Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1583
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: 34331
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:1232 original size:84 final size:84
Alignment explanation
Indices: 1078--2768 Score: 1039
Period size: 84 Copynumber: 20.1 Consensus size: 84
1068 AAATAGTAGA
* * * * * * *
1078 GACCTTGGAGACAGCCTTATCTCAAGTCTGCCTATCGATTTTGACCTTGGAGACTATCTTACCTT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
* * *
1143 TAGTCTGCTTGTCGACTTT
66 CAGTCTGCCTGTCGGCTTT
* * * * * *
1162 GACCCTAGAGACTGCCTTATCTCAAGTTTGCTTGTCGACTTTGACCCTAAAGACTTTCCTACGTT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
*
1227 CAGTCTGCTTGTCGGCTTT
66 CAGTCTGCCTGTCGGCTTT
* * * *
1246 GACCCTAGAGACTGCCATATCTCAAGTTTGCCTATCGACTTTGACCCTAGAGACTTTCCTGCCTT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
* * *
1311 TAG-CTTGCTTGTCGGTTTT
66 CAGTC-TGCCTGTCGGCTTT
* * * * *
1330 GACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTTCTACCTT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
**
1395 CAGTCTGCCTGTCAACTTT
66 CAGTCTGCCTGTCGGCTTT
* * * * * * * *
1414 GACCTTAGAGACTACCTTATTTCAAGTTTGCCTGT-TAGCTTTGACTCTAGAAACTGTCCTACCT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGA-CTTTGACCCTAGAGACTTTCCTACCT
* * *
1478 TTAGTCTACCTGTTGGCTTT
65 TCAGTCTGCCTGTCGGCTTT
* * * ** * *
1498 GACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGTTTTGACCCT-GAAGACTTTTCGACCT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAG-AGACTTTCCTACCT
* *
1562 TCAGTTTACCTGTCGGCTTT
65 TCAGTCTGCCTGTCGGCTTT
* * * * * * *
1582 GACCTTGGAGACTGCCTCATCTCAAGTCTACCTGTCG-GTTTCAACCCTAGAGACTTTCTTACCT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTT-GACCCTAGAGACTTTCCTACCT
* ** *
1646 TCAGTCTGACTACCGGCTTC
65 TCAGTCTGCCTGTCGGCTTT
* * * * * * * * * * * * *
1666 GACCGTAGAGATTGTCTCACCTTAAGTCTACTTGTCGACTTTGACCTTGGAGACTTTCTTACCCT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
* * *
1731 CAGTCTGCCTATAGGCTAT
66 CAGTCTGCCTGTCGGCTTT
* * * * * * * *
1750 GACCTTGGAGACTGTCTCATCTCAAGTTTGCCTATCAACTTTGACCTTGGAGACTACTT-C-ATC
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACT--TTCCTACC
* *
1813 TTAAGTCTGCCTGTCGGTTTT
64 TTCAGTCTGCCTGTCGGCTTT
* ** * * * * * * * * *
1834 GACGC-TGGAGACTTTCTAACCTTC-AGTCTGCTTGTCAACTTTGA-CTTAAAGAC-TACCT-CA
1 GAC-CTTAGAGACTGCCTTATC-TCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACC
* * *
1894 TCTCAAGTCTACCTGTCGACATT
64 T-TC-AGTCTGCCTGTCGGCTTT
* ** * ** * * * *
1917 GACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGACTTTGACCCTAGAGAC-TGCCTTATC-
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCC-TACCT
* *
1980 TCAAGTTTGTCTGTCGGCTTT
65 TC-AGTCTGCCTGTCGGCTTT
* * * * * * *
2001 GACCCTAGAGACTTTCC-TAGCTTC-ATTCTGCCTATC-AGCTTTTACCCTAAAGAC-TACCTTA
1 GACCTTAGAGAC-TGCCTTATC-TCAAGTCTGCCTATCGA-CTTTGACCCTAGAGACTTTCC-TA
* * * * *
2062 TCTTAAGTTTGTCTGTTGGCTTT
62 CCTTCAGTCTGCCTGTCGGCTTT
* * * * * * *
2085 GACCCTAGAGACTACCTTATCTCTAGTTTGCCTGTCGGCTTTAACCCTAGAGACTTTCCTACCTT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
*
2150 CAGTCTACCTGTCGGCTTT
66 CAGTCTGCCTGTCGGCTTT
* * * * * * ** * * **
2169 AACCCTAGAGACTACCTCATCTCAAGTCTACCTATC-AGTTTTGACATTAAAGACGTTCCTATGT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGA-CTTTGACCCTAGAGACTTTCCTACCT
* * *
2233 TTAGTCTACCTGTCGACTTT
65 TCAGTCTGCCTGTCGGCTTT
* * * * * * * * * *
2253 AACCTTTGAAACTACCTCACCTCAAGTCTGCCTATCGATTTTGACCTTAGAGACTTTTCTACATT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
*
2318 CAGTCTGCCTGTCGACTTT
66 CAGTCTGCCTGTCGGCTTT
* * * * * * *
2337 GACCTTAGAGACTGCTTTACCTTAAGTTTGCCTATTGACTTTGACCCTAGAGACTTTTCTACATT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
2402 CAGTCTGCCTGTCGGCTTT
66 CAGTCTGCCTGTCGGCTTT
* * * * * * * * * *
2421 GACCCTGGAGACTACCTCACCTCAAGTCTGCCTATCGGCCTTGATCCTAGAGACTTTCTTACATT
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
* *
2486 CAGTCTACCTATCGGCTTT
66 CAGTCTGCCTGTCGGCTTT
* * * * ** * * * * * * * * *
2505 GACCCTAGAGATTACCCTCCCTTCAAGTCTGCTTGTCGGCTTTAAGCTTGGAGACTTTCTTACAT
1 GACCTTAGAGACTGCCTTATC-TCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCT
* * *
2570 TCAGTCTGCCTATTGACTTT
65 TCAGTCTGCCTGTCGGCTTT
* * * * * * * * * * *
2590 GACCCTAAAGACTACCTCT-CCTTAAGTTTGCGTATCGGCTTTGACCCTAGAGTCTTTCTTACCC
1 GACCTTAGAGACTGCCT-TATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCT
* **
2654 TCAGTTTGCCTGTCGATTTT
65 TCAGTCTGCCTGTCGGCTTT
* * * * * * * *
2674 GACCTTGGATACTACCTTACCTCAAGTCTGCCTATCGGCTTTGACCCTGGAGAC-TGCCT-CATC
1 GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCT-
* **
2737 TCAAGTCTGCTTGTCGATTTT
65 TC-AGTCTGCCTGTCGGCTTT
2758 GACCTTAGAGA
1 GACCTTAGAGA
2769 TTTTCCAACC
Statistics
Matches: 1289, Mismatches: 282, Indels: 72
0.78 0.17 0.04
Matches are distributed among these distances:
80 1 0.00
81 2 0.00
82 4 0.00
83 75 0.06
84 1117 0.87
85 87 0.07
86 3 0.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (84 bp):
GACCTTAGAGACTGCCTTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCTT
CAGTCTGCCTGTCGGCTTT
Found at i:2212 original size:126 final size:126
Alignment explanation
Indices: 1085--4071 Score: 928
Period size: 126 Copynumber: 23.7 Consensus size: 126
1075 AGAGACCTTG
* * * ** * * * * *
1085 GAGACAGCCTTATCTCAAGTCTGCCTATCGATTTTGACCTTGGAGACTATCTTACCTTTAGTCTG
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
* * * * * * * * *
1150 CTTGTCGACTTTGACCCTAGAGACTGCCTTATCTCAAGTTTGCTTGTCGACTTTGACCCTA
66 CCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
* * * * *
1211 AAGACTTTCC-TA-CGT-TCAGTCTGCTTGTCGGCTTTGACCCTAGAGAC-TGCCATATC-TCAA
1 GAGAC-TGCCTTATC-TCT-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC-TACCTTC-A
* * * * * ** * * *
1271 GTTTGCCTATCGACTTTGACCCTAGAGACTTTCCTGC--CTTTAG-CTTGCTTGTCGGTTTTGAC
61 GTCTGCCTGTCGGCTTTGACCTTAGAGAC-TACCT-CATCTCAAGTC-TGCCTATCGGCTTTGAC
*
1333 CTTA
123 CCTA
* * * *
1337 GAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTTCTACCTTCAGTCTG
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
** * * * * ** *
1402 CCTGTCAACTTTGACCTTAGAGACTACCTTATTTCAAGTTTGCCTGTTAGCTTTGACTCTA
66 CCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
* * * * * * * *
1463 GAAACTGTCC-TACCTTTAGTCTACCTGTTGGCTTTGACCTTAGAGAC-TGCCT-CATCTCAAGT
1 GAGACTG-CCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCT-TC-AGT
* * * ** * * * * *
1525 CTGCTTGTCGGTTTTGACCCT-GAAGACT-TTTCGACCTTC-AGTTTACCTGTCGGCTTTGACCT
63 CTGCCTGTCGGCTTTGACCTTAG-AGACTACCTC-ATC-TCAAGTCTGCCTATCGGCTTTGACCC
*
1587 TG
125 TA
* * * * *
1589 GAGACTGCCTCATCTCAAGTCTACCTGTCGG-TTTCAACCCTAGAGACTTTCTTACCTTCAGTCT
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTT-GACCCTAGAGACTTTCCTACCTTCAGTCT
* ** * * * ** * * * * * * * *
1653 GACTACCGGCTTCGACCGTAGAGATTGTCTCACCTTAAGTCTACTTGTCGACTTTGACCTTG
65 GCCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
** * * * * * * * *
1715 GAGACTTTCTTA-CCCTCAGTCTGCCTATAGGCTATGACCTTGGAGACTGT-CT-CATCTCAAGT
1 GAGACTGCCTTATCTCT-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCT-TC-AGT
* * ** * * * * * * *
1777 TTGCCTATCAACTTTGACCTTGGAGACTACTTCATCTTAAGTCTGCCTGTCGGTTTTGACGCTG
63 CTGCCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
** * * * ** * * * *
1841 GAGACTTTCTAACCT-TCAGTCTGCTTGTCAACTTTGA-CTTAAAGAC-TACCT-CATCTCAAGT
1 GAGACTGCCTTATCTCT-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCT-TC-AGT
* * * * ** * * ** * * *
1902 CTACCTGTCGACATTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGACTTTGACCCTA
63 CTGCCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
* * * * *
1966 GAGACTGCCTTATCTCAAGTTTGTCTGTCGGCTTTGACCCTAGAGACTTTCCTAGCTTCATTCTG
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
* * * * * * * * * * *
2031 CCTATCAGCTTTTACCCTAAAGACTACCTTATCTTAAGTTTGTCTGTTGGCTTTGACCCTA
66 CCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
* * * *
2092 GAGACTACCTTATCTCTAGTTTGCCTGTCGGCTTTAACCCTAGAGACTTTCCTACCTTCAGTCTA
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
* * * * * **
2157 CCTGTCGGCTTTAACCCTAGAGACTACCTCATCTCAAGTCTACCTATCAGTTTTGACATTA
66 CCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
* * * * * * * * * * *
2218 AAGACGTTCC-TATGTTTAGTCTACCTGTCGACTTTAACCTTTGAAAC-TACCTCACC-TCAAGT
1 GAGAC-TGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCT-ACCTTC-AGT
* ** ** * * *
2280 CTGCCTATCGATTTTGACCTTAGAGACTTTTCTACAT-TC-AGTCTGCCTGTCGACTTTGACCTT
63 CTGCCTGTCGGCTTTGACCTTAGAGAC-TACCT-CATCTCAAGTCTGCCTATCGGCTTTGACCCT
2343 A
126 A
* * * * * * * *
2344 GAGACTGCTTTACCT-TAAGTTTGCCTATTGACTTTGACCCTAGAGACTTTTCTACATTCAGTCT
1 GAGACTGCCTTATCTCT-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCT
* * * * *
2408 GCCTGTCGGCTTTGACCCTGGAGACTACCTCACCTCAAGTCTGCCTATCGGCCTTGATCCTA
65 GCCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
** * * * *
2470 GAGACTTTCTTA-CAT-TCAGTCTACCTATCGGCTTTGACCCTAGAGA-TTACCCTCCCTTCAAG
1 GAGACTGCCTTATC-TCT-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-TCCTACCTTC-AG
* * * * * * * *
2532 TCTGCTTGTCGGCTTTAAGCTTGGAGACTTTCTTACAT-TC-AGTCTGCCTATTGACTTTGACCC
62 TCTGCCTGTCGGCTTTGACCTTAGAGAC-TACCT-CATCTCAAGTCTGCCTATCGGCTTTGACCC
2595 TA
125 TA
* * * * * * * * * *
2597 AAGACTACC-TCTC-CTTAAGTTTGCGTATCGGCTTTGACCCTAGAGTCTTTCTTACCCTCAGTT
1 GAGACTGCCTTATCTC-T-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTC
** * * * * *
2660 TGCCTGTCGATTTTGACCTTGGATACTACCTTACCTCAAGTCTGCCTATCGGCTTTGACCCTG
64 TGCCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
* * * ** * * * *
2723 GAGACTGCCTCATCTCAAGTCTGCTTGTCGATTTTGACCTTAGAGATTTTCCAACCTTTAGTCTG
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
* * * * *
2788 -CTCGTCGGCTTTGACCTTAAAGA-TCCCCTTATCTCAAGTCTGCCTGTCGGCTTTCACCCTA
66 CCT-GTCGGCTTTGACCTTAGAGACT-ACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
* * * * * * * * *
2849 GAGACTTTCC-TATGTTTAGTCTGCTTGTCGGCATTAACCGTAGAGACTGCTT--TATC-TCAAA
1 GAGAC-TGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACT--TTCCTACCTTC-AG
* * * * * ** * * * *
2910 TCTGCCTCTCAGCTTTG-GCTCTAGAGACTTCCT-ACCTTTAGTCTACCTGTCTGCTTTGACTCT
62 TCTGCCTGTCGGCTTTGACCT-TAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCT
2973 A
126 A
* ** * * ** * ** *
2974 GTGACTGCCACATCTCAAGTCTGGCTGTCAACTTTGA-CCTTGTAGACTTTTGTACCTTCAATCT
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTTTCCTACCTTCAGTCT
* * * * * * * *
3038 GCCTGTCGGCTTTGACCTTGGAGACTGCCTAATCTCAAGTTCTACTTGTCGGCTTCGA-CCTT
65 GCCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAG-TCTGCCTATCGGCTTTGACCCTA
* * * * * *
3100 GAAGACTTTCC-TA-CGT-TCAGTCTGTCTGTCGGC-TTGACCTTGGAGAC-TGCCT-CATCTCA
1 G-AGAC-TGCCTTATC-TCT-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCT-TC-
* * * * * ** * * * *
3159 AGTCTACTTGTCAGCTTTGA-CTTTGAAGACTTTCCT-A-CGTTTAGTTTGTCTGTCGACTTTGA
60 AGTCTGCCTGTCGGCTTTGACCTTAG-AGAC-TACCTCATC-TCAAGTCTGCCTATCGGCTTTGA
* *
3221 CCTTG
122 CCCTA
* * * * * * * * *
3226 GAGACTGCCTCATCTCAAGTTTGCTTGTCAGCTTTGACCTTAGAGATTTTCCTACTTTTAGTCTG
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
* * * * * * * * * *
3291 TCTATCAGCTTTGACCTT-GAAAACTGCATTATCTCAAGTCTACCTATCGACTTTGA-CCTT
66 CCTGTCGGCTTTGACCTTAG-AGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
* * * * ** * * * * *
3351 GAAGACT--TTTCTACGTTCT-GTCTACCTATTAGCTTTGACCTTGGAGAC-TGCCTCACTTTAA
1 G-AGACTGCCTTAT-C--TCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCT-ACCTTCA
* * * ** * * * * ** *
3412 GTCTGCCTGTCAGCTTTAACCTT-GAAAACTTTCTTACCTTC-AGTTTGCCTCTCAACCTTGACC
61 GTCTGCCTGTCGGCTTTGACCTTAG-AGACTACCTCATC-TCAAGTCTGCCTATCGGCTTTGACC
3475 CTA
124 CTA
* * * * * * *
3478 GAGACTGCCTCACCTCAAGTCTGCTTGTCGACTTTGACCCTTGAGACTTTCTTACCTTCAGTCTG
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
* * * * * * **
3543 CCTGTCGACTTTGAACCTTTGACCTTGGAGACTTCCTTACCTCTAGTGTGCCTATCAACTTTGAC
66 CCTGTCG-----G---CTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGAC
* *
3608 CTTG
123 CCTA
* * *** * * * * * ** *
3612 GAGACTGCCTCACCAAAAGT-TGTCTGTCAGCTTTGACCTTGGAGGCTTTTTTACCTTCAGTATG
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
* ** * * ** * * **
3676 CTTGTCGGCTTTGA-CTCTAGAGACTTTCTTACCTTTAGTTTGCCTATTGGCTTTGACCCCG
66 CCTGTCGGCTTTGACCT-TAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
* * * * * * * * * * * * * *
3737 GAGAATACCTCACCTCAAGTATGCTTATCAGCTTTGATCTTATAGACTTTCTTACCTTCAGTATG
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
* * ** * * * * * * *
3802 CTTATCGGCTTTGACCTTAGAGACTGTCTAACCTTAAGTCTACCTGTCGGTTTTGA-CCTCG
66 CCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCT-A
*** * * * * * *
3863 GAGACTTTTTTA-CCCTCAGTTTGCCTGTTGGCTTTGACCTTGGAGAC-TACCTCACC-TCAAGT
1 GAGACTGCCTTATCTCT-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCT-ACCTTC-AGT
* * * *** * * * *
3925 TTGCCTGTCAGCTTTGACCCTAGAGACTTTTTTACTCTC-AGTCTGCTTGTCGACTTTGACCCTA
63 CTGCCTGTCGGCTTTGACCTTAGAGACTACCTCA-TCTCAAGTCTGCCTATCGGCTTTGACCCTA
* ** * * * * *
3989 GAGACTGCCTCATCTGAAGTCTACCTGTCGACTTTGACCTTGGAGACTTTCCTACCTTTAGTCTG
1 GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
* *
4054 CTTGTCGGCATTGACCTT
66 CCTGTCGGCTTTGACCTT
4072 GGGAACTACT
Statistics
Matches: 2121, Mismatches: 607, Indels: 266
0.71 0.20 0.09
Matches are distributed among these distances:
123 2 0.00
124 22 0.01
125 346 0.16
126 1410 0.66
127 213 0.10
128 23 0.01
129 2 0.00
131 1 0.00
133 43 0.02
134 58 0.03
135 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (126 bp):
GAGACTGCCTTATCTCTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCTTCAGTCTG
CCTGTCGGCTTTGACCTTAGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTA
Found at i:2786 original size:84 final size:84
Alignment explanation
Indices: 1788--4073 Score: 1018
Period size: 84 Copynumber: 27.1 Consensus size: 84
1778 TGCCTATCAA
* * * ** *
1788 CTTTGACCTTGGAGACTACTTCATCTTAAGTCTGCCTGTCGGTTTTGACGC-TGGAGACTTT-CT
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGAC-CTTAGAGACTTTCCT
* * **
1851 AACCTTCAGTCTGCTTGTCAA
65 -ACCTTTAGTCTGCCTGTCGG
** * * * * *
1872 CTTTGA-CTTAAAGACTACCTCATCTCAAGTCTACCTGTCGACATTGACCTTGGAGACTTTCTTA
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCCTA
* *
1936 CCTTTAGTCTGCTTGTCGA
66 CCTTTAGTCTGCCTGTCGG
* * * * * * *
1955 CTTTGACCCTAGAGACTGCCTTATCTCAAGTTTGTCTGTCGGCTTTGACCCTAGAGACTTTCCTA
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCCTA
* * * * *
2020 GCTTCATTCTGCCTATCAG
66 CCTTTAGTCTGCCTGTCGG
* * ** * * * * * * * * *
2039 CTTTTACCCTAAAGACTACCTTATCTTAAGTTTGTCTGTTGGCTTTGACCCTAGAGAC-TACCTT
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCC-T
* * *
2103 ATCTCTAGTTTGCCTGTCGG
65 ACCTTTAGTCTGCCTGTCGG
* * * * * * * * * *
2123 CTTTAACCCTAGAGACTTTCCT-ACCTTC-AGTCTACCTGTCGGCTTTAACCCTAGAGAC-TACC
1 CTTTGACCTTGGAGAC-TGCCTCATC-TCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCC
* ** * * *
2185 TCATCTCAAGTCTACCTATCAG
64 T-ACCTTTAGTCTGCCTGTCGG
* * ** * * ** * * * * *
2207 TTTTGACATTAAAGACGTTCCT-ATGTTTAGTCTACCTGTCGACTTTAACCTTTGAAAC-TACCT
1 CTTTGACCTTGGAGAC-TGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCCT
** * *
2270 CACCTCAAGTCTGCCTATCGA
65 -ACCTTTAGTCTGCCTGTCGG
* * **
2291 TTTTGACCTTAGAGACTTTTCTACAT-TC-AGTCTGCCTGTCGACTTTGACCTTAGAGACTGCTT
1 CTTTGACCTTGGAGAC-TGCCT-CATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACT--TT
* * * * *
2354 --TACCTTAAGTTTGCCTATTGA
62 CCTACCTTTAGTCTGCCTGTCGG
* * ** * * * *
2375 CTTTGACCCTAGAGACTTTTCTACAT-TC-AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TACC
1 CTTTGACCTTGGAGAC-TGCCT-CATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCC
** *
2437 TCACCTCAAGTCTGCCTATCGG
64 T-ACCTTTAGTCTGCCTGTCGG
* * * * * * * * *
2459 CCTTGATCC-TAGAGACTTTCTTACAT-TC-AGTCTACCTATCGGCTTTGACCCTAGAGA-TTAC
1 CTTTGA-CCTTGGAGAC-TGCCT-CATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTT-T
* * *
2520 CCTCCCTTCAAGTCTGCTTGTCGG
62 CCTACCTT-TAGTCTGCCTGTCGG
* * * * * * * * *
2544 CTTTAAGCTTGGAGACTTTCTTACAT-TC-AGTCTGCCTATTGACTTTGACCCTAAAGAC-TACC
1 CTTTGACCTTGGAGAC-TGCCT-CATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCC
* * * * *
2606 TCTCCTTAAGTTTGCGTATCGG
64 T-ACCTTTAGTCTGCCTGTCGG
* * * ** * * * * * * *
2628 CTTTGACCCTAGAGTCTTTCTTACCCTC-AGTTTGCCTGTCGATTTTGACCTTGGATAC-TACCT
1 CTTTGACCTTGGAGACTGCCTCA-TCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCC-
** *
2691 TACCTCAAGTCTGCCTATCGG
64 TACCTTTAGTCTGCCTGTCGG
* * * * *
2712 CTTTGACCCTGGAGACTGCCTCATCTCAAGTCTGCTTGTCGATTTTGACCTTAGAGATTTTCCAA
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCCTA
2777 CCTTTAGTCTG-CTCGTCGG
66 CCTTTAGTCTGCCT-GTCGG
** * * * * *
2796 CTTTGACCTTAAAGA-TCCCCTTATCTCAAGTCTGCCTGTCGGCTTTCACCCTAGAGACTTTCCT
1 CTTTGACCTTGGAGACT-GCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCCT
** *
2860 ATGTTTAGTCTGCTTGTCGG
65 ACCTTTAGTCTGCCTGTCGG
* * * * * * * * *
2880 CATTAACCGTAGAGACTGCTTTATCTCAAATCTGCCTCTC-AGCTTTG-GCTCTAGAGAC-TTCC
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGA-CTTTGACCT-TAGAGACTTTCC
* *
2942 TACCTTTAGTCTACCTGTCTG
64 TACCTTTAGTCTGCCTGTCGG
* * * * * **
2963 CTTTGA-CTCTAGTGACTGCCACATCTCAAGTCTGGCTGTCAACTTTGACCTT-GTAGACTTTTG
1 CTTTGACCT-TGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAG-AGACTTTCC
* *
3026 TACCTTCAATCTGCCTGTCGG
64 TACCTTTAGTCTGCCTGTCGG
* * * * *
3047 CTTTGACCTTGGAGACTGCCTAATCTCAAGTTCTACTTGTCGGCTTCGACCTT-GAAGACTTTCC
1 CTTTGACCTTGGAGACTGCCTCATCTCAAG-TCTGCCTGTCGACTTTGACCTTAG-AGACTTTCC
* * *
3111 TACGTTCAGTCTGTCTGTCGG
64 TACCTTTAGTCTGCCTGTCGG
* * *
3132 C-TTGACCTTGGAGACTGCCTCATCTCAAGTCTACTTGTC-AGCTTTGA-CTTTGAAGACTTTCC
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGA-CTTTGACCTTAG-AGACTTTCC
* * * *
3194 TACGTTTAGTTTGTCTGTCGA
64 TACCTTTAGTCTGCCTGTCGG
* * *
3215 CTTTGACCTTGGAGACTGCCTCATCTCAAGTTTGCTTGTC-AGCTTTGACCTTAGAGATTTTCCT
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGA-CTTTGACCTTAGAGACTTTCCT
* * * *
3279 ACTTTTAGTCTGTCTATCAG
65 ACCTTTAGTCTGCCTGTCGG
* * * * * * *
3299 CTTTGACCTTGAAAACTGCATTATCTCAAGTCTACCTATCGACTTTGACCTT-GAAGACTTTTCT
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAG-AGACTTTCCT
* * * **
3363 ACGTTCT-GTCTACCTATTAG
65 ACCTT-TAGTCTGCCTGTCGG
* * *
3383 CTTTGACCTTGGAGACTGCCTCA-CTTTAAGTCTGCCTGTC-AGCTTTAACCTT-GAAAACTTTC
1 CTTTGACCTTGGAGACTGCCTCATC-TCAAGTCTGCCTGTCGA-CTTTGACCTTAG-AGACTTTC
* * * * **
3445 TTACCTTCAGTTTGCCTCTCAA
63 CTACCTTTAGTCTGCCTGTCGG
* * * * * *
3467 CCTTGACCCTAGAGACTGCCTCACCTCAAGTCTGCTTGTCGACTTTGACCCTT-GAGACTTTCTT
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGA-CCTTAGAGACTTTCCT
*
3531 ACCTTCAGTCTGCCTGTCGACTTTG
65 ACCTTTAGTCTGCCTGTCG-----G
* * * * * * * * *
3556 AACCTTTGACCTTGGAGACTTCCTTACCTCTAGTGTGCCTATCAACTTTGACCTTGGAGAC-TGC
1 ---CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTC
*** * *
3620 CTCACCAAAAGT-TGTCTGTCAG
63 CT-ACCTTTAGTCTGCCTGTCGG
* *** * * * * * *
3642 CTTTGACCTTGGAGGCTTTTTTACCTTC-AGTATGCTTGTCGGCTTTGA-CTCTAGAGACTTTCT
1 CTTTGACCTTGGAGACTGCCTCATC-TCAAGTCTGCCTGTCGACTTTGACCT-TAGAGACTTTCC
* * *
3705 TACCTTTAGTTTGCCTATTGG
64 TACCTTTAGTCTGCCTGTCGG
** * * * * * * * * *
3726 CTTTGACCCCGGAGAATACCTCACCTCAAGTATGCTTATC-AGCTTTGATCTTATAGACTTTCTT
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGA-CTTTGACCTTAGAGACTTTCCT
* * * *
3790 ACCTTCAGTATGCTTATCGG
65 ACCTTTAGTCTGCCTGTCGG
* * * * * * ** ** **
3810 CTTTGACCTTAGAGACTGTCTAACCTTAAGTCTACCTGTCGGTTTTGACCTCGGAGACTTTTTTA
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCCTA
* * * *
3875 CCCTCAGTTTGCCTGTTGG
66 CCTTTAGTCTGCCTGTCGG
* * * * **
3894 CTTTGACCTTGGAGACTACCTCACCTCAAGTTTGCCTGTC-AGCTTTGACCCTAGAGACTTTTTT
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGA-CTTTGACCTTAGAGACTTTCCT
* * *
3958 A-CTCTCAGTCTGCTTGTCGA
65 ACCT-TTAGTCTGCCTGTCGG
* * * * *
3978 CTTTGACCCTAGAGACTGCCTCATCTGAAGTCTACCTGTCGACTTTGACCTTGGAGACTTTCCTA
1 CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCCTA
*
4043 CCTTTAGTCTGCTTGTCGG
66 CCTTTAGTCTGCCTGTCGG
*
4062 CATTGACCTTGG
1 CTTTGACCTTGG
4074 GAACTACTTG
Statistics
Matches: 1737, Mismatches: 389, Indels: 152
0.76 0.17 0.07
Matches are distributed among these distances:
81 1 0.00
82 9 0.01
83 242 0.14
84 1272 0.73
85 146 0.08
86 3 0.00
87 1 0.00
91 14 0.01
92 49 0.03
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.36
Consensus pattern (84 bp):
CTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTAGAGACTTTCCTA
CCTTTAGTCTGCCTGTCGG
Found at i:3427 original size:42 final size:42
Alignment explanation
Indices: 1101--4071 Score: 733
Period size: 42 Copynumber: 70.6 Consensus size: 42
1091 GCCTTATCTC
* ** * *
1101 AAGTCTGCCTATCGATTTTGACCTTGGAGACTAT-CTTACCTTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACT-TCCTCA-CTTT
* * * * * *
1144 -AGTCTGCTTGTCGACTTTGACCCTAGAGACTGCCTTA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * * * *
1185 AAGTTTGCTTGTCGACTTTGACCCTAAAGACTTTCCT-ACGTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TTCCTCACTTT
* * * * *
1227 CAGTCTGCTTGTCGGCTTTGACCCTAGAGACTGCCAT-A-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCC-TCACT-TT
* * * *
1269 AAGTTTGCCTATCGACTTTGACCCTAGAGACTTTCCTGC-CTTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TTCCT-CACTTT
* * * *
1312 -AG-CTTGCTTGTCGGTTTTGACCTTAGAGACTGCCTCA-TCTC
1 AAGTC-TGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * *
1353 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTT-TTCTACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTC-ACTTT
* ** * *
1395 CAGTCTGCCTGTCAACTTTGACCTTAGAGACTACCTTA-TTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* ** *
1436 CAAGTTTGCCTGTTAGCTTTGA-CTCTAGAAACTGTCCT-ACCTTT
1 -AAGTCTGCCTGTCGGCTTTGACCT-TAGAGACT-TCCTCA-CTTT
* * * *
1480 -AGTCTACCTGTTGGCTTTGACCTTAGAGACTGCCTCA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * * *
1521 AAGTCTGCTTGTCGGTTTTGACCCT-GAAGACTT-TTCGACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAG-AGACTTCCTC-ACTTT
* * * * * *
1563 CAGTTTACCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * * * *
1605 AAGTCTACCTGTCGG-TTTCAACCCTAGAGACTTTCTTACCTT
1 AAGTCTGCCTGTCGGCTTT-GACCTTAGAGACTTCCTCACTTT
* * ** * * * *
1647 CAGTCTGACTACCGGCTTCGACCGTAGAGA-TTGTCTCACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTT-CCTCACTTT
* * * * * * **
1689 AAGTCTACTTGTCGACTTTGACCTTGGAGACTTTCTTACCCT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * * *
1731 CAGTCTGCCTATAGGCTATGACCTTGGAGACTGT-CTCA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACT-TCCTCACT-TT
* * ** * * *
1773 AAGTTTGCCTATCAACTTTGACCTTGGAGACTACTTCA-TCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * * *
1815 AAGTCTGCCTGTCGGTTTTGACGC-TGGAGACTTTCTAACCTT
1 AAGTCTGCCTGTCGGCTTTGAC-CTTAGAGACTTCCTCACTTT
* * ** * * *
1857 CAGTCTGCTTGTCAACTTTGA-CTTAAAGACTACCTCA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * * * *
1898 AAGTCTACCTGTCGACATTGACCTTGGAGACTTTCTTACCTTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCA-CTTT
* * * * * *
1941 -AGTCTGCTTGTCGACTTTGACCCTAGAGACTGCCTTA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * *
1982 AAGTTTGTCTGTCGGCTTTGACCCTAGAGACTTTCCT-AGC-TT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TTCCTCA-CTTT
* * * * * * * * *
2024 CATTCTGCCTATCAGCTTTTACCCTAAAGACTACCTTA-TCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * * * * *
2066 AAGTTTGTCTGTTGGCTTTGACCCTAGAGACTACCTTATCTCT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCA-CTTT
* * * *
2109 -AGTTTGCCTGTCGGCTTTAACCCTAGAGACTTTCCT-ACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TTCCTCACTTT
* * * * * *
2150 CAGTCTACCTGTCGGCTTTAACCCTAGAGACTACCTCA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * * * *
2192 AAGTCTACCTATCAGTTTTGACATTAAAGACGTTCCT-A-TGTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TTCCTCACT-TT
* * * * * * * * *
2234 TAGTCTACCTGTCGACTTTAACCTTTGAAACTACCTCACCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* ** * *
2276 AAGTCTGCCTATCGATTTTGACCTTAGAGACTT-TTCTACATT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTC-ACTTT
* * * * * *
2318 CAGTCTGCCTGTCGACTTTGACCTTAGAGACTGCTTTACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * * * *
2360 AAGTTTGCCTATTGACTTTGACCCTAGAGACTT-TTCTACATT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTC-ACTTT
* * * * * *
2402 CAGTCTGCCTGTCGGCTTTGACCCTGGAGACTACCTCACCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * *
2444 AAGTCTGCCTATCGGCCTTGATCC-TAGAGACTTTCTTACATT
1 AAGTCTGCCTGTCGGCTTTGA-CCTTAGAGACTTCCTCACTTT
* * * * * *
2486 CAGTCTACCTATCGGCTTTGACCCTAGAGA-TTACCCTCCCTTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTT--CCTCACTTT
* * * * * * *
2529 AAGTCTGCTTGTCGGCTTTAAGCTTGGAGACTTTCTTACATT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * * * * * *
2571 CAGTCTGCCTATTGACTTTGACCCTAAAGACTACCTCTCCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * * * * **
2613 AAGTTTGCGTATCGGCTTTGACCCTAGAGTCTTTCTTACCCT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * ** * * * * * *
2655 CAGTTTGCCTGTCGATTTTGACCTTGGATACTACCTTACCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * *
2697 AAGTCTGCCTATCGGCTTTGACCCTGGAGACTGCCTCA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* ** * *
2739 AAGTCTGCTTGTCGATTTTGACCTTAGAGATTTTCC-AACCTTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGA-CTTCCTCA-CTTT
* * * *
2782 -AGTCTG-CTCGTCGGCTTTGACCTTAAAGA-TCCCCTTA-TCTC
1 AAGTCTGCCT-GTCGGCTTTGACCTTAGAGACT-TCCTCACT-TT
* *
2823 AAGTCTGCCTGTCGGCTTTCACCCTAGAGACTTTCCT-A-TGTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TTCCTCACT-TT
* * * * * * * * *
2865 TAGTCTGCTTGTCGGCATTAACCGTAGAGACTGCTTTA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * *
2907 AAATCTGCCTCTCAGCTTTG-GCTCTAGAGACTTCCT-ACCTTT
1 AAGTCTGCCTGTCGGCTTTGACCT-TAGAGACTTCCTCA-CTTT
* * * * * *
2949 -AGTCTACCTGTCTGCTTTGA-CTCTAGTGACTGCCACA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCT-TAGAGACTTCCTCACT-TT
* ** * * *
2990 AAGTCTGGCTGTCAACTTTGACCTT-GTAGACTT-TTGTACCTTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAG-AGACTTCCT-CA-CTTT
* * * *
3033 AA-TCTGCCTGTCGGCTTTGACCTTGGAGACTGCCT-AATCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * *
3074 AAGTTCTACTTGTCGGCTTCGACCTT-GAAGACTTTCCT-ACGTT
1 AAG-TCTGCCTGTCGGCTTTGACCTTAG-AGAC-TTCCTCACTTT
* * * * *
3117 CAGTCTGTCTGTCGGC-TTGACCTTGGAGACTGCCTCA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * *
3158 AAGTCTACTTGTCAGCTTTGA-CTTTGAAGACTTTCCT-ACGTTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAG-AGAC-TTCCTCAC-TTT
* * * * * *
3201 -AGTTTGTCTGTCGACTTTGACCTTGGAGACTGCCTCA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * * *
3242 AAGTTTGCTTGTCAGCTTTGACCTTAGAGATTTTCCT-ACTTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGA-CTTCCTCACTTT
* * * * * * * * *
3284 TAGTCTGTCTATCAGCTTTGACCTT-GAAAACTGCATTA-TCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAG-AGACTTCCTCACT-TT
* * * * *
3326 AAGTCTACCTATCGACTTTGACCTT-GAAGACTT-TTCTACGTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAG-AGACTTCCTC-ACTTT
** * * ** * *
3368 CTGTCTACCTATTAGCTTTGACCTTGGAGACTGCCTCACTTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * * *
3410 AAGTCTGCCTGTCAGCTTTAACCTT-GAAAACTTTCTTACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAG-AGACTTCCTCACTTT
* * * ** * * * * *
3452 CAGTTTGCCTCTCAACCTTGACCCTAGAGACTGCCTCACCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * *
3494 AAGTCTGCTTGTCGACTTTGACCCTT-GAGACTTTCTTACCTT
1 AAGTCTGCCTGTCGGCTTTGA-CCTTAGAGACTTCCTCACTTT
* * * *
3536 CAGTCTGCCTGTCGACTTTGAACCTTTGACCTTGGAGACTTCCTTACCTCT
1 AAGTCTGCCTGTCG-----G---CTTTGACCTTAGAGACTTCCTCA-CTTT
* * ** * * ***
3587 -AGTGTGCCTATCAACTTTGACCTTGGAGACTGCCTCACCAA
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * ** * *
3628 AAGT-TGTCTGTCAGCTTTGACCTTGGAGGCTTTTTTACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * *
3669 CAGTATGCTTGTCGGCTTTGA-CTCTAGAGACTTTCTTACCTTT
1 AAGTCTGCCTGTCGGCTTTGACCT-TAGAGACTTCCTCA-CTTT
* * * *** * * * *
3712 -AGTTTGCCTATTGGCTTTGACCCCGGAGAATACCTCACCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * * * * * *
3753 AAGTATGCTTATCAGCTTTGATCTTATAGACTTTCTTACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * * *
3795 CAGTATGCTTATCGGCTTTGACCTTAGAGACTGT-CTAACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACT-TCCTCACTTT
* * ** ** * **
3837 AAGTCTACCTGTCGGTTTTGACCTCGGAGACTTTTTTACCCT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * * * *
3879 CAGTTTGCCTGTTGGCTTTGACCTTGGAGACTACCTCACCTC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * ** * *
3921 AAGTTTGCCTGTCAGCTTTGACCCTAGAGACTTTTTTACTCT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
* * * * * *
3963 CAGTCTGCTTGTCGACTTTGACCCTAGAGACTGCCTCA-TCTG
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACT-TT
* * *
4005 AAGTCTACCTGTCGACTTTGACCTTGGAGACTTTCCT-ACCTTT
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TTCCTCA-CTTT
* *
4048 -AGTCTGCTTGTCGGCATTGACCTT
1 AAGTCTGCCTGTCGGCTTTGACCTT
4072 GGGAACTACT
Statistics
Matches: 2136, Mismatches: 639, Indels: 307
0.69 0.21 0.10
Matches are distributed among these distances:
40 15 0.01
41 196 0.09
42 1729 0.81
43 145 0.07
44 18 0.01
49 4 0.00
50 27 0.01
51 2 0.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (42 bp):
AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCACTTT
Found at i:3584 original size:50 final size:49
Alignment explanation
Indices: 3509--3610 Score: 127
Period size: 50 Copynumber: 2.1 Consensus size: 49
3499 TGCTTGTCGA
* * *
3509 CTTTGACCCTTGAGACTTTCTTACCT-TCAGTCTGCCTGTCGACTTTGAAC
1 CTTTGACCCTTGAGACTTCCTTACCTCT-AGTCTGCCTATCAACTTTG-AC
*
3559 CTTTGA-CCTTGGAGACTTCCTTACCTCTAGTGTGCCTATCAACTTTGAC
1 CTTTGACCCTT-GAGACTTCCTTACCTCTAGTCTGCCTATCAACTTTGAC
3608 CTT
1 CTT
3611 GGAGACTGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 9 0.20
50 36 0.78
51 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.16, T:0.38
Consensus pattern (49 bp):
CTTTGACCCTTGAGACTTCCTTACCTCTAGTCTGCCTATCAACTTTGAC
Found at i:4134 original size:42 final size:42
Alignment explanation
Indices: 4082--4482 Score: 212
Period size: 42 Copynumber: 9.5 Consensus size: 42
4072 GGGAACTACT
* * *
4082 TGTCGGCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTGCC
1 TGTCAGCTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCC
* * *
4124 TGTCAGCTTTGACCCTAGAGA-TTGTCTCT-CC-TCAACTATACC
1 TGTCAGCTTTGACCCTAGAGACTT-TCT-TACCTTC-AGTCTGCC
* * *
4166 TATCAACTTTGACCCTAGAGACTTTCTTACCCTT-AGTCTGCT
1 TGTCAGCTTTGACCCTAGAGACTTTCTTA-CCTTCAGTCTGCC
* * * * *
4208 TGTC-GACTTTGATCCTAAATACTTT-TT-CATCTCAAGTCTGCT
1 TGTCAG-CTTTGACCCTAGAGACTTTCTTACCT-TC-AGTCTGCC
* * * *
4250 TGTCGGCTTTGACCCT-GGGAACTTTCCTACCTTCAGTCTGCG
1 TGTCAGCTTTGACCCTAGAG-ACTTTCTTACCTTCAGTCTGCC
* * * * * ** * **
4292 TGTCAACTTTAACCCTGGAGA-TTGCCTCATATTAAGTCTGTT
1 TGTCAGCTTTGACCCTAGAGACTT-TCTTACCTTCAGTCTGCC
* * * * * *
4334 TATCAGCTTTTACCCTAAAGACTTTCCTACCTTTAGTATGCC
1 TGTCAGCTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCC
** ** * *
4376 TGTTGGCTTTGACCCTAGAGACTGCCTCACC-TCAAGTCTGTC
1 TGTCAGCTTTGACCCTAGAGACTTTCTTACCTTC-AGTCTGCC
* * * *
4418 TGTCAGCTTTGACCTTGGAAACTTTCTTACCCTCAGTCTGCC
1 TGTCAGCTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCC
* *
4460 TGTC-GACTTTGACCTTGGAGACT
1 TGTCAG-CTTTGACCCTAGAGACT
4483 ATCTCATCTC
Statistics
Matches: 265, Mismatches: 73, Indels: 42
0.70 0.19 0.11
Matches are distributed among these distances:
39 2 0.01
40 1 0.00
41 11 0.04
42 233 0.88
43 15 0.06
44 3 0.01
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (42 bp):
TGTCAGCTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCC
Found at i:4136 original size:68 final size:68
Alignment explanation
Indices: 4009--4137 Score: 195
Period size: 68 Copynumber: 1.9 Consensus size: 68
3999 CATCTGAAGT
* * *
4009 CTACCTGTCGACTTTGACCTTGGAGACTTTCCTACCTTTAGTCTGCTTGTCGGCATTGACCTTGG
1 CTACCTGTCGACTTTGACCTTGGAGACTTTCCTACCTTCAGTCTGCCTGTCAGCATTGACCTTGG
4074 GAA
66 GAA
* * * *
4077 CTACTTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACC
1 CTACCTGTCGACTTTGACCTTGGAGACTTTCCTACCTTCAGTCTGCCTGTCAGCATTGACC
4138 CTAGAGATTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.15, C:0.28, G:0.21, T:0.36
Consensus pattern (68 bp):
CTACCTGTCGACTTTGACCTTGGAGACTTTCCTACCTTCAGTCTGCCTGTCAGCATTGACCTTGG
GAA
Found at i:4211 original size:152 final size:152
Alignment explanation
Indices: 3930--4212 Score: 374
Period size: 152 Copynumber: 1.9 Consensus size: 152
3920 CAAGTTTGCC
* *
3930 TGTCAGCTTTGACCCTAGAGACTTTTTTACTCTCAGTCTGCTTGTCGACTTTGACCCTAGAGACT
1 TGTCAGCTTTGACCCTAGAGACTTTCTTACTCTCAGTCTGCCTGTCGACTTTGACCCTAGAGACT
* * * * * * * *
3995 GCCTCATCTGAAGTCTACCTGTCGACTTTGACCTTGGAGACTTTCCTACCTTTAGTCTGCTTGTC
66 GCCTCATCTCAACTATACCTATCAACTTTGACCCTAGAGACTTTCCTACCCTTAGTCTGCTTGTC
4060 GGCATTGACCTTGGGAACTACT
131 GGCATTGACCTTGGGAACTACT
* * *
4082 TGTCGGCTTTGACCTTGGAGACTTTCTTAC-CTTCAGTCTGCCTGTC-AGCTTTGACCCTAGAGA
1 TGTCAGCTTTGACCCTAGAGACTTTCTTACTC-TCAGTCTGCCTGTCGA-CTTTGACCCTAGAGA
* * *
4145 TTGTCTC-TCCTCAACTATACCTATCAACTTTGACCCTAGAGACTTTCTTACCCTTAGTCTGCTT
64 CTGCCTCAT-CTCAACTATACCTATCAACTTTGACCCTAGAGACTTTCCTACCCTTAGTCTGCTT
4209 GTCG
128 GTCG
4213 ACTTTGATCC
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
151 3 0.03
152 109 0.97
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (152 bp):
TGTCAGCTTTGACCCTAGAGACTTTCTTACTCTCAGTCTGCCTGTCGACTTTGACCCTAGAGACT
GCCTCATCTCAACTATACCTATCAACTTTGACCCTAGAGACTTTCCTACCCTTAGTCTGCTTGTC
GGCATTGACCTTGGGAACTACT
Found at i:4276 original size:236 final size:236
Alignment explanation
Indices: 3841--4295 Score: 579
Period size: 236 Copynumber: 1.9 Consensus size: 236
3831 AACCTTAAGT
* * * ** * *
3841 CTACCTGTCGGTTTTGACCTCGGAGACTTTTTTACCCTCAGTTTGCCTGTTGGCTTTGACCTTGG
1 CTACCTGTCGGCTTTGACCTCGGAGACTTTCTTACCCTCAGTCTGCCTGTCAGCTTTGACCCTAG
* * * * * * *
3906 AGACTACCTCACCTCAAGTTTGCCTGTCAGCTTTGACCCTAGAGACTTTTTTACTCTCAGTCTGC
66 AGACTACCTCACCTCAACTATACCTATCAACTTTGACCCTAGAGACTTTCTTACCCTCAGTCTGC
* * *
3971 TTGTCGACTTTGACCCTAGAGACTGCCTCATCTGAAGTCTACCTGTCGACTTTGACCTTGGAGAC
131 TTGTCGACTTTGACCCTAAAGACTGCCTCATCTCAAGTCTACCTGTCGACTTTGACCTGGGAGAC
* *
4036 TTTCCTACCTTTAGTCTGCTTGTCGGCATTGACCTTGGGAA
196 TTTCCTACCTTCAGTCTGCGTGTCGGCATTGACCTTGGGAA
* * *
4077 CTACTTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCCTAG
1 CTACCTGTCGGCTTTGACCTCGGAGACTTTCTTACCCTCAGTCTGCCTGTCAGCTTTGACCCTAG
* ** * *
4142 AGATTGTCTCTCCTCAACTATACCTATCAACTTTGACCCTAGAGACTTTCTTACCCTTAGTCTGC
66 AGACTACCTCACCTCAACTATACCTATCAACTTTGACCCTAGAGACTTTCTTACCCTCAGTCTGC
* * *** * * *
4207 TTGTCGACTTTGATCCTAAATACTTTTTCATCTCAAGTCTGCTTGTCGGCTTTGACCCTGGGA-A
131 TTGTCGACTTTGACCCTAAAGACTGCCTCATCTCAAGTCTACCTGTCGACTTTGA-CCTGGGAGA
4271 CTTTCCTACCTTCAGTCTGCGTGTC
195 CTTTCCTACCTTCAGTCTGCGTGTC
4296 AACTTTAACC
Statistics
Matches: 183, Mismatches: 35, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
236 177 0.97
237 6 0.03
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.36
Consensus pattern (236 bp):
CTACCTGTCGGCTTTGACCTCGGAGACTTTCTTACCCTCAGTCTGCCTGTCAGCTTTGACCCTAG
AGACTACCTCACCTCAACTATACCTATCAACTTTGACCCTAGAGACTTTCTTACCCTCAGTCTGC
TTGTCGACTTTGACCCTAAAGACTGCCTCATCTCAAGTCTACCTGTCGACTTTGACCTGGGAGAC
TTTCCTACCTTCAGTCTGCGTGTCGGCATTGACCTTGGGAA
Found at i:4498 original size:42 final size:42
Alignment explanation
Indices: 4372--4499 Score: 125
Period size: 42 Copynumber: 3.0 Consensus size: 42
4362 ACCTTTAGTA
* * * * **
4372 TGCCTGTTGGCTTTGACCCTAGAGACTGCCTCACCTCAAGTC
1 TGCCTGTCGACTTTGACCTTGGAGACTATCTCACCTCAAGTC
* * * *
4414 TGTCTGTC-AGCTTTGACCTTGGAAACTTTCTTACCCTC-AGTC
1 TGCCTGTCGA-CTTTGACCTTGGAGACTATCTCA-CCTCAAGTC
*
4456 TGCCTGTCGACTTTGACCTTGGAGACTATCTCATCTCAAGTC
1 TGCCTGTCGACTTTGACCTTGGAGACTATCTCACCTCAAGTC
4498 TG
1 TG
4500 TCTATTGGCT
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
41 3 0.04
42 60 0.88
43 5 0.07
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.34
Consensus pattern (42 bp):
TGCCTGTCGACTTTGACCTTGGAGACTATCTCACCTCAAGTC
Found at i:4499 original size:168 final size:167
Alignment explanation
Indices: 4080--4504 Score: 467
Period size: 168 Copynumber: 2.5 Consensus size: 167
4070 TTGGGAACTA
* *
4080 CTTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTGCCTGTCAGCTTTGACCCTAGAGA
1 CTTGTCGGCTTTGACCTTGGAAACTTTCTTACCTTCAGTCTGCCTGTCA-CTTTGACCCTGGAGA
* * ** * * * *
4145 TTGTCTC-TCCTCAACTATACCTATCAACTTTGACCCTAGAGACTTTCTTACCCTTAGTCTGCTT
65 TTGTCTCAT-CTCAAGTCTGTCTATCAACTTTGACCCTAAAGACTTTCCTACCCTTAGTATGCCT
* * *** *
4209 GTCGACTTTGATCCTAAATACTTTTTCATCTCAAGTCTG
129 GTCGACTTTGACCCTAAAGACTGCCTCACCTCAAGTCTG
* * * * *
4248 CTTGTCGGCTTTGACCCTGGGAACTTTCCTACCTTCAGTCTGCGTGTCAACTTTAACCCTGGAGA
1 CTTGTCGGCTTTGACCTTGGAAACTTTCTTACCTTCAGTCTGCCTGTC-ACTTTGACCCTGGAGA
* * * * * * *
4313 TTGCCTCATATTAAGTCTGTTTATCAGCTTTTACCCTAAAGACTTTCCTACCTTTAGTATGCCTG
65 TTGTCTCATCTCAAGTCTGTCTATCAACTTTGACCCTAAAGACTTTCCTACCCTTAGTATGCCTG
* * *
4378 TTGGCTTTGACCCTAGAGACTGCCTCACCTCAAGTCTG
130 TCGACTTTGACCCTAAAGACTGCCTCACCTCAAGTCTG
* * *
4416 -TCTGTCAGCTTTGACCTTGGAAACTTTCTTACCCTCAGTCTGCCTGTCGACTTTGACCTTGGAG
1 CT-TGTCGGCTTTGACCTTGGAAACTTTCTTACCTTCAGTCTGCCTGTC-ACTTTGACCCTGGAG
* *
4480 ACTATCTCATCTCAAGTCTGTCTAT
64 ATTGTCTCATCTCAAGTCTGTCTAT
4505 TGGCTTTAAC
Statistics
Matches: 208, Mismatches: 46, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
167 1 0.00
168 205 0.99
169 2 0.01
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (167 bp):
CTTGTCGGCTTTGACCTTGGAAACTTTCTTACCTTCAGTCTGCCTGTCACTTTGACCCTGGAGAT
TGTCTCATCTCAAGTCTGTCTATCAACTTTGACCCTAAAGACTTTCCTACCCTTAGTATGCCTGT
CGACTTTGACCCTAAAGACTGCCTCACCTCAAGTCTG
Found at i:4526 original size:84 final size:84
Alignment explanation
Indices: 4087--4534 Score: 377
Period size: 84 Copynumber: 5.3 Consensus size: 84
4077 CTACTTGTCG
* *
4087 GCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTGCCTGTC-AGCTTTGACCCTAGAGATTGTCT
1 GCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGA-CTTTGACCCTAGAGACTGTCT
* * **
4151 C-TCCTCAACTATACCTATCA
65 CAT-CTCAAGTCTGTCTATCA
* * * * * * * *
4171 ACTTTGACCCTAGAGACTTTCTTACCCTT-AGTCTGCTTGTCGACTTTGATCCTAAATACTTTTT
1 GCTTTGACCCTGGAGACTTTCTTA-CCTTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTGTCT
* *
4235 CATCTCAAGTCTG-CTTGTCG
65 CATCTCAAGTCTGTC-TATCA
* * * * * * *
4255 GCTTTGACCCTGG-GAACTTTCCTACCTTCAGTCTGCGTGTCAACTTTAACCCTGGAGATTGCCT
1 GCTTTGACCCTGGAG-ACTTTCTTACCTTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTGTCT
* * *
4319 CATATTAAGTCTGTTTATCA
65 CATCTCAAGTCTGTCTATCA
* ** * * * * * *
4339 GCTTTTACCCTAAAGACTTTCCTACCTTTAGTATGCCTGTTGGCTTTGACCCTAGAGACTGCCTC
1 GCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTGTCTC
* *
4404 ACCTCAAGTCTGTCTGTCA
66 ATCTCAAGTCTGTCTATCA
* * * * * *
4423 GCTTTGACCTTGGAAACTTTCTTACCCTCAGTCTGCCTGTCGACTTTGACCTTGGAGACTATCTC
1 GCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTGTCTC
**
4488 ATCTCAAGTCTGTCTATTG
66 ATCTCAAGTCTGTCTATCA
* *
4507 GCTTTAACTCTGGAGACTTT-TTCACCTT
1 GCTTTGACCCTGGAGACTTTCTT-ACCTT
4535 TTATCTGCCC
Statistics
Matches: 280, Mismatches: 75, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
83 8 0.03
84 265 0.95
85 7 0.03
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (84 bp):
GCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTGTCTC
ATCTCAAGTCTGTCTATCA
Found at i:5221 original size:57 final size:57
Alignment explanation
Indices: 5133--5246 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
5123 TCGAATTTGG
* * *
5133 TGGATTTCATGTTTAATTTGCTGCTACCTAAGCTTTCTAGGTC-TTGTTGCATTGCAT
1 TGGATTTCATGCTTAATTTGCTGCCACCTAAGCTTTCTAGG-CATTATTGCATTGCAT
5190 TGGATTTCATGCTTAATTTGCTGCCACCTAAGCTTTCTAGGCATTATTGCATTGCAT
1 TGGATTTCATGCTTAATTTGCTGCCACCTAAGCTTTCTAGGCATTATTGCATTGCAT
5247 GCTTTCATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
56 1 0.02
57 52 0.98
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (57 bp):
TGGATTTCATGCTTAATTTGCTGCCACCTAAGCTTTCTAGGCATTATTGCATTGCAT
Found at i:5443 original size:38 final size:38
Alignment explanation
Indices: 5392--5468 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
5382 AACGAGATAT
* ** * *
5392 AATTAAAGCTGCTGTAAACGGTAGCAATGAAGAATGCA
1 AATTAAAGCTGCTGCAAACGACAACAATGAAGAAAGCA
5430 AATTAAAGCTGCTGCAAACGACAACAATGAAGAAAGCA
1 AATTAAAGCTGCTGCAAACGACAACAATGAAGAAAGCA
5468 A
1 A
5469 TAAAGAATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.17
Consensus pattern (38 bp):
AATTAAAGCTGCTGCAAACGACAACAATGAAGAAAGCA
Found at i:6273 original size:19 final size:18
Alignment explanation
Indices: 6246--6281 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6236 ACCAGCACAA
*
6246 TCCAGCAGCAAAGCAACAC
1 TCCAACAGCAAA-CAACAC
6265 TCCAACAGCAAACAACA
1 TCCAACAGCAAACAACA
6282 ACAGCAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.36, G:0.11, T:0.06
Consensus pattern (18 bp):
TCCAACAGCAAACAACAC
Found at i:6313 original size:36 final size:35
Alignment explanation
Indices: 6248--6315 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
6238 CAGCACAATC
* *
6248 CAGCAGCAAAGCAACACTCCAACAGCAAACAACAA
1 CAGCAGCAAAGCAACACTCAAACAACAAACAACAA
6283 CAGCAAGCAAAGCAACAC-CGAAACAACAAACAA
1 CAGC-AGCAAAGCAACACTC-AAACAACAAACAA
6316 AGAAGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 5 0.17
36 24 0.83
ACGTcount: A:0.54, C:0.32, G:0.12, T:0.01
Consensus pattern (35 bp):
CAGCAGCAAAGCAACACTCAAACAACAAACAACAA
Found at i:12591 original size:24 final size:24
Alignment explanation
Indices: 12547--12593 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12537 TTTAGAACTT
* *
12547 TGATATTGATTTGTTATTTCATTA
1 TGATATTGATGTCTTATTTCATTA
12571 TGATATTGATGTCTT-TCTTCATT
1 TGATATTGATGTCTTAT-TTCATT
12594 TTTCATAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.21, C:0.09, G:0.13, T:0.57
Consensus pattern (24 bp):
TGATATTGATGTCTTATTTCATTA
Found at i:13577 original size:18 final size:18
Alignment explanation
Indices: 13556--13590 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13546 TGTAATCACT
13556 TCTTT-ATATGTGAAAGGC
1 TCTTTAATA-GTGAAAGGC
13574 TCTTTAATAGTGAAAGG
1 TCTTTAATAGTGAAAGG
13591 AAGCATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (18 bp):
TCTTTAATAGTGAAAGGC
Found at i:14837 original size:18 final size:18
Alignment explanation
Indices: 14816--14850 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14806 TGTAATCACT
14816 TCTTT-ATATGTGAAAGGC
1 TCTTTAATA-GTGAAAGGC
14834 TCTTTAATAGTGAAAGG
1 TCTTTAATAGTGAAAGG
14851 AAGCATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (18 bp):
TCTTTAATAGTGAAAGGC
Found at i:17159 original size:20 final size:21
Alignment explanation
Indices: 17134--17172 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17124 GTACTCATCA
17134 AGTAAT-G-ATAATTAAAATCT
1 AGTAATAGTATAA-TAAAATCT
17154 AGTAATAGTATAATAAAAT
1 AGTAATAGTATAATAAAAT
17173 AATAAGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
AGTAATAGTATAATAAAATCT
Found at i:20800 original size:44 final size:44
Alignment explanation
Indices: 20736--20819 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
20726 TGTGTGCTTG
* * *
20736 TGATTTACAATTCGTGTGTGTTTGTGATTTCTTACATTCTACCA
1 TGATTCACAATTCATCTGTGTTTGTGATTTCTTACATTCTACCA
20780 TGATTCACAATTCATCTGTGTTTGTGATTTCTTACATTCT
1 TGATTCACAATTCATCTGTGTTTGTGATTTCTTACATTCT
20820 GCTCGAACAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (44 bp):
TGATTCACAATTCATCTGTGTTTGTGATTTCTTACATTCTACCA
Found at i:28432 original size:20 final size:20
Alignment explanation
Indices: 28375--28432 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
28365 CAGATCTATC
*
28375 GATACATTGTTCATTATATT
1 GATACATTGTTCATTGTATT
28395 GATACATTGTTCATTGTATT
1 GATACATTGTTCATTGTATT
* *
28415 GATACATTTTTCAATGTA
1 GATACATTGTTCATTGTA
28433 CCAATACATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (20 bp):
GATACATTGTTCATTGTATT
Found at i:30610 original size:79 final size:79
Alignment explanation
Indices: 30469--30622 Score: 247
Period size: 79 Copynumber: 1.9 Consensus size: 79
30459 TCATTTATGT
* * *
30469 TTTTATTTCTAAAACACTGATTTTCCACAATCGGGGATACTCCAACCCCTTTATTTTCGAGGGGA
1 TTTTATTTCCAAAACACTGATTCTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
*
30534 TACTCTAACCCCGG
66 TACTCCAACCCCGG
*
30548 TTTTGTTTCCAAAACA-TCGATTCTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
1 TTTTATTTCCAAAACACT-GATTCTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
30612 ATACTCCAACC
65 ATACTCCAACC
30623 TGTTATTTCT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 68 0.99
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (79 bp):
TTTTATTTCCAAAACACTGATTCTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCCAACCCCGG
Found at i:30620 original size:28 final size:28
Alignment explanation
Indices: 30580--30651 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
30570 CTCCACAATC
30580 GGGGATACTCCAACCCCGTTATTT-TCGA
1 GGGGATACTCCAACCCCGTTATTTCT-GA
* *
30608 GGGGATACTCCAA-CCTGTTATTTCTGG
1 GGGGATACTCCAACCCCGTTATTTCTGA
30635 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
30652 AGTTTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTGA
Found at i:30715 original size:105 final size:105
Alignment explanation
Indices: 30501--30728 Score: 336
Period size: 105 Copynumber: 2.2 Consensus size: 105
30491 TTCCACAATC
* *
30501 GGGGATACTCCAACCCCTTTATTTTCGAGGGGATACTCTAACCCCGGTTTTGTTTCCAAAACATC
1 GGGGATACTCCAA--CCTTTATTTTCGAGGGGATACTCCAACCCCAGTTTTGTTTCCAAAACATC
*
30566 GATTCTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGA
64 AATTCTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGA
*
30608 GGGGATACTCCAACCTGTTA-TTTCTGGGGGGATACTCCAACCCCAGTTTTGTTTCCAAAA-ATC
1 GGGGATACTCCAACCT-TTATTTTC-GAGGGGATACTCCAACCCCAGTTTTGTTTCCAAAACATC
* *
30671 AATTTTCCACAATTGGGGATACTCCAACCCCGTTA-TTTCTGA
64 AATTCTCCACAATCGGGGATACTCCAACCCCGTTATTTTC-GA
30713 GGGGATACTCCAACCT
1 GGGGATACTCCAACCT
30729 CAGTTTTATT
Statistics
Matches: 112, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
104 4 0.04
105 60 0.54
106 35 0.31
107 13 0.12
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (105 bp):
GGGGATACTCCAACCTTTATTTTCGAGGGGATACTCCAACCCCAGTTTTGTTTCCAAAACATCAA
TTCTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:30797 original size:79 final size:79
Alignment explanation
Indices: 30608--30935 Score: 405
Period size: 78 Copynumber: 4.2 Consensus size: 79
30598 TTATTTTCGA
* * * *
30608 GGGGATACTCCAA-CCTGTTATTTCTGGGGGGATACTCCAACCCCAGTTTTGTTTCCAAAA-ATC
1 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATC
*
30671 AATTTTCCACAATT
66 AATTTTCCACAATC
30685 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATC
*
30750 GATTTTCCACAATC
66 AATTTTCCACAATC
* * * ** *
30764 GGGGATACTCCAACCCCGTTATTT-TCGAAGGGATACTTCAACCTC-GATTTATTTCTGAAATAT
1 GGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACAT
* *
30827 CGATTTTTCACAATC
65 CAATTTTCCACAATC
** * * *
30842 GGGGATACTCCAACCCTATTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAACACC
1 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATC
*
30907 AATATTT-CACCATC
66 AAT-TTTCCACAATC
* *
30921 GAGGATACTGCAACC
1 GGGGATACTCCAACC
30936 TTGATTTTTT
Statistics
Matches: 219, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
77 13 0.06
78 111 0.51
79 92 0.42
80 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATC
AATTTTCCACAATC
Found at i:31026 original size:130 final size:129
Alignment explanation
Indices: 30795--31197 Score: 483
Period size: 129 Copynumber: 3.1 Consensus size: 129
30785 TTTTCGAAGG
* * *
30795 GATACTTCAACCTCGA-TTTATTTCT-GAA-ATATCGATTTTTCACAATCGGGGATACTCCAACC
1 GATACTGCAACCTCGATTTTATTTTTAGAACAT-T-GATTTTCCACAATCGGGGATACTCCAACC
* * * *
30857 CTATTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAACACCAATATTTCACCATC-
64 CTGTTATTTATGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAAT-TTCCACCATCG
30921 GA
128 GA
* * * *
30923 GGATACTGCAACCTTGATTTT-TTTTTCAGAACATTGATTTTCCATAATCAGGGATACTTCAACC
1 -GATACTGCAACCTCGATTTTATTTTT-AGAACATTGATTTTCCACAATCGGGGATACTCCAACC
* * ** *
30987 CCGTTATTTATGAGAGGATACTTTAACCTCGGTTTTATTTTCAAAACACTAATTTCCACCATCGG
64 CTGTTATTTATGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTCCACCATCGG
31052 A
129 A
*
31053 GATACTGTAACCTCGATTTTATTTTTAGAACATTGATTTTCCACAATCGGGGATACTCCAACCCT
1 GATACTGCAACCTCGATTTTATTTTTAGAACATTGATTTTCCACAATCGGGGATACTCCAACCCT
* * * * ** *
31118 GTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCCATAATCGAA
66 GTTATTTATGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACC-AATTTCCACCATCGGA
* *
31183 GATACTTCAGCCTCG
1 GATACTGCAACCTCG
31198 TTATTTCTGA
Statistics
Matches: 231, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
129 121 0.52
130 104 0.45
131 4 0.02
132 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (129 bp):
GATACTGCAACCTCGATTTTATTTTTAGAACATTGATTTTCCACAATCGGGGATACTCCAACCCT
GTTATTTATGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTCCACCATCGGA
Found at i:31064 original size:50 final size:51
Alignment explanation
Indices: 31003--31109 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 51
30993 TTTATGAGAG
* * *
31003 GATACTTTAACCTCGGTTTTATTTTCAAAACACT-AATTTCCACCATCGGA
1 GATACTGTAACCTCGATTTTATTTTCAAAACACTGAATTTCCACAATCGGA
* * * * *
31053 GATACTGTAACCTCGATTTTATTTTTAGAACATTGATTTTCCACAATCGGG
1 GATACTGTAACCTCGATTTTATTTTCAAAACACTGAATTTCCACAATCGGA
31104 GATACT
1 GATACT
31110 CCAACCCTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 29 0.60
51 19 0.40
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (51 bp):
GATACTGTAACCTCGATTTTATTTTCAAAACACTGAATTTCCACAATCGGA
Found at i:31232 original size:79 final size:79
Alignment explanation
Indices: 31061--31217 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
31051 GAGATACTGT
* * * ** **
31061 AACCTCGATTTTATTTTTAGAACATTGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTC
1 AACCCCGATTTTATTTTCAAAACACCGATTTTCCACAATCGAAGATACTCCAACCCTGTTATTTC
*
31126 TGAGGGGATACTCC
66 TGAGGGGACACTCC
* * *
31140 AACCCCGATTTTATTTTCAAAACACCGATTTTCCATAATCGAAGATACTTC-AGCCTCGTTATTT
1 AACCCCGATTTTATTTTCAAAACACCGATTTTCCACAATCGAAGATACTCCAACCCT-GTTATTT
31204 CTGAGGGGACACTC
65 CTGAGGGGACACTC
31218 TAACTCTGTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
78 4 0.06
79 62 0.94
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
AACCCCGATTTTATTTTCAAAACACCGATTTTCCACAATCGAAGATACTCCAACCCTGTTATTTC
TGAGGGGACACTCC
Found at i:32392 original size:16 final size:17
Alignment explanation
Indices: 32368--32404 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
32358 CTCTTCTCAA
32368 ATAAATATTG-ATATGG
1 ATAAATATTGTATATGG
*
32384 ATAAGTATTGTATATGG
1 ATAAATATTGTATATGG
32401 -TAAA
1 ATAAA
32405 ATAAAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (17 bp):
ATAAATATTGTATATGG
Done.