Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2406
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: 3587
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Found at i:2853 original size:949 final size:946
Alignment explanation
Indices: 1--3587 Score: 5328
Period size: 949 Copynumber: 3.8 Consensus size: 946
1 AGGACAAAAGGGACATTGAAGTTTTTC-TTTGCATGGAAATCTTTTCTTCGCCTATTTTCCTTAA
1 AGGACAAAA--GACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGCCTATTTTCCTT-A
*
65 AATTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTATCC-AACAGTCTCCTTTCTTTTCAAG
63 AATTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAG
*
129 ATTGGGAAGCCAAAACACATTGCTATTGTTAGAGATA--CG-CGTTG-TGCTTTGG-GTCTCAAG
128 ATTGGGAAGCCAAAACACATTGCTATTGTTAG-GATACCCGACATTGATGCTTTGGTGTCTCAAG
* *
189 AAAGGCCTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTTGTCTCTTAAATAAG--GAACTTT
192 AAAAGCTTTTCTTCACGTCGTTTTTGATAGAATCAACG-TTTGTCTCTTAAATAAGCTGAACTTT
*
252 GATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATTAGTCTTCTCATTAGG
256 AATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACA-TAGTCTTCTCATTAGG
* *
317 ATACACGATATGATGCTTTGGTTTCGCAACAAAGGC--TTTTCCCACCAATCATTGTAAAGCCTA
320 ATACACGATATGATGCTCTGGTTTCGCAACAAAGGCTTTTTTCCCACCAATCGTTGTAAAGCC-A
* * * * * * *
380 AGTTTGTGCCTCAACTGAGACAATATGGATTCT---AATGATCTTCATTCTTTTTCCGATAAAGG
384 AGTTCGTGCCTCAAATGAGACAACACGGATTCTAGGAATGAACTTCATTCTTTTCCCGATAAAGC
* * * *
442 ACTAC-ATCACGTTCTCCACTTT-GGACAAAAGACATTGAATTTTTTCTTTTGCATGGAAATCTT
449 ACTACAAACACATTCTCCTCTTTAGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTT
* * *
505 TTCTTCGCC-CATTTTCCTTAAAATTAAAGTTCATCCCCTGAATAAGACAAGCA-CGATTCT-CT
514 TTCTTCGCCATATTTTCCTTAAAATGAAAGTTCATCCCCTGAATAAGACAAGCATCGATTATCCT
567 AAACAGTCTCCTTTCTTTTCAAGATTGGGAAGCCAAACACTATTGCTATTGTTAGGATA-CCGAC
579 -AACAGTCTCCTTTCTTTTCAAGATTGGGAAGCCAAACAC-ATTGCTATTGTTAGGATACCCGAC
*
631 ATTGATGCTTTGGTGTCTCAAGAAAAG--TTTCTTCGCGTCATTTTTTAATAGAATCAACG-TTG
642 ATTGATGCTTTGGTGTCTCAAGAAAAGCTTTTCTTCGCGTC-GTTTTTAATAGAATCAACGTTTG
*
693 TCTC-TAAATATGCCGAACATTAATACTCAAAACTAATCCTCATTC-TTTTAGATTTATGCA-CA
706 TCTCTTAAATATGCCGAACATTAATACTC-AAACTAATCCTCATTCTTTTTAGATTTAGGCACCA
755 TAAACATAGTCTTCTCATTAGGATACACGATATTG-TGCTTTGGTTTCGCAACAAA-GCTTTTTT
770 TAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGC-TTTTT
* * * *
818 ACCCACCAATCATTGTAAAGCCTAAG-TTGTGCCTCAAATGAGACAAATATGGATTCTAATAATG
834 A-CCACCAATCGTTGTAAAGTCTAAGTTTATGCCTCAAATGAGACAAATATGGATTCTAGTAATG
* *
882 ATCTTCATTCTTTTTCCGATAAAGGACTA-ACAATCACGTTCTCCACTTT
898 ATCTTCATTCTTTTTCCGATAAAGGACTACA-AAACACGTTCTCCTCTTT
*
931 AGGAC-AAAGACATTGACGTTTTTCTTTTGCATGGAAATCTTTTC-TCGCCCTATTTTCCTTAAA
1 AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCG-CCTATTTTCCTTAAA
994 CTTAAAGTTCAATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCC-TTCTTTTCAAG
65 -TTAAAGTTC-ATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAG
*
1058 ATTAGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGAC-TTGATGCTTTGGTGTCTCAAGA
128 ATTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAGA
* *
1122 AAAGCTTTTCTTCACGTCGTTTTTGATAGAATC-ATGTTTGTCTCTTAATTAAGCTGAACTTTAA
193 AAAGCTTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTGTCTCTTAAATAAGCTGAACTTTAA
*
1186 TACTCAAACTAATCGTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGATA
258 TACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGATA
* *
1251 CACGA-ATGATGCTCTGGTTTCGCAACAAAGGTTTTTTTCCCACCAATCGTTGTAAAGTCTAAGT
323 CACGATATGATGCTCTGGTTTCGCAACAAAGGCTTTTTTCCCACCAATCGTTGTAAAG-CCAAGT
*
1315 TCGAT-CCTCAAATGAGACAAACACGAATTCTAGGAATGAACTTCATTCTTTTCCCGATAAAGCA
387 TCG-TGCCTCAAATGAGAC-AACACGGATTCTAGGAATGAACTTCATTCTTTTCCCGATAAAGCA
* * *
1379 CTACAAACACGTTCT-CTCTTTAGGACAACAGACATTGAAG-TTCTCTTTTGCATGGAAATCTTT
450 CTACAAACACATTCTCCTCTTTAGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTT
* * * * *
1442 TCTTCGCCCTATTTTCCTTAAAATTAAAGTTCATCCCCTG-ATAAGATAAGCATCTATTCTCCTA
515 TCTTCGCCATATTTTCCTTAAAATGAAAGTTCATCCCCTGAATAAGACAAGCATCGATTATCCTA
*
1506 ACAGTCTCCTTTC-TTTCAAGATTGGGAAGCCAAACACATTGCTATTGTTAGGATACCCAACATT
580 ACAGTCTCCTTTCTTTTCAAGATTGGGAAGCCAAACACATTGCTATTGTTAGGATACCCGACATT
* *
1570 GATGCTTTGGTGTCTCAAGAAAAGCTTTTCTTCGGGTCATTTTTAATAGAATCAACGTTTGTCTC
645 GATGCTTTGGTGTCTCAAGAAAAGCTTTTCTTCGCGTCGTTTTTAATAGAATCAACGTTTGTCTC
*
1635 TTAAATATGCCGAACATTAATACACAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAAC
710 TTAAATATGCCGAACATTAATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAAC
* * * *
1700 ATATTCTTCTCATTAGGATACACGATATTGATGCTCTGGTTTCGCAACAAAGGTTTTTTTCCCAC
775 ATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGG-CTTTTTACCAC
* * * * *
1765 CAAATCGTTGTAAAGTCTAAGTTCGCAT-CCTCAAATGAGACAAACACGGATTCTAGGAATGAAC
839 C-AATCGTTGTAAAGTCTAAGTT--TATGCCTCAAATGAGACAAATATGGATTCTAGTAATGATC
* *
1829 TTCGTTC-TTTTCCTGATAAAGCACTAC-AAACAC-TTCTCCTCTTT
901 TTCATTCTTTTTCC-GATAAAGGACTACAAAACACGTTCTCCTCTTT
*
1873 AAGGAACAAAAGACATTGAAGTTTTTCTTTTGCTTGGAAATCTTTTCTTCGCTCTATTTTCCTTA
1 -AGG-ACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGC-CTATTTTCCTTA
* * * *
1938 AATGAAAGTTCATCCCTGTGAATAAGACAAGCATCAATTCTCCTAACAGTCTCCTTTTTTTTCAA
63 AATTAAAGTTCATCCC-CTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAA
* *
2003 GATTGGGAAGCTAAAACACATTGCTATTGTTAGGATACCCAACATTGATGCTTTGGTGTCTCAAG
127 GATTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAG
2068 AAAAGCTTTTCTTCACGTCGTTTTTGATAGAATCAAACGTTTGTCTCTTAAATAAGCTGAACTTT
192 AAAAGCTTTTCTTCACGTCGTTTTTGATAGAATC-AACGTTTGTCTCTTAAATAAGCTGAACTTT
* * * * *
2133 AATACTCAAACTAATCCTCATTCTTTATAAATTTACGCACCGTAAACATATTCTTCTCATTAGGA
256 AATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGA
* *
2198 TACACGATATTGATTCTCTGGTTTCGGAACAAAGGCTTTTTTCCCACCAATCGTTGTAAAGTCCA
321 TACACGATA-TGATGCTCTGGTTTCGCAACAAAGGCTTTTTTCCCACCAATCGTTGTAAAG-CCA
*
2263 AGTTCGTGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTCCCGATAAAG
384 AGTTCGTGCCTCAAATGAGAC-AACACGGATTCTAGGAATGAACTTCATTCTTTTCCCGATAAAG
* * * *
2328 CACTATAAACACATTCTCTTCTTTAGGACAAAAGACATTGAAGTTTTTCTTTTTCCTGGAAATCT
448 CACTACAAACACATTCTCCTCTTTAGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCT
* * *
2393 TTTCTTCGCCATA-TTTGCTTAAAATGAACGTTCAT-CCTTGAATAAGACAAGCATCGATTATCC
513 TTTCTTCGCCATATTTTCCTTAAAATGAAAGTTCATCCCCTGAATAAGACAAGCATCGATTATCC
2456 TAACAGTCTCCTTTCTTTTCAAGATTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGAC
578 TAACAGTCTCCTTTCTTTTCAAGATTGGGAAGCC-AAACACATTGCTATTGTTAGGATACCCGAC
* *
2521 ATTGATGCTTTGGTGTCTCAAGAAAAGCTTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTGT
642 ATTGATGCTTTGGTGTCTCAAGAAAAGCTTTTCTTCGCGTCGTTTTTAATAGAATCAACGTTTGT
* * *
2586 CTCTTAAATATCCCAAACATTAATACTCAAACTAATCCTCATTCTTTTTAGA-TTAGGCACCGT-
707 CTCTTAAATATGCCGAACATTAATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATA
* *
2649 AACTTAGTCTTCTCATTAGGATACACGATA-TGATGCTTTGGTTTCGCTTACAAAGGCTTTTTAC
772 AACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGC-AACAAAGGCTTTTTAC
*
2713 CACCAATCGTTGTAAAGTCTAAGTTTATGCCTCAAATGAGAAAAATATGGATTCTAGTAATGATC
836 CACCAATCGTTGTAAAGTCTAAGTTTATGCCTCAAATGAGACAAATATGGATTCTAGTAATGATC
*
2778 TTCATTCTTTTTCCGATAAAGGACTACAAAACACGTTCTCCTCTGT
901 TTCATTCTTTTTCCGATAAAGGACTACAAAACACGTTCTCCTCTTT
*
2824 AGGACAAAAGACATTGAAGTTTCTCTTTTGCATGGAAATCTTTTCTTCGCACATATTTTCCTTAA
1 AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGC-C-TATTTTCCTTAA
*
2889 ATTAAAGTTCATCCCCTGAATAAGATAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAGA
64 ATTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAGA
2954 TTGGGAAGCCAAAACACATTGCTATGTGTTAGGATACCCGACATTGATGCCTTTGGTGTCTCAAG
129 TTGGGAAGCCAAAACACATTGCTAT-TGTTAGGATACCCGACATTGATG-CTTTGGTGTCTCAAG
* * * *
3019 AAAAGCTTTTCTTCGCGTCATTTTTAATAGAATCAAACG-TTGTCTCTTCAATAAGCTGAACTTT
192 AAAAGCTTTTCTTCACGTCGTTTTTGATAGAATC-AACGTTTGTCTCTTAAATAAGCTGAACTTT
* *
3083 AATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCTTAAACTTAGTCTTCTCATTAGGA
256 AATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGA
* * *
3148 TACACGATATTGATGCTTTGGTTTCGCAATAAAGGCTTTTTT-CCACC-ATCGTTGTAAAGCTAA
321 TACACGATA-TGATGCTCTGGTTTCGCAACAAAGGCTTTTTTCCCACCAATCGTTGTAAAGCCAA
* * *
3211 GTTCGGGCCTCAAAT-AGACAACACGGATTTTAGGAATGAACTTCGTTCTTTTTCCCGATAAAGC
385 GTTCGTGCCTCAAATGAGACAACACGGATTCTAGGAATGAACTTCATTC-TTTTCCCGATAAAGC
* *
3275 ACTACAAACACATTCTCCTCTTCAGGACAAAAGACATTGAAGTTTTTCTTTTGCTTGGAAATC-T
449 ACTACAAACACATTCTCCTCTTTAGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTT
* * *
3339 TTCTTCGCTC-TATTTTGCTTAAAATGAACGTTCATCCCTTGAATAAGACAAGCATCGATCTATC
514 TTCTTCGC-CATATTTTCCTTAAAATGAAAGTTCATCCCCTGAATAAGACAAGCATCGAT-TATC
3403 CTAACAGTCTCCTTTCTTTTCAAGATTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGA
577 CTAACAGTCTCCTTTCTTTTCAAGATTGGGAAGCC-AAACACATTGCTATTGTTAGGATACCCGA
*
3468 CATTGATGCTTTGGTGTCTC-AGAAAAGCTTTTCTTCGCGTCG-TTTTGATAGAATCAACGTTTG
641 CATTGATGCTTTGGTGTCTCAAGAAAAGCTTTTCTTCGCGTCGTTTTTAATAGAATCAACGTTTG
* * * *
3531 TCTCTTAAATAAGCGGAACTTTGATACTCAAACTAATCCTCATTCTTTTTAGATTTA
706 TCTCTTAAATATGCCGAACATTAATACTCAAACTAATCCTCATTCTTTTTAGATTTA
Statistics
Matches: 2430, Mismatches: 154, Indels: 129
0.90 0.06 0.05
Matches are distributed among these distances:
927 21 0.01
928 44 0.02
929 75 0.03
930 61 0.03
931 35 0.01
932 133 0.05
933 11 0.00
935 18 0.01
936 132 0.05
937 93 0.04
938 36 0.01
939 37 0.02
940 36 0.01
941 24 0.01
942 33 0.01
943 15 0.01
944 55 0.02
945 119 0.05
946 234 0.10
947 119 0.05
948 103 0.04
949 263 0.11
950 207 0.09
951 218 0.09
952 111 0.05
953 58 0.02
954 139 0.06
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (946 bp):
AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGCCTATTTTCCTTAAAT
TAAAGTTCATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAGATT
GGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAGAAAA
GCTTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTGTCTCTTAAATAAGCTGAACTTTAATAC
TCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGATACAC
GATATGATGCTCTGGTTTCGCAACAAAGGCTTTTTTCCCACCAATCGTTGTAAAGCCAAGTTCGT
GCCTCAAATGAGACAACACGGATTCTAGGAATGAACTTCATTCTTTTCCCGATAAAGCACTACAA
ACACATTCTCCTCTTTAGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCG
CCATATTTTCCTTAAAATGAAAGTTCATCCCCTGAATAAGACAAGCATCGATTATCCTAACAGTC
TCCTTTCTTTTCAAGATTGGGAAGCCAAACACATTGCTATTGTTAGGATACCCGACATTGATGCT
TTGGTGTCTCAAGAAAAGCTTTTCTTCGCGTCGTTTTTAATAGAATCAACGTTTGTCTCTTAAAT
ATGCCGAACATTAATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTC
TTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTTTACCACCAATCGT
TGTAAAGTCTAAGTTTATGCCTCAAATGAGACAAATATGGATTCTAGTAATGATCTTCATTCTTT
TTCCGATAAAGGACTACAAAACACGTTCTCCTCTTT
Found at i:2963 original size:474 final size:474
Alignment explanation
Indices: 1--3587 Score: 5217
Period size: 474 Copynumber: 7.6 Consensus size: 474
1 AGGACAAAAGGGACATTGAAGTTTTTC-TTTGCATGGAAATCTTTTCTTCGCCTATTTTCCTTAA
1 AGGACAAAA--GACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGCCTATTTTCCTTAA
*
65 AATTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTATCC-AACAGTCTCCTTTCTTTTCAAG
64 AATTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAG
*
129 ATTGGGAAGCCAAAACACATTGCTATTGTTAGAGATA--CG-CGTTG-TGCTTTGG-GTCTCAAG
129 ATTGGGAAGCCAAAACACATTGCTATTGTTAG-GATACCCGACATTGATGCTTTGGTGTCTCAAG
* *
189 AAAGGCCTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTTGTCTCTTAAATAAG--GAACTTT
193 AAAAGCTTTTCTTCACGTCGTTTTTGATAGAATCAACG-TTTGTCTCTTAAATAAGCCGAACTTT
*
252 GATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATTAGTCTTCTCATTAGG
257 AATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACA-TAGTCTTCTCATTAGG
* *
317 ATACACGATA-TGATGCTTTGGTTTCGCAACAAAGGC-TTTTCCCACCAATCATTGTAAAGCCTA
321 ATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTTTCCCACCAATCGTTGTAAAGTCTA
* * * * *
380 AGTTTGTGCCTCAACTGAGAC-AATATGGATTC---TAATGATCTTCATTCTTTTTCCGATAAAG
386 AGTTCGTGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTTCCGATAAAG
* * *
441 GACTAC-ATCACGTTCTCCACTTT
451 CACTACAAACACGTTCTCCTCTTT
* *
464 -GGACAAAAGACATTGAATTTTTTCTTTTGCATGGAAATCTTTTCTTCGCCCATTTTCCTTAAAA
1 AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGCCTATTTTCCTTAAAA
528 TTAAAGTTCATCCCCTGAATAAGACAAGCA-CGATTCT-CTAAACAGTCTCCTTTCTTTTCAAGA
66 TTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTCTCCT-AACAGTCTCCTTTCTTTTCAAGA
591 TTGGGAAGCC-AAACACTATTGCTATTGTTAGGATA-CCGACATTGATGCTTTGGTGTCTCAAGA
130 TTGGGAAGCCAAAACAC-ATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAGA
* * * * *
654 AAAG--TTTCTTCGCGTCATTTTTTAATAGAATCAACG-TTGTCTC-TAAATATGCCGAACATTA
194 AAAGCTTTTCTTCACGTC-GTTTTTGATAGAATCAACGTTTGTCTCTTAAATAAGCCGAACTTTA
*
715 ATACTCAAAACTAATCCTCATTC-TTTTAGATTTATGCA-CATAAACATAGTCTTCTCATTAGGA
258 ATACTC-AAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGA
* *
778 TACACGATATTG-TGCTTTGGTTTCGCAACAAA-GCTTTTTTACCCACCAATCATTGTAAAGCCT
322 TACACGATATTGATGCTTTGGTTTCGCAACAAAGGC-TTTTT-CCCACCAATCGTTGTAAAGTCT
* * * *
841 AAGTT-GTGCCTCAAATGAGACAAATATGGATTCTAATAATGATCTTCATTCTTTTTCCGATAAA
385 AAGTTCGTGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTTCCGATAAA
* * *
905 GGACTAACAATCACGTTCTCCACTTT
450 GCACT-ACAAACACGTTCTCCTCTTT
*
931 AGGAC-AAAGACATTGACGTTTTTCTTTTGCATGGAAATCTTTTC-TCGCCCTATTTTCCTTAAA
1 AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCG-CCTATTTTCCTTAAA
*
994 CTTAAAGTTCAATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCC-TTCTTTTCAAG
65 ATTAAAGTTC-ATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAG
*
1058 ATTAGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGAC-TTGATGCTTTGGTGTCTCAAGA
129 ATTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAGA
* * *
1122 AAAGCTTTTCTTCACGTCGTTTTTGATAGAATC-ATGTTTGTCTCTTAATTAAGCTGAACTTTAA
194 AAAGCTTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTGTCTCTTAAATAAGCCGAACTTTAA
*
1186 TACTCAAACTAATCGTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGATA
259 TACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGATA
* *
1251 CACGA-A-TGATGCTCTGGTTTCGCAACAAAGGTTTTTTTCCCACCAATCGTTGTAAAGTCTAAG
324 CACGATATTGATGCTTTGGTTTCGCAACAAAGG-CTTTTTCCCACCAATCGTTGTAAAGTCTAAG
* * *
1314 TTCGAT-CCTCAAATGAGACAAACACGAATTCTAGGAATGAACTTCATTCTTTTCCCGATAAAGC
388 TTCG-TGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTTCCGATAAAGC
1378 ACTACAAACACGTTCT-CTCTTT
452 ACTACAAACACGTTCTCCTCTTT
* *
1400 AGGACAACAGACATTGAAG-TTCTCTTTTGCATGGAAATCTTTTCTTCGCCCTATTTTCCTTAAA
1 AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCG-CCTATTTTCCTTAAA
* *
1464 ATTAAAGTTCATCCCCTG-ATAAGATAAGCATCTATTCTCCTAACAGTCTCCTTTC-TTTCAAGA
65 ATTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAGA
*
1527 TTGGGAAGCC-AAACACATTGCTATTGTTAGGATACCCAACATTGATGCTTTGGTGTCTCAAGAA
130 TTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAGAA
** * * * *
1591 AAGCTTTTCTTCGGGTCATTTTTAATAGAATCAACGTTTGTCTCTTAAATATGCCGAACATTAAT
195 AAGCTTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTGTCTCTTAAATAAGCCGAACTTTAAT
* *
1656 ACACAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATATTCTTCTCATTAGGATAC
260 ACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGATAC
* *
1721 ACGATATTGATGCTCTGGTTTCGCAACAAAGGTTTTTTTCCCACCAAATCGTTGTAAAGTCTAAG
325 ACGATATTGATGCTTTGGTTTCGCAACAAAGG-CTTTTTCCCACC-AATCGTTGTAAAGTCTAAG
* *
1786 TTCGCAT-CCTCAAATGAGACAAACACGGATTCTAGGAATGAACTTCGTTC-TTTTCCTGATAAA
388 TTCG--TGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTTCC-GATAAA
1849 GCACTACAAACAC-TTCTCCTCTTT
450 GCACTACAAACACGTTCTCCTCTTT
*
1873 AAGGAACAAAAGACATTGAAGTTTTTCTTTTGCTTGGAAATCTTTTCTTCGCTCTATTTTCCTT-
1 -AGG-ACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGC-CTATTTTCCTTA
* * * *
1937 AAATGAAAGTTCATCCCTGTGAATAAGACAAGCATCAATTCTCCTAACAGTCTCCTTTTTTTTCA
63 AAATTAAAGTTCATCCC-CTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCA
* *
2002 AGATTGGGAAGCTAAAACACATTGCTATTGTTAGGATACCCAACATTGATGCTTTGGTGTCTCAA
127 AGATTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAA
*
2067 GAAAAGCTTTTCTTCACGTCGTTTTTGATAGAATCAAACGTTTGTCTCTTAAATAAGCTGAACTT
192 GAAAAGCTTTTCTTCACGTCGTTTTTGATAGAATC-AACGTTTGTCTCTTAAATAAGCCGAACTT
* * * * *
2132 TAATACTCAAACTAATCCTCATTCTTTATAAATTTACGCACCGTAAACATATTCTTCTCATTAGG
256 TAATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGG
* * * *
2197 ATACACGATATTGATTCTCTGGTTTCGGAACAAAGGCTTTTTTCCCACCAATCGTTGTAAAGTCC
321 ATACACGATATTGATGCTTTGGTTTCGCAACAAAGGC-TTTTTCCCACCAATCGTTGTAAAGTCT
*
2262 AAGTTCGTGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTCCCGATAAA
385 AAGTTCGTGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTTCCGATAAA
* * *
2327 GCACTATAAACACATTCTCTTCTTT
450 GCACTACAAACACGTTCTCCTCTTT
* * *
2352 AGGACAAAAGACATTGAAGTTTTTCTTTTTCCTGGAAATCTTTTCTTCGCC-ATATTTGCTTAAA
1 AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGCCTAT-TTTCCTTAAA
* * * *
2416 ATGAACGTTCAT-CCTTGAATAAGACAAGCATCGATTATCCTAACAGTCTCCTTTCTTTTCAAGA
65 ATTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAGA
2480 TTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAGAA
130 TTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAGAA
** * *
2545 AAGCTTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTGTCTCTTAAATATCCCAAACATTAAT
195 AAGCTTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTGTCTCTTAAATAAGCCGAACTTTAAT
* *
2610 ACTCAAACTAATCCTCATTCTTTTTAGA-TTAGGCACCGT-AACTTAGTCTTCTCATTAGGATAC
260 ACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGATAC
* *
2673 ACGATA-TGATGCTTTGGTTTCGCTTACAAAGGCTTTTTACCACCAATCGTTGTAAAGTCTAAGT
325 ACGATATTGATGCTTTGGTTTCGC-AACAAAGGCTTTTTCCCACCAATCGTTGTAAAGTCTAAGT
** * * * * *
2737 TTATGCCTCAAATGAGAAAAATATGGATTCTAGTAATGATCTTCATTCTTTTTCCGATAAAGGAC
389 TCGTGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTTCCGATAAAGCAC
*
2802 TACAAAACACGTTCTCCTCTGT
454 TAC-AAACACGTTCTCCTCTTT
*
2824 AGGACAAAAGACATTGAAGTTTCTCTTTTGCATGGAAATCTTTTCTTCGCACATATTTTCCTT-A
1 AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGC-C-TATTTTCCTTAA
*
2888 AATTAAAGTTCATCCCCTGAATAAGATAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAG
64 AATTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAG
2953 ATTGGGAAGCCAAAACACATTGCTATGTGTTAGGATACCCGACATTGATGCCTTTGGTGTCTCAA
129 ATTGGGAAGCCAAAACACATTGCTAT-TGTTAGGATACCCGACATTGATG-CTTTGGTGTCTCAA
* * * * *
3018 GAAAAGCTTTTCTTCGCGTCATTTTTAATAGAATCAAACG-TTGTCTCTTCAATAAGCTGAACTT
192 GAAAAGCTTTTCTTCACGTCGTTTTTGATAGAATC-AACGTTTGTCTCTTAAATAAGCCGAACTT
* *
3082 TAATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCTTAAACTTAGTCTTCTCATTAGG
256 TAATACTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGG
* *
3147 ATACACGATATTGATGCTTTGGTTTCGCAATAAAGGCTTTTTTCCACC-ATCGTTGTAAAG-CTA
321 ATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTTTCCCACCAATCGTTGTAAAGTCTA
* * * *
3210 AGTTCGGGCCTCAAAT-AGAC-AACACGGATTTTAGGAATGAACTTCGTTCTTTTTCCCGATAAA
386 AGTTCGTGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTT-CCGATAAA
* *
3273 GCACTACAAACACATTCTCCTCTTC
450 GCACTACAAACACGTTCTCCTCTTT
* *
3298 AGGACAAAAGACATTGAAGTTTTTCTTTTGCTTGGAAATC-TTTCTTCGCTCTATTTTGCTTAAA
1 AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGC-CTATTTTCCTTAAA
* * * *
3362 ATGAACGTTCATCCCTTGAATAAGACAAGCATCGATCTATCCTAACAGTCTCCTTTCTTTTCAAG
65 ATTAAAGTTCATCCCCTGAATAAGACAAGCATCGAT-TCTCCTAACAGTCTCCTTTCTTTTCAAG
3427 ATTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTC-AGA
129 ATTGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAGA
* * *
3491 AAAGCTTTTCTTCGCGTCG-TTTTGATAGAATCAACGTTTGTCTCTTAAATAAGCGGAACTTTGA
194 AAAGCTTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTGTCTCTTAAATAAGCCGAACTTTAA
3555 TACTCAAACTAATCCTCATTCTTTTTAGATTTA
259 TACTCAAACTAATCCTCATTCTTTTTAGATTTA
Statistics
Matches: 2859, Mismatches: 183, Indels: 157
0.89 0.06 0.05
Matches are distributed among these distances:
459 3 0.00
460 84 0.03
461 153 0.05
462 87 0.03
463 41 0.01
464 12 0.00
465 33 0.01
466 5 0.00
467 106 0.04
468 191 0.07
469 207 0.07
470 213 0.07
471 253 0.09
472 152 0.05
473 158 0.06
474 271 0.09
475 217 0.08
476 161 0.06
477 119 0.04
478 126 0.04
479 136 0.05
480 131 0.05
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (474 bp):
AGGACAAAAGACATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCTTCGCCTATTTTCCTTAAAA
TTAAAGTTCATCCCCTGAATAAGACAAGCATCGATTCTCCTAACAGTCTCCTTTCTTTTCAAGAT
TGGGAAGCCAAAACACATTGCTATTGTTAGGATACCCGACATTGATGCTTTGGTGTCTCAAGAAA
AGCTTTTCTTCACGTCGTTTTTGATAGAATCAACGTTTGTCTCTTAAATAAGCCGAACTTTAATA
CTCAAACTAATCCTCATTCTTTTTAGATTTAGGCACCATAAACATAGTCTTCTCATTAGGATACA
CGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTTTCCCACCAATCGTTGTAAAGTCTAAGTTC
GTGCCTCAAATGAGACAAACACGGATTCTAGTAATGAACTTCATTCTTTTTCCGATAAAGCACTA
CAAACACGTTCTCCTCTTT
Done.