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (17 bp):
ATAAAGAAATGAAAGGG
Found at i:2031547 original size:19 final size:19
Alignment explanation
Indices: 2031523--2031574 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
2031513 ATTGTTCAGT
2031523 GTGTATCGATGCACAGGAA
1 GTGTATCGATGCACAGGAA
* * *
2031542 GTGTATTGATCCACAGGCA
1 GTGTATCGATGCACAGGAA
*
2031561 GTGCATCGATGCAC
1 GTGTATCGATGCAC
2031575 CTCTTAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (19 bp):
GTGTATCGATGCACAGGAA
Found at i:2031649 original size:64 final size:63
Alignment explanation
Indices: 2031560--2031701 Score: 155
Period size: 64 Copynumber: 2.2 Consensus size: 63
2031550 ATCCACAGGC
* ** *
2031560 AGTGCATCGATGCACCTCTTAAAAATGGAAACATCGAA-TGCAATTAGTGTATCGATGCATAAGG
1 AGTGCATCGATGCACCCCTTAAAAATAAAAACATCAAAGTG-AATTA-TGTATCGATGCAT-AGG
2031624 -
63 T
* *
2031624 AGTGCATCGATGCACCCCCTT-AAAATAAAAACATCAAAGGTGATTTATGTATCGATGCATGGGT
1 AGTGCATCGATGCA-CCCCTTAAAAATAAAAACATCAAA-GTGAATTATGTATCGATGCATAGGT
*
2031688 AATGCATCGATGCA
1 AGTGCATCGATGCA
2031702 TTGTAGAATG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
63 2 0.03
64 54 0.81
65 9 0.13
66 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (63 bp):
AGTGCATCGATGCACCCCTTAAAAATAAAAACATCAAAGTGAATTATGTATCGATGCATAGGT
Found at i:2032642 original size:29 final size:29
Alignment explanation
Indices: 2032580--2032678 Score: 144
Period size: 29 Copynumber: 3.4 Consensus size: 29
2032570 GGTTCTTCGG
* * * * *
2032580 GACCTATGGACAGTTGCTGAGGTTCTTTAT
1 GACCTCTGGATAGTTGTTG-GGGTCTTTGT
2032610 GACCTCTGGATAGTTGTTGGGGTCTTTGT
1 GACCTCTGGATAGTTGTTGGGGTCTTTGT
2032639 GACCTCTGGATAGTTGTTGGGGTCTTTGT
1 GACCTCTGGATAGTTGTTGGGGTCTTTGT
2032668 GACCTCTGGAT
1 GACCTCTGGAT
2032679 TTGTCCTTCG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
29 48 0.75
30 16 0.25
ACGTcount: A:0.14, C:0.16, G:0.31, T:0.38
Consensus pattern (29 bp):
GACCTCTGGATAGTTGTTGGGGTCTTTGT
Found at i:2034076 original size:3 final size:3
Alignment explanation
Indices: 2034068--2034094 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2034058 CTTAAAAAAT
2034068 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
2034095 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2035270 original size:34 final size:37
Alignment explanation
Indices: 2035226--2035327 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
2035216 TTTCGTCCTA
2035226 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
2035261 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
2035296 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
2035328 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:2035311 original size:37 final size:35
Alignment explanation
Indices: 2035226--2035361 Score: 168
Period size: 37 Copynumber: 3.8 Consensus size: 35
2035216 TTTCGTCCTA
2035226 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
2035261 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
2035296 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
2035333 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
2035362 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:2035925 original size:16 final size:18
Alignment explanation
Indices: 2035904--2035938 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2035894 TTTACTCATT
2035904 TATTTATC-TAT-TTTTA
1 TATTTATCTTATATTTTA
2035920 TATTTATCTTATATTTTA
1 TATTTATCTTATATTTTA
2035938 T
1 T
2035939 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTATCTTATATTTTA
Found at i:2038754 original size:16 final size:16
Alignment explanation
Indices: 2038733--2038824 Score: 75
Period size: 16 Copynumber: 5.8 Consensus size: 16
2038723 CAATCAAGAA
2038733 CAAAAAAGAAAAAAAG
1 CAAAAAAGAAAAAAAG
2038749 CAAAAAAGCAAAAAAA-
1 CAAAAAAG-AAAAAAAG
*
2038765 -AGAAAAAGAAAAAGAG
1 CA-AAAAAGAAAAAAAG
* *
2038781 -AAACAAGAACAAAAG
1 CAAAAAAGAAAAAAAG
* * *
2038796 AAAAAAAGAGCAAAAAT
1 CAAAAAAGA-AAAAAAG
2038813 C-AAAAAGAAAAA
1 CAAAAAAGAAAAA
2038825 GGGACAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
15 21 0.34
16 29 0.48
17 11 0.18
ACGTcount: A:0.78, C:0.08, G:0.13, T:0.01
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAG
Found at i:2038760 original size:24 final size:23
Alignment explanation
Indices: 2038733--2038801 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
2038723 CAATCAAGAA
2038733 CAAAAAAGAAAAAAAGCAAAAAAG
1 CAAAAAAGAAAAAAAG-AAAAAAG
2038757 CAAAAAA-AAGAAAAAGAAAAAGAG
1 CAAAAAAGAA-AAAAAGAAAAA-AG
* *
2038781 -AAACAAGAACAAAAGAAAAAA
1 CAAAAAAGAAAAAAAGAAAAAA
2038802 AGAGCAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 1 0.03
23 22 0.55
24 17 0.43
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (23 bp):
CAAAAAAGAAAAAAAGAAAAAAG
Found at i:2038810 original size:8 final size:8
Alignment explanation
Indices: 2038734--2038804 Score: 74
Period size: 8 Copynumber: 9.0 Consensus size: 8
2038724 AATCAAGAAC
2038734 AAAAAAGA
1 AAAAAAGA
*
2038742 AAAAAAGC
1 AAAAAAGA
2038750 AAAAAAGCA
1 AAAAAAG-A
2038759 AAAAAA-A
1 AAAAAAGA
*
2038766 GAAAAAGA
1 AAAAAAGA
*
2038774 AAAAGAG-
1 AAAAAAGA
*
2038781 AAACAAGA
1 AAAAAAGA
*
2038789 ACAAAAGA
1 AAAAAAGA
2038797 AAAAAAGA
1 AAAAAAGA
2038805 GCAAAAATCA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
7 11 0.22
8 33 0.66
9 6 0.12
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:2038816 original size:23 final size:24
Alignment explanation
Indices: 2038743--2038824 Score: 57
Period size: 24 Copynumber: 3.5 Consensus size: 24
2038733 CAAAAAAGAA
* *
2038743 AAAAAGCAAAAAAGCAA-AAAAA-
1 AAAAAGAAAAAAAGAAACAAAAAC
*
2038765 AGAAAA-AGAAAAAGAGAAACAAGAAC
1 A-AAAAGA-AAAAA-AGAAACAAAAAC
*
2038791 -AAAAGAAAAAAAG-AGCAAAAATC
1 AAAAAGAAAAAAAGAAACAAAAA-C
2038814 AAAAAGAAAAA
1 AAAAAGAAAAA
2038825 GGGACAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
22 7 0.15
23 12 0.26
24 23 0.49
25 5 0.11
ACGTcount: A:0.78, C:0.07, G:0.13, T:0.01
Consensus pattern (24 bp):
AAAAAGAAAAAAAGAAACAAAAAC
Found at i:2039486 original size:23 final size:23
Alignment explanation
Indices: 2039460--2039530 Score: 101
Period size: 22 Copynumber: 3.2 Consensus size: 23
2039450 CCCCATCAAT
* *
2039460 CTTTTGAGCAACCAATGTCAAAC
1 CTTTTGAGCATCAAATGTCAAAC
2039483 C-TTTGAGCATCAAATGTCAAA-
1 CTTTTGAGCATCAAATGTCAAAC
*
2039504 CTTTTGAGCATCAAATGCCAAAC
1 CTTTTGAGCATCAAATGTCAAAC
2039527 CTTT
1 CTTT
2039531 GACCAAACAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.02
22 37 0.86
23 5 0.12
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (23 bp):
CTTTTGAGCATCAAATGTCAAAC
Found at i:2039970 original size:18 final size:18
Alignment explanation
Indices: 2039947--2039982 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2039937 TCAACATCAA
* *
2039947 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
2039965 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
2039983 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:2040448 original size:36 final size:35
Alignment explanation
Indices: 2040408--2040741 Score: 200
Period size: 36 Copynumber: 9.5 Consensus size: 35
2040398 ACTCATGATT
* * *
2040408 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
1 GTTTCTCTTAAAACAA-ATTTGTCTCTCTTGAGACA
* * * **
2040444 GTTT-TCACTAGAAGAGTTTTGTCTCTCTTGAGACA
1 GTTTCTC-TTAAAACAAATTTGTCTCTCTTGAGACA
* * *
2040479 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
* *
2040515 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 GTTTCTCTTAAAACAAATTT-GTCTCTCTTGAGACA
* * * *
2040551 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
* * * * *
2040587 GTTTCCCTTGAAACAAA-----ATAT-TTGA-ATA
1 GTTTCTCTTAAAACAAATTTGTCTCTCTTGAGACA
* * *
2040615 TGTTT-TCTTTGAAACAAATTCCGTCTCCCTTGAGACA
1 -GTTTCTC-TTAAAACAAATT-TGTCTCTCTTGAGACA
* ** *
2040652 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAAC-AA-ATTTGTCTCTCTTGAGACA
* * *
2040689 GTTTCTCTTGAAACAATATTCGTCTATCTTGAGACA
1 GTTTCTCTTAAAACAA-ATTTGTCTCTCTTGAGACA
* *
2040725 GTTTCCCTTGAAACAAA
1 GTTTCTCTTAAAACAAA
2040742 ACCTTTGAAT
Statistics
Matches: 238, Mismatches: 42, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
28 4 0.02
29 18 0.08
30 2 0.01
35 31 0.13
36 147 0.62
37 34 0.14
38 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (35 bp):
GTTTCTCTTAAAACAAATTTGTCTCTCTTGAGACA
Found at i:2040504 original size:71 final size:72
Alignment explanation
Indices: 2040418--2040741 Score: 231
Period size: 72 Copynumber: 4.6 Consensus size: 72
2040408 GTTTTTCTTA
* * * * * *
2040418 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAG-TTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
2040480 TTTCCCTTG
64 TTTCCCTTG
* * *
2040489 AAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGTT
2040554 TCCCTTG
66 TCCCTTG
* * * * * *
2040561 AAATAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAA------ATAT-TTGA-ATATGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA-GT
* *
2040618 TTTCTTTG
65 TTCCCTTG
** * ** * * * * *
2040626 AAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTAGAAAC-AAATTTCGTCTATCTTGAGACAGT
*
2040691 TTCTCTTG
65 TTCCCTTG
* * * *
2040699 AAAC-AATATTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 AAACAAAT-TTTGTCTCTCTTGAGACAGTTTCACTAGAAACAAA
2040742 ACCTTTGAAT
Statistics
Matches: 202, Mismatches: 37, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
64 2 0.01
65 44 0.22
66 5 0.02
70 8 0.04
71 24 0.12
72 76 0.38
73 41 0.20
74 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (72 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGTT
TCCCTTG
Found at i:2040561 original size:72 final size:71
Alignment explanation
Indices: 2040461--2040741 Score: 281
Period size: 72 Copynumber: 4.0 Consensus size: 71
2040451 CTAGAAGAGT
* * * *
2040461 TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGA
1 TTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGA
2040526 AACAAA
66 AACAAA
* * *
2040532 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
1 TTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
2040597 AAACAAA
65 AAACAAA
* * * * * * **
2040604 -----ATAT-TTGA-ATATGTTTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTG
1 TTTGTCTATCTTGAGACA-GTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
* *
2040662 GAACTAAGT
65 AAAC-AA-A
* * *
2040671 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AATATTCGTCTATCTTGAGACAGTTTCCCTTG
1 TTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAT-TTCGTCTCTCTTGAGACAGTTTCCCTTG
2040735 AAACAAA
65 AAACAAA
2040742 ACCTTTGAAT
Statistics
Matches: 169, Mismatches: 29, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
64 2 0.01
65 44 0.26
66 5 0.03
71 3 0.02
72 72 0.43
73 41 0.24
74 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (71 bp):
TTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGA
AACAAA
Found at i:2040733 original size:138 final size:137
Alignment explanation
Indices: 2040480--2040804 Score: 409
Period size: 138 Copynumber: 2.4 Consensus size: 137
2040470 CTTGAGACAG
* *
2040480 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
* * * * *
2040545 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATATTT
66 GAGACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
*
2040610 GAATATG
131 GAATATA
* * ** * * * * *
2040617 TTTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* *
2040682 TGAGACAGTTTCTCTTGAAAC-AATATTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCT
65 TGAGACAGTTTCCCTTGAAACAAAT-TTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACAT
*
2040746 TTGAATTTA
129 TTGAATATA
* * * *
2040755 TTTCCCCTAAAACAAATTTTATCTCCCTTGAGACAGTTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
2040805 CAAAATCTTC
Statistics
Matches: 156, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
137 45 0.29
138 111 0.71
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
GAATATA
Found at i:2040804 original size:174 final size:169
Alignment explanation
Indices: 2040464--2040770 Score: 392
Period size: 174 Copynumber: 1.8 Consensus size: 169
2040454 GAAGAGTTTT
* *
2040464 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAC
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
* *
2040529 AAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCCC
66 AAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA---T-ACTCTCTTGAGATAGTTTCCC
* * * *
2040594 TTGAAACAAAATATTTGAATATGTTTTCTTTGAAACAAATTCC
127 CTAAAACAAAATATTTGAACATGTTCTCTTTGAAACAAATTCC
** * *
2040637 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
1 GTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
2040702 C-AATATTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA-AC-CT-TTGA-ATTTA-TTTCCC
65 CAAAT-TTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAATACTCTCTTGAGA--TAGTTTCCC
2040761 CTAAAACAAA
127 CTAAAACAAA
2040771 TTTTATCTCC
Statistics
Matches: 120, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
166 1 0.01
167 18 0.15
168 4 0.03
169 1 0.01
173 28 0.23
174 68 0.57
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (169 bp):
GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
AAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAATACTCTCTTGAGATAGTTTCCCCTAA
AACAAAATATTTGAACATGTTCTCTTTGAAACAAATTCC
Found at i:2040834 original size:67 final size:68
Alignment explanation
Indices: 2040716--2040872 Score: 194
Period size: 68 Copynumber: 2.4 Consensus size: 68
2040706 ATTCGTCTAT
* ** *
2040716 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTTATC
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTCATC
2040778 TCC
66 TCC
* * * * *
2040781 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTCGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTCATC
2040846 TCC
66 TCC
* *
2040849 CTTGAGACCGTTTCTCATGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
2040873 ACAGATATCT
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
65 17 0.22
66 2 0.03
67 28 0.36
68 30 0.39
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTCATC
TCC
Found at i:2041704 original size:105 final size:105
Alignment explanation
Indices: 2041516--2042452 Score: 1443
Period size: 105 Copynumber: 9.0 Consensus size: 105
2041506 GCACTCGAGG
* * * * * *
2041516 CAACACAAGTTCAACTTCACAACGAAGGGGCGGCTGGTTGTCAACAAACAATTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
2041581 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
2041622 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAATAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
2041687 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
2041727 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAATTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * * *
2041792 GCCAATTTCAGCTTTACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
2041832 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
2041897 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
2041937 TAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
2042002 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
2042042 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
2042107 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
2042147 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
2042212 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
2042252 CAACGCAAGTTTAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * * *
2042312 TTCAATTCCAACTTCATAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * ** *
2042352 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* *
2042417 AGCCAATTTCAACTTCACGACGGAGGATATTGGACT
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
2042453 TGGAACAATG
Statistics
Matches: 773, Mismatches: 52, Indels: 12
0.92 0.06 0.01
Matches are distributed among these distances:
100 81 0.10
101 3 0.00
102 3 0.00
103 4 0.01
104 3 0.00
105 606 0.78
106 73 0.09
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:2043042 original size:34 final size:37
Alignment explanation
Indices: 2042998--2043099 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
2042988 TTTCGTCCTA
2042998 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
2043033 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
2043068 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
2043100 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:2043083 original size:37 final size:35
Alignment explanation
Indices: 2042998--2043133 Score: 168
Period size: 37 Copynumber: 3.8 Consensus size: 35
2042988 TTTCGTCCTA
2042998 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
2043033 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
2043068 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
2043105 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
2043134 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:2043690 original size:16 final size:18
Alignment explanation
Indices: 2043669--2043703 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2043659 TTTACTCATT
2043669 TATTTATC-TAT-TTTTA
1 TATTTATCTTATATTTTA
2043685 TATTTATCTTATATTTTA
1 TATTTATCTTATATTTTA
2043703 T
1 T
2043704 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTATCTTATATTTTA
Found at i:2052745 original size:26 final size:26
Alignment explanation
Indices: 2052709--2052760 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
2052699 AACATCAACC
2052709 GAGCCTGCTGAGAGAGGCTAAAACAA
1 GAGCCTGCTGAGAGAGGCTAAAACAA
2052735 GAGCCTGCTGAGAGAGGCTAAAACAA
1 GAGCCTGCTGAGAGAGGCTAAAACAA
2052761 AGGTCGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.31, T:0.12
Consensus pattern (26 bp):
GAGCCTGCTGAGAGAGGCTAAAACAA
Found at i:2053607 original size:132 final size:132
Alignment explanation
Indices: 2053395--2054030 Score: 739
Period size: 132 Copynumber: 4.9 Consensus size: 132
2053385 AATGACAATA
* * * * * * *
2053395 TTGATCCACCTCCTTCTATGATGGAATCGAAC-ATAATGTCAGTGCTAATCTACTTCCTTCTGCG
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGA-AATGTCGGTGTTGATCTACCTCATTCTGTG
* *
2053459 ATAGAATCGAG-AAAAAGTTGATGCTGATCCAACTCATTTTGTGATGGATTTGAGTGAAATAAAA
65 ATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGTGATGGATTTGAGTGAAATAAAA
2053523 ATG
130 ATG
* * *
2053526 TTGATCCACCTCATTCTGTGATGGAATCGAATGAAATATCGGTGTTTGATCTACCTCATTCTGTG
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTCGGTG-TTGATCTACCTCATTCTGTG
* * * **
2053591 ATAGAATCGA-CCAAAAGTTGATGCTGATCCAACTCCTTATGCGGTGGATTTGAGCAAAATAAAA
65 ATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGTGATGGATTTGAGTGAAATAAAA
*
2053655 ATA
130 ATG
2053658 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTCGGTGTTTGATCTACCTCATTCTGTG
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTCGGTG-TTGATCTACCTCATTCTGTG
* * * *
2053723 ATAAAATTGAGCAAAAAAG-TGTATGTTGATCCAACTCCTTATGTGATGGATTTGAGTGAAATGA
65 ATAGAATCGAGC-AAAAAGTTG-ATGCTGATCCAACTCCTTATGTGATGGATTTGAGTGAAATAA
2053787 AAATG
128 AAATG
*
2053792 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTCGGTGTTGATCTACCTCTTTCTGTGA
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTCGGTGTTGATCTACCTCATTCTGTGA
* * * *
2053857 TAGAATCGAGTAAAAAGTTGATGTTGATCCAACTCCTTCTGCGAT-G----GA-T----T-AAAA
66 TAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGTGATGGATTTGAGTGAAATAAAAA
2053911 TG
131 TG
* * * * * * * ***
2053913 TCGATCCACC-CCATTCTATGATGGAATCAAATGAGATATTGGCAATGATCTACCTCATTCTGTG
1 TTGATCCACCTCC-TTCTGTGATGGAATCGAACGAAATGTCGGTGTTGATCTACCTCATTCTGTG
* *
2053977 ATAGAATCGAGTAAAAAGTTGATGCTGA-CCTAACTCCTTCTGTGATGGATTTGA
65 ATAGAATCGAGCAAAAAGTTGATGCTGATCC-AACTCCTTATGTGATGGATTTGA
2054031 AATATCGATG
Statistics
Matches: 441, Mismatches: 50, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
120 4 0.01
121 97 0.22
122 2 0.00
126 3 0.01
127 2 0.00
131 38 0.09
132 173 0.39
133 33 0.07
134 89 0.20
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (132 bp):
TTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTCGGTGTTGATCTACCTCATTCTGTGA
TAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGTGATGGATTTGAGTGAAATAAAAA
TG
Found at i:2053829 original size:44 final size:44
Alignment explanation
Indices: 2053360--2053904 Score: 234
Period size: 44 Copynumber: 12.3 Consensus size: 44
2053350 TCAATATATT
* * * * * *
2053360 TCCTTCTGTGATGAAATCTAGCAAAAATGACAATATTGATCCACC
1 TCCTTCTGTGATGGAATCGAAC-GAAATGTCAATGTTGATCCACC
* * * * * *
2053405 TCCTTCTATGATGGAATCGAAC-ATAATGTCAGTGCTAATCTACT
1 TCCTTCTGTGATGGAATCGAACGA-AATGTCAATGTTGATCCACC
* * * ** * *
2053449 TCCTTCTGCGATAGAATCG-A-GAAAAAGTTGATGCTGATCCAAC
1 TCCTTCTGTGATGGAATCGAACG-AAATGTCAATGTTGATCCACC
* * * * ** ***
2053492 TCATTTTGTGATGGATTTGAGTGAAATAAAAATGTTGATCCACC
1 TCCTTCTGTGATGGAATCGAACGAAATGTCAATGTTGATCCACC
* * * ** *
2053536 TCATTCTGTGATGGAATCGAATGAAATATCGGTGTTTGATCTACC
1 TCCTTCTGTGATGGAATCGAACGAAATGTCAATG-TTGATCCACC
* * * * ** * *
2053581 TCATTCTGTGATAGAATCG-ACCAAAAGTTGATGCTGATCCAAC
1 TCCTTCTGTGATGGAATCGAACGAAATGTCAATGTTGATCCACC
* * * * * * * *** *
2053624 TCCTTATGCGGTGGATTTGAGCAAAATAAAAATATTGATCCACC
1 TCCTTCTGTGATGGAATCGAACGAAATGTCAATGTTGATCCACC
** *
2053668 TCCTTCTGTGATGGAATCGAACGAAATGTCGGTGTTTGATCTACC
1 TCCTTCTGTGATGGAATCGAACGAAATGTCAATG-TTGATCCACC
* ** * * * * ** *
2053713 TCATTCTGTGATAAAATTGAGCAAAAAAGTGTATGTTGATCCAAC
1 TCCTTCTGTGATGGAATCGAAC-GAAATGTCAATGTTGATCCACC
* * * ** **
2053758 TCCTTATGTGATGGATTTGAGTGAAATGAAAATGTTGATCCACC
1 TCCTTCTGTGATGGAATCGAACGAAATGTCAATGTTGATCCACC
** *
2053802 TCCTTCTGTGATGGAATCGAACGAAATGTCGGTGTTGATCTACC
1 TCCTTCTGTGATGGAATCGAACGAAATGTCAATGTTGATCCACC
* * *** * ** *
2053846 TCTTTCTGTGATAGAATCGAGTAAAAAGTTGATGTTGATCCAAC
1 TCCTTCTGTGATGGAATCGAACGAAATGTCAATGTTGATCCACC
*
2053890 TCCTTCTGCGATGGA
1 TCCTTCTGTGATGGA
2053905 TTAAAATGTC
Statistics
Matches: 358, Mismatches: 133, Indels: 19
0.70 0.26 0.04
Matches are distributed among these distances:
43 46 0.13
44 209 0.58
45 96 0.27
46 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (44 bp):
TCCTTCTGTGATGGAATCGAACGAAATGTCAATGTTGATCCACC
Found at i:2053875 original size:266 final size:263
Alignment explanation
Indices: 2053391--2053906 Score: 759
Period size: 266 Copynumber: 2.0 Consensus size: 263
2053381 CAAAAATGAC
* *
2053391 AATATTGATCCACCTCCTTCTATGATGGAATCGAACATAATGTCAGTGCTAATCTACTTCCTTCT
1 AATATTGATCCACCTCCTTCTATGATGGAATCGAACATAATGTCAGTGCTAATCTACCTCATTCT
* *
2053456 GCGATAGAATCGAGAAAAAGTTGATGCTGATCCAACTCATTTTGTGATGGATTTGAGTGAAATAA
66 GCGATAAAATCGAGAAAAAGTTGATGCTGATCCAACTCATTATGTGATGGATTTGAGTGAAATAA
*
2053521 AAATGTTGATCCACCTCATTCTGTGATGGAATCGAATGAAATATCGGTGTTTGATCTACCTCATT
131 AAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAAATATCGGTGTTTGATCTACCTCATT
* *
2053586 CTGTGATAGAATCGACCAAAAGTTGATGCTGATCCAACTCCTTATGCGGTGGATTTGAGCAAAAT
196 CTGTGATAGAATCGACAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAGCAAAAT
2053651 AAA
261 AAA
* * * *
2053654 AATATTGATCCACCTCCTTCTGTGATGGAATCGAACGA-AATGTCGGTGTTTGATCTACCTCATT
1 AATATTGATCCACCTCCTTCTATGATGGAATCGAAC-ATAATGTCAGTG-CTAATCTACCTCATT
* * * *
2053718 CTGTGATAAAATTGAGCAAAAAAG-TGTATGTTGATCCAACTCCTTATGTGATGGATTTGAGTGA
64 CTGCGATAAAATCGAG--AAAAAGTTG-ATGCTGATCCAACTCATTATGTGATGGATTTGAGTGA
* * *
2053782 AATGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTCGGTG-TTGATCTACC
126 AATAAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAAATATCGGTGTTTGATCTACC
* * * *
2053846 TCTTTCTGTGATAGAATCGAGTAAAAAGTTGATGTTGATCCAACTCCTTCTGCGATGGATT
191 TCATTCTGTGATAGAATCGA-CAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATT
2053907 AAAATGTCGA
Statistics
Matches: 225, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
263 44 0.20
264 25 0.11
265 31 0.14
266 125 0.56
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (263 bp):
AATATTGATCCACCTCCTTCTATGATGGAATCGAACATAATGTCAGTGCTAATCTACCTCATTCT
GCGATAAAATCGAGAAAAAGTTGATGCTGATCCAACTCATTATGTGATGGATTTGAGTGAAATAA
AAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAAATATCGGTGTTTGATCTACCTCATT
CTGTGATAGAATCGACAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAGCAAAAT
AAA
Found at i:2056330 original size:8 final size:8
Alignment explanation
Indices: 2056317--2056400 Score: 54
Period size: 8 Copynumber: 10.6 Consensus size: 8
2056307 ATCGGTTTTC
2056317 TTTCTTCT
1 TTTCTTCT
2056325 TTTCTT-T
1 TTTCTTCT
2056332 TTTC-TCTT
1 TTTCTTC-T
2056340 TTTCTTCT
1 TTTCTTCT
2056348 TCTT-TTCT
1 T-TTCTTCT
*
2056356 TTTTTTCT
1 TTTCTTCT
2056364 TTT-TT-T
1 TTTCTTCT
*
2056370 TATTTTTCTT
1 T-TTCTTC-T
*
2056380 TTTCTTTT
1 TTTCTTCT
2056388 TTTCATT-T
1 TTTC-TTCT
2056396 TTTCT
1 TTTCT
2056401 ATTTTTTCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
6 3 0.05
7 12 0.19
8 37 0.58
9 10 0.16
10 2 0.03
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTCTTCT
Found at i:2056341 original size:9 final size:9
Alignment explanation
Indices: 2056327--2056416 Score: 69
Period size: 9 Copynumber: 9.9 Consensus size: 9
2056317 TTTCTTCTTT
2056327 TCTTTTTTC
1 TCTTTTTTC
2056336 TC-TTTTTC
1 TCTTTTTTC
2056344 TTCTTCTTTTC
1 -TCTT-TTTTC
2056355 T-TTTTTTC
1 TCTTTTTTC
* *
2056363 TTTTTTTTA
1 TCTTTTTTC
* *
2056372 TTTTTCTTTT
1 TCTTT-TTTC
2056382 TCTTTTTT-
1 TCTTTTTTC
2056390 TCATTTTTTC
1 TC-TTTTTTC
*
2056400 TATTTTTTC
1 TCTTTTTTC
*
2056409 TATTTTTT
1 TCTTTTTT
2056417 TATTTTTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
8 14 0.20
9 41 0.59
10 10 0.14
11 5 0.07
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:2056341 original size:26 final size:24
Alignment explanation
Indices: 2056312--2056416 Score: 112
Period size: 26 Copynumber: 4.3 Consensus size: 24
2056302 GTTTGATCGG
2056312 TTTTCTTTCTTCTTTTCTTTTTTCTC
1 TTTT-TTTCTTCTTTTCTTTTTT-TC
2056338 TTTTTCTTCTTCTTTTCTTTTTTTC
1 TTTTT-TTCTTCTTTTCTTTTTTTC
2056363 TTTTTTT-TAT-TTTTC--TTTTTC
1 TTTTTTTCT-TCTTTTCTTTTTTTC
2056384 TTTTTTTCATT-TTTTCTATTTTTTC
1 TTTTTTTC-TTCTTTTCT-TTTTTTC
2056409 TATTTTTT
1 T-TTTTTT
2056417 TATTTTTTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 16
0.82 0.00 0.18
Matches are distributed among these distances:
21 13 0.18
22 6 0.08
23 7 0.10
24 3 0.04
25 15 0.21
26 27 0.38
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTCTTCTTTTCTTTTTTTC
Found at i:2056356 original size:34 final size:34
Alignment explanation
Indices: 2056317--2056415 Score: 108
Period size: 34 Copynumber: 2.8 Consensus size: 34
2056307 ATCGGTTTTC
*
2056317 TTTCTTCTTTTCTTTTTTCTCTTTTTCTTCTTCT
1 TTTCTTCTTTTCTTTTTTCTATTTTTCTTCTTCT
* * *
2056351 TTTCTTTTTTTCTTTTTTTTATTTTTCTTTTTCT
1 TTTCTTCTTTTCTTTTTTCTATTTTTCTTCTTCT
*
2056385 TTTTTTCATTTTTTCTATTTTTTCTATTTTT
1 TTTCTTC---TTTTC--TTTTTTCTATTTTT
2056416 TTATTTTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
34 35 0.66
37 5 0.09
39 13 0.25
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (34 bp):
TTTCTTCTTTTCTTTTTTCTATTTTTCTTCTTCT
Found at i:2056416 original size:34 final size:32
Alignment explanation
Indices: 2056328--2056424 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 32
2056318 TTCTTCTTTT
2056328 CTTTTTTCTCTTTTTCTTCTTCTTTTCT-TTTTTT
1 CTTTTTT-TCTTTTT-TTCTT-TTTTCTATTTTTT
*
2056362 CTTTTTTT-TATTTTTC-TTTTTCT-TTTTTT
1 CTTTTTTTCTTTTTTTCTTTTTTCTATTTTTT
* *
2056391 CATTTTTTCTATTTTTTCTATTTTTTTATTTTTT
1 CTTTTTTTCT-TTTTTTCT-TTTTTCTATTTTTT
2056425 TTCTATCTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
29 19 0.35
30 2 0.04
31 9 0.17
32 4 0.07
33 7 0.13
34 13 0.24
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.81
Consensus pattern (32 bp):
CTTTTTTTCTTTTTTTCTTTTTTCTATTTTTT
Found at i:2056423 original size:9 final size:9
Alignment explanation
Indices: 2056355--2056426 Score: 74
Period size: 9 Copynumber: 7.8 Consensus size: 9
2056345 TCTTCTTTTC
*
2056355 TTTTTTTCT
1 TTTTTTTAT
2056364 TTTTTTTAT
1 TTTTTTTAT
*
2056373 TTTTCTTTTT
1 TTTT-TTTAT
2056383 CTTTTTTTCAT
1 -TTTTTTT-AT
*
2056394 TTTTTCTAT
1 TTTTTTTAT
*
2056403 TTTTTCTA-
1 TTTTTTTAT
2056411 TTTTTTTAT
1 TTTTTTTAT
2056420 TTTTTTT
1 TTTTTTT
2056427 CTATCTATCT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
8 7 0.13
9 29 0.54
10 13 0.24
11 5 0.09
ACGTcount: A:0.07, C:0.08, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:2056424 original size:8 final size:8
Alignment explanation
Indices: 2056350--2056425 Score: 66
Period size: 8 Copynumber: 9.5 Consensus size: 8
2056340 TTTCTTCTTC
*
2056350 TTTTCTTT
1 TTTTATTT
*
2056358 TTTTCTTT
1 TTTTATTT
*
2056366 TTTT-TAT
1 TTTTATTT
*
2056373 TTTTCTTT
1 TTTTATTT
*
2056381 TTCT-TTT
1 TTTTATTT
*
2056388 TTTCATTT
1 TTTTATTT
2056396 TTTCTATTT
1 TTT-TATTT
2056405 TTTCTATTT
1 TTT-TATTT
2056414 TTTTATTT
1 TTTTATTT
2056422 TTTT
1 TTTT
2056426 TCTATCTATC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
7 11 0.19
8 32 0.54
9 16 0.27
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTATTT
Found at i:2056433 original size:4 final size:4
Alignment explanation
Indices: 2056426--2056452 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2056416 TTATTTTTTT
2056426 TCTA TCTA TCTA TCTA TCTA TCTA TCT
1 TCTA TCTA TCTA TCTA TCTA TCTA TCT
2056453 TTTTTTTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (4 bp):
TCTA
Found at i:2058329 original size:149 final size:149
Alignment explanation
Indices: 2058022--2058319 Score: 339
Period size: 149 Copynumber: 2.0 Consensus size: 149
2058012 TCATCTTCAA
* * * * *
2058022 AGCTTCTACTTCATCTCCTACTTTCAGAAATATTTTGAACTGGTTCATGATCTTCAACTGTTGGC
1 AGCTCCTACTTCAACTCCTACTTTCAGAAATATTTCGAACTGGTTCATAATCTTCAACTGTTAGC
* ** * * * * *
2058087 TTCAACATCGAATCTTCTTTAGTCCACCTTGTTACTTCAGTAGCTAAATGTCTGGATCGTCTCAT
66 TTCAACATCGAATCATCTCGAGTCCAACTTGTTACCTCAGCAGCTAAATGTCTAGATAGTCTCAT
*
2058152 TGGTAGATAGACTCCCTCT
131 TGGAAGATAGACTCCCTCT
* * * * *
2058171 AGCTCCTACTTCAACTCTTA-TTTCTAGAAATCTTTCGAGCTGGTTCGTAATCTTCAATTGTTAG
1 AGCTCCTACTTCAACTCCTACTTTC-AGAAATATTTCGAACTGGTTCATAATCTTCAACTGTTAG
* * * *
2058235 CTTCAGCTTTGAATCATCTCGAGTCCAACTTGTTACCTCAGCATGC-AAATTTCTAGATAGTCTC
65 CTTCAACATCGAATCATCTCGAGTCCAACTTGTTACCTCAGCA-GCTAAATGTCTAGATAGTCTC
* *
2058299 CTTGGAAGGTAGACTCCCTCT
129 ATTGGAAGATAGACTCCCTCT
2058320 TGACGCTACT
Statistics
Matches: 122, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
148 4 0.03
149 116 0.95
150 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (149 bp):
AGCTCCTACTTCAACTCCTACTTTCAGAAATATTTCGAACTGGTTCATAATCTTCAACTGTTAGC
TTCAACATCGAATCATCTCGAGTCCAACTTGTTACCTCAGCAGCTAAATGTCTAGATAGTCTCAT
TGGAAGATAGACTCCCTCT
Found at i:2062266 original size:131 final size:131
Alignment explanation
Indices: 2062025--2062377 Score: 386
Period size: 131 Copynumber: 2.7 Consensus size: 131
2062015 TAATTTTAAG
** * * * * * *
2062025 AGAGAAAATAATAATATCTAATTATTTCCATTCGAGAATAAATGACCTTTTATGCCTTAAAACGG
1 AGAGAAAACGATAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAG
* * * ** * * *
2062090 TCATTTATTACTCCAATTGAAATAAAGAGATATTATTATTTCGTCTTAAAATTCAATAGCAATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATCAACATTCCGTCTTAAAAATCAAAAGCAATTC
*
2062155 T
131 A
* * * *
2062156 AGTGAAAACGATAATATTTG-ATGATTTCCAATCGAGAATAAATGGCCTCTCATACCTTAAAACA
1 AGAGAAAACGATAATA-TCGAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACA
* * ***
2062220 ATTATTTATTACTCCAATCGAAATGAAGAGATATCAACATTCCGTCTTAAAAATCAAAATTGATT
65 GTCATTTATTACTCCAATCGAAATGAAGAGATATCAACATTCCGTCTTAAAAATCAAAAGCAATT
2062285 CA
130 CA
* * ** * *
2062287 AGAGAAAACGGTAATATCGAATTATTTCCAATAAAAAATAAGTGACCTCTCATGCCTTAAAACAG
1 AGAGAAAACGATAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAG
2062352 TCATTTATTACTCCAA-CTGAAATGAA
66 TCATTTATTACTCCAATC-GAAATGAA
2062378 AATATATTAT
Statistics
Matches: 181, Mismatches: 38, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
130 3 0.02
131 177 0.98
132 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (131 bp):
AGAGAAAACGATAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAG
TCATTTATTACTCCAATCGAAATGAAGAGATATCAACATTCCGTCTTAAAAATCAAAAGCAATTC
A
Found at i:2064540 original size:3 final size:3
Alignment explanation
Indices: 2064532--2064574 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
2064522 GAAATAATTA
*
2064532 AAT AAT AAT AAT TAT AATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
2064575 TTCAGCGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:2065567 original size:44 final size:43
Alignment explanation
Indices: 2065503--2065600 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 43
2065493 AACTATACAA
* *
2065503 GTAAAAAGT-ATGATTGAAAAAAAATAGAGACCCCAATTATAAAG
1 GTAAAAAGTGATGATT-AAAAAAAAAAGAG-CACCAATTATAAAG
* * * *
2065547 GTAAAAAGTGAT-ATTAAAAAAATAAGAGCATCAATTTTAAAT
1 GTAAAAAGTGATGATTAAAAAAAAAAGAGCACCAATTATAAAG
2065589 GTAAAAAGTGAT
1 GTAAAAAGTGAT
2065601 TGAAATAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 22 0.47
43 11 0.23
44 12 0.26
45 2 0.04
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.24
Consensus pattern (43 bp):
GTAAAAAGTGATGATTAAAAAAAAAAGAGCACCAATTATAAAG
Found at i:2065923 original size:3 final size:3
Alignment explanation
Indices: 2065915--2065946 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2065905 TCCTAATGAA
2065915 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2065947 ATATAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2070377 original size:16 final size:16
Alignment explanation
Indices: 2070358--2070388 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2070348 CTCAATATTA
*
2070358 CAACACTGCAATACTG
1 CAACACTACAATACTG
2070374 CAACACTACAATACT
1 CAACACTACAATACT
2070389 AGCTGCAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.32, G:0.06, T:0.19
Consensus pattern (16 bp):
CAACACTACAATACTG
Found at i:2070517 original size:55 final size:55
Alignment explanation
Indices: 2070448--2070556 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 55
2070438 GCTTCACCTT
* * * * * *
2070448 TTCTCTCATAGCTTTTCAAAGCTATTTCTCGTCCTTGCTTTGCTAAGCTTTTTCA
1 TTCTCTAATAGCTTTGCAAACCTATTTCTCATCCTGGCTTTGCTAAGCCTTTTCA
* * *
2070503 TTCTCTAATAGCTTTGCTAACCTATTTCTCATTCTGGCTTTTCTAAGCCTTTTC
1 TTCTCTAATAGCTTTGCAAACCTATTTCTCATCCTGGCTTTGCTAAGCCTTTTC
2070557 TCATATTCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.17, C:0.26, G:0.10, T:0.48
Consensus pattern (55 bp):
TTCTCTAATAGCTTTGCAAACCTATTTCTCATCCTGGCTTTGCTAAGCCTTTTCA
Found at i:2071440 original size:16 final size:16
Alignment explanation
Indices: 2071415--2071454 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2071405 GACATTACCT
* *
2071415 CAATATTACAACACTG
1 CAATACTACAACACTA
2071431 CAATACTACAACACTA
1 CAATACTACAACACTA
2071447 CAATACTA
1 CAATACTA
2071455 GCTGCAGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (16 bp):
CAATACTACAACACTA
Found at i:2071582 original size:55 final size:55
Alignment explanation
Indices: 2071513--2071621 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 55
2071503 GCTTCACCTT
* * * *
2071513 TTCTCTCATAGCTTTTCAAAGCTATTTCTCGTCCTTGCTTTGCTAAGCTTTTTCA
1 TTCTCTAATAGCTTTGCAAAGCTATTTCTCATCCTGGCTTTGCTAAGCTTTTTCA
* * **
2071568 TTCTCTAATAGCTTTGCTAAGCTATTTCTCATTCTGGCTTTTTTAAGCTTTTTC
1 TTCTCTAATAGCTTTGCAAAGCTATTTCTCATCCTGGCTTTGCTAAGCTTTTTC
2071622 TCATATTCCT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.50
Consensus pattern (55 bp):
TTCTCTAATAGCTTTGCAAAGCTATTTCTCATCCTGGCTTTGCTAAGCTTTTTCA
Found at i:2072098 original size:19 final size:19
Alignment explanation
Indices: 2072074--2072124 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
2072064 ATGAAAATTT
2072074 AAATGAACTTAACAAGCTA
1 AAATGAACTTAACAAGCTA
2072093 AAATGAACTTAACAAGCTA
1 AAATGAACTTAACAAGCTA
2072112 AAATGAAC-TAACA
1 AAATGAACTTAACA
2072125 TGTATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 5 0.16
19 27 0.84
ACGTcount: A:0.55, C:0.16, G:0.10, T:0.20
Consensus pattern (19 bp):
AAATGAACTTAACAAGCTA
Found at i:2074678 original size:13 final size:13
Alignment explanation
Indices: 2074657--2074686 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2074647 CACAACATCT
2074657 TTACGATTTTACA
1 TTACGATTTTACA
*
2074670 TTACTATTTTACA
1 TTACGATTTTACA
2074683 TTAC
1 TTAC
2074687 AACAAAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.03, T:0.50
Consensus pattern (13 bp):
TTACGATTTTACA
Found at i:2075181 original size:14 final size:15
Alignment explanation
Indices: 2075150--2075183 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2075140 ATTTTAAGTA
2075150 TAAATAATAATATTT
1 TAAATAATAATATTT
*
2075165 TAAATAAT-ATTTTT
1 TAAATAATAATATTT
2075179 TAAAT
1 TAAAT
2075184 TTTATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATAATAATATTT
Found at i:2076023 original size:16 final size:16
Alignment explanation
Indices: 2076002--2076040 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
2075992 GGTATTACCC
2076002 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
*
2076018 GACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
2076034 GACCTGT
1 GACCTGT
2076041 AAATGATCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.38
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:2076206 original size:29 final size:28
Alignment explanation
Indices: 2076173--2076240 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
2076163 TTAAATGTTA
**
2076173 TAATAAAATATTTATTATGAT-AATTATAT
1 TAATAAAATACCTATTAT-ATAAATTAT-T
2076202 TAATAAATATACCTATTATATAAAATTATT
1 TAATAAA-ATACCTATTATAT-AAATTATT
2076232 TAATAAAAT
1 TAATAAAAT
2076241 TAATAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 11 0.32
30 17 0.50
31 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (28 bp):
TAATAAAATACCTATTATATAAATTATT
Found at i:2076318 original size:14 final size:14
Alignment explanation
Indices: 2076296--2076342 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
2076286 TGCAAAGGAA
*
2076296 AATTAATATAGTTT
1 AATTTATATAGTTT
2076310 AATTTATATA----
1 AATTTATATAGTTT
2076320 AA-TTATATAGTTT
1 AATTTATATAGTTT
2076333 AATTTATATA
1 AATTTATATA
2076343 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:2076329 original size:23 final size:24
Alignment explanation
Indices: 2076295--2076344 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
2076285 ATGCAAAGGA
2076295 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
2076319 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
2076342 AAA
1 AAA
2076345 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:2076851 original size:14 final size:14
Alignment explanation
Indices: 2076832--2076858 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2076822 CCTCTAAATT
2076832 TCCCAATTTCCCTC
1 TCCCAATTTCCCTC
2076846 TCCCAATTTCCCT
1 TCCCAATTTCCCT
2076859 ATATTCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.48, G:0.00, T:0.37
Consensus pattern (14 bp):
TCCCAATTTCCCTC
Found at i:2077455 original size:22 final size:24
Alignment explanation
Indices: 2077430--2077473 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2077420 TTTTAGCCAC
2077430 TTATGT-T-TAATTATATATATAT
1 TTATGTATATAATTATATATATAT
*
2077452 TTATGTATATACTTATATATAT
1 TTATGTATATAATTATATATAT
2077474 TATTCAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 1 0.05
24 12 0.63
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (24 bp):
TTATGTATATAATTATATATATAT
Done.