Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 87 of 89
Found at i:20888857 original size:3 final size:3
Alignment explanation
Indices: 20888815--20888876 Score: 63
Period size: 3 Copynumber: 20.0 Consensus size: 3
20888805 TGAAAAAAGG
* * *
20888815 TAA TAA -AA TATA TAA TCA TAA AAA TAA AAGA TATA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA
20888862 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
20888877 AAAGACCCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.80
4 8 0.16
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:20891570 original size:17 final size:17
Alignment explanation
Indices: 20891548--20891609 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
20891538 TGGTGTTTCA
20891548 AGAGAAAATGTCTCAAG
1 AGAGAAAATGTCTCAAG
*
20891565 AGAGAAAAAACTTTGTTTCAAG
1 AGAG--AAAA---TGTCTCAAG
20891587 -G-GAAAATGTCTCAAG
1 AGAGAAAATGTCTCAAG
20891602 AGAGAAAA
1 AGAGAAAA
20891610 AATTTGTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
15 8 0.22
16 1 0.03
17 9 0.25
18 4 0.11
19 4 0.11
20 1 0.03
21 1 0.03
22 8 0.22
ACGTcount: A:0.48, C:0.10, G:0.23, T:0.19
Consensus pattern (17 bp):
AGAGAAAATGTCTCAAG
Found at i:20891617 original size:36 final size:36
Alignment explanation
Indices: 20891541--20891973 Score: 395
Period size: 36 Copynumber: 12.4 Consensus size: 36
20891531 CAAAGATTGG
* *
20891541 TGTTTCAAGAGAAAATGTCTCAAGAGAGAAAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAA-TT
*
20891578 TGTTTCAAGGGAAAATGTCTCAAGAGAGAAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
* *
20891614 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGA-AAAAATT
* * * *
20891651 AGTTCCAA-AGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
* * *
20891686 TGTTTCAAGGAAAAC-ATCTTC-A-A-AG----ACTT
1 TGTTTCAAGGGAAACTGTC-TCAAGAGAGAAAAAATT
* *
20891715 TGTTTCAAGGGAAACTGTCACAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
* *
20891751 TGTTTCAAGGGAAACTGTCTCAAGAAAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
* *
20891787 TGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGA-AAAAATT
* * *
20891824 AGTTCCAA-AGAAACTGTCTCAAGAGA-AACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAA-AAAATT
* * * *
20891859 TCTTTCAAGGAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGGGAAAC-TGTCTCAAGAGAGAAAAAATT
*
20891888 TGTTTCAAAGGAAACTGTCTCAAGAGAGACAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGA-AAAAATT
* *
20891925 TGTTTCAAGGGAAATTGTCTCAAGAGAG--ACAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
*
20891959 TGTTTCAAGAGAAAC
1 TGTTTCAAGGGAAAC
20891974 AATCTCAAAG
Statistics
Matches: 327, Mismatches: 44, Indels: 53
0.77 0.10 0.12
Matches are distributed among these distances:
28 2 0.01
29 35 0.11
30 4 0.01
31 2 0.01
32 4 0.01
33 3 0.01
34 21 0.06
35 27 0.08
36 141 0.43
37 88 0.27
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
Found at i:20891730 original size:101 final size:102
Alignment explanation
Indices: 20891612--20891801 Score: 303
Period size: 101 Copynumber: 1.9 Consensus size: 102
20891602 AGAGAAAAAA
* *
20891612 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA-AGAAACTGTCTCAAGAG
1 TTTGTTTCAAGAGAAACTGTCACAAGAGAGACAAAA-TTAGTTCCAAGAGAAACTGTCTCAAGAA
20891676 AGACAAAATTTGTTTCAAG-GAAAACATCTTCAAAGAC
65 AGACAAAATTTGTTTCAAGAGAAAACATCTTCAAAGAC
* * * *
20891713 TTTGTTTCAAGGGAAACTGTCACAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAAA
1 TTTGTTTCAAGAGAAACTGTCACAAGAGAGACAAAATTAGTTCCAAGAGAAACTGTCTCAAGAAA
20891778 GACAAAATTTGTTTCAAGAGAAAA
66 GACAAAATTTGTTTCAAGAGAAAA
20891802 TGTCTCAAGA
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
100 8 0.10
101 68 0.84
102 5 0.06
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCACAAGAGAGACAAAATTAGTTCCAAGAGAAACTGTCTCAAGAAA
GACAAAATTTGTTTCAAGAGAAAACATCTTCAAAGAC
Found at i:20891750 original size:137 final size:137
Alignment explanation
Indices: 20891574--20891820 Score: 406
Period size: 137 Copynumber: 1.8 Consensus size: 137
20891564 GAGAGAAAAA
*
20891574 ACTTTGTTTCAAGGGAAAATGTCTCAAGAGAGAAAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
1 ACTTTGTTTCAAGGGAAAATGTCACAAGAGAGAAAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
* *
20891639 GAGACAAAACTTAGTTCCAA-AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACAT
66 AAGACAAAA-TTAGTTCCAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACAT
20891703 CTTCAAAG
130 CTTCAAAG
* * *
20891711 ACTTTGTTTCAAGGGAAACTGTCACAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGA
1 ACTTTGTTTCAAGGGAAAATGTCACAAGAGAGAAAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
* *
20891776 AAGACAAAATTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAA
66 AAGACAAAATTAGTTCCAAGAGAAAATGTCTCAAGAGAGACAAAA
20891821 ATTAGTTCCA
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
136 8 0.08
137 93 0.92
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (137 bp):
ACTTTGTTTCAAGGGAAAATGTCACAAGAGAGAAAAAATTTGTTTCAAGAGAAACTGTCTCAAGA
AAGACAAAATTAGTTCCAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATC
TTCAAAG
Found at i:20891787 original size:173 final size:172
Alignment explanation
Indices: 20891483--20891973 Score: 754
Period size: 173 Copynumber: 2.8 Consensus size: 172
20891473 ATGTTTCAAG
*
20891483 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAA-GAGAAACATATTCAAAGATTGGTGTTTC
1 AGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGA-AAACATATTCAAAGATT--TGTTTC
* * * *
20891547 AAGAGAAAATGTCTCAAGAGAGAAAAAACTTTGTTTCAAGGGAAAATGTCTCAAGAGAGAAAAAA
62 AAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAA
*
20891612 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA
126 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAA
*
20891659 AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATCTTCAAAGACTTTGTTTCAAG
1 AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGA-TTTGTTTCAAG
* * *
20891724 GGAAACTGTCACAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAAAGACAAAATTTG
65 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTTG
*
20891789 TTTCAAGAGAAAATGTCTCAAGAGAGACAAAAATTAGTTCCAA
130 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAA
* * *
20891832 AGAAACTGTCTCAAGAGAAACAAAATTTCTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAA
1 AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGA-TTTGTTTCAAG
*
20891897 GGAAACTGTCTCAAGAGAGACAAAAATTTGTTTCAAGGGAAATTGTCTCAAGAGAGAC--AATTT
65 GGAAACTGTCTCAAGAGAGAC-AAAATTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTT
20891960 GTTTCAAGAGAAAC
129 GTTTCAAGAGAAAC
20891974 AATCTCAAAG
Statistics
Matches: 292, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
172 18 0.06
173 158 0.54
174 64 0.22
175 24 0.08
176 28 0.10
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (172 bp):
AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTTGTTTCAAGG
GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTTGT
TTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAA
Found at i:20891966 original size:19 final size:19
Alignment explanation
Indices: 20891907--20891976 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
20891897 GGAAACTGTC
20891907 TCAAGAGAGACAAAAATTTGTT
1 TCAAGAGAGAC---AATTTGTT
*
20891929 TCAAG-G-GA-AA-TTGTC
1 TCAAGAGAGACAATTTGTT
20891944 TCAAGAGAGACAATTTGTT
1 TCAAGAGAGACAATTTGTT
*
20891963 TCAAGAGAAACAAT
1 TCAAGAGAGACAAT
20891977 CTCAAAGGCG
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
15 9 0.22
16 3 0.07
17 2 0.05
18 2 0.05
19 17 0.41
20 2 0.05
21 1 0.02
22 5 0.12
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (19 bp):
TCAAGAGAGACAATTTGTT
Found at i:20892127 original size:22 final size:22
Alignment explanation
Indices: 20892078--20892127 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
20892068 GATGTCATGT
*
20892078 TTTGTAAAGTTGAAATCATGGA
1 TTTGTGAAGTTGAAATCATGGA
20892100 TTTGTGAAGTTGAAATCATGGA
1 TTTGTGAAGTTGAAATCATGGA
20892122 TTTGTG
1 TTTGTG
20892128 GGTATGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.40
Consensus pattern (22 bp):
TTTGTGAAGTTGAAATCATGGA
Found at i:20893639 original size:95 final size:94
Alignment explanation
Indices: 20893467--20893662 Score: 286
Period size: 95 Copynumber: 2.1 Consensus size: 94
20893457 GGACAACTCA
* * * * *
20893467 ATATGTAAACACCTTTATCAGGTTAGCTAAATCTTATCCATAAAGCTGGGGCGTTTAACCAATTG
1 ATATATAATCACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCTGAGGCGTTTAACCAATTG
* *
20893532 CTTTAGAGGGACATCTCAAGCTTTATTGT
66 CTCTAGAGGGACAACTCAAGCTTTATTGT
* *
20893561 ATAGTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAG-TCGAGGCGTTTGACCAAT
1 ATA-TATAATCACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCT-GAGGCGTTTAACCAAT
20893625 TGCTCTAGAGGGACAACTCAAGCTTTATTGT
64 TGCTCTAGAGGGACAACTCAAGCTTTATTGT
20893656 ATATATA
1 ATATATA
20893663 TAATATTATA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
94 8 0.09
95 83 0.91
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (94 bp):
ATATATAATCACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCTGAGGCGTTTAACCAATTG
CTCTAGAGGGACAACTCAAGCTTTATTGT
Found at i:20897723 original size:5 final size:5
Alignment explanation
Indices: 20897713--20897816 Score: 69
Period size: 5 Copynumber: 21.8 Consensus size: 5
20897703 AATGGCTATG
* * * * *
20897713 AAATA AAAT- AAA-A CAATA AAAGA AAACA AAGTA AAAT- AAATA AACTA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
* *
20897760 AAA-A AAATA AAACA AAAT- -AATA AAAT- AAATAA AAATAA AAATA AAACA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A AAAT-A AAATA AAATA
*
20897808 AAACA AAAT
1 AAATA AAAT
20897817 GAAGGGAATG
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
3 3 0.04
4 17 0.22
5 48 0.62
6 10 0.13
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (5 bp):
AAATA
Found at i:20897757 original size:18 final size:17
Alignment explanation
Indices: 20897736--20897804 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 17
20897726 CAATAAAAGA
20897736 AAACAAAGTAAAATAAAT
1 AAACAAA-TAAAATAAAT
*
20897754 AAACTAAAAAAAATAAA-
1 AAAC-AAATAAAATAAAT
*
20897771 ACAAAATAATAAAATAAAT
1 A-AACA-AATAAAATAAAT
20897790 -AA-AAATAAAAATAAA
1 AAACAAAT-AAAATAAA
20897805 ACAAAACAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.07
16 9 0.21
17 4 0.09
18 24 0.56
19 3 0.07
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.16
Consensus pattern (17 bp):
AAACAAATAAAATAAAT
Found at i:20897766 original size:28 final size:27
Alignment explanation
Indices: 20897713--20897805 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 27
20897703 AATGGCTATG
20897713 AAATAAAATAAA-ACAATAAAAGAAAACA
1 AAATAAAATAAATA-AATAAAA-AAAACA
* *
20897741 AAGTAAAATAAATAAACTAAAAAAAATA
1 AAATAAAATAAATAAA-TAAAAAAAACA
* *
20897769 AAACAAAAT-AATAAAATAAATAAAAATAA
1 AAATAAAATAAAT-AAATAAA-AAAAA-CA
20897798 AAATAAAA
1 AAATAAAA
20897806 CAAAACAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
27 7 0.13
28 33 0.61
29 14 0.26
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.15
Consensus pattern (27 bp):
AAATAAAATAAATAAATAAAAAAAACA
Found at i:20897894 original size:2 final size:2
Alignment explanation
Indices: 20897887--20897923 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
20897877 AGTTAGAATA
20897887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20897924 AGTGATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20897967 original size:21 final size:21
Alignment explanation
Indices: 20897943--20897988 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
20897933 AAACAAAAGG
* *
20897943 AAAACAAATAAGGAAAAAAAC
1 AAAACAAAGAAAGAAAAAAAC
* *
20897964 AAAATAAGGAAAGAAAAAAAC
1 AAAACAAAGAAAGAAAAAAAC
20897985 AAAA
1 AAAA
20897989 TAAGAGGGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.78, C:0.07, G:0.11, T:0.04
Consensus pattern (21 bp):
AAAACAAAGAAAGAAAAAAAC
Found at i:20897970 original size:17 final size:17
Alignment explanation
Indices: 20897942--20897980 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
20897932 AAAACAAAAG
20897942 GAAAACAAATAAGGAAA
1 GAAAACAAATAAGGAAA
20897959 -AAAACAAAATAAGGAAA
1 GAAAAC-AAATAAGGAAA
20897976 GAAAA
1 GAAAA
20897981 AAACAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.25
17 11 0.55
18 4 0.20
ACGTcount: A:0.74, C:0.05, G:0.15, T:0.05
Consensus pattern (17 bp):
GAAAACAAATAAGGAAA
Found at i:20898238 original size:3 final size:3
Alignment explanation
Indices: 20898196--20898269 Score: 87
Period size: 3 Copynumber: 24.0 Consensus size: 3
20898186 AAAAAAAAGG
* * *
20898196 TAA TAA -AA TATA TAA TCA TAA AAA TAA AAGA TATA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA
20898243 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
20898270 AGACCAAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
2 2 0.03
3 51 0.84
4 8 0.13
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:20898323 original size:21 final size:22
Alignment explanation
Indices: 20898294--20898345 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
20898284 ATGTTAAACA
20898294 ATACAATAA-AGTAA-AAAAAGT
1 ATACAATAATAGTAATAAAAA-T
*
20898315 ATACTATAATAGTAATAAAAAT
1 ATACAATAATAGTAATAAAAAT
*
20898337 ATAAAATAA
1 ATACAATAA
20898346 ATAGAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 8 0.31
22 13 0.50
23 5 0.19
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (22 bp):
ATACAATAATAGTAATAAAAAT
Found at i:20898334 original size:22 final size:21
Alignment explanation
Indices: 20898294--20898354 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
20898284 ATGTTAAACA
*
20898294 ATACAATAAAGTAAAAAAAGT
1 ATACAATAAAGTAAAAAAAAT
* *
20898315 ATACTATAATAGTAATAAAAAT
1 ATACAATAA-AGTAAAAAAAAT
* *
20898337 ATAAAATAAA-TAGAAAAA
1 ATACAATAAAGTAAAAAAA
20898355 TAGAAAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 6 0.19
21 9 0.28
22 17 0.53
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (21 bp):
ATACAATAAAGTAAAAAAAAT
Found at i:20898353 original size:19 final size:18
Alignment explanation
Indices: 20898331--20898385 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
20898321 TAATAGTAAT
*
20898331 AAAAATATAAAATAAATAG
1 AAAAATATAAAA-AAATAA
*
20898350 AAAAATAGAAAAAAATAA
1 AAAAATATAAAAAAATAA
*
20898368 ATAAAAAATAAAAAAATA
1 A-AAAATATAAAAAAATA
20898386 TAATTATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (18 bp):
AAAAATATAAAAAAATAA
Found at i:20898366 original size:29 final size:31
Alignment explanation
Indices: 20898322--20898389 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
20898312 AGTATACTAT
* *
20898322 AATAGTAATAAAAATATAA-AATAAATAGAAA
1 AATAGTAATAAAAATA-AATAAAAAATAAAAA
20898353 AATAG-AA-AAAAATAAATAAAAAATAAAAA
1 AATAGTAATAAAAATAAATAAAAAATAAAAA
20898382 AATA-TAAT
1 AATAGTAAT
20898390 TATATATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
28 2 0.06
29 23 0.72
30 2 0.06
31 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (31 bp):
AATAGTAATAAAAATAAATAAAAAATAAAAA
Found at i:20898374 original size:21 final size:21
Alignment explanation
Indices: 20898339--20898388 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 21
20898329 ATAAAAATAT
20898339 AAAATAAATAGAAAAATAGAAA
1 AAAATAAATAGAAAAATA-AAA
20898361 AAAATAAATA-AAAAATAAAA
1 AAAATAAATAGAAAAATAAAA
20898381 AAATATAA
1 AAA-ATAA
20898389 TTATATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.22
21 11 0.41
22 10 0.37
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAATAAATAGAAAAATAAAA
Found at i:20901643 original size:15 final size:15
Alignment explanation
Indices: 20901623--20901656 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
20901613 TGTGTAACGT
20901623 CATCATCTACACCCC
1 CATCATCTACACCCC
20901638 CATCATCTACACCCC
1 CATCATCTACACCCC
20901653 CATC
1 CATC
20901657 TTTATGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.53, G:0.00, T:0.21
Consensus pattern (15 bp):
CATCATCTACACCCC
Found at i:20903360 original size:22 final size:21
Alignment explanation
Indices: 20903330--20903370 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
20903320 CATTTCCATT
20903330 TCATCATCAACAACATCAACA
1 TCATCATCAACAACATCAACA
* *
20903351 TCATCCATCAAGACCATCAA
1 TCAT-CATCAACAACATCAA
20903371 TTCTGCATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCATCAACAACATCAACA
Found at i:20903711 original size:22 final size:21
Alignment explanation
Indices: 20903659--20903717 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
20903649 GGAGTGCAAA
20903659 AAGAAAAGAAAAGACAAAAAG
1 AAGAAAAGAAAAGACAAAAAG
**
20903680 AAGAAGAAGAAAATTCAGAAAAG
1 AAGAA-AAGAAAAGACA-AAAAG
*
20903703 TAGAAAAGAATAAGA
1 AAGAAAAGAA-AAGA
20903718 AAATTCAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 5 0.17
22 14 0.47
23 11 0.37
ACGTcount: A:0.69, C:0.03, G:0.20, T:0.07
Consensus pattern (21 bp):
AAGAAAAGAAAAGACAAAAAG
Found at i:20903720 original size:28 final size:27
Alignment explanation
Indices: 20903680--20903762 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 27
20903670 AGACAAAAAG
*
20903680 AAGAAGAAGAAAATTCAGAAAAGTAGAA
1 AAGAATAAGAAAATTCAGAAAAG-AGAA
*
20903708 AAGAATAAGAAAATTCAGTAAAGAAGAA
1 AAGAATAAGAAAATTCAGAAAAG-AGAA
20903736 AAGAATAAGAAAATTCA-AAAAGAGAA
1 AAGAATAAGAAAATTCAGAAAAGAGAA
20903762 A
1 A
20903763 GCAAGCCAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.10
27 4 0.08
28 42 0.82
ACGTcount: A:0.66, C:0.04, G:0.18, T:0.12
Consensus pattern (27 bp):
AAGAATAAGAAAATTCAGAAAAGAGAA
Found at i:20906690 original size:15 final size:16
Alignment explanation
Indices: 20906650--20906692 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
20906640 AAAGTTTTAA
*
20906650 TATAGTTATTTTCATC
1 TATAGTTATTATCATC
20906666 TATA-TATATTAT-ATC
1 TATAGT-TATTATCATC
20906681 TATAGTTATTAT
1 TATAGTTATTAT
20906693 GATAATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (16 bp):
TATAGTTATTATCATC
Found at i:20907909 original size:22 final size:21
Alignment explanation
Indices: 20907878--20907918 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
20907868 CATCTCCATT
20907878 TCATCATCAATG-CCATCAACA
1 TCATCATCAA-GACCATCAACA
20907899 TCATCCATCAAGACCATCAA
1 TCAT-CATCAAGACCATCAA
20907919 TTCCGCAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.39, C:0.34, G:0.05, T:0.22
Consensus pattern (21 bp):
TCATCATCAAGACCATCAACA
Found at i:20909672 original size:22 final size:22
Alignment explanation
Indices: 20909641--20909692 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
20909631 CCCCACTGCA
20909641 TGCA-GGCGACCTCTTCCGACG
1 TGCATGGCGACCTCTTCCGACG
20909662 TGCATGGCGACCTCTTCCGACG
1 TGCATGGCGACCTCTTCCGACG
20909684 TGCATGGCG
1 TGCATGGCG
20909693 CATGCAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.13, C:0.35, G:0.31, T:0.21
Consensus pattern (22 bp):
TGCATGGCGACCTCTTCCGACG
Found at i:20909731 original size:31 final size:31
Alignment explanation
Indices: 20909696--20909757 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
20909686 CATGGCGCAT
20909696 GCAAAGCTTCATCCTCTCACCACAGCTCGTA
1 GCAAAGCTTCATCCTCTCACCACAGCTCGTA
*
20909727 GCAAAGCTTCATCCTCTCGCCACAGCTCGTA
1 GCAAAGCTTCATCCTCTCACCACAGCTCGTA
20909758 TAGAACACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.23
Consensus pattern (31 bp):
GCAAAGCTTCATCCTCTCACCACAGCTCGTA
Found at i:20912878 original size:30 final size:29
Alignment explanation
Indices: 20912808--20912884 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
20912798 ATAAATAAAT
20912808 AAAAATGTAAAGGA-TCAAAATAGCAAAAAC
1 AAAAAT-TAAAGGACT-AAAATAGCAAAAAC
* *
20912838 AAAAGGTTAAAGGACTAAAATATCAAAAAC
1 AAAA-ATTAAAGGACTAAAATAGCAAAAAC
*
20912868 AGAAAATTAAAGTACTA
1 A-AAAATTAAAGGACTA
20912885 TAACAGAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 35 0.88
31 5 0.12
ACGTcount: A:0.61, C:0.09, G:0.13, T:0.17
Consensus pattern (29 bp):
AAAAATTAAAGGACTAAAATAGCAAAAAC
Found at i:20914849 original size:2 final size:2
Alignment explanation
Indices: 20914837--20914866 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
20914827 GTTAATTATT
20914837 TA TA T- 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 T
20914867 TTGTAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:20915034 original size:21 final size:21
Alignment explanation
Indices: 20914989--20915039 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
20914979 AAATACAAAC
20914989 GAATAAAC-TGACTTAAATTA
1 GAATAAACTTGACTTAAATTA
* * *
20915009 AAATAAACTTGACTTAATTTT
1 GAATAAACTTGACTTAAATTA
20915030 GAATAGAACT
1 GAATA-AACT
20915040 CATATATAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (21 bp):
GAATAAACTTGACTTAAATTA
Found at i:20918183 original size:30 final size:30
Alignment explanation
Indices: 20918147--20918264 Score: 166
Period size: 30 Copynumber: 3.9 Consensus size: 30
20918137 ACTTGAAGGC
* *
20918147 TAAAATAGCTAAAACAGAAACTTAAAGGAT
1 TAAAATAGCAAAAACAAAAACTTAAAGGAT
20918177 TAAAATAGCAAAAACAAAAACTTAAAGGAT
1 TAAAATAGCAAAAACAAAAACTTAAAGGAT
* * *
20918207 TAAAATAGCAAAAATAGAAACTT-AAGAGAC
1 TAAAATAGCAAAAACAAAAACTTAAAG-GAT
*
20918237 TAAAATAGCAAAAACAAAAAGTTAAAGG
1 TAAAATAGCAAAAACAAAAACTTAAAGG
20918265 GGTAAACTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
29 3 0.04
30 72 0.92
31 3 0.04
ACGTcount: A:0.61, C:0.09, G:0.13, T:0.17
Consensus pattern (30 bp):
TAAAATAGCAAAAACAAAAACTTAAAGGAT
Found at i:20918211 original size:60 final size:60
Alignment explanation
Indices: 20918147--20918264 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
20918137 ACTTGAAGGC
* *
20918147 TAAAATAGCTAAAACAGAAACTTAA-AGGATTAAAATAGCAAAAACAAAAACTTAAAGGAT
1 TAAAATAGCAAAAACAGAAACTTAAGA-GACTAAAATAGCAAAAACAAAAACTTAAAGGAT
* *
20918207 TAAAATAGCAAAAATAGAAACTTAAGAGACTAAAATAGCAAAAACAAAAAGTTAAAGG
1 TAAAATAGCAAAAACAGAAACTTAAGAGACTAAAATAGCAAAAACAAAAACTTAAAGG
20918265 GGTAAACTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 52 0.98
61 1 0.02
ACGTcount: A:0.61, C:0.09, G:0.13, T:0.17
Consensus pattern (60 bp):
TAAAATAGCAAAAACAGAAACTTAAGAGACTAAAATAGCAAAAACAAAAACTTAAAGGAT
Found at i:20919647 original size:3 final size:3
Alignment explanation
Indices: 20919639--20919686 Score: 60
Period size: 3 Copynumber: 14.7 Consensus size: 3
20919629 ATAGATGTAT
20919639 TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAAA TCAA TTAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA T-AA -TAA TAA TA
20919687 TTTTTTCGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
3 30 0.73
4 10 0.24
5 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20920173 original size:131 final size:131
Alignment explanation
Indices: 20919876--20920234 Score: 461
Period size: 131 Copynumber: 2.7 Consensus size: 131
20919866 GTTATGGTCG
* * * * *
20919876 TCTAAGGGTGTCACGGCT-TATACGTGATAAGGAGATCTGGTCGGTGGATGACATGGTTCCTATG
1 TCTAGGGGTGACACGGCTCT-TACGTGATGAGGAGGTCTGGTCGGTGGATGACATGGTTCCTACG
** * * * *
20919940 CAATGAGGACGATATGCCATCTTTAGGGAAGGTGATAACACGGTTCCTACGCGATAAGGACGGCT
65 TGATGAGGACGACATGCCATCTTTAGGG-A--TGATAACACGGTACCGACGCGATAAGGACGACT
*
20920005 GGTTG
127 GGTTA
* * *
20920010 TCTAGGGGTGACATGGCTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCCTACGT
1 TCTAGGGGTGACACGGCTCTTACGTGATGAGGAGGTCTGGTCGGTGGATGACATGGTTCCTACGT
* * * * *
20920075 GATAAGGACGACA-GACCATCTTTAGGGATGGTAACACGGTACCGACGTGATGAGGACGATTGGT
66 GATGAGGACGACATG-CCATCTTTAGGGATGATAACACGGTACCGACGCGATAAGGACGACTGGT
20920139 TA
130 TA
*
20920141 TCTAGGGGTGACACGGCTCTTACGTGATGAGGAGGTCTGGTCGGGGGATGACATGGTTCCTACGT
1 TCTAGGGGTGACACGGCTCTTACGTGATGAGGAGGTCTGGTCGGTGGATGACATGGTTCCTACGT
*
20920206 GATGAGGACGACATGCTATCTTTAGGGAT
66 GATGAGGACGACATGCCATCTTTAGGGAT
20920235 TTGTTTCAAG
Statistics
Matches: 196, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
131 116 0.59
132 1 0.01
133 2 0.01
134 77 0.39
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (131 bp):
TCTAGGGGTGACACGGCTCTTACGTGATGAGGAGGTCTGGTCGGTGGATGACATGGTTCCTACGT
GATGAGGACGACATGCCATCTTTAGGGATGATAACACGGTACCGACGCGATAAGGACGACTGGTT
A
Found at i:20920419 original size:66 final size:65
Alignment explanation
Indices: 20920334--20920517 Score: 214
Period size: 66 Copynumber: 2.8 Consensus size: 65
20920324 AAAGATGATG
* *
20920334 ATGTTTCAAGAGAAACTGTCTAAAAGGAGACAAAATTTGTTTCAAGAGAAATAAACACAAAGATT
1 ATGTTTCAAAAGAAACTGTCT-AAAGGAGACAAAATTTGTTTCAAGAGAAACAAACACAAAGATT
20920399 T
65 T
* * *
20920400 ATGTTTCAAAAGAAACTGTCTCAAAGGAGACAAAACTTGTTTCAAGTGAAACAAACTCAAAGATT
1 ATGTTTCAAAAGAAACTGTCT-AAAGGAGACAAAATTTGTTTCAAGAGAAACAAACACAAAGATT
20920465 T
65 T
** * *
20920466 -T-TTT-AAGAAG-ATTTGTCTCAAGAGAGACAAAGCTTTGTTTCAAGAGAAACAA
1 ATGTTTCAA-AAGAAACTGTCTAAAG-GAGACAAA-ATTTGTTTCAAGAGAAACAA
20920518 TTTCAAAGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
62 3 0.03
63 16 0.16
64 23 0.22
65 1 0.01
66 60 0.58
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (65 bp):
ATGTTTCAAAAGAAACTGTCTAAAGGAGACAAAATTTGTTTCAAGAGAAACAAACACAAAGATTT
Found at i:20920516 original size:64 final size:64
Alignment explanation
Indices: 20920344--20920568 Score: 198
Period size: 64 Copynumber: 3.5 Consensus size: 64
20920334 ATGTTTCAAG
* * * *
20920344 AGAA-ACTGTCT-AAAAGGAGACAAA-ATTTGTTTCAAGAGAAATAAACACAAAGATTTATGTTT
1 AGAAGACTGTCTCAAGA-GAGACAAAGCTTTGTTTCAAGAGAAACAAACTCAAAGATTTAT-TTT
20920406 CA
64 -A
* *
20920408 A-AAGAAACTGTCTCAA-AGGAGACAAAAC-TTGTTTCAAGTGAAACAAACTCAAAGATTT-TTT
1 AGAAG--ACTGTCTCAAGA-GAGACAAAGCTTTGTTTCAAGAGAAACAAACTCAAAGATTTATTT
20920469 TA
63 TA
* ** * *
20920471 AGAAGATTTGTCTCAAGAGAGACAAAGCTTTGTTTCAAGAGAAACAATTTCAAAG-TTTCTCTTA
1 AGAAGA-CTGTCTCAAGAGAGACAAAGCTTTGTTTCAAGAGAAACAAACTCAAAGATTTATTTTA
* *
20920535 AGAAAGACTGTCCCAAGTGAGACAAAG-TTTGTTT
1 AG-AAGACTGTCTCAAGAGAGACAAAGCTTTGTTT
20920569 TGAGAAAAAT
Statistics
Matches: 137, Mismatches: 13, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
62 1 0.01
63 31 0.23
64 54 0.39
65 5 0.04
66 44 0.32
67 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (64 bp):
AGAAGACTGTCTCAAGAGAGACAAAGCTTTGTTTCAAGAGAAACAAACTCAAAGATTTATTTTA
Found at i:20920687 original size:102 final size:100
Alignment explanation
Indices: 20920478--20920706 Score: 243
Period size: 102 Copynumber: 2.3 Consensus size: 100
20920468 TTAAGAAGAT
** * *
20920478 TTGTCTCAAGAGAGACAAAGCTTTGTTTCAAGAGAAACAATTTCAAAGTTTCTCTTAAGAAAGAC
1 TTGTCTCAAGAGAGACAAAGCTTTGTTTCAAGAGAAACAAACTCAAAGTTTATCTTAAGAAAGAA
*
20920543 TGTCCCAAGTGAGACAAAGTTTGTTTTGAGAAAAA
66 TGTCCCAAGCGAGACAAAGTTTGTTTTGAGAAAAA
** * * *
20920578 TAATCTCAAGTGAGATC-AA-CTTTGTTTCAAGTGAAACAAACTCGAAATTTGTATCTTAAAGGA
1 TTGTCTCAAGAGAGA-CAAAGCTTTGTTTCAAGAGAAACAAACTC-AAAGTT-TATCTT-AA-GA
* *
20920641 AA-AATGTCTCAAGCGAGACGAAA-TTTGTTTTGAGAGAAA
61 AAGAATGTCCCAAGCGAGAC-AAAGTTTGTTTTGAGAAAAA
* *
20920680 TTGTCTCAAGCGAGACAAA-ATTTGTTT
1 TTGTCTCAAGAGAGACAAAGCTTTGTTT
20920707 TTAAGAAAAC
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
99 21 0.20
100 19 0.18
101 7 0.07
102 52 0.49
103 7 0.07
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (100 bp):
TTGTCTCAAGAGAGACAAAGCTTTGTTTCAAGAGAAACAAACTCAAAGTTTATCTTAAGAAAGAA
TGTCCCAAGCGAGACAAAGTTTGTTTTGAGAAAAA
Found at i:20920690 original size:36 final size:37
Alignment explanation
Indices: 20920645--20920734 Score: 121
Period size: 36 Copynumber: 2.5 Consensus size: 37
20920635 AAAGGAAAAA
20920645 TGTCTCAAGCGAGACGAAATTTGTTTTG-AGAGAAA-T
1 TGTCTCAAGCGAGACGAAATTTGTTTTGAAGA-AAACT
* *
20920681 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAAACT
1 TGTCTCAAGCGAGACGAAATTTGTTTTGAAGAAAACT
* *
20920718 TGTCTTAAGTGAGACGA
1 TGTCTCAAGCGAGACGA
20920735 CCCTTTATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
36 29 0.62
37 18 0.38
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (37 bp):
TGTCTCAAGCGAGACGAAATTTGTTTTGAAGAAAACT
Found at i:20920883 original size:32 final size:32
Alignment explanation
Indices: 20920834--20920897 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
20920824 TTCACTTCAA
* *
20920834 GATGTTGAATCCACAAAGTTTCCCCAACATTC
1 GATGTTGAATCCACAAAGATGCCCCAACATTC
*
20920866 GATGTTGAATCTC-CAAAGATGCCCCATCATTC
1 GATGTTGAATC-CACAAAGATGCCCCAACATTC
20920898 ATCGTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (32 bp):
GATGTTGAATCCACAAAGATGCCCCAACATTC
Found at i:20921968 original size:30 final size:30
Alignment explanation
Indices: 20921934--20922018 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
20921924 GTGCTTCTTA
20921934 TCTTTTTTTCTTTCTTTCTTTTGTTTTTTT
1 TCTTTTTTTCTTTCTTTCTTTTGTTTTTTT
* * *
20921964 TCTTTGATTT-TTTCTTTGTTCTT-TGTTTTT
1 TCTTT-TTTTCTTTCTTTCTT-TTGTTTTTTT
* *
20921994 TCTTTTCTTCTTT-TCTC-TTTGTTTT
1 TCTTTTTTTCTTTCTTTCTTTTGTTTT
20922019 GATTGGATCT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
27 2 0.05
28 4 0.09
29 4 0.09
30 28 0.65
31 5 0.12
ACGTcount: A:0.01, C:0.14, G:0.06, T:0.79
Consensus pattern (30 bp):
TCTTTTTTTCTTTCTTTCTTTTGTTTTTTT
Found at i:20921974 original size:19 final size:18
Alignment explanation
Indices: 20921944--20922006 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
20921934 TCTTTTTTTC
*
20921944 TTTCTTTCTTTTGTT-TTT
1 TTTCTTTGTTTT-TTCTTT
20921962 TTTCTTTGATTTTTTCTTT
1 TTTCTTTG-TTTTTTCTTT
*
20921981 GTTCTTTGTTTTTTCTTT
1 TTTCTTTGTTTTTTCTTT
20921999 TCTTCTTT
1 T-TTCTTT
20922007 TCTCTTTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 19 0.49
19 20 0.51
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTCTTTGTTTTTTCTTT
Found at i:20922004 original size:26 final size:26
Alignment explanation
Indices: 20921937--20922018 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
20921927 CTTCTTATCT
20921937 TTTTTTC-TTTCTTTCTTTTGTT-TTT-
1 TTTTTTCTTTTC-TTC-TTTGTTCTTTG
*
20921962 TTTCTTTGATTTT-TTCTTTGTTCTTTG
1 TTT-TTT-CTTTTCTTCTTTGTTCTTTG
20921989 TTTTTTCTTTTCTTCTTT-TCTCTTTG
1 TTTTTTCTTTTCTTCTTTGT-TCTTTG
20922015 TTTT
1 TTTT
20922019 GATTGGATCT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
25 14 0.29
26 28 0.58
27 3 0.06
28 3 0.06
ACGTcount: A:0.01, C:0.13, G:0.06, T:0.79
Consensus pattern (26 bp):
TTTTTTCTTTTCTTCTTTGTTCTTTG
Found at i:20925762 original size:30 final size:30
Alignment explanation
Indices: 20925728--20925815 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 30
20925718 CTTGAAGGGC
* *
20925728 TAAAATAGCTAAAATAGAAATTTAAAGGAT
1 TAAAATAGCAAAAATAGAAAATTAAAGGAT
*
20925758 TAAAATAGCAAAAATAGAAAATTAAGGGAT
1 TAAAATAGCAAAAATAGAAAATTAAAGGAT
* *
20925788 TAAAATAGAAAAAACA-AAAAGTTAAAGG
1 TAAAATAGCAAAAATAGAAAA-TTAAAGG
20925816 GATGAACTAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.08
30 47 0.92
ACGTcount: A:0.61, C:0.03, G:0.15, T:0.20
Consensus pattern (30 bp):
TAAAATAGCAAAAATAGAAAATTAAAGGAT
Found at i:20926590 original size:11 final size:11
Alignment explanation
Indices: 20926574--20926598 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20926564 TTCTTCTTGG
20926574 TTTTTTTGTGT
1 TTTTTTTGTGT
20926585 TTTTTTTGTGT
1 TTTTTTTGTGT
20926596 TTT
1 TTT
20926599 AAAAATCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTTTTGTGT
Found at i:20928533 original size:3 final size:3
Alignment explanation
Indices: 20928527--20928628 Score: 122
Period size: 3 Copynumber: 34.0 Consensus size: 3
20928517 CATCCATTTG
*
20928527 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
20928574 GTA TTA TT- TTA TT- TATA TTA TTA TTTA TTA TT- TATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TTA T-TA TTA -TTA TTA
20928620 TTA TTA TTA
1 TTA TTA TTA
20928629 ATAATAAAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
2 6 0.07
3 73 0.84
4 8 0.09
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:20929640 original size:2 final size:2
Alignment explanation
Indices: 20929633--20929741 Score: 218
Period size: 2 Copynumber: 54.5 Consensus size: 2
20929623 CATTAACATA
20929633 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20929675 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20929717 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
20929742 GGTAAATAAC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 107 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20930040 original size:17 final size:17
Alignment explanation
Indices: 20930014--20930051 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
20930004 TTTAGTCACT
*
20930014 ATTTATTTA-TATTTTA
1 ATTTATTTATTATTTAA
20930030 ATTTAATTTATTATTTAA
1 ATTT-ATTTATTATTTAA
20930048 ATTT
1 ATTT
20930052 CAATAAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 5 0.26
18 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTATTTATTATTTAA
Found at i:20932844 original size:16 final size:16
Alignment explanation
Indices: 20932819--20932854 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
20932809 TGTTGGGTTA
*
20932819 CATTCGTCTGAGTTTG
1 CATTCATCTGAGTTTG
20932835 CATTCATCTGAGTTTG
1 CATTCATCTGAGTTTG
20932851 CATT
1 CATT
20932855 TCATAGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.44
Consensus pattern (16 bp):
CATTCATCTGAGTTTG
Found at i:20941503 original size:11 final size:11
Alignment explanation
Indices: 20941487--20941516 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
20941477 AGAAAGTACA
20941487 TCCAAGAGAAT
1 TCCAAGAGAAT
20941498 TCCAAGAGAAT
1 TCCAAGAGAAT
20941509 TCCAAGAG
1 TCCAAGAG
20941517 GGTGATCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (11 bp):
TCCAAGAGAAT
Found at i:20941741 original size:17 final size:17
Alignment explanation
Indices: 20941711--20941767 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
20941701 CTTAAAGAAG
*
20941711 AAAAAGAAAAAAAAATAA
1 AAAAAG-AAGAAAAATAA
20941729 AAAAAGAAGAAAAATAA
1 AAAAAGAAGAAAAATAA
20941746 AAGAAA-AAGTAGAAAATAA
1 AA-AAAGAAG-A-AAAATAA
20941765 AAA
1 AAA
20941768 GGAGGGTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 15 0.43
18 11 0.31
19 9 0.26
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (17 bp):
AAAAAGAAGAAAAATAA
Found at i:20941752 original size:20 final size:20
Alignment explanation
Indices: 20941708--20941766 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
20941698 ATGCTTAAAG
20941708 AAGAAAAAGAA-AAAAA-AA
1 AAGAAAAAGAAGAAAAATAA
20941726 TAA-AAAAAGAAGAAAAATAA
1 -AAGAAAAAGAAGAAAAATAA
*
20941746 AAGAAAAAGTAG-AAAATAA
1 AAGAAAAAGAAGAAAAATAA
20941765 AA
1 AA
20941767 AGGAGGGTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 8 0.22
19 18 0.50
20 10 0.28
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (20 bp):
AAGAAAAAGAAGAAAAATAA
Found at i:20941767 original size:20 final size:18
Alignment explanation
Indices: 20941708--20941768 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 18
20941698 ATGCTTAAAG
20941708 AAGAAAAAGA-AAAAAAA
1 AAGAAAAAGAGAAAAAAA
*
20941725 ATAAAAAAAGAAGAAAAATAA
1 A-AGAAAAAG-AGAAAAA-AA
20941746 AAGAAAAAGTAGAAAATAAA
1 AAGAAAAAG-AGAAAA-AAA
20941766 AAG
1 AAG
20941769 GAGGGTCAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.03
18 7 0.19
19 1 0.03
20 23 0.64
21 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (18 bp):
AAGAAAAAGAGAAAAAAA
Found at i:20942128 original size:18 final size:18
Alignment explanation
Indices: 20942105--20942141 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20942095 TCCACGTTTA
20942105 TCTTTTCGAAATCCAATT
1 TCTTTTCGAAATCCAATT
*
20942123 TCTTTTCGAAATTCAATT
1 TCTTTTCGAAATCCAATT
20942141 T
1 T
20942142 ATTCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (18 bp):
TCTTTTCGAAATCCAATT
Found at i:20942795 original size:22 final size:22
Alignment explanation
Indices: 20942767--20942852 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
20942757 TACATCTACA
*
20942767 TTCTTCAAAGATGATAGATTCT
1 TTCTTCAAAGATAATAGATTCT
20942789 TTCTTCAAAGATAATAGATTCT
1 TTCTTCAAAGATAATAGATTCT
* *
20942811 CTATTCAAAGATAATAGATTCT
1 TTCTTCAAAGATAATAGATTCT
* * *
20942833 TTTTTCAAAGAAAAAAGATT
1 TTCTTCAAAGATAATAGATT
20942853 TATTGGATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (22 bp):
TTCTTCAAAGATAATAGATTCT
Found at i:20943430 original size:122 final size:121
Alignment explanation
Indices: 20943211--20943542 Score: 513
Period size: 122 Copynumber: 2.7 Consensus size: 121
20943201 CACTCGATGG
* * *
20943211 ATCAACATTTCCAGAAGAGTTCATAACGAGAAGAAATCATCTGAAGAAGAAGAAGAAGTTCATAA
1 ATCAACATTTCCAGGAGAGTTCATAATGAGAAG-AATCATCTGAAGAAGGAGAAGAAGTTCATAA
*
20943276 TGAGAAGAATTTTTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
65 TGAGAAGAATTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* *
20943333 ATCAACATTTCCAGGAGAGATCATAATGAGAAGAACTCTTCTGAAGAAGGAGAAGAAGTTCATAA
1 ATCAACATTTCCAGGAGAGTTCATAATGAGAAGAA-TCATCTGAAGAAGGAGAAGAAGTTCATAA
* *
20943398 TGAGAAGAATTTGTTCAACCTTTTGC-TCGACTCTATTACAGAAGGAGCTAGATCAGC
65 TGAGAAGAATTTGTTCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAGATCAGC
* * *
20943455 ATCAGCATTTCCAGAGAGAGTTCATAATGAGAAGAATCAATCTGAAGAATGAGAAGAAATTCATA
1 ATCAACATTTCCAG-GAGAGTTCATAATGAGAAGAATC-ATCTGAAGAAGGAGAAGAAGTTCATA
20943520 ATGAGAAGAATTTGTTCAACCTT
64 ATGAGAAGAATTTGTTCAACCTT
20943543 ACCTTAATTC
Statistics
Matches: 193, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
121 3 0.02
122 124 0.64
123 66 0.34
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (121 bp):
ATCAACATTTCCAGGAGAGTTCATAATGAGAAGAATCATCTGAAGAAGGAGAAGAAGTTCATAAT
GAGAAGAATTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
Found at i:20943916 original size:3 final size:3
Alignment explanation
Indices: 20943910--20943978 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
20943900 TTAGTTTTTT
*
20943910 TTA TTA TTA TTA TTA TTA GTA TTA TT- TTA TTA -TA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
20943954 ATA TT- TATA TTTA TTA TTA TTA TTA
1 TTA TTA T-TA -TTA TTA TTA TTA TTA
20943979 CTAATAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
2 5 0.09
3 45 0.80
4 5 0.09
5 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:20943958 original size:23 final size:24
Alignment explanation
Indices: 20943908--20943976 Score: 88
Period size: 23 Copynumber: 2.8 Consensus size: 24
20943898 CATTAGTTTT
*
20943908 TTTTATTATTATTATTATTAGTATTA
1 TTTTATTA-TATTATTATTA-TAATA
20943934 TTTTATTATATTATTATT-TAATA
1 TTTTATTATATTATTATTATAATA
20943957 TTTATATT-TATTATTATTAT
1 TTT-TATTATATTATTATTAT
20943977 TACTAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 17 0.43
24 5 0.12
25 10 0.25
26 8 0.20
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (24 bp):
TTTTATTATATTATTATTATAATA
Found at i:20957207 original size:20 final size:20
Alignment explanation
Indices: 20957182--20957219 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20957172 AACACAAATG
20957182 AACGAACATAAACGAACGTA
1 AACGAACATAAACGAACGTA
* *
20957202 AACGAATATAAATGAACG
1 AACGAACATAAACGAACG
20957220 GATGTAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (20 bp):
AACGAACATAAACGAACGTA
Found at i:20957532 original size:24 final size:24
Alignment explanation
Indices: 20957497--20957557 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
20957487 CTATAAATAA
* *
20957497 ATAAACACACATAAACGAACGGAC
1 ATAAACAAACATAAACGAACGAAC
20957521 ATAAACAAACATAAACGAACGAAC
1 ATAAACAAACATAAACGAACGAAC
*
20957545 ATGAACAAACATA
1 ATAAACAAACATA
20957558 TTACCGAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.59, C:0.21, G:0.10, T:0.10
Consensus pattern (24 bp):
ATAAACAAACATAAACGAACGAAC
Found at i:20960353 original size:2 final size:2
Alignment explanation
Indices: 20960346--20960379 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
20960336 AAATACAGTC
20960346 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20960380 GGAATCAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:20972135 original size:16 final size:16
Alignment explanation
Indices: 20972114--20972146 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20972104 TAATAAATAA
20972114 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
20972130 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
20972146 A
1 A
20972147 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:20972227 original size:10 final size:10
Alignment explanation
Indices: 20972212--20972286 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
20972202 CATTTAATAA
20972212 ATAAACGAAC
1 ATAAACGAAC
20972222 ATAAACGAAC
1 ATAAACGAAC
20972232 ----ACGAAC
1 ATAAACGAAC
20972238 ATAAACGAAC
1 ATAAACGAAC
** *
20972248 ACGAAC-ATAA
1 ATAAACGA-AC
20972258 ATGAACACGAAC
1 AT-AA-ACGAAC
20972270 ATAAACGAAC
1 ATAAACGAAC
20972280 ATAAACG
1 ATAAACG
20972287 TTGGAGACCT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:20972237 original size:16 final size:16
Alignment explanation
Indices: 20972216--20972280 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
20972206 TAATAAATAA
20972216 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
20972232 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
20972248 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
20972264 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
20972280 A
1 A
20972281 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:20972879 original size:14 final size:14
Alignment explanation
Indices: 20972862--20972917 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
20972852 AATGAACATA
*
20972862 AACGAACATAATCG
1 AACGAACATAACCG
20972876 AACGAACAT-A---
1 AACGAACATAACCG
*
20972886 AACGAACATAACCA
1 AACGAACATAACCG
20972900 AACGAACATAACCG
1 AACGAACATAACCG
20972914 AACG
1 AACG
20972918 TTCACGAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:20972882 original size:24 final size:24
Alignment explanation
Indices: 20972842--20972916 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
20972832 GATTGGGTTA
*
20972842 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
20972866 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
20972890 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
20972914 AAC
1 AAC
20972917 GTTCACGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:20976954 original size:35 final size:34
Alignment explanation
Indices: 20976869--20976955 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
20976859 ATTTGGTATT
*
20976869 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
20976903 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
20976941 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
20976956 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:20977215 original size:15 final size:15
Alignment explanation
Indices: 20977170--20977228 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
20977160 CTCCTCGCTG
*
20977170 TCATCGTCGTCGTCG
1 TCATCGTCGTCGTCA
* ** *
20977185 TCGTCGTCACCATCA
1 TCATCGTCGTCGTCA
20977200 TCATCGTCGTCGTCA
1 TCATCGTCGTCGTCA
*
20977215 TCTTCGTCGTCGTC
1 TCATCGTCGTCGTC
20977229 CTGAGCAGGT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.10, C:0.36, G:0.20, T:0.34
Consensus pattern (15 bp):
TCATCGTCGTCGTCA
Found at i:20977595 original size:18 final size:18
Alignment explanation
Indices: 20977572--20977606 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20977562 GGCGATGGCG
*
20977572 GCATCATATATTGCTGCA
1 GCATCATATATGGCTGCA
20977590 GCATCATATATGGCTGC
1 GCATCATATATGGCTGC
20977607 GGTGGCTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (18 bp):
GCATCATATATGGCTGCA
Found at i:20979316 original size:111 final size:111
Alignment explanation
Indices: 20979108--20979441 Score: 551
Period size: 111 Copynumber: 3.0 Consensus size: 111
20979098 ATTACAAAAA
*
20979108 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
20979173 AATTAAAACGTTAAAATGTTACTGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
20979219 TTAATTCTTAATCTAATAATCCTGTATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* * *
20979284 AATTAAAACGTTAAAATATTACCGTATTAGCAAAGTGTTCTAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTG-TCGAGATAT
* *
20979331 TTAATTCTTAATATAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* * *
20979396 AATTAAAATGTTAAAATGTTACCGTATCAGCAGAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
20979442 ATGATTTCCA
Statistics
Matches: 205, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
111 103 0.50
112 102 0.50
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:20979983 original size:50 final size:50
Alignment explanation
Indices: 20979878--20979990 Score: 138
Period size: 50 Copynumber: 2.3 Consensus size: 50
20979868 ATAGCGCGGA
* * * * *
20979878 TCAGGGGGCGCGCTATACCCACGTGGCGCCAGATAACCGTATATCGCGGG
1 TCAGGGGGCGCGCTATACCCACGTGACGCCAAATAACCGTATAACACGAG
* * * *
20979928 GCAGGGGGCGCGCTATACCCACGTGACGCCAAATCAGCGTATAACACGAT
1 TCAGGGGGCGCGCTATACCCACGTGACGCCAAATAACCGTATAACACGAG
20979978 TCA-GGGGCGCGCT
1 TCAGGGGGCGCGCT
20979991 TTACTGCTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
49 10 0.19
50 43 0.81
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (50 bp):
TCAGGGGGCGCGCTATACCCACGTGACGCCAAATAACCGTATAACACGAG
Found at i:20983347 original size:25 final size:24
Alignment explanation
Indices: 20983292--20983340 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
20983282 TTTAATTTTA
*
20983292 TTTATTATTATTTTTATATATTCCG
1 TTTATTATTATTTTCATATATT-CG
20983317 TTTATTATTATTATTACATATATT
1 TTTATTATTATT-TT-CATATATT
20983341 TTTTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.57
26 2 0.10
27 7 0.33
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTATTATTATTTTCATATATTCG
Found at i:20983366 original size:21 final size:20
Alignment explanation
Indices: 20983327--20983376 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 20
20983317 TTTATTATTA
20983327 TTATTACATATATTTTTTAT
1 TTATTACATATATTTTTTAT
*
20983347 TTATTAC-TATA--TTATAT
1 TTATTACATATATTTTTTAT
*
20983364 TTATTATATATAT
1 TTATTACATATAT
20983377 ATGTTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 11 0.42
18 4 0.15
19 4 0.15
20 7 0.27
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTACATATATTTTTTAT
Found at i:20983444 original size:22 final size:22
Alignment explanation
Indices: 20983416--20983635 Score: 200
Period size: 22 Copynumber: 10.0 Consensus size: 22
20983406 TGGGTTTGAT
* *
20983416 TTGATTAGTTTAATATGTAGTG
1 TTGATTATTTTAATAGGTAGTG
* *
20983438 TTGATTATTTTAATATGTAGGG
1 TTGATTATTTTAATAGGTAGTG
* *
20983460 TTGATTATTTTAATATGTTGTG
1 TTGATTATTTTAATAGGTAGTG
20983482 TTGATTATTTTAATAGGTAGTGG
1 TTGATTATTTTAATAGGTAGT-G
*
20983505 TTTGATTATTTTTATAGGTAGTGG
1 -TTGATTATTTTAATAGGTAGT-G
**
20983529 TTTCTTATTTTAATAGGTAGTGG
1 TTGATTATTTTAATAGGTAGT-G
* * * *
20983552 TTTGATTTTTTTTAATATGTTGGG
1 -TTGA-TTATTTTAATAGGTAGTG
20983576 TTGATTATTTTAATAGGTA--G
1 TTGATTATTTTAATAGGTAGTG
* *
20983596 -TG---ATCTTAATATGTAGTG
1 TTGATTATTTTAATAGGTAGTG
*
20983614 TTGATTATTTTATTAGGTAGTG
1 TTGATTATTTTAATAGGTAGTG
20983636 GGCCAATTAT
Statistics
Matches: 164, Mismatches: 24, Indels: 20
0.79 0.12 0.10
Matches are distributed among these distances:
16 11 0.07
18 1 0.01
19 4 0.02
20 1 0.01
22 84 0.51
23 25 0.15
24 25 0.15
25 13 0.08
ACGTcount: A:0.24, C:0.01, G:0.22, T:0.53
Consensus pattern (22 bp):
TTGATTATTTTAATAGGTAGTG
Found at i:20983540 original size:47 final size:46
Alignment explanation
Indices: 20983415--20983636 Score: 248
Period size: 47 Copynumber: 5.0 Consensus size: 46
20983405 GTGGGTTTGA
* *
20983415 TTTGATTAGTTTAATATGTAGTGTTGATTATTTTAATATGTAG-GG
1 TTTGATTATTTTAATATGTAGTGTTGATTATTTTAATAGGTAGTGG
*
20983460 -TTGATTATTTTAATATGTTGTGTTGATTATTTTAATAGGTAGTGG
1 TTTGATTATTTTAATATGTAGTGTTGATTATTTTAATAGGTAGTGG
* * **
20983505 TTTGATTATTTTTATAGGTAGTGGTTTCTTATTTTAATAGGTAGTGG
1 TTTGATTATTTTAATATGTAGT-GTTGATTATTTTAATAGGTAGTGG
* * *
20983552 TTTGATTTTTTTTAATATGTTGGGTTGATTATTTTAATAGGTA---G
1 TTTGA-TTATTTTAATATGTAGTGTTGATTATTTTAATAGGTAGTGG
* *
20983596 --TG---ATCTTAATATGTAGTGTTGATTATTTTATTAGGTAGTGG
1 TTTGATTATTTTAATATGTAGTGTTGATTATTTTAATAGGTAGTGG
20983637 GCCAATTATT
Statistics
Matches: 150, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
38 30 0.20
41 1 0.01
42 2 0.01
44 40 0.27
45 2 0.01
46 18 0.12
47 45 0.30
48 12 0.08
ACGTcount: A:0.24, C:0.01, G:0.23, T:0.53
Consensus pattern (46 bp):
TTTGATTATTTTAATATGTAGTGTTGATTATTTTAATAGGTAGTGG
Found at i:20983617 original size:38 final size:38
Alignment explanation
Indices: 20983563--20983635 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
20983553 TTGATTTTTT
*
20983563 TTAATATGTTGGGTTGATTATTTTAATAGGTAGTGATC
1 TTAATATGTAGGGTTGATTATTTTAATAGGTAGTGATC
* *
20983601 TTAATATGTAGTGTTGATTATTTTATTAGGTAGTG
1 TTAATATGTAGGGTTGATTATTTTAATAGGTAGTG
20983636 GGCCAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.49
Consensus pattern (38 bp):
TTAATATGTAGGGTTGATTATTTTAATAGGTAGTGATC
Found at i:20987529 original size:16 final size:16
Alignment explanation
Indices: 20987508--20987547 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
20987498 AAGATGGAAG
20987508 AGAAGATCAGGATGAT
1 AGAAGATCAGGATGAT
20987524 AGAAGATCAGGATGAT
1 AGAAGATCAGGATGAT
20987540 AGAAGATC
1 AGAAGATC
20987548 GAATGAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.30, T:0.17
Consensus pattern (16 bp):
AGAAGATCAGGATGAT
Found at i:20994149 original size:44 final size:44
Alignment explanation
Indices: 20994095--20994178 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
20994085 AATACTACAC
* *
20994095 TTAGGATGAAAA-CCAGAAAGGGCGTCCTA-AGTAAAAAAAAACAT
1 TTAGGATGAAAACCCA-AAAAGGCGCCCTAGA-TAAAAAAAAACAT
*
20994139 TTAGGGTGAAAACCCAAAAAGGCGCCCTAGATAAAAAAAA
1 TTAGGATGAAAACCCAAAAAGGCGCCCTAGATAAAAAAAA
20994179 GAGAGCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
44 31 0.89
45 4 0.11
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.14
Consensus pattern (44 bp):
TTAGGATGAAAACCCAAAAAGGCGCCCTAGATAAAAAAAAACAT
Found at i:20995181 original size:105 final size:105
Alignment explanation
Indices: 20994989--20996447 Score: 2310
Period size: 105 Copynumber: 13.9 Consensus size: 105
20994979 ATGTTGCGCC
* ** * **
20994989 ACTCAAGACAACAAAAGTTCAACTTCATGACGAAGGGACCAATGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
** * *
20995054 ATTTCAGAGCCAATTTTTACTTCACAGTGAAGGGTATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
20995094 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* *
20995159 ATTTTAGAGCCAATTTCAACTTCACAGCAAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
20995199 ACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTAAACAATAATTTTCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* *
20995264 ATTTCGGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
20995304 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* *
20995369 ATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * **
20995409 ACTCCAAACAACGCAAGTTAAACTTCACGACGAAGGGACTACTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCC
*
20995474 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
20995515 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
20995580 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
20995620 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
20995685 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
20995725 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCC
*
20995790 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
20995831 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* *
20995896 ATTTCAGAGCAAATTTCAACTTCACAGCGAAGTATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
20995936 ACTCTAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAATAACAACCTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* * *
20996001 ATTTCAGAGCCAATTTCAATTTCACAGCAAATGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
20996041 ACTCCAGACAACGCAAGTTCAACTTCATGATGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
*
20996106 ATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
**
20996146 ACTTTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
*
20996211 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
20996251 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
20996316 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * ** * * ** *
20996356 ACTCAAGACAGCATAAGCTCAACTTCAC-AGCGAAGGG-GCGACTGACTGTCAACAAACAATTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCG-CTGGTTGTCAAC-AACAACTTC
* * ** *
20996419 CCAGTTCCAGATACAATTCCAACTTCACA
63 CCAATTTCAGAGCCAATTTCAACTTCACA
20996448 AATGGATTGA
Statistics
Matches: 1258, Mismatches: 91, Indels: 9
0.93 0.07 0.01
Matches are distributed among these distances:
104 2 0.00
105 1021 0.81
106 235 0.19
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:20995605 original size:316 final size:316
Alignment explanation
Indices: 20994989--20996448 Score: 2325
Period size: 316 Copynumber: 4.6 Consensus size: 316
20994979 ATGTTGCGCC
* ** * **
20994989 ACTCAAGACAACAAAAGTTCAACTTCATGACGAAGGGACCAATGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
** * * *
20995054 ATTTCAGAGCCAATTTTTACTTCACAGTGAAGGGTATTGGACTCCAGACAACACAAGTTCAACTT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
*
20995119 CACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAATTTTAGAGCCAATTTCAACTTCA
131 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
* * *
20995183 CAGCAAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
196 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * * * * *
20995248 AAACAATAATTTTCCAATTTCGGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
261 CAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
20995304 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* * * *
20995369 ATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTAAACTT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
**
20995434 CACGACGAAGGGACTACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
131 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
20995499 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
196 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
20995564 CAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
261 CAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
20995620 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
20995685 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
*
20995750 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCA
131 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
20995815 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
196 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* *
20995880 CAACAACAACTTCCCAATTTCAGAGCAAATTTCAACTTCACAGCGAAGTATATTGG
261 CAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
20995936 ACTCTAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAATAACAACCTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* * *
20996001 ATTTCAGAGCCAATTTCAATTTCACAGCAAATGATATTGGACTCCAGACAACGCAAGTTCAACTT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* *
20996066 CATGATGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
131 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
* * **
20996130 CAGCGAATGATATTGGACTTTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
196 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
*
20996195 CAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
261 CAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
20996251 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* * ** *
20996316 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCATAAGCTCAACTT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* ** * * * ** *
20996381 CAC-AGCGAAGGG-GCGACTGACTGTCAACAAACAATTTCCCAGTTCCAGATACAATTCCAACTT
131 CACGA-CGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTT
20996444 CACAA
194 CACAA
20996449 ATGGATTGAC
Statistics
Matches: 1059, Mismatches: 82, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
314 3 0.00
315 425 0.40
316 631 0.60
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (316 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
CAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:20997933 original size:17 final size:15
Alignment explanation
Indices: 20997911--20997945 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
20997901 ATATATTTTT
20997911 TATTTATTACTATATTA
1 TATTTATTA-TATA-TA
20997928 TATTTATTATATATA
1 TATTTATTATATATA
20997943 TAT
1 TAT
20997946 GGTCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 4 0.22
17 9 0.50
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTATTATATATA
Found at i:20998011 original size:22 final size:22
Alignment explanation
Indices: 20997983--20998224 Score: 226
Period size: 22 Copynumber: 11.0 Consensus size: 22
20997973 TGGGTTTGAT
*
20997983 TTGATTAGTTTAATATGTAGTG
1 TTGATTATTTTAATATGTAGTG
*
20998005 TTGATTATTTTAATATGTAGGG
1 TTGATTATTTTAATATGTAGTG
* *
20998027 CTGATTATTTTAATATGTAGGG
1 TTGATTATTTTAATATGTAGTG
*
20998049 TTGATTATTTTAATATGTTGTG
1 TTGATTATTTTAATATGTAGTG
*
20998071 TTGATTATTTTAATAGGTAGTGG
1 TTGATTATTTTAATATGTAGT-G
* *
20998094 TTTGATTATTTTTATAGGTAGTGG
1 -TTGATTATTTTAATATGTAGT-G
* * *
20998118 TTTATTATTTTAATAGGTAGGGG
1 TTGATTATTTTAATATGTA-GTG
* * *
20998141 TTTGATTTTTTTTAATATGTTGGG
1 -TTGA-TTATTTTAATATGTAGTG
*
20998165 TTGATTATTTTAATAGGTA--G
1 TTGATTATTTTAATATGTAGTG
*
20998185 -TG---ATCTTAATATGTAGTG
1 TTGATTATTTTAATATGTAGTG
* *
20998203 TTGATTATTTTATTAGGTAGTG
1 TTGATTATTTTAATATGTAGTG
20998225 GGCCAATTAT
Statistics
Matches: 185, Mismatches: 24, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
16 11 0.06
18 1 0.01
19 4 0.02
20 1 0.01
22 104 0.56
23 23 0.12
24 29 0.16
25 12 0.06
ACGTcount: A:0.25, C:0.01, G:0.23, T:0.52
Consensus pattern (22 bp):
TTGATTATTTTAATATGTAGTG
Found at i:20998128 original size:47 final size:45
Alignment explanation
Indices: 20997983--20998225 Score: 252
Period size: 44 Copynumber: 5.5 Consensus size: 45
20997973 TGGGTTTGAT
* *
20997983 TTGATTAGTTTAATATGTAGT-GTTGATTATTTTAATATGTAGGG
1 TTGATTATTTTAATAGGTAGTGGTTGATTATTTTAATATGTAGGG
* * * *
20998027 CTGATTATTTTAATATGTAG-GGTTGATTATTTTAATATGTTGTG
1 TTGATTATTTTAATAGGTAGTGGTTGATTATTTTAATATGTAGGG
* *
20998071 TTGATTATTTTAATAGGTAGTGGTTTGATTATTTTTATAGGTAGTGG
1 TTGATTATTTTAATAGGTAGTGG-TTGATTATTTTAATATGTAG-GG
* * * *
20998118 TTTATTATTTTAATAGGTAGGGGTTTGATTTTTTTTAATATGTTGGG
1 TTGATTATTTTAATAGGTAGTGG-TTGA-TTATTTTAATATGTAGGG
* *
20998165 TTGATTATTTTAATAGGTA---G-TG---ATCTTAATATGTAGTG
1 TTGATTATTTTAATAGGTAGTGGTTGATTATTTTAATATGTAGGG
*
20998203 TTGATTATTTTATTAGGTAGTGG
1 TTGATTATTTTAATAGGTAGTGG
20998226 GCCAATTATT
Statistics
Matches: 169, Mismatches: 22, Indels: 19
0.80 0.10 0.09
Matches are distributed among these distances:
38 30 0.18
41 1 0.01
42 2 0.01
44 58 0.34
45 2 0.01
46 17 0.10
47 47 0.28
48 12 0.07
ACGTcount: A:0.25, C:0.01, G:0.23, T:0.51
Consensus pattern (45 bp):
TTGATTATTTTAATAGGTAGTGGTTGATTATTTTAATATGTAGGG
Found at i:20998206 original size:38 final size:38
Alignment explanation
Indices: 20998152--20998224 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
20998142 TTGATTTTTT
*
20998152 TTAATATGTTGGGTTGATTATTTTAATAGGTAGTGATC
1 TTAATATGTAGGGTTGATTATTTTAATAGGTAGTGATC
* *
20998190 TTAATATGTAGTGTTGATTATTTTATTAGGTAGTG
1 TTAATATGTAGGGTTGATTATTTTAATAGGTAGTG
20998225 GGCCAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.49
Consensus pattern (38 bp):
TTAATATGTAGGGTTGATTATTTTAATAGGTAGTGATC
Found at i:20998279 original size:43 final size:44
Alignment explanation
Indices: 20998231--20998317 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
20998221 AGTGGGCCAA
* *
20998231 TTATTTAGTT-GTTTTGTTA-ATTTCATTTTTTTTCTTCTTTTTT
1 TTATTTAGTTCATTTTGTTATATTTCATTTTTTTT-TCCTTTTTT
* *
20998274 TTATTTATTTCATTTTTTTATATTTCATTTTTTTTTCCTTTTTT
1 TTATTTAGTTCATTTTGTTATATTTCATTTTTTTTTCCTTTTTT
20998318 AAATTGTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 9 0.24
44 15 0.39
45 14 0.37
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (44 bp):
TTATTTAGTTCATTTTGTTATATTTCATTTTTTTTTCCTTTTTT
Found at i:20998305 original size:14 final size:15
Alignment explanation
Indices: 20998250--20998307 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
20998240 TGTTTTGTTA
20998250 ATTTCATTTTTTT-T
1 ATTTCATTTTTTTAT
* *
20998264 -CTTCTTTTTTTTATTT
1 ATTTCATTTTTTTA--T
20998280 ATTTCATTTTTTTAT
1 ATTTCATTTTTTTAT
20998295 ATTTCATTTTTTT
1 ATTTCATTTTTTT
20998308 TTCCTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
13 10 0.28
15 14 0.39
16 1 0.03
17 11 0.31
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
ATTTCATTTTTTTAT
Found at i:20998309 original size:19 final size:18
Alignment explanation
Indices: 20998268--20998308 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
20998258 TTTTTTCTTC
20998268 TTTTTTTTATTTATTTCA
1 TTTTTTTTATTTATTTCA
20998286 -TTTTTTTA--TATTTCA
1 TTTTTTTTATTTATTTCA
20998301 TTTTTTTT
1 TTTTTTTT
20998309 TCCTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTTATTTATTTCA
Found at i:20999220 original size:17 final size:18
Alignment explanation
Indices: 20999175--20999221 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
20999165 ATATCACATG
20999175 TATCCCAAAACCTGATATA
1 TATCCCAAAA-CTGATATA
* * *
20999194 GATACCAAAACT-ATGTA
1 TATCCCAAAACTGATATA
20999211 TATCCCAAAAC
1 TATCCCAAAAC
20999222 ACTCTTCCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 13 0.57
18 2 0.09
19 8 0.35
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (18 bp):
TATCCCAAAACTGATATA
Found at i:21002193 original size:2 final size:2
Alignment explanation
Indices: 21002186--21002210 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21002176 CATGCAATGA
21002186 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21002211 ATACAACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21008043 original size:230 final size:229
Alignment explanation
Indices: 21007613--21008073 Score: 593
Period size: 230 Copynumber: 2.0 Consensus size: 229
21007603 GAAAATAAGC
* * * * *
21007613 ATGATGGGATCCTTGTGACTTGATGGACAATCCATATGAGTCTTCTAGAATAGGCATGAGCAACA
1 ATGATGGGATCCTTGTGACTTGATGGACAATCCAAATGAGCCTTCTAGAAGAGGAATGAGAAACA
* * *
21007678 TAGCTTGAAAAGTAGATGTGATAGGCATCCATGCTTATGATAAGAAAGGGGATGAGTTTGATTGG
66 TAGCTTGAAAAGTAAATGTGATAGGCACCCATGCTTATGATAAGAAAGGGGATGAGTTTGATAGG
* * * **
21007743 CTGCCAAGGCTTGTGGTATGTGATTGAGCGTGATAAGCAAGGTAGAGGGTAATAAGCTATCAAAG
131 CTACCAAGGCTTGTGGTATGTGATTGAGCGTGATAAACAAGGTAAAGAATAATAAGCTATCAAAG
21007808 GTTTACATTCAATGAC-CTATTTAACCTTATCCTA
196 GTTTACATTCAATGACTC-ATTTAACCTTATCCTA
* * * * *
21007842 ATGATGTGATCCTTGTGACTTGATGGATAATCCAAATGAGCCTTTTATAAGGGGAAT-ATGAAAC
1 ATGATGGGATCCTTGTGACTTGATGGACAATCCAAATGAGCCTTCTAGAAGAGGAATGA-GAAAC
* * * * *
21007906 ATAGCTTGAAAAATTAAATGTGATAGGTACCCATTCTTATGATAAGCAATGGGATGAGTTTGATA
65 ATAGCTTG-AAAAGTAAATGTGATAGGCACCCATGCTTATGATAAGAAAGGGGATGAGTTTGATA
* * * ** *
21007971 GGCTATCAAGGCTTGTGGTATGTGGTTGAGCGTGATAAACAAGGTAAATAATGGTAAGTTATCAA
129 GGCTACCAAGGCTTGTGGTATGTGATTGAGCGTGATAAACAAGGTAAAGAATAATAAGCTATCAA
* * *
21008036 GGGTTTACATTCAATGACTCATTTACCCTTATCTTA
194 AGGTTTACATTCAATGACTCATTTAACCTTATCCTA
21008072 AT
1 AT
21008074 AAATTAAAGC
Statistics
Matches: 197, Mismatches: 32, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
228 1 0.01
229 60 0.30
230 135 0.69
231 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (229 bp):
ATGATGGGATCCTTGTGACTTGATGGACAATCCAAATGAGCCTTCTAGAAGAGGAATGAGAAACA
TAGCTTGAAAAGTAAATGTGATAGGCACCCATGCTTATGATAAGAAAGGGGATGAGTTTGATAGG
CTACCAAGGCTTGTGGTATGTGATTGAGCGTGATAAACAAGGTAAAGAATAATAAGCTATCAAAG
GTTTACATTCAATGACTCATTTAACCTTATCCTA
Found at i:21009524 original size:55 final size:54
Alignment explanation
Indices: 21009458--21009829 Score: 462
Period size: 55 Copynumber: 6.8 Consensus size: 54
21009448 TACTACACGT
* * *
21009458 ACTATGTGTGCAAAACCACGAAATTCATAACGAGTTGATGAATAACCGTATAGAC
1 ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAACCGTACAG-C
* *
21009513 ACTATGTGTGCAAAACCAC-AGAATTCATAATGAGTTGATGAATAATCGTACATGC
1 ACTATGTGTGCAAAACCACGA-AATTCATCATGAGTTGATGAATAACCGTACA-GC
* * * * * *
21009568 ACTATATGTGCAAAACCATGGAATTCATTATGAGTTGATGAATAACTGTATATGC
1 ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAACCGTACA-GC
* * *
21009623 ACTATGTATGCAAAATCACGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
1 ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAACCGTACAG-C
21009678 ACTATGTGTGCAAAACCAC-AGAATTCATCATGAGTTGATGAATAACCGTACATGC
1 ACTATGTGTGCAAAACCACGA-AATTCATCATGAGTTGATGAATAACCGTACA-GC
* * * * *
21009733 ACTATGTGTGGAAAACCACGTAATTTATCATGGGTTGATGAATAATCGTACAAGC
1 ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAACCGTAC-AGC
* *
21009788 ACTATGTGTGC-AACCCACAAAATTCATCATGAGTTGATGAAT
1 ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAAT
21009830 TACCATATAG
Statistics
Matches: 278, Mismatches: 31, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
54 28 0.10
55 247 0.89
56 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (54 bp):
ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAACCGTACAGC
Found at i:21009730 original size:165 final size:165
Alignment explanation
Indices: 21009458--21009829 Score: 550
Period size: 165 Copynumber: 2.3 Consensus size: 165
21009448 TACTACACGT
* * *
21009458 ACTATGTGTGCAAAACCACGAAATTCATAACGAGTTGATGAATAACCGTATAGACACTATGTGTG
1 ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTG
* *
21009523 CAAAACCACAGAATTCATAATGAGTTGATGAATAATCGTACATGCACTATATGTGCAAAACCATG
66 CAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACATGCACTATATGTGCAAAACCACG
* * *
21009588 GAATTCATTATGAGTTGATGAATAA-CTGTATATGC
131 GAATTCATCATGAGTTGATGAATAATC-GTACAAGC
* * *
21009623 ACTATGTATGCAAAATCACGGAATTCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTG
1 ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTG
* * *
21009688 CAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGGAAAACCACG
66 CAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACATGCACTATATGTGCAAAACCACG
* * *
21009753 TAATTTATCATGGGTTGATGAATAATCGTACAAGC
131 GAATTCATCATGAGTTGATGAATAATCGTACAAGC
* *
21009788 ACTATGTGTGC-AACCCACAAAATTCATCATGAGTTGATGAAT
1 ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAAT
21009830 TACCATATAG
Statistics
Matches: 184, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
164 27 0.15
165 156 0.85
166 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (165 bp):
ACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTG
CAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACATGCACTATATGTGCAAAACCACG
GAATTCATCATGAGTTGATGAATAATCGTACAAGC
Found at i:21013697 original size:228 final size:229
Alignment explanation
Indices: 21013285--21013742 Score: 900
Period size: 228 Copynumber: 2.0 Consensus size: 229
21013275 TTATGATTTG
21013285 GTTATTGACTATCATCTAGGGAAAACTAATGTGGTAGCGGATACACTCAATCAAAAGACTTTTGC
1 GTTATTGACTATCATCTAGGGAAAACTAATGTGGTAGCGGATACACTCAATCAAAAGACTTTTGC
21013350 AGCTTTAAGGGCTTTAGATGCACGTATGTCTCTACAAGAAGATGGGGGCTTTGATTACTGAATTA
66 AGCTTTAAGGGCTTTAGATGCACGTA-GTCTCTACAAGAAGATGGGGGCTTTGATTACTGAATTA
21013415 AAGTTAAAGCCAATGTTTTTAGATTGGGTAAAAGTGCTACAAGGTCAAGATAAAAATGCTTGATG
130 AAGTTAAAGCCAATGTTTTTAGATTGGGTAAAAGTGCTACAAGGTCAAGATAAAAATGCTTGATG
21013480 AGAATGGTGCAAGTCGAAAAAGAAGAAGCCAAAGA
195 AGAATGGTGCAAGTCGAAAAAGAAGAAGCCAAAGA
21013515 GTTATTGACTATCATCTAGGGAAAACTAATGTGGTAGCGGATACACTCAATCAAAAGACTTTTGC
1 GTTATTGACTATCATCTAGGGAAAACTAATGTGGTAGCGGATACACTCAATCAAAAGACTTTTGC
21013580 AGCTTTAAGGGCTTTAGATGCACGTA-TCTCTACAAGAAGATGGGGGCTTTGATTACTGAATTAA
66 AGCTTTAAGGGCTTTAGATGCACGTAGTCTCTACAAGAAGATGGGGGCTTTGATTACTGAATTAA
21013644 AGTTAAAGCCAATGTTTTTAGATTGGGTAAAAGTGCTACAAGGTCAAGATAAAAATGCTTGATGA
131 AGTTAAAGCCAATGTTTTTAGATTGGGTAAAAGTGCTACAAGGTCAAGATAAAAATGCTTGATGA
21013709 GAATGGTGCAAGTCGAAAAAGAAGAAGCCAAAGA
196 GAATGGTGCAAGTCGAAAAAGAAGAAGCCAAAGA
21013743 TTTTGAAATA
Statistics
Matches: 228, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
228 137 0.60
230 91 0.40
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (229 bp):
GTTATTGACTATCATCTAGGGAAAACTAATGTGGTAGCGGATACACTCAATCAAAAGACTTTTGC
AGCTTTAAGGGCTTTAGATGCACGTAGTCTCTACAAGAAGATGGGGGCTTTGATTACTGAATTAA
AGTTAAAGCCAATGTTTTTAGATTGGGTAAAAGTGCTACAAGGTCAAGATAAAAATGCTTGATGA
GAATGGTGCAAGTCGAAAAAGAAGAAGCCAAAGA
Found at i:21015158 original size:41 final size:41
Alignment explanation
Indices: 21015110--21015204 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 41
21015100 TATTATTATT
* *
21015110 ACCTACCCTACCCACTATTCACCACTACCCACTATTATCCA
1 ACCTACCCTACCCACTATCCACCACTACCCACTATCATCCA
*
21015151 ACCTACCCTACCCATTATCCACCACTACCCACTATCATCCA
1 ACCTACCCTACCCACTATCCACCACTACCCACTATCATCCA
*
21015192 ACCTGCCACTACC
1 ACCTACC-CTACC
21015205 ATCACAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 44 0.90
42 5 0.10
ACGTcount: A:0.28, C:0.48, G:0.01, T:0.22
Consensus pattern (41 bp):
ACCTACCCTACCCACTATCCACCACTACCCACTATCATCCA
Found at i:21015161 original size:24 final size:24
Alignment explanation
Indices: 21015134--21015204 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 24
21015124 CTATTCACCA
21015134 CTACCCACTATTATCCAACCTACC
1 CTACCCACTATTATCCAACCTACC
21015158 CTA-CC-C-ATTATCC-ACC-A--
1 CTACCCACTATTATCCAACCTACC
* *
21015175 CTACCCACTATCATCCAACCTGCC
1 CTACCCACTATTATCCAACCTACC
21015199 ACTACC
1 -CTACC
21015205 ATCACAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
17 3 0.08
18 2 0.05
19 2 0.05
20 9 0.24
21 10 0.27
22 1 0.03
23 2 0.05
24 3 0.08
25 5 0.14
ACGTcount: A:0.28, C:0.48, G:0.01, T:0.23
Consensus pattern (24 bp):
CTACCCACTATTATCCAACCTACC
Found at i:21015180 original size:17 final size:17
Alignment explanation
Indices: 21015117--21015186 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 17
21015107 ATTACCTACC
*
21015117 CTACCCACTATTCACCA
1 CTACCCACTATCCACCA
21015134 CTACCCACTATTATCCAACCTA
1 CTACCCAC---TATCC-ACC-A
*
21015156 CCCTACCCATTATCCACCA
1 --CTACCCACTATCCACCA
21015175 CTACCCACTATC
1 CTACCCACTATC
21015187 ATCCAACCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
17 19 0.44
19 1 0.02
20 7 0.16
21 8 0.19
22 1 0.02
24 7 0.16
ACGTcount: A:0.29, C:0.47, G:0.00, T:0.24
Consensus pattern (17 bp):
CTACCCACTATCCACCA
Found at i:21019609 original size:14 final size:13
Alignment explanation
Indices: 21019573--21019643 Score: 58
Period size: 14 Copynumber: 5.4 Consensus size: 13
21019563 AGAAAAAAGT
*
21019573 AAAAAAACAA-AG
1 AAAAAAAAAAGAG
*
21019585 AAAAAACAAAGAG
1 AAAAAAAAAAGAG
21019598 AAAATAAAAAAGAG
1 AAAA-AAAAAAGAG
21019612 AAACAAAAATAA-AGG
1 AAA-AAAAA-AAGA-G
*
21019627 AAAAAATAAAGA-
1 AAAAAAAAAAGAG
21019639 AAAAA
1 AAAAA
21019644 GAATACAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
12 13 0.27
13 8 0.16
14 21 0.43
15 7 0.14
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:21019633 original size:31 final size:29
Alignment explanation
Indices: 21019557--21019641 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 29
21019547 AATCAATAAC
*
21019557 AAAAAGAGAAAAAAGTAAAAAAACAAAGAAA
1 AAAAAG-GAAAAAA-TAAAAAAACAAACAAA
* * *
21019588 AAACAAAGAGAAAATAAAAAAGAGAAACAAA
1 AAA-AAGGAAAAAATAAAAAA-ACAAACAAA
21019619 AATAAAGGAAAAAATAAAGAAAA
1 AA-AAAGGAAAAAATAAA-AAAA
21019642 AAGAATACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
30 7 0.16
31 31 0.70
32 6 0.14
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.05
Consensus pattern (29 bp):
AAAAAGGAAAAAATAAAAAAACAAACAAA
Found at i:21021257 original size:31 final size:31
Alignment explanation
Indices: 21021219--21021312 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 31
21021209 CCCGAAGGAC
* * *
21021219 CAGTCCATA-GATTCCAAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCAAAGAACATAGGTAAA
*
21021250 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCAAAGAACATAGGTAAA
*
21021281 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCAAAGAACATAGGTAAA
21021312 C
1 C
21021313 CCTCGACCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCAAAGAACATAGGTAAA
Found at i:21022004 original size:21 final size:21
Alignment explanation
Indices: 21021965--21022009 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21021955 TTTTGTTCGT
* *
21021965 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
* *
21021986 TTGAATGGGTACCGATTCCTC
1 TTGAAGGGGTACCGATTCCCC
21022007 TTG
1 TTG
21022010 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:21025033 original size:30 final size:30
Alignment explanation
Indices: 21024986--21025065 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
21024976 GTCCATAGAT
* *
21024986 TCCGAAGAACCTAGGTAATCAGTCCATATG
1 TCCGAAGAACATAGGTAAACAGTCCATATG
21025016 TCCCGAAG-ACATAGGTAAACAGTCCATATG
1 T-CCGAAGAACATAGGTAAACAGTCCATATG
21025046 TCCGAAGAACATAGGTAAAC
1 TCCGAAGAACATAGGTAAAC
21025066 CCTCGACCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 6 0.13
30 34 0.74
31 6 0.13
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (30 bp):
TCCGAAGAACATAGGTAAACAGTCCATATG
Found at i:21025754 original size:21 final size:21
Alignment explanation
Indices: 21025715--21025759 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21025705 TTTTGTTCGT
* *
21025715 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
* *
21025736 TTGAATGGGTACCGATTCCTC
1 TTGAAGGGGTACCGATTCCCC
21025757 TTG
1 TTG
21025760 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:21026672 original size:32 final size:32
Alignment explanation
Indices: 21026623--21026711 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 32
21026613 AGGAACAATG
*
21026623 GGGGCATCTTTGAAGATTCAACATCAAATATT
1 GGGGCATCTTTGGAGATTCAACATCAAATATT
** *
21026655 GGGGCAT-TTCTGGAGATTCATTATCGAATATT
1 GGGGCATCTT-TGGAGATTCAACATCAAATATT
*
21026687 GGGGCATCTTTGGGGATTCAACATC
1 GGGGCATCTTTGGAGATTCAACATC
21026712 CTGATGCGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 2 0.04
32 44 0.92
33 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (32 bp):
GGGGCATCTTTGGAGATTCAACATCAAATATT
Found at i:21027258 original size:86 final size:85
Alignment explanation
Indices: 21027113--21027344 Score: 304
Period size: 86 Copynumber: 2.8 Consensus size: 85
21027103 CAATGTTACT
* * *
21027113 TGAAGAACATCTCACATAACTTTCTCGTGAAGGGGAGTCATCCAAATATCATCTCACTTGGTTCA
1 TGAAGAACATCTCACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCA
21027178 GAACC-GCGAAGGGGAACCACC
66 G-ACCTGCGAAGGGGAACCA-C
*
21027199 TGAAGAACATCTCACATGACTTTCCCATGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCA
1 TGAAGAACATCTCACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCA
*
21027264 GACCTGTGAAGGGGAACCAC
66 GACCTGCGAAGGGGAACCAC
* *
21027284 -------C-TCTCACATGACTTTCCTGTGAAGGGGAGTCATCCAAAGATCGTCTCACTTGGCTT-
1 TGAAGAACATCTCACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACTTGG-TTC
21027340 AGACC
65 AGACC
21027345 CACTAAGGTG
Statistics
Matches: 136, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
77 54 0.40
78 3 0.02
85 4 0.03
86 75 0.55
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (85 bp):
TGAAGAACATCTCACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCA
GACCTGCGAAGGGGAACCAC
Found at i:21027277 original size:44 final size:43
Alignment explanation
Indices: 21027138--21027278 Score: 128
Period size: 44 Copynumber: 3.3 Consensus size: 43
21027128 ATAACTTTCT
*
21027138 CGTGAAGGGGAGTCATCCAAATATCATCTCACTTGGTTCAGAAC
1 CGTGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAG-AC
* ** * * * *
21027182 CGCGAAGGGGAACCA-CCTGAAGAACATCTCACATGACTTTC---C
1 CGTGAAGGGGAGTCATCC-AAAGATCATCTCACTTG--GTTCAGAC
*
21027224 CATGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGAC
1 CGTGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGAC
21027267 CTGTGAAGGGGA
1 C-GTGAAGGGGA
21027279 ACCACCTCTC
Statistics
Matches: 72, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
40 3 0.04
42 26 0.36
43 6 0.08
44 34 0.47
46 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (43 bp):
CGTGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGAC
Found at i:21028415 original size:60 final size:60
Alignment explanation
Indices: 21028344--21028632 Score: 346
Period size: 60 Copynumber: 4.7 Consensus size: 60
21028334 TTACTCAAGA
* *
21028344 TTGGATTTCAACTTCACAACGAATGATATCCAACTCAAAGCTAATTTGGTGAAGCAATAC
1 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCAATAC
* * * * *
21028404 TTGGATCTCAACTTCACAATGAATGATATCCAACTCAAAGCCGATTTGGTGAAACAATAC
1 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCAATAC
* * ** * *
21028464 TTGAATTTCAACTTCACAACGAAGGATATCTAACTCAAAGCTGATTTGATGAAGCACA-AGA
1 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCA-ATA-C
21028525 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGTAATACAACTC
1 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAG-----CAA---
*
21028590 TAGA
58 TA-C
21028594 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAA
1 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAA
21028633 TCTCAACTTC
Statistics
Matches: 199, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
60 104 0.52
61 50 0.25
65 1 0.01
66 2 0.01
69 42 0.21
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (60 bp):
TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCAATAC
Found at i:21028584 original size:121 final size:124
Alignment explanation
Indices: 21028347--21028632 Score: 375
Period size: 121 Copynumber: 2.3 Consensus size: 124
21028337 CTCAAGATTG
* * *
21028347 GATTTCAACTTCACAACGAATGATATCCAACTCAAAGCTAATTTGGTGAAGCAATACTTGGATCT
1 GATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAATTTGATGAAGCAATAATTGGATCT
* * *
21028412 CAACTTCACAATGAATGATATCCAACTCAAAGCCGATTTGGTGAAACAAT-ACT-T-GA
66 CAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAATAACTCTAGA
* *
21028468 -ATTTCAACTTCACAACGAAGGATATCTAACTCAAAGCTGATTTGATGAAGCACA-AGATTGGAT
1 GATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAATTTGATGAAGCA-ATA-ATTGGAT
* **
21028531 TTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGTAATACAACTCTAGA
64 CTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAAT--AACTCTAGA
21028594 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAA
1 ---GATTTCAACTTCACAACGAAGGATATCCAACTCAAA
21028633 TCTCAACTTC
Statistics
Matches: 142, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
120 49 0.35
121 53 0.37
124 3 0.02
125 1 0.01
126 2 0.01
130 34 0.24
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (124 bp):
GATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAATTTGATGAAGCAATAATTGGATCT
CAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAATAACTCTAGA
Found at i:21029149 original size:3 final size:3
Alignment explanation
Indices: 21029138--21029185 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
21029128 TTTAAAAAAA
21029138 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21029184 TA
1 TA
21029186 CCTACCCTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:21029245 original size:41 final size:41
Alignment explanation
Indices: 21029185--21029282 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
21029175 TATTATTATT
*
21029185 ACCTACCCTACCCACTATCCACCACTACCCACTATCATCCA
1 ACCTACCCTACCCATTATCCACCACTACCCACTATCATCCA
* *
21029226 ACCTACCCTACCCATTATCCACCATTATCCACTATCATCCA
1 ACCTACCCTACCCATTATCCACCACTACCCACTATCATCCA
*
21029267 ACCTTCCACTACCCAT
1 ACCTACC-CTACCCAT
21029283 CACAAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 44 0.85
42 8 0.15
ACGTcount: A:0.29, C:0.48, G:0.00, T:0.23
Consensus pattern (41 bp):
ACCTACCCTACCCATTATCCACCACTACCCACTATCATCCA
Found at i:21032420 original size:55 final size:55
Alignment explanation
Indices: 21032349--21032778 Score: 472
Period size: 55 Copynumber: 8.0 Consensus size: 55
21032339 CTAAGTGTAC
* * *
21032349 TACATGCACTATGTGTGCAAAACTACAAAATTCGTCATGAGTTGATGAATAACCG
1 TACAAGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCG
*
21032404 TACAAGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGCTGAATAACCG
1 TACAAGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCG
* * *
21032459 TACATGAACTATGTGTGCAAAACCACATAATTCATCATGAGTTGATGAATAACCG
1 TACAAGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCG
* * * * *
21032514 TACAGGCATTATGTGTGCAAAACCACAGAATTCATCATGAGTTAATGAATAACTG
1 TACAAGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCG
* * * * *
21032569 TAC-AGACACTGTGTGTGTAAAACAACGAAATTCATC---A--CGA-G--T--CCG
1 TACAAG-CACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCG
* ** * *
21032614 TACAGGCACTATGTGTGCAAAACCACGGAATTCATAATGGGTTGATGAATAACCG
1 TACAAGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCG
* *** *
21032669 TAC-AGACACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAATCG
1 TACAAG-CACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCG
* * * *
21032724 TACATGCACTATGTGTGC-AACCCACATAATTCATCATGAGTTGATGAATTACCG
1 TACAAGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCG
21032778 T
1 T
21032779 CTAGGCACTA
Statistics
Matches: 316, Mismatches: 45, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
45 30 0.09
46 1 0.00
47 1 0.00
49 1 0.00
50 3 0.01
51 1 0.00
52 1 0.00
53 1 0.00
54 33 0.10
55 243 0.77
56 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (55 bp):
TACAAGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCG
Found at i:21032739 original size:155 final size:155
Alignment explanation
Indices: 21032456--21032740 Score: 421
Period size: 155 Copynumber: 1.8 Consensus size: 155
21032446 TGCTGAATAA
* * * *
21032456 CCGTACATGAACTATGTGTGCAAAACCACATAATTCATCATGAGTTGATGAATAACCGTACAGGC
1 CCGTACAGGAACTATGTGTGCAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACAGAC
* *
21032521 ATTATGTGTGCAAAACCACAGAATTCATCATGAGTTAATGAATAACTGTACAGACACTGTGTGTG
66 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTAATGAATAACTGTACAGACACTATGTGTG
21032586 TAAAACAACGAAATTCATCACGAGT
131 TAAAACAACGAAATTCATCACGAGT
* * *
21032611 CCGTACAGGCACTATGTGTGCAAAACCACGGAATTCATAATGGGTTGATGAATAACCGTACAGAC
1 CCGTACAGGAACTATGTGTGCAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACAGAC
* ** *
21032676 ACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAA-TCGTACATG-CACTATGTG
66 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTAATGAATAACT-GTACA-GACACTATGTG
21032739 TG
129 TG
21032741 CAACCCACAT
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
154 1 0.01
155 113 0.98
156 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (155 bp):
CCGTACAGGAACTATGTGTGCAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACAGAC
ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTAATGAATAACTGTACAGACACTATGTGTG
TAAAACAACGAAATTCATCACGAGT
Found at i:21034248 original size:15 final size:17
Alignment explanation
Indices: 21034221--21034265 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
21034211 GTTGAACACA
* *
21034221 TTGAACTCAACTC-AAG
1 TTGAACTCGACTCAAAC
21034237 TTG-ACTCGACTCAAAC
1 TTGAACTCGACTCAAAC
21034253 TTGAACTCGACTC
1 TTGAACTCGACTC
21034266 GAGACCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (17 bp):
TTGAACTCGACTCAAAC
Found at i:21034389 original size:15 final size:16
Alignment explanation
Indices: 21034359--21034391 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21034349 AGTAGTTATC
*
21034359 TTAAAAAATTATTTTA
1 TTAAAAAATTAGTTTA
21034375 TTAAAAAA-TAGTTTA
1 TTAAAAAATTAGTTTA
21034390 TT
1 TT
21034392 TCTGAGGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTAAAAAATTAGTTTA
Found at i:21038824 original size:32 final size:31
Alignment explanation
Indices: 21038763--21038824 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
21038753 ACACGCGCGC
*
21038763 ACACACACACATCTATATATATTTTTGATTAA
1 ACACACACACA-CTATATATATTTCTGATTAA
21038795 ACACACACACA-TATATATAGTTCTCTGATT
1 ACACACACACACTATATATA-TT-TCTGATT
21038825 TGAGTACATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 8 0.30
31 2 0.07
32 17 0.63
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (31 bp):
ACACACACACACTATATATATTTCTGATTAA
Found at i:21043292 original size:24 final size:24
Alignment explanation
Indices: 21043265--21043310 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
21043255 CCATTAGGAT
21043265 CGTGTCACAAGAGCAGAGAAAATA
1 CGTGTCACAAGAGCAGAGAAAATA
*
21043289 CGTGTCACAAGAGTAGAGAAAA
1 CGTGTCACAAGAGCAGAGAAAA
21043311 ACATGTCGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.26, T:0.13
Consensus pattern (24 bp):
CGTGTCACAAGAGCAGAGAAAATA
Found at i:21043696 original size:11 final size:11
Alignment explanation
Indices: 21043680--21043721 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
21043670 GCGCGCGCAC
21043680 GCGCACACACG
1 GCGCACACACG
21043691 GCGCACACACG
1 GCGCACACACG
21043702 GCGCACACAC-
1 GCGCACACACG
*
21043712 ACGCACACAC
1 GCGCACACAC
21043722 ACACAGACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.31, C:0.48, G:0.21, T:0.00
Consensus pattern (11 bp):
GCGCACACACG
Found at i:21043710 original size:2 final size:2
Alignment explanation
Indices: 21043705--21043739 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
21043695 ACACACGGCG
* *
21043705 CA CA CA CA CG CA CA CA CA CA CA GA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
21043740 GCGCACGCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.49, G:0.06, T:0.00
Consensus pattern (2 bp):
CA
Found at i:21043720 original size:8 final size:8
Alignment explanation
Indices: 21043707--21045018 Score: 904
Period size: 8 Copynumber: 162.9 Consensus size: 8
21043697 ACACGGCGCA
21043707 CACACACG
1 CACACACG
*
21043715 CACACACA
1 CACACACG
* *
21043723 CACAGACA
1 CACACACG
*
21043731 CACACACA
1 CACACACG
* *
21043739 CGCGCACG
1 CACACACG
* *
21043747 CGCACGCG
1 CACACACG
*
21043755 CAGCGCACG
1 CA-CACACG
*
21043764 --CGCACG
1 CACACACG
* *
21043770 CGCACGCG
1 CACACACG
*
21043778 CAC-CGCG
1 CACACACG
* *
21043785 CGCACGCG
1 CACACACG
21043793 CACACACG
1 CACACACG
*
21043801 --CGCAC-
1 CACACACG
*
21043806 CACATACG
1 CACACACG
*
21043814 CAAACACAG
1 CACACAC-G
21043823 CACACACG
1 CACACACG
21043831 CACACACAGGCG
1 --CACACA--CG
21043843 CACACACG
1 CACACACG
*
21043851 CGCACACG
1 CACACACG
21043859 CACACACGCG
1 CACACA--CG
*
21043869 CACACTCG
1 CACACACG
21043877 CACACACG
1 CACACACG
21043885 --CACACG
1 CACACACG
21043891 --CACACG
1 CACACACG
*
21043897 CACACGCG
1 CACACACG
*
21043905 CACGCACG
1 CACACACG
* *
21043913 CGCACGCG
1 CACACACG
*
21043921 CACGCACG
1 CACACACG
* *
21043929 CGCACGCG
1 CACACACG
* *
21043937 CACACGCA
1 CACACACG
* *
21043945 CACGCACA
1 CACACACG
*
21043953 CGCACACG
1 CACACACG
* *
21043961 CACACGCA
1 CACACACG
*
21043969 CGCACACG
1 CACACACG
* *
21043977 CACGCACA
1 CACACACG
* *
21043985 CACACGCA
1 CACACACG
21043993 CACACACG
1 CACACACG
21044001 CACACTCAC-
1 CACA--CACG
21044010 CACACACG
1 CACACACG
*
21044018 CACACATG
1 CACACACG
* *
21044026 CACGCACA
1 CACACACG
**
21044034 CATGCACG
1 CACACACG
*
21044042 CACACATG
1 CACACACG
*
21044050 CACACACA
1 CACACACG
*
21044058 CATACA-G
1 CACACACG
*
21044065 -ACATACG
1 CACACACG
21044072 CACACGCACG
1 CACA--CACG
21044082 CACGCACACG
1 CA--CACACG
*
21044092 CACATACAG
1 CACACAC-G
* *
21044101 -ACATACC
1 CACACACG
* *
21044108 CACGCACA
1 CACACACG
* *
21044116 CACACGCA
1 CACACACG
21044124 CACACACG
1 CACACACG
21044132 CACACACACG
1 --CACACACG
21044142 CACACTCACG
1 CACA--CACG
*
21044152 CACACATG
1 CACACACG
* *
21044160 CACGCACA
1 CACACACG
*
21044168 CACGCACG
1 CACACACG
*
21044176 CACGCACG
1 CACACACG
21044184 CACACGCACG
1 CACA--CACG
*
21044194 CACGCACG
1 CACACACG
*
21044202 CACGCACG
1 CACACACG
*
21044210 CACGCACG
1 CACACACG
*
21044218 CACGCACG
1 CACACACG
*
21044226 CACGCACG
1 CACACACG
*
21044234 CAC-GACG
1 CACACACG
*
21044241 CACGCACG
1 CACACACG
*
21044249 CACGCACG
1 CACACACG
21044257 CACACACG
1 CACACACG
*
21044265 CACGCACG
1 CACACACG
*
21044273 CACGCACG
1 CACACACG
*
21044281 CACGCACG
1 CACACACG
*
21044289 CACGCACG
1 CACACACG
*
21044297 CACGCACG
1 CACACACG
*
21044305 CACGCACG
1 CACACACG
*
21044313 CACGCACG
1 CACACACG
*
21044321 CACGCACG
1 CACACACG
*
21044329 CACGCACG
1 CACACACG
21044337 --CACACG
1 CACACACG
21044343 CACACACG
1 CACACACG
21044351 CACACACG
1 CACACACG
21044359 CACACACG
1 CACACACG
21044367 CACACACG
1 CACACACG
21044375 CACACACG
1 CACACACG
21044383 CACACACG
1 CACACACG
21044391 CACACACG
1 CACACACG
21044399 CACACACG
1 CACACACG
*
21044407 CACACACA
1 CACACACG
*
21044415 CACACACA
1 CACACACG
*
21044423 CACACACA
1 CACACACG
*
21044431 CACACACA
1 CACACACG
*
21044439 CACACACA
1 CACACACG
*
21044447 CACAGACACA
1 CAC--ACACG
*
21044457 CACACACA
1 CACACACG
*
21044465 CACACACA
1 CACACACG
*
21044473 CACTCACG
1 CACACACG
*
21044481 CACGCACG
1 CACACACG
*
21044489 CACTCACG
1 CACACACG
*
21044497 CACTCACG
1 CACACACG
21044505 CACACTCACG
1 CACA--CACG
*
21044515 CACGCACG
1 CACACACG
*
21044523 CACGCACG
1 CACACACG
*
21044531 CACGCACG
1 CACACACG
*
21044539 CACGCACG
1 CACACACG
*
21044547 CACGCACG
1 CACACACG
*
21044555 CACGCACG
1 CACACACG
*
21044563 CACGCACG
1 CACACACG
21044571 CACGCACACG
1 CA--CACACG
*
21044581 CACGCACG
1 CACACACG
*
21044589 CACGCACACA
1 CA--CACACG
21044599 CACACACG
1 CACACACG
21044607 CACACACG
1 CACACACG
* *
21044615 CACGCTCG
1 CACACACG
* *
21044623 CACGCTCG
1 CACACACG
21044631 --CACACG
1 CACACACG
21044637 CACACACG
1 CACACACG
*
21044645 CACACACA
1 CACACACG
*
21044653 CGCACACG
1 CACACACG
*
21044661 CACACACA
1 CACACACG
* *
21044669 CGCACACA
1 CACACACG
*
21044677 CACACACA
1 CACACACG
*
21044685 CACACACA
1 CACACACG
*
21044693 CACACACA
1 CACACACG
*
21044701 CACACACA
1 CACACACG
*
21044709 CACACACA
1 CACACACG
*
21044717 CACACACA
1 CACACACG
21044725 CACACACG
1 CACACACG
*
21044733 CACTCACG
1 CACACACG
21044741 --CACACG
1 CACACACG
*
21044747 CACGCACG
1 CACACACG
*
21044755 CACGCACG
1 CACACACG
*
21044763 CACGCACG
1 CACACACG
*
21044771 CACGCACG
1 CACACACG
*
21044779 CACGCACG
1 CACACACG
*
21044787 CACGCACG
1 CACACACG
*
21044795 CACGCACG
1 CACACACG
21044803 CACACACG
1 CACACACG
*
21044811 CACGCACG
1 CACACACG
* *
21044819 CACGCACA
1 CACACACG
21044827 CACACA-G
1 CACACACG
21044834 CACACACG
1 CACACACG
* *
21044842 CACGCTCG
1 CACACACG
*
21044850 CACACACA
1 CACACACG
* *
21044858 CACACGCA
1 CACACACG
21044866 CACACACG
1 CACACACG
21044874 CACACACG
1 CACACACG
21044882 CACACACACG
1 --CACACACG
21044892 CACACACG
1 CACACACG
*
21044900 CACACACA
1 CACACACG
*
21044908 CACACACA
1 CACACACG
*
21044916 CACACACA
1 CACACACG
*
21044924 CACACACA
1 CACACACG
*
21044932 CACACACA
1 CACACACG
*
21044940 CACACACA
1 CACACACG
*
21044948 CACACACA
1 CACACACG
*
21044956 CACACACA
1 CACACACG
*
21044964 CACACACA
1 CACACACG
*
21044972 CACACACA
1 CACACACG
*
21044980 CACACACA
1 CACACACG
*
21044988 CACACACA
1 CACACACG
*
21044996 CACACACA
1 CACACACG
*
21045004 CACACACA
1 CACACACG
21045012 CACACAC
1 CACACAC
21045019 ATGCATGCAT
Statistics
Matches: 1116, Mismatches: 137, Indels: 102
0.82 0.10 0.08
Matches are distributed among these distances:
6 39 0.03
7 25 0.02
8 940 0.84
9 16 0.01
10 92 0.08
12 4 0.00
ACGTcount: A:0.35, C:0.49, G:0.15, T:0.02
Consensus pattern (8 bp):
CACACACG
Found at i:21043722 original size:12 final size:12
Alignment explanation
Indices: 21043694--21045019 Score: 763
Period size: 12 Copynumber: 109.3 Consensus size: 12
21043684 ACACACGGCG
*
21043694 CACACACGGCGCA
1 CACACAC-GCACA
21043707 CACACACGCACA
1 CACACACGCACA
21043719 CACACACAGACACA
1 CACACAC-G-CACA
*
21043733 CACACACGCGCA
1 CACACACGCACA
* * *
21043745 CGCGCACGCGCA
1 CACACACGCACA
* * *
21043757 GCGCACGCGCACG
1 -CACACACGCACA
* * *
21043770 CGCACGCGCACCG
1 CACACACGCA-CA
* * *
21043783 CGCGCACGCGCA
1 CACACACGCACA
*
21043795 CACACGCGCAC-
1 CACACACGCACA
*
21043806 CACATACGCAAACA
1 CACACACGC--ACA
* *
21043820 CAGCACACACGCA
1 CA-CACACGCACA
* *
21043833 CACACAGGCGCA
1 CACACACGCACA
*
21043845 CACACGCGCACA
1 CACACACGCACA
*
21043857 CGCACACACGCGCA
1 --CACACACGCACA
* * *
21043871 CACTCGCACACA
1 CACACACGCACA
*
21043883 CGCACACGCACA
1 CACACACGCACA
*
21043895 CGCACACGCGCACGCA
1 --CACACACGCA--CA
* * *
21043911 CGCGCACGCGCA
1 CACACACGCACA
* * *
21043923 CGCACGCGCACG
1 CACACACGCACA
*
21043935 CGCACACGCACA
1 CACACACGCACA
*
21043947 CGCACACGCACA
1 CACACACGCACA
*
21043959 CGCACACG--CA
1 CACACACGCACA
* *
21043969 CGCACACGCACG
1 CACACACGCACA
* *
21043981 CACACACACGCA
1 CACACACGCACA
21043993 CACACACGCACA
1 CACACACGCACA
* * *
21044005 CTCACCACACACG
1 CACA-CACGCACA
* *
21044018 CACACATGCACG
1 CACACACGCACA
* *
21044030 CACACATGCACG
1 CACACACGCACA
*
21044042 CACACATGCACA
1 CACACACGCACA
*
21044054 CACACA--TACA
1 CACACACGCACA
* *
21044064 GACATACGCACA
1 CACACACGCACA
*
21044076 CGCACGCACGCACA
1 --CACACACGCACA
*
21044090 CGCACATACAG-ACA
1 --CACACAC-GCACA
* *
21044104 TACCCACGCACA
1 CACACACGCACA
* *
21044116 CACACGCACACA
1 CACACACGCACA
* *
21044128 CACGCACACACA
1 CACACACGCACA
* * *
21044140 CGCACACTCACG
1 CACACACGCACA
* *
21044152 CACACATGCACG
1 CACACACGCACA
*
21044164 CACACACGCACG
1 CACACACGCACA
*
21044176 CACGCACG--CA
1 CACACACGCACA
* *
21044186 CACGCACGCACG
1 CACACACGCACA
* *
21044198 CACGCACGCACG
1 CACACACGCACA
* *
21044210 CACGCACGCACG
1 CACACACGCACA
* *
21044222 CACGCACGCACG
1 CACACACGCACA
* *
21044234 CAC-GACGCACG
1 CACACACGCACA
* *
21044245 CACGCACGCACG
1 CACACACGCACA
*
21044257 CACACACGCACG
1 CACACACGCACA
* *
21044269 CACGCACGCACG
1 CACACACGCACA
* *
21044281 CACGCACGCACG
1 CACACACGCACA
* *
21044293 CACGCACGCACG
1 CACACACGCACA
* *
21044305 CACGCACGCACG
1 CACACACGCACA
* *
21044317 CACGCACGCACG
1 CACACACGCACA
*
21044329 CACGCACGCACA
1 CACACACGCACA
21044341 CGCACACACGCACA
1 --CACACACGCACA
* * *
21044355 CACGCACACACG
1 CACACACGCACA
21044367 CACACACGCACA
1 CACACACGCACA
* * *
21044379 CACGCACACACG
1 CACACACGCACA
21044391 CACACACGCACA
1 CACACACGCACA
*
21044403 CACGCA--CACA
1 CACACACGCACA
*
21044413 CACACACACACA
1 CACACACGCACA
*
21044425 CACACACACACA
1 CACACACGCACA
*
21044437 CACACACACACA
1 CACACACGCACA
* *
21044449 CAGACACACACA
1 CACACACGCACA
*
21044461 CACACACACACA
1 CACACACGCACA
* *
21044473 CACTCACGCACG
1 CACACACGCACA
* * *
21044485 CACGCACTCACG
1 CACACACGCACA
*
21044497 CACTCACGCACA
1 CACACACGCACA
* *
21044509 CTCACGCACGCACG
1 --CACACACGCACA
* *
21044523 CACGCACGCACG
1 CACACACGCACA
* *
21044535 CACGCACGCACG
1 CACACACGCACA
* *
21044547 CACGCACGCACG
1 CACACACGCACA
*
21044559 CACGCACGCACGCA
1 CACACACGCA--CA
* *
21044573 CGCACACGCACG
1 CACACACGCACA
*
21044585 CACGCACGCACACA
1 CACACACG--CACA
21044599 CACACACGCACA
1 CACACACGCACA
* * *
21044611 CACGCACGCTCG
1 CACACACGCACA
* *
21044623 CACGCTCGCACA
1 CACACACGCACA
* * *
21044635 CGCACACACGCA
1 CACACACGCACA
21044647 CACACACGCACA
1 CACACACGCACA
* * *
21044659 CGCACACACACG
1 CACACACGCACA
*
21044671 CACACACACACA
1 CACACACGCACA
*
21044683 CACACACACACA
1 CACACACGCACA
*
21044695 CACACACACACA
1 CACACACGCACA
*
21044707 CACACACACACA
1 CACACACGCACA
*
21044719 CACACACACACA
1 CACACACGCACA
* * * *
21044731 CGCACTCACGCA
1 CACACACGCACA
* *
21044743 CACGCACGCACG
1 CACACACGCACA
* *
21044755 CACGCACGCACG
1 CACACACGCACA
* *
21044767 CACGCACGCACG
1 CACACACGCACA
* *
21044779 CACGCACGCACG
1 CACACACGCACA
* *
21044791 CACGCACGCACG
1 CACACACGCACA
*
21044803 CACACACGCACG
1 CACACACGCACA
*
21044815 CACGCACGCACA
1 CACACACGCACA
21044827 CACACA-GCACA
1 CACACACGCACA
* * *
21044838 CACGCACGCTCG
1 CACACACGCACA
*
21044850 CACACACACACA
1 CACACACGCACA
* * *
21044862 CGCACACACACG
1 CACACACGCACA
21044874 CACACACG--CA
1 CACACACGCACA
21044884 CACACACGCACA
1 CACACACGCACA
* *
21044896 CACGCACACACA
1 CACACACGCACA
*
21044908 CACACACACACA
1 CACACACGCACA
*
21044920 CACACACACACA
1 CACACACGCACA
*
21044932 CACACACACACA
1 CACACACGCACA
*
21044944 CACACACACACA
1 CACACACGCACA
*
21044956 CACACACACACA
1 CACACACGCACA
*
21044968 CACACACACACA
1 CACACACGCACA
*
21044980 CACACACACACA
1 CACACACGCACA
*
21044992 CACACACACACA
1 CACACACGCACA
*
21045004 CACACACACACA
1 CACACACGCACA
21045016 CACA
1 CACA
21045020 TGCATGCATG
Statistics
Matches: 1096, Mismatches: 178, Indels: 79
0.81 0.13 0.06
Matches are distributed among these distances:
10 44 0.04
11 28 0.03
12 879 0.80
13 41 0.04
14 96 0.09
15 6 0.01
16 2 0.00
ACGTcount: A:0.35, C:0.49, G:0.15, T:0.02
Consensus pattern (12 bp):
CACACACGCACA
Done.