Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007983.1 Hibiscus syriacus cultivar Beakdansim tig00110428_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: 198508
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:6875 original size:87 final size:87
Alignment explanation
Indices: 6728--6934 Score: 308
Period size: 87 Copynumber: 2.4 Consensus size: 87
6718 TTGCCCTAAA
* * * *
6728 ATCTAAAATGAAACGTTGGGGACCAAAATGCTCCAAAAAAGAATAAGGGTTAAAGTGACTATTTA
1 ATCTAAAATGAGACGTTGGGG-CCAAAATGCTCAAAAAAAGAATAAAGGTTAAAGCGACTATTTA
*
6793 GTCAAACTTTA-GGACCTTTTTG
65 ATCAAACTTTAGGGACCTTTTTG
* * *
6815 ATCTAAAATTAGACGTTGGGGTCAAAGTGCTCAAAAAAAAGAATAAAGGTTAAAGCGACTATTTA
1 ATCTAAAATGAGACGTTGGGGCCAAAATGCTC-AAAAAAAGAATAAAGGTTAAAGCGACTATTTA
6880 ATCAAACTTTAGGGACCTTTTTG
65 ATCAAACTTTAGGGACCTTTTTG
*
6903 ACCTAAAATGAGACGTTGGGGCCAAAATGCTC
1 ATCTAAAATGAGACGTTGGGGCCAAAATGCTC
6935 CGAAAGTGAT
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
86 9 0.08
87 58 0.55
88 39 0.37
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (87 bp):
ATCTAAAATGAGACGTTGGGGCCAAAATGCTCAAAAAAAGAATAAAGGTTAAAGCGACTATTTAA
TCAAACTTTAGGGACCTTTTTG
Found at i:9634 original size:18 final size:16
Alignment explanation
Indices: 9604--9647 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
9594 AAAAAAAATT
9604 TTTAAAAAAATAAAAA
1 TTTAAAAAAATAAAAA
*
9620 TTTAAAAATACATAAAAC
1 TTTAAAAA-A-ATAAAAA
9638 TTCTAAAAAA
1 TT-TAAAAAA
9648 TTTAAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
17 1 0.04
18 9 0.38
19 6 0.25
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
TTTAAAAAAATAAAAA
Found at i:10679 original size:31 final size:30
Alignment explanation
Indices: 10634--10704 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 30
10624 GTGGTATTTT
*
10634 TAAAAAAGAAAGATA-ATGA-ATATATTATATG
1 TAAAAAA-AAAGATAGAT-ATATATA-TACATG
10665 TAAAAAAAACAGATAGATATATATATACATG
1 TAAAAAAAA-AGATAGATATATATATACATG
*
10696 TAAATAAAA
1 TAAAAAAAA
10705 TTTAAGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 2 0.06
31 26 0.74
32 7 0.20
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.27
Consensus pattern (30 bp):
TAAAAAAAAAGATAGATATATATATACATG
Found at i:10888 original size:10 final size:10
Alignment explanation
Indices: 10820--10894 Score: 57
Period size: 10 Copynumber: 7.2 Consensus size: 10
10810 GTTAATAGTA
10820 AAATAATAAT
1 AAATAATAAT
10830 -AATAAT-AT
1 AAATAATAAT
*
10838 GAAAAAATATAT
1 -AAATAATA-AT
*
10850 ATAATAACTTAT
1 A-AATAA-TAAT
10862 AAATAAGGTAA-
1 AAATAA--TAAT
10873 AAATAATAAT
1 AAATAATAAT
10883 AAATAATAAT
1 AAATAATAAT
10893 AA
1 AA
10895 CAAGACAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 2 0.04
9 9 0.17
10 17 0.33
11 12 0.23
12 11 0.21
13 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (10 bp):
AAATAATAAT
Found at i:12585 original size:66 final size:65
Alignment explanation
Indices: 12435--12737 Score: 238
Period size: 65 Copynumber: 4.6 Consensus size: 65
12425 TCAATAGAGA
* * * *
12435 ATTTT-TTTCAAGAGAAACTATCTCGAGAGAGACAAAATTTGTTTAAAGGAAAACAGATTAAAAG
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATCTGTTTAAAGGAAAACAGATTAAAAG
* * * * *
12499 ATTTTGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAATCTGTTTCAAGGGAAATAGATTTAAAG
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATCTGTTTAAAGGAAAACAGATTAAAAG
* *** *
12564 ATTTTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAA-AAATTT-AAGAGAAAA-TG-TCTCA
1 A-TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATCTGTTTAAAG-GAAAACAGAT-T-A
12625 AGAGAG
62 A-A-AG
* * *** * ** * * * *
12631 ACAAAATTTGTTTTAAAAAAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAGAAAAACAGATTC
1 ----ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATCTGTTTAAAGGAAAACAGATTA
12696 AAAG
62 AAAG
*
12700 ATATTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
12738 AAATTTTAAG
Statistics
Matches: 185, Mismatches: 39, Indels: 29
0.73 0.15 0.11
Matches are distributed among these distances:
63 1 0.01
64 10 0.05
65 88 0.48
66 36 0.19
67 2 0.01
69 2 0.01
70 31 0.17
71 9 0.05
72 5 0.03
73 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (65 bp):
ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATCTGTTTAAAGGAAAACAGATTAAAAG
Found at i:12615 original size:165 final size:168
Alignment explanation
Indices: 12272--12643 Score: 398
Period size: 165 Copynumber: 2.2 Consensus size: 168
12262 CAGATGATGC
** * * * * *
12272 TTTAAGAGAAGTTATCTCAAAAGAGACAGAATTTGTTTCAAGGGAAACGATCTCAAAGATATTTG
1 TTTAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACGATCTCAAAGAGATTTG
* * * * *
12337 TTGTTTCATGAGAAACCGTCTCAAGATAAACAAAATTTTGTTTTAAGGGAAATAAATTCAAAGAT
66 TTGTTTCAAGAGAAACCGTCTCAAAAGAAACAAAATTCTGTTTCAAGGGAAATAAATTCAAAGAT
* ****
12402 TTTGTGTTTCAAAAGAAACCGTCTCAATAGAGAATTTT
131 TTTGTGTTTCAAAAGAAACCGTCTCAAGAGAGAAAAAA
* *
12440 TTTCAAGAGAAACTATCTCGAGAGAGACAAAATTTGTTTAAAGGAAAACAGAT-T-AAA-AGA-T
1 TTT-AAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTAAAGGAAAAC-GATCTCAAAGAGATT
* * * * *
12501 T-TTGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAA-TCTGTTTCAAGGGAAATAGATTTAAAG
64 TGTTGTTTCAAGAGAAACCGTCTCAAAAGAAACAAAATTCTGTTTCAAGGGAAATAAATTCAAAG
** *
12564 ATTTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAAAAA
129 ATTTTGTGTTTCAAAAGAAACCGTCTCAAGAGAG---AAAAAA
*
12606 TTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTT
1 TTTAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTT
12644 TAAAAAAAAC
Statistics
Matches: 170, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
163 24 0.14
164 28 0.16
165 61 0.36
166 7 0.04
167 2 0.01
168 6 0.04
169 39 0.23
170 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.30
Consensus pattern (168 bp):
TTTAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACGATCTCAAAGAGATTTG
TTGTTTCAAGAGAAACCGTCTCAAAAGAAACAAAATTCTGTTTCAAGGGAAATAAATTCAAAGAT
TTTGTGTTTCAAAAGAAACCGTCTCAAGAGAGAAAAAA
Found at i:12646 original size:36 final size:36
Alignment explanation
Indices: 12567--12816 Score: 184
Period size: 36 Copynumber: 7.2 Consensus size: 36
12557 TTTAAAGATT
* * * *
12567 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
***
12603 --AAATTTAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
* * **
12637 TTTGTTTTAA-AAAAAACTGTCTCAAGGGAGATGAAA
1 TTTGTTTTAAGAGAAAA-TGTCTCAAGAGAGACAAAA
* **
12673 TTTGTTTCAAGA-AAAA-----C---AGATTCAAAGA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAA-A
* * *
12701 TATTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 T-TTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
*** *
12738 -AAATTTTAAGAGAAAATGTCTCAAGAGAAACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
*
12773 TTTGTTTTAATAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
12809 TTTGTTTT
1 TTTGTTTT
12817 GAGATAAACC
Statistics
Matches: 162, Mismatches: 36, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
27 4 0.02
28 2 0.01
29 10 0.06
30 4 0.02
34 27 0.17
35 34 0.21
36 72 0.44
37 2 0.01
38 7 0.04
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.28
Consensus pattern (36 bp):
TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
Found at i:12679 original size:136 final size:137
Alignment explanation
Indices: 12514--12815 Score: 457
Period size: 136 Copynumber: 2.2 Consensus size: 137
12504 GTTTCAAGGG
* * ** * * *
12514 AAACTGTCTCAAAAGAGACAAAATCTGTTTCAAGGGAAATAGATTTAAAGATTTTTGTTTCAAGG
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAAAAACAGATTCAAAGA-TATTGTTTCAAGG
* *
12579 GAAACTGTCTCAAGAGAGATAAAAAAA-TTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTT
65 GAAACTGTCTCAAGAGAGACAAAAAAATTTTAAGAGAAAATGTCTCAAGAGAAACAAAATTTGTT
12643 TTAA-AAA
130 TTAATAAA
* **
12650 AAACTGTCTCAAGGGAGATGAAATTTGTTTCAAGAAAAACAGATTCAAAGATATTGTTTCAAGGG
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAAAAACAGATTCAAAGATATTGTTTCAAGGG
12715 AAACTGTCTCAAGAGAGACAAAAAAATTTTAAGAGAAAATGTCTCAAGAGAAACAAAATTTGTTT
66 AAACTGTCTCAAGAGAGACAAAAAAATTTTAAGAGAAAATGTCTCAAGAGAAACAAAATTTGTTT
*
12780 TAATAGA
131 TAATAAA
12787 AAA-TGTCTCAAGAGAGACAAAATTTGTTT
1 AAACTGTCTCAAGAGAGACAAAATTTGTTT
12816 TGAGATAAAC
Statistics
Matches: 148, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
135 38 0.26
136 105 0.71
137 5 0.03
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (137 bp):
AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAAAAACAGATTCAAAGATATTGTTTCAAGGG
AAACTGTCTCAAGAGAGACAAAAAAATTTTAAGAGAAAATGTCTCAAGAGAAACAAAATTTGTTT
TAATAAA
Found at i:12832 original size:36 final size:36
Alignment explanation
Indices: 12741--12833 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 36
12731 GACAAAAAAA
**
12741 TTTTAAGAGAAAATGTCTCAAGAGAAACAAAATTTG
1 TTTTAAGAGAAAACATCTCAAGAGAAACAAAATTTG
* ** *
12777 TTTTAATAGAAAATGTCTCAAGAGAGACAAAATTTG
1 TTTTAAGAGAAAACATCTCAAGAGAAACAAAATTTG
* * *
12813 TTTTGAGATAAACCATCTCAA
1 TTTTAAGAGAAAACATCTCAA
12834 AGGTGATAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (36 bp):
TTTTAAGAGAAAACATCTCAAGAGAAACAAAATTTG
Found at i:14187 original size:83 final size:87
Alignment explanation
Indices: 14086--14308 Score: 240
Period size: 95 Copynumber: 2.5 Consensus size: 87
14076 AGTTGAATCT
* * *
14086 ATAAAGCCGGTGCATTTAACCAATTGCTCTAGAGGGACAGCTCAA-TATA-TA-AAT-ACATTTA
1 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAATTATAGTATAATCACATTCA
** *
14147 TCAGGTTAGCTGAATCTTATCC
66 TCAGACTAGCTGAATATTATCC
*
14169 ATAAAGCCGGGGCGTTTAACCAATTGC-CTTAGAGTGACAGCTCAAGCTTTATTGTATAGTATAA
1 ATAAAGCCGGGGCGTTTAACCAATTGCTC-TAGAGGGACAGCTC-A-----A-T-TATAGTATAA
* *
14233 TCACCTTCATCAGACTAGCTTAATATTATCC
57 TCACATTCATCAGACTAGCTGAATATTATCC
*
14264 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAA
1 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAA
14309 GCTTTATTGT
Statistics
Matches: 115, Mismatches: 11, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
82 1 0.01
83 38 0.33
84 1 0.01
89 2 0.02
92 4 0.03
93 2 0.02
94 4 0.03
95 62 0.54
96 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (87 bp):
ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAATTATAGTATAATCACATTCA
TCAGACTAGCTGAATATTATCC
Found at i:14297 original size:95 final size:96
Alignment explanation
Indices: 14153--14329 Score: 295
Period size: 95 Copynumber: 1.9 Consensus size: 96
14143 TTTATCAGGT
* * *
14153 TAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGTGACAGCTCAAGCTT
1 TAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTT
14218 TATTGTATA-GTATAATCACCTTCATCAGAC
66 TATTGTATATGTATAATCACCTTCATCAGAC
*
14248 TAGCTTAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG-CTCTAGAGGGACAACTCAAGCT
1 TAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCT-TAGAGGGACAACTCAAGCT
14312 TTATTGTATATGTATAAT
65 TTATTGTATATGTATAAT
14330 ATTATAATCT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
94 2 0.03
95 67 0.88
96 7 0.09
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (96 bp):
TAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTT
TATTGTATATGTATAATCACCTTCATCAGAC
Found at i:18622 original size:3 final size:3
Alignment explanation
Indices: 18605--18699 Score: 60
Period size: 3 Copynumber: 32.0 Consensus size: 3
18595 ATATACACGT
*
18605 TAA TAG TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA T-A TGAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* *
18648 -AA T-A TATA TAA TAA CTTA TAAA TAA GGTAA AAA TAA TAA -AA -AA
1 TAA TAA TA-A TAA TAA -TAA T-AA TAA --TAA TAA TAA TAA TAA TAA
18691 TAA TAA TAA
1 TAA TAA TAA
18700 CAAGGATCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
2 14 0.19
3 50 0.67
4 8 0.11
5 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:25056 original size:21 final size:21
Alignment explanation
Indices: 25030--25082 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
25020 ATTCTGACTA
25030 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
25051 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
25072 TCGCAATGCGA
1 TCGCATTGCGA
25083 ATACGTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:25100 original size:20 final size:20
Alignment explanation
Indices: 25072--25244 Score: 301
Period size: 20 Copynumber: 8.7 Consensus size: 20
25062 TTTTCCTAAT
25072 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
25092 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
25112 TCGCAATACGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
25132 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
25152 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
25172 TCGCAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
25192 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
25212 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
25232 TCGCAACGCGAAT
1 TCGCAATGCGAAT
25245 CTGACTATCG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 144 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:25507 original size:22 final size:22
Alignment explanation
Indices: 25442--25507 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
25432 GGCGACATCC
25442 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
** *
25464 ACCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* * *
25486 GTCTCCATCTCTGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
25508 TTCACGGTCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.26, C:0.39, G:0.14, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:25867 original size:19 final size:20
Alignment explanation
Indices: 25843--25892 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
25833 GCGATTCTGT
25843 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
25862 CGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
25882 TGTTGCGATTT
1 CGTTGCGATTT
25893 AAAGTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.10, C:0.18, G:0.22, T:0.50
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:27799 original size:20 final size:20
Alignment explanation
Indices: 27774--27950 Score: 159
Period size: 20 Copynumber: 9.5 Consensus size: 20
27764 AGAATAGTTT
27774 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
27794 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
27814 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
27834 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
27850 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
27867 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
27883 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
27901 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
*
27921 ACTATCGCAATGC-AAATTTG
1 ACTATCGCAATGCGAAA-ATG
27941 ACTATCGCAA
1 ACTATCGCAA
27951 CGAAAGAATC
Statistics
Matches: 135, Mismatches: 7, Indels: 30
0.78 0.04 0.17
Matches are distributed among these distances:
14 14 0.10
16 10 0.07
17 8 0.06
18 5 0.04
19 10 0.07
20 88 0.65
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.17
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:27829 original size:40 final size:37
Alignment explanation
Indices: 27774--27971 Score: 177
Period size: 40 Copynumber: 5.5 Consensus size: 37
27764 AGAATAGTTT
27774 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAA--CGAAAA-G
* *
27814 ACTATCGCAACGCGAAAATGACTATCGCAACG-AGAG
1 ACTATCGCAATGCGAAAATGACTATCGCAACGAAAAG
**
27850 A--ATCGCAATGCG-AAATGAAAATCGCAAC-AACAA-
1 ACTATCGCAATGCGAAAATGACTATCGCAACGAA-AAG
*
27883 A--ATCGCAACGCGAAAATGACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGC-A-ACGAAAA-G
*
27921 ACTATCGCAATGC-AAATTTGACTATCGCAACG-AAAG
1 ACTATCGCAATGCGAAA-ATGACTATCGCAACGAAAAG
*
27957 A--ATCGCAATGTGAAA
1 ACTATCGCAATGCGAAA
27972 TAAAAATCGC
Statistics
Matches: 134, Mismatches: 12, Indels: 29
0.77 0.07 0.17
Matches are distributed among these distances:
33 26 0.19
34 31 0.23
35 4 0.03
36 8 0.06
37 7 0.05
38 6 0.04
39 4 0.03
40 48 0.36
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.17
Consensus pattern (37 bp):
ACTATCGCAATGCGAAAATGACTATCGCAACGAAAAG
Found at i:27963 original size:107 final size:107
Alignment explanation
Indices: 27777--27982 Score: 324
Period size: 107 Copynumber: 1.9 Consensus size: 107
27767 ATAGTTTACT
* *
27777 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAACGCGAAAATGACTATCGC
* *
27842 AACGAGAGAATCGCAATGCGAAATGAAAATCGCAACAACAAA
66 AACGAAAGAATCGCAATGCGAAATAAAAATCGCAACAACAAA
* * *
27884 ATCGCAACGCGAAAATGACTATCGCAATACGAAAATGACTATCGCAATGC-AAATTTGACTATCG
1 ATCGCAACGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAACGCGAAA-ATGACTATCG
*
27948 CAACGAAAGAATCGCAATGTGAAATAAAAATCGCA
65 CAACGAAAGAATCGCAATGCGAAATAAAAATCGCA
27983 TTGTGATTCT
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 3 0.03
107 87 0.97
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (107 bp):
ATCGCAACGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAACGCGAAAATGACTATCGC
AACGAAAGAATCGCAATGCGAAATAAAAATCGCAACAACAAA
Found at i:28022 original size:20 final size:20
Alignment explanation
Indices: 27997--28123 Score: 128
Period size: 20 Copynumber: 6.3 Consensus size: 20
27987 GATTCTCTCG
* *
27997 TTGCGATAGTCAAAATCACA
1 TTGCGATAGTCAAATTCGCA
28017 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
28037 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
28057 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
** *
28077 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
* ** *
28097 TTACGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
28117 TTGCGAT
1 TTGCGAT
28124 TTTAAGTTTC
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 100 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:28059 original size:40 final size:40
Alignment explanation
Indices: 27995--28123 Score: 177
Period size: 40 Copynumber: 3.2 Consensus size: 40
27985 GTGATTCTCT
*** * **
27995 CGTTGCGATAGTCAAAATCACATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCG
*
28035 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCG
* *
28075 CGTTGCGATAGTCATTTTCGCGTTACGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCG
28115 CGTTGCGAT
1 CGTTGCGAT
28124 TTTAAGTTTC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCG
Found at i:28698 original size:21 final size:20
Alignment explanation
Indices: 28603--28710 Score: 58
Period size: 21 Copynumber: 5.2 Consensus size: 20
28593 GCCCGACTCA
28603 CCTGTCATCGTTCAAGAGG-
1 CCTGTCATCGTTCAAGAGGC
** *
28622 CCTCCCCTATCGTTCAAGAGACC
1 CCT-GTC-ATCGTTCAAGAG-GC
* ** *
28645 CCTATCATCCCTCAAGAGTC
1 CCTGTCATCGTTCAAGAGGC
*
28665 CCT-TCCCACCGTTCAAGAGGC
1 CCTGT--CATCGTTCAAGAGGC
*
28686 CACTGTCATCGTTGAAGAGGTC
1 C-CTGTCATCGTTCAAGAGG-C
28708 CCT
1 CCT
28711 CCCAACATTC
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
19 4 0.06
20 5 0.08
21 48 0.73
22 5 0.08
23 4 0.06
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (20 bp):
CCTGTCATCGTTCAAGAGGC
Found at i:28704 original size:42 final size:42
Alignment explanation
Indices: 28604--28714 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
28594 CCCGACTCAC
* * * *
28604 CTGTCATCGTTCAAGAG-GCCTCCCCTATCGTTCAAGAGACCC
1 CTGTCATCGTTCAAGAGTCCCTTCCC-ACCGTTCAAGAGACCA
* ** *
28646 CTATCATCCCTCAAGAGTCCCTTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCTTCCCACCGTTCAAGAGACCA
*
28688 CTGTCATCGTTGAAGAGGTCCC-TCCCA
1 CTGTCATCGTTCAAGA-GTCCCTTCCCA
28715 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 44 0.80
43 11 0.20
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCTTCCCACCGTTCAAGAGACCA
Found at i:30054 original size:14 final size:14
Alignment explanation
Indices: 30035--30070 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
30025 ATTGTTTAAT
30035 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
30049 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
30063 TGATTTGT
1 TGATTTGT
30071 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:30298 original size:33 final size:34
Alignment explanation
Indices: 30246--30321 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
30236 CGAAAATCCG
30246 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
30280 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
30313 CGTTGCGAT
1 CGTTGCGAT
30322 AGTAATTTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 27 0.66
34 14 0.34
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:30330 original size:33 final size:33
Alignment explanation
Indices: 30261--30341 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
30251 CGATTTTCAT
** *
30261 TTTCGCATTGCGATTCACTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCACTCGTTGCGATAGTAA
*
30294 TTTCGCATTGCGATTCTCTCGTTGCGATAGTAA
1 TTTCGCATTGCGATTCACTCGTTGCGATAGTAA
*
30327 TTTCCGCGTTGCGAT
1 TTT-CGCATTGCGAT
30342 AGTCAATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 32 0.76
34 10 0.24
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (33 bp):
TTTCGCATTGCGATTCACTCGTTGCGATAGTAA
Found at i:30338 original size:20 final size:20
Alignment explanation
Indices: 30313--30367 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
30303 GCGATTCTCT
30313 CGTTGCGATAGT-AATTTCCG
1 CGTTGCGATAGTCAA-TTCCG
30333 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCAATTCCG
30353 CGTTGCGATAGTCAA
1 CGTTGCGATAGTCAA
30368 ATGAATGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:32665 original size:38 final size:38
Alignment explanation
Indices: 32614--32689 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
32604 ATGGATGTTC
32614 AACATGTTCATTCACAGTCGTAACTTCCTCCTCATTAT
1 AACATGTTCATTCACAGTCGTAACTTCCTCCTCATTAT
32652 AACATGTTCATTCACAGTCGTAACTTCCTCCTCATTAT
1 AACATGTTCATTCACAGTCGTAACTTCCTCCTCATTAT
32690 CATCAACAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.37
Consensus pattern (38 bp):
AACATGTTCATTCACAGTCGTAACTTCCTCCTCATTAT
Found at i:32830 original size:24 final size:24
Alignment explanation
Indices: 32796--32849 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
32786 CTGAAACATC
32796 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
32820 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
32844 ATCAAA
1 ATCAAA
32850 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:33716 original size:20 final size:20
Alignment explanation
Indices: 33691--33757 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
33681 AAATTCAGTA
33691 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
33711 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
33731 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
33751 TTGCGAT
1 TTGCGAT
33758 TTACGTATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:33767 original size:20 final size:20
Alignment explanation
Indices: 33751--33836 Score: 163
Period size: 20 Copynumber: 4.3 Consensus size: 20
33741 CAGATTCGCG
*
33751 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCACA
33771 TTGCGATTTACGTATTCACA
1 TTGCGATTTACGTATTCACA
33791 TTGCGATTTACGTATTCACA
1 TTGCGATTTACGTATTCACA
33811 TTGCGATTTACGTATTCACA
1 TTGCGATTTACGTATTCACA
33831 TTGCGA
1 TTGCGA
33837 ATTAGGAAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACGTATTCACA
Found at i:33857 original size:21 final size:21
Alignment explanation
Indices: 33833--33878 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
33823 TATTCACATT
33833 GCGAATTAGGAAAATCACAAC
1 GCGAATTAGGAAAATCACAAC
* * *
33854 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCACAAC
33875 GCGA
1 GCGA
33879 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCACAAC
Found at i:34195 original size:2 final size:2
Alignment explanation
Indices: 34188--34242 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
34178 ATAATTACTT
34188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34230 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
34243 GGTTGTTGCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35084 original size:18 final size:20
Alignment explanation
Indices: 35061--35099 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
35051 CAGATAACTC
*
35061 AATAAAATAAT-ATTT-TAT
1 AATAAAAAAATCATTTGTAT
35079 AATAAAAAAATCATTTGTAT
1 AATAAAAAAATCATTTGTAT
35099 A
1 A
35100 CTTTACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 4 0.22
20 4 0.22
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATAAAAAAATCATTTGTAT
Found at i:37398 original size:60 final size:58
Alignment explanation
Indices: 37243--37399 Score: 145
Period size: 59 Copynumber: 2.6 Consensus size: 58
37233 TATATGTCCT
* * * * * *
37243 CAAAGTATGAACTTCATTTTAAATTAGTCTTTAAACTTTTAAATATTTCAATTTATCTC
1 CAAACTATG-ACTTCATTTTAAATTATTCCTCAAACTTTTAAACATTTCAATTTATCCC
* ** * * *
37302 TAAGTTATTACTATCATTCTAAATTAGTT-CTCAAACTTTTGAACATTTCAATTTCATCCC
1 CAAACTATGACT-TCATTTTAAATTA-TTCCTCAAACTTTTAAACATTTCAATTT-ATCCC
*
37362 CAAACTATGATCTTCATTTTAAATTATTCCACAAACTT
1 CAAACTATGA-CTTCATTTTAAATTATTCCTCAAACTT
37400 GACTCATACA
Statistics
Matches: 76, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
58 3 0.04
59 40 0.53
60 31 0.41
61 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.43
Consensus pattern (58 bp):
CAAACTATGACTTCATTTTAAATTATTCCTCAAACTTTTAAACATTTCAATTTATCCC
Found at i:37457 original size:16 final size:16
Alignment explanation
Indices: 37436--37466 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37426 AATACTTACC
37436 ATGTTATATATCATAT
1 ATGTTATATATCATAT
*
37452 ATGTTATTTATCATA
1 ATGTTATATATCATA
37467 CCATTTGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
ATGTTATATATCATAT
Found at i:38947 original size:21 final size:21
Alignment explanation
Indices: 38921--38964 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
38911 ATTCTGGGCT
* *
38921 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
38942 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
38963 AG
1 AG
38965 CGAATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:39035 original size:23 final size:22
Alignment explanation
Indices: 38991--39035 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38981 AATGTCATGG
*
38991 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
39013 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
39036 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:39852 original size:31 final size:30
Alignment explanation
Indices: 39728--39852 Score: 137
Period size: 31 Copynumber: 4.0 Consensus size: 30
39718 GAGTCGAGGG
39728 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG--T
*
39760 TACCTATG-TCTTTC-GAGACATATGGACAGT
1 TACCTATGTTC-TACGGA-ACATATGGACAGT
*
39790 ATACCTATGTTCTAAGGAACATATGGACAGT
1 -TACCTATGTTCTACGGAACATATGGACAGT
* * *
39821 TCACCTAGGTTCTTCGGAACCTATGGACAGT
1 T-ACCTATGTTCTACGGAACATATGGACAGT
39852 T
1 T
39853 GCCGAGGATC
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
30 2 0.03
31 52 0.65
32 26 0.32
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (30 bp):
TACCTATGTTCTACGGAACATATGGACAGT
Found at i:44176 original size:23 final size:22
Alignment explanation
Indices: 44132--44176 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
44122 AATGTCATGG
*
44132 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
44154 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
44177 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:44955 original size:31 final size:31
Alignment explanation
Indices: 44871--44992 Score: 99
Period size: 31 Copynumber: 3.9 Consensus size: 31
44861 GAGTCGAGGG
44871 TACCTATGTTCTACA-GAACATATGGACAGA-A
1 TACCTATGTTCTA-AGGAACATATGGACA-ATA
***
44902 TTACCTATG-TCTTTCGAGACATATGGACAATA
1 -TACCTATGTTCTAAGGA-ACATATGGACAATA
*
44934 TACCTATGTTCTAAGGAACATATGGACAGT-
1 TACCTATGTTCTAAGGAACATATGGACAATA
* ** *
44964 TCACCTAGGTTCTTCGGAACCTATGGACA
1 T-ACCTATGTTCTAAGGAACATATGGACA
44993 GTTGCCGAGG
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
30 1 0.01
31 49 0.65
32 25 0.33
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAATA
Found at i:45033 original size:30 final size:30
Alignment explanation
Indices: 44982--45053 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
44972 GTTCTTCGGA
* * *
44982 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
45012 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
45042 ACCTCTGGATAG
1 ACCTCTGGATAG
45054 GTCCTGCGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:45848 original size:64 final size:63
Alignment explanation
Indices: 45745--45863 Score: 143
Period size: 64 Copynumber: 1.9 Consensus size: 63
45735 TGTTCAAGGT
* *
45745 GTATCGATGCACATAAAGTGTATCGATGCACTCATTTAAAATAAAAACATCGAATGCCATCAGA
1 GTATCGATGCACATAAAGTGCATCGATGCACTCACTT-AAATAAAAACATCGAATGCCATCAGA
* * **
45809 GTATCGATGCACA-AGTAGTGCATCGATGCA-TCCCCTTAAATGCAAACATCGAATG
1 GTATCGATGCACATA-AAGTGCATCGATGCACT-CACTTAAATAAAAACATCGAATG
45864 GGATTTATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
63 18 0.38
64 29 0.62
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (63 bp):
GTATCGATGCACATAAAGTGCATCGATGCACTCACTTAAATAAAAACATCGAATGCCATCAGA
Found at i:46678 original size:20 final size:20
Alignment explanation
Indices: 46644--46693 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
46634 GGTTCATAGG
* *
46644 TCATTCGAGACATACAGAGA
1 TCATTCGGGATATACAGAGA
* * *
46664 TCCTTCGGGATATACATAGG
1 TCATTCGGGATATACAGAGA
46684 TCATTCGGGA
1 TCATTCGGGA
46694 CAACTTTCAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (20 bp):
TCATTCGGGATATACAGAGA
Found at i:47832 original size:20 final size:21
Alignment explanation
Indices: 47807--47854 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
47797 GATCATGTAG
47807 GAGTTGAT-GATTCTTTAACC
1 GAGTTGATGGATTCTTTAACC
*
47827 GAGTTGATGGGTTCTTTAACC
1 GAGTTGATGGATTCTTTAACC
47848 GAGTTGA
1 GAGTTGA
47855 ACATAAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (21 bp):
GAGTTGATGGATTCTTTAACC
Found at i:51254 original size:28 final size:28
Alignment explanation
Indices: 51214--51272 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
51204 GGGCAGAGAA
51214 GTCGGTAATCTAATACAGGTCCTAATAT
1 GTCGGTAATCTAATACAGGTCCTAATAT
*
51242 GTCGGTAATCTAATACAGGTCTTAATAT
1 GTCGGTAATCTAATACAGGTCCTAATAT
51270 GTC
1 GTC
51273 ATTTTCCCGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (28 bp):
GTCGGTAATCTAATACAGGTCCTAATAT
Found at i:58438 original size:30 final size:30
Alignment explanation
Indices: 58404--58461 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
58394 ATGACTTAAG
58404 ACACGTAAGATTTATCATATATCATTTGAT
1 ACACGTAAGATTTATCATATATCATTTGAT
*
58434 ACACGTAAGATTTATCGTATATCATTTG
1 ACACGTAAGATTTATCATATATCATTTG
58462 TAAGATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (30 bp):
ACACGTAAGATTTATCATATATCATTTGAT
Found at i:58680 original size:16 final size:16
Alignment explanation
Indices: 58659--58714 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
58649 TGAAGGGTCT
58659 TTAGCCCTTTGGAGAA
1 TTAGCCCTTTGGAGAA
* **
58675 TTAG-CCTTGTGAAGGGTC
1 TTAGCCCTT-TG--GAGAA
58693 TTAGCCCTTTGGAGAA
1 TTAGCCCTTTGGAGAA
58709 TTAGCC
1 TTAGCC
58715 TTGTGAAGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 4 0.13
16 14 0.47
18 8 0.27
19 4 0.13
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (16 bp):
TTAGCCCTTTGGAGAA
Found at i:58698 original size:18 final size:18
Alignment explanation
Indices: 58675--58731 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
58665 CTTTGGAGAA
58675 TTAGCCTTGTGAAGGGTC
1 TTAGCCTTGTGAAGGGTC
* **
58693 TTAGCCCTT-TG--GAGAA
1 TTAG-CCTTGTGAAGGGTC
58709 TTAGCCTTGTGAAGGGTC
1 TTAGCCTTGTGAAGGGTC
58727 TTAGC
1 TTAGC
58732 ATCATGTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
15 4 0.14
16 8 0.28
18 13 0.45
19 4 0.14
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (18 bp):
TTAGCCTTGTGAAGGGTC
Found at i:58702 original size:34 final size:34
Alignment explanation
Indices: 58627--58731 Score: 183
Period size: 34 Copynumber: 3.1 Consensus size: 34
58617 TCTTCCCTTT
* *
58627 GCCCTTTGGAGAATTTGCCTAGTGAAGGGTCTTTA
1 GCCCTTTGGAGAATTAGCCTTGTGAAGGGTC-TTA
58662 GCCCTTTGGAGAATTAGCCTTGTGAAGGGTCTTA
1 GCCCTTTGGAGAATTAGCCTTGTGAAGGGTCTTA
58696 GCCCTTTGGAGAATTAGCCTTGTGAAGGGTCTTA
1 GCCCTTTGGAGAATTAGCCTTGTGAAGGGTCTTA
58730 GC
1 GC
58732 ATCATGTCTT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
34 39 0.57
35 29 0.43
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (34 bp):
GCCCTTTGGAGAATTAGCCTTGTGAAGGGTCTTA
Found at i:61596 original size:14 final size:14
Alignment explanation
Indices: 61577--61609 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
61567 ATTTCTATGT
*
61577 AGGGAATTATTTGC
1 AGGGAATTATTTAC
61591 AGGGAATTATTTAC
1 AGGGAATTATTTAC
61605 AGGGA
1 AGGGA
61610 TTACTCCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (14 bp):
AGGGAATTATTTAC
Found at i:61832 original size:3 final size:3
Alignment explanation
Indices: 61824--61851 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
61814 AATCAGGGTT
61824 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
61852 AAAATACTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:63211 original size:3 final size:3
Alignment explanation
Indices: 63194--63256 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
63184 CAAAAACATT
63194 TTA TTA -TA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63240 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
63257 TTGTTTTTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.07
3 54 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:63379 original size:33 final size:33
Alignment explanation
Indices: 63311--63379 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
63301 TTCAGAAAAT
* * *
63311 AAATCAACGGATTTGAGTCCTATTAAAATACTA
1 AAATCAACGGATTTAAGTCATATTAAAACACTA
* * *
63344 AAATCAACGTATTTAAGTCATATTGAAACATTA
1 AAATCAACGGATTTAAGTCATATTAAAACACTA
63377 AAA
1 AAA
63380 CCGAAGCATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.30
Consensus pattern (33 bp):
AAATCAACGGATTTAAGTCATATTAAAACACTA
Found at i:67699 original size:221 final size:216
Alignment explanation
Indices: 67314--67733 Score: 653
Period size: 221 Copynumber: 1.9 Consensus size: 216
67304 GTGGTTGCTT
*
67314 AACTTCACAGTGAAGGGGAGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAA
1 AACTTCACAGTGAAGGGGAGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATTTCAA
* *
67379 CTTCACAGCGAATGATATTGAACTCGAGATAACACAATATCAACTTCACAGCGAAGGGGCGACTA
66 CTTCACAGCGAAGGATATTGAACTCGAGACAACACAATATCAACTTCACAGCGAAGGGGCGACTA
** * *
67444 ACTGTCAACAAACAACTTTTCAGTTTCCTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
131 ACTGTCAACAAACAACTTCCCAATTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
67509 GACTCGAGACCACACAAGCTC
196 GACTCGAGACCACACAAGCTC
*
67530 AACTTCACAGTGAAGGGACGACTGACTGTCAAACAAACAACTTTTCAATTTCATTCAGTGTCAAT
1 AACTTCACAGTGAAGGG--GA--GACTGTC-AACAAACAACTTTTCAATTTCATTCAGAGTCAAT
* * *
67595 TTCAACTTCACAGCGAAGGATATTGTACTCGAGACAATATAA-ACTCAACTTCACAGCGAAGGGG
61 TTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAATA-TCAACTTCACAGCGAAGGGG
* * *
67659 TGACTGACTGTCAACAAACAACTTCCCAATTTTATTCAGAGTCAATTTCAACTTCACAGCGAAGG
125 CGACTAACTGTCAACAAACAACTTCCCAATTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGG
67724 ATATTGGACT
190 ATATTGGACT
67734 TGAAACAATA
Statistics
Matches: 184, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
216 17 0.09
218 2 0.01
220 8 0.04
221 157 0.85
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (216 bp):
AACTTCACAGTGAAGGGGAGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATTTCAA
CTTCACAGCGAAGGATATTGAACTCGAGACAACACAATATCAACTTCACAGCGAAGGGGCGACTA
ACTGTCAACAAACAACTTCCCAATTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
GACTCGAGACCACACAAGCTC
Found at i:67743 original size:110 final size:110
Alignment explanation
Indices: 67314--67733 Score: 607
Period size: 110 Copynumber: 3.8 Consensus size: 110
67304 GTGGTTGCTT
* *
67314 AACTTCACAGTGAA-GGG-GA--GACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATT
* * *
67375 TCAACTTCACAGCGAATGATATTGAACTCGAGATAACACAATA-TC
66 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA-ACTC
* * *
67420 AACTTCACAGCGAAGGGGCGACTAACTGTCAACAAACAACTTTTCAGTTTCCTTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATT
* *
67485 TCAACTTCACAGCGAAGGATATTGGACTCGAGACCACACAAGCTC
66 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAACTC
* * *
67530 AACTTCACAGTGAAGGGACGACTGACTGTCAAACAAACAACTTTTCAATTTCATTCAGTGTCAAT
1 AACTTCACAGCGAAGGGGCGACTGACTGTC-AACAAACAACTTTTCAATTTCATTCAGAGTCAAT
* * *
67595 TTCAACTTCACAGCGAAGGATATTGTACTCGAGACAATATAAACTC
65 TTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAACTC
* ** *
67641 AACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTTCCCAATTTTATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATT
67706 TCAACTTCACAGCGAAGGATATTGGACT
66 TCAACTTCACAGCGAAGGATATTGGACT
67734 TGAAACAATA
Statistics
Matches: 281, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
106 13 0.05
107 3 0.01
108 2 0.01
110 164 0.58
111 99 0.35
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (110 bp):
AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATT
TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAACTC
Found at i:68113 original size:43 final size:43
Alignment explanation
Indices: 68052--68133 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
68042 ACAAAGGGGC
* *
68052 CATCCACGATTTCAACTCCACAATGGATGATATCGTACCCACA
1 CATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACA
* *
68095 CATCCATGATTTCAACTCCACGACGGAGGATATCGTACC
1 CATCCACGATTTCAACTCCACAACGGAGGATATCGTACC
68134 ATTTGAGGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACA
Found at i:68115 original size:22 final size:22
Alignment explanation
Indices: 68052--68115 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
68042 ACAAAGGGGC
*
68052 CATCCACGATTTCAACTCCACA
1 CATCCATGATTTCAACTCCACA
** * *
68074 -ATGGATGATATCGTAC-CCACA
1 CATCCATGATTTC-AACTCCACA
68095 CATCCATGATTTCAACTCCAC
1 CATCCATGATTTCAACTCCAC
68116 GACGGAGGAT
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.31, C:0.34, G:0.09, T:0.25
Consensus pattern (22 bp):
CATCCATGATTTCAACTCCACA
Found at i:68799 original size:241 final size:241
Alignment explanation
Indices: 67693--68791 Score: 1709
Period size: 241 Copynumber: 4.6 Consensus size: 241
67683 CCCAATTTTA
* * *
67693 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTTGAAACAATAC-A--TACTTGGAT
1 TTCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTTGAAACAATACAACTTACTTGGAT
* ** * * * *
67755 TTCAACTTCACGATGAAAAATATTCAAGTCAAGGCTCAACTTCATGATGAAGGGGCCATTCACAA
66 TTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATCCACGA
67820 TTTCAACTCCACAACGGAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACGGAGGAT
131 TTTCAACTCCACAACGGAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACGGAGGAT
* *
67885 ATCGTGCCATTTGAGGCTCAACTTCATGACGAAGGGGCTTCCCACT
196 ATCGTGCCATTTGAGGCTCAACTTCACGACGAAGGGGCTTCCCAGT
* * * * *
67931 TTCAGAGCTAATTTCAACTTCACGGCGGATGATATTGGACTCGAAATAATACAACTTACTTTGAT
1 TTCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTTGAAACAATACAACTTACTTGGAT
* * *
67996 TTCAACTTTACGACGAAGGATATTAAAGTCAAGGCTCAACTTCACGACAAAGGGGCCATCCACGA
66 TTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATCCACGA
* * *
68061 TTTCAACTCCACAATGGATGATATCGTACCCACACATCCATGATTTCAACTCCACGACGGAGGAT
131 TTTCAACTCCACAACGGAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACGGAGGAT
* *
68126 ATCGTACCATTTGAGGCTCAACTTCACGACGAAAGGGCTTCCCAGT
196 ATCGTGCCATTTGAGGCTCAACTTCACGACGAAGGGGCTTCCCAGT
* * *
68172 TTCAGAGCCAATTTCAACTTCACGGCGTATGATATTGGACTTGAAATAATACAACTTACTTGGAT
1 TTCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTTGAAACAATACAACTTACTTGGAT
*
68237 TTCAACTTCACGACGAAGGATATTAAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATCCACGA
66 TTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATCCACGA
* ** * *
68302 TTTTAACTCCACAATAGATGATATCGTACCCACACATCCACGATTTCAACTCCACGACAGAGGAT
131 TTTCAACTCCACAACGGAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACGGAGGAT
68367 ATCGTGCCATTTGAGGCTCAACTTCACGACGAAGGGGCTTCCCAGT
196 ATCGTGCCATTTGAGGCTCAACTTCACGACGAAGGGGCTTCCCAGT
* *
68413 TTCAGAGCCAATTTCAACTTCACGGTGGAGGATATTGGATTTGAAACAATACAACTTACTTGGAT
1 TTCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTTGAAACAATACAACTTACTTGGAT
* *
68478 TTCAACTTCACGATGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATCCACTA
66 TTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATCCACGA
* *
68543 TTTCAACTCCACGACGGAGGATATCGTACCCACACATCCACGATTTTAACTCCACGACGGAGGAT
131 TTTCAACTCCACAACGGAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACGGAGGAT
* * *
68608 ATCGTGCCATTTGAGGCTCAACTTCACGTCGAATGAGCTTCCCAGT
196 ATCGTGCCATTTGAGGCTCAACTTCACGACGAAGGGGCTTCCCAGT
* * * *
68654 TTCAAAGCCAATTTTAACTTCGCGGCGGAGGATATTGGACTCGAAACAATACAACTTACTTGGAT
1 TTCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTTGAAACAATACAACTTACTTGGAT
* * * * *
68719 TTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCTACTTCACGACGGAGGGGCCATCCACGA
66 TTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATCCACGA
68784 TTTCAACT
131 TTTCAACT
68792 TCACGACGAA
Statistics
Matches: 790, Mismatches: 68, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
238 45 0.06
239 1 0.00
241 744 0.94
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (241 bp):
TTCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTTGAAACAATACAACTTACTTGGAT
TTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATCCACGA
TTTCAACTCCACAACGGAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACGGAGGAT
ATCGTGCCATTTGAGGCTCAACTTCACGACGAAGGGGCTTCCCAGT
Found at i:69374 original size:33 final size:33
Alignment explanation
Indices: 69327--69393 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
69317 GAAAATAAAT
*
69327 CAACGTATTTGAGTCATATTGAAACACTAAAAC
1 CAACATATTTGAGTCATATTGAAACACTAAAAC
69360 CAACATATTTGAGTCATATTGAAACACTAAAAC
1 CAACATATTTGAGTCATATTGAAACACTAAAAC
69393 C
1 C
69394 GAAGCATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.27
Consensus pattern (33 bp):
CAACATATTTGAGTCATATTGAAACACTAAAAC
Found at i:69403 original size:33 final size:32
Alignment explanation
Indices: 69333--69407 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 32
69323 AAATCAACGT
69333 ATTTGAGTCATATTGAAACACTAAAACCAACA
1 ATTTGAGTCATATTGAAACACTAAAACCAACA
69365 TATTTGAGTCATATTGAAACACTAAAACCGAAGC-
1 -ATTTGAGTCATATTGAAACACTAAAACC-AA-CA
69399 ATTTGAGTC
1 ATTTGAGTC
69408 CAAGTAGGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
33 37 0.93
34 2 0.05
35 1 0.03
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (32 bp):
ATTTGAGTCATATTGAAACACTAAAACCAACA
Found at i:70692 original size:22 final size:21
Alignment explanation
Indices: 70645--70692 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
70635 TAATGAAGTC
* *
70645 ATAAATTGTTAAATCAAAAGT
1 ATAAATTGTTAAATAAAAAAT
* *
70666 GTAAATTTTTAATATAAAAAAT
1 ATAAATTGTTAA-ATAAAAAAT
70688 ATAAA
1 ATAAA
70693 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
ATAAATTGTTAAATAAAAAAT
Found at i:72166 original size:16 final size:16
Alignment explanation
Indices: 72145--72183 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
72135 ATATAATAAA
72145 ATAAATGTAAATACAT
1 ATAAATGTAAATACAT
* * *
72161 ATAAATATATATATAT
1 ATAAATGTAAATACAT
72177 ATAAATG
1 ATAAATG
72184 AGTAAAAAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (16 bp):
ATAAATGTAAATACAT
Found at i:73371 original size:5 final size:5
Alignment explanation
Indices: 73357--73408 Score: 50
Period size: 5 Copynumber: 9.4 Consensus size: 5
73347 GAAAAGAAAA
*
73357 AATAT AAATAT AATAT AATTTAT AATAT AAATAT ATATAT TATAT AATAT
1 AATAT -AATAT AATAT AA--TAT AATAT -AATAT A-ATAT AATAT AATAT
73407 AA
1 AA
73409 GGACGAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 21 0.52
6 14 0.35
7 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATAT
Found at i:73643 original size:20 final size:20
Alignment explanation
Indices: 73620--73661 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
73610 GAATCCTTCG
73620 TCGTGAAATTGAAATCAAAC
1 TCGTGAAATTGAAATCAAAC
* *
73640 TCGTGAAGTTGAAATCGAAC
1 TCGTGAAATTGAAATCAAAC
73660 TC
1 TC
73662 AGAGTTCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGTGAAATTGAAATCAAAC
Found at i:73921 original size:105 final size:105
Alignment explanation
Indices: 73719--74458 Score: 1327
Period size: 105 Copynumber: 7.0 Consensus size: 105
73709 CGTTGTGATG
* * * * *
73719 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGCTGAACTTGCGTTG
1 CTGAATTTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
73784 TCTGGAGTCCAATATCCTTCGTTGTGAGGTTGAAATTGGCT
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
73825 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
73890 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
73930 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
73995 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTGACT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TTGGCT
*
74036 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
74101 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
74141 CTGAATCTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
74206 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
74246 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
74311 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
74351 CTAAATTTGAGAAATGCTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
74416 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
74456 CTG
1 CTG
74459 GGTAAAACCT
Statistics
Matches: 614, Mismatches: 19, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
105 499 0.81
106 115 0.19
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (105 bp):
CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:74313 original size:316 final size:315
Alignment explanation
Indices: 73719--74458 Score: 1354
Period size: 316 Copynumber: 2.3 Consensus size: 315
73709 CGTTGTGATG
* * * *
73719 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGCTGAACTTGCGTTG
1 CTGAATTTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTG
* *
73784 TCTGGAGTCCAATATCCTTCGTTGTGAGGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGA
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTTGTTGA
73849 CAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
130 CAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
*
73914 GAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
195 GAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAA
73979 GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTGACT
260 GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TTGACT
74036 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTGT
*
74101 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATCTGAGAAATGTTTGTTGAC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTTGTTGAC
74166 AACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG
131 AACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG
74231 AAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG
196 AAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG
*
74296 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
261 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
* * *
74351 CTAAATTTGAGAAATGCTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTGT
74416 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
74459 GGTAAAACCT
Statistics
Matches: 410, Mismatches: 13, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
315 109 0.27
316 289 0.70
317 12 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (315 bp):
CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTTGTTGAC
AACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG
AAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG
TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
Found at i:75304 original size:55 final size:54
Alignment explanation
Indices: 75212--75316 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 54
75202 ACCCACCTTA
* * ** *
75212 TTTTCTCTTCTTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAACGT
1 TTTTCTCTTCTTTTTTCAACTTAAGACGCCCTCTCGGGTTTTCACCCTAAACGT
* *
75266 TTTTCTCTTTTTTTTTTCAACTTAAGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTCTC-TTCTTTTTTCAACTTAAGACGCCCTCTCGGGTTTTCACCCTAA
75317 GCGAAGTATT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
54 7 0.16
55 36 0.84
ACGTcount: A:0.14, C:0.25, G:0.12, T:0.49
Consensus pattern (54 bp):
TTTTCTCTTCTTTTTTCAACTTAAGACGCCCTCTCGGGTTTTCACCCTAAACGT
Found at i:87223 original size:22 final size:23
Alignment explanation
Indices: 87182--87229 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
87172 AGAAAAAATG
87182 TAAATATAATATAATTTATAATA
1 TAAATATAATATAATTTATAATA
87205 TAAATAT-ATAT-ATTATATAATA
1 TAAATATAATATAATT-TATAATA
87227 TAA
1 TAA
87230 GGACGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 3 0.12
22 14 0.58
23 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATATAATATAATTTATAATA
Found at i:93189 original size:20 final size:22
Alignment explanation
Indices: 93151--93190 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
93141 ACGCAGAATA
93151 ATTATATTTATATTATTTTAAT
1 ATTATATTTATATTATTTTAAT
*
93173 ATTAT-TTTATGTT-TTTTA
1 ATTATATTTATATTATTTTA
93191 TTAATCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
ATTATATTTATATTATTTTAAT
Found at i:95287 original size:26 final size:26
Alignment explanation
Indices: 95241--95292 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
95231 TTATTTTTTT
*
95241 AATAAAAATTCAATATTTTATTTAAAA
1 AATAAAAATTCAATATGTTA-TTAAAA
95268 AATAAAACATT-AA-ATGTTATTAAAA
1 AATAAAA-ATTCAATATGTTATTAAAA
95293 TTATAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.26
26 5 0.22
27 9 0.39
28 3 0.13
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (26 bp):
AATAAAAATTCAATATGTTATTAAAA
Found at i:95329 original size:18 final size:19
Alignment explanation
Indices: 95289--95329 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
95279 AAATGTTATT
* *
95289 AAAATTATAATAAATATTA
1 AAAATTATAAGAAATATGA
95308 AAAATT-TAAGAAATATGA
1 AAAATTATAAGAAATATGA
95326 AAAA
1 AAAA
95330 CGTTTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAATTATAAGAAATATGA
Found at i:95414 original size:21 final size:21
Alignment explanation
Indices: 95386--95430 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
95376 TAAATTTTTG
*
95386 AAATTTATTAAAA-AATAAAA
1 AAATTTATGAAAATAATAAAA
*
95406 AAATATTATGAAAATAGTAAAA
1 AAAT-TTATGAAAATAATAAAA
95428 AAA
1 AAA
95431 GATTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 8 0.38
22 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (21 bp):
AAATTTATGAAAATAATAAAA
Found at i:96202 original size:29 final size:29
Alignment explanation
Indices: 96179--96284 Score: 158
Period size: 29 Copynumber: 3.6 Consensus size: 29
96169 TTTTTCTTTG
* *
96179 ATTGTAATTTATAAATAGTTTTTTGGTATTT
1 ATTGTAATTTATAAAAAG--TTATGGTATTT
*
96210 ATTATAATTTATAAAAAGTTATGGTATTT
1 ATTGTAATTTATAAAAAGTTATGGTATTT
*
96239 ATTGTAGTTTATAAAAAGTTATGGTATTT
1 ATTGTAATTTATAAAAAGTTATGGTATTT
96268 ATTGTAATTTATAAAAA
1 ATTGTAATTTATAAAAA
96285 AAGCTGGCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
29 53 0.77
31 16 0.23
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (29 bp):
ATTGTAATTTATAAAAAGTTATGGTATTT
Found at i:96296 original size:29 final size:29
Alignment explanation
Indices: 96202--96338 Score: 143
Period size: 29 Copynumber: 4.7 Consensus size: 29
96192 AATAGTTTTT
*
96202 TGGTATTTATTATAATTTATAAAAAGTTA
1 TGGTATTTATTATAATTTATAAAAAATTA
* * *
96231 TGGTATTTATTGTAGTTTATAAAAAGTTA
1 TGGTATTTATTATAATTTATAAAAAATTA
* ***
96260 TGGTATTTATTGTAATTTATAAAAAAAGC
1 TGGTATTTATTATAATTTATAAAAAATTA
* *
96289 TGGCATTTATTATAATTATTTAAAAAATTA
1 TGGTATTTATTATAATT-TATAAAAAATTA
*
96319 -GGCT-TTTATAATAATTTATA
1 TGG-TATTTATTATAATTTATA
96339 TAAATATTTA
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.03
29 79 0.88
30 8 0.09
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (29 bp):
TGGTATTTATTATAATTTATAAAAAATTA
Found at i:96297 original size:58 final size:59
Alignment explanation
Indices: 96179--96338 Score: 148
Period size: 58 Copynumber: 2.7 Consensus size: 59
96169 TTTTTCTTTG
* * *** *
96179 ATTGTAATTTATAAATAGTTTTTTGGTATTTATTATAATTTATAAAAAGTTATGGTATTT
1 ATTGTAATTTATAAAAAG-TTTATGGTATTTATTATAATTTATAAAAAAAGATGGCATTT
* * *
96239 ATTGTAGTTTATAAAAAG-TTATGGTATTTATTGTAATTTATAAAAAAAGCTGGCATTT
1 ATTGTAATTTATAAAAAGTTTATGGTATTTATTATAATTTATAAAAAAAGATGGCATTT
* * * *
96297 ATTATAATTATTTAAAAA-ATTA-GGCT-TTTATAATAATTTATA
1 ATTGTAATT-TATAAAAAGTTTATGG-TATTTATTATAATTTATA
96339 TAAATATTTA
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
58 56 0.67
59 11 0.13
60 16 0.19
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (59 bp):
ATTGTAATTTATAAAAAGTTTATGGTATTTATTATAATTTATAAAAAAAGATGGCATTT
Found at i:96356 original size:30 final size:30
Alignment explanation
Indices: 96294--96370 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
96284 AAAGCTGGCA
* *
96294 TTTATTATAA-TTATTTAAAAAATTAGGCT
1 TTTATTATAATTTATATAAAAAATTAGACT
* * *
96323 TTTATAATAATTTATATAAATATTTAGACT
1 TTTATTATAATTTATATAAAAAATTAGACT
*
96353 TTTATTGTAATTTA-ATAA
1 TTTATTATAATTTATATAA
96371 TTTTTTATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 13 0.32
30 27 0.68
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (30 bp):
TTTATTATAATTTATATAAAAAATTAGACT
Found at i:100875 original size:17 final size:17
Alignment explanation
Indices: 100824--100875 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
100814 ACATGACATC
*
100824 TATTAATAACTCAAATT
1 TATTAATAACTAAAATT
* *
100841 TATT--TTATTAATAATT
1 TATTAATAACTAA-AATT
100857 TATTAATAACTAAAATT
1 TATTAATAACTAAAATT
100874 TA
1 TA
100876 CTTTATTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
15 4 0.15
16 8 0.30
17 10 0.37
18 5 0.19
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTAATAACTAAAATT
Found at i:100904 original size:30 final size:33
Alignment explanation
Indices: 100824--100896 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
100814 ACATGACATC
* *
100824 TATTAATAACTCAAATTTATTTTATTAATAATT
1 TATTAATAACTAAAATTTACTTTATTAATAATT
*
100857 TATTAATAACTAAAATTTACTTTATTAATATTT
1 TATTAATAACTAAAATTTACTTTATTAATAATT
*
100890 TAATAAT
1 TATTAAT
100897 TTAAATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (33 bp):
TATTAATAACTAAAATTTACTTTATTAATAATT
Found at i:110351 original size:22 final size:25
Alignment explanation
Indices: 110325--110373 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
110315 GTGTTGTTTC
110325 ATTATTAAATA-TA-TAAAA-AAAA
1 ATTATTAAATATTATTAAAATAAAA
*
110347 ATTATTATATATTATTAAAATAAAA
1 ATTATTAAATATTATTAAAATAAAA
110372 AT
1 AT
110374 ATAATATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 2 0.09
24 5 0.22
25 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTATTAAATATTATTAAAATAAAA
Found at i:110369 original size:29 final size:29
Alignment explanation
Indices: 110325--110397 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
110315 GTGTTGTTTC
*
110325 ATTATTAAATATATAAAAAAAAATTAT-TATAT
1 ATTATTAAA-ATA-AAAATAAAA-TATCT-TAT
*
110357 ATTATTAAAATAAAAATATAATATCTTAT
1 ATTATTAAAATAAAAATAAAATATCTTAT
*
110386 ATTATTATAATA
1 ATTATTAAAATA
110398 TAATTGATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 17 0.46
30 8 0.22
31 3 0.08
32 9 0.24
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (29 bp):
ATTATTAAAATAAAAATAAAATATCTTAT
Found at i:110380 original size:24 final size:24
Alignment explanation
Indices: 110338--110385 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
110328 ATTAAATATA
*
110338 TAAAAAAAAATTATTATATATTAT
1 TAAAAAAAAATTATAATATATTAT
*
110362 TAAAATAAAAA-TATAATATCTTAT
1 TAAAA-AAAAATTATAATATATTAT
110386 ATTATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAAAAAAATTATAATATATTAT
Found at i:110438 original size:22 final size:23
Alignment explanation
Indices: 110413--110456 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
110403 GATTATTTTA
110413 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
110435 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
110457 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:110461 original size:22 final size:22
Alignment explanation
Indices: 110417--110473 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
110407 ATTTTATATA
* *
110417 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
110438 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
110460 ATATTTTAAATATT
1 ATATTATAAATATT
110474 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:110472 original size:52 final size:51
Alignment explanation
Indices: 110353--110473 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 51
110343 AAAAATTATT
**
110353 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
110404 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
110458 ATATATTTTAAATATT
1 ATATATTTTAAATATT
110474 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:110715 original size:42 final size:42
Alignment explanation
Indices: 110656--110775 Score: 240
Period size: 42 Copynumber: 2.9 Consensus size: 42
110646 ATGAATTACA
110656 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
110698 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
110740 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
110776 TTCGGGGAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
Found at i:113330 original size:24 final size:24
Alignment explanation
Indices: 113294--113339 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
113284 TGATGATTTT
* *
113294 AAAAAATAGTTAAGTAA-TAAACC
1 AAAAAATAATTAAATAACTAAACC
113317 AAAATAATAATTAAATAACTAAA
1 AAAA-AATAATTAAATAACTAAA
113340 TATGTAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAAAATAATTAAATAACTAAACC
Found at i:121020 original size:16 final size:15
Alignment explanation
Indices: 120994--121023 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
120984 ATTATATAAT
120994 TAAATTAATTATATC
1 TAAATTAATTATATC
121009 TAAATCTAATTATAT
1 TAAAT-TAATTATAT
121024 AGTAATTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATTAATTATATC
Found at i:131536 original size:31 final size:32
Alignment explanation
Indices: 131501--131570 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
131491 TTCTGAACAA
* * * *
131501 TTACAAAATAATCGTTA-AATTTCTCAAACTG
1 TTACAAAACAATCATTATAATTTATCAAAATG
*
131532 TTACAAAACAATCATTATATTTTATCAAAATG
1 TTACAAAACAATCATTATAATTTATCAAAATG
131564 TTACAAA
1 TTACAAA
131571 TTATTATAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (32 bp):
TTACAAAACAATCATTATAATTTATCAAAATG
Found at i:134111 original size:24 final size:24
Alignment explanation
Indices: 134084--134135 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
134074 AATGATAAAC
134084 GAACGGATGTAAACGAACACAAAA
1 GAACGGATGTAAACGAACACAAAA
* *
134108 GAACGGATGTAAACGAACATAAAC
1 GAACGGATGTAAACGAACACAAAA
134132 GAAC
1 GAAC
134136 ACAATAAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.17, G:0.21, T:0.10
Consensus pattern (24 bp):
GAACGGATGTAAACGAACACAAAA
Found at i:134130 original size:10 final size:10
Alignment explanation
Indices: 134117--134220 Score: 55
Period size: 10 Copynumber: 9.4 Consensus size: 10
134107 AGAACGGATG
134117 TAAACGAACA
1 TAAACGAACA
134127 TAAACGAACACAA
1 TAAACG-A-AC-A
*
134140 TAAACGAACG
1 TAAACGAACA
*
134150 TAAATGAACACA
1 TAAACG-A-ACA
* *
134162 AACCAACAAACA
1 TA--AACGAACA
134174 TAAACGAACACAA
1 TAAACG-A-AC-A
*
134187 TAAATGAACA
1 TAAACGAACA
*
134197 TAAACGAACG
1 TAAACGAACA
*
134207 TAAACTAACA
1 TAAACGAACA
134217 TAAA
1 TAAA
134221 TGAAAATATA
Statistics
Matches: 71, Mismatches: 13, Indels: 20
0.68 0.12 0.19
Matches are distributed among these distances:
10 35 0.49
11 7 0.10
12 13 0.18
13 14 0.20
14 2 0.03
ACGTcount: A:0.60, C:0.20, G:0.09, T:0.12
Consensus pattern (10 bp):
TAAACGAACA
Found at i:134147 original size:23 final size:23
Alignment explanation
Indices: 134117--134205 Score: 117
Period size: 23 Copynumber: 3.8 Consensus size: 23
134107 AGAACGGATG
134117 TAAACGAACATAAACGAACACAA
1 TAAACGAACATAAACGAACACAA
* *
134140 TAAACGAACGTAAATGAACACAA
1 TAAACGAACATAAACGAACACAA
*
134163 -ACCAACAAACATAAACGAACACAA
1 TA--AACGAACATAAACGAACACAA
*
134187 TAAATGAACATAAACGAAC
1 TAAACGAACATAAACGAAC
134206 GTAAACTAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
22 1 0.02
23 36 0.64
24 18 0.32
25 1 0.02
ACGTcount: A:0.60, C:0.21, G:0.09, T:0.10
Consensus pattern (23 bp):
TAAACGAACATAAACGAACACAA
Found at i:134448 original size:14 final size:14
Alignment explanation
Indices: 134413--134461 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
134403 ACACATAAAA
*
134413 GAACATAAACGAAT
1 GAACATAAACGAAC
134427 GAACATAAACGAAC
1 GAACATAAACGAAC
* * *
134441 GGATATAAATGAAC
1 GAACATAAACGAAC
134455 GAACATA
1 GAACATA
134462 TTACCAAACG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.14
Consensus pattern (14 bp):
GAACATAAACGAAC
Found at i:138728 original size:59 final size:60
Alignment explanation
Indices: 138639--138768 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 60
138629 TAGATTGATC
*
138639 CCTAAAC-TTTTGAATATTTCAATTCGATCTCCAAACTATGA-CTCATTCTAAATTAGTT
1 CCTAAACTTTTTGAATATCTCAATTCGATCTCCAAACTATGACCTCATTCTAAATTAGTT
* * *
138697 CTTAAACTTTTTGAATAGTCT-AATTTC-ATCTCTAAACTATGACCCTCTTTCTAAATTAGTT
1 CCTAAACTTTTTGAATA-TCTCAA-TTCGATCTCCAAACTATGA-CCTCATTCTAAATTAGTT
*
138758 CCCAAACTTTT
1 CCTAAACTTTT
138769 GGATATTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
58 6 0.10
59 25 0.41
60 5 0.08
61 25 0.41
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (60 bp):
CCTAAACTTTTTGAATATCTCAATTCGATCTCCAAACTATGACCTCATTCTAAATTAGTT
Found at i:140643 original size:228 final size:233
Alignment explanation
Indices: 140248--140686 Score: 649
Period size: 228 Copynumber: 1.9 Consensus size: 233
140238 CCGAGACCCA
140248 ACCCGACCAAAATAAAGTTTCATTTGACCCGACCCGAATATATGAATTAGAAACCGACCCGAAAT
1 ACCCGACCAAAATAAAGTTTC---T-ACCCGACCCGAATATATGAATTAGAAACCGACCCGAAAT
* **
140313 AATAAAAAAATTATTTTTATTCAATAAAAATAGTGACTTAATTCAAAAATATTATATATAGAGGG
62 AATAAAAAAA-TA--TTTATTCAATAAAAACAGTGACTTAATTCAAAAATAAAATATATAGAGGG
* * * *
140378 GTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATAT-TTTTTGGGTGGGATTGAGT
124 GTATTATTATAATTATTCCTAAATATATAAAGTAAAATTATATATATTTTCGGGTCGGATAGAGT
140442 ATTTTTCACCCTAAACCCGAATATCATACTTAAAAAAACCGACCAG
189 A-TTTTCACCCTAAACCCGAATATCATACTTAAAAAAACCGACCAG
140488 ACCCGACCAAAATAAAGTTTC-ACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAAT-A-
1 ACCCGACCAAAATAAAGTTTCTACCCGACCCGAATATATGAATTAGAAA-CCGACCCGAAATAAT
*
140550 AAAAAAA-A-TTATTCAATAAAAACAGTGACTTAATTGAAAAA-AAAATATATAGAGGGGTATTA
65 AAAAAAATATTTATTCAATAAAAACAGTGACTTAATTCAAAAATAAAATATATAGAGGGGTATTA
* * *
140612 TTGTAATTATTCTTAAATATATAAAGTAAAATTATATATATTTTCGGGTCGGATAGGGTATTTTC
130 TTATAATTATTCCTAAATATATAAAGTAAAATTATATATATTTTCGGGTCGGATAGAGTATTTTC
140677 ACCCTAAACC
195 ACCCTAAACC
140687 TGAACTCGAC
Statistics
Matches: 186, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
228 70 0.38
229 47 0.25
232 1 0.01
234 7 0.04
235 28 0.15
236 12 0.06
240 21 0.11
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (233 bp):
ACCCGACCAAAATAAAGTTTCTACCCGACCCGAATATATGAATTAGAAACCGACCCGAAATAATA
AAAAAATATTTATTCAATAAAAACAGTGACTTAATTCAAAAATAAAATATATAGAGGGGTATTAT
TATAATTATTCCTAAATATATAAAGTAAAATTATATATATTTTCGGGTCGGATAGAGTATTTTCA
CCCTAAACCCGAATATCATACTTAAAAAAACCGACCAG
Found at i:159093 original size:51 final size:51
Alignment explanation
Indices: 159037--159138 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
159027 ATTTTTATAC
* *
159037 TAATTTTACTGTGAATAACAATA-AACTATGAATAGTGATTGACCAACAACG
1 TAATTTTACTGTGAATAACAATAGAA-GATGAATAGTGATTCACCAACAACG
** *
159088 TAATTTTGTTGTGAATAACGATAGAAGATGAATAGTGATTCACCAACAACG
1 TAATTTTACTGTGAATAACAATAGAAGATGAATAGTGATTCACCAACAACG
159139 AAAAATAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 43 0.96
52 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (51 bp):
TAATTTTACTGTGAATAACAATAGAAGATGAATAGTGATTCACCAACAACG
Found at i:162896 original size:191 final size:191
Alignment explanation
Indices: 162566--162929 Score: 611
Period size: 191 Copynumber: 1.9 Consensus size: 191
162556 CTCATCTAAG
* *
162566 AAACAATTTTAAGGCTAGCTACTCTTAATTGCATTTGGGACCCTTCATATTTTTATTTTTGACAT
1 AAACAATTTTAAGGCTAGCTACTCTTAATTGCATTTGGGACCCTTCATAGTTTTATTTTGGACAT
162631 ATTAAACATGTAATAGATATGTAATGTTGAAACTCATATGTTTTATAAAAATAAGTAACAAAGAA
66 ATTAAACATGTAATAGATATGTAATGTTGAAACTCATATGTTTTATAAAAATAAGTAACAAAGAA
162696 AGCGATTTAGAAGTTTGTCGTAAATTTAATATTTTGGAATTCATAGGAACAGTTTATTTAA
131 AGCGATTTAGAAGTTTGTCGTAAATTTAATATTTTGGAATTCATAGGAACAGTTTATTTAA
* *
162757 AAACAATTTTAAGGCTTGCTACTCTTAATTGCATTTGGGACCCTTCATAGTTTTATTTTGGACGT
1 AAACAATTTTAAGGCTAGCTACTCTTAATTGCATTTGGGACCCTTCATAGTTTTATTTTGGACAT
* * * * * *
162822 ATTAGACATGTAATAGATATGTATTGTTGAAACTCATCTGTTTTATAAAATTAAGTTATAAAGAA
66 ATTAAACATGTAATAGATATGTAATGTTGAAACTCATATGTTTTATAAAAATAAGTAACAAAGAA
** *
162887 ATTGATTTAGAAGTTTGTTGTAAATTTAATATTTTGGAATTCA
131 AGCGATTTAGAAGTTTGTCGTAAATTTAATATTTTGGAATTCA
162930 AAATCATATC
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
191 160 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (191 bp):
AAACAATTTTAAGGCTAGCTACTCTTAATTGCATTTGGGACCCTTCATAGTTTTATTTTGGACAT
ATTAAACATGTAATAGATATGTAATGTTGAAACTCATATGTTTTATAAAAATAAGTAACAAAGAA
AGCGATTTAGAAGTTTGTCGTAAATTTAATATTTTGGAATTCATAGGAACAGTTTATTTAA
Found at i:163896 original size:24 final size:24
Alignment explanation
Indices: 163859--163927 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
163849 GCGGAGATAT
*
163859 CAGAAATCAAAACAGAATTCAAAA
1 CAGAAATCAGAACAGAATTCAAAA
* * * * * *
163883 CATATATCAGAACAAAATCCAGAT
1 CAGAAATCAGAACAGAATTCAAAA
163907 CAGAAATCAGAACAGAATTCA
1 CAGAAATCAGAACAGAATTCA
163928 GGTCATGTGT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.55, C:0.19, G:0.10, T:0.16
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAAAA
Found at i:163928 original size:12 final size:12
Alignment explanation
Indices: 163859--163928 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
163849 GCGGAGATAT
* *
163859 CAGAAATCAAAA
1 CAGAATTCAGAA
*
163871 CAGAATTCAAAA
1 CAGAATTCAGAA
*
163883 CA-TATATCAGAA
1 CAGAAT-TCAGAA
* * *
163895 CAAAATCCAGAT
1 CAGAATTCAGAA
*
163907 CAGAAATCAGAA
1 CAGAATTCAGAA
163919 CAGAATTCAG
1 CAGAATTCAG
163929 GTCATGTGTC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.54, C:0.19, G:0.11, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:190506 original size:39 final size:39
Alignment explanation
Indices: 190462--190589 Score: 96
Period size: 39 Copynumber: 3.2 Consensus size: 39
190452 AAGAAAGATA
190462 GAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCC
1 GAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCC
* ** * ** * ** * * **
190501 GAGCAAGATGGAACAGCCAAGAAGAAAGAGAAAAGAAA-GATA
1 GAGCAAGA-GCAGGA-TCTTGCAG-TGGAGAAGACAAACG-CC
190543 GAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCC
1 GAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCC
190582 GAGCAAGA
1 GAGCAAGA
190590 TGGAACAGCC
Statistics
Matches: 58, Mismatches: 26, Indels: 10
0.62 0.28 0.11
Matches are distributed among these distances:
39 25 0.43
40 8 0.14
41 8 0.14
42 17 0.29
ACGTcount: A:0.44, C:0.16, G:0.32, T:0.08
Consensus pattern (39 bp):
GAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCC
Found at i:190543 original size:81 final size:81
Alignment explanation
Indices: 190438--190616 Score: 326
Period size: 81 Copynumber: 2.2 Consensus size: 81
190428 GCTAAATCGG
*
190438 AGAAAAAAGAAGAAAAGAAAGATAGAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCCGA
1 AGAAGAAAG-AGAAAAGAAAGATAGAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCCGA
190503 GCAAGATGGAACAGCCA
65 GCAAGATGGAACAGCCA
190520 AGAAGAAAGAGAAAAGAAAGATAGAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCCGAG
1 AGAAGAAAGAGAAAAGAAAGATAGAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCCGAG
190585 CAAGATGGAACAGCCA
66 CAAGATGGAACAGCCA
190601 AGAAG-AAGA-AAAAGAA
1 AGAAGAAAGAGAAAAGAA
190617 GAGCAAAGAT
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
79 7 0.07
80 4 0.04
81 77 0.80
82 8 0.08
ACGTcount: A:0.50, C:0.13, G:0.30, T:0.07
Consensus pattern (81 bp):
AGAAGAAAGAGAAAAGAAAGATAGAGCAAGAGCAGGATCTTGCAGTGGAGAAGACAAACGCCGAG
CAAGATGGAACAGCCA
Found at i:192271 original size:28 final size:26
Alignment explanation
Indices: 192229--192282 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 26
192219 ACTAAATGTG
192229 TAGTTTACCTAAAATGTAATAGCTCATA
1 TAGTTTACCTAAAATGT--TAGCTCATA
*
192257 TAGTTTACCTCAAATGTTAGCTCATA
1 TAGTTTACCTAAAATGTTAGCTCATA
192283 AAATTATGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 9 0.36
28 16 0.64
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (26 bp):
TAGTTTACCTAAAATGTTAGCTCATA
Found at i:197360 original size:17 final size:15
Alignment explanation
Indices: 197328--197364 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
197318 GAAAGTCAAC
197328 GGTCAACGTCGGTCG
1 GGTCAACGTCGGTCG
197343 GGTCAACGGTCGGGTCG
1 GGTCAAC-GTC-GGTCG
197360 GGTCA
1 GGTCA
197365 GACCGGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 3 0.15
17 10 0.50
ACGTcount: A:0.14, C:0.24, G:0.43, T:0.19
Consensus pattern (15 bp):
GGTCAACGTCGGTCG
Done.