Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001216.1 Hibiscus syriacus cultivar Beakdansim tig00002403_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102490
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:1199 original size:3 final size:3
Alignment explanation
Indices: 1184--1262 Score: 97
Period size: 3 Copynumber: 25.7 Consensus size: 3
1174 TTTGGGCTTG
* * *
1184 TAA TAA TAT TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
1230 T-A TAA TAA TAA TAA TAA TAAA TAA TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA T-AA TAA TA
1263 TTTAAATGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 2 0.03
3 55 0.83
4 9 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1850 original size:113 final size:113
Alignment explanation
Indices: 1494--4047 Score: 3009
Period size: 113 Copynumber: 22.8 Consensus size: 113
1484 GTTGAACAAG
*
1494 CTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTT-TTCTCATTATG-ACTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * * * *
1553 AAAGATGATCCATCAAGTGATGGATT-GAGCAAAAGGTTGAACAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * *
1600 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTATCT
* * * * *
1665 GGCAATGTTGATCCATCAAATGATGAATTCAAATAAAAGGTTGAACAAATT
63 GGAAAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
*
1716 CTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG-ACTTTATCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * ** *
1780 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAG-TGAACAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * * *
1827 C-T-TCATTATGAATTTCTTCTTTC-TCTTCAGATGACGAGTT-TTCTCAGTATGAACTCTACCT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTATCT
* * * *
1888 GGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTT
63 GGAAAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* *
1939 CTTCTCATTATGAA---CTTCTTCCTTCTTC--ATGAGTTCTTCTCATTATGAACTTTCTCTAGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * ** * *
1999 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * *
2047 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTATCT
* * * *
2112 GGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTT
63 GGAAAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
*
2163 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
*** ** **
2228 AAAACCGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* ** *
2276 CTTCTCATTATGAA--T-TTCTT-C-T-TTCAGATGAGTTCTTCTCATTATAAACTCGAACTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * * *
2335 AATGTTGATCCATTGAA-TGATGAATTCAAGCAAAAAGTTGAACAAGTT
66 AAAGTTGATCCA-TCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * *
2383 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* *
2448 AATGTTGATCCATCAA-TGATGAATTCAAACAAAAAGTTGAACAAGTT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * *
2495 C-T-TCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTT-TCA-TATGAATTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * ** * *
2556 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * *
2604 CTTCTCATTATGAATTTCTTCTT-CTTCTTCAGATGACGAGTCTTCTCATTATGAACTCTACCTG
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G-TTCTTCTCATTATGAACTTTATCTG
* * * * *
2668 GCAATGTTGATCCATTAAATGATGAATTCAAACAAAAGGTTGAACAAA-T
64 GAAAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* *
2717 CTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAG-TCTT-TCATTATGAACTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * ** *
2780 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * *
2828 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTC-T-TC-TTATGAACTCTACCT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTATCT
* * * *
2890 GGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTT
63 GGAAAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
*
2941 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* ** * *
3006 AAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * *
3054 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTATCT
* * * *
3119 GGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTT
63 GGAAAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
*
3170 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * ** * *
3235 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * *
3283 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTATCT
* * * * *
3348 GGCAATGTTGATCCATCAAATGATGAATTCAAATAAAAAGTTGAACAAGTT
63 GGAAAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * *
3399 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTATGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * ** **
3464 AAAATCGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
** *
3512 CTTCTCATTATGAA--T-TTCTT-C-T-TTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * * *
3571 AATGTTGATCCATTGAA-TGATGAATTCAAGCAAAAAGTTGAACAAGTT
66 AAAGTTGATCCA-TCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * *
3619 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * * *
3684 AATGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
*
3732 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
* * ** ** * *
3797 AAAGCTGATCCATCAAGTGATGGATTTGAGTAAAAGGTTGAATAAATT
66 AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
* * * *
3845 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTATCT
* * * *
3910 GGCAAGGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTT
63 GGAAAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
*
3961 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
*
4026 AAAGCTGATCCATCAAGTGATG
66 AAAGTTGATCCATCAAGTGATG
4048 GATTTGAATC
Statistics
Matches: 2068, Mismatches: 313, Indels: 127
0.82 0.12 0.05
Matches are distributed among these distances:
106 14 0.01
107 164 0.08
108 114 0.06
109 56 0.03
110 154 0.07
111 135 0.07
112 97 0.05
113 774 0.37
114 90 0.04
115 32 0.02
116 438 0.21
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGA
AAAGTTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAATT
Found at i:1993 original size:18 final size:17
Alignment explanation
Indices: 1937--1990 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
1927 GTTGAACAAG
1937 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
1954 TTCTTCCTTC-TTCATG-AG
1 TTCTT-C-TCATT-ATGAAC
1972 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
1989 TT
1 TT
1991 TCTCTAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
16 5 0.17
17 11 0.37
18 9 0.30
19 5 0.17
ACGTcount: A:0.19, C:0.24, G:0.07, T:0.50
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:2277 original size:229 final size:226
Alignment explanation
Indices: 1494--4055 Score: 2972
Period size: 229 Copynumber: 11.4 Consensus size: 226
1484 GTTGAACAAG
1494 CTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTT-TTCTCATTATG-ACTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
* * * *
1553 AAAGATGATCCATCAAGTGATGGA-TTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTT
66 AAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTT
* *
1617 CTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATC
131 CTTCTTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTGATCCATC
* *
1682 AAATGATGAATTCAAATAAAAGGTTGAACAAATT
193 AAATGATGAATTCAAACAAAAAGTTGAACAAATT
* *
1716 CTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG-ACTTTATCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
* * *
1780 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAG-TGAACAAATTC-T-TCATTATGAATTT
66 AAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTT
* * *
1842 CTTCTTTC-TCTTCAGATGACGAGTT-TTCTCAGTATGAACTCTACCTGGCAATGTTGATCCATC
131 CTTCTTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTGATCCATC
*
1905 AAATGATGAATTCAAACAAAAAGTTGAACAAGTT
193 AAATGATGAATTCAAACAAAAAGTTGAACAAATT
*
1939 CTTCTCATTATGAA---CTTCTTCCTTCTTC--ATGAGTTCTTCTCATTATGAACTTTCTCTAGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
* * * *
1999 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTT
66 AAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTT
* *
2064 CTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATC
131 CTTCTTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTGATCCATC
*
2129 AAATGATGAATTCAAACAAAAAGTTGAACAAGTT
193 AAATGATGAATTCAAACAAAAAGTTGAACAAATT
2163 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
*** *
2228 AAAACCGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAA--T
66 AAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTT
* * * * **
2291 -TTC-TTC-T-TTCAGATGAGTTCTTCTCATTATAAACTCGAACTGGAAATGTTGATCCATTGAA
131 CTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTGATCCATCAAA
* *
2352 TGATGAATTCAAGCAAAAAGTTGAACAAGTT
196 TGATGAATTCAAACAAAAAGTTGAACAAATT
* *
2383 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC-CTGG
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCTCTGG
* * * ** *
2447 TAATGTTGATCCATCAA-TGATGAATTCAAACAAAAAGTTGAACAAGTTC-T-TCATTATGAACT
65 AAAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAACT
* * * * *
2509 TCTTCTTCCTTTTTCAGATGAGTTCTT-TCA-TATGAA-TTTTCTCTGGAAAAGCTGATCCATCA
130 TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAAGTTGATCCATCA
* * ** * *
2571 AGTGATGGATTTGAGCAAAAGGTTGAACAAATT
194 AATGATGAATTCAAACAAAAAGTTGAACAAATT
* * *
2604 CTTCTCATTATGAATTTCTTCTT-CTTCTTCAGATGACGAGTCTTCTCATTATGAACTCTAC-CT
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G-TTCTTCTCATTATGAACT-TTCTCT
* * * * * ** *
2667 GGCAATGTTGATCCATTAAATGATGAATTCAAACAAAAGGTTGAACAAA-TCTTCTCATTATGAA
63 GGAAAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAA
* * * *
2731 CTTTTTCTTCCTTCTTCAGATGAG-TCTT-TCATTATGAACT-TTCTCTGGAAAAGCTGATCCAT
128 CTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAAGTTGATCCAT
* * ** *
2793 CAAGTGATGGATTTGAGCAAAAAGTTGAACAAATT
192 CAAATGATGAATTCAAACAAAAAGTTGAACAAATT
* * *
2828 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTC-T-TC-TTATGAACTCTAC-C
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTC
* * * * ** *
2889 TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGA
62 TGGAAAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGA
* *
2954 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGTTGATCCA
127 ACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAAGTTGATCCA
* * ** * *
3018 TCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
191 TCAAATGATGAATTCAAACAAAAAGTTGAACAAATT
* * *
3054 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-C
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTC
* * * * ** *
3118 TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGA
62 TGGAAAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGA
* * *
3183 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCCA
127 ACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAAGTTGATCCA
* * ** * *
3247 TCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
191 TCAAATGATGAATTCAAACAAAAAGTTGAACAAATT
* * *
3283 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-C
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTC
* * * * ** * *
3347 TGGCAATGTTGATCCATCAAATGATGAATTCAAATAAAAAGTTGAACAAGTTCTTCTCATTATGA
62 TGGAAAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGA
* *
3412 ACTTCTTC-TTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTA--TGGAAAAATCGATC
127 ACTTCTTCTTTC-TTCTTCAGATGAGTTCTTCTCATTATGAAC--TCTACCTGGAAAAGTTGATC
* ** **
3474 CATCAAGTGATGGTTTTGAACAAAAAGTTGAACAAATT
189 CATCAAATGATGAATTCAAACAAAAAGTTGAACAAATT
****
3512 CTTCTCATTATGAA--T-TTCTT-C-T-TTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
* * * * *
3571 AATGTTGATCCATTGAA-TGAT-GAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
66 AAAGTTGATCCA-TCAAGTGATGGATTTGAA-CAAAAAGTTGAACAAATTCTTCTCATTATGAAC
* * *
3634 TTCTTC-TTCATTCTTCAGATGAGTTCTTCTCATTATGAACT-TGACCTGGTAATGCTGATCCAT
129 TTCTTCTTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTCT-ACCTGGAAAAGTTGATCCAT
*
3697 CAAATGATGAATTCAAACAAAAAGTTGAACAAGTT
192 CAAATGATGAATTCAAACAAAAAGTTGAACAAATT
3732 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
* ** * * *
3797 AAAGCTGATCCATCAAGTGATGGATTTGAGTAAAAGGTTGAATAAATTCTTCTCATTATGAATTT
66 AAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTT
* *
3862 CTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAGGTTGATCCATC
131 CTTCTTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTGATCCATC
*
3927 AAATGATGAATTCAAACAAAAAGTTGAACAAGTT
193 AAATGATGAATTCAAACAAAAAGTTGAACAAATT
*
3961 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGA
1 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
*
4026 AAAGCTGATCCATCAAGTGATGGATTTGAA
66 AAAGTTGATCCATCAAGTGATGGATTTGAA
4056 TCTTTGCTAA
Statistics
Matches: 2152, Mismatches: 122, Indels: 125
0.90 0.05 0.05
Matches are distributed among these distances:
217 11 0.01
218 22 0.01
219 78 0.04
220 351 0.16
221 78 0.04
222 80 0.04
223 230 0.11
224 262 0.12
225 51 0.02
226 229 0.11
227 82 0.04
228 17 0.01
229 658 0.31
230 1 0.00
231 1 0.00
232 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (226 bp):
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
AAAGTTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTT
CTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTGATCCATCAAA
TGATGAATTCAAACAAAAAGTTGAACAAATT
Found at i:3532 original size:17 final size:17
Alignment explanation
Indices: 3510--3559 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
3500 GTTGAACAAA
*
3510 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAG
*
3527 TTCTTCTTTCA-GATG-AG
1 TTCTTC--TCATTATGAAG
3544 TTCTTCTCATTATGAA
1 TTCTTCTCATTATGAA
3560 CTCGAACTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
15 3 0.12
16 3 0.12
17 14 0.54
18 3 0.12
19 3 0.12
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.50
Consensus pattern (17 bp):
TTCTTCTCATTATGAAG
Found at i:3822 original size:791 final size:780
Alignment explanation
Indices: 1479--4047 Score: 3559
Period size: 791 Copynumber: 3.3 Consensus size: 780
1469 TATAATTTGG
*
1479 AAAAGGTTGAAC-AA-GCTTCTCATTATGAA-CTTCTTCTTCTTCAGATGAGTT-TTCTCATTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* * * * * * * * *
1540 G-ACT-TTCTCTGGAAAAGATGATCCATCAAGTGATGGATT-GAGCAAAAGGTTGAACAAATTCT
66 GAACTCTAC-CTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCT
* *
1602 TCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGG
130 TCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TACCTGG
* * * * *
1667 CAATGTTGATCCATCAAATGATGAATTCAAATAAAAGGTTGAACAAATTCTTCTCATTATGAACT
191 AAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA-T
*
1732 TT-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG-ACTTTATCTGGAAAAGCTGATCCATCA
255 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTGGAAAAGCTGATCCATCA
1795 AGTGATGGATTTGAGCAAAAAG-TGAACAAATTC-T-TCATTATGAATTTCTTCTT-TCTCTTCA
320 AGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCT-TCTTCA
*
1856 GATGACGAGTT-TTCTCAGTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
384 GAT---GAGTTCTTCTCATTATGAACTCTA-CTGGCAATGTTGATCCATCAAATGATGAATTCAA
* * * **
1920 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCCTTCTTCATGAGTTCTTCTCATTAT
445 ACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTC-AGATGAGTTCTTCTCATTAT
* *
1985 GAACTTTCTCTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTT
509 GAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTT
2050 CTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGC
574 CTCATTATGAATTTCTTCTTTCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTACCTGGC
2115 AATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTT
637 AATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTT
* *
2180 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAACCGATCCATCAAG
702 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAG
* *
2245 TGATGGTTTTGAAC
767 TGATGGATTTGAGC
*
2259 AAAAAGTTGAACAAATTCTTCTCATTATGAAT-TTCTTC-T-TTCAGATGAGTTCTTCTCATTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* * * ** *
2321 AAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTT
66 GAACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTT
* * *
2386 CTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGTAAT
131 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-ACCTGGAAAA
* * * *
2451 GTTGATCCATCAA-TGATGAATTCAAACAAAAAGTTGAACAAGTTC-T-TCATTATGAACTTCTT
195 GCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTT
* *
2513 CTTCCTTTTTCAGATGAGTTCTT-TCA-TATGAA-TTTTCTCTGGAAAAGCTGATCCATCAAGTG
260 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CTGGAAAAGCTGATCCATCAAGTG
*
2575 ATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCTTCAGATGA
324 ATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCTTCAGATGA
* *
2640 CGAGTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATTAAATGATGAATTCAAACAAAA
389 -G-TTCTTCTCATTATGAACTCTA-CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAA
*
2705 GGTTGAACAAA-TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAG-TCTT-TCATTATG
451 AGTTGAACAAATTCTTCTCATTATGAA---TTTCTT-C-T-TTCAGATGAGTTCTTCTCATTATG
2767 AACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTC
510 AACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTC
2832 TCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTC-T-TC-TTATGAACTCTACCTGGCA
575 TCATTATGAATTTCTTCTTTCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTACCTGGCA
2894 ATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
638 ATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
*
2959 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGT
703 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGT
3024 GATGGATTTGAGC
768 GATGGATTTGAGC
3037 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAA--TCTTC-TTCTTCTTCAGAT---GAGTTCTTCT
*
3102 CATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
60 CATTATGAACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
*
3167 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
125 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTAC-CT
* ** *
3232 GGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
189 GGAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
* * * * *
3297 TTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCC
254 TTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTACCTGGAAAAGCTGATCC
* * ** ** * *
3362 ATCAAATGATGAATTCAAATAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTC
316 ATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC-TTC
* ** * * ** *
3427 TTCAGATGAGTTCTTCTCATTATGAACTTTCTA-TGGAAAAATCGATCCATCAAGTGATGGTTTT
380 TTCAGATGAGTTCTTCTCATTATGAAC--TCTACTGGCAATGTTGATCCATCAAATGATGAATTC
*
3491 GAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCAGATGAGTTCTTCTCATTA
443 AAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCAGATGAGTTCTTCTCATTA
**** * * * * ** *
3556 TGAACTCGAACTGGAAATGTTGATCCATTGAA-TGATGAATTCAAGCAAAAAGTTGAACAAGTTC
508 TGAACTTTCTCTGGAAAAGCTGATCCA-TCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTC
*
3620 TTCTCATTATGAACTTCTTC-TTCATTCTTCAGAT-GAGTTCTTCTCATTATGAACT-TGACCTG
572 TTCTCATTATGAATTTCTTCTTTC-TTCTTCAGATAGAGTTCTTCTCATTATGAACTCT-ACCTG
* *
3682 GTAATGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
635 GCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
3747 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
700 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
*
3812 AGTGATGGATTTGAGT
765 AGTGATGGATTTGAGC
*
3828 AAAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAA--TCTTC-TTCTTCTTCAGAT---GAGTTCTTCT
* *
3893 CATTATGAACTCTACCTGGCAAGGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
60 CATTATGAACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
**
3958 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCT
125 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTACCT
4023 GGAAAAGCTGATCCATCAAGTGATG
189 GGAAAAGCTGATCCATCAAGTGATG
4048 GATTTGAATC
Statistics
Matches: 1623, Mismatches: 110, Indels: 101
0.88 0.06 0.06
Matches are distributed among these distances:
775 7 0.00
776 49 0.03
777 46 0.03
778 205 0.13
779 126 0.08
780 69 0.04
781 132 0.08
782 56 0.03
783 56 0.03
784 10 0.01
786 1 0.00
787 145 0.09
788 32 0.02
789 12 0.01
790 39 0.02
791 454 0.28
792 12 0.01
793 8 0.00
794 58 0.04
795 87 0.05
796 19 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (780 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAATCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTT
CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACCTGGAAAAG
CTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTC
TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTGGAAAAGCTGATCCATCAAGTGAT
GGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCTTCAGATGAGT
TCTTCTCATTATGAACTCTACTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTG
AACAAATTCTTCTCATTATGAATTTCTTCTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAT
TTCTTCTTTCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATC
AAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
Found at i:4534 original size:22 final size:22
Alignment explanation
Indices: 4455--4531 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
4445 CATAAAGCTT
4455 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* * *
4477 TCATATTTAAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
* *
4499 TCATCCTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
4521 TCATCTTTGAA
1 TCATCTTTGAA
4532 GAGTGTAGAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:4950 original size:50 final size:54
Alignment explanation
Indices: 4885--5088 Score: 204
Period size: 54 Copynumber: 3.9 Consensus size: 54
4875 AATAGTAGAT
*
4885 TCGTAAAACATTTGACAATACATTCATCTTTTCCTGT-GTTATCTG-TC-GA-GA
1 TCGTAAAACATTTGACAATACATTCATCTTTTCCTGTGGCT-TCTGCTCAGATGA
* * * *
4936 T-GTAAAACACTTGACAATACATTCATATTTTTCTGTGGCTTCTGCTCAGATGT
1 TCGTAAAACATTTGACAATACATTCATCTTTTCCTGTGGCTTCTGCTCAGATGA
* ** * * * * *
4989 TCGTAAAACATTTGACAACACATTCATCCATTCTTGTGGTTTCTGCTTAGACGT
1 TCGTAAAACATTTGACAATACATTCATCTTTTCCTGTGGCTTCTGCTCAGATGA
* * *
5043 TCGTAAAGCGTTTGACAACACATTCATCCTTTT-CTGTGGCTTCTGC
1 TCGTAAAACATTTGACAATACATTCAT-CTTTTCCTGTGGCTTCTGC
5089 CAAGATTTCT
Statistics
Matches: 126, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
50 36 0.29
51 5 0.04
52 2 0.02
53 2 0.02
54 78 0.62
55 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (54 bp):
TCGTAAAACATTTGACAATACATTCATCTTTTCCTGTGGCTTCTGCTCAGATGA
Found at i:7260 original size:114 final size:114
Alignment explanation
Indices: 7060--7279 Score: 361
Period size: 114 Copynumber: 1.9 Consensus size: 114
7050 GATCATGCAG
* * *
7060 TTCATCTTTCAATTTCAATGATTGGTTATGGGATTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAATCTCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
* *
7125 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
* *
7174 TTCATCTTTCAAATCT-AATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTC-AATCTCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAG
7238 AACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
65 AACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
7280 CGAGAATGTG
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
114 94 0.96
115 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAATCTCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
Found at i:9543 original size:7 final size:7
Alignment explanation
Indices: 9526--9576 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
9516 TTGATTCAAT
9526 TTTTTTC
1 TTTTTTC
9533 -TTTTTC
1 TTTTTTC
*
9539 TTTTTTG
1 TTTTTTC
9546 TTTTGTT-
1 TTTT-TTC
9553 TTTTTTC
1 TTTTTTC
*
9560 CTTTTTC
1 TTTTTTC
*
9567 TTCTTTC
1 TTTTTTC
9574 TTT
1 TTT
9577 GCTGGATGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
6 8 0.22
7 26 0.72
8 2 0.06
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:9544 original size:13 final size:13
Alignment explanation
Indices: 9526--9576 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
9516 TTGATTCAAT
9526 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
* *
9539 TTTTTTGTTTTGTT
1 TTTTTTCTTTT-TC
9553 TTTTTTCCTTTTTC
1 TTTTTT-CTTTTTC
*
9567 TTCTTTCTTT
1 TTTTTTCTTT
9577 GCTGGATGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 14 0.45
14 13 0.42
15 4 0.13
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:9577 original size:27 final size:27
Alignment explanation
Indices: 9525--9577 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
9515 CTTGATTCAA
* *
9525 TTTTTTTCTTTTTCTTTTTTGTTTTGT
1 TTTTTTTCTTTTTCTTCTTTGCTTTGT
9552 TTTTTTTCCTTTTTCTTCTTT-CTTTG
1 TTTTTTT-CTTTTTCTTCTTTGCTTTG
9578 CTGGATGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (27 bp):
TTTTTTTCTTTTTCTTCTTTGCTTTGT
Found at i:9877 original size:2 final size:2
Alignment explanation
Indices: 9870--9914 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9860 ACAACAAAGG
9870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9912 AT A
1 AT A
9915 AAAAAGGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14350 original size:24 final size:24
Alignment explanation
Indices: 14321--14370 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
14311 AAAAATAAAT
*
14321 AATGAAATA-AAATACTTGTAATAA
1 AATGAAATATAAATAC-TATAATAA
14345 AATGAAATATAAATACTATAATAA
1 AATGAAATATAAATACTATAATAA
14369 AA
1 AA
14371 AATTTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (24 bp):
AATGAAATATAAATACTATAATAA
Found at i:16517 original size:3 final size:3
Alignment explanation
Indices: 16501--16576 Score: 91
Period size: 3 Copynumber: 24.7 Consensus size: 3
16491 TTCGGGCTTG
* * *
16501 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
16548 TAA TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
16577 TTTAAATGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 2 0.03
3 54 0.86
4 7 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:21401 original size:139 final size:137
Alignment explanation
Indices: 21147--21429 Score: 361
Period size: 139 Copynumber: 2.1 Consensus size: 137
21137 ACCTAAGTGC
* * *
21147 CGAAATAGAAATTCACAAACTCATTATGAATTCCATGGATGCACTCATAGTGCCGAAAGTACATA
1 CGAAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACTCATAGTGCCGAAAGTACACA
* * * ** *
21212 TAGTACTAATATGAAAATGCACCATTATGCATTAAACAAAATCGATCGATAACTTTTATACATAA
66 TAGTACTAATACGAAAATGCACCATTATGCACTAAACAAAATCGACCGATAACCATTATACACAA
21277 TTGTATGT
131 TT-TATGT
* * ** *
21285 CGAAATGGTAATTCACAAACTCATTTATGAATACCATGGTTGCACATC-TAGTGTTGAAGGTACA
1 CGAAATGGAAATTCACAAACTCA-TTATGAATACCATGGATGCAC-TCATAGTGCCGAAAGTACA
* ** * *
21349 CATAGTACTGATACGAAAATGCACTGTTATGCACTACACAAAATCGACCGATAACCATTATATAC
64 CATAGTACTAATACGAAAATGCACCATTATGCACTAAACAAAATCGACCGATAACCATTATACAC
21414 AATTTATGT
129 AATTTATGT
21423 CGAAATG
1 CGAAATG
21430 CACATATGAC
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
138 33 0.27
139 89 0.72
140 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (137 bp):
CGAAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACTCATAGTGCCGAAAGTACACA
TAGTACTAATACGAAAATGCACCATTATGCACTAAACAAAATCGACCGATAACCATTATACACAA
TTTATGT
Found at i:31434 original size:21 final size:21
Alignment explanation
Indices: 31417--31476 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
31407 ACGAGAAGAG
* *
31417 CATTCATCAAGACAAGAATGT
1 CATTCATCAAGACGAGAATGC
31438 CATTCATCAAGACGAGAATGC
1 CATTCATCAAGACGAGAATGC
31459 CATTCATCAAGACGAGAA
1 CATTCATCAAGACGAGAA
31477 GACCCTTCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.20
Consensus pattern (21 bp):
CATTCATCAAGACGAGAATGC
Found at i:31485 original size:21 final size:21
Alignment explanation
Indices: 31406--31502 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
31396 TCGTACCAAG
*
31406 GACGAGAAGAGCATTCATCAA
1 GACGAGAAGACCATTCATCAA
* *
31427 GACAAGAATG-TCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
31448 GACGAGAATG-CCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
* *
31469 GACGAGAAGACCCTTCATGAA
1 GACGAGAAGACCATTCATCAA
* *
31490 AATGAGAAGACCA
1 GACGAGAAGACCA
31503 CATCGCATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (21 bp):
GACGAGAAGACCATTCATCAA
Found at i:35590 original size:128 final size:128
Alignment explanation
Indices: 35360--35768 Score: 626
Period size: 128 Copynumber: 3.2 Consensus size: 128
35350 AAGTTGCGAT
*
35360 ATGTTGTGGCACGACTGAACCCACATTAGGTTGAGATGACAAGATTCAGAAGAAGAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGACAAGATTCAGAAGAAGAAGAAGGCAT
* * * *
35425 GAAGAATAAGCCTTGCAATCTGAGGTGATGGGACATTTTGAAGGCTCGTACCAGTATAAGATA
66 GAAGAATGAGCCTTACAATCTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
*
35488 ATGTTGGGGCATGACTGAACCCACATTAGGTTGAGATGACAAGATTCAGAAGAAGAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGACAAGATTCAGAAGAAGAAGAAGGCAT
* * *
35553 GAAGAATGAGCCTTACAAACTAAGGTGATGGGGCATTTTGAAGGCCCGTACTAGTATAAGATA
66 GAAGAATGAGCCTTACAATCTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
* * * * **
35616 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAG--G-AGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGACAAGATTCAGAAGAAGAAGAAGGCAT
* *
35678 GAAGAATGAGCCTTACAATTTGAGGTAATAGGGGCATTTTGAAAGGCCCGTACCAGTATAAGATA
66 GAAGAATGAGCCTTACAATCTGAGGTGAT-GGGGCATTTTG-AAGGCCCGTACCAGTATAAGATA
35743 ATGTTGGGGCACGACTGAACCCACAT
1 ATGTTGGGGCACGACTGAACCCACAT
35769 CATGATGAGA
Statistics
Matches: 259, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
125 31 0.12
126 12 0.05
127 47 0.18
128 169 0.65
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (128 bp):
ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGACAAGATTCAGAAGAAGAAGAAGGCAT
GAAGAATGAGCCTTACAATCTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
Found at i:36570 original size:36 final size:35
Alignment explanation
Indices: 36520--36717 Score: 211
Period size: 36 Copynumber: 5.5 Consensus size: 35
36510 GATTGGAGAA
*
36520 AAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCAT-CTAAGCCTTCACCAGAGAATAGTGAAGC
36556 AAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGC
1 AAACCATCT-AAGCCTTCACCAGAGAATAGTGAAGC
* * *
36592 AATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCT-AAGCCTTCACCAGAGAATAGTGAAGC
* *
36628 AAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGC
1 AAACCATC-TAAGCCTTCACCAGAGAATAGTGAAGC
* * *
36664 AAATCATCTTAAGTCTTCGCCA-A-AAGTAGTGAAGC
1 AAACCATC-TAAGCCTTCACCAGAGAA-TAGTGAAGC
* *
36699 AGATCCATTTTAAGCCTTC
1 A-AACCA-TCTAAGCCTTC
36718 TCAGAAGAGT
Statistics
Matches: 140, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
34 1 0.01
35 13 0.09
36 124 0.89
37 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (35 bp):
AAACCATCTAAGCCTTCACCAGAGAATAGTGAAGC
Found at i:36647 original size:72 final size:72
Alignment explanation
Indices: 36530--36665 Score: 238
Period size: 72 Copynumber: 1.9 Consensus size: 72
36520 AAACCATCCT
36530 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAT
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAT
36595 CAATCTG
66 CAATCTG
* *
36602 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-AAGTCTTCACCAGAGAGTAGTGAAGCAA
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TGAAGCCTTCACCAGAGAATAGTGAAGCAA
36666 ATCATCTTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
72 60 0.98
73 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (72 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAT
CAATCTG
Found at i:36714 original size:108 final size:108
Alignment explanation
Indices: 36520--36717 Score: 265
Period size: 108 Copynumber: 1.8 Consensus size: 108
36510 GATTGGAGAA
* *
36520 AAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATA
1 AAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATA
36585 GTGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
66 GTGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
* * * * * *
36628 AAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGCAAATCATCTTAAGTCTTCGCCA-A-AAGT
1 AAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAA-T
* * *
36691 AGTGAAGCAGATCCATTTTAAGCCTTC
65 AGTGAAGCA-ATCAATCTGAAGCCTTC
36718 TCAGAAGAGT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 2 0.03
107 11 0.14
108 64 0.83
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (108 bp):
AAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATA
GTGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
Found at i:37502 original size:155 final size:155
Alignment explanation
Indices: 37100--37823 Score: 845
Period size: 155 Copynumber: 4.6 Consensus size: 155
37090 AAGATTATTT
* * * *
37100 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTATGAAGATATCCGAGTTCCATACTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCAAACCCGTATGAAGATATTCGAGTTCTATACTCC
* * * * *
37165 TTAATGAAAGAAGGAGCGAACCCGTTTGAAGAAAATTTCCAAGTTCTATACTCCCT-GAAGAAAG
66 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGATGTCTAAGTTCCATACTCCCTAG-AGAAAG
* * *
37229 AGGGAGCGAACCTGTTTGCAGAAGATTATTC
129 AGGGAGCGAACCCG--TG-TGAAGA-TATGC
* * * * * * *
37260 GAGTTCTATACTTCCTGAAGAGAGAGCGAAGCGAACCCGTAAGAAGAAGATTCTTGAGTTCTATA
1 GAGTTCTATACTCCCTAAAGAAAGAG-GGAGCAAACCCGTATGAAG-ATATTC--GAGTTCTATA
*
37325 CTTCC-TGAAGAAAG-AGGAAGCGAACCCGTTTGAAGAGATGTCTAAGTTCCATACTCCCTAGAG
62 C-TCCTTAAAGAAAGAAGG-AGCGAACCCGTTTGAAGAGATGTCTAAGTTCCATACTCCCTAGAG
37388 AAAGAGGGAGCGAACCCGTGTGAAGATATGC
125 AAAGAGGGAGCGAACCCGTGTGAAGATATGC
* * * *
37419 GAGTTGTATACTCCTTAAAGAAAGAGGGAGCAAACCCGTGTGAAGATATGCGAGTTCTATACTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCAAACCCGTATGAAGATATTCGAGTTCTATACTCC
*
37484 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACTCCCTAGAGAAAGAG
66 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTAAGTTCCATACTCCCTAGAGAAAGAG
37549 GGAGCGAACCCGTGTGAAGATATGC
131 GGAGCGAACCCGTGTGAAGATATGC
* * * * * * *
37574 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCAAACCCGTATGAAGATATTCGAGTTCTATACTCC
*
37639 TTAAAGAAAGAAGGAGCGAACCCAG-TTG-A-AGATGT-TCGAGTTCCATACTCCCTAGAGAAAG
66 TTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGAGATGTCT-AAGTTCCATACTCCCTAGAGAAAG
*
37700 AGGGAGCGAACCC--GTGAAGAGATGTTC
129 AGGGAGCGAACCCGTGTGAAGATATG--C
* *
37727 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCAAGCCCGTTTTCAGAAGATCATTCGAGTTCTATA
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCAAACCCG-TAT--GAAGAT-ATTCGAGTTCTATA
* * *
37792 CTTCCTGAAAGAAAGAGGGAGCAAACCCGTTT
62 C-TCCTTAAAGAAAGAAGGAGCGAACCCGTTT
37824 CCAAAAGATT
Statistics
Matches: 493, Mismatches: 52, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
151 10 0.02
152 1 0.00
153 78 0.16
154 7 0.01
155 177 0.36
156 9 0.02
157 18 0.04
158 40 0.08
159 25 0.05
160 26 0.05
161 18 0.04
162 4 0.01
163 42 0.09
164 35 0.07
165 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (155 bp):
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCAAACCCGTATGAAGATATTCGAGTTCTATACTCC
TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTAAGTTCCATACTCCCTAGAGAAAGAG
GGAGCGAACCCGTGTGAAGATATGC
Found at i:37698 original size:102 final size:101
Alignment explanation
Indices: 37100--38148 Score: 729
Period size: 109 Copynumber: 9.9 Consensus size: 101
37090 AAGATTATTT
* * * * *
37100 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTATGAAGATATCCGAGTTCCATACTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGT-TGAAGATATTCGAGTTCTATACTCC
* * *
37165 TTAATGAAAGAAGGAGCGAACCCGTTTGAAGAAAAT-TTCC
65 CTAAAGAAAGAAGGAGCGAACCCGTTT--A-AAGATGTT-C
* * *
37205 AAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTCTATA
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TT---GAAGA-TATTCGAGTTCTATA
* * * * *
37270 CTTCCTGAAGAGAG-AGCGAAGCGAACCCG-TAAGAAGAAGATTC
61 CTCCCTAAAGAAAGAAG-G-AGCGAACCCGTTTA-AAGATG-TTC
* * * * * *
37313 TTGAGTTCTATACTTCCTGAAGAAAGAGGAAGCGAACCCGTTTGAAGAGATGTCTAAGTTCCATA
1 --GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTGAAGATAT-TC-GAGTTCTATA
* * * * * *
37378 CTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
61 CTCCCTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
* * * *
37419 GAGTTGTATACTCCTTAAAGAAAGAGGGAGCAAACCCGTGTGAAGATATGCGAGTTCTATACTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGT-TGAAGATATTCGAGTTCTATACTCC
*
37484 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATG-TC
65 CTAAAGAAAGAAGGAGCGAACCCGTTT-AA-AGATGTTC
* * *
37522 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTC
1 -GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGT-TGAAGATATTCGAGTTCTATACTC
*
37587 CTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
64 CCTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
* * * * *
37625 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCAGTTGAAGATGTTCGAGTTCCATACTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC-GTTGAAGATATTCGAGTTCTATACTCC
* * *
37690 CTAGAGAAAGAGGGAGCGAACCCG-TGAAGAGATGTTC
65 CTAAAGAAAGAAGGAGCGAACCCGTTTAA-AGATGTTC
37727 GAGTTCTATACTCCCTAAAGAAAGAGGGAGC-AAGCCCGTTTTCAGAAGATCATTCGAGTTCTAT
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAA-CCCG--TT--GAAGAT-ATTCGAGTTCTAT
* * * *
37791 ACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTC
60 ACTCCCT-AAAGAAAGAAGGAGCGAACCCGTTT---AAAGA-TGTTC
* * * ** *
37838 GAG-TCTCATACTCTCTGAAAG-AATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAG-TCTC
1 GAGTTCT-ATACTCCCT-AAAGAAAGAGGGAG-CGA-AC--CCGTTGAAGA-TATTCGAGTTCT-
* * * * * * *
37900 ATACTCTCTGAAGGAATAGGGAGC-ATACACGTTTTCAAAAGATTTTC
58 ATACTCCCTAAAGAAAGAAGGAGCGA-ACCCG-TTT--AAAGATGTTC
* * *
37947 GAGTTCTATACTCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGATTGTTCGAG-TCTCAT
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC----GTTGAAGA-TATTCGAGTTCT-AT
* * * * * *
38011 ACTCTCTGAAG-GAGTAGGGAGC-ATACACGTTTTCAAAAGATTTTC
60 ACTCCCTAAAGAAAG-AAGGAGCGA-ACCCG-TTT--AAAGATGTTC
* * * * *
38056 GAGTTCTATGCTCCCTGAAGAAAGTGGGAGCGAACCCGTTTGCAGAAGATTTTCAAGTTCTATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TT---GAAGATATTCGAGTTCTATAC
* *
38121 TCCCTGAAGAAAGAGGGAGCGAACCCGT
62 TCCCTAAAGAAAGAAGGAGCGAACCCGT
38149 AGACAAAAGA
Statistics
Matches: 777, Mismatches: 108, Indels: 116
0.78 0.11 0.12
Matches are distributed among these distances:
101 6 0.01
102 156 0.20
103 12 0.02
104 131 0.17
105 40 0.05
106 24 0.03
107 49 0.06
108 63 0.08
109 157 0.20
110 82 0.11
111 46 0.06
112 5 0.01
113 4 0.01
114 1 0.00
115 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (101 bp):
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGAAGATATTCGAGTTCTATACTCCC
TAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
Found at i:37894 original size:55 final size:55
Alignment explanation
Indices: 37828--38031 Score: 206
Period size: 55 Copynumber: 3.7 Consensus size: 55
37818 CCGTTTCCAA
* *
37828 AAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACGATTGTTG
1 AAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGAAGACACGATTGTTG
* * * *
37883 AAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACACG-TT-TTCAA
1 AAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGAAGACACGATTGTT--G
* * *
37938 AAGATT-TTCGAGT-TCTATACTCCCT-AGAGAA-AGAGG-GAACGAACCCGATTGTTG
1 AAGATTGTTCGAGTCTC-ATACTCTCTGAAAGAATAG-GGAGAA-G-ACACGATTGTTG
* *
37992 AAGATTGTTCGAGTCTCATACTCTCTGAAGGAGTAGGGAG
1 AAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAG
38032 CATACACGTT
Statistics
Matches: 120, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
52 4 0.03
53 10 0.08
54 27 0.22
55 67 0.56
56 9 0.08
57 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (55 bp):
AAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGAAGACACGATTGTTG
Found at i:38051 original size:55 final size:52
Alignment explanation
Indices: 37719--38193 Score: 279
Period size: 54 Copynumber: 8.7 Consensus size: 52
37709 ACCCGTGAAG
* * * *
37719 AGATGTTCGAGTTCTATACTCCCTAAAGAAAG-AGGGAGCAAGCCCGTTTTCAGA
1 AGATTTTCGAGTTC-ATACTCCCTGAAG-GAGTAGGGAGCAA-CCCGTTTTCAAA
* * * *
37773 AGATCATTCGAGTTCTATACTTCCTGAAAGAAAG-AGGGAGCAAACCCGTTTCCAAA
1 AGAT-TTTCGAGTTC-ATACTCCCTG-AAG-GAGTAGGGAGC-AACCCGTTTTCAAA
* * * * * *
37829 AGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACGATTGTT--GA
1 AGATT-TTCGAGT-TCATACTCCCTGAAGGAGTAGGGAGCA-ACCCG-TT-TTCAAA
* * *
37884 AGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACACGTTTTCAAA
1 AGATT-TTCGAGT-TCATACTCCCTGAAGGAGTAGGGAGCA-ACCCGTTTTCAAA
* * *
37939 AGATTTTCGAGTTCTATACTCCCT-AGAGAAAG-AGGGAACGAACCCGATTGTT--GA
1 AGATTTTCGAGTTC-ATACTCCCTGA-AG-GAGTAGGGAGC-AACCCG-TT-TTCAAA
* *
37993 AGATTGTTCGAGTCTCATACTCTCTGAAGGAGTAGGGAGCATACACGTTTTCAAA
1 AGATT-TTCGAGT-TCATACTCCCTGAAGGAGTAGGGAGCA-ACCCGTTTTCAAA
* * * *
38048 AGATTTTCGAGTTCTATGCTCCCTGAAGAAAGT-GGGAGCGAACCCGTTTGCAGA
1 AGATTTTCGAGTTC-ATACTCCCTGAAG-GAGTAGGGAGC-AACCCGTTTTCAAA
* * ***
38102 AGATTTTCAAGTTCTATACTCCCTGAAGAAAG-AGGGAGCGAACCCGTAGACAAA
1 AGATTTTCGAGTTC-ATACTCCCTGAAG-GAGTAGGGAGC-AACCCGTTTTCAAA
* *
38156 AGATTGTACGAGTTTC-TACTCCCTGAAGGAATAGGGAG
1 AGATT-TTCGAG-TTCATACTCCCTGAAGGAGTAGGGAG
38194 TGAACATGTT
Statistics
Matches: 343, Mismatches: 47, Indels: 62
0.76 0.10 0.14
Matches are distributed among these distances:
53 10 0.03
54 150 0.44
55 125 0.36
56 53 0.15
57 5 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (52 bp):
AGATTTTCGAGTTCATACTCCCTGAAGGAGTAGGGAGCAACCCGTTTTCAAA
Found at i:38159 original size:54 final size:52
Alignment explanation
Indices: 37090--38198 Score: 714
Period size: 51 Copynumber: 20.8 Consensus size: 52
37080 GAAGCAAATG
* * *
37090 AAGATTATTTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCAAACCCGTATG--
1 AAGATT-TTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGT-TGAA
* * * * *
37142 AAGATATCCGAGTTCCATACT-CCTTAATGAAAGAAGGAGCGAACCCGTTTGAA
1 AAGATTTTCGAGTTCTATACTCCCTGAA-GAAAGAGGGAGCGAACCCG-TTGAA
* * * * *
37195 GAAAATTTCCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGCAG
1 -AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG-TTG-AA
* * * *
37250 AAGATTATTCGAGTTCTATACTTCCTGAAGAGAGAGCGAAGCGAACCCGTAAGAA
1 AAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAG-GGAGCGAACCCGT-TGAA
* *
37305 GAAGATTCTT-GAGTTCTATACTTCCTGAAGAAAGAGGAAGCGAACCCGTTTGAA
1 -AAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG-TTGAA
* * * *
37359 GAGA-TGTCTAAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGTG--
1 AAGATTTTC-GAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGT-TGAA
* * * * * *
37410 AAGATATGCGAGTTGTATACTCCTTAAAGAAAGAGGGAGCAAACCCGTGTG--
1 AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGT-TGAA
* * * * *
37461 AAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAA
1 AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG-TTGAA
* * *
37514 GAGA-TGTCTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGTG--
1 AAGATTTTC-GAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGT-TGAA
* * * * * *
37565 AAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT-TA
1 AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTGAA
* * * * *
37616 AAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCAGTTG--
1 AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCC-GTTGAA
* *
37667 AAGATGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCG-TGAA
1 AAGATTTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTGAA
* * * * *
37718 GAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGC-AAGCCCGTTTTCAG
1 AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAA-CCCG--TTGAA
* * * *
37772 AAGATCATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAA
1 AAGAT-TTTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCG-TT-GAA
* * * * **
37828 AAGATTATTCGAG-TCTCATACTCTCTGAA-AGAATAGGGAG-TAGACACGATTGTTG
1 AAGATT-TTCGAGTTCT-ATACTCCCTGAAGA-AAGAGGGAGCGA-ACCCG-TTG-AA
* * * * *
37883 AAGATTGTTCGAG-TCTCATACTCTCTGAAGGAATAGGGAGC-ATACACGTTTTCAA
1 AAGATT-TTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCG--TTGAA
* **
37938 AAGATTTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAACGAACCCGATTGTTG
1 AAGATTTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCG-TTG-AA
* * * *
37992 AAGATTGTTCGAG-TCTCATACTCTCTGAAG-GAGTAGGGAGC-ATACACGTTTTCAA
1 AAGATT-TTCGAGTTCT-ATACTCCCTGAAGAAAG-AGGGAGCGA-ACCCG--TTGAA
* * *
38047 AAGATTTTCGAGTTCTATGCTCCCTGAAGAAAGTGGGAGCGAACCCGTTTGCAG
1 AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG-TTG-AA
* *
38101 AAGATTTTCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTAGACAA
1 AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTG--AA
* * * * *
38155 AAGATTGTACGAGTT-TCTACTCCCTGAAGGAATAGGGAGTGAAC
1 AAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAAC
38199 ATGTTATCCG
Statistics
Matches: 867, Mismatches: 123, Indels: 132
0.77 0.11 0.12
Matches are distributed among these distances:
49 2 0.00
50 9 0.01
51 280 0.32
52 21 0.02
53 83 0.10
54 211 0.24
55 196 0.23
56 63 0.07
57 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (52 bp):
AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTGAA
Found at i:46383 original size:11 final size:11
Alignment explanation
Indices: 46367--46391 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46357 AACTTAAAAT
46367 TTCAGGTTGAA
1 TTCAGGTTGAA
46378 TTCAGGTTGAA
1 TTCAGGTTGAA
46389 TTC
1 TTC
46392 CCTTCTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (11 bp):
TTCAGGTTGAA
Found at i:56694 original size:16 final size:16
Alignment explanation
Indices: 56673--56704 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56663 ACTATTTACA
56673 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
56689 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
56705 ATCGGCGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:62656 original size:22 final size:22
Alignment explanation
Indices: 62631--62672 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62621 TTTTGGGATT
* *
62631 TAAAATTAAATTGTAATTTTTA
1 TAAAATTAAAATATAATTTTTA
62653 TAAAATTAAAATATAATTTT
1 TAAAATTAAAATATAATTTT
62673 ATGGGTCGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TAAAATTAAAATATAATTTTTA
Found at i:66860 original size:30 final size:31
Alignment explanation
Indices: 66798--66888 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
66788 GGTTAAATTT
* *
66798 TAACTTAACCCTTAAATTTTA-A-AAATAGTAC
1 TAACTTAATCCATAAATTTTAGATAAA-A-TAC
*
66829 TAACTTGA-CCATAAATTTTAGATAAAATAC
1 TAACTTAATCCATAAATTTTAGATAAAATAC
* * *
66859 TAATTTAATCCATGAACTTTAGATAAAATA
1 TAACTTAATCCATAAATTTTAGATAAAATA
66889 TCAATCTGGC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
30 20 0.39
31 28 0.55
32 3 0.06
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.35
Consensus pattern (31 bp):
TAACTTAATCCATAAATTTTAGATAAAATAC
Found at i:72255 original size:48 final size:48
Alignment explanation
Indices: 72138--72261 Score: 117
Period size: 50 Copynumber: 2.5 Consensus size: 48
72128 AGCAATTAAC
* * * **
72138 ACATATTTATA-TCGGTGTAAGTCTTTATATCTTCTGACCTAAAAATAA
1 ACATATTTATACT-GGTGTAAGTATGTATATCTCCCAACCTAAAAATAA
* * *
72186 ACATATACTTACACCGGTGTAAGTATGTATATCTCCCAACCTAAATAA-AT
1 ACATAT--TTATACTGGTGTAAGTATGTATATCTCCCAACCTAAA-AATAA
*
72236 ACATATTTATACTGGTGTAAATATGT
1 ACATATTTATACTGGTGTAAGTATGT
72262 TTTAATATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
48 23 0.38
50 36 0.59
51 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (48 bp):
ACATATTTATACTGGTGTAAGTATGTATATCTCCCAACCTAAAAATAA
Found at i:76902 original size:18 final size:18
Alignment explanation
Indices: 76879--76916 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
76869 CTCTGATGCT
76879 TTGTAACTTAAAGGCATC
1 TTGTAACTTAAAGGCATC
76897 TTGTAACTTAAAGGCATC
1 TTGTAACTTAAAGGCATC
76915 TT
1 TT
76917 AGGTACTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (18 bp):
TTGTAACTTAAAGGCATC
Found at i:79279 original size:23 final size:22
Alignment explanation
Indices: 79253--79316 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
79243 CAGCTCATAT
79253 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
79276 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
79299 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
79317 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:79465 original size:21 final size:21
Alignment explanation
Indices: 79415--79467 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
79405 ACATGTTCCA
79415 AAGAAT-ACATATATGTCCTG
1 AAGAATCACATATATGTCCTG
* * *
79435 AAGGACCACATATCAT-TCCTT
1 AAGAATCACATAT-ATGTCCTG
79456 AAGAATCACATA
1 AAGAATCACATA
79468 CATATGCTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 4 0.15
21 20 0.77
22 2 0.08
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (21 bp):
AAGAATCACATATATGTCCTG
Found at i:79503 original size:103 final size:103
Alignment explanation
Indices: 79324--79549 Score: 364
Period size: 103 Copynumber: 2.2 Consensus size: 103
79314 CCATATAATA
* *
79324 ATGTCCAT-AAGGACCACATATCATTCCTTAAGAATCATAAACATATACTAGGGATCAAGTATGT
1 ATGTCC-TGAAGGACCACATATCATTCCTTAAGAATCACAAACATATACTAAGGATCAAGTATGT
* *
79388 GTCTCATCAGACTTCACACATGTTCCAAAGAATACATAT
65 GTCTCACCAGACTTCACACATGTTCCAAAAAATACATAT
* *
79427 ATGTCCTGAAGGACCACATATCATTCCTTAAGAATCACATACATATGCTAAGGATCAAGTATGTG
1 ATGTCCTGAAGGACCACATATCATTCCTTAAGAATCACAAACATATACTAAGGATCAAGTATGTG
79492 TCTCACCAGACTTCACACATGTTCCAAAAAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAAAATACATAT
* *
79530 ATATCCCGAAGGACCACATA
1 ATGTCCTGAAGGACCACATA
79550 GACCCTCTAC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 1 0.01
103 113 0.99
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
ATGTCCTGAAGGACCACATATCATTCCTTAAGAATCACAAACATATACTAAGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAAAATACATAT
Found at i:80045 original size:20 final size:20
Alignment explanation
Indices: 80020--80057 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
80010 TCTTTTTTTA
80020 TGGGGGAATCGATTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
80040 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
80058 TCTAGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:83597 original size:21 final size:21
Alignment explanation
Indices: 83558--83597 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
83548 CTTTCCTAAC
* *
83558 AACTCTTGTAATTGATTCTTT
1 AACTCTTGCAATTCATTCTTT
*
83579 AACTCTTGCAATTCTTTCT
1 AACTCTTGCAATTCATTCT
83598 GAGCCATCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (21 bp):
AACTCTTGCAATTCATTCTTT
Found at i:86195 original size:23 final size:23
Alignment explanation
Indices: 86164--86224 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
86154 CACCACAACT
* *
86164 CATATAATTGCACCTAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* * *
86187 CGTAGAATTGCACCGGAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
*
86210 CATAGAATTACACCG
1 CATAGAATTGCACCG
86225 TAGTACCATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:86427 original size:103 final size:103
Alignment explanation
Indices: 86248--86465 Score: 384
Period size: 103 Copynumber: 2.1 Consensus size: 103
86238 TAATGTCCAT
*
86248 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGCGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACAAGCGATCAAGTATGTGTCTCACCA
86313 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
86351 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAG-GATCAAGTATGTGTCTCACC
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-ACAAGCGATCAAGTATGTGTCTCACC
* *
86415 AGACTTCACACATGTTCCAAAGAATATATATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATATCCCG
86454 AAGGACCACATA
1 AAGGACCACATA
86466 GACCCTCTAC
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
103 107 0.97
104 3 0.03
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACAAGCGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:86975 original size:19 final size:20
Alignment explanation
Indices: 86938--86975 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
86928 TCTTTTTTTA
*
86938 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
86958 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
86976 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:89392 original size:17 final size:19
Alignment explanation
Indices: 89370--89412 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
89360 AAAACATTGA
*
89370 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
89387 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
89406 ATGCACT
1 ATGCACT
89413 AAGGATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:92823 original size:129 final size:129
Alignment explanation
Indices: 92593--92850 Score: 507
Period size: 129 Copynumber: 2.0 Consensus size: 129
92583 AAAATCCATC
*
92593 ACGTTTTCAAAAATAATCCAAAATGAAAAAGGTTACTCTATAACTAGTGTTAGGAGTGATCATGG
1 ACGTTTTCAAAAATAATCCAAAACGAAAAAGGTTACTCTATAACTAGTGTTAGGAGTGATCATGG
92658 AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
66 AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
92722 ACGTTTTCAAAAATAATCCAAAACGAAAAAGGTTACTCTATAACTAGTGTTAGGAGTGATCATGG
1 ACGTTTTCAAAAATAATCCAAAACGAAAAAGGTTACTCTATAACTAGTGTTAGGAGTGATCATGG
92787 AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
66 AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
92851 TCAGCACCTA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 128 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (129 bp):
ACGTTTTCAAAAATAATCCAAAACGAAAAAGGTTACTCTATAACTAGTGTTAGGAGTGATCATGG
AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
Found at i:96880 original size:21 final size:21
Alignment explanation
Indices: 96838--96881 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
96828 AACCCGGGAG
*
96838 CTAGCTCTCCACGAGCTGCTC
1 CTAGCTCTCCACGAGCTCCTC
* * *
96859 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTCCACGAGCTCCTC
96880 CT
1 CT
96882 CCTCCGGCAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCTCCACGAGCTCCTC
Found at i:99802 original size:19 final size:19
Alignment explanation
Indices: 99775--99814 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
99765 AATATTTTCA
99775 ATTTAATTCAAATTA-ATAT
1 ATTTAATTC-AATTATATAT
*
99794 ATTTGATTCAATTATATAT
1 ATTTAATTCAATTATATAT
99813 AT
1 AT
99815 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTTAATTCAATTATATAT
Found at i:99811 original size:2 final size:2
Alignment explanation
Indices: 99806--99840 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
99796 TTGATTCAAT
99806 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99841 GAATATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.