Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1085
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: 1639209
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.20
Warning! 665865 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:1474 original size:95 final size:94
Alignment explanation
Indices: 1311--1523 Score: 345
Period size: 95 Copynumber: 2.2 Consensus size: 94
1301 CTTCTTCTAC
*
1311 TTTCAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGAAGGACGC
1 TTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGAAGGACGC
*
1376 CTTTTAAAGCCCACACAAGTTGGTGGCACT
66 CTTTTAAAACCCACACAAGTTGGTGGCA-T
* * * *
1406 TTTCAGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCTCAAAGAGCAGGATGC
1 TTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGAAGGACGC
*
1471 CTTTTAAAACCCACACGAGTTGGTGGCAT
66 CTTTTAAAACCCACACAAGTTGGTGGCAT
1500 TTTCTAGTCCTCAAAGAGCAGGAC
1 TTTC-AGTCCTCAAAGAGCAGGAC
1524 ACTTTTTTCT
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
94 5 0.05
95 104 0.95
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
TTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGAAGGACGC
CTTTTAAAACCCACACAAGTTGGTGGCAT
Found at i:1736 original size:173 final size:172
Alignment explanation
Indices: 1446--2519 Score: 1432
Period size: 173 Copynumber: 6.1 Consensus size: 172
1436 CCTTTCACCC
* * *
1446 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAACCCACACGAGTTGGTGGCA-TTTTCTAGTCC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCC
* *
1510 TCAAAGAGCAGGACACTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
66 TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
*
1575 AGAGCAGGACGTCTTTC-AAGCCCACATAAGTTGGTGGCAATTTTT
131 AGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGC-A---TT
1620 TTTTAGTCCTCAAAGAGCA-GACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCC
1683 TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
66 TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
* *
1748 AGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAAT
131 AGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCATT
* *
1790 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGTATTTTTCTAGTCC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCC
*
1855 TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCCTCAA
66 TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
*
1920 AGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATT
131 AGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGC-ATT
*
1963 TTTTAGTCCTCAAAGAGTAGGACGCCTTTTATAA-CCCACACAAGTTGGTGGCATTTTTTCTAGT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTA-AAGCCCACACAAGTTGGTGGCA-TTTTTCTAGT
* * **
2027 CCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTGTTC
64 CCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
2091 AAAGAGCAGGACGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
129 AAAGAGCAGGACG----T--CTTTCAAAGCCCACACAAGTTGGTGGCA-TT
* * * **
2142 TTTCTAGTCCTCAAAAAGGAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA-CCTT
1 TTT-TAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTT
* * * * * *
2206 -TAGTCTTCAAAGAGTAGGACGCCTTCGT-CTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTC
59 CTAGTCCTCAAAGAGCAGGACACCTT-TTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTTC
* **
2269 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
122 AGTCCTCAAAGAGCAGGACG-----TC-TTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
2326 TTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTC-AGTC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTTCTAGTC
* * *
2390 CTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTCAGTTCTC
65 CTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * *
2454 AAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACT
129 AAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCATT
2498 TTTTAGTCCTCAAAGAGCAGGA
1 TTTTAGTCCTCAAAGAGCAGGA
2520 TACACTTTAT
Statistics
Matches: 815, Mismatches: 55, Indels: 62
0.87 0.06 0.07
Matches are distributed among these distances:
170 20 0.02
171 31 0.04
172 162 0.20
173 190 0.23
174 106 0.13
177 28 0.03
178 29 0.04
179 78 0.10
180 19 0.02
183 67 0.08
184 10 0.01
185 46 0.06
186 29 0.04
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (172 bp):
TTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCC
TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
AGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCATT
Found at i:1798 original size:55 final size:55
Alignment explanation
Indices: 1446--2519 Score: 947
Period size: 55 Copynumber: 18.4 Consensus size: 55
1436 CCTTTCACCC
* * * * *
1446 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAACCCACACGAGTTGGTGGCA-T
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1500 TTTCTAGTCCTCAAAGAGCAGGACACTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTT-TAGTCCTCAAAGAGCAGG--AC----GTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1562 TTTCAGTCCTCAAAGAGCAGGACGTCTTTC-AAGCCCACATAAGTTGGTGGCAATTTTT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGC-A---CT
* *
1620 TTTTAGTCCTCAAAGAGCA-GACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-T
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1673 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTT-TAGTCCTCAAAGAGCAGG--A-C--GT-CTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1735 TTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAAT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * * *
1790 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGTATT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1845 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTT-TAGTCCTCAAAGAGCAGG--A-C--GT-CTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * *
1907 CTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGC-ACT
* * * *
1963 TTTTAGTCCTCAAAGAGTAGGACGCCTTTTATAA-CCCACACAAGTTGGTGGCATTT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCA-AAGCCCACACAAGTTGGTGGCA-CT
* *
2019 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCAC-
1 TTT-TAGTCCTCAAAGAGCAGGACG-----T-CTTTCAAAGCCCACACAAGTTGGTGGCACT
* ** *
2080 CTTTAGTGTTCAAAGAGCAGGACGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 TTTTAGTCCTCAAAGAGCAGGACG----T--CTTTCAAAGCCCACACAAGTTGGTGGCA-CT
* * * *
2142 TTTCTAGTCCTCAAAAAGGAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCAC-
1 TTT-TAGTCCTCAAAGAGCAGGACG-----T-CTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
2203 CTTTAGTCTTCAAAGAGTAGGACGCCTTCGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
1 TTTTAGTCCTCAAAGAGCAGGA------CGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
2264 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
1 TTTT-AGTCCTCAAAGAGCAGGACG-----TC-TTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
2326 TTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
2381 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
1 TTTT-AGTCCTCAAAGAGCAGGACG-----TC-TTTCAAAGCCCACACAAGTTGGTGGCACT
* * * *
2443 TTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
2498 TTTTAGTCCTCAAAGAGCAGGA
1 TTTTAGTCCTCAAAGAGCAGGA
2520 TACACTTTAT
Statistics
Matches: 856, Mismatches: 98, Indels: 131
0.79 0.09 0.12
Matches are distributed among these distances:
53 4 0.00
54 39 0.05
55 206 0.24
56 92 0.11
57 33 0.04
58 42 0.05
59 8 0.01
60 89 0.10
61 154 0.18
62 115 0.13
63 68 0.08
64 4 0.00
66 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (55 bp):
TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:2534 original size:117 final size:115
Alignment explanation
Indices: 1446--2519 Score: 1131
Period size: 117 Copynumber: 9.2 Consensus size: 115
1436 CCTTTCACCC
* * * *
1446 TTTTAGTCCTCAAAGAGCAGGATG-C----CTTTTAAAACCCACACGAGTTGGTGGCA-TTTTCT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-
* * *
1505 AGTCCTCAAAGAGCAGGACACTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
65 AGTCCTCAAAGAGCAGGACGC------CTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * **
1562 TTTCAGTCCTCAAAGAGCAGGACG-----TC-TTTCAAGCCCACATAAGTTGGTGGCAATTTTTT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGC-A---CCT
* *
1621 TTTAGTCCTCAAAGAGCA-GACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-T
62 TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
*
1673 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 TTT-TAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
1738 CAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAAT
64 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * **
1790 TTTTAGTCCTCAAAGAGCAGGATG-C----CTTTTAAAGCCCACACAAGTTGGTGGTATTTTTCT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-
* *
1850 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
65 AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACT
* * * * ** *
1907 CTTCAGTCCTCAAAGAGCAGGACG-----TCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGC-ACCTTTC
* * *
1967 AGTCCTCAAAGAGTAGGACGCCTTTTATAA-CCCACACAAGTTGGTGGCATTT
65 AGTCCTCAAAGAGCAGGACGCCTTTCA-AAGCCCACACAAGTTGGTGGCA-CT
*
2019 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT
1 TTT-TAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
** *
2084 -AGTGTTCAAAGAGCAGGACGCCTTTGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
64 CAGTCCTCAAAGAGCAGGA---C---GCCTTTCAAAGCCCACACAAGTTGGTGGCA-CT
* * *
2142 TTTCTAGTCCTCAAAAAGGAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT
1 TTT-TAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
2207 -AGTCTTCAAAGAGTAGGACGCCTTCGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
64 CAGTCCTCAAAGAGCAGGACG----C--CTTTCAAAGCCCACACAAGTTGGTGGCACT
*
2264 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 TTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
*
2329 CAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
64 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
*
2381 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 TTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
* *
2446 CAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACT
64 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
2498 TTTTAGTCCTCAAAGAGCAGGA
1 TTTTAGTCCTCAAAGAGCAGGA
2520 TACACTTTAT
Statistics
Matches: 843, Mismatches: 65, Indels: 100
0.84 0.06 0.10
Matches are distributed among these distances:
110 31 0.04
111 43 0.05
112 54 0.06
113 21 0.02
115 40 0.05
116 94 0.11
117 258 0.31
118 17 0.02
119 63 0.07
120 6 0.01
121 7 0.01
122 56 0.07
123 153 0.18
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (115 bp):
TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCA
GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:3137 original size:6 final size:6
Alignment explanation
Indices: 3126--3152 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3116 TAATAAGTAA
3126 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
3153 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:3237 original size:4 final size:4
Alignment explanation
Indices: 3223--3276 Score: 92
Period size: 4 Copynumber: 13.5 Consensus size: 4
3213 CGATTCAAGC
3223 ATAA A-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA
3271 ATAA AT
1 ATAA AT
3277 TAAAAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.06
4 41 0.85
5 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:3409 original size:26 final size:26
Alignment explanation
Indices: 3305--3405 Score: 186
Period size: 26 Copynumber: 3.9 Consensus size: 26
3295 GAAAACTTAT
3305 AGCATGGGAAAGGAAATAGAAAATGC
1 AGCATGGGAAAGGAAATAGAAAATGC
3331 AGCATGGGAAAGGAAATAGAAAATGC
1 AGCATGGGAAAGGAAATAGAAAATGC
*
3357 AGCATGGGAAAGGAAATAAAAAATGC
1 AGCATGGGAAAGGAAATAGAAAATGC
3383 AGCATGGGAAAGGAAATA-AAAAT
1 AGCATGGGAAAGGAAATAGAAAAT
3406 TGCAATTGGA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
25 5 0.07
26 69 0.93
ACGTcount: A:0.52, C:0.07, G:0.29, T:0.12
Consensus pattern (26 bp):
AGCATGGGAAAGGAAATAGAAAATGC
Found at i:3782 original size:55 final size:55
Alignment explanation
Indices: 3704--3833 Score: 161
Period size: 55 Copynumber: 2.4 Consensus size: 55
3694 TAGCCAACGA
* * * * * *
3704 CTCCAACACGCAAAAGCAGCTCCAGCAGCAGCACCAACTCCAACGGCGGCGACAG
1 CTCCAGCACGCAACAGCAGCTCCAACAACAGCACCAACTCCAACAGCGACGACAG
* * * * *
3759 CTCTAGCATGCAACAGCAGCTCCAACAACAGCAGCAACTCCAGCAGCGACTACAG
1 CTCCAGCACGCAACAGCAGCTCCAACAACAGCACCAACTCCAACAGCGACGACAG
3814 CTCCAGCACGCAACAGCAGC
1 CTCCAGCACGCAACAGCAGC
3834 AGCAACTCCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.33, C:0.39, G:0.20, T:0.08
Consensus pattern (55 bp):
CTCCAGCACGCAACAGCAGCTCCAACAACAGCACCAACTCCAACAGCGACGACAG
Found at i:3828 original size:43 final size:43
Alignment explanation
Indices: 3781--3876 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
3771 ACAGCAGCTC
*
3781 CAACAACAGCAGCAACTCCAGCAGCGACTACAGCTCCAGCACG
1 CAACAGCAGCAGCAACTCCAGCAGCGACTACAGCTCCAGCACG
*
3824 CAACAGCAGCAGCAACTCCAGCAGCGACTGCAGCTCCAGCACG
1 CAACAGCAGCAGCAACTCCAGCAGCGACTACAGCTCCAGCACG
3867 CAACAGCAGC
1 CAACAGCAGC
3877 TCCAGCGAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.33, C:0.40, G:0.21, T:0.06
Consensus pattern (43 bp):
CAACAGCAGCAGCAACTCCAGCAGCGACTACAGCTCCAGCACG
Found at i:3846 original size:55 final size:55
Alignment explanation
Indices: 3674--3857 Score: 149
Period size: 55 Copynumber: 3.4 Consensus size: 55
3664 AAGAAGAATA
* * * * * *
3674 AACAACAGCAGCAGCTCCAGTAGC--CAAC-GACTCCAACACGCAAAAGCAGCTCC
1 AACAACAGCAGCAACTCCAGCAGCGACGACAG-CTCCAGCACGCAACAGCAGCACC
* * * * * * * * *
3727 AGCAGCAGCACCAACTCCAACGGCGGCGACAGCTCTAGCATGCAACAGCAGCTCC
1 AACAACAGCAGCAACTCCAGCAGCGACGACAGCTCCAGCACGCAACAGCAGCACC
* *
3782 AACAACAGCAGCAACTCCAGCAGCGACTACAGCTCCAGCACGCAACAGCAGCAGC
1 AACAACAGCAGCAACTCCAGCAGCGACGACAGCTCCAGCACGCAACAGCAGCACC
** * *
3837 AACTCCAGCAGCGACTGCAGC
1 AACAACAGCAGCAACTCCAGC
3858 TCCAGCACGC
Statistics
Matches: 101, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
53 17 0.17
55 83 0.82
56 1 0.01
ACGTcount: A:0.34, C:0.38, G:0.21, T:0.08
Consensus pattern (55 bp):
AACAACAGCAGCAACTCCAGCAGCGACGACAGCTCCAGCACGCAACAGCAGCACC
Found at i:3897 original size:18 final size:17
Alignment explanation
Indices: 3831--3902 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 17
3821 ACGCAACAGC
3831 AGCAGCAACTCCAGCAG
1 AGCAGCAACTCCAGCAG
* * *
3848 CGACTGCAGCTCCAGCACG
1 AG-CAGCAACTCCAGCA-G
* *
3867 CAACAGCAGCTCCAGCGAG
1 -AGCAGCAACTCCAGC-AG
3886 AGCAGCAACTCCAGCAG
1 AGCAGCAACTCCAGCAG
3903 GTAGCAATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
17 3 0.07
18 25 0.58
19 14 0.33
20 1 0.02
ACGTcount: A:0.31, C:0.38, G:0.25, T:0.07
Consensus pattern (17 bp):
AGCAGCAACTCCAGCAG
Found at i:4887 original size:51 final size:51
Alignment explanation
Indices: 4826--5521 Score: 438
Period size: 51 Copynumber: 13.5 Consensus size: 51
4816 CAATTGCTCA
*
4826 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCTATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* * * *
4877 TAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTT
* * * ** ***** * * *
4927 CAATCGAGGATACTCCAACCTCATTATTTCATCGGGGATACTCCAA--CCCTGT
1 TAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTCCT-T
* * * * ***
4979 TACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCT
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-T
* * *
5034 TAAT-GGGGATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTT
*
5084 TAATCGGGGATA-TCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTT
*
5136 TAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* * *
5187 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTT
* * * * ***** * * ** *
5237 CAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAA-CCCCGT
1 TAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTCCTT
* * * * ***
5289 TACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCT
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-T
* * * *
5344 TAAT-GGGGATACTCAAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTT
*
5394 TAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTT
* * *
5447 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTT
* *
5497 CACAATCGAGGATACTCCAACCCCG
1 --TAATCGGGGATACTCCAACCCCG
5522 TTACCTTCGA
Statistics
Matches: 489, Mismatches: 113, Indels: 85
0.71 0.16 0.12
Matches are distributed among these distances:
49 6 0.01
50 123 0.25
51 137 0.28
52 107 0.22
53 56 0.11
54 15 0.03
55 14 0.03
56 31 0.06
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
Found at i:5047 original size:50 final size:51
Alignment explanation
Indices: 4988--5521 Score: 390
Period size: 50 Copynumber: 10.4 Consensus size: 51
4978 TTACCTCCGA
* * * *
4988 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCTTAAT-
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCCT-TTAATC
* * *
5038 GGGGATACTCCAACCCCGGTTTCATTTCTAAAACACTAACTTTCC-ATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAA-TTTCCTTTAATC
* * *
5089 GGGGATA-TCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTA-TTTCCAAAACA-CTAATTTCCTTTAATC
* * *
5141 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCCTTTAATC
* * * *
5192 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT--TTCAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTTCCTTTAATC
* * * ***** * * * ** * *
5242 GAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAA-CCCCGTTACCTCC
1 GGGGATACTCCAACCCCGGT-TTT-ATTTCCAAAACACTAATTTCCTTTA-AT-C
* * * *
5296 GAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCTTAAT-
1 --GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCCT-TTAATC
* * * *
5348 GGGGATACTCAAACCCCGGTTTCATTTCTAAAACACTAACTTTCC-ATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAA-TTTCCTTTAATC
* * *
5399 GGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTA-TTTCCAAAACA-CTAATTTCCTTTAATC
* * * *
5452 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT--TTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTTCCTT--TAATC
*
5504 GAGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
5522 TTACCTTCGA
Statistics
Matches: 379, Mismatches: 78, Indels: 52
0.74 0.15 0.10
Matches are distributed among these distances:
50 111 0.29
51 99 0.26
52 89 0.23
53 50 0.13
54 8 0.02
55 6 0.02
56 16 0.04
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCCTTTAATC
Found at i:5267 original size:29 final size:28
Alignment explanation
Indices: 5234--5315 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
5224 AACACCAATT
*
5234 TTTCAATCGAGGATACTCCAACCTCGTTA
1 TTTC-ATCGAGGATACTCCAACCCCGTTA
*
5263 TTTCATCGGGGATACTCCAACCCCGTTA
1 TTTCATCGAGGATACTCCAACCCCGTTA
**
5291 CCTC--CGAGGGGATACTCCAACCCCG
1 TTTCATCGA--GGATACTCCAACCCCG
5316 GCTTTATTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.04
28 40 0.87
29 4 0.09
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.24
Consensus pattern (28 bp):
TTTCATCGAGGATACTCCAACCCCGTTA
Found at i:5275 original size:28 final size:29
Alignment explanation
Indices: 5234--5290 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
5224 AACACCAATT
*
5234 TTTCAATCGAGGATACTCCAACCTCGTTA
1 TTTCAATCGAGGATACTCCAACCCCGTTA
*
5263 TTTC-ATCGGGGATACTCCAACCCCGTTA
1 TTTCAATCGAGGATACTCCAACCCCGTTA
5291 CCTCCGAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (29 bp):
TTTCAATCGAGGATACTCCAACCCCGTTA
Found at i:5369 original size:260 final size:261
Alignment explanation
Indices: 5038--5548 Score: 759
Period size: 260 Copynumber: 2.0 Consensus size: 261
5028 TTCTCTTAAT
* *
5038 GGGGATACTCCAACCCCGGTTTCATTTCTAAAACACTAACTTTCCATAATCGGGGATATCTAACC
1 GGGGATACTCCAACCCCGGTTTCATTTCCAAAACACTAACTTTCCATAATCGGGGATATCAAACC
* * *
5103 CCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCCCAGTTTTA-TT
66 CCGGTTTCATTTCT-AAAACACCAAATTTCC-ATAATCGGGGATACTCCAACCCCAGTTTTATTT
5167 TTCAAAACACC-AATTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCA
129 TTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCA
* *
5231 ATTTTT-CAATCGAGGATACTCCAACCTCGTTA-TTTC-ATCGGGGATACTCCAACCCCGTTACC
194 ATTTTTACAATCGAGGATACTCCAACCCCGTTACCTTCGA--GGGGATACTCCAACCCCGTTACC
5293 TCCGA
257 TCCGA
* * * *
5298 GGGGATACTCCAACCCCGGCTTT-ATTTCCAAAATATTGA-TTTCTCTTAAT-GGGGATACTCAA
1 GGGGATACTCCAACCCCGG-TTTCATTTCCAAAACACTAACTTTC-CATAATCGGGGATA-TCAA
* * * *
5360 ACCCCGGTTTCATTTCTAAAACACTAACTTTCCATAATCGGGGATACTCTAACCCCGGTTTTATT
63 ACCCCGGTTTCATTTCTAAAACACCAAATTTCCATAATCGGGGATACTCCAACCCCAGTTTTATT
5425 TTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACC
128 TTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACC
5490 AATTTTTCACAATCGAGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCC
193 AATTTTT-ACAATCGAGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCC
5549 AGCTTTATTT
Statistics
Matches: 227, Mismatches: 15, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
258 27 0.12
259 38 0.17
260 113 0.50
261 3 0.01
262 42 0.19
263 3 0.01
264 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (261 bp):
GGGGATACTCCAACCCCGGTTTCATTTCCAAAACACTAACTTTCCATAATCGGGGATATCAAACC
CCGGTTTCATTTCTAAAACACCAAATTTCCATAATCGGGGATACTCCAACCCCAGTTTTATTTTT
CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
TTTTACAATCGAGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCGTTACCTCCG
A
Found at i:5388 original size:310 final size:310
Alignment explanation
Indices: 4826--5494 Score: 1232
Period size: 310 Copynumber: 2.1 Consensus size: 310
4816 CAATTGCTCA
*
4826 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCTATTTCCTTTAATCGGGGATACT
1 TAATCGGGGATACTCCAACCCC-GTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATACT
*
4891 CCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCAATCGAGGATACTCCAACCTCATTATTT
65 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAATCGAGGATACTCCAACCTCATTATTT
*
4956 CATCGGGGATACTCCAACCCTGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAA
130 CATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAA
*
5021 TATTGATTTCTCTTAATGGGGATACTCCAACCCCGGTTTCATTTCTAAAACACTAACTTTCCATA
195 TATTGATTTCTCTTAATGGGGATACTCAAACCCCGGTTTCATTTCTAAAACACTAACTTTCCATA
5086 ATCGGGGATA-TCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
260 ATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
5136 TAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATACT
1 TAATCGGGGATACTCCAACCCC-GTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATACT
*
5201 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAATCGAGGATACTCCAACCTCGTTATTT
65 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAATCGAGGATACTCCAACCTCATTATTT
5266 CATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAA
130 CATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAA
5331 TATTGATTTCTCTTAATGGGGATACTCAAACCCCGGTTTCATTTCTAAAACACTAACTTTCCATA
195 TATTGATTTCTCTTAATGGGGATACTCAAACCCCGGTTTCATTTCTAAAACACTAACTTTCCATA
5396 ATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
260 ATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
* *
5447 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT
1 TAATCGGGGATACTCCAACCCCG-TTTTATTTTC-AAAACACCAATTT
5495 TTCACAATCG
Statistics
Matches: 348, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
310 265 0.76
311 70 0.20
312 13 0.04
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (310 bp):
TAATCGGGGATACTCCAACCCCGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATACTC
CAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAATCGAGGATACTCCAACCTCATTATTTC
ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
ATTGATTTCTCTTAATGGGGATACTCAAACCCCGGTTTCATTTCTAAAACACTAACTTTCCATAA
TCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
Found at i:7713 original size:13 final size:12
Alignment explanation
Indices: 7695--7732 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
7685 ATAATCCCCT
7695 TGTATCGATACA
1 TGTATCGATACA
7707 GTGTATCGATACTA
1 -TGTATCGATAC-A
7721 TGTATCGATACA
1 TGTATCGATACA
7733 AAGAATGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:11397 original size:75 final size:75
Alignment explanation
Indices: 11274--11428 Score: 301
Period size: 75 Copynumber: 2.1 Consensus size: 75
11264 TTCTTGGGTT
*
11274 CTTTTTCGTTAGTGTTTAGAACTTTTGATCCCTTTGGAATCCATTTTGTTAATTCATTATTTGAA
1 CTTTTTCGTTAGTGTTTAGAACTTTTGATCCCTTTGCAATCCATTTTGTTAATTCATTATTTGAA
11339 ATCCCGATTC
66 ATCCCGATTC
11349 CTTTTTCGTTAGTGTTTAGAACTTTTGATCCCTTTGCAATCCATTTTGTTAATTCATTATTTGAA
1 CTTTTTCGTTAGTGTTTAGAACTTTTGATCCCTTTGCAATCCATTTTGTTAATTCATTATTTGAA
11414 ATCCCGATTC
66 ATCCCGATTC
11424 CTTTT
1 CTTTT
11429 GGCACCTATA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (75 bp):
CTTTTTCGTTAGTGTTTAGAACTTTTGATCCCTTTGCAATCCATTTTGTTAATTCATTATTTGAA
ATCCCGATTC
Found at i:13990 original size:13 final size:13
Alignment explanation
Indices: 13972--13996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13962 CATTTTATGG
13972 TGTATCGATACAA
1 TGTATCGATACAA
13985 TGTATCGATACA
1 TGTATCGATACA
13997 TACTGTGTGT
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:14012 original size:32 final size:33
Alignment explanation
Indices: 13949--14016 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
13939 CGTTACAAGC
**
13949 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
13982 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
14014 CAA
1 CAA
14017 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:14105 original size:13 final size:13
Alignment explanation
Indices: 14087--14111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14077 ACATTTGGTC
14087 ATGTATCGATACA
1 ATGTATCGATACA
14100 ATGTATCGATAC
1 ATGTATCGATAC
14112 TATGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:15075 original size:3 final size:3
Alignment explanation
Indices: 15067--15106 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
15057 TGCGTCAACT
* *
15067 TCA TCA TCA TCA TCA TCA TCA TCA TTA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
15107 TGATAGTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:19056 original size:13 final size:13
Alignment explanation
Indices: 19016--19063 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
19006 CCGTTACAAG
19016 CAATGTATCGATA
1 CAATGTATCGATA
19029 CAA--T-TC-AT-
1 CAATGTATCGATA
19037 C-ATGTATCGATA
1 CAATGTATCGATA
19049 CAATGTATCGATA
1 CAATGTATCGATA
19062 CA
1 CA
19064 TTGTGCCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.14
11 3 0.10
12 1 0.03
13 16 0.55
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:19056 original size:33 final size:32
Alignment explanation
Indices: 19016--19084 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
19006 CCGTTACAAG
19016 CAATGTATCGATACAATTCAT-CATGTATCGATA
1 CAATGTATCGATAC-ATT-ATCCATGTATCGATA
*
19049 CAATGTATCGATACATTGTGCCATGTATCGATA
1 CAATGTATCGATACATTAT-CCATGTATCGATA
19082 CAA
1 CAA
19085 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 1 0.03
32 3 0.09
33 29 0.88
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (32 bp):
CAATGTATCGATACATTATCCATGTATCGATA
Found at i:19158 original size:19 final size:20
Alignment explanation
Indices: 19134--19185 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
19124 ACAATTCTGC
19134 ATGTATCGATACAATA-AAT-
1 ATGTATCGATACAA-AGAATA
*
19153 ATGTATCGATACAAAGCATA
1 ATGTATCGATACAAAGAATA
19173 ATGTATCGATACA
1 ATGTATCGATACA
19186 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 1 0.03
19 16 0.53
20 13 0.43
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACAAAGAATA
Found at i:19751 original size:20 final size:22
Alignment explanation
Indices: 19712--19754 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19702 TTTCATTTTT
19712 TCCCCCTTAATTAAAGAATTTC
1 TCCCCCTTAATTAAAGAATTTC
*
19734 TCCCTCTTAA-TAAA-AATTTC
1 TCCCCCTTAATTAAAGAATTTC
19754 T
1 T
19755 ATTTCTCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.40
Consensus pattern (22 bp):
TCCCCCTTAATTAAAGAATTTC
Found at i:19770 original size:15 final size:15
Alignment explanation
Indices: 19750--19782 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19740 TTAATAAAAA
19750 TTTCTATTTCTCCCC
1 TTTCTATTTCTCCCC
*
19765 TTTCTATTTCTCCTC
1 TTTCTATTTCTCCCC
19780 TTT
1 TTT
19783 AATCAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTCTATTTCTCCCC
Found at i:20511 original size:28 final size:28
Alignment explanation
Indices: 20480--20995 Score: 540
Period size: 28 Copynumber: 18.5 Consensus size: 28
20470 CACCGACTTG
* *
20480 TGTGGGCTTTGAAAGGATGTCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
20508 TGTGGGCTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
*
20536 TATGGGCTTTTTGAAAGGATGCCACTGACT
1 TGTGGGC--TTTGAAAGGATGCCACTGACT
20566 TGTGGGCTTTTTGAAAGGATGCCACTGACT
1 TGTGGGC--TTTGAAAGGATGCCACTGACT
* *
20596 TGTGGGC------AGG-TGTCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
20617 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* ** *
20645 TGTGGGTTTTGAAAAAATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
20673 TGTAGGG-TTT-AAACGGATGCCACTGACT
1 TGT-GGGCTTTGAAA-GGATGCCACTGACT
* * *
20701 TGTGGGCTTTAAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
20729 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
20757 TATGGGCTTTGAAAAGG-TGCCCCTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
20785 TGTGAGCTTGGACAA-GATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
20813 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
20841 TGTGGGCTTCGAAAAGG-TGCCATTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * * *
20869 TATGGGCTTAGAAAAGATGCTACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
20897 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
20925 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
20953 TATGGGCTTTG-AAGAGATGCCATTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
**
20981 CCTGGGCTTTGAAAG
1 TGTGGGCTTTGAAAG
20996 ATGAATGTTC
Statistics
Matches: 418, Mismatches: 47, Indels: 45
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.04
22 3 0.01
27 16 0.04
28 310 0.74
29 19 0.05
30 54 0.13
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:20716 original size:84 final size:84
Alignment explanation
Indices: 20480--20998 Score: 599
Period size: 84 Copynumber: 6.2 Consensus size: 84
20470 CACCGACTTG
* * * *
20480 TGTGGGCTTTGAAAGGATGTCACTAACTTGTGGGCTTTGAAATGGTGCCACTGACTTATGGGCTT
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC--
*
20545 TTTGAAAGGATGCCACTGACT
64 TTTGAAAAGATGCCACTGACT
* * * *
20566 TGTGGGCTTTTTGAAAGGATGCCACTGACTTGTGGGC-------AGGTGTCACTGATTTGTGGGC
1 TGTGGGC--TTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC
20624 TTTGAAAAGATGCCACTGACT
64 TTTGAAAAGATGCCACTGACT
* * *
20645 TGTGGGTTTTGAAAAAATGCCACTAACTTGTAGGG-TTT-AAACGGATGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGT-GGGCTTTGAAAAGG-TGCCACTGACTTGTGGGC
* *
20708 TTTAAAAAGATGCCACTAACT
64 TTTGAAAAGATGCCACTGACT
* * * *
20729 TGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTGAAAAGGTGCCCCTGACTTGTGAGCTT
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
* *
20794 GGACAAGATGCCACTGACT
66 TGAAAAGATGCCACTGACT
* * * * *
20813 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTCGAAAAGGTGCCATTGACTTATGGGCTT
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
* * *
20878 AGAAAAGATGCTACTAACT
66 TGAAAAGATGCCACTGACT
* * *
20897 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTT
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
* *
20962 TGAAGAGATGCCATTGACT
66 TGAAAAGATGCCACTGACT
**
20981 CCTGGGCTTTG-AAAGATG
1 TGTGGGCTTTGAAAAGATG
20999 AATGTTCTAG
Statistics
Matches: 369, Mismatches: 52, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
77 21 0.06
78 3 0.01
79 26 0.07
81 17 0.05
83 11 0.03
84 253 0.69
85 5 0.01
86 7 0.02
88 26 0.07
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (84 bp):
TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
TGAAAAGATGCCACTGACT
Found at i:24972 original size:20 final size:20
Alignment explanation
Indices: 24947--25020 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
24937 TTTTAACTAG
24947 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* * * * *
24967 ATGTATCAATATATTCATAC
1 ATGTATCGATACATTGAAAA
24987 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
25007 ATGTATCGATACAT
1 ATGTATCGATACAT
25021 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:50029 original size:87 final size:87
Alignment explanation
Indices: 49889--50245 Score: 235
Period size: 88 Copynumber: 4.1 Consensus size: 87
49879 TTATTTTAAA
** * * *
49889 GAAACTCCATCCCTCCTA-TTCTAGGGGGTACTCCAACCCCAGTTTAG--TAAAAATTCAAAATT
1 GAAACTCCATCCCTATTATTTCGAGGGGATACTCCAACCCCA--TTAGAACAAAAATTCAAAATT
* *
49951 TTCCCATATAATTTTGTTCTTGGG
64 TTCCCATATAATTTTGTCCTTAGG
* * * * * ** *
49975 GAAACTCCATCCCTTTTATTTTGTGGGGATACTCCAACCTCGTTCTAACTAAAATTCAAACTCAC
1 GAAACTCCATCCCTATTATTTCGAGGGGATACTCCAACCCCATTAGAACAAAAATTCAAA---A-
* * * *
50040 TTTT---GTACAATTTTATCCTTAGA
62 TTTTCCCATATAATTTTGTCCTTAGG
* *
50063 GAAACTCCATTCCTATTATTTCGAGGGGGTACTCCAACCCCATTAGAACAAAAATTC-AAATTTT
1 GAAACTCCATCCCTATTATTTCGAGGGGATACTCCAACCCCATTAGAACAAAAATTCAAAATTTT
*
50127 CCTCACATAATTTTGTCCTTAGG
66 CC-CATATAATTTTGTCCTTAGG
* * * * * * * ** * * *
50150 GAAACTCTATCCCCACTA-TTCTGAGAGAATACTCTAACCGCATTCTAACAGAATTTCAAATTTT
1 GAAACTCCATCCCTATTATTTC-GAGGGGATACTCCAACCCCATTAGAACAAAAATTCAAAATTT
*** *
50214 TCTTTTTATAATTTTATCCTTAGG
65 TC-CCATATAATTTTGTCCTTAGG
50238 GAAACTCC
1 GAAACTCC
50246 TTTTCTATTA
Statistics
Matches: 204, Mismatches: 53, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
83 4 0.02
84 1 0.00
85 2 0.01
86 19 0.09
87 83 0.41
88 90 0.44
90 1 0.00
91 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (87 bp):
GAAACTCCATCCCTATTATTTCGAGGGGATACTCCAACCCCATTAGAACAAAAATTCAAAATTTT
CCCATATAATTTTGTCCTTAGG
Found at i:50198 original size:175 final size:174
Alignment explanation
Indices: 49875--50257 Score: 409
Period size: 175 Copynumber: 2.2 Consensus size: 174
49865 AACATCAAAA
* * * ** * *
49875 AATTTTAT-TTTAAAGAAACTCCATCCCTCCTA-TTCTAGGGGGTACTCCAACCCCAGTTTAGTA
1 AATTTTATCCTTAGAGAAACTCCATTCCTATTATTTCGAGGGGGTACTCCAACCCCAG-TTAGCA
* * * *** * * * *
49938 AAAATTCAAAATTTTCCCATATAATTTTGTTCTTGGGGAAACTCCATCCCTTTTATTTTGTGGGG
65 AAAATTCAAAATTTTCCCACATAATTTTGTCCTTAGGGAAACTCCATCCCCACTATTCTGAGAGA
* *
50003 ATACTCCAACCTCGTTCTAACTA-AAATTCAAA-CTCACTTTTGTAC
130 ATACTCCAACCGCATTCTAAC-AGAAATTCAAATCTCACTTTT-TAC
50048 AATTTTATCCTTAGAGAAACTCCATTCCTATTATTTCGAGGGGGTACTCCAACCCCA-TTAGAAC
1 AATTTTATCCTTAGAGAAACTCCATTCCTATTATTTCGAGGGGGTACTCCAACCCCAGTTAG--C
*
50112 AAAAATTC-AAATTTTCCTCACATAATTTTGTCCTTAGGGAAACTCTATCCCCACTATTCTGAGA
64 AAAAATTCAAAATTTTCC-CACATAATTTTGTCCTTAGGGAAACTCCATCCCCACTATTCTGAGA
* * * ** *
50176 GAATACTCTAACCGCATTCTAACAGAATTTCAAATTTTTCTTTTTAT
128 GAATACTCCAACCGCATTCTAACAGAAATTCAAATCTCACTTTTTAC
* * *
50223 AATTTTATCCTTAGGGAAACTCCTTTTCTATTATT
1 AATTTTATCCTTAGAGAAACTCCATTCCTATTATT
50258 CTAAGAGGAT
Statistics
Matches: 174, Mismatches: 29, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
173 12 0.07
174 29 0.17
175 127 0.73
176 6 0.03
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (174 bp):
AATTTTATCCTTAGAGAAACTCCATTCCTATTATTTCGAGGGGGTACTCCAACCCCAGTTAGCAA
AAATTCAAAATTTTCCCACATAATTTTGTCCTTAGGGAAACTCCATCCCCACTATTCTGAGAGAA
TACTCCAACCGCATTCTAACAGAAATTCAAATCTCACTTTTTAC
Found at i:50258 original size:88 final size:87
Alignment explanation
Indices: 49957--50279 Score: 218
Period size: 88 Copynumber: 3.7 Consensus size: 87
49947 AATTTTCCCA
* * * * * * * * * * * * **
49957 TATAATTTTGTTCTTGGGGAAACTCCATCCCTTTTATTTTGTGGGGATACTCCAACCTCGTTCTA
1 TATAATTTTATCCTTAGGGAAACTCCTTTCCTATTATTCTGAGAGAATACTCCAACCCCATTAGA
* * **
50022 ACTAAAATTCAAACTCACTTTT
66 ACAAAAATTCAAATTTTCTTTT
* * * * **
50044 GTACAATTTTATCCTTAGAGAAACTCCATTCCTATTATT-TCGAGGGGGTACTCCAACCCCATTA
1 -TATAATTTTATCCTTAGGGAAACTCCTTTCCTATTATTCT-GAGAGAATACTCCAACCCCATTA
* **
50108 GAACAAAAATTCAAATTTTCCTCA
64 GAACAAAAATTCAAATTTTCTTTT
* * * * * * * **
50132 CATAATTTTGTCCTTAGGGAAACT-CTATCCCCACTATTCTGAGAGAATACTCTAACCGCATTCT
1 TATAATTTTATCCTTAGGGAAACTCCT-TTCCTATTATTCTGAGAGAATACTCCAACCCCATTAG
* *
50196 AACAGAATTTCAAATTTTTCTTTT
65 AACAAAAATTCAAA-TTTTCTTTT
* * * *
50220 TATAATTTTATCCTTAGGGAAACTCCTTTTCTATTATTCTAAGAGGATATTCCAACCCCA
1 TATAATTTTATCCTTAGGGAAACTCCTTTCCTATTATTCTGAGAGAATACTCCAACCCCA
50280 CTTCTCTAAC
Statistics
Matches: 179, Mismatches: 51, Indels: 10
0.75 0.21 0.04
Matches are distributed among these distances:
86 1 0.01
87 58 0.32
88 118 0.66
89 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (87 bp):
TATAATTTTATCCTTAGGGAAACTCCTTTCCTATTATTCTGAGAGAATACTCCAACCCCATTAGA
ACAAAAATTCAAATTTTCTTTT
Found at i:56395 original size:20 final size:19
Alignment explanation
Indices: 56366--56431 Score: 54
Period size: 20 Copynumber: 3.7 Consensus size: 19
56356 TTTCACATAA
*
56366 TGTATGGATACATTGCAATT
1 TGTATCGATACATTGCAA-T
56386 TGTATCGAT--A---CAA-
1 TGTATCGATACATTGCAAT
56399 TGTATCGATACATTGCAACT
1 TGTATCGATACATTGCAA-T
*
56419 TGTAACGATACAT
1 TGTATCGATACAT
56432 CATGAAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
18 4 0.11
20 20 0.54
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATTGCAAT
Found at i:56404 original size:13 final size:13
Alignment explanation
Indices: 56386--56410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56376 CATTGCAATT
56386 TGTATCGATACAA
1 TGTATCGATACAA
56399 TGTATCGATACA
1 TGTATCGATACA
56411 TTGCAACTTG
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:56409 original size:33 final size:33
Alignment explanation
Indices: 56364--56430 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
56354 ACTTTCACAT
* * *
56364 AATGTATGGATACATTGCAATTTGTATCGATAC
1 AATGTATCGATACATTGCAACTTGTAACGATAC
56397 AATGTATCGATACATTGCAACTTGTAACGATAC
1 AATGTATCGATACATTGCAACTTGTAACGATAC
56430 A
1 A
56431 TCATGAAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (33 bp):
AATGTATCGATACATTGCAACTTGTAACGATAC
Found at i:57005 original size:20 final size:19
Alignment explanation
Indices: 56954--57005 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
56944 CCCTTAAAAA
*
56954 TATCGATACATAATTCAAAG
1 TATCGATACAT-GTTCAAAG
*
56974 TATCGATACATGTTGCAATG
1 TATCGATACATGTT-CAAAG
56994 TATCGATACATG
1 TATCGATACATG
57006 AAAAAGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
TATCGATACATGTTCAAAG
Found at i:63237 original size:20 final size:20
Alignment explanation
Indices: 63211--63290 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
63201 TATGTCCAAA
63211 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* * *
63231 GTGTATCGATACATATGGAAATTCA
1 ATGTATCGATAC--AT-G--TTTCT
*
63256 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
63276 TTGTATCGATACATG
1 ATGTATCGATACATG
63291 GTATCGATAC
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
20 27 0.59
22 2 0.04
23 3 0.07
25 14 0.30
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:63296 original size:13 final size:13
Alignment explanation
Indices: 63277--63314 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
63267 CATTTTTCTT
63277 TGTATCGATACA-
1 TGTATCGATACAC
63289 TGGTATCGATACAC
1 T-GTATCGATACAC
63303 TGTATCGATACA
1 TGTATCGATACA
63315 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:63478 original size:20 final size:20
Alignment explanation
Indices: 63435--63480 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
63425 AAATCTTTTG
63435 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
63456 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
63476 CAAAA
1 CAAAA
63481 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:67202 original size:20 final size:20
Alignment explanation
Indices: 67177--67226 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
67167 GAAGCAATGG
*
67177 ATCGATACAAT-TCATCATGT
1 ATCGATACAATGT-ACCATGT
67197 ATCGATACAATGTACCATGT
1 ATCGATACAATGTACCATGT
67217 ATCGATACAA
1 ATCGATACAA
67227 GTAGTGGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (20 bp):
ATCGATACAATGTACCATGT
Found at i:67299 original size:19 final size:20
Alignment explanation
Indices: 67255--67300 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
67245 CTGCCAGTTT
* **
67255 CATGTATTGATATAATTGTC
1 CATGTATTAATATAATTGAA
67275 CATGTATTAATATAA-TGAA
1 CATGTATTAATATAATTGAA
67294 CATGTAT
1 CATGTAT
67301 CGATGCAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (20 bp):
CATGTATTAATATAATTGAA
Found at i:67313 original size:13 final size:13
Alignment explanation
Indices: 67295--67383 Score: 58
Period size: 13 Copynumber: 7.8 Consensus size: 13
67285 TATAATGAAC
67295 ATGTATCGATGCA
1 ATGTATCGATGCA
*
67308 ATGTATCGATACA
1 ATGTATCGATGCA
*
67321 A---AGC-AT--A
1 ATGTATCGATGCA
67328 ATGTATCGATGCA
1 ATGTATCGATGCA
*
67341 ATGTATCGATACA
1 ATGTATCGATGCA
*
67354 A---AGC-AT--A
1 ATGTATCGATGCA
67361 ATGTATCGATGCA
1 ATGTATCGATGCA
67374 ATGTATCGAT
1 ATGTATCGAT
67384 ACAAAGCATA
Statistics
Matches: 58, Mismatches: 6, Indels: 24
0.66 0.07 0.27
Matches are distributed among these distances:
7 4 0.07
9 4 0.07
10 8 0.14
11 4 0.07
13 38 0.66
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (13 bp):
ATGTATCGATGCA
Found at i:67332 original size:20 final size:20
Alignment explanation
Indices: 67307--67406 Score: 102
Period size: 20 Copynumber: 5.7 Consensus size: 20
67297 GTATCGATGC
67307 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
67327 AATGTATCGAT-----GC--
1 AATGTATCGATACAAAGCAT
67340 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
67360 AATGTATCGAT-----GC--
1 AATGTATCGATACAAAGCAT
67373 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
67393 AATGTATCGATACA
1 AATGTATCGATACA
67407 TTTGGGTGTG
Statistics
Matches: 66, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
18 4 0.06
20 36 0.55
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGCAT
Found at i:67333 original size:33 final size:33
Alignment explanation
Indices: 67295--67403 Score: 218
Period size: 33 Copynumber: 3.3 Consensus size: 33
67285 TATAATGAAC
67295 ATGTATCGATGCAATGTATCGATACAAAGCATA
1 ATGTATCGATGCAATGTATCGATACAAAGCATA
67328 ATGTATCGATGCAATGTATCGATACAAAGCATA
1 ATGTATCGATGCAATGTATCGATACAAAGCATA
67361 ATGTATCGATGCAATGTATCGATACAAAGCATA
1 ATGTATCGATGCAATGTATCGATACAAAGCATA
67394 ATGTATCGAT
1 ATGTATCGAT
67404 ACATTTGGGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (33 bp):
ATGTATCGATGCAATGTATCGATACAAAGCATA
Found at i:69763 original size:20 final size:21
Alignment explanation
Indices: 69738--69777 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
69728 TTTGATGGTG
*
69738 ATTTTGATG-AAAAATGAAGT
1 ATTTTGAAGTAAAAATGAAGT
69758 ATTTTGAAGTAAAAATGAAG
1 ATTTTGAAGTAAAAATGAAG
69778 AAATTTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
ATTTTGAAGTAAAAATGAAGT
Found at i:76123 original size:20 final size:20
Alignment explanation
Indices: 76098--76148 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
76088 AGAAGCAATA
*
76098 TATCGATACAAT-TCATCATG
1 TATCGATACAATGT-ACCATG
76118 TATCGATACAATGTACCATG
1 TATCGATACAATGTACCATG
76138 TATCGATACAA
1 TATCGATACAA
76149 ACAGTGGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (20 bp):
TATCGATACAATGTACCATG
Found at i:78388 original size:28 final size:28
Alignment explanation
Indices: 78356--78506 Score: 194
Period size: 28 Copynumber: 5.2 Consensus size: 28
78346 AACCTTACAA
*
78356 AACCTTATCTTTTGAAGGCTAAGATAAC
1 AACCTTATCTTTCGAAGGCTAAGATAAC
* *
78384 AACCTCTCAATCTCTCCAAGGCTAAGATAAC
1 AACCT-T--ATCTTTCGAAGGCTAAGATAAC
*
78415 AACCTTATCTTTTGAAGGCTAAGATAAC
1 AACCTTATCTTTCGAAGGCTAAGATAAC
* *
78443 AACCTCTCAATCTCTCCAAGGCTAAGATAAC
1 AACCT-T--ATCTTTCGAAGGCTAAGATAAC
78474 AACCTTATCTTTCGAAGGCTAAGATAAC
1 AACCTTATCTTTCGAAGGCTAAGATAAC
78502 AACCT
1 AACCT
78507 CTCAATCTCT
Statistics
Matches: 106, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
28 54 0.51
29 2 0.02
30 2 0.02
31 48 0.45
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (28 bp):
AACCTTATCTTTCGAAGGCTAAGATAAC
Found at i:78405 original size:31 final size:31
Alignment explanation
Indices: 78370--78521 Score: 217
Period size: 31 Copynumber: 5.1 Consensus size: 31
78360 TTATCTTTTG
78370 AAGGCTAAGATAACAACCTCTCAATCTCTCC
1 AAGGCTAAGATAACAACCTCTCAATCTCTCC
* **
78401 AAGGCTAAGATAACAACCT-T--ATCTTTTG
1 AAGGCTAAGATAACAACCTCTCAATCTCTCC
78429 AAGGCTAAGATAACAACCTCTCAATCTCTCC
1 AAGGCTAAGATAACAACCTCTCAATCTCTCC
* *
78460 AAGGCTAAGATAACAACCT-T--ATCTTTCG
1 AAGGCTAAGATAACAACCTCTCAATCTCTCC
78488 AAGGCTAAGATAACAACCTCTCAATCTCTCC
1 AAGGCTAAGATAACAACCTCTCAATCTCTCC
78519 AAG
1 AAG
78522 AACTATACCC
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
28 49 0.47
29 2 0.02
30 2 0.02
31 52 0.50
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (31 bp):
AAGGCTAAGATAACAACCTCTCAATCTCTCC
Found at i:78448 original size:59 final size:59
Alignment explanation
Indices: 78356--78521 Score: 323
Period size: 59 Copynumber: 2.8 Consensus size: 59
78346 AACCTTACAA
78356 AACCTTATCTTTTGAAGGCTAAGATAACAACCTCTCAATCTCTCCAAGGCTAAGATAAC
1 AACCTTATCTTTTGAAGGCTAAGATAACAACCTCTCAATCTCTCCAAGGCTAAGATAAC
78415 AACCTTATCTTTTGAAGGCTAAGATAACAACCTCTCAATCTCTCCAAGGCTAAGATAAC
1 AACCTTATCTTTTGAAGGCTAAGATAACAACCTCTCAATCTCTCCAAGGCTAAGATAAC
*
78474 AACCTTATCTTTCGAAGGCTAAGATAACAACCTCTCAATCTCTCCAAG
1 AACCTTATCTTTTGAAGGCTAAGATAACAACCTCTCAATCTCTCCAAG
78522 AACTATACCC
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 106 1.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (59 bp):
AACCTTATCTTTTGAAGGCTAAGATAACAACCTCTCAATCTCTCCAAGGCTAAGATAAC
Found at i:79960 original size:33 final size:33
Alignment explanation
Indices: 79913--79978 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
79903 AAGAGAACTA
* *
79913 AAGTTCTCATCCATGCATTACGAAAATGAAGTG
1 AAGTGCTCATCCATGCAATACGAAAATGAAGTG
* *
79946 AAGTGCTCATCCATGCAATGCGAAAGTGAAGTG
1 AAGTGCTCATCCATGCAATACGAAAATGAAGTG
79979 GTCAACTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (33 bp):
AAGTGCTCATCCATGCAATACGAAAATGAAGTG
Found at i:87552 original size:13 final size:13
Alignment explanation
Indices: 87534--87560 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87524 ACATGCTGCT
87534 TTGTATCGATACA
1 TTGTATCGATACA
87547 TTGTATCGATACA
1 TTGTATCGATACA
87560 T
1 T
87561 GTTCACTGTA
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:87592 original size:20 final size:19
Alignment explanation
Indices: 87544--87600 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
87534 TTGTATCGAT
*
87544 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
87563 TCACTGTATCGATACATGG
1 ACATTGTATCGATACATGG
87582 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
87601 AAACTAGCAG
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:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:93832 original size:13 final size:13
Alignment explanation
Indices: 93814--93842 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
93804 ACAACATTCC
93814 TTGTATCGATACA
1 TTGTATCGATACA
93827 TTGTATCGATACA
1 TTGTATCGATACA
93840 TTG
1 TTG
93843 GCTACTATTT
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:96559 original size:19 final size:20
Alignment explanation
Indices: 96516--96568 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
96506 ATTTCAATTA
96516 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
*
96536 GTTGTATCGATACAT-AAGT
1 TTTGTATCGATACATAAAGT
96555 TTTGTATCGATACA
1 TTTGTATCGATACA
96569 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:96689 original size:52 final size:50
Alignment explanation
Indices: 96624--96772 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 50
96614 ATCGATACAT
* *
96624 TGTATCAATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
96676 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
96728 TGTATCGATACACTATTAAATGTATCGATATATGCAGGCAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
96773 TCATATTTCG
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:101177 original size:13 final size:13
Alignment explanation
Indices: 101159--101187 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
101149 CATTGTGCCA
101159 TGTATCGATACAT
1 TGTATCGATACAT
101172 TGTATCGATACAT
1 TGTATCGATACAT
101185 TGT
1 TGT
101188 GCCATGTATC
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):
TGTATCGATACAT
Found at i:101181 original size:33 final size:33
Alignment explanation
Indices: 101139--101203 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
101129 TAGTTCTTCA
101139 TGTATCGATACATTGTGCCATGTATCGATACAT
1 TGTATCGATACATTGTGCCATGTATCGATACAT
*
101172 TGTATCGATACATTGTGCCATGTATCTATACA
1 TGTATCGATACATTGTGCCATGTATCGATACA
101204 AACAGGGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATTGTGCCATGTATCGATACAT
Found at i:101203 original size:20 final size:20
Alignment explanation
Indices: 101137--101174 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
101127 TATAGTTCTT
101137 CATGTATCGATACATTGTGC
1 CATGTATCGATACATTGTGC
101157 CATGTATCGATACATTGT
1 CATGTATCGATACATTGT
101175 ATCGATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
CATGTATCGATACATTGTGC
Found at i:101294 original size:13 final size:13
Alignment explanation
Indices: 101276--101302 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
101266 AATAAACATG
101276 TTGTATCGATACA
1 TTGTATCGATACA
101289 TTGTATCGATACA
1 TTGTATCGATACA
101302 T
1 T
101303 CTGAAAGTGT
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:102532 original size:13 final size:13
Alignment explanation
Indices: 102514--102539 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102504 TACATTAAAT
102514 TTGTATCAATACA
1 TTGTATCAATACA
102527 TTGTATCAATACA
1 TTGTATCAATACA
102540 AAATGCTTTG
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:0.08, T:0.38
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:102558 original size:20 final size:20
Alignment explanation
Indices: 102527--102579 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
102517 TATCAATACA
*
102527 TTGTATCAATACAAAATGCT
1 TTGTATCGATACAAAATGCT
* ***
102547 TTGTATTGATACATTTTGCT
1 TTGTATCGATACAAAATGCT
102567 TTGTATCGATACA
1 TTGTATCGATACA
102580 TTCTAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACAAAATGCT
Found at i:102580 original size:20 final size:20
Alignment explanation
Indices: 102543--102581 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
102533 CAATACAAAA
*
102543 TGCTTTGTATTGATACATTT
1 TGCTTTGTATCGATACATTT
102563 TGCTTTGTATCGATACATT
1 TGCTTTGTATCGATACATT
102582 CTAGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (20 bp):
TGCTTTGTATCGATACATTT
Found at i:104518 original size:13 final size:13
Alignment explanation
Indices: 104500--104524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104490 CATAAAACGT
104500 TGTATCGATACAA
1 TGTATCGATACAA
104513 TGTATCGATACA
1 TGTATCGATACA
104525 TATTTTTTTG
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:104606 original size:13 final size:13
Alignment explanation
Indices: 104588--104612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104578 ATTACTCAAA
104588 TGTATCGATACAT
1 TGTATCGATACAT
104601 TGTATCGATACA
1 TGTATCGATACA
104613 CTGATCTTTG
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:104677 original size:52 final size:52
Alignment explanation
Indices: 104621--104745 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
104611 CACTGATCTT
*
104621 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
104673 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
104725 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
104746 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:111218 original size:32 final size:33
Alignment explanation
Indices: 111167--111258 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 33
111157 CCTTACAATA
*
111167 CTATC-TTTCAAGGCTAAGATAGAAACC-TCT-
1 CTATCTTTTCAAAGCTAAGATAGAAACCTTCTC
111197 CTATCTTTTCACAAGCTAAGATAG-AACCTTTCTCC
1 CTATCTTTTCA-AAGCTAAGATAGAAACC-TTCT-C
111232 CTATCTTTTTCAAAGGCTAAGATAGAA
1 CTATC-TTTTCAAA-GCTAAGATAGAA
111259 GCTCACAATC
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
30 5 0.10
31 9 0.17
32 11 0.21
33 3 0.06
35 7 0.13
36 16 0.31
37 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (33 bp):
CTATCTTTTCAAAGCTAAGATAGAAACCTTCTC
Found at i:120667 original size:18 final size:19
Alignment explanation
Indices: 120646--120699 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
120636 AAGAAGAAGA
*
120646 AAAAAATAAAAAAA-AAAT
1 AAAAAATAAAAAAACAAAG
120664 AAAAAATAAAAAAACAAAG
1 AAAAAATAAAAAAACAAAG
120683 AAAAAA-AACAAAAACAA
1 AAAAAATAA-AAAAACAA
120700 CAACAACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.87, C:0.06, G:0.02, T:0.06
Consensus pattern (19 bp):
AAAAAATAAAAAAACAAAG
Found at i:120676 original size:28 final size:29
Alignment explanation
Indices: 120617--120690 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
120607 AAAAAAAACC
*
120617 AAATAAACCAAAAAATAAGAAGAAGAAGAAAA
1 AAATAAA-AAAAAAATAA-AA-AAGAAGAAAA
* *
120649 AAATAAAAAAAAAATAAAAAATAAAAAAA
1 AAATAAAAAAAAAATAAAAAAGAAGAAAA
*
120678 CAAAGAAAAAAAA
1 -AAATAAAAAAAA
120691 CAAAAACAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.22
30 13 0.35
31 9 0.24
32 7 0.19
ACGTcount: A:0.82, C:0.04, G:0.07, T:0.07
Consensus pattern (29 bp):
AAATAAAAAAAAAATAAAAAAGAAGAAAA
Found at i:120695 original size:9 final size:9
Alignment explanation
Indices: 120607--120702 Score: 50
Period size: 9 Copynumber: 10.2 Consensus size: 9
120597 ATCCTCCACA
120607 AAAAAAAACC
1 AAAAAAAA-C
* *
120617 AAATAAACC
1 AAAAAAAAC
*
120626 AAAAAATAAG
1 AAAAAA-AAC
* * *
120636 AAGAAGAAG
1 AAAAAAAAC
*
120645 AAAAAAATAA
1 AAAAAAA-AC
*
120655 AAAAAAAAT
1 AAAAAAAAC
120664 AAAAAATAA-
1 AAAAAA-AAC
*
120673 AAAAACAAAG
1 AAAAA-AAAC
120683 AAAAAAAAC
1 AAAAAAAAC
*
120692 AAAAACAAC
1 AAAAAAAAC
120701 AA
1 AA
120703 CAACAAAAAG
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
9 41 0.60
10 27 0.40
ACGTcount: A:0.81, C:0.08, G:0.05, T:0.05
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:120696 original size:38 final size:38
Alignment explanation
Indices: 120607--120710 Score: 95
Period size: 38 Copynumber: 2.7 Consensus size: 38
120597 ATCCTCCACA
* * * * *
120607 AAAAAAAACCAAATAAACCAAAAAATAAGAAGAAGAAG
1 AAAAAAAACAAAAAAAAACAAAAAATAAGAAAAAAAAG
*
120645 AAAAAAATA-AAAAAAAAATAAAAAATAA-AAAAACAAAG
1 AAAAAAA-ACAAAAAAAAACAAAAAATAAGAAAAA-AAAG
120683 AAAAAAAACAAAAACAACAACAACAAAA
1 AAAAAAAACAAAAA-AA-AACAA-AAAA
120711 AGGGTCCGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
37 5 0.09
38 37 0.70
39 3 0.06
40 4 0.08
41 4 0.08
ACGTcount: A:0.81, C:0.10, G:0.05, T:0.05
Consensus pattern (38 bp):
AAAAAAAACAAAAAAAAACAAAAAATAAGAAAAAAAAG
Found at i:120711 original size:1 final size:1
Alignment explanation
Indices: 120645--120696 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
120635 GAAGAAGAAG
* * * * * *
120645 AAAAAAATAAAAAAAAAATAAAAAATAAAAAAACAAAGAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
120697 CAACAACAAC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.04, G:0.02, T:0.06
Consensus pattern (1 bp):
A
Found at i:122203 original size:29 final size:29
Alignment explanation
Indices: 122163--122304 Score: 171
Period size: 29 Copynumber: 5.0 Consensus size: 29
122153 TTCCTCACCT
*
122163 TTTCCAAAGCCCACAAGTCCGTGGCATCC
1 TTTCCAAAGCCCACAAGTCAGTGGCATCC
*
122192 TTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCCAAAGCCCACAAGTCAGTGGCATCC
* *
122221 -TTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTCCAAAGCCCACAAGTCAGTGGCATCC
* * *
122249 TTTTCAAAGCCCACAAATCAGTGGCAACC
1 TTTCCAAAGCCCACAAGTCAGTGGCATCC
* * * *
122278 -TTCAAAAACCCAAAAGTCCGTGGCATC
1 TTTCCAAAGCCCACAAGTCAGTGGCATC
122305 TTTTTCCTTT
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
28 45 0.47
29 50 0.53
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (29 bp):
TTTCCAAAGCCCACAAGTCAGTGGCATCC
Found at i:122257 original size:57 final size:57
Alignment explanation
Indices: 122168--122310 Score: 232
Period size: 57 Copynumber: 2.5 Consensus size: 57
122158 CACCTTTTCC
* * *
122168 AAAGCCCACAAGTCCGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCCGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCA
*
122225 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCCGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCA
* *
122282 AAAACCCAAAAGTCCGTGGCATCTTTTTC
1 AAAGCCCACAAGTCCGTGGCATCTTTTTC
122311 CTTTTAAGCC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 79 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (57 bp):
AAAGCCCACAAGTCCGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCA
Found at i:122341 original size:33 final size:35
Alignment explanation
Indices: 122294--122427 Score: 152
Period size: 35 Copynumber: 4.0 Consensus size: 35
122284 AACCCAAAAG
*
122294 TCCGTGGCA-TCTTTTTCCTTT-TAAGCCCATAAC
1 TCCGTGGCACTCTTTTTCCTTTCTAAGCCCACAAC
* *
122327 TCCGTGGCAC-C-TTTTCTTTTCTAAGTCCACAAC
1 TCCGTGGCACTCTTTTTCCTTTCTAAGCCCACAAC
* * *
122360 TCCGTGGCACTCCTTTTCTTTTGTAAGCCCACAAC
1 TCCGTGGCACTCTTTTTCCTTTCTAAGCCCACAAC
** *
122395 TCTATGGCACTCTTTTTCCTTT-TAAGCCTACAA
1 TCCGTGGCACTCTTTTTCCTTTCTAAGCCCACAA
122428 GTTAGTGGCA
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
32 8 0.09
33 30 0.34
34 11 0.13
35 38 0.44
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (35 bp):
TCCGTGGCACTCTTTTTCCTTTCTAAGCCCACAAC
Found at i:122392 original size:35 final size:34
Alignment explanation
Indices: 122294--122445 Score: 150
Period size: 35 Copynumber: 4.5 Consensus size: 34
122284 AACCCAAAAG
* *
122294 TCCGTGGCA-TCTTTTTCCTTTTAAGCCCATAAC
1 TCCGTGGCACTCCTTTTCCTTTTAAGCCCACAAC
* *
122327 TCCGTGGCA--CCTTTTCTTTTCTAAGTCCACAAC
1 TCCGTGGCACTCCTTTTCCTTT-TAAGCCCACAAC
*
122360 TCCGTGGCACTCCTTTTCTTTTGTAAGCCCACAAC
1 TCCGTGGCACTCCTTTTCCTTT-TAAGCCCACAAC
** * * *
122395 TCTATGGCACTCTTTTTCCTTTTAAGCCTACAAG
1 TCCGTGGCACTCCTTTTCCTTTTAAGCCCACAAC
**
122429 TTAGTGGCAC-CCTTTTC
1 TCCGTGGCACTCCTTTTC
122446 AAAAGCCCAC
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
32 9 0.09
33 34 0.34
34 17 0.17
35 40 0.40
ACGTcount: A:0.18, C:0.31, G:0.13, T:0.38
Consensus pattern (34 bp):
TCCGTGGCACTCCTTTTCCTTTTAAGCCCACAAC
Found at i:122573 original size:43 final size:43
Alignment explanation
Indices: 122504--122590 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
122494 CGTCTTCTTC
* * *
122504 TAAGTCCAATGTCACTGGCCTAGAATCAGTACATTGGCACCTT
1 TAAGACCAATATCACTGGCCTAGAATCAGCACATTGGCACCTT
* *
122547 TAAGACCAATATCACTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGACCAATATCACTGGCCTAGAATCAGCACATTGGCACCTT
122590 T
1 T
122591 GTCTTTAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (43 bp):
TAAGACCAATATCACTGGCCTAGAATCAGCACATTGGCACCTT
Found at i:122621 original size:49 final size:49
Alignment explanation
Indices: 122544--122886 Score: 232
Period size: 52 Copynumber: 6.8 Consensus size: 49
122534 ACATTGGCAC
*
122544 CTTTAAGACCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGT
* * * * * *
122593 CTTTAAGACCAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTTG--T
** * * * ** * * *
122645 CTTCGAGCCCAATATTGCTAGCC--GCATATTGGC-TCCTT--TATCCTTTTTCT
1 CTTTAAGACCAATATCGCTGGCCTTG-A-ATCAGCAT-ATTGGCA-CC--TTTGT
* * **
122695 CATCTTTAGACCTAATGTCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGT
1 C-T-TTAAGACC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGT
* *
122747 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGT
1 ---CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGT
* * **
122799 C-TT-AGTACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAG-ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGT
* *
122847 CTTTAAGACCAATATTGCTGGCCTTGAATCAACATATTGG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGG
122887 TGCCTTCGTT
Statistics
Matches: 224, Mismatches: 48, Indels: 44
0.71 0.15 0.14
Matches are distributed among these distances:
47 2 0.01
48 39 0.17
49 69 0.31
50 12 0.05
51 2 0.01
52 70 0.31
53 22 0.10
54 5 0.02
55 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (49 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGT
Found at i:122774 original size:52 final size:51
Alignment explanation
Indices: 122712--122886 Score: 202
Period size: 48 Copynumber: 3.5 Consensus size: 51
122702 AGACCTAATG
**
122712 TCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCACCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA-CTTTAAGTCCAATA
* *
122764 TCGCTAGCCTTGAATCAGCATATTGGCACCTTTGT--C-TT-AGTACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCACTTTAAGT-CCAATA
* *
122812 TCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGACCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA-CTTTAAGTCCAATA
* *
122861 TTGCTGGCCTTGAATCAACATATTGG
1 TCGCTGGCCTTGAATCAGCATATTGG
122887 TGCCTTCGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 3 0.03
48 36 0.34
49 31 0.29
50 2 0.02
52 32 0.30
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (51 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCACTTTAAGTCCAATA
Found at i:122883 original size:97 final size:99
Alignment explanation
Indices: 122700--122886 Score: 263
Period size: 97 Copynumber: 1.9 Consensus size: 99
122690 TTTCTCATCT
* ** *
122700 TTAGACCTAATGTCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCACCTTTAAGTCCAATAT
1 TTAGACCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGTCACCTTTAAGACCAATAT
*
122765 CGCTAGCCTTGAATCAGCATATTGGCACCTTTGTC
65 CGCTAGCCTTGAATCAACATATTGGCACCTTTGTC
*
122800 TTAGTACC-AATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T-TCATCTTTAAGACCAATAT
1 TTAG-ACCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCACCTTTAAGACCAATAT
* *
122862 TGCTGGCCTTGAATCAACATATTGG
65 CGCTAGCCTTGAATCAACATATTGG
122887 TGCCTTCGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
97 39 0.50
98 1 0.01
100 35 0.45
101 3 0.04
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (99 bp):
TTAGACCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCACCTTTAAGACCAATATC
GCTAGCCTTGAATCAACATATTGGCACCTTTGTC
Found at i:123728 original size:19 final size:18
Alignment explanation
Indices: 123671--123764 Score: 64
Period size: 13 Copynumber: 5.6 Consensus size: 18
123661 CAATGATTTT
123671 TATCGATACATAAAGTGTTG
1 TATCGATACAT-AAGT-TTG
*
123691 TATCGATAC--AA---TA
1 TATCGATACATAAGTTTG
123704 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
123723 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
*
123736 TATCGATACATAAGTTTTC
1 TATCGATACATAAG-TTTG
123755 TATCGATACA
1 TATCGATACA
123765 ATGTAAGCTA
Statistics
Matches: 59, Mismatches: 3, Indels: 25
0.68 0.03 0.29
Matches are distributed among these distances:
13 21 0.36
15 4 0.07
17 4 0.07
19 21 0.36
20 9 0.15
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:123767 original size:32 final size:32
Alignment explanation
Indices: 123671--123769 Score: 162
Period size: 32 Copynumber: 3.1 Consensus size: 32
123661 CAATGATTTT
*
123671 TATCGATACATAAAGTGTTGTATCGATACAATA
1 TATCGATACAT-AAGTGTTGTATCGATACAATG
123704 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
* *
123736 TATCGATACATAAGTTTTCTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
123768 TA
1 TA
123770 AGCTACTGCC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.83
33 11 0.17
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:123811 original size:19 final size:18
Alignment explanation
Indices: 123787--123849 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
123777 GCCAAGAAAA
123787 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
123806 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
123819 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
123838 TGTATCGATACA
1 TGTATCGATACA
123850 ATGTAAGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:123813 original size:85 final size:85
Alignment explanation
Indices: 123700--123884 Score: 352
Period size: 85 Copynumber: 2.2 Consensus size: 85
123690 GTATCGATAC
123700 AATATATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTTTTCTATCGATACA
1 AATATATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTTTTCTATCGATACA
123765 ATGTAAGCTACTGCCAAGAA
66 ATGTAAGCTACTGCCAAGAA
* *
123785 AATGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACA
1 AATATATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTTTTCTATCGATACA
123850 ATGTAAGCTACTGCCAAGAA
66 ATGTAAGCTACTGCCAAGAA
123870 AATATATCGATACAT
1 AATATATCGATACAT
123885 TACTCAAATG
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (85 bp):
AATATATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTTTTCTATCGATACA
ATGTAAGCTACTGCCAAGAA
Found at i:123824 original size:13 final size:13
Alignment explanation
Indices: 123806--123830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123796 ACATAAGTGT
123806 TGTATCGATACAA
1 TGTATCGATACAA
123819 TGTATCGATACA
1 TGTATCGATACA
123831 TAAGTTTTGT
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:123826 original size:32 final size:32
Alignment explanation
Indices: 123785--123854 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
123775 CTGCCAAGAA
123785 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
123817 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
123849 AATGTA
1 AATGTA
123855 AGCTACTGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:123952 original size:52 final size:52
Alignment explanation
Indices: 123889--124081 Score: 307
Period size: 52 Copynumber: 3.7 Consensus size: 52
123879 ATACATTACT
*** *
123889 CAAATGTATCGATACACTGAT-CTTTGTATCGATACATGCAGGCAAATTTGCC
1 CAAATGTATCGATACACT-ATGAAATGTATCGATACATACAGGCAAATTTGCC
*
123941 CAAATGTATCGATAAACTATGAAATGTATCGATACATACAGGCAAATTTGCC
1 CAAATGTATCGATACACTATGAAATGTATCGATACATACAGGCAAATTTGCC
*
123993 CAGATGTATCGATACACTATGAAATGTATCGATACATACAGGCAAATTTGCC
1 CAAATGTATCGATACACTATGAAATGTATCGATACATACAGGCAAATTTGCC
*
124045 CAGATGTATCGATACACTATGAAATGTATCGATACAT
1 CAAATGTATCGATACACTATGAAATGTATCGATACAT
124082 GTAGACAAAT
Statistics
Matches: 133, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
51 2 0.02
52 131 0.98
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
CAAATGTATCGATACACTATGAAATGTATCGATACATACAGGCAAATTTGCC
Found at i:124093 original size:52 final size:52
Alignment explanation
Indices: 123913--124081 Score: 311
Period size: 52 Copynumber: 3.2 Consensus size: 52
123903 CACTGATCTT
* * *
123913 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATAAACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
123965 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
124017 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
124069 TGTATCGATACAT
1 TGTATCGATACAT
124082 GTAGACAAAT
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 114 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:128814 original size:22 final size:21
Alignment explanation
Indices: 128761--128818 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
128751 ATTAGGCTAT
128761 TTGTATCGATACATTCTAGAA
1 TTGTATCGATACATTCTAGAA
* *
128782 TTGTATTGATACATTCCTA-TA
1 TTGTATCGATACATT-CTAGAA
128803 TGTGTATCGATACATT
1 T-TGTATCGATACATT
128819 TCAAGGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
TTGTATCGATACATTCTAGAA
Found at i:128883 original size:13 final size:13
Alignment explanation
Indices: 128865--128889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128855 TTTCACATAA
128865 TGTATCGATACAG
1 TGTATCGATACAG
128878 TGTATCGATACA
1 TGTATCGATACA
128890 TTACAACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:128921 original size:20 final size:19
Alignment explanation
Indices: 128873--128929 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
128863 AATGTATCGA
*
128873 TACA-GTGTATCGATACAT
1 TACATGTGTATCGATATAT
128891 TACAACT-TGTATCGATATAT
1 TAC-A-TGTGTATCGATATAT
128911 CTACATGTGTATCGATATA
1 -TACATGTGTATCGATATA
128930 AATATGGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 25 0.76
21 3 0.09
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
TACATGTGTATCGATATAT
Found at i:129199 original size:17 final size:16
Alignment explanation
Indices: 129177--129214 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
129167 ATTCATGCAT
129177 AAAAAAATAAATAAATAA
1 AAAAAAAT-AATAAA-AA
129195 AAAAAAATAATAAAAA
1 AAAAAAATAATAAAAA
129211 AAAA
1 AAAA
129215 TTAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 6 0.30
18 8 0.40
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAAATAATAAAAA
Found at i:129202 original size:14 final size:14
Alignment explanation
Indices: 129178--129229 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 14
129168 TTCATGCATA
129178 AAAAAATAAATAAAT
1 AAAAAA-AAATAAAT
129193 AAAAAAAAAT-AAT
1 AAAAAAAAATAAAT
*
129206 AAAAAAAAATTAATT
1 AAAAAAAAA-TAAAT
129221 AAAAAAAAA
1 AAAAAAAAA
129230 AGCAAACGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.35
14 5 0.15
15 17 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAAAAAATAAAT
Found at i:129226 original size:17 final size:15
Alignment explanation
Indices: 129175--129230 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 15
129165 CGATTCATGC
*
129175 ATAAAAAAATAAATA
1 ATAAAAAAAAAAATA
*
129190 A-ATAAAAAAAAATA
1 ATAAAAAAAAAAATA
*
129204 AT-AAAAAAAAATTA
1 ATAAAAAAAAAAATA
129218 ATTAAAAAAAAAA
1 A-TAAAAAAAAAA
129231 GCAAACGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
14 23 0.68
15 2 0.06
16 9 0.26
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
ATAAAAAAAAAAATA
Found at i:129279 original size:26 final size:26
Alignment explanation
Indices: 129249--129379 Score: 226
Period size: 26 Copynumber: 5.0 Consensus size: 26
129239 GAAAACTTAT
*
129249 AGCATGGGAAAGGAAATAGAAAATGC
1 AGCATGGGAAAGGAAATAAAAAATGC
*
129275 AGCATGGGAAAGGAAATAGAAAATGC
1 AGCATGGGAAAGGAAATAAAAAATGC
*
129301 AACATGGGAAAGGAAATAAAAAATGC
1 AGCATGGGAAAGGAAATAAAAAATGC
129327 AGCATGGGAAAGGAAATAAAAAATGC
1 AGCATGGGAAAGGAAATAAAAAATGC
*
129353 AGCATGGGAAAGGAAATAAAAATTGC
1 AGCATGGGAAAGGAAATAAAAAATGC
129379 A
1 A
129380 ATTGGAGACA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.53, C:0.08, G:0.27, T:0.12
Consensus pattern (26 bp):
AGCATGGGAAAGGAAATAAAAAATGC
Found at i:129763 original size:55 final size:55
Alignment explanation
Indices: 129677--129814 Score: 163
Period size: 55 Copynumber: 2.5 Consensus size: 55
129667 TAGCCAACGA
* * * * *
129677 CTCCAACACGCAAAAGCAGCTCCAGCGGCGAC-GACAGTTCTAGCACGCAACAGCAG
1 CTCCAACA-GCAGAAGCAACTCCAGCAGCGACTG-CAGCTCCAGCACGCAACAGCAG
*
129733 CTCCAACAGCAGCAGCAACTCCAGCAGCGACTGCAGCTCCAGCACGCAACAGCAG
1 CTCCAACAGCAGAAGCAACTCCAGCAGCGACTGCAGCTCCAGCACGCAACAGCAG
* *
129788 CTCCAGCGAG-AGTAGCAACTCCAGCAG
1 CTCCAAC-AGCAGAAGCAACTCCAGCAG
129815 GTAGCAATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
55 61 0.85
56 11 0.15
ACGTcount: A:0.31, C:0.37, G:0.23, T:0.09
Consensus pattern (55 bp):
CTCCAACAGCAGAAGCAACTCCAGCAGCGACTGCAGCTCCAGCACGCAACAGCAG
Found at i:129772 original size:18 final size:18
Alignment explanation
Indices: 129655--129794 Score: 99
Period size: 18 Copynumber: 7.7 Consensus size: 18
129645 TAAACAACAG
*
129655 CAGCAGCTCCAGTAGCCAA
1 CAGCAGCTCCAGCAG-CAA
*
129674 C-G-A-CTCCAACACGCAA
1 CAGCAGCTCCAGCA-GCAA
* * *
129690 AAGCAGCTCCAGCGGCGA
1 CAGCAGCTCCAGCAGCAA
* *
129708 C-GACAGTTCTAGCACGCAA
1 CAG-CAGCTCCAGCA-GCAA
* *
129727 CAGCAGCTCCAACAGCAG
1 CAGCAGCTCCAGCAGCAA
* *
129745 CAGCAACTCCAGCAGCGA
1 CAGCAGCTCCAGCAGCAA
*
129763 CTGCAGCTCCAGCACGCAA
1 CAGCAGCTCCAGCA-GCAA
129782 CAGCAGCTCCAGC
1 CAGCAGCTCCAGC
129795 GAGAGTAGCA
Statistics
Matches: 90, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
16 9 0.10
17 4 0.04
18 42 0.47
19 34 0.38
20 1 0.01
ACGTcount: A:0.31, C:0.39, G:0.22, T:0.09
Consensus pattern (18 bp):
CAGCAGCTCCAGCAGCAA
Found at i:129820 original size:16 final size:18
Alignment explanation
Indices: 129783--129821 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
129773 AGCACGCAAC
*
129783 AGCAGCTCCAGCGAGAGT
1 AGCAACTCCAGCGAGAGT
129801 AGCAACTCCAGC-AG-GT
1 AGCAACTCCAGCGAGAGT
129817 AGCAA
1 AGCAA
129822 TTTAATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.10
Consensus pattern (18 bp):
AGCAACTCCAGCGAGAGT
Found at i:130799 original size:51 final size:51
Alignment explanation
Indices: 130744--131174 Score: 331
Period size: 51 Copynumber: 8.3 Consensus size: 51
130734 CTCATAATTA
130744 GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCG
1 GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCG
* * * * *
130795 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCTATTT--TTCAATCG
1 GGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTTTAATCG
* * * * ***** * * ** * *
130845 AGGATACTCCAATCTCGTTATTTCATCGGGGATACTCCAA-CCCCGTTACCTCCGAG
1 GGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTCCTTTA-AT-C--G
* * * *** *
130901 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCTTAATGG
1 GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-TTAATCG
* * *
130952 GGGATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-ATAATCG
1 GGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTTTAATCG
* * * *
131003 GGGATACTCTAAACCCGGTTTTATTTTTCAAAACACCAAAGTTCCCTTAATCG
1 GGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTTTAATCG
*
131056 GGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTCCTTTAATCG
1 GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCG
* *
131107 GGGATACTCCAACCCCGATTTTA-TTTCTAAAACATCAATTT--TTCATAATCG
1 GGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTT--TAATCG
131158 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
131175 TTATTTTCGA
Statistics
Matches: 293, Mismatches: 66, Indels: 42
0.73 0.16 0.10
Matches are distributed among these distances:
49 2 0.01
50 28 0.10
51 157 0.54
52 43 0.15
53 34 0.12
54 8 0.03
55 6 0.02
56 15 0.05
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCG
Found at i:130891 original size:28 final size:28
Alignment explanation
Indices: 130836--130917 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
130826 AACACCTATT
* * *
130836 TTTCAATCGAGGATACTCCAATCTCGTTA
1 TTTC-ATCGGGGATACTCCAACCCCGTTA
130865 TTTCATCGGGGATACTCCAACCCCGTTA
1 TTTCATCGGGGATACTCCAACCCCGTTA
** ***
130893 CCTCCGAGGGGATACTCCAACCCCG
1 TTTCATCGGGGATACTCCAACCCCG
130918 GCTTTATTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 41 0.91
29 4 0.09
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (28 bp):
TTTCATCGGGGATACTCCAACCCCGTTA
Found at i:131088 original size:104 final size:102
Alignment explanation
Indices: 130944--131173 Score: 284
Period size: 104 Copynumber: 2.2 Consensus size: 102
130934 ATTGATTTCT
* * *
130944 CTTAATGGGGGATACTCCAACCCCGGTTTCATTTCTAAAACACTAACTTTCC-ATAATCGGGGAT
1 CTTAATCGGGGATACTCCAACCCCAGTTTCATTTCTAAAACACCAA-TTTCCTATAATCGGGGAT
* * *
131008 ACTCTAAACCCGGTTTTATTTTTCAAAACACCAAAGTTCC
65 ACTCCAAACCCGATTTTATTTCT-AAAACACC-AAGTTCC
* *
131048 CTTAATCGGGGATACTCCAACCCCAGTTTTATTT-TCAAAACACCAATTTCCTTTAATCGGGGAT
1 CTTAATCGGGGATACTCCAACCCCAGTTTCATTTCT-AAAACACCAATTTCCTATAATCGGGGAT
* * * **
131112 ACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTT
65 ACTCCAAACCCGATTTTATTTCTAAAACACCAAGTTCC
*
131150 CATAATCGGGGATACTCCAACCCC
1 CTTAATCGGGGATACTCCAACCCC
131174 GTTATTTTCG
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
102 27 0.25
103 13 0.12
104 70 0.64
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (102 bp):
CTTAATCGGGGATACTCCAACCCCAGTTTCATTTCTAAAACACCAATTTCCTATAATCGGGGATA
CTCCAAACCCGATTTTATTTCTAAAACACCAAGTTCC
Found at i:131237 original size:79 final size:79
Alignment explanation
Indices: 131106--131640 Score: 867
Period size: 79 Copynumber: 6.8 Consensus size: 79
131096 TCCTTTAATC
*
131106 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
131171 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
*
131185 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
131250 CCCGTTATTTCCGA
66 CCCGTTATTTTCGA
* * * *
131264 GGGGATACTCCAATCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGAGGATACCCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
131329 CCTGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
131343 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTTACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
131408 CCCATTATTTTCGA
66 CCCGTTATTTTCGA
*
131422 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
131487 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
131501 GAGGATACTCCAACCCCGGCTTTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
131566 CCTGTTA-TTTC-A
66 CCCGTTATTTTCGA
131578 TCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
1 --GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
131641 TAACACCGAT
Statistics
Matches: 419, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
77 1 0.00
78 4 0.01
79 414 0.99
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:131728 original size:53 final size:50
Alignment explanation
Indices: 131577--131727 Score: 169
Period size: 53 Copynumber: 2.9 Consensus size: 50
131567 CTGTTATTTC
* *
131577 ATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATA
1 ATCGGGGATACTCTAACCCC-GTTTTATTTCTAAAACACCAATTTTTCATA
* * *
131628 ATCGGGGATACTCTAACACCGATTTTATTTTTTTAAAACACC-GTTTTTCCATA
1 ATCGGGGATACTCTAACCCCG-TTTTA--TTTCTAAAACACCAATTTTT-CATA
* * *
131681 ATCGGGGATACTCTAGCCCCGTTGTTATCTCTAAAATACCAATTTTT
1 ATCGGGGATACTCTAACCCCGTT-TTATTTCTAAAACACCAATTTTT
131728 TTTCTCGTCA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
50 1 0.01
51 33 0.40
52 12 0.14
53 37 0.45
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (50 bp):
ATCGGGGATACTCTAACCCCGTTTTATTTCTAAAACACCAATTTTTCATA
Found at i:145238 original size:95 final size:94
Alignment explanation
Indices: 145075--145287 Score: 329
Period size: 95 Copynumber: 2.2 Consensus size: 94
145065 CTTCTTCTAC
*
145075 TTTCAGTCCTCAAAGAGCAGGACGCTCTCTTCTTTCACCCTTTTAGTCCCCAAAGAGAAGGACGC
1 TTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGAAGGACGC
*
145140 CTTTTAAAGCCCACACAAGTTGGTGGCACT
66 CTTTTAAAACCCACACAAGTTGGTGGCA-T
* ** *
145170 TTTCAGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCTTCAAAGAGCAA-GATG
1 TTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAG-AAGGACG
*
145234 CCTTTTAAAACCCACACGAGTTGGTGGCAT
65 CCTTTTAAAACCCACACAAGTTGGTGGCAT
145264 TTTCTAGTCCTCAAAGAGCAGGAC
1 TTTC-AGTCCTCAAAGAGCAGGAC
145288 ACCTTTTCCT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
94 5 0.05
95 101 0.94
96 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (94 bp):
TTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGAAGGACGC
CTTTTAAAACCCACACAAGTTGGTGGCAT
Found at i:145532 original size:173 final size:172
Alignment explanation
Indices: 145210--146221 Score: 1373
Period size: 173 Copynumber: 5.8 Consensus size: 172
145200 CCTTTCACCC
* * * * * *
145210 TTTTAGTCTTCAAAGAGCAAGATGCCTTTTAAAACCCACACGAGTTGGTGGCA-TTTTCTAGTCC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCC
*
145274 TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAA
66 TCAAAGAGCAGGACACC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
145339 AGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATTTT
130 AGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAA--TT
145384 TTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCC
145448 TCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
66 TCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
145513 GAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAA-T
131 GAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATT
* * *
145554 TTTTAGTCCTCAAAGAGTAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCC
*
145619 TCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
66 TCAAAGAGCAGGACACC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
145684 AGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATT
130 AGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATT
*
145727 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTTCTAGTC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTCTAGTC
* * *
145792 CTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCTTCAA
65 CTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
* *
145856 AGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
130 AGAGCAGGACG---T---CTTTCAAAGCCCACATAAGTTGGTGGCAATT
* * **
145905 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTC
1 TTTTAGTCCTCAAAGAGCAGGACG-C----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * *
145970 -AGTTCTCAAAGAGCAGGACGCCTTT-C----AAAGCCCACACAAGTTGGTGGCACTTTTTCAGT
60 TAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTTCAGT
** **
146029 CCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGC-ACC
124 CCTCAAAGAGCAGGACG-----TC-TTTCAAAGCCCACATAAGTTGGTGGCAATT
* *
146083 TTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTC-AGTC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTCTAGTC
* ** * * * *
146147 CTCAAAGTGCAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCA
65 CTCAAAGAGCAGGACACCTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
146212 AAGAGCAGGA
129 AAGAGCAGGA
146222 TAAACTTTAT
Statistics
Matches: 767, Mismatches: 43, Indels: 52
0.89 0.05 0.06
Matches are distributed among these distances:
170 51 0.07
171 28 0.04
172 132 0.17
173 201 0.26
174 104 0.14
175 1 0.00
177 24 0.03
178 101 0.13
179 68 0.09
181 3 0.00
182 24 0.03
183 5 0.01
184 25 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (172 bp):
TTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCC
TCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATT
Found at i:145562 original size:55 final size:55
Alignment explanation
Indices: 145210--146221 Score: 1040
Period size: 55 Copynumber: 17.4 Consensus size: 55
145200 CCTTTCACCC
* * * * * * *
145210 TTTTAGTCTTCAAAGAGCAAGATGCCTTTTAAAACCCACACGAGTTGGTGGCA-T
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
145264 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTT-TAGTCCTCAAAGAGCAGG--A-C--GT-CTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * *
145326 TTTCAATCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATTTT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGC-A--CT
*
145384 TTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-T
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
145438 TTTCTAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTT-TAGTCCTCAAAGAGCAGG--A-C-GT-CTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
145499 TTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAAT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
145554 TTTTAGTCCTCAAAGAGTAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCATT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
145609 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTT-TAGTCCTCAAAGAGCAGG--A-C--GT-CTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
145671 TTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGC-ACT
* * *
145727 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCA-CT
* *
145783 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGCTGGTGGCAC-
1 TTT-TAGTCCTCAAAGAGCAGGACG----T-CTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
145843 CTTTAGTCTTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
1 TTTTAGTCCTCAAAGAGCAGGACG---T---CTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
145904 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
1 TTTT-AGTCCTCAAAGAGCAGGACG-----TC-TTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
145966 TTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
146021 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
1 TTTT-AGTCCTCAAAGAGCAGGACG-----TC-TTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
146083 TTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
146138 TTTTCAGTCCTCAAAGTGCAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACT
1 TTTT-AGTCCTCAAAGAGCAGGA---C--GTC-TTTCAAAGCCCACACAAGTTGGTGGCACT
146200 TTTTAGTCCTCAAAGAGCAGGA
1 TTTTAGTCCTCAAAGAGCAGGA
146222 TAAACTTTAT
Statistics
Matches: 820, Mismatches: 84, Indels: 101
0.82 0.08 0.10
Matches are distributed among these distances:
54 7 0.01
55 225 0.27
56 112 0.14
57 25 0.03
58 56 0.07
59 24 0.03
60 74 0.09
61 124 0.15
62 171 0.21
64 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (55 bp):
TTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:145679 original size:117 final size:112
Alignment explanation
Indices: 145209--146221 Score: 1082
Period size: 117 Copynumber: 8.7 Consensus size: 112
145199 TCCTTTCACC
* * * * * *
145209 CTTTT-AGTCTTCAAAGAGCAAGATGCCTTTTAAAACCCACACGAGTTGGTGGCA-TTTTCTAGT
1 CTTTTCAGTCCTCAAAGAGCAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
* *
145272 CCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 CCTCAAAGAGCAGGA-A-C---GCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
145324 CCTTTCAATCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTTTA
1 CTTTTCAGTCCTCAAAGAGCAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGC-A-CTTTTCTA
145389 GTCCTCAAAGAGCAGG-ACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
64 GTCCTCAAAGAGCAGGAACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
145437 -TTTTCTAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTTTC-AGTCCTCAAAGAGCAGG--A-C-GT-CTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
145501 TC-AGTCCTCAAAGAGCAGG-ACGTCTTTCAAAGCCCACATAAGTTGGTGGCA
60 TCTAGTCCTCAAAGAGCAGGAACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
145552 ATTTTTAGTCCTCAAAGAGTAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGT
1 CTTTTCAGTCCTCAAAGAGCAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
*
145617 CCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
66 CCTCAAAGAGCAGGA-A-C---GCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
145669 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGT
1 CTTTTCAGTCCTCAAAGAGCAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
*
145734 CCTCAAAGAGCAGG-ACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 CCTCAAAGAGCAGGAACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
145780 TTTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGCTGGTGGCAC-C
1 -CTTTTC-AGTCCTCAAAGAGCAGGACG----T-CTTTTAAAGCCCACACAAGTTGGTGGCACTT
* *
145844 TT-TAGTCTTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCA
59 TTCTAGTCCTCAAAGAGCAGGA-----ACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
145902 CTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCT
1 C-TTTTCAGTCCTCAAAGAGCAGGACG-----TCTTTT-AAAGCCCACACAAGTTGGTGGCACTT
*
145967 TTC-AGTTCTCAAAGAGCAGG-ACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
59 TTCTAGTCCTCAAAGAGCAGGAACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
146019 CTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCT
1 C-TTTTCAGTCCTCAAAGAGCAGGACG-----TCTTTT-AAAGCCCACACAAGTTGGTGGCACTT
*
146084 TTC-AGTTCTCAAAGAGCAGG-ACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
59 TTCTAGTCCTCAAAGAGCAGGAACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
146136 CTTTTTCAGTCCTCAAAGTGCAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
1 C-TTTTCAGTCCTCAAAGAGCAGGA---C--GTCTTTT-AAAGCCCACACAAGTTGGTGGCACTT
146201 TT-TAGTCCTCAAAGAGCAGGA
59 TTCTAGTCCTCAAAGAGCAGGA
146222 TAAACTTTAT
Statistics
Matches: 792, Mismatches: 63, Indels: 83
0.84 0.07 0.09
Matches are distributed among these distances:
110 32 0.04
111 46 0.06
112 9 0.01
113 66 0.08
114 2 0.00
115 69 0.09
116 65 0.08
117 327 0.41
118 50 0.06
119 22 0.03
120 1 0.00
121 25 0.03
122 61 0.08
123 17 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (112 bp):
CTTTTCAGTCCTCAAAGAGCAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
CCTCAAAGAGCAGGAACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:146955 original size:5 final size:5
Alignment explanation
Indices: 146936--146989 Score: 64
Period size: 5 Copynumber: 11.8 Consensus size: 5
146926 CATGCATAAA
*
146936 AAAAT -AAAT -AAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAATT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
146982 AAAA- AAAA
1 AAAAT AAAA
146990 GCAAACGTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
4 20 0.44
5 25 0.56
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:146958 original size:14 final size:14
Alignment explanation
Indices: 146936--146981 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
146926 CATGCATAAA
146936 AAAATAAAT-AAAT
1 AAAATAAATAAAAT
146949 AAAATAAAATAAAAT
1 AAAAT-AAATAAAAT
*
146964 AAAATAAATAAATT
1 AAAATAAATAAAAT
146978 AAAA
1 AAAA
146982 AAAAAAAAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 5 0.17
14 16 0.53
15 9 0.30
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:146967 original size:28 final size:27
Alignment explanation
Indices: 146936--146989 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
146926 CATGCATAAA
146936 AAAATAAATAAA-TAAAATAAAATAAAAT
1 AAAATAAATAAATTAAAA-AAAA-AAAAT
146964 AAAATAAATAAATTAAAAAAAAAAAA
1 AAAATAAATAAATTAAAAAAAAAAAA
146990 GCAAACGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 4 0.16
28 16 0.64
29 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (27 bp):
AAAATAAATAAATTAAAAAAAAAAAAT
Found at i:147112 original size:26 final size:26
Alignment explanation
Indices: 147007--147108 Score: 188
Period size: 26 Copynumber: 4.0 Consensus size: 26
146997 TGAAAACTTA
147007 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
147033 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
*
147059 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
147085 CAGCATGGGAAAGGAAATA-AAAAT
1 CAGCATGGGAAAGGAAATAGAAAAT
147109 TGCAATTGGA
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
25 5 0.07
26 70 0.93
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (26 bp):
CAGCATGGGAAAGGAAATAGAAAATG
Found at i:147510 original size:31 final size:31
Alignment explanation
Indices: 147475--147540 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
147465 GCAGCAACTC
* *
147475 CAGCAACGACTGCT-GCTCTAGCACGCAACAG
1 CAGCAACAACTG-TAGCTCCAGCACGCAACAG
* *
147506 CAGCAGCAACTGTAGCTCCAGCACGCAATAG
1 CAGCAACAACTGTAGCTCCAGCACGCAACAG
147537 CAGC
1 CAGC
147541 TCCAGCGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.30, C:0.35, G:0.23, T:0.12
Consensus pattern (31 bp):
CAGCAACAACTGTAGCTCCAGCACGCAACAG
Found at i:148273 original size:51 final size:51
Alignment explanation
Indices: 148218--148654 Score: 361
Period size: 51 Copynumber: 8.5 Consensus size: 51
148208 CAATTGCTCA
* *
148218 TAATCGGGGATACTCCAACCCTGTTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTT
* *
148269 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCCTT
* * * * **** * * ** *
148319 CAATCGAGGATACTCCAACCTCGTTATTTCATTGGGGATACTCCAA-CCCCGT
1 TAATCGGGGATACTCCAACCCCG--ATTTTATTTTCAAAACACCAATTTCCTT
* ** * * ***
148371 TACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCT
1 TA-AT-C--GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCT-T
* * * * *
148426 TAATGGGGGATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-A
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAA-TTTCCTT
* *
148477 TAATCGGGGATACTCTAAACCCGATTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTA-TTTTCAAAACACC-AATTTCCTT
*
148530 TAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTT
*
148581 TAATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACATCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCCTT
*
148630 CATAATCGGAGATACTCCAACCCCG
1 --TAATCGGGGATACTCCAACCCCG
148655 TTATTTCCGA
Statistics
Matches: 305, Mismatches: 60, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
49 2 0.01
50 28 0.09
51 161 0.53
52 50 0.16
53 34 0.11
54 11 0.04
55 3 0.01
56 16 0.05
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTT
Found at i:148349 original size:29 final size:28
Alignment explanation
Indices: 148316--148397 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
148306 AACACCAATT
*
148316 TTTCAATCGAGGATACTCCAACCTCGTTA
1 TTTC-ATCGAGGATACTCCAACCCCGTTA
* *
148345 TTTCATTGGGGATACTCCAACCCCGTTA
1 TTTCATCGAGGATACTCCAACCCCGTTA
**
148373 CCTC--CGAGGGGATACTCCAACCCCG
1 TTTCATCGA--GGATACTCCAACCCCG
148398 GCTTTATTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.02
28 39 0.89
29 4 0.09
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (28 bp):
TTTCATCGAGGATACTCCAACCCCGTTA
Found at i:148542 original size:104 final size:101
Alignment explanation
Indices: 148216--148654 Score: 309
Period size: 104 Copynumber: 4.2 Consensus size: 101
148206 CTCAATTGCT
* * * *
148216 CATAATCGGGGATACTCCAACCCTGTTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATA
1 CATAATC-GGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTCCTATAATCGGGGATA
* * *
148281 CTCC-AACTCCGATTTTATTTCCAAAAACACCAATTTTT
65 CTCCAAAC-CCGATTTTATTT-CTAAAACACCAAATTTC
* **** * * ** *
148319 C--AATCGAGGATACTCCAACCTCGTTATTTCATTGGGGATACTCCAA-CCCCGT-TACCTCCGA
1 CATAATCG-GGATACTCCAACCCCG--ATTTCATTTTCAAAACACCAATTTCC-TATA-AT-C--
* ** * * ***
148380 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATA-TTGATTTC
58 GGGGATACTCCAAACCCGATTTTATTTCTAAAACACCAAATTTC
* * * *
148423 TCTTAATGGGGGATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-ATAATCGGGG
1 -CATAAT-CGGGATACTCCAACCCCGATTTCATTTTC-AAAACACCAA-TTTCCTATAATCGGGG
* *
148486 ATACTCTAAACCCGATTTTATTTTTCAAAACACCAAATTTC
62 ATACTCCAAACCCGATTTTATTTCT-AAAACACCAAATTTC
* * *
148527 CTTTAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGAT
1 C-ATAATC-GGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTCCTATAATCGGGGAT
* * * *
148592 ACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTT
64 ACTCCAAACCCGATTTTATTTCTAAAACACCAAATTTC
148630 CATAATCGGAGATACTCCAACCCCG
1 CATAATCGG-GATACTCCAACCCCG
148655 TTATTTCCGA
Statistics
Matches: 254, Mismatches: 58, Indels: 49
0.70 0.16 0.14
Matches are distributed among these distances:
100 1 0.00
101 20 0.08
102 47 0.19
103 40 0.16
104 77 0.30
105 23 0.09
106 23 0.09
107 22 0.09
108 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (101 bp):
CATAATCGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTCCTATAATCGGGGATAC
TCCAAACCCGATTTTATTTCTAAAACACCAAATTTC
Found at i:148723 original size:79 final size:78
Alignment explanation
Indices: 148586--149128 Score: 852
Period size: 79 Copynumber: 6.9 Consensus size: 78
148576 TCCTTTAATC
*
148586 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGAGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGG-GATACTCCAAC
148651 CCCGTTATTTCCGA
65 CCCGTTATTTCCGA
*
148665 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC-GGGATACTCCAAC
*
148730 CCCGTTATTTCTGA
65 CCCGTTATTTCCGA
* *
148744 GGGGATACTCCAATCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCG-GGATACTCCAAC
*
148809 CCCGTTATTTTCGA
65 CCCGTTATTTCCGA
* * *
148823 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC-GGGATACTCCAAC
148888 CCCGTTATTTCCGA
65 CCCGTTATTTCCGA
* *
148902 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC-GGGATACTCCAAC
* *
148967 CCTGTTATTTTCGA
65 CCCGTTATTTCCGA
* * *
148981 GGGGATACTCCAACCCCGATTTTATCTCTAAAACATCAAATTTTCATAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCG-GGATACTCCAAC
149046 CCCGTTATTTCCGA
65 CCCGTTATTTCCGA
* * *
149060 GGGGATACTCCAACCCCGGTTTTATTTCTAAGACATCAATTTTTCATAATGGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAAT-CGGGATACTCCAAC
149125 CCCG
65 CCCG
149129 ATTTTATTTT
Statistics
Matches: 425, Mismatches: 34, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
78 2 0.00
79 419 0.99
80 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGATACTCCAACC
CCGTTATTTCCGA
Found at i:149136 original size:51 final size:51
Alignment explanation
Indices: 149060--149207 Score: 140
Period size: 53 Copynumber: 2.8 Consensus size: 51
149050 TTATTTCCGA
*
149060 GGGGATACTCCAACCCCGGTTTTATTTCTAAG-ACATCAATTTTT-CATAATG
1 GGGGATACTCTAACCCC-GTTTTATTTCTAAGAACA-CAATTTTTCCATAATG
* * ** *
149111 GGGGATACTCTAACCCCGATTTTATTTTTTTAGAACACCGTTTTTCCATAATT
1 GGGGATACTCTAACCCCG-TTTTA-TTTCTAAGAACACAATTTTTCCATAATG
* * *
149164 GGGGATACTCTAGCCCCGTTGTTATCTCTAA-AATACCAATTTTT
1 GGGGATACTCTAACCCCGTT-TTATTTCTAAGAACA-CAATTTTT
149208 TTTCTCGTCA
Statistics
Matches: 78, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
50 1 0.01
51 24 0.31
52 24 0.31
53 29 0.37
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGTTTTATTTCTAAGAACACAATTTTTCCATAATG
Found at i:150229 original size:22 final size:22
Alignment explanation
Indices: 150179--150236 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
150169 GTGTATTTAC
*
150179 TTGAAAAACATTATTTCTCTAT
1 TTGAAAAACATTTTTTCTCTAT
150201 TTGAAAAACATTTTTTCT-TAT
1 TTGAAAAACATTTTTTCTCTAT
* **
150222 GTCTAAAACATTTTT
1 TTGAAAAACATTTTT
150237 GATACTAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.48
Consensus pattern (22 bp):
TTGAAAAACATTTTTTCTCTAT
Found at i:156246 original size:13 final size:13
Alignment explanation
Indices: 156228--156252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
156218 TTCAACGATT
156228 TGTATCGATACAA
1 TGTATCGATACAA
156241 TGTATCGATACA
1 TGTATCGATACA
156253 TAAGTGTTGT
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
Done.