Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold12
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: 2382857
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 280777 characters in sequence are not A, C, G, or T
File 9 of 12
Found at i:1761439 original size:7 final size:7
Alignment explanation
Indices: 1761417--1761456 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
1761407 ATATGGACCT
1761417 TTTTTTA
1 TTTTTTA
*
1761424 -TTATTA
1 TTTTTTA
1761430 TTTTTTA
1 TTTTTTA
1761437 TTTTTTA
1 TTTTTTA
*
1761444 TTTTTTG
1 TTTTTTA
1761451 TTTTTT
1 TTTTTT
1761457 TTGTGAAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:1761454 original size:13 final size:13
Alignment explanation
Indices: 1761417--1761455 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1761407 ATATGGACCT
*
1761417 TTTTTTATTATTA
1 TTTTTTATTTTTA
1761430 TTTTTTATTTTTTA
1 TTTTTTA-TTTTTA
*
1761444 TTTTTTGTTTTT
1 TTTTTTATTTTT
1761456 TTTGTGAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:1766995 original size:22 final size:22
Alignment explanation
Indices: 1766967--1767013 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
1766957 GGCTCTATAC
1766967 TTTCCTTTTAAAGGAAAGGTAG
1 TTTCCTTTTAAAGGAAAGGTAG
1766989 TTTCCTTTTAAAGGAAAGGTAG
1 TTTCCTTTTAAAGGAAAGGTAG
1767011 TTT
1 TTT
1767014 TCGATGTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (22 bp):
TTTCCTTTTAAAGGAAAGGTAG
Found at i:1769178 original size:42 final size:41
Alignment explanation
Indices: 1769119--1769243 Score: 166
Period size: 42 Copynumber: 3.0 Consensus size: 41
1769109 AGTAGCCCTC
1769119 AAAGAGAA-AGTAGAGATATGAGGGATGATAGGAGGAGAGATA
1 AAAGA-AATAGTAGAGATA-GAGGGATGATAGGAGGAGAGATA
1769161 AAAGAAATAGTAGAGATAGAAGGGATGATAGGAGGAGAGATA
1 AAAGAAATAGTAGAGATAG-AGGGATGATAGGAGGAGAGATA
1769203 GAAGAGATAATAG-AGAGA-AGAGGGATGATAGGAGGATGAGA
1 -AA-AGA-AATAGTAGAGATAGAGGGATGATAGGAGGA-GAGA
1769244 GAAGAAGATG
Statistics
Matches: 77, Mismatches: 0, Indels: 11
0.88 0.00 0.12
Matches are distributed among these distances:
41 3 0.04
42 53 0.69
43 8 0.10
44 8 0.10
45 5 0.06
ACGTcount: A:0.48, C:0.00, G:0.38, T:0.14
Consensus pattern (41 bp):
AAAGAAATAGTAGAGATAGAGGGATGATAGGAGGAGAGATA
Found at i:1779671 original size:20 final size:21
Alignment explanation
Indices: 1779634--1779681 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
1779624 ATCAGTTTTG
*
1779634 AAAA-TTTCCTTTTATTTCAT
1 AAAATTTTCATTTTATTTCAT
*
1779654 AAAATTTTCATTTT-TTTCTT
1 AAAATTTTCATTTTATTTCAT
*
1779674 GAAATTTT
1 AAAATTTT
1779682 TTGTTCTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.58
Consensus pattern (21 bp):
AAAATTTTCATTTTATTTCAT
Found at i:1780187 original size:11 final size:12
Alignment explanation
Indices: 1780173--1780218 Score: 67
Period size: 13 Copynumber: 3.8 Consensus size: 12
1780163 GCAAATAGAG
1780173 AAAAAAGAAAGAA
1 AAAAAAGAAAG-A
1780186 AAAAAAGAAAG-
1 AAAAAAGAAAGA
*
1780197 AAAAAAGAGAGA
1 AAAAAAGAAAGA
1780209 AAAAAAGAAA
1 AAAAAAGAAA
1780219 AGTAAAGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 10 0.33
12 9 0.30
13 11 0.37
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:1780191 original size:13 final size:13
Alignment explanation
Indices: 1780173--1780225 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 13
1780163 GCAAATAGAG
1780173 AAAAAAGAAAGAA
1 AAAAAAGAAAGAA
1780186 AAAAAAGAAAGAA
1 AAAAAAGAAAGAA
1780199 AAAAGAGAGAAA-AA
1 AAAA-A-AGAAAGAA
1780213 AAGAAAAGTAAAG
1 AA-AAAAG-AAAG
1780226 GCAAACCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 19 0.54
14 9 0.26
15 7 0.20
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAGAA
Found at i:1780220 original size:24 final size:24
Alignment explanation
Indices: 1780171--1780218 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1780161 GGGCAAATAG
1780171 AGAAAAAAGAAAGAAAAAAAAGAA
1 AGAAAAAAGAAAGAAAAAAAAGAA
*
1780195 AGAAAAAAGAGAG-AAAAAAAGAA
1 AGAAAAAAGAAAGAAAAAAAAGAA
1780218 A
1 A
1780219 AGTAAAGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (24 bp):
AGAAAAAAGAAAGAAAAAAAAGAA
Found at i:1781433 original size:142 final size:142
Alignment explanation
Indices: 1781144--1781457 Score: 400
Period size: 142 Copynumber: 2.2 Consensus size: 142
1781134 ATCTGCGGGG
* * * * *
1781144 GTATGGAAATTTTTAAAACTTTTCGTATCTTTTTGGTTCTCCATTAAGGTTGGAATGATTTTTTT
1 GTATAGAAATTTTTAAAACTTTTCGTATCTTTTTGATCCTCCATTAAGGTCGAAATGA-TTTTTT
* *
1781209 TAAAAACAATAAAAATTAAATAAAAATTATTTTCTTAATTTTTCAAGATTTCTAATAGTCCTATG
65 TAAAAACAATAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATAGTCCTATA
* **
1781274 GTTTTCCATAGGG
130 ATTTTCCATAGAA
* *
1781287 GTATAGAAATCTTCAAAACTTTTCGTATCTTTTTGATCCTCCATTAAGGTACGAAATGA-TTTTT
1 GTATAGAAATTTTTAAAACTTTTCGTATCTTTTTGATCCTCCATTAAGGT-CGAAATGATTTTTT
** * * *
1781351 TAGAAATTAA-AAAAATTAAATAAAAATTGTTATCTTAATTTTTCAAGATTTCTAATATTCTTAT
65 TA-AAAACAATAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATAGTCCTAT
* *
1781415 AATTTTTCGTAGAA
129 AATTTTCCATAGAA
1781429 GTATA-AAATTTTTTAAAACTTTTCGTATC
1 GTATAGAAA-TTTTTAAAACTTTTCGTATC
1781458 CCTTGGTTTT
Statistics
Matches: 147, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
141 3 0.02
142 88 0.60
143 50 0.34
144 6 0.04
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (142 bp):
GTATAGAAATTTTTAAAACTTTTCGTATCTTTTTGATCCTCCATTAAGGTCGAAATGATTTTTTT
AAAAACAATAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATAGTCCTATAA
TTTTCCATAGAA
Found at i:1784905 original size:21 final size:21
Alignment explanation
Indices: 1784879--1784920 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1784869 TTGTCCTCTT
*
1784879 TAAATCAAGATTCTAGACCTG
1 TAAATCAAGATTCCAGACCTG
1784900 TAAATCAAGATTCCAGACCTG
1 TAAATCAAGATTCCAGACCTG
1784921 GGAATCGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (21 bp):
TAAATCAAGATTCCAGACCTG
Found at i:1784926 original size:21 final size:21
Alignment explanation
Indices: 1784880--1784926 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1784870 TGTCCTCTTT
* *
1784880 AAATCAAGATTCTAGACCTGT
1 AAATCAAGATTCCAGACCTGG
1784901 AAATCAAGATTCCAGACCTGG
1 AAATCAAGATTCCAGACCTGG
*
1784922 GAATC
1 AAATC
1784927 GTAGTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (21 bp):
AAATCAAGATTCCAGACCTGG
Found at i:1787106 original size:13 final size:13
Alignment explanation
Indices: 1787088--1787113 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1787078 CAATTTTTTG
1787088 TGTATCGATACAT
1 TGTATCGATACAT
1787101 TGTATCGATACAT
1 TGTATCGATACAT
1787114 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1789512 original size:21 final size:21
Alignment explanation
Indices: 1789488--1789534 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1789478 TTTGATGCTG
1789488 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAA-GAAGT
1789508 -TATTTGAAGTGAAAAAGAAGT
1 AT-TTTGAAGTGAAAAAGAAGT
1789529 ATTTTG
1 ATTTTG
1789535 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 10 0.43
22 8 0.35
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAAGAAGT
Found at i:1789673 original size:13 final size:13
Alignment explanation
Indices: 1789655--1789693 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1789645 ATAATCACCC
*
1789655 TGTATCGATACAG
1 TGTATCGATACAA
1789668 TGTATCGATACAA
1 TGTATCGATACAA
1789681 TGTATCGATACAA
1 TGTATCGATACAA
1789694 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1789704 original size:20 final size:20
Alignment explanation
Indices: 1789679--1789757 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1789669 GTATCGATAC
1789679 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1789699 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1789724 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1789744 CATGTATCGATACA
1 AATGTATCGATACA
1789758 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1791801 original size:15 final size:15
Alignment explanation
Indices: 1791765--1791802 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1791755 TTCATCAATT
* *
1791765 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
1791780 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
1791795 TCATTTTG
1 TCATTTTG
1791803 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:1793635 original size:21 final size:21
Alignment explanation
Indices: 1793606--1793650 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1793596 AAGTTTTCAT
*
1793606 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1793626 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1793648 TTT
1 TTT
1793651 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1795881 original size:13 final size:13
Alignment explanation
Indices: 1795863--1795888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1795853 CAATTTTTTG
1795863 TGTATCGATACAT
1 TGTATCGATACAT
1795876 TGTATCGATACAT
1 TGTATCGATACAT
1795889 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1802125 original size:81 final size:80
Alignment explanation
Indices: 1801991--1802140 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 80
1801981 ACAAGGACTC
* * * * *
1801991 TCCTATCTAATAAGGTAAAGTCTATTCCTTATTCTAATATGGTTAGGACTTATCTAAACGACTTA
1 TCCTATCTAATAAGGTAAAGTCTACTCCTTATTCTAATATGATTAGGAATTATCTAAACAAATTA
1802056 AAATCCTAAATATAA
66 AAATCCTAAATATAA
* *
1802071 TCCTAATC-AATAAGGATAAAGTCTACTCCTTA-TCATATTTTGATTAGGAATTATCTAAACAAA
1 TCCT-ATCTAATAAGG-TAAAGTCTACTCCTTATTC-TAATATGATTAGGAATTATCTAAACAAA
1802134 TTAAAAT
63 TTAAAAT
1802141 TAAAAAGTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
80 13 0.22
81 47 0.78
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (80 bp):
TCCTATCTAATAAGGTAAAGTCTACTCCTTATTCTAATATGATTAGGAATTATCTAAACAAATTA
AAATCCTAAATATAA
Found at i:1805980 original size:148 final size:147
Alignment explanation
Indices: 1805593--1805980 Score: 466
Period size: 148 Copynumber: 2.6 Consensus size: 147
1805583 TAAAAAATTG
* * * *
1805593 AAAAGATATGAAAAGTTTTGAAGATTTCTATACCCAAACAAAAAAAACCATAGGAATATCAAAAA
1 AAAAGATATGAAAAGTTTTGAAGATTTCTATATCCATAC--GAAAAACCATAGGAATATTAAAAA
* * ** *
1805658 TCTTGAAAAAGTAAGATAATAA--TT-TTT-TGTTTAATTTTTTAATTTCAAAAAATTTTGTTTT
64 TCTTGAAAAATTAAGATAATAATTTTATTTATGTTTAATTTTTTAATTTCAAAAAAATTCATTTC
1805719 GTACCTTAATGGAAAACCA
129 GTACCTTAATGGAAAACCA
* *
1805738 AAAAGATATGAAAAGTTTTAAAGATTTCTATATCCCTACG-AAAACCATAGGAATATTAAAAAT-
1 AAAAGATATGAAAAGTTTTGAAGATTTCTATATCCATACGAAAAACCATAGGAATATTAAAAATC
* * *
1805801 TATGAAAAAATTAAGATAATAGATTTCATTTAATTTTTAA-TTTTTAATTTTAAAAAAATTCATT
66 T-TG-AAAAATTAAGATAATA-ATTTTATTT-ATGTTTAATTTTTTAATTTCAAAAAAATTCATT
* *
1805865 TCGTACCTTAATGGAGAACTA
127 TCGTACCTTAATGGAAAACCA
* * * **
1805886 AAAAGATACGAAGAGTTTTGAAGATTTCTATATCCTTACGAAAAACCATAGGAATATTGGAAATC
1 AAAAGATATGAAAAGTTTTGAAGATTTCTATATCCATACGAAAAACCATAGGAATATTAAAAATC
*
1805951 TTGAAAAATTAAGAAAATAATTTTTATTTA
66 TTGAAAAATTAAGATAATAA-TTTTATTTA
1805981 GTGATAAAAT
Statistics
Matches: 208, Mismatches: 24, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
141 1 0.00
142 24 0.12
143 15 0.07
144 1 0.00
145 35 0.17
146 1 0.00
147 5 0.02
148 96 0.46
149 29 0.14
150 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (147 bp):
AAAAGATATGAAAAGTTTTGAAGATTTCTATATCCATACGAAAAACCATAGGAATATTAAAAATC
TTGAAAAATTAAGATAATAATTTTATTTATGTTTAATTTTTTAATTTCAAAAAAATTCATTTCGT
ACCTTAATGGAAAACCA
Found at i:1806921 original size:18 final size:19
Alignment explanation
Indices: 1806898--1806939 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
1806888 TTTGGCTTAA
1806898 TTTTTC-TATTTTCTCTTT-
1 TTTTTCTTATTTT-TCTTTC
1806916 TTTTTCTTATTTTTCTTTC
1 TTTTTCTTATTTTTCTTTC
1806935 TTTTT
1 TTTTT
1806940 TTCTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTCTTATTTTTCTTTC
Found at i:1806934 original size:13 final size:12
Alignment explanation
Indices: 1806907--1806951 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
1806897 ATTTTTCTAT
*
1806907 TTTCTCTTTTT-
1 TTTCTTTTTTTC
1806918 TTTCTTATTTTTC
1 TTTCTT-TTTTTC
1806931 TTTCTTTTTTTC
1 TTTCTTTTTTTC
1806943 --TCTTTTTTT
1 TTTCTTTTTTT
1806952 TAATGCTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
10 9 0.29
11 5 0.16
12 11 0.35
13 6 0.19
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:1806950 original size:10 final size:10
Alignment explanation
Indices: 1806906--1806951 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
1806896 AATTTTTCTA
1806906 TTTTCTCTTT
1 TTTTCTCTTT
1806916 TTTT-TCTTAT
1 TTTTCTCTT-T
1806926 TTTTCTTTCTTT
1 TTTTC--TCTTT
1806938 TTTTCTCTTT
1 TTTTCTCTTT
1806948 TTTT
1 TTTT
1806952 TAATGCTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 4 0.12
10 18 0.56
12 6 0.19
13 4 0.12
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:1807767 original size:156 final size:158
Alignment explanation
Indices: 1807605--1808224 Score: 777
Period size: 167 Copynumber: 3.8 Consensus size: 158
1807595 CATGAAAATG
* * *
1807605 AATGAA-TTTTTGAAAAATAATTTCATATGAATTAAATAATAATATTTTATAAATTTTAAAAAAT
1 AATGAATTTTTTGAAAAATTATTTAATATGAATTAAATAATAATATTTTATGAATTTT-AAAAAT
* * * * *
1807669 TAAAAA-CTAAGGAAAATCTCCCAAAAAACATTTACGGAGTAGAAAACTTCATATTTCGAAAATA
65 TAAAAAGC-AAGGAAAATCCCCCTAAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATA
*
1807733 GGAGAATTTTAAGGAAAAA-TGAAAAATTC
129 GGAGAATTGTAAGGAAAAATTGAAAAATTC
* * *
1807762 -ATGAA-TTTTTGAAAAATGATTTAATATGAATTAAATAATAATATTTGATGAATATTAAAAATT
1 AATGAATTTTTTGAAAAATTATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATT
1807825 AAAAAGCAAGGAAAATCCCCCTAAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATAGG
66 AAAAAGCAAGGAAAATCCCCCTAAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATAGG
1807890 AGAATTGTAAGGAAAAATTGAAAAATTCATGAAAC
131 AGAATTGTAAGGAAAAATTGAAAAA-T--T----C
* *
1807925 TGAATGAATTTTTTGAACACTTATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAA
1 --AATGAATTTTTTGAAAAATTATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAA
1807990 TTAAAAAGCAAGGAAAATCCCCCTAAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATA
64 TTAAAAAGCAAGGAAAATCCCCCTAAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATA
1808055 GGAGAATTGTAAGGAAAAATTGAAAAATTC
129 GGAGAATTGTAAGGAAAAATTGAAAAATTC
* *
1808085 ATGAAAATGAATGAATTTTTTGAACACTTATTTAATATGAATTAAATAATAATATTTTATGAATT
1 ---------AATGAATTTTTTGAAAAATTATTTAATATGAATTAAATAATAATATTTTATGAATT
* * * * * * * *
1808150 TTAGAAATTAAAAACCCAGGAAAAT-CCTCTCGAAAATATTTAC-GAAGTAGAAAAGTCCGTATT
57 TTAAAAATTAAAAAGCAAGGAAAATCCCCCT-AAAAACATTTACAG-AGTAGAAAACTCCATATT
1808213 TCAAAAATAGGA
120 TCAAAAATAGGA
1808225 AGATTTCAAA
Statistics
Matches: 417, Mismatches: 24, Indels: 34
0.88 0.05 0.07
Matches are distributed among these distances:
155 81 0.19
156 59 0.14
157 1 0.00
159 1 0.00
160 1 0.00
163 1 0.00
164 1 0.00
166 11 0.03
167 261 0.63
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (158 bp):
AATGAATTTTTTGAAAAATTATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATT
AAAAAGCAAGGAAAATCCCCCTAAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATAGG
AGAATTGTAAGGAAAAATTGAAAAATTC
Found at i:1808033 original size:322 final size:322
Alignment explanation
Indices: 1807441--1808224 Score: 902
Period size: 322 Copynumber: 2.4 Consensus size: 322
1807431 TGAAATAATT
* * * * *
1807441 TGAATTTTTTAAAACTGATTTAATATGAATTTAATTACAATATTATATGAATTTTAAAAAATT-T
1 TGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATT-TATGAATTTT-AAAAATTAA
* ** * * * * * ****
1807505 AAACCAAGAAAAATCCCCCCCAAAATATTTATGGAATAGAAAATTCAATTTTTTGCTAATAGG-G
64 AAACCAAGGAAAATCCCCCTAAAAATATTTA-CGAGTAGAAAACTCCATATTTCAAAAATAGGAG
* *
1807569 AAATTTCAAAGAAAAAATTCAAAACTCATGAAAATGAATGAATTTTTGAAAAATAATTTCATATG
128 AAATTT-AAAGAAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAATTTAATATG
*
1807634 AATTAAATAATAATATTTTATAAATTTTAAAAAATTAAAAACTAAGGAAAATCTCCCAAAAAACA
192 AATTAAATAATAATATTTTATAAATTTTAAAAAATTAAAAACTAAGGAAAATCCCCCAAAAAACA
* * * *
1807699 TTTACGGAGTAGAAAACTTCATATTTCGAAAATAGGAGAATTTTAAGGAAAAA-TGAAAAATTC-
257 TTTACAGAGTAGAAAACTCCATATTTCAAAAATAGGAGAATTGTAAGGAAAAATTGAAAAATTCA
1807762 A
322 A
* *
1807763 TGAATTTTTGAAAAATGATTTAATATGAATTAAATAATAATATTTGATGAATATTAAAAATTAAA
1 TGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTT-ATGAATTTTAAAAATTAAA
* *
1807828 AAGCAAGGAAAATCCCCCTAAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATAGGAG-
65 AACCAAGGAAAATCCCCCTAAAAATATTTAC-GAGTAGAAAACTCCATATTTCAAAAATAGGAGA
* * * * * *
1807892 AATTGT-AAGGAAAAATTGAAAAATTCATGAAACTGAATGAATTTTTTGAACACTTATTTAATAT
129 AATT-TAAAGAAAAAATT-AAAAACTCATGAAAATGAATGAA-TTTTTGAAAAATAATTTAATAT
* *
1807956 GAATTAAATAATAATATTTTATGAATTTT-AAAAATTAAAAAGC-AAGGAAAATCCCCCTAAAAA
191 GAATTAAATAATAATATTTTATAAATTTTAAAAAATTAAAAA-CTAAGGAAAATCCCCCAAAAAA
1808019 CATTTACAGAGTAGAAAACTCCATATTTCAAAAATAGGAGAATTGTAAGGAAAAATTGAAAAATT
255 CATTTACAGAGTAGAAAACTCCATATTTCAAAAATAGGAGAATTGTAAGGAAAAATTGAAAAATT
1808084 CATGAAAATGAA
320 C---------AA
* * *
1808096 TGAATTTTTTGAACACTTATTTAATATGAATTAAATAATAATATTTTATGAATTTTAGAAATTAA
1 TGAA-TTTTTGAAAACTGATTTAATATGAATTAAATAATAATA-TTTATGAATTTTAAAAATTAA
* * * * *
1808161 AAACCCAGGAAAAT-CCTCTCGAAAATATTTACGAAGTAGAAAAGTCCGTATTTCAAAAATAGGA
64 AAACCAAGGAAAATCCCCCT-AAAAATATTTACG-AGTAGAAAACTCCATATTTCAAAAATAGGA
1808225 AGATTTCAAA
Statistics
Matches: 391, Mismatches: 48, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
321 18 0.05
322 200 0.51
323 59 0.15
333 10 0.03
334 101 0.26
335 3 0.01
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (322 bp):
TGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTATGAATTTTAAAAATTAAAA
ACCAAGGAAAATCCCCCTAAAAATATTTACGAGTAGAAAACTCCATATTTCAAAAATAGGAGAAA
TTTAAAGAAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAATTTAATATGAATT
AAATAATAATATTTTATAAATTTTAAAAAATTAAAAACTAAGGAAAATCCCCCAAAAAACATTTA
CAGAGTAGAAAACTCCATATTTCAAAAATAGGAGAATTGTAAGGAAAAATTGAAAAATTCAA
Found at i:1809365 original size:43 final size:43
Alignment explanation
Indices: 1809316--1809552 Score: 214
Period size: 43 Copynumber: 5.6 Consensus size: 43
1809306 GGATTAAAAT
* *
1809316 CGACAAGTCAACCAAGGATAAAAGGATTTACCTGGGACTAAGC
1 CGACAAGTAAACAAAGGATAAAAGGATTTACCTGGGACTAAGC
* * *
1809359 CGACAAGTAAAGAAAGGATAAAAAGG-TTGACC-GGGATTGAA-C
1 CGACAAGTAAACAAAGGAT-AAAAGGATTTACCTGGGACT-AAGC
* * *
1809401 TGACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTAAGC
1 CGACAAGTAAACAAAGGATAAAAGGATTTACCTGGGACTAAGC
* * * * ** * *
1809444 CAATAGGTAAACAAAGGATAAAAAGG-TTGACC-AAGATTAAAC
1 CGACAAGTAAACAAAGGAT-AAAAGGATTTACCTGGGACTAAGC
* * *
1809486 CGACAAGTCAACAAAGGATAAAAGGATTTACATGAGACTAAGC
1 CGACAAGTAAACAAAGGATAAAAGGATTTACCTGGGACTAAGC
* * *
1809529 TGACAAATAAACAAAGGATGAAAG
1 CGACAAGTAAACAAAGGATAAAAG
1809553 AGTTAATCGA
Statistics
Matches: 153, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
41 12 0.08
42 55 0.36
43 74 0.48
44 12 0.08
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.16
Consensus pattern (43 bp):
CGACAAGTAAACAAAGGATAAAAGGATTTACCTGGGACTAAGC
Found at i:1809417 original size:42 final size:41
Alignment explanation
Indices: 1809285--1809508 Score: 175
Period size: 43 Copynumber: 5.3 Consensus size: 41
1809275 ACAGGTAAAT
* *
1809285 AAAGAATATAAAA-GTTGACCAGGATTAAAATCGACAAGTCAAC
1 AAAGGATA-AAAAGGTTGACCAGGATT--AACCGACAAGTCAAC
* * * * * *
1809328 CAAGGAT-AAAAGGATTTACCTGGGACTAAGCCGACAAGTAAAG
1 AAAGGATAAAAAGG-TTGACC-AGGATTAA-CCGACAAGTCAAC
* *
1809371 AAAGGATAAAAAGGTTGACCGGGATTGAACTGACAAGTCAAC
1 AAAGGATAAAAAGGTTGACCAGGATT-AACCGACAAGTCAAC
* * * * * *
1809413 AAAGGAT-AAAAGGATTTACCTAGGACTAAGCCAATAGGTAAAC
1 AAAGGATAAAAAGG-TTGACC-AGGATTAA-CCGACAAGTCAAC
*
1809456 AAAGGATAAAAAGGTTGACCAAGATTAAACCGACAAGTCAAC
1 AAAGGATAAAAAGGTTGACCAGGATT-AACCGACAAGTCAAC
1809498 AAAGGATAAAA
1 AAAGGATAAAA
1809509 GGATTTACAT
Statistics
Matches: 141, Mismatches: 29, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
41 10 0.07
42 56 0.40
43 59 0.42
44 16 0.11
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (41 bp):
AAAGGATAAAAAGGTTGACCAGGATTAACCGACAAGTCAAC
Found at i:1809429 original size:85 final size:85
Alignment explanation
Indices: 1809257--1809547 Score: 370
Period size: 85 Copynumber: 3.4 Consensus size: 85
1809247 GTGAAAGGGG
* * * * * *
1809257 TTACCTAGGACTAAGCTGACAGGTAAATAAAGAATATAAAA-GTTGACCAGGATTAAAATCGACA
1 TTACCTAGGACTAAGCCGACAAGTAAACAAAGGATA-AAAAGGTTGACCAAGATTAAACT-GACA
*
1809321 AGTCAACCAAGGATAAAAGGAT
64 AGTCAACAAAGGATAAAAGGAT
* * ** *
1809343 TTACCTGGGACTAAGCCGACAAGTAAAGAAAGGATAAAAAGGTTGACCGGGATTGAACTGACAAG
1 TTACCTAGGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGACCAAGATTAAACTGACAAG
1809408 TCAACAAAGGATAAAAGGAT
66 TCAACAAAGGATAAAAGGAT
* * * *
1809428 TTACCTAGGACTAAGCCAATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTAAACCGACAAG
1 TTACCTAGGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGACCAAGATTAAACTGACAAG
1809493 TCAACAAAGGATAAAAGGAT
66 TCAACAAAGGATAAAAGGAT
* * *
1809513 TTACAT-GAGACTAAGCTGACAAATAAACAAAGGAT
1 TTACCTAG-GACTAAGCCGACAAGTAAACAAAGGAT
1809548 GAAAGAGTTA
Statistics
Matches: 179, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 132 0.74
86 46 0.26
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.18
Consensus pattern (85 bp):
TTACCTAGGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGACCAAGATTAAACTGACAAG
TCAACAAAGGATAAAAGGAT
Found at i:1809579 original size:85 final size:85
Alignment explanation
Indices: 1809257--1809593 Score: 351
Period size: 85 Copynumber: 4.0 Consensus size: 85
1809247 GTGAAAGGGG
* * * * * *
1809257 TTACCT-AGGACTAAGCTGACAGGTAAATAAAGAATATAAAA-GTTGACC-AGGATTAAAATCGA
1 TTACCTGA-GACTAAGCCGACAAGTAAACAAAGGATA-AAAAGGTTGACCGA-GATTGAACT-GA
*
1809319 CAAGTCAACCAAGGATAAAAGGAT
62 CAAGTCAACAAAGGATAAAAGGAT
* * *
1809343 TTACCTGGGACTAAGCCGACAAGTAAAGAAAGGATAAAAAGGTTGACCGGGATTGAACTGACAAG
1 TTACCTGAGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGACCGAGATTGAACTGACAAG
1809408 TCAACAAAGGATAAAAGGAT
66 TCAACAAAGGATAAAAGGAT
* * * * * *
1809428 TTACCT-AGGACTAAGCCAATAGGTAAACAAAGGATAAAAAGGTTGACCAAGATTAAACCGACAA
1 TTACCTGA-GACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGACCGAGATTGAACTGACAA
1809492 GTCAACAAAGGATAAAAGGAT
65 GTCAACAAAGGATAAAAGGAT
* * * * * * * * *
1809513 TTACATGAGACTAAGCTGACAAATAAACAAAGGAT-GAAAGAGTTAATCGAGAATGAAGTGATAA
1 TTACCTGAGACTAAGCCGACAAGTAAACAAAGGATAAAAAG-GTTGACCGAGATTGAACTGACAA
*
1809577 GTCAACAAATGATAAAA
65 GTCAACAAAGGATAAAA
1809594 AACTTAACTA
Statistics
Matches: 211, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
84 4 0.02
85 162 0.77
86 45 0.21
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (85 bp):
TTACCTGAGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGACCGAGATTGAACTGACAAG
TCAACAAAGGATAAAAGGAT
Found at i:1809581 original size:170 final size:171
Alignment explanation
Indices: 1809257--1809593 Score: 446
Period size: 170 Copynumber: 2.0 Consensus size: 171
1809247 GTGAAAGGGG
** * * *
1809257 TTACCTAGGACTAAGCTGACAGGTAAATAAAGAATATAAAAGTTGACCAGGATTAAAATCGACAA
1 TTACCTAGGACTAAGCCAACAGGTAAACAAAGAATATAAAAGTTGACCAAGATTAAAACCGACAA
* * * * *
1809322 GTCAACCAAGGATAAAAGGATTTACCTGGGACTAAGCCGACAAGTAAAGAAAGGATAAAAAGGTT
66 GTCAACAAAGGATAAAAGGATTTACATGAGACTAAGCCGACAAATAAACAAAGGATAAAAAGGTT
* * *
1809387 GACCGGGATTGAACTGACAAGTCAACAAAGGATAAAAGGAT
131 AACCGAGAATGAACTGACAAGTCAACAAAGGATAAAAGGAT
* *
1809428 TTACCTAGGACTAAGCCAATAGGTAAACAAAGGATA-AAAAGGTTGACCAAGATT-AAACCGACA
1 TTACCTAGGACTAAGCCAACAGGTAAACAAAGAATATAAAA-GTTGACCAAGATTAAAACCGACA
* *
1809491 AGTCAACAAAGGATAAAAGGATTTACATGAGACTAAGCTGACAAATAAACAAAGGAT-GAAAGAG
65 AGTCAACAAAGGATAAAAGGATTTACATGAGACTAAGCCGACAAATAAACAAAGGATAAAAAG-G
* * * *
1809555 TTAATCGAGAATGAAGTGATAAGTCAACAAATGATAAAA
129 TTAACCGAGAATGAACTGACAAGTCAACAAAGGATAAAA
1809594 AACTTAACTA
Statistics
Matches: 143, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
169 4 0.03
170 96 0.67
171 43 0.30
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (171 bp):
TTACCTAGGACTAAGCCAACAGGTAAACAAAGAATATAAAAGTTGACCAAGATTAAAACCGACAA
GTCAACAAAGGATAAAAGGATTTACATGAGACTAAGCCGACAAATAAACAAAGGATAAAAAGGTT
AACCGAGAATGAACTGACAAGTCAACAAAGGATAAAAGGAT
Found at i:1810050 original size:47 final size:47
Alignment explanation
Indices: 1809726--1810049 Score: 305
Period size: 47 Copynumber: 6.9 Consensus size: 47
1809716 TTGACTAGGA
* * ** * *
1809726 CTAATGCCAATACAATCAAATAACAATGAAAAGAGTTTAACCAGG-A
1 CTAATGCCAATACAGTCAAACAAGGATGAAAAGAGTTTGACCAGGTC
* * * * * * * **
1809772 CTAATGCCATTATAGTCAAACGAGGGTGAGAAGGGTTTAACTTGGTC
1 CTAATGCCAATACAGTCAAACAAGGATGAAAAGAGTTTGACCAGGTC
* * * * * *
1809819 TTAATGCCAATACAATCAAACAAGTG-TAAAAAAAGTTGGACTAGGTC
1 CTAATGCCAATACAGTCAAACAAG-GATGAAAAGAGTTTGACCAGGTC
* * * *
1809866 CTAACGCCAATATAGTCAAACAAGGGTGGAAAGAGTTTGACCAGGTC
1 CTAATGCCAATACAGTCAAACAAGGATGAAAAGAGTTTGACCAGGTC
1809913 CTAATGCCAATACAGTCAAACAATGG-TGAAAAGAGTTTGACCAGGTC
1 CTAATGCCAATACAGTCAAACAA-GGATGAAAAGAGTTTGACCAGGTC
* * ** *
1809960 CTAACGTCAATATC-GTCAAACAATAATGAAAAGAGTTTGACCAAGTC
1 CTAATGCCAATA-CAGTCAAACAAGGATGAAAAGAGTTTGACCAGGTC
* *
1810007 CTAATGCCAATACAATCAAACGAGGATGAAAAGAGTTTGACCA
1 CTAATGCCAATACAGTCAAACAAGGATGAAAAGAGTTTGACCA
1810050 AATACAGCCA
Statistics
Matches: 223, Mismatches: 48, Indels: 13
0.79 0.17 0.05
Matches are distributed among these distances:
46 35 0.16
47 184 0.83
48 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (47 bp):
CTAATGCCAATACAGTCAAACAAGGATGAAAAGAGTTTGACCAGGTC
Found at i:1810054 original size:35 final size:35
Alignment explanation
Indices: 1810015--1810212 Score: 209
Period size: 35 Copynumber: 5.7 Consensus size: 35
1810005 TCCTAATGCC
* *
1810015 AATACAATCAAACGAGGATGAAAAGAGTTTGACCA
1 AATACAACCAAACGATGATGAAAAGAGTTTGACCA
* * * *
1810050 AATACAGCCAAATGATGATGAAAAGAGTTTCACTA
1 AATACAACCAAACGATGATGAAAAGAGTTTGACCA
* * *
1810085 GATACAGCCAAACGATAATG-AAAGAGTTTGACCA
1 AATACAACCAAACGATGATGAAAAGAGTTTGACCA
* *
1810119 AAAACAACCAAATGATGATGAAAAGAGTTTGACCA
1 AATACAACCAAACGATGATGAAAAGAGTTTGACCA
** * * **
1810154 AATACAGTCAAATGATGATGAAAAGAGCTTGATGA
1 AATACAACCAAACGATGATGAAAAGAGTTTGACCA
* * *
1810189 AACACAATCAAACAATGATGAAAA
1 AATACAACCAAACGATGATGAAAA
1810213 AATTGATTGA
Statistics
Matches: 136, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
34 27 0.20
35 109 0.80
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (35 bp):
AATACAACCAAACGATGATGAAAAGAGTTTGACCA
Found at i:1810130 original size:69 final size:70
Alignment explanation
Indices: 1810023--1810212 Score: 220
Period size: 69 Copynumber: 2.7 Consensus size: 70
1810013 CCAATACAAT
** * * * *
1810023 CAAACGAGGATGAAAAGAGTTTGACCAAATACAGCCAAATGATGATGAAAAGAGTTTCACTAGAT
1 CAAACGATAATGAAAAGAGTTTGACCAAAAACAACCAAATGATGATGAAAAGAGTTTCACCAAAT
1810088 ACAGC
66 ACAGC
*
1810093 CAAACGATAATG-AAAGAGTTTGACCAAAAACAACCAAATGATGATGAAAAGAGTTTGACCAAAT
1 CAAACGATAATGAAAAGAGTTTGACCAAAAACAACCAAATGATGATGAAAAGAGTTTCACCAAAT
*
1810157 ACAGT
66 ACAGC
* * * ** * * **
1810162 CAAATGATGATGAAAAGAGCTTGATGAAACACAATCAAACAATGATGAAAA
1 CAAACGATAATGAAAAGAGTTTGACCAAAAACAACCAAATGATGATGAAAA
1810213 AATTGATTGA
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
69 61 0.60
70 41 0.40
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.18
Consensus pattern (70 bp):
CAAACGATAATGAAAAGAGTTTGACCAAAAACAACCAAATGATGATGAAAAGAGTTTCACCAAAT
ACAGC
Found at i:1810255 original size:86 final size:86
Alignment explanation
Indices: 1810134--1810298 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 86
1810124 AACCAAATGA
* *
1810134 TGATGAAAAGAGTTTGACCAAATACAGTCAAATGATGATGAAAAGAGCTTGA-TGAAACACAATC
1 TGATGAAAAGAGCTTGACCAAATACAGTCAAATGATGATGAAAAGAGCTTGACT-AAACACAACC
1810198 AAACAATGATGAAAAAATTGAT
65 AAACAATGATGAAAAAATTGAT
* * * * * * *
1810220 TGATGAAAAGAGCTTGACTAGATACAGTTAAATGATGATGAAAAGAGTTTGACTAGATACAGCCA
1 TGATGAAAAGAGCTTGACCAAATACAGTCAAATGATGATGAAAAGAGCTTGACTAAACACAACCA
1810285 AACAATGATGAAAA
66 AACAATGATGAAAA
1810299 GAGTTTAACT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 68 0.99
87 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.22
Consensus pattern (86 bp):
TGATGAAAAGAGCTTGACCAAATACAGTCAAATGATGATGAAAAGAGCTTGACTAAACACAACCA
AACAATGATGAAAAAATTGAT
Found at i:1810263 original size:35 final size:35
Alignment explanation
Indices: 1810220--1810551 Score: 294
Period size: 35 Copynumber: 9.5 Consensus size: 35
1810210 AAAAATTGAT
* * *
1810220 TGATGAAAAGAGCTTGACTAGATACAGTTAAATGA
1 TGATGAAAAGAGTTTGACTAGATACAGTCAAACGA
* *
1810255 TGATGAAAAGAGTTTGACTAGATACAGCCAAACAA
1 TGATGAAAAGAGTTTGACTAGATACAGTCAAACGA
* * ** * *
1810290 TGATGAAAAGAGTTTAACTAAAGGCAGCCAAACAA
1 TGATGAAAAGAGTTTGACTAGATACAGTCAAACGA
** * *
1810325 AAATGAAAAGAGTTTGA-TCAGATATAG-CTAAACAA
1 TGATGAAAAGAGTTTGACT-AGATACAGTC-AAACGA
* *
1810360 TGATGAAAAGAGTTTGACCAGATATAGTCAAACGA
1 TGATGAAAAGAGTTTGACTAGATACAGTCAAACGA
* * * * *
1810395 TGATG-AAAGTTGCTTCACCAGATACAATCAAACGA
1 TGATGAAAAG-AGTTTGACTAGATACAGTCAAACGA
* **
1810430 TGATGAAAAGAGTTTGACCAGATACAACCAAACGA
1 TGATGAAAAGAGTTTGACTAGATACAGTCAAACGA
* * *
1810465 TGATGAAAAGAGTTCGACTAGATATA-TCCAAACAA
1 TGATGAAAAGAGTTTGACTAGATACAGT-CAAACGA
** * *
1810500 TGATGAAAAGAGTTCAACCAGATACAGTCAAATGA
1 TGATGAAAAGAGTTTGACTAGATACAGTCAAACGA
*
1810535 TGATAGGAAAGAGTTTG
1 TGAT-GAAAAGAGTTTG
1810552 TTTGGTAAGA
Statistics
Matches: 246, Mismatches: 42, Indels: 17
0.81 0.14 0.06
Matches are distributed among these distances:
34 6 0.02
35 225 0.91
36 15 0.06
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (35 bp):
TGATGAAAAGAGTTTGACTAGATACAGTCAAACGA
Found at i:1810299 original size:70 final size:70
Alignment explanation
Indices: 1810220--1810551 Score: 335
Period size: 70 Copynumber: 4.7 Consensus size: 70
1810210 AAAAATTGAT
* * * *
1810220 TGATGAAAAGAGCTTGACTAGATACAGTTAAATGATGATGAAAAGAGTTTGACTAGATACAGCCA
1 TGATGAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGAGTTTGACTAGATACAGCCA
1810285 AACAA
66 AACAA
* * * ** * * ** * *
1810290 TGATGAAAAGAGTTTAACTAAAGGCAGCCAAACAAAAATGAAAAGAGTTTGA-TCAGATATAGCT
1 TGATGAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGAGTTTGACT-AGATACAGCC
1810354 AAACAA
65 AAACAA
* * * * * **
1810360 TGATGAAAAGAGTTTGACCAGATATAGTCAAACGATGATG-AAAGTTGCTTCACCAGATACAATC
1 TGATGAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAG-AGTTTGACTAGATACAGCC
*
1810424 AAACGA
65 AAACAA
** * * *
1810430 TGATGAAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTCGACTAGATATATCCA
1 TGATGAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGAGTTTGACTAGATACAGCCA
1810495 AACAA
66 AACAA
** * *
1810500 TGATGAAAAGAGTTCAACCAGATACAGTCAAATGATGATAGGAAAGAGTTTG
1 TGATGAAAAGAGTTTGACCAGATACAGTCAAACGATGAT-GAAAAGAGTTTG
1810552 TTTGGTAAGA
Statistics
Matches: 206, Mismatches: 51, Indels: 9
0.77 0.19 0.03
Matches are distributed among these distances:
69 5 0.02
70 187 0.91
71 14 0.07
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (70 bp):
TGATGAAAAGAGTTTGACCAGATACAGTCAAACGATGATGAAAAGAGTTTGACTAGATACAGCCA
AACAA
Found at i:1810435 original size:226 final size:225
Alignment explanation
Indices: 1810031--1810438 Score: 539
Period size: 226 Copynumber: 1.8 Consensus size: 225
1810021 ATCAAACGAG
** * * *
1810031 GATGAAAAGAGTTTGACCAAATACAGCCAAATGATGATGAAAAGAGTTTCACTAGATACAGCCAA
1 GATGAAAAGAGTTTGACCAAATACAGCCAAACAATGATGAAAAGAGTTTAACTAAAGACAGCCAA
* * **
1810096 ACGATAATGAAAGAGTTTGACCAAAAACAACCAAATGATGATGAAAAGAGTTTGACCAAATACAG
66 ACAAAAATGAAAGAGTTTGACCAAAAACAACCAAACAATGATGAAAAGAGTTTGACCAAATACAG
* * **
1810161 TCAAATGATGATGAAAAGAGCTTGATGAAACACAATCAAACAATGATGAAAAAATTGATTGATGA
131 TCAAACGATGATGAAAAGAGCTTCACCAAACACAATCAAACAATGATGAAAAAATTGATTGATGA
1810226 AAAGAGCTTGACTAGATACAGTTAAATGAT
196 AAAGAGCTTGACTAGATACAGTTAAATGAT
* * *
1810256 GATGAAAAGAGTTTGACTAGATACAGCCAAACAATGATGAAAAGAGTTTAACTAAAGGCAGCCAA
1 GATGAAAAGAGTTTGACCAAATACAGCCAAACAATGATGAAAAGAGTTTAACTAAAGACAGCCAA
* * * * * * * *
1810321 ACAAAAATGAAAAGAGTTTGATCAGATATAGCTAAACAATGATGAAAAGAGTTTGACCAGATATA
66 ACAAAAATG-AAAGAGTTTGACCAAAAACAACCAAACAATGATGAAAAGAGTTTGACCAAATACA
* * * *
1810386 GTCAAACGATGATG-AAAGTTGCTTCACCAGATACAATCAAACGATGATGAAAA
130 GTCAAACGATGATGAAAAG-AGCTTCACCAAACACAATCAAACAATGATGAAAA
1810439 GAGTTTGACC
Statistics
Matches: 153, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
225 68 0.44
226 85 0.56
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (225 bp):
GATGAAAAGAGTTTGACCAAATACAGCCAAACAATGATGAAAAGAGTTTAACTAAAGACAGCCAA
ACAAAAATGAAAGAGTTTGACCAAAAACAACCAAACAATGATGAAAAGAGTTTGACCAAATACAG
TCAAACGATGATGAAAAGAGCTTCACCAAACACAATCAAACAATGATGAAAAAATTGATTGATGA
AAAGAGCTTGACTAGATACAGTTAAATGAT
Found at i:1810520 original size:105 final size:105
Alignment explanation
Indices: 1810220--1810551 Score: 364
Period size: 105 Copynumber: 3.2 Consensus size: 105
1810210 AAAAATTGAT
* * * * * *
1810220 TGATGAAAAGAGCTTGACTAGATACAGTTAAATGATGATGAAAAGAGTTTGACTAGATACAGCCA
1 TGATGAAAAGAGTTTGACCAGATACAGCTAAACGATGATGAAAAGAGTTTGACTAGATATATCCA
* * * ** * *
1810285 AACAATGATGAAAAGAGTTTAACTAAAGGCAGCCAAACAA
66 AACAATGATGAAAAGAGTTCAACCAGATACAGTCAAACGA
** * * * *
1810325 AAATGAAAAGAGTTTGATCAGATATAGCTAAACAATGATGAAAAGAGTTTGACCAGATATAGT-C
1 TGATGAAAAGAGTTTGACCAGATACAGCTAAACGATGATGAAAAGAGTTTGACTAGATATA-TCC
* * *
1810389 AAACGATGATG-AAAGTTGCTTC-ACCAGATACAATCAAACGA
65 AAACAATGATGAAAAG-AG-TTCAACCAGATACAGTCAAACGA
* * *
1810430 TGATGAAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTCGACTAGATATATCCA
1 TGATGAAAAGAGTTTGACCAGATACAGCTAAACGATGATGAAAAGAGTTTGACTAGATATATCCA
*
1810495 AACAATGATGAAAAGAGTTCAACCAGATACAGTCAAATGA
66 AACAATGATGAAAAGAGTTCAACCAGATACAGTCAAACGA
*
1810535 TGATAGGAAAGAGTTTG
1 TGAT-GAAAAGAGTTTG
1810552 TTTGGTAAGA
Statistics
Matches: 184, Mismatches: 36, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
104 8 0.04
105 159 0.86
106 17 0.09
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (105 bp):
TGATGAAAAGAGTTTGACCAGATACAGCTAAACGATGATGAAAAGAGTTTGACTAGATATATCCA
AACAATGATGAAAAGAGTTCAACCAGATACAGTCAAACGA
Found at i:1811261 original size:76 final size:76
Alignment explanation
Indices: 1811173--1811576 Score: 265
Period size: 89 Copynumber: 5.0 Consensus size: 76
1811163 TGAGTGAAGA
* * * *
1811173 GGATATGATTAGGAATATATGGGCTATAGCTTGCCCTAAGGAAATTAGGCTTTGTCATGCATCAA
1 GGATATGATTAGGAATATATGGGCTACACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCAA
1811238 TACCATTTAGG
66 TACCATTTAGG
* * * * * * *
1811249 GGATATGATTAGGAATGA-GTGGGCTGCACTTTGCCCTAAGAAAATCAGGCTTTGTGATGTATCA
1 GGATATGATTAGGAAT-ATATGGGCTACACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCA
1811313 ATACCATCTAGTGGTTAGGTG
65 ATA-C--C-A-T--TTA-G-G
* * * * * * *
1811334 AAGGAGATATGATTGGGGATATATGGGTTGCACCTTGCCCCAAGGAAATTAGGTTTTGTGATGCA
1 --GGATAT-G-ATTAGGAATATATGGGCTACACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCA
* *
1811399 TCAATACGATCTACTAGTT
62 TCAATACCAT-T--TAG-G
* * * * *
1811418 GGATAAAGAGGATATGATTGGGAATGTGTGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTTGTG
1 GGAT----ATGAT-T-A--GGA-ATATATGGGCTACACCTTGCCCCAAGGAAATTAGGCTTTGTG
*
1811483 ATGCATCAATACCATTTAAG
57 ATGCATCAATACCATTTAGG
* * * *
1811503 GGATATGATTAGGAATGA-ATAGGCTACACCTTGCCCAAAGGAAATTA-GCTTTGTAATGAATCA
1 GGATATGATTAGGAAT-ATATGGGCTACACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCA
1811566 ATACCATTTAG
65 ATACCATTTAG
1811577 TGGTTGGGTG
Statistics
Matches: 256, Mismatches: 45, Indels: 55
0.72 0.13 0.15
Matches are distributed among these distances:
75 24 0.09
76 83 0.32
77 4 0.02
79 2 0.01
80 2 0.01
81 5 0.02
82 3 0.01
83 4 0.02
84 6 0.02
85 9 0.04
86 3 0.01
87 5 0.02
88 6 0.02
89 100 0.39
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (76 bp):
GGATATGATTAGGAATATATGGGCTACACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCAA
TACCATTTAGG
Found at i:1811402 original size:89 final size:89
Alignment explanation
Indices: 1811249--1811709 Score: 389
Period size: 89 Copynumber: 5.3 Consensus size: 89
1811239 ACCATTTAGG
* * * * * * *
1811249 GGATATGATTAGGAATGA-GTGGGCTGCACTTTGCCCTAAGAAAATCAGGCTTTGTGATGTATCA
1 GGATATGATTGGGAAT-ATATGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCA
* * *
1811313 ATACCATCTAGTGGTTAGG-TGAAG-
65 ATACCATCTACTAGTT-GGATAAAGA
* * *
1811337 GAGATATGATTGGGGATATATGGGTTGCACCTTGCCCCAAGGAAATTAGGTTTTGTGATGCATCA
1 G-GATATGATTGGGAATATATGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCA
*
1811402 ATACGATCTACTAGTTGGATAAAGA
65 ATACCATCTACTAGTTGGATAAAGA
* *
1811427 GGATATGATTGGGAATGTGTGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCAA
1 GGATATGATTGGGAATATATGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCAA
* *
1811492 TACCATTTA--AG--GGAT-ATGA
66 TACCATCTACTAGTTGGATAAAGA
* * * * * * *
1811511 --TTAGGAAT--G-A-ATA--GGCTACACCTTGCCCAAAGGAAATTA-GCTTTGTAATGAATCAA
1 GGATATGATTGGGAATATATGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCAA
* * * * * *
1811567 TACCATTTAGTGGTTGGGTGAAGG
66 TACCATCTACTAGTTGGATAAAGA
* * * * *
1811591 GGATACGATTGGGAATATATGGGTTGCACCTTGCTCCAAGGACATTACGCTTTGTGATGCATCAA
1 GGATATGATTGGGAATATATGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCAA
* * * * *
1811656 TGCCATCTAATGGTTGGACAAAGG
66 TACCATCTACTAGTTGGATAAAGA
* *
1811680 GGATGTGATTGGGAATGTATGGGCTGCACC
1 GGATATGATTGGGAATATATGGGCTGCACC
1811710 CATTCTCTTT
Statistics
Matches: 300, Mismatches: 55, Indels: 35
0.77 0.14 0.09
Matches are distributed among these distances:
75 24 0.08
76 24 0.08
77 1 0.00
78 1 0.00
79 4 0.01
80 3 0.01
82 10 0.03
84 4 0.01
85 5 0.02
86 3 0.01
87 2 0.01
88 25 0.08
89 193 0.64
90 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (89 bp):
GGATATGATTGGGAATATATGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCAA
TACCATCTACTAGTTGGATAAAGA
Found at i:1811632 original size:164 final size:165
Alignment explanation
Indices: 1811364--1811661 Score: 418
Period size: 164 Copynumber: 1.8 Consensus size: 165
1811354 ATATGGGTTG
* * * * *
1811364 CACCTTGCCCCAAGGAAATTAGGTTTTGTGATGCATCAATACGATCTACTAGTTGGATAAAGAGG
1 CACCTTGCCCAAAGGAAATTAGGCTTTGTAATGAATCAATACCATCTACTAGTTGGATAAAGAGG
* * * *
1811429 ATATGATTGGGAATGTGTGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCAATA
66 ATACGATTGGGAATATATGGGCTGCACCTTGCCCCAAGGAAATTACGCTTTGTGATGCATCAATA
1811494 CCATTTAAGGGATATGATTAGGAATGAATAGGCTA
131 CCATTTAAGGGATATGATTAGGAATGAATAGGCTA
* * * * * *
1811529 CACCTTGCCCAAAGGAAATTA-GCTTTGTAATGAATCAATACCATTTAGTGGTTGGGTGAAGGGG
1 CACCTTGCCCAAAGGAAATTAGGCTTTGTAATGAATCAATACCATCTACTAGTTGGATAAAGAGG
* * * *
1811593 ATACGATTGGGAATATATGGGTTGCACCTTGCTCCAAGGACATTACGCTTTGTGATGCATCAATG
66 ATACGATTGGGAATATATGGGCTGCACCTTGCCCCAAGGAAATTACGCTTTGTGATGCATCAATA
1811658 CCAT
131 CCAT
1811662 CTAATGGTTG
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
164 94 0.82
165 20 0.18
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (165 bp):
CACCTTGCCCAAAGGAAATTAGGCTTTGTAATGAATCAATACCATCTACTAGTTGGATAAAGAGG
ATACGATTGGGAATATATGGGCTGCACCTTGCCCCAAGGAAATTACGCTTTGTGATGCATCAATA
CCATTTAAGGGATATGATTAGGAATGAATAGGCTA
Found at i:1811632 original size:253 final size:253
Alignment explanation
Indices: 1811135--1811709 Score: 778
Period size: 253 Copynumber: 2.3 Consensus size: 253
1811125 CTTTGCCTAA
* * * *
1811135 TTTGTGATGCAT-AATATCATCTAGTGGTT-GAGTGAAGAGGATATGATTAGGAATATATGGGCT
1 TTTGTGATGCATCAATA-CATCTAATGGTTGGA-TAAAGAGGATATGATTGGGAATGTATGGGCT
** * * *
1811198 ATAGCTTGCCCTAAGGAAATTAGGCTTTGTCATGCATCAATACCATTTAGGGGATATGATTAGGA
64 GCACCTTGCCCCAAGGAAATTAGGCTTTGTCATGCATCAATACCATTTAAGGGATATGATTAGGA
* * * * * * *
1811263 ATGAGTGGGCTGCACTTTGCCCTAAGAAAATCAGGCTTTGTGATGTATCAATACCATCTAGTGGT
129 ATGAATAGGCTACACCTTGCCCAAAGAAAATCAGGCTTTGTAATGAATCAATACCATCTAGTGGT
* * * *
1811328 TAGGTGAAGGAGATATGATTGGGGATATATGGGTTGCACCTTGCCCCAAGGAAATTAGGT
194 TAGGTGAAGGAGATACGATTGGGAATATATGGGTTGCACCTTGCCCCAAGGAAATTACGC
* * *
1811388 TTTGTGATGCATCAATACGATCTACTAGTTGGATAAAGAGGATATGATTGGGAATGTGTGGGCTG
1 TTTGTGATGCATCAATAC-ATCTAATGGTTGGATAAAGAGGATATGATTGGGAATGTATGGGCTG
*
1811453 CACCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATCAATACCATTTAAGGGATATGATTAGGAA
65 CACCTTGCCCCAAGGAAATTAGGCTTTGTCATGCATCAATACCATTTAAGGGATATGATTAGGAA
* * *
1811518 TGAATAGGCTACACCTTGCCCAAAGGAAATTA-GCTTTGTAATGAATCAATACCATTTAGTGGTT
130 TGAATAGGCTACACCTTGCCCAAAGAAAATCAGGCTTTGTAATGAATCAATACCATCTAGTGGTT
* * * *
1811582 GGGTGAAGGGGATACGATTGGGAATATATGGGTTGCACCTTGCTCCAAGGACATTACGC
195 AGGTGAAGGAGATACGATTGGGAATATATGGGTTGCACCTTGCCCCAAGGAAATTACGC
* * * *
1811641 TTTGTGATGCATCAATGCCATCTAATGGTTGGACAAAGGGGATGTGATTGGGAATGTATGGGCTG
1 TTTGTGATGCATCAAT-ACATCTAATGGTTGGATAAAGAGGATATGATTGGGAATGTATGGGCTG
1811706 CACC
65 CACC
1811710 CATTCTCTTT
Statistics
Matches: 281, Mismatches: 37, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
253 153 0.54
254 126 0.45
255 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (253 bp):
TTTGTGATGCATCAATACATCTAATGGTTGGATAAAGAGGATATGATTGGGAATGTATGGGCTGC
ACCTTGCCCCAAGGAAATTAGGCTTTGTCATGCATCAATACCATTTAAGGGATATGATTAGGAAT
GAATAGGCTACACCTTGCCCAAAGAAAATCAGGCTTTGTAATGAATCAATACCATCTAGTGGTTA
GGTGAAGGAGATACGATTGGGAATATATGGGTTGCACCTTGCCCCAAGGAAATTACGC
Found at i:1812863 original size:13 final size:13
Alignment explanation
Indices: 1812845--1812871 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1812835 ATATTATGCT
1812845 TTGTATCGATACA
1 TTGTATCGATACA
1812858 TTGTATCGATACA
1 TTGTATCGATACA
1812871 T
1 T
1812872 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1812901 original size:20 final size:19
Alignment explanation
Indices: 1812855--1812911 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1812845 TTGTATCGAT
*
1812855 ACATTGTATCGATACATGC
1 ACATTGTATTGATACATGC
* *
1812874 TCATTGTATTGATACATGG
1 ACATTGTATTGATACATGC
1812893 ACAATTGTATTGATACATG
1 AC-ATTGTATTGATACATG
1812912 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
ACATTGTATTGATACATGC
Found at i:1812977 original size:13 final size:13
Alignment explanation
Indices: 1812956--1812986 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1812946 CGATACATGG
*
1812956 TACAATGTATCGA
1 TACATTGTATCGA
1812969 TACATTGTATCGA
1 TACATTGTATCGA
1812982 TACAT
1 TACAT
1812987 GAGGAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1814068 original size:19 final size:19
Alignment explanation
Indices: 1814044--1814111 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1814034 AATTCAACAA
1814044 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1814063 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1814078 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1814095 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1814112 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1814083 original size:13 final size:13
Alignment explanation
Indices: 1814065--1814089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1814055 ACATAAGTTT
1814065 TGTATCGATACAA
1 TGTATCGATACAA
1814078 TGTATCGATACA
1 TGTATCGATACA
1814090 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1814087 original size:32 final size:32
Alignment explanation
Indices: 1814046--1814108 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1814036 TTCAACAATT
*
1814046 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1814078 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1814109 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1814169 original size:13 final size:13
Alignment explanation
Indices: 1814151--1814176 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1814141 CATTTTTCTG
1814151 TGTATCGATACAT
1 TGTATCGATACAT
1814164 TGTATCGATACAT
1 TGTATCGATACAT
1814177 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1814173 original size:33 final size:33
Alignment explanation
Indices: 1814131--1814197 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1814121 GCCAAGGAAA
***
1814131 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1814164 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1814197 T
1 T
1814198 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1816719 original size:28 final size:27
Alignment explanation
Indices: 1816655--1816720 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
1816645 CACAATCGGC
**
1816655 GATACTCCAACCCCGTTAATCATCGGG
1 GATACTCCAACCCCGTTAATCAGAGGG
* *
1816682 GATACTCCAACCCCGTTATTTCCGAGGG
1 GATACTCCAACCCCGTTA-ATCAGAGGG
1816710 GATACTCCAAC
1 GATACTCCAAC
1816721 TCCGGTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 18 0.53
28 16 0.47
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (27 bp):
GATACTCCAACCCCGTTAATCAGAGGG
Found at i:1816769 original size:52 final size:51
Alignment explanation
Indices: 1816707--1816876 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
1816697 TTATTTCCGA
*
1816707 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
** * **
1816759 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* * *
1816811 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
1816863 GAGGATACTCCAAC
1 GGGGATACTCCAAC
1816877 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 10 0.10
52 69 0.72
53 12 0.12
54 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:1816860 original size:104 final size:103
Alignment explanation
Indices: 1816540--1816875 Score: 290
Period size: 104 Copynumber: 3.2 Consensus size: 103
1816530 ATCAATTCTC
* * * *
1816540 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
1816604 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * ** * * * ** * *
1816645 CACAATCG-GCGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCG
1 CACAATCGAG-GATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C-
* * *
1816706 AGGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 -GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* *
1816751 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
1816816 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
1816856 CACAATCGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
1816876 CCTCGTTATT
Statistics
Matches: 176, Mismatches: 37, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
103 6 0.03
104 45 0.26
105 34 0.19
106 19 0.11
107 36 0.20
108 8 0.05
109 28 0.16
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:1816905 original size:212 final size:212
Alignment explanation
Indices: 1816538--1816943 Score: 622
Period size: 212 Copynumber: 1.9 Consensus size: 212
1816528 TTATCAATTC
* *
1816538 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
1816603 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGCGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGCGATACTCCAACCC
* * * *
1816668 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCAAACCCCGGCTTTATC
1816733 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
1816750 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
1816814 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAG-GATACTCCAA
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCG-GCGATACTCCAA
* *
1816876 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCAAACCCCGGCTT
128 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCAAACCCCGGCTT
1816941 TAT
192 TAT
1816944 TCCCAAAATA
Statistics
Matches: 176, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
211 30 0.17
212 111 0.63
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGCGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCAAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:1816922 original size:28 final size:28
Alignment explanation
Indices: 1816865--1816936 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
1816855 TCACAATCGA
* * **
1816865 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
1816893 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
1816921 GGATACTCAAACCCCG
1 GGATACTCCAACCCCG
1816937 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:1823428 original size:13 final size:13
Alignment explanation
Indices: 1823410--1823438 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1823400 ACAACATTCC
1823410 TTGTATCGATACA
1 TTGTATCGATACA
1823423 TTGTATCGATACA
1 TTGTATCGATACA
1823436 TTG
1 TTG
1823439 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1824076 original size:13 final size:13
Alignment explanation
Indices: 1824058--1824083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1824048 TACACCAAGT
1824058 ATGTATCGATACA
1 ATGTATCGATACA
1824071 ATGTATCGATACA
1 ATGTATCGATACA
1824084 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1824102 original size:34 final size:32
Alignment explanation
Indices: 1824040--1824104 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1824030 TAGCCAAACT
**
1824040 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
1824072 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
1824105 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:1830263 original size:13 final size:13
Alignment explanation
Indices: 1830245--1830282 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1830235 GGAAATTCAA
*
1830245 TGTATCGATACAT
1 TGTATCGATACAC
1830258 TGTATCGATACAC
1 TGTATCGATACAC
1830271 TGTATCGATACA
1 TGTATCGATACA
1830283 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1830446 original size:20 final size:20
Alignment explanation
Indices: 1830403--1830448 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1830393 AAATCTTTTG
1830403 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1830424 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1830444 CAAAA
1 CAAAA
1830449 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1832137 original size:39 final size:40
Alignment explanation
Indices: 1832093--1832188 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 40
1832083 TTTTGATATG
*
1832093 AATTA-CTTGATTAAGGGGGAGAATGCATGAATTTGCTAA
1 AATTACCTTGATTAAGGGGGAGAATGCACGAATTTGCTAA
* *
1832132 AATTACCTT-ATTAAGGGGGAGAATGTACGAATTTGTTAA
1 AATTACCTTGATTAAGGGGGAGAATGCACGAATTTGCTAA
**
1832171 AATTATTTTGATTAAGGG
1 AATTACCTTGATTAAGGG
1832189 AGAAAGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 39 0.78
40 11 0.22
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.34
Consensus pattern (40 bp):
AATTACCTTGATTAAGGGGGAGAATGCACGAATTTGCTAA
Found at i:1832848 original size:13 final size:13
Alignment explanation
Indices: 1832830--1832855 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1832820 TACACCAAGT
1832830 ATGTATCGATACA
1 ATGTATCGATACA
1832843 ATGTATCGATACA
1 ATGTATCGATACA
1832856 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1832874 original size:34 final size:32
Alignment explanation
Indices: 1832812--1832876 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1832802 TAGCCAAACT
**
1832812 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
1832844 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
1832877 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:1835277 original size:13 final size:13
Alignment explanation
Indices: 1835259--1835285 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1835249 ACATTATGCT
1835259 TTGTATCGATACA
1 TTGTATCGATACA
1835272 TTGTATCGATACA
1 TTGTATCGATACA
1835285 T
1 T
1835286 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1835315 original size:20 final size:19
Alignment explanation
Indices: 1835269--1835325 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1835259 TTGTATCGAT
1835269 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* * *
1835288 TCATTGTATTGATACATGG
1 ACATTGTATCGATACATGC
1835307 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1835326 AGATTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1835396 original size:33 final size:33
Alignment explanation
Indices: 1835354--1835422 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
1835344 CTATCACTAT
*
1835354 TTGTATCGATACATG-GTACAA-TGTATCGATACA
1 TTGTATCGATA-ATGAGGA-AATTGTATCGATACA
1835387 TTGTATCGATAATGAGGAAATTGTATCGATACA
1 TTGTATCGATAATGAGGAAATTGTATCGATACA
1835420 TTG
1 TTG
1835423 CTTGTAACTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (33 bp):
TTGTATCGATAATGAGGAAATTGTATCGATACA
Found at i:1839622 original size:20 final size:20
Alignment explanation
Indices: 1839597--1839654 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
1839587 TCCCGTGTGA
1839597 ATGTATCGATACAATTTTTG
1 ATGTATCGATACAATTTTTG
1839617 ATGTATCGATACAATTTTTG
1 ATGTATCGATACAATTTTTG
1839637 ATGTATCGATACATATTT
1 ATGTATCGATACA-ATTT
1839655 GAAAATATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 33 0.89
21 4 0.11
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACAATTTTTG
Found at i:1839726 original size:13 final size:13
Alignment explanation
Indices: 1839708--1839733 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1839698 CAACTTTTTG
1839708 TGTATCGATACAT
1 TGTATCGATACAT
1839721 TGTATCGATACAT
1 TGTATCGATACAT
1839734 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1839745 original size:32 final size:32
Alignment explanation
Indices: 1839688--1839751 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1839678 TACAAGCCAA
1839688 TGTATCGATACAACTTTTTGTGTATCGATACAT
1 TGTATCGATACAAC-TTTTGTGTATCGATACAT
1839721 TGTATCGATACATAC-TTTGTGTATCGATACA
1 TGTATCGATACA-ACTTTTGTGTATCGATACA
1839752 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 16 0.53
33 12 0.40
34 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACAACTTTTGTGTATCGATACAT
Found at i:1840419 original size:39 final size:37
Alignment explanation
Indices: 1840372--1840457 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 37
1840362 TTTCTTTTCT
1840372 TTCT-CCCTTAATTAA-AGTAATTTTAACAAATTCGTA-CA
1 TTCTCCCCTTAA-TAAGA-TAATTTTAACAAATT--TACCA
*
1840410 TTCTCCCCTTAATAAGATAATTTTAGCAAATTTACGCA
1 TTCTCCCCTTAATAAGATAATTTTAACAAATTTAC-CA
1840448 TTCTCCCCTT
1 TTCTCCCCTT
1840458 TTAAAAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
36 2 0.05
38 33 0.77
39 8 0.19
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (37 bp):
TTCTCCCCTTAATAAGATAATTTTAACAAATTTACCA
Found at i:1847925 original size:13 final size:13
Alignment explanation
Indices: 1847907--1847932 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1847897 CAACTTTTTG
1847907 TGTATCGATACAT
1 TGTATCGATACAT
1847920 TGTATCGATACAT
1 TGTATCGATACAT
1847933 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1849509 original size:62 final size:62
Alignment explanation
Indices: 1849434--1849557 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
1849424 TAAGGAACAA
1849434 ATCTTCTGCACATTAGGTTCTTCATTTCAACCCATGTGGCTATAGGCTACTCATTAAATCTT
1 ATCTTCTGCACATTAGGTTCTTCATTTCAACCCATGTGGCTATAGGCTACTCATTAAATCTT
1849496 ATCTTCTGCACATTAGGTTCTTCATTTCAACCCATGTGGCTATAGGCTACTCATTAAATCTT
1 ATCTTCTGCACATTAGGTTCTTCATTTCAACCCATGTGGCTATAGGCTACTCATTAAATCTT
1849558 TTTCTCTCTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (62 bp):
ATCTTCTGCACATTAGGTTCTTCATTTCAACCCATGTGGCTATAGGCTACTCATTAAATCTT
Found at i:1851949 original size:89 final size:90
Alignment explanation
Indices: 1851849--1852094 Score: 275
Period size: 89 Copynumber: 2.8 Consensus size: 90
1851839 AATGCGAATC
* * * * *
1851849 TCATCTAATGGTGCAGATGCACATGAAATGATGTAAATGTAAGCATCAATAAAATGGCAAATGCA
1 TCATCTAATGGTGCAGATGTACGTGAAACGATGCAAATGTAAGCATCAATAAAAAGGCAAATGCA
*
1851914 TATGAG-ATTATGCAAATACCAATG
66 TATGAGAATAATGCAAATACCAATG
* ** * * *
1851938 TCATCTAATGGTGTAGATGTGTGTGAAACAATGCAAATGTAAGCATCAGTAAAAAGGCAAATACA
1 TCATCTAATGGTGCAGATGTACGTGAAACGATGCAAATGTAAGCATCAATAAAAAGGCAAATGCA
**
1852003 TAT-AGAATAATGCAAATATTAATG
66 TATGAGAATAATGCAAATACCAATG
* ** * * * *
1852027 TTATCTAA-AATGCA-TTGTAGGTGAAACGATGCAAATGCAAGCATCAACAAAAAGGCAAATGCA
1 TCATCTAATGGTGCAGATGTACGTGAAACGATGCAAATGTAAGCATCAATAAAAAGGCAAATGCA
1852090 TATGA
66 TATGA
1852095 AATGACGCAA
Statistics
Matches: 129, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
87 44 0.34
88 6 0.05
89 79 0.61
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (90 bp):
TCATCTAATGGTGCAGATGTACGTGAAACGATGCAAATGTAAGCATCAATAAAAAGGCAAATGCA
TATGAGAATAATGCAAATACCAATG
Found at i:1852121 original size:87 final size:87
Alignment explanation
Indices: 1851960--1852121 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 87
1851950 GTAGATGTGT
* ** * **
1851960 GTGAAACAATGCAAATGTAAGCATCAGTAAAAAGGCAAATACATATAGAATAATGCAAATATTAA
1 GTGAAACAATGCAAATGCAAGCATCAACAAAAAGGCAAATACATATAGAATAACGCAAATACGAA
*
1852025 TGTTATCTAAAATGCATTGTAG
66 TGTGATCTAAAATGCATTGTAG
* * * *
1852047 GTGAAACGATGCAAATGCAAGCATCAACAAAAAGGCAAATGCATAT-GAAATGACGCAAATGCGA
1 GTGAAACAATGCAAATGCAAGCATCAACAAAAAGGCAAATACATATAG-AATAACGCAAATACGA
*
1852111 ATGTGGTCTAA
65 ATGTGATCTAA
1852122 TCCAAAATTA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
86 1 0.02
87 61 0.98
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (87 bp):
GTGAAACAATGCAAATGCAAGCATCAACAAAAAGGCAAATACATATAGAATAACGCAAATACGAA
TGTGATCTAAAATGCATTGTAG
Found at i:1852203 original size:4 final size:4
Alignment explanation
Indices: 1852194--1852220 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1852184 TAAAAAAATA
1852194 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1852221 AACCTTTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:1852553 original size:112 final size:112
Alignment explanation
Indices: 1852352--1852567 Score: 319
Period size: 112 Copynumber: 1.9 Consensus size: 112
1852342 GTTGGCCTAG
* * *
1852352 AAATTTCAAAACTGATAAGGTACATTCCCCATTTTCCTAGGCACGAATGGATCGAAATGTATAAA
1 AAATTTCAAAACTGATAAGGTACATGCCCCATTTTCCTAGGCACGAATGGATCGAAACGCATAAA
* * *
1852417 ATATGAATTTCTCAAAAATAAGACAAATTTGATGTTGTTGGGCTAAA
66 ATATAAAGTTCTCAAAAATAAGACAAACTTGATGTTGTTGGGCTAAA
* *
1852464 AAATTTCAAAACTTAT-AGGATACATGCCCCATTTTCCTAGGCACGAATGGATCGGAACGCATAA
1 AAATTTCAAAACTGATAAGG-TACATGCCCCATTTTCCTAGGCACGAATGGATCGAAACGCATAA
*
1852528 AATATAAAGTTCTTC-AAAATCAGACAAACTTGATGTTGTT
65 AATATAAAGTTC-TCAAAAATAAGACAAACTTGATGTTGTT
1852568 CCAAGTTCCC
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
111 3 0.03
112 88 0.95
113 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (112 bp):
AAATTTCAAAACTGATAAGGTACATGCCCCATTTTCCTAGGCACGAATGGATCGAAACGCATAAA
ATATAAAGTTCTCAAAAATAAGACAAACTTGATGTTGTTGGGCTAAA
Found at i:1855230 original size:166 final size:162
Alignment explanation
Indices: 1854916--1855429 Score: 524
Period size: 166 Copynumber: 3.1 Consensus size: 162
1854906 TTTGAACAAC
* * * * * *
1854916 AAAATTCTTTAAATATTATCATTTGATTCACATTAAATCAATTTTGAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTAATTCATA-TAAATCATTTTTGAAAAATTC-TTTATTTTCA
* * *
1854981 TAAGTTTTTC-ATTTTTCCTTCAAATTCCTCCTATTTCCATAATACGGAGTTTTCCTT--TTTGT
64 TAAGTTTTTCAATTTTTTCTTAAAATT-CTCCTATTTCCAAAATAC-GAGTTTT--TTACTTTGT
* * *
1855043 AAATTTTTTC-GAGAGGATTTTTATCAATTTAAAATTTTA
125 AAATATTTTCAG-GA-GATTTTTCTCAATTTAAAATTTTT
1855082 AAAATTCATCAAATATTATCATTTAATTCATATCAAATCATTTTTGAAAAATTCCTTTGA-TTTC
1 AAAATTCATCAAATATTATCATTTAATTCATAT-AAATCATTTTTGAAAAATT-CTTT-ATTTTC
* * ** **
1855146 ATGAA-TTTTTCAATTTTTTCTTGAAATTCTCTTATTTTTAAAATACGAAGTTTTTTACTCCGTA
63 AT-AAGTTTTTCAATTTTTTCTTAAAATTCTCCTATTTCCAAAATACG-AGTTTTTTACTTTGTA
*** *
1855210 AATATTTTCAGGGAGATTTTTCTTGGTTTATAATTTTT
126 AATATTTTCA-GGAGATTTTTCTCAATTTAAAATTTTT
* * * *
1855248 AAAATTCATCAAATATCATTATTTAATTCATAGTAAATCATTTTTGAAAACTTAATTTATTTTCA
1 AAAATTCATCAAATATTATCATTTAATTCATA-TAAATCATTTTTGAAAAATT-CTTTATTTTCA
* *
1855313 TAAGTTTTTCATTTTTTTCTTAAAATTCTCCTATTTCCAAAA-AGCTGAGTTTTCTACTTTGTAA
64 TAAGTTTTTCAATTTTTTCTTAAAATTCTCCTATTTCCAAAATA-C-GAGTTTTTTACTTTGTAA
*
1855377 ATATTTTCA-G-GATATTTCTCAATTTAAAATTTTT
127 ATATTTTCAGGAGATTTTTCTCAATTTAAAATTTTT
* *
1855411 AAAATTAATCTAATATTAT
1 AAAATTCATCAAATATTAT
1855430 TATTAAACAC
Statistics
Matches: 291, Mismatches: 42, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
163 35 0.12
164 3 0.01
165 6 0.02
166 224 0.77
167 22 0.08
168 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (162 bp):
AAAATTCATCAAATATTATCATTTAATTCATATAAATCATTTTTGAAAAATTCTTTATTTTCATA
AGTTTTTCAATTTTTTCTTAAAATTCTCCTATTTCCAAAATACGAGTTTTTTACTTTGTAAATAT
TTTCAGGAGATTTTTCTCAATTTAAAATTTTT
Found at i:1855492 original size:16 final size:18
Alignment explanation
Indices: 1855471--1855510 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
1855461 ACACAATTTA
*
1855471 TTTTTTATTT-T-TTAAT
1 TTTTTTATTTATAATAAT
1855487 TTTTTTATTTATAATAAT
1 TTTTTTATTTATAATAAT
1855505 TTTTTT
1 TTTTTT
1855511 TCGATAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 1 0.05
18 10 0.48
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTATTTATAATAAT
Found at i:1857546 original size:154 final size:154
Alignment explanation
Indices: 1857296--1857707 Score: 481
Period size: 154 Copynumber: 2.6 Consensus size: 154
1857286 GGTATTTTTG
* * * * * * *
1857296 TAATTTTTTCAGAATCGAGTCTTAAGTTGTCACTGGGTCCATTTTTATGTCGAAGGTGGGTATTT
1 TAATTTTTTCAAAACCAAGTCCTAGGTTGTCACTAGGTCC-GTTTTATGT-GAAGGTGGGTATTT
* *
1857361 AGGATAGGCTCATCCCATCTATAATCATTTTTAAGTCCTTTT-GGGGTATAAGGCACTTTTAAGT
64 AGGATAGGTTCATCCCATCTATAATC-TTTTTAAGTCCTTTTAGGGGTATAAGGCACTTCTAAGT
* *
1857425 CGAAGGTATCTCCTAGGGGCACTTTCG
128 CGAAGGTATCCCCTAGGGGCACTTTCA
*
1857452 TAA-TTTTTCTAAAACCAAGTCCTAGGTTGTCACTAGGTCCGTTTTATGTGAAGGTGGGTGTTTA
1 TAATTTTTTC-AAAACCAAGTCCTAGGTTGTCACTAGGTCCGTTTTATGTGAAGGTGGGTATTTA
** *
1857516 GGATAGGTTCATCCCATCTATAATGCTTTTTAAGT-CTTTTAGGGGTATCGGGTACTTCTAAGTC
65 GGATAGGTTCATCCCATCTATAAT-CTTTTTAAGTCCTTTTAGGGGTATAAGGCACTTCTAAGTC
*
1857580 GAAGGTATCCCCTATGGGCACTTTCA
129 GAAGGTATCCCCTAGGGGCACTTTCA
* * * * * * **
1857606 TAATTTTTTCAGAACCGAGTCCTAGGTTGTCAC-CGAGTCTGCTTTTAAGCCGAAGGCAGGTATT
1 TAATTTTTTCAAAACCAAGTCCTAGGTTGTCACTAG-GTCCG-TTTTATG-TGAAGGTGGGTATT
* *
1857670 TAGGATAGGTTTATCCCATCTATTATCCTTTTTAAGTC
63 TAGGATAGGTTCATCCCATCTATAAT-CTTTTTAAGTC
1857708 TTCTAGGATC
Statistics
Matches: 220, Mismatches: 28, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
153 6 0.03
154 116 0.53
155 27 0.12
156 71 0.32
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (154 bp):
TAATTTTTTCAAAACCAAGTCCTAGGTTGTCACTAGGTCCGTTTTATGTGAAGGTGGGTATTTAG
GATAGGTTCATCCCATCTATAATCTTTTTAAGTCCTTTTAGGGGTATAAGGCACTTCTAAGTCGA
AGGTATCCCCTAGGGGCACTTTCA
Found at i:1862094 original size:161 final size:161
Alignment explanation
Indices: 1861886--1862176 Score: 415
Period size: 161 Copynumber: 1.8 Consensus size: 161
1861876 TGTAGAAGTA
* * *
1861886 CCAATAACCCTAATGGACTTAAAAAGATTATAGATGAGATGAACCTATCTTAAATACCCACCTTC
1 CCAATAACCCTAAAGAACTTAAAAAGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTC
* ** * * **
1861951 GGCATAAAAGC-GAGCTTGGTGACAACCTAGGAATCGGTTTT-AGAAAAATTATGAAAATGCCCT
66 GACATAAAAGCAGA-CCCGGTGACAACCTAAGAATCGATTTTGA-AAAAATTACAAAAATGCCCT
1862014 TATGGGCATGTATACCTTTGACATGAAAGTATC
129 TATGGGCATGTATACCTTTGACATGAAAGTATC
* * *
1862047 CCAATAACCCTAAAGAACTTAAAATGATTATCGATGGGATGAACCTATCCTAAATACCCACCTTC
1 CCAATAACCCTAAAGAACTTAAAAAGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTC
* *
1862112 GACATAAAAGCAGACCCGGTGACAACCTAAGACTCGATTTTGAAAAAATTACAAAAATGGCCTTA
66 GACATAAAAGCAGACCCGGTGACAACCTAAGAATCGATTTTGAAAAAATTACAAAAATGCCCTTA
1862177 GGGGATACCT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
161 110 0.97
162 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (161 bp):
CCAATAACCCTAAAGAACTTAAAAAGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTC
GACATAAAAGCAGACCCGGTGACAACCTAAGAATCGATTTTGAAAAAATTACAAAAATGCCCTTA
TGGGCATGTATACCTTTGACATGAAAGTATC
Found at i:1862588 original size:143 final size:140
Alignment explanation
Indices: 1862323--1862733 Score: 470
Period size: 143 Copynumber: 2.9 Consensus size: 140
1862313 ATAAATTTTG
* * * ** * *
1862323 AAAATCTTATTTCGTACCTTAATAGAGAACTGAAAAGATACCAAAAGTTTTAAAAATTTCTAAAC
1 AAAAT-TTATTTCATACCTTAATGGAGAACTAAAAAGATATGAAAAGTTTTGAAGATTTCTAAAC
** * * * *
1862388 CCAAACGGAAAACCATAGGAATATCAGAAATCTTGAAAAATTAAGATAATAATTTTTTGTTTAAT
65 CCCTA-GGAAAACCATAGGAATATTAAAAATCTTAAAAAATTAAGATAATAA-TTTTTATTTAA-
* *
1862453 TTTTTAA-TTTCAA
127 ATTTCAATTTTCAA
*
1862466 AAAATTTCATTTCATACCTTAATGGAGAACTAAAAAGATATG-AAAGATTTTGAAGATTTCTACA
1 AAAATTT-ATTTCATACCTTAATGGAGAACTAAAAAGATATGAAAAG-TTTTGAAGATTTCTAAA
*
1862530 CCCCTATGGAAAACCATAGGAATATTAAAAAT-TACAAAAAAATTAAGATAATAATTTTTATTTA
64 CCCCTA-GGAAAACCATAGGAATATTAAAAATCT--TAAAAAATTAAGATAATAATTTTTATTTA
**
1862594 AATTTCAATTTTTGA
126 AATTTCAATTTTCAA
* * *
1862609 AAAATTTATTTCATACCTTAATGAAGAA-TCAAAAAGATATGAAAAGTTTTGGAGATTTCTATAC
1 AAAATTTATTTCATACCTTAATGGAGAACT-AAAAAGATATGAAAAGTTTTGAAGATTTCTAAAC
** * *
1862673 CCCTAAAAAAACCATAAGAATATTGAAAATCTTAAAAAATTAAGATAATAATTTTTATTTA
65 CCCTAGGAAAACCATAGGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTTA
1862734 GTGATAAAAT
Statistics
Matches: 232, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
140 28 0.12
141 22 0.09
142 65 0.28
143 100 0.43
144 17 0.07
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (140 bp):
AAAATTTATTTCATACCTTAATGGAGAACTAAAAAGATATGAAAAGTTTTGAAGATTTCTAAACC
CCTAGGAAAACCATAGGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTTAAATTT
CAATTTTCAA
Found at i:1862761 original size:142 final size:141
Alignment explanation
Indices: 1862465--1862733 Score: 366
Period size: 142 Copynumber: 1.9 Consensus size: 141
1862455 TTTAATTTCA
*
1862465 AAAAATTTCATTTCATACCTTAATGGAGAACTAAAAAGATATGAAAGATTTTGAAGATTTCTACA
1 AAAAATTT-ATTTCATACCTTAATGAAGAACTAAAAAGATATGAAAGATTTTGAAGATTTCTACA
** *
1862530 CCCCTATGGAAAACCATAGGAATATTAAAAATTACAAAAAAATTAAGATAATAATTTTTATTTAA
65 CCCCTATAAAAAACCATAAGAATATTAAAAATTA-AAAAAAATTAAGATAATAATTTTTATTTAA
** *
1862595 ATTTCAATTTTTG
129 AAATCAATATTTG
* *
1862608 AAAAATTTATTTCATACCTTAATGAAGAA-TCAAAAAGATATGAAA-AGTTTTGGAGATTTCTAT
1 AAAAATTTATTTCATACCTTAATGAAGAACT-AAAAAGATATGAAAGA-TTTTGAAGATTTCTAC
* *
1862671 ACCCCTA-AAAAAACCATAAGAATATTGAAAATCT-TAAAAAATTAAGATAATAATTTTTATTTA
64 ACCCCTATAAAAAACCATAAGAATATTAAAAAT-TAAAAAAAATTAAGATAATAATTTTTATTTA
1862734 GTGATAAAAT
Statistics
Matches: 115, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
140 28 0.24
141 23 0.20
142 56 0.49
143 8 0.07
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (141 bp):
AAAAATTTATTTCATACCTTAATGAAGAACTAAAAAGATATGAAAGATTTTGAAGATTTCTACAC
CCCTATAAAAAACCATAAGAATATTAAAAATTAAAAAAAATTAAGATAATAATTTTTATTTAAAA
ATCAATATTTG
Found at i:1863319 original size:21 final size:21
Alignment explanation
Indices: 1863295--1863335 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1863285 AAAATAGGAG
1863295 AATTTCAAGAAAAA-AATAAAA
1 AATTT-AAGAAAAAGAATAAAA
*
1863316 AATTTATGAAAAAGAATAAA
1 AATTTAAGAAAAAGAATAAA
1863336 TTTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.22
Consensus pattern (21 bp):
AATTTAAGAAAAAGAATAAAA
Found at i:1863523 original size:167 final size:166
Alignment explanation
Indices: 1863248--1863599 Score: 444
Period size: 167 Copynumber: 2.1 Consensus size: 166
1863238 GGTGAAAGTC
* * * * *
1863248 CTGAAAACATTTACGGAGTATAAAACTCTATATTTTGAAAATAGGAGAATTTCAAGAAAAAAATA
1 CTGAAAACATTTACGGAGTAGAAAACTCCATATTTCGAAAACAAGAGAATTTCAAGAAAAAAATA
** * * *
1863313 AAAAATTTATGAAAAAGAATAAATTTTTGAAAATTAATTTAATATTAAA-TAAATAATAATATTT
66 AAAAATGAATGAAAAAGAATAAATTTTTAAAAACTAATTTAATA-TAAATTAAATAATAAAATTT
* * *
1863377 TAT-GATTTTAAAAAATTTAAAACCAAGAAAAATCCCT
130 TATAAATTTT-AAAAATTAAAAACAAAGAAAAATCCCT
* *
1863414 CTGAAAACATTTATGGAGTAGAAAACTCCGT-TTTACGAAAACAAGAGAATTTCAAGGAAAAAAA
1 CTGAAAACATTTACGGAGTAGAAAACTCCATATTT-CGAAAACAAGAGAATTTCAA-GAAAAAAA
* * *
1863478 TGAAAAATGAATGAAAATGAATGAATTTTTAAAAACTAATTTAATATAAATTAAATAATAAAATT
64 TAAAAAATGAATGAAAAAGAATAAATTTTTAAAAACTAATTTAATATAAATTAAATAATAAAATT
*
1863543 TTATAAATTTTAAAAATTAAAAACAAAGGAAAATCCC-
129 TTATAAATTTTAAAAATTAAAAACAAAGAAAAATCCCT
*
1863580 AT-AAAATCATTTACGGAGTA
1 CTGAAAA-CATTTACGGAGTA
1863600 TTATGAGGAT
Statistics
Matches: 160, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
165 7 0.04
166 61 0.38
167 87 0.54
168 5 0.03
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (166 bp):
CTGAAAACATTTACGGAGTAGAAAACTCCATATTTCGAAAACAAGAGAATTTCAAGAAAAAAATA
AAAAATGAATGAAAAAGAATAAATTTTTAAAAACTAATTTAATATAAATTAAATAATAAAATTTT
ATAAATTTTAAAAATTAAAAACAAAGAAAAATCCCT
Found at i:1864969 original size:165 final size:163
Alignment explanation
Indices: 1864470--1865136 Score: 557
Period size: 165 Copynumber: 4.0 Consensus size: 163
1864460 TCAAAATTTT
* * * * * * *
1864470 TCAAATATTATCATTTAATTCCCATCAAATCAGTTTTCAAAAATTTATTCATCTTCATGAGTTTT
1 TCAAATAATATCATTGAATTCCCATTAAATCAGTTCTGAAAAATTAATTCATTTTCATGAG-TTT
* * * * *
1864535 TAAATTTTTTCCTTGAAATTCCCCCGTTTACAAAATATAGAGTTTTCTACTCCGTAATATTTTTT
65 TGAATTTTTTCCTTGAAATT-TCCCTTTTTCAAAATATAGAGTTTTCTACT-CATAA-ATTTTTT
* * *
1864600 --GGGAGGATTTTTCTTAGTTTTAATTTTTACAATTCA
127 CAAGG-GGATTTTTCTTGGTTTTAATTTTTAAAATTCA
* * * ** * * * * * *
1864636 TAAAATATTATTATTTTATTCCTATTAAAACAGTTTTGAAAATTTAATT-AGTTTTCTTAAGTTT
1 TCAAATAATATCATTGAATTCCCATTAAATCAGTTCTGAAAAATTAATTCA-TTTTCATGAGTTT
* * * * * *
1864700 TGGATTTTTT-CTTTAAA-ATCCCTTTATTCTAGAAA-ATTGAG-TTTCTATTCTATAAATATTT
65 TGAATTTTTTCCTTGAAATTTCCCTTT-TTC-A-AAATATAGAGTTTTCTACTC-ATAAATTTTT
* * * *
1864761 TCAAGGGGATTTTCCTTGGTCTAAAATTTTAAAATGT-A
126 TCAAGGGGATTTTTCTTGGTTTTAATTTTTAAAAT-TCA
* *
1864799 TCAAATAATGTCATGGAATTCCCATTAAATCAGTTCTGAAAAATTAATTCATTTTCATGAGTTTT
1 TCAAATAATATCATTGAATTCCCATTAAATCAGTTCTGAAAAATTAATTCATTTTCATGAGTTTT
*
1864864 GAATTTTTTCCTTGAAATTTTCCTTTTTCAAAATATAGAGTTTTCTACCTCATAAATTTTTTCAA
66 GAATTTTTTCCTTGAAATTTCCCTTTTTCAAAATATAGAGTTTTCTA-CTCATAAATTTTTTCAA
*
1864929 GGGGATTTTTCTCGGTTTTCAATTTTTAAAATTCA
130 GGGGATTTTTCTTGGTTTT-AATTTTTAAAATTCA
** * * *
1864964 TCAAAT-ATCATCATTTG-ATTCATAGTAAATCAATTCTAAAAAATTAATTCATTTTCATGAGTT
1 TCAAATAAT-ATCA-TTGAATTCCCATTAAATCAGTTCTGAAAAATTAATTCATTTTCATGAGTT
* * * * * * * *
1865027 TTGAATTTTTTCTTTGAAATTTCTCTATTTTTAAAAAACT-GAGTTTTTTATTCCATAAATATAT
64 TTGAATTTTTTCCTTGAAATTTCCCT-TTTTCAAAATA-TAGAGTTTTCTACT-CATAAATTTTT
* * *
1865091 TC-AGGGAGATTTTTCTTGATTTAAAATTTTTAAAATTTA
126 TCAAGGG-GATTTTTCTTGGTTT-TAATTTTTAAAATTCA
*
1865130 TCTAATA
1 TCAAATA
1865137 TTTCTTAACT
Statistics
Matches: 401, Mismatches: 76, Indels: 47
0.77 0.15 0.09
Matches are distributed among these distances:
162 15 0.04
163 100 0.25
164 62 0.15
165 113 0.28
166 110 0.27
167 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (163 bp):
TCAAATAATATCATTGAATTCCCATTAAATCAGTTCTGAAAAATTAATTCATTTTCATGAGTTTT
GAATTTTTTCCTTGAAATTTCCCTTTTTCAAAATATAGAGTTTTCTACTCATAAATTTTTTCAAG
GGGATTTTTCTTGGTTTTAATTTTTAAAATTCA
Found at i:1873657 original size:13 final size:13
Alignment explanation
Indices: 1873639--1873664 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1873629 ACACACAATA
1873639 TGTATCGATACAT
1 TGTATCGATACAT
1873652 TGTATCGATACAT
1 TGTATCGATACAT
1873665 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1873680 original size:33 final size:32
Alignment explanation
Indices: 1873619--1873686 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
1873609 CCTTAACTGT
*
1873619 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
1873651 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1873684 TTG
1 TTG
1873687 GCTTGTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1876464 original size:20 final size:20
Alignment explanation
Indices: 1876433--1876489 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
1876423 GTCAAAACCC
*
1876433 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
1876453 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
1876473 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
1876490 TGAAAAGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:1876581 original size:13 final size:13
Alignment explanation
Indices: 1876563--1876587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1876553 ACACACAGTA
1876563 TGTATCGATACAT
1 TGTATCGATACAT
1876576 TGTATCGATACA
1 TGTATCGATACA
1876588 CCATAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1876607 original size:33 final size:32
Alignment explanation
Indices: 1876543--1876610 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
1876533 GTAGCTAAAC
** *
1876543 TTGTATCGATACACACAGTATGTATCGATACA
1 TTGTATCGATACACACAAAATATATCGATACA
*
1876575 TTGTATCGATACACCATAAAATATATCGATACA
1 TTGTATCGATACA-CACAAAATATATCGATACA
1876608 TTG
1 TTG
1876611 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATATATCGATACA
Found at i:1882783 original size:13 final size:13
Alignment explanation
Indices: 1882765--1882800 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1882755 CAGAATTCTT
1882765 TGTATCGATACAA
1 TGTATCGATACAA
*
1882778 TGTATCGATACAC
1 TGTATCGATACAA
*
1882791 TGTGTCGATA
1 TGTATCGATA
1882801 TAAGGGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1889106 original size:8 final size:8
Alignment explanation
Indices: 1889093--1889125 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
1889083 ATTTGATTAA
1889093 ATTTTGTG
1 ATTTTGTG
1889101 ATTTTGTG
1 ATTTTGTG
*
1889109 ATTTTGTA
1 ATTTTGTG
1889117 ATTTT-TG
1 ATTTTGTG
1889124 AT
1 AT
1889126 GTTGAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 3 0.13
8 20 0.87
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1891783 original size:13 final size:13
Alignment explanation
Indices: 1891765--1891789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1891755 ATATTGCACA
1891765 GTATCGATACATT
1 GTATCGATACATT
1891778 GTATCGATACAT
1 GTATCGATACAT
1891790 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1892684 original size:30 final size:29
Alignment explanation
Indices: 1892649--1892752 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 29
1892639 ACCGAAACCA
1892649 TCCTTACTTGACTGTATTCGGTCAAGTCT
1 TCCTTACTTGACTGTATTCGGTCAAGTCT
* * *
1892678 ATCCTTATTTGACTGTATTCGATCAAATCT
1 -TCCTTACTTGACTGTATTCGGTCAAGTCT
* *
1892708 TACCTCT-CTTGACTGTATTCAGTCAAGAGCT
1 T-CCT-TACTTGACTGTATTCGGTCAAG-TCT
*
1892739 TCCTTATTTGACTG
1 TCCTTACTTGACTG
1892753 CATTTGGTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 2 0.03
30 55 0.90
31 4 0.07
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (29 bp):
TCCTTACTTGACTGTATTCGGTCAAGTCT
Found at i:1892723 original size:60 final size:58
Alignment explanation
Indices: 1892655--1892848 Score: 181
Period size: 60 Copynumber: 3.2 Consensus size: 58
1892645 ACCATCCTTA
* *
1892655 CTTGACTGTATTCGGTCAAGTCTATCCTTATTTGACTGTATTCGATCAAATCTTACCTCT
1 CTTGACTGTATTCAGTCAAGTCT-TCCTTATTTGACTGTATT-GGTCAAATCTTACCTCT
* * * * * *
1892715 CTTGACTGTATTCAGTCAAGAGCTTCCTTATTTGACTGCATTTGGTAAAATGTCACTCTCG
1 CTTGACTGTATTCAGTCAAG-TCTTCCTTATTTGACTGTA-TTGGTCAAATCTTAC-CTCT
* * * * * * *
1892776 CTTGACTATATTAAGTCAAGTATTTTCATATTTGACTGTACTTGGTCAAATCCTACCCCT
1 CTTGACTGTATTCAGTCAAGT-CTTCCTTATTTGACTGTA-TTGGTCAAATCTTACCTCT
*
1892836 CTTGATTGTATTC
1 CTTGACTGTATTC
1892849 GATCGAATTT
Statistics
Matches: 105, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
60 55 0.52
61 50 0.48
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (58 bp):
CTTGACTGTATTCAGTCAAGTCTTCCTTATTTGACTGTATTGGTCAAATCTTACCTCT
Found at i:1892900 original size:91 final size:91
Alignment explanation
Indices: 1892767--1892940 Score: 249
Period size: 91 Copynumber: 1.9 Consensus size: 91
1892757 TGGTAAAATG
* * * * *
1892767 TCACTCTCGCTTGACTATATTAAGTCAAGTATTTTCATATTTGACTGTACTTGGTCAAATCCTAC
1 TCACCCTCGCTTAACTATATTAAGTCAAGTATTTCCACATTTGACTGTACTTAGTCAAATCCTAC
*
1892832 CCCTCTTGATTGTATTCGATCGAATT
66 CCCTCTTGACTGTATTCGATCGAATT
* * * * *
1892858 TCACCCTCGCTTAACTGTATTCAGTCAAGTCTTTCCACATTTGACTTTACTTAGTCAAATCTTAC
1 TCACCCTCGCTTAACTATATTAAGTCAAGTATTTCCACATTTGACTGTACTTAGTCAAATCCTAC
1892923 CCCTCTTGACTGTATTCG
66 CCCTCTTGACTGTATTCG
1892941 GTCAAGACCT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (91 bp):
TCACCCTCGCTTAACTATATTAAGTCAAGTATTTCCACATTTGACTGTACTTAGTCAAATCCTAC
CCCTCTTGACTGTATTCGATCGAATT
Found at i:1892902 original size:121 final size:121
Alignment explanation
Indices: 1892807--1893423 Score: 347
Period size: 121 Copynumber: 5.2 Consensus size: 121
1892797 ATTTTCATAT
* * *
1892807 TTGACTGTACTT-GGTCAA-ATCCTACCCCT-CTTGATTGTATTCGATCGAATTTCACCCTCGCT
1 TTGACTGTA-TTCGGTCAAGA-CCT-CCCCTACTTGACTATATTCGATCAAATTTCACCCTCGCT
* * *
1892869 TAACTGTATTCAGTCAAGTCTTTCCACATTTGACTTTACTTAGTCAAATCTTACCCCTC
63 TAACTGTATTCAGTCAAGTCTTTCCACATTTGACTATACTTAGTCAAATCTTACACATC
* * * * *
1892928 TTGACTGTATTCGGTCAAGACCTTCCTTATTTGACTATATTCGATCAAATTTCACCCTCGTTTGA
1 TTGACTGTATTCGGTCAAGACCTCCCCTACTTGACTATATTCGATCAAATTTCACCCTCGCTTAA
* * * * * * *
1892993 CTGTATTTAGTCAAGTCTTTCCATATTTGACTGTAGTTAGTTAAATCTTACCCCTC
66 CTGTATTCAGTCAAGTCTTTCCACATTTGACTATACTTAGTCAAATCTTACACATC
* * ** * * * *
1893049 TTGACTGTATTCGATCAAGACCTTCTTTATTTGACTATATTTGATCAACTATCACCCTCG----A
1 TTGACTGTATTCGGTCAAGACCTCCCCTACTTGACTATATTCGATCAAATTTCACCCTCGCTTAA
* * * * * * * *
1893110 TTGTATTTAGTCAAGTCCTT-CATCATTTGATTATACTCAATCAAATCTTACCCCTC
66 CTGTATTCAGTCAAGTCTTTCCA-CATTTGACTATACTTAGTCAAATCTTACACATC
* * ** * * * *
1893166 TTGATTGTATTCGATCAAGA-CTGTCCTCATTTGACTGTACTT-GGTCAAATCTT-A-CCT-TCT
1 TTGACTGTATTCGGTCAAGACCTCCCCT-ACTTGACTATA-TTCGATCAAAT-TTCACCCTCGCT
* * * * * ** * * * *
1893226 TGACTATATTCGGTCAAGACTATCCTTATTTGACTATACTTGGTAAAATCTTAC-CTTG
63 TAACTGTATTCAGTCAAGTCTTTCCACATTTGACTATACTTAGTCAAATCTTACACATC
* * * * *** * * * *
1893284 TTCAACTATATTTGGTCAAG-TCTTTTCTCATTTGATTGTACTT-GATCAAATCTT-ACCCT-AC
1 TT-GACTGTATTCGGTCAAGACCTCCCCT-ACTTGACTATA-TTCGATCAAAT-TTCACCCTCGC
* * ** *
1893345 TTGACTGTATTCGGTCAAGTCTTTCTTCATTTGACTATACTT-GATCAAATCTTAGCTCA-C
62 TTAACTGTATTCAGTCAAGTCTTTCCACATTTGACTATACTTAG-TCAAATCTTA-CACATC
*
1893405 TTGATTGTATTCGGTCAAG
1 TTGACTGTATTCGGTCAAG
1893424 TCTTTCTTCA
Statistics
Matches: 403, Mismatches: 75, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
116 8 0.02
117 81 0.20
118 7 0.02
119 79 0.20
120 69 0.17
121 157 0.39
122 2 0.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (121 bp):
TTGACTGTATTCGGTCAAGACCTCCCCTACTTGACTATATTCGATCAAATTTCACCCTCGCTTAA
CTGTATTCAGTCAAGTCTTTCCACATTTGACTATACTTAGTCAAATCTTACACATC
Found at i:1892939 original size:60 final size:60
Alignment explanation
Indices: 1892871--1893497 Score: 540
Period size: 60 Copynumber: 10.5 Consensus size: 60
1892861 CCCTCGCTTA
* * *
1892871 ACTGTATTCAGTCAAGTCTTTCCACATTTGACTTTACTT-AGTCAAATCTTACCCCTCTTG
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTTGA-TCAAATCTTACCCCTCTTG
* * *
1892931 ACTGTATTCGGTCAAGACCTTCCTTATTTGACTATA-TTCGATCAAAT-TT-CACCCTCGTTTG
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTT-GATCAAATCTTAC-CCCTC--TTG
** * * *
1892992 ACTGTATTTAGTCAAGTCTTTCCAT-ATTTGACTGTAGTT-AGTTAAATCTTACCCCTCTTG
1 ACTGTATTCGGTCAAGTCTTTCC-TCATTTGACTATACTTGA-TCAAATCTTACCCCTCTTG
* * * * * * * * *
1893052 ACTGTATTCGATCAAGACCTTCTTTATTTGACTATATTTGATCAACTATCA-CCCTC--G
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTACCCCTCTTG
* ** * * * **
1893109 ATTGTATTTAGTCAAGTCCTTCATCATTTGATTATACTCAATCAAATCTTACCCCTCTTG
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTACCCCTCTTG
* * * * * * *
1893169 ATTGTATTCGATCAAGACTGTCCTCATTTGACTGTACTTGGTCAAATCTTA-CCTTCTTG
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTACCCCTCTTG
* * * * * * * * *
1893228 ACTATATTCGGTCAAGACTATCCTTATTTGACTATACTTGGTAAAATCTTA-CCTTGTTCA
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTACCCCTCTT-G
* * * * *
1893288 ACTATATTTGGTCAAGTCTTTTCTCATTTGATTGTACTTGATCAAATCTTA-CCCTACTTG
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTACCCCT-CTTG
* * * *
1893348 ACTGTATTCGGTCAAGTCTTTCTTCATTTGACTATACTTGATCAAATCTTAGCTCACTTG
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTACCCCTCTTG
* * * *
1893408 ATTGTATTCGGTCAAGTCTTTCTTCATTTGACTATACTTGATCAAATCTTACCTCACTTG
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTACCCCTCTTG
* * * *
1893468 ATTGTATTCGATTAAGCCTTTCCTCATTTG
1 ACTGTATTCGGTCAAGTCTTTCCTCATTTG
1893498 TCTACATTCA
Statistics
Matches: 463, Mismatches: 86, Indels: 36
0.79 0.15 0.06
Matches are distributed among these distances:
57 38 0.08
58 6 0.01
59 72 0.16
60 293 0.63
61 43 0.09
62 10 0.02
63 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (60 bp):
ACTGTATTCGGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTACCCCTCTTG
Found at i:1892945 original size:30 final size:30
Alignment explanation
Indices: 1892807--1893066 Score: 108
Period size: 30 Copynumber: 8.6 Consensus size: 30
1892797 ATTTTCATAT
*
1892807 TTGACTGTACTT-GGTCAAATCCTACCCCTC
1 TTGACTGTA-TTCGGTCAAATCTTACCCCTC
* * * *
1892837 TTGATTGTATTCGATCGAAT-TTCACCCTCGC
1 TTGACTGTATTCGGTCAAATCTT-ACCC-CTC
* * * * *
1892868 TTAACTGTATTCAGTCAAGTCTTTCCACAT-
1 TTGACTGTATTCGGTCAAATCTTACC-CCTC
* *
1892898 TTGACTTTACTT-AGTCAAATCTTACCCCTC
1 TTGACTGTA-TTCGGTCAAATCTTACCCCTC
* * *
1892928 TTGACTGTATTCGGTCAAGACCTT--CCTTAT
1 TTGACTGTATTCGGTCAA-ATCTTACCCCT-C
* *
1892958 TTGACTATATTCGATCAAAT-TT-CACCCTC
1 TTGACTGTATTCGGTCAAATCTTAC-CCCTC
** * * * *
1892987 GTTTGACTGTATTTAGTCAAGTCTT-TCCATAT
1 --TTGACTGTATTCGGTCAAATCTTACCCCT-C
* *
1893019 TTGACTGTAGTT-AGTTAAATCTTACCCCTC
1 TTGACTGTA-TTCGGTCAAATCTTACCCCTC
*
1893049 TTGACTGTATTCGATCAA
1 TTGACTGTATTCGGTCAA
1893067 GACCTTCTTT
Statistics
Matches: 166, Mismatches: 45, Indels: 38
0.67 0.18 0.15
Matches are distributed among these distances:
28 2 0.01
29 13 0.08
30 99 0.60
31 47 0.28
32 5 0.03
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.40
Consensus pattern (30 bp):
TTGACTGTATTCGGTCAAATCTTACCCCTC
Found at i:1893026 original size:212 final size:212
Alignment explanation
Indices: 1892659--1893064 Score: 562
Period size: 212 Copynumber: 1.9 Consensus size: 212
1892649 TCCTTACTTG
* ** * *
1892659 ACTGTATTCGGTCAAGTCTATCCTTATTTGACTGTATTCGATCAAATCTTACCTCTCTTGACTGT
1 ACTGTATTCAGTCAAGTCTATCCACATTTGACTGTATTAGATCAAATCTTACCCCTCTTGACTGT
* * * * *
1892724 ATTCAGTCAAGAGCTTCCTTATTTGACTGCATTTGGTAAAATGTCACTCTCGCTTGACTATATTA
66 ATTCAGTCAAGACCTTCCTTATTTGACTACATTCGATAAAATGTCACCCTCGCTTGACTATATTA
* * *
1892789 AGTCAAGTATTTTCATATTTGACTGTACTTGGTCAAATCCTACCCCTCTTGATTGTATTCGATCG
131 AGTCAAGTATTTCCATATTTGACTGTACTTAGTCAAATCCTACCCCTCTTGACTGTATTCGATCG
1892854 AATTTCACCCTCGCTTA
196 AATTTCACCCTCGCTTA
* *
1892871 ACTGTATTCAGTCAAGTCTTTCCACATTTGACTTTACTTAG-TCAAATCTTACCCCTCTTGACTG
1 ACTGTATTCAGTCAAGTCTATCCACATTTGACTGTA-TTAGATCAAATCTTACCCCTCTTGACTG
* * * * * *
1892935 TATTCGGTCAAGACCTTCCTTATTTGACTATATTCGATCAAATTTCACCCTCGTTTGACTGTATT
65 TATTCAGTCAAGACCTTCCTTATTTGACTACATTCGATAAAATGTCACCCTCGCTTGACTATATT
* * * * *
1893000 TAGTCAAGTCTTTCCATATTTGACTGTAGTTAGTTAAATCTTACCCCTCTTGACTGTATTCGATC
130 AAGTCAAGTATTTCCATATTTGACTGTACTTAGTCAAATCCTACCCCTCTTGACTGTATTCGATC
1893065 AAGACCTTCT
Statistics
Matches: 167, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
212 164 0.98
213 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (212 bp):
ACTGTATTCAGTCAAGTCTATCCACATTTGACTGTATTAGATCAAATCTTACCCCTCTTGACTGT
ATTCAGTCAAGACCTTCCTTATTTGACTACATTCGATAAAATGTCACCCTCGCTTGACTATATTA
AGTCAAGTATTTCCATATTTGACTGTACTTAGTCAAATCCTACCCCTCTTGACTGTATTCGATCG
AATTTCACCCTCGCTTA
Found at i:1893261 original size:30 final size:29
Alignment explanation
Indices: 1893173--1893263 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 29
1893163 CTCTTGATTG
* * *
1893173 TATTCGATCAAGACTGTCCTCATTTGACTG
1 TATTCGGTCAAGACT-TCCTTATTTGACTA
*
1893203 TACTT-GGTCAA-ATCTTACCTT-CTTGACTA
1 TA-TTCGGTCAAGA-CTT-CCTTATTTGACTA
1893232 TATTCGGTCAAGACTATCCTTATTTGACTA
1 TATTCGGTCAAGACT-TCCTTATTTGACTA
1893262 TA
1 TA
1893264 CTTGGTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
28 2 0.04
29 22 0.45
30 23 0.47
31 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (29 bp):
TATTCGGTCAAGACTTCCTTATTTGACTA
Found at i:1894774 original size:166 final size:162
Alignment explanation
Indices: 1894469--1894974 Score: 486
Period size: 166 Copynumber: 3.1 Consensus size: 162
1894459 TTCAAACATC
* * * * * * *
1894469 AAAATTCTTCAAATATTATCATTTAATTCCCATCAAATTAGTTTTCAAAATTTTATTCATCTTCA
1 AAAATTCATCAAATATTATTATTTGATTCCTATTAAATTAG-TTTCAAAATTTAATTCATTTTCA
* * * * * *
1894534 TGAGTTTTTAAATTTTTTCCTTCAAATTCCTCTATTTT-CAAAATATAGAGTTTTCTACTTCGTA
65 TGAG-TTTTAAATTTTTTCTTTGAAATT--TCTTTTTTCCAAAA-ATCGAGTTTTCTATTTCATA
* * **
1894598 AATTTTTTCGGAAGGATTTTTCTTGGTTTTTAATTTTT
126 AATATTTTCGG-GGGATTTTTCTTGGTTTAAAATTTTT
** *
1894636 AAAATTCATCAAATATTATTATTTGATTTATATTAAAATAGTTTCAAAAATTTAATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTGATTCCTATTAAATTAGTTTC-AAAATTTAATTCATTTTCA
1894701 TGAGTTTTAAATTTTTTCTTTGAAATTTCTTTTTTCCCCAAAAATCGAGTTTTCTATTTCATAAA
65 TGAGTTTTAAATTTTTTCTTTGAAATTTCTTTTTT--CCAAAAATCGAGTTTTCTATTTCATAAA
*
1894766 TATTTTCGGGGGGA-TTTTCTTTGGTCTAAAATTTTT
128 TATTTTC-GGGGGATTTTTC-TTGGTTTAAAATTTTT
* * * * * * *
1894802 AAAATAT-ATCTAATAATGTTA-TGGAATTCCTAATAAATTAGTTATGC-AAACTTAATTCAGTT
1 AAAAT-TCATCAAATATTATTATTTG-ATTCCTATTAAATTAGTT-T-CAAAATTTAATTCATTT
* * * *
1894864 TCATGAGTTTTGAA--TTTTCTTTGAAATTTCTCTATTTCAAAAAAATCGAGTTTTCTATTCCAT
62 TCATGAGTTTTAAATTTTTTCTTTGAAATTTCT-TTTTTC-CAAAAATCGAGTTTTCTATTTCAT
* * *
1894927 AAATATATTCGGGGAGATTTTTCTCGATTTAAAATTTTT
125 AAATATTTTCGGGG-GATTTTTCTTGGTTTAAAATTTTT
1894966 AAAATTCAT
1 AAAATTCAT
1894975 GTAATATTGT
Statistics
Matches: 285, Mismatches: 39, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
163 6 0.02
164 77 0.27
165 16 0.06
166 122 0.43
167 63 0.22
168 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.48
Consensus pattern (162 bp):
AAAATTCATCAAATATTATTATTTGATTCCTATTAAATTAGTTTCAAAATTTAATTCATTTTCAT
GAGTTTTAAATTTTTTCTTTGAAATTTCTTTTTTCCAAAAATCGAGTTTTCTATTTCATAAATAT
TTTCGGGGGATTTTTCTTGGTTTAAAATTTTT
Found at i:1895006 original size:164 final size:165
Alignment explanation
Indices: 1894687--1895008 Score: 402
Period size: 164 Copynumber: 2.0 Consensus size: 165
1894677 TTTCAAAAAT
* * **
1894687 TTAATTCATTTTCATGAGTTTTAAATTTTTTCTTTGAAATTTCTTTTTTCCCCAAAAATCGAGTT
1 TTAATTCAGTTTCATGAGTTTTAAA-TTTTTCTTTGAAATTTCTTATTTCCAAAAAAATCGAGTT
* * * * *
1894752 TTCTATTTCATAAATATTTTCGGGGGGATTTTCTTTGGTCTAAAATTTTTAAAATATATCTAATA
65 TTCTATTCCATAAATATATTCGGGGAGATTTTCTTCGATCTAAAATTTTTAAAATATATCTAATA
* * *
1894817 ATGTTATGGAATTCCTAATAAATTAGTTATGCAAAC
130 ATGTTATGAAACTCCCAATAAATTAGTTATGCAAAC
*
1894853 TTAATTCAGTTTCATGAGTTTTGAA-TTTTCTTTGAAATTTCTCTATTT-CAAAAAAATCGAGTT
1 TTAATTCAGTTTCATGAGTTTTAAATTTTTCTTTGAAATTTCT-TATTTCCAAAAAAATCGAGTT
* *
1894916 TTCTATTCCATAAATATATTCGGGGAGATTTT-TCTCGATTTAAAATTTTTAAAAT-TCATGTAA
65 TTCTATTCCATAAATATATTCGGGGAGATTTTCT-TCGATCTAAAATTTTTAAAATAT-ATCTAA
* * *
1894979 TATTGTTGTTAAACTCCC-ATAAAATTAGTT
128 TAATGTTATGAAACTCCCAAT-AAATTAGTT
1895009 TTGAGAAAGT
Statistics
Matches: 134, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
163 4 0.03
164 103 0.77
165 4 0.03
166 23 0.17
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (165 bp):
TTAATTCAGTTTCATGAGTTTTAAATTTTTCTTTGAAATTTCTTATTTCCAAAAAAATCGAGTTT
TCTATTCCATAAATATATTCGGGGAGATTTTCTTCGATCTAAAATTTTTAAAATATATCTAATAA
TGTTATGAAACTCCCAATAAATTAGTTATGCAAAC
Found at i:1899103 original size:24 final size:22
Alignment explanation
Indices: 1899060--1899103 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
1899050 TATATCACTC
*
1899060 TTTTTTTTTCACGTGTACTCAT
1 TTTTTTTTTCACGTGCACTCAT
*
1899082 TTTTTTCTTTCATCTTGCACTC
1 TTTTTT-TTTCA-CGTGCACTC
1899104 TTTAGCTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 5 0.28
24 7 0.39
ACGTcount: A:0.11, C:0.23, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTTTTTTTCACGTGCACTCAT
Found at i:1900553 original size:6 final size:6
Alignment explanation
Indices: 1900544--1900577 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
1900534 GTAAAAATCA
1900544 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
1900578 AAAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:1900620 original size:35 final size:35
Alignment explanation
Indices: 1900581--1900785 Score: 374
Period size: 35 Copynumber: 5.9 Consensus size: 35
1900571 ATTAAAAAAA
1900581 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1900616 ATAAAAATGAAGGCATGGAATGATTGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1900651 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1900686 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1900721 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1900756 ATAAAAATGGAGGCATGGAATGATGGGCAT
1 ATAAAAATGAAGGCATGGAATGATGGGCAT
1900786 AAAAAATGAA
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 167 1.00
ACGTcount: A:0.41, C:0.06, G:0.32, T:0.20
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:1902366 original size:106 final size:106
Alignment explanation
Indices: 1902181--1902425 Score: 377
Period size: 106 Copynumber: 2.3 Consensus size: 106
1902171 GTTAAGTTTC
*
1902181 TCAATTTTTCACAATCGGGGATACTCCAACCCCATTAATCATCGGGGATACTCCAACCTCGTTAT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCATTAATCATCGGGGATACTCCAACCTCGTTAT
* *
1902246 TTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACT-
66 TTCCAAGGAGATACTCCAACCCCGGCTTTATTTCTAAAA-TA
*
1902287 TCAATTTTTCATAATCGAGGATACTCCAACCCCATTAATCATCGGGGATACTCCAACC-CTGTTA
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCATTAATCATCGGGGATACTCCAACCTC-GTTA
* * *
1902351 TTTCCAATGAGATACTCCAACCCTGGTTTTATTTCTAAAATA
65 TTTCCAAGGAGATACTCCAACCCCGGCTTTATTTCTAAAATA
* *
1902393 TTAATTTCTCATAATCGGGGATACTCCAACCCC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCC
1902426 GTTGTTTCCG
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
105 2 0.02
106 125 0.98
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (106 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCATTAATCATCGGGGATACTCCAACCTCGTTAT
TTCCAAGGAGATACTCCAACCCCGGCTTTATTTCTAAAATA
Found at i:1902421 original size:79 final size:79
Alignment explanation
Indices: 1902327--1902892 Score: 735
Period size: 79 Copynumber: 7.2 Consensus size: 79
1902317 CCCATTAATC
* * * *
1902327 ATCGGGGATACTCCAACCCTGTTATTTCCAATGAGATACTCCAACCCTGGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
* *
1902392 ATTAATTTCTCATA
66 ATCAATTTTTCATA
* * * * *
1902406 ATCGGGGATACTCCAACCCCGTTGTTTCCGCGGGGATACTCTAACCCCGATTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA-
1902471 T-TCAATTTTTCATA
65 TATCAATTTTTCATA
* * * * * *
1902485 ATC-GGGATACTTCAACCCCGTTATTTTCGCGAGGATACTCCAACCTCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA-
*
1902549 T-TCAATTTTTTATA
65 TATCAATTTTTCATA
* * *
1902563 ATCGGGGATACTTCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
1902628 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* *
1902642 ATCGGGGATACTCCAACCCTGTTTTTTCCGCGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA-
*
1902707 T-TCAATTTTTCGTA
65 TATCAATTTTTCATA
* * * * *
1902721 ATCGGGGATACTCGAACCCCGTTGTTTCTGTGGGGATACTCCAACCCCTGGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCC-GGTTTTATTTCTAAAA
* *
1902786 CATTAATTTTTCATA
65 TATCAATTTTTCATA
* * ** *
1902801 ATCGGAGATACTCCAACCCTGTTATTTTCGAAAGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
1902866 ATCAATTTTTCATA
66 ATCAATTTTTCATA
*
1902880 ATCAGGGATACTC
1 ATCGGGGATACTC
1902893 TAGCCCCGTT
Statistics
Matches: 430, Mismatches: 51, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
78 70 0.16
79 293 0.68
80 67 0.16
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
ATCAATTTTTCATA
Found at i:1902538 original size:157 final size:157
Alignment explanation
Indices: 1902331--1902905 Score: 800
Period size: 157 Copynumber: 3.6 Consensus size: 157
1902321 TTAATCATCG
*
1902331 GGGATACTCCAACCCTGTTA-TTTC-CAATGAGATACTCCAACCCTGGTTTTATTTCTAAAA-TA
1 GGGATACTCCAACCCTGTTATTTTCGCAA-G-GATACTCCAACCCCGGTTTTATTTCTAAAACT-
* * * * *
1902393 TTAATTTCTCATAATCGGGGATACTCCAACCCCGTTGTTTCCGCGGGGATACTCTAACCCCGATT
63 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTGTTTCCGAGGGGATACTCCAACCCCGGTT
1902458 TTATTTCTAAAACTTCAATTTTTCATAATC
128 TTATTTCTAAAACTTCAATTTTTCATAATC
* * * *
1902488 GGGATACTTCAACCCCGTTATTTTCGCGAGGATACTCCAACCTCGGTTTTATTTCTAAAACTTCA
1 GGGATACTCCAACCCTGTTATTTTCGCAAGGATACTCCAACCCCGGTTTTATTTCTAAAACTTCA
* * * * *
1902553 ATTTTTTATAATCGGGGATACTTCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTA
66 ATTTTTCATAATCGGGGATACTCCAACCCCGTTGTTTCCGAGGGGATACTCCAACCCCGGTTTTA
*
1902618 TTTCTAAAACATCAATTTTTCATAATC
131 TTTCTAAAACTTCAATTTTTCATAATC
**
1902645 GGGGATACTCCAACCCTGTT-TTTTCCGCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACTT
1 -GGGATACTCCAACCCTGTTATTTT-CGCAAGGATACTCCAACCCCGGTTTTATTTCTAAAACTT
* * * *
1902709 CAATTTTTCGTAATCGGGGATACTCGAACCCCGTTGTTTCTGTGGGGATACTCCAACCCCTGGTT
64 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTGTTTCCGAGGGGATACTCCAACCCC-GGTT
1902774 TTATTTCTAAAACATT-AATTTTTCATAATC
128 TTATTTCTAAAAC-TTCAATTTTTCATAATC
* *
1902804 GGAGATACTCCAACCCTGTTATTTTCGAAAGGATACTCCAACCCCGGTTTTATTTCTAAAACATC
1 GG-GATACTCCAACCCTGTTATTTTCGCAAGGATACTCCAACCCCGGTTTTATTTCTAAAACTTC
* * *
1902869 AATTTTTCATAATCAGGGATACTCTAGCCCCGTTGTT
65 AATTTTTCATAATCGGGGATACTCCAACCCCGTTGTT
1902906 ATCTCTAAAA
Statistics
Matches: 371, Mismatches: 38, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
157 134 0.36
158 113 0.30
159 119 0.32
160 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.36
Consensus pattern (157 bp):
GGGATACTCCAACCCTGTTATTTTCGCAAGGATACTCCAACCCCGGTTTTATTTCTAAAACTTCA
ATTTTTCATAATCGGGGATACTCCAACCCCGTTGTTTCCGAGGGGATACTCCAACCCCGGTTTTA
TTTCTAAAACTTCAATTTTTCATAATC
Found at i:1910028 original size:13 final size:13
Alignment explanation
Indices: 1910010--1910035 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1910000 ACACATAATA
1910010 TGTATCGATACAT
1 TGTATCGATACAT
1910023 TGTATCGATACAT
1 TGTATCGATACAT
1910036 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1910051 original size:33 final size:32
Alignment explanation
Indices: 1909990--1910057 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1909980 CCTTAATTGT
* *
1909990 TTGTATCGATACACATAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
1910022 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1910055 TTG
1 TTG
1910058 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1910075 original size:10 final size:10
Alignment explanation
Indices: 1910057--1910091 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1910047 TCGATACATT
*
1910057 GGCTTGTAAC
1 GGCTAGTAAC
1910067 GGCTAGTAAC
1 GGCTAGTAAC
*
1910077 GGCTAGCAAC
1 GGCTAGTAAC
1910087 GGCTA
1 GGCTA
1910092 TATTTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (10 bp):
GGCTAGTAAC
Found at i:1911121 original size:13 final size:13
Alignment explanation
Indices: 1911103--1911128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1911093 CAATTTTTTG
1911103 TGTATCGATACAT
1 TGTATCGATACAT
1911116 TGTATCGATACAT
1 TGTATCGATACAT
1911129 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1911868 original size:21 final size:21
Alignment explanation
Indices: 1911827--1911870 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1911817 CTCTCCTTTA
* *
1911827 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1911848 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1911869 TC
1 TC
1911871 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1915799 original size:15 final size:15
Alignment explanation
Indices: 1915779--1915809 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1915769 ATTTCGTTTG
*
1915779 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1915794 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1915809 G
1 G
1915810 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1917656 original size:21 final size:21
Alignment explanation
Indices: 1917611--1917658 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1917601 CAAGTTTTCA
*
1917611 TTTTTC-TTAGCTAACTCATT
1 TTTTTCATTAGCCAACTCATT
*
1917631 ATTTTCATTAGCCAACTTC-TT
1 TTTTTCATTAGCCAAC-TCATT
1917652 TTTTTCA
1 TTTTTCA
1917659 ACTTGCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTTTCATTAGCCAACTCATT
Found at i:1919883 original size:13 final size:13
Alignment explanation
Indices: 1919865--1919890 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1919855 CAATTTTTTG
1919865 TGTATCGATACAT
1 TGTATCGATACAT
1919878 TGTATCGATACAT
1 TGTATCGATACAT
1919891 ACTTGTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1920997 original size:26 final size:27
Alignment explanation
Indices: 1920945--1920997 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1920935 ATTTCCAAAA
**
1920945 GTGGGGTTAGAGTATACCCTCGAAGTG
1 GTGGGGTTAGAGTATACCCTAAAAGTG
*
1920972 GTGGGGTTGGAGTAT-CCCTAAAAGTG
1 GTGGGGTTAGAGTATACCCTAAAAGTG
1920998 ATAGTTCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.23, C:0.13, G:0.38, T:0.26
Consensus pattern (27 bp):
GTGGGGTTAGAGTATACCCTAAAAGTG
Found at i:1926124 original size:81 final size:80
Alignment explanation
Indices: 1925990--1926139 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 80
1925980 ACAAGGACTC
* * * * *
1925990 TCCTATCTAATAAGGTAAAGTCTATTCCTTATTATAATATGATTAGGACTTATCTAAACGACTTA
1 TCCTATCTAATAAGGTAAAGTCTACTCCTTATCATAATATGATTAGGAATTATCTAAACAAATTA
1926055 AAATCCTAAATATAA
66 AAATCCTAAATATAA
* *
1926070 TCCTAATC-AATAAGGATAAAGTCTACTCCTTATCATATTTTGATTAGGAATTATCTAAACAAAT
1 TCCT-ATCTAATAAGG-TAAAGTCTACTCCTTATCATAATATGATTAGGAATTATCTAAACAAAT
1926134 TAAAAT
64 TAAAAT
1926140 TAAAAAGTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 11 0.18
81 50 0.82
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.36
Consensus pattern (80 bp):
TCCTATCTAATAAGGTAAAGTCTACTCCTTATCATAATATGATTAGGAATTATCTAAACAAATTA
AAATCCTAAATATAA
Found at i:1935525 original size:13 final size:13
Alignment explanation
Indices: 1935507--1935532 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1935497 ATAATGCACA
1935507 GTATCGATACATT
1 GTATCGATACATT
1935520 GTATCGATACATT
1 GTATCGATACATT
1935533 ACCAAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Done.