Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1264
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: 2224
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.24
Warning! 149 characters in sequence are not A, C, G, or T
Found at i:238 original size:132 final size:132
Alignment explanation
Indices: 8--360 Score: 476
Period size: 132 Copynumber: 2.7 Consensus size: 132
1 TTTAAGT
* * * * * *
8 CACCAAGCATTGTCTCCCTAAGCAACAGCGGAGTCGGTT-AAAGGTTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGTGGGTTGAAA-ATTGTAGATCTTATCTCCCTA
* * * * *
72 AGCAGTAGTGGAGTAGACCGAAGACGGCAAATCTTATCTTTCTAACATAGTGGGAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCTTTCCAACATAGTGGGAAGCAGATTGA
*
137 AGT
130 AGC
* * * *
140 CACCATGCATTTTTCTCCCTGA-CAGTAACGGAGTGGGTTGAAAATTGTAGATCTTATCTCCCTA
1 CACCAAGC-CTTGTCTCCCTGAGCAGCAACGGAGTGGGTTGAAAATTGTAGATCTTATCTCCCTA
*
204 AGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTGA
65 AGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCTTTCCAACATAGTGGGAAGCAGATTGA
269 AGC
130 AGC
* * **
272 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTTCTCTGGCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGTGGGTTGAAAATTGTAGATCTTATCTCCCTAA
*
337 GTAGTAGTGGAGCAGATCGAAGAC
66 GCAGTAGTGGAGCAGATCGAAGAC
361 GGTAAATNNN
Statistics
Matches: 193, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
131 11 0.06
132 169 0.88
133 13 0.07
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGTGGGTTGAAAATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCTTTCCAACATAGTGGGAAGCAGATTGAA
GC
Found at i:768 original size:132 final size:132
Alignment explanation
Indices: 517--1354 Score: 1180
Period size: 132 Copynumber: 6.3 Consensus size: 132
507 NNNNNNNNNN
* *
517 AGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGATCAGCAGCGGAGTGGGTTGAAAATTGTAGTT
1 AGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGAT
* * *
582 CTTATGTCCCTAAGCAGTTGTGGAGCAGATCGAAGACGGCAAATCTTATGTTTCCAAGATAGTGG
66 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
647 GA
131 GA
* *
649 AGCAAATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGAT
1 AGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGAT
* *
714 CTTATCTCCCTAAGCAGTAGTGGATG-AGATCGAAGACGGCAAATCCTATCTTTCCAAGATAGTT
66 CTTATCTCCCTAAGCAGTAGTGGA-GCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTG
778 GGA
130 GGA
* * * * *
781 AGCAGATTTAAGCCAGCAAGCCTTGGCTCCCTGAGCAGCAGCGGTGGGGGTTGAAAATTGTAGAT
1 AGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGAT
* * *
846 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATTTTTCCATA-ATAATG
66 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCA-AGATAGTG
910 GGA
130 GGA
* *
913 GGCAGATTTAAGTCACCAAGCCATGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGAT
1 AGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGAT
*
978 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-GGCGCAAATCTTATCTTTCCAAGATAGTG
66 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-GCAAATCTTATCTTTCCAAGATAGTG
1042 GGA
130 GGA
** * * * *
1045 AGCAGATTTAAGTCATAAAGCCTTGTCTCCCTGAGTAGTAGCGGAGTGGGTTGAAACTTGCAGAT
1 AGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGAT
* * * * * *
1110 CTTATCTCCCTAAGTAGTAGT-GATGCAGATCGATGACGACAAATCTTATTTTTCCAATATAGGG
66 CTTATCTCCCTAAGCAGTAGTGGA-GCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTG
1174 GGA
130 GGA
* * * * *
1177 AGTAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGTGGGTTAAAAATTGTAGAT
1 AGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGAT
* * * ** * *
1242 CTTATCTCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAATGTTATCTTTCCATGATAGTGG
66 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
1307 GA
131 GA
* * * *
1309 AGCAGACTTAAGTGACCAAGCCTTGTCACCCTAAGCAGCAGCGGAG
1 AGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAG
1355 CAGAACGAAG
Statistics
Matches: 629, Mismatches: 69, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
131 5 0.01
132 619 0.98
133 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (132 bp):
AGCAGATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGAT
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
GA
Found at i:1456 original size:220 final size:221
Alignment explanation
Indices: 1159--1574 Score: 611
Period size: 220 Copynumber: 1.9 Consensus size: 221
1149 CAAATCTTAT
* * * *
1159 TTTTCCAATATAGGGGGAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGT
1 TTTTCCAAGATAGGGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCCGAGCAGCAACGGAGT
* * * * * **
1224 GGGTTAAAAATTGTAGATCTTATCTCTCTAAG-AAGTAGTGGAGCAGATCGATGACAACAAATGT
66 GGGTTAAAAATTGTAGATCTTATATCCCTAAGCAA-TAGGGGAGCAGATAGAAGACAACAAACCT
* * *
1288 TATCTTTCCATGATAGTGGGAAGCAGACTTAAGTGACCAAGCCTTGTCACCCTAAGCAGCAGCGG
130 TATCTTTCCAAGATAGTGGGAAGCAAACTTAAGTCACCAAGCCTTGTCACCCTAAGCAGCAGCGG
1353 AGCAGAACGAAGACGGCAACTCTTTTC
195 AGCAGAACGAAGACGGCAACTCTTTTC
* * *
1380 TTTT-CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCCGAGCAGCAGCGGAGT
1 TTTTCCAAGATAGGGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCCGAGCAGCAACGGAGT
* *
1444 GGGTTGAAAATTGTAGATCTTATATCCCTAAGCAATAGGGGAGCAGATAGAAGACGACAAACCTT
66 GGGTTAAAAATTGTAGATCTTATATCCCTAAGCAATAGGGGAGCAGATAGAAGACAACAAACCTT
* * *
1509 ATCTTTCCAAGATAGTGGGAAGCAAATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA
131 ATCTTTCCAAGATAGTGGGAAGCAAACTTAAGTCACCAAGCCTTGTCACCCTAAGCAGCAGCGGA
1574 G
196 G
1575 GGGGTTGAAA
Statistics
Matches: 172, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
220 166 0.97
221 6 0.03
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (221 bp):
TTTTCCAAGATAGGGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCCGAGCAGCAACGGAGT
GGGTTAAAAATTGTAGATCTTATATCCCTAAGCAATAGGGGAGCAGATAGAAGACAACAAACCTT
ATCTTTCCAAGATAGTGGGAAGCAAACTTAAGTCACCAAGCCTTGTCACCCTAAGCAGCAGCGGA
GCAGAACGAAGACGGCAACTCTTTTC
Found at i:1502 original size:352 final size:352
Alignment explanation
Indices: 985--1706 Score: 1025
Period size: 352 Copynumber: 2.1 Consensus size: 352
975 GATCTTATCT
* * * *
985 CCCTAAGCAGTAGTGGAGCAGATCGAAGGGCGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAG
1 CCCTAAGCAGCAGCGGAGCAGAACGAAGCGCGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAG
* * * * *
1050 ATTTAAGTCATAAAGCCTTGTCTCCCTGAGTAGTAGCGGAGTGGGTTGAAACTTGCAGATCTTAT
66 ATTTAAGCCATAAAGCCTTGTCTCCCCGAGCAGCAGCGGAGTGGGTTGAAAATTGCAGATCTTAT
* * * * * * * * * *
1115 CTCCCTAAGTAGTAGTGATGCAGATCGATGACGACAAATCTTATTTTTCCAATATAGGGGGAAGT
131 ATCCCTAAGCAATAGGGATGCAGATAGAAGACGACAAACCTTATCTTTCCAAGATAGGGGGAAGC
* * *
1180 AGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGTGGGTTAAAAATTGTAGATCTT
196 AAATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGGGGGTTAAAAATTGTAGATCTT
* * * *
1245 ATCTCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAATGTTATCTTTCCATGATAGTGGGAA
261 ATCCCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAACGTTATATTTCCAAGATAGTGGGAA
**
1310 GCAGACTTAAGTGACCAAGCCTTGTCA
326 GCAGACTTAAGCCACCAAGCCTTGTCA
* * *
1337 CCCTAAGCAGCAGCGGAGCAGAACGAAGACG-GCAACTCTTTTCTTTTCAAGATAGTGGGAAGCA
1 CCCTAAGCAGCAGCGGAGCAGAACGAAG-CGCGCAAATCTTATCTTTCCAAGATAGTGGGAAGCA
* *
1401 GATTTAAGCCATCAAGCCTTGTCTCCCCGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTTA
65 GATTTAAGCCATAAAGCCTTGTCTCCCCGAGCAGCAGCGGAGTGGGTTGAAAATTGCAGATCTTA
*
1466 TATCCCTAAGCAATAGGGGA-GCAGATAGAAGACGACAAACCTTATCTTTCCAAGATAGTGGGAA
130 TATCCCTAAGCAATA-GGGATGCAGATAGAAGACGACAAACCTTATCTTTCCAAGATAGGGGGAA
* * *
1530 GCAAATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGTAGATC
194 GCAAATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGGGGGTTAAAAATTGTAGATC
* *
1595 TTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATTTCCAAGATAGTGGG
259 TTATCCCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAACGTTATATTTCCAAGATAGTGGG
* * *
1660 AAGCAGATTTAAGCCATCAAGCCTTGTCT
324 AAGCAGACTTAAGCCACCAAGCCTTGTCA
*
1689 CCCTGAGCAGCAGCGGAG
1 CCCTAAGCAGCAGCGGAG
1707 GGGGTTGAAA
Statistics
Matches: 325, Mismatches: 43, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
352 321 0.99
353 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (352 bp):
CCCTAAGCAGCAGCGGAGCAGAACGAAGCGCGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAG
ATTTAAGCCATAAAGCCTTGTCTCCCCGAGCAGCAGCGGAGTGGGTTGAAAATTGCAGATCTTAT
ATCCCTAAGCAATAGGGATGCAGATAGAAGACGACAAACCTTATCTTTCCAAGATAGGGGGAAGC
AAATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGGGGGTTAAAAATTGTAGATCTT
ATCCCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAACGTTATATTTCCAAGATAGTGGGAA
GCAGACTTAAGCCACCAAGCCTTGTCA
Found at i:1552 original size:484 final size:484
Alignment explanation
Indices: 853--1838 Score: 1444
Period size: 484 Copynumber: 2.0 Consensus size: 484
843 GATCTTATCT
* * * * *
853 CCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATTTTTCCATAATAATGGGAGGCAG
1 CCCTAAGCAGCAGCGGAGCAGAACGAAGACGGCAAATCTTATTTTTCCATAATAATGGGAAGCAG
* *
918 ATTTAAGTCACCAAGCCATGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTTAT
66 ATTTAAGCCACCAAGCCATGTCTCCCCGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTTAT
* * * * * *
983 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGGGCGCAAATCTTATCTTTCCAAGATAGTGGGAAGC
131 ATCCCTAAGCAATAGGGGAGCAGATAGAAGGACGCAAACCTTATCTTTCCAAGATAGTGGGAAGC
* * * * * *
1048 AGATTTAAGTCATAAAGCCTTGTCTCCCTGAGTAGTAGCGGAGTGGGTTGAAACTTGCAGATCTT
196 AAATTTAAGTCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGCAGATCTT
* * *
1113 ATCTCC-CTAAGTAGTAGT-GATGCAGATCGATGACGACAAATC-TTATTTTTCCAATATAGGGG
261 ATC-CCTCTAAGCAGTAGTGGA-GCAGATCGATGACGACAAA-CGTTATATTTCCAAGATAGGGG
* * *
1175 GAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGTGGGTTAAAAATTGTAG
323 GAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGGGGGTTAAAAATTGTAG
* * * *
1240 ATCTTATCTCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAATGTTATCTTTCCATGATAGT
388 ATCTTATCCCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAACGTTATATTTCCAAGATAGT
**
1305 GGGAAGCAGACTTAAGTGACCAAGCCTTGTCA
453 GGGAAGCAGACTTAAGCCACCAAGCCTTGTCA
* * *
1337 CCCTAAGCAGCAGCGGAGCAGAACGAAGACGGCAACTCTT-TTCTTTTCA-AGATAGTGGGAAGC
1 CCCTAAGCAGCAGCGGAGCAGAACGAAGACGGCAAATCTTATT-TTTCCATA-ATAATGGGAAGC
* *
1400 AGATTTAAGCCATCAAGCCTTGTCTCCCCGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTT
64 AGATTTAAGCCACCAAGCCATGTCTCCCCGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTT
1465 ATATCCCTAAGCAATAGGGGAGCAGATAGAA-GACGACAAACCTTATCTTTCCAAGATAGTGGGA
129 ATATCCCTAAGCAATAGGGGAGCAGATAGAAGGACG-CAAACCTTATCTTTCCAAGATAGTGGGA
* *
1529 AGCAAATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGTAGAT
193 AGCAAATTTAAGTCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGCAGAT
*
1594 CTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATTTCCAAGATAGTGG
258 CTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATTTCCAAGATAGGGG
* * *
1659 GAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGTAG
323 GAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGGGGGTTAAAAATTGTAG
* *
1724 ATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATTTCCAAGATAGT
388 ATCTTATCCCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAACGTTATATTTCCAAGATAGT
* * *
1789 GGGAAGCAGATTTAAGCCATCAAGCCTTGTCT
453 GGGAAGCAGACTTAAGCCACCAAGCCTTGTCA
*
1821 CCCTGAGCAGCAGCGGAG
1 CCCTAAGCAGCAGCGGAG
1839 GGGGTTGAAA
Statistics
Matches: 448, Mismatches: 48, Indels: 12
0.88 0.09 0.02
Matches are distributed among these distances:
483 9 0.02
484 437 0.98
485 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (484 bp):
CCCTAAGCAGCAGCGGAGCAGAACGAAGACGGCAAATCTTATTTTTCCATAATAATGGGAAGCAG
ATTTAAGCCACCAAGCCATGTCTCCCCGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTTAT
ATCCCTAAGCAATAGGGGAGCAGATAGAAGGACGCAAACCTTATCTTTCCAAGATAGTGGGAAGC
AAATTTAAGTCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGCAGATCTT
ATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATTTCCAAGATAGGGGGAA
GCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGGGGGTTAAAAATTGTAGATC
TTATCCCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAACGTTATATTTCCAAGATAGTGGG
AAGCAGACTTAAGCCACCAAGCCTTGTCA
Found at i:1802 original size:616 final size:615
Alignment explanation
Indices: 721--1970 Score: 1848
Period size: 616 Copynumber: 2.0 Consensus size: 615
711 GATCTTATCT
* * * *
721 CCCTAAGCAGTAGTGGATGAGATCGAAGACGGCAAATCCTATCTTTCCAAGATAGTTGGAAGCAG
1 CCCTAAGCAGCAGCGGA-GAGAACGAAGACGGCAAATCCTATCTTTCCAAGATAGTGGGAAGCAG
* *
786 ATTTAAGCCAGCAAGCCTTGGCTCCCTGAGCAGCAGCGGTGGGGGTTGAAAATTGTAGATCTTAT
65 ATTTAAGCCAGCAAGCCTTGGCTCCCCGAGCAGCAGCGGAGGGGGTTGAAAATTGTAGATCTTAT
* * * * * * * * *
851 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATTTTTCCATAATAATGGGAGGC
130 ATCCCTAAGCAATAGGGGAGCAGATAGAAGACGACAAACCTTATCTTTCCATAATAATGGGAAGC
* *
916 AGATTTAAGTCACCAAGCCATGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTT
195 AAATTTAAGTCACCAAGCCATGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGTAGATCTT
* *
981 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGGCGCAAATCTTATCTTTCCAAGATAGTGGGAA
260 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGACGCAAATCTTATATTTCCAAGATAGTGGGAA
* * * * *
1046 GCAGATTTAAGTCATAAAGCCTTGTCTCCCTGAGTAGTAGCGGAGTGGGTTGAAACTTGCAGATC
325 GCAGATTTAAGCCATAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGCAGATC
* * *
1111 TTATCTCCCTAAGTAGTAGTGATGCAGATCGATGACGACAAATCTTATTTTTCCAATATAGGGGG
390 TTATCTCCCTAAGCAGTAGTGATGCAGATCGATGACGACAAATCTTATATTTCCAAGATAGGGGG
* * *
1176 AAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGTGGGTTAAAAATTGTAGA
455 AAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGGGGGTTAAAAATTGTAGA
* * * *
1241 TCTTATCTCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAATGTTATCTTTCCATGATAGTG
520 TCTTATCCCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAACGTTATATTTCCAAGATAGTG
**
1306 GGAAGCAGACTTAAGTGACCAAGCCTTGTCA
585 GGAAGCAGACTTAAGCCACCAAGCCTTGTCA
* * * *
1337 CCCTAAGCAGCAGCGGAGCAGAACGAAGACGGCAACTCTTTTCTTTTCAAGATAGTGGGAAGCAG
1 CCCTAAGCAGCAGCGGAG-AGAACGAAGACGGCAAATCCTATCTTTCCAAGATAGTGGGAAGCAG
* * *
1402 ATTTAAGCCATCAAGCCTTGTCTCCCCGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTTAT
65 ATTTAAGCCAGCAAGCCTTGGCTCCCCGAGCAGCAGCGGAGGGGGTTGAAAATTGTAGATCTTAT
*
1467 ATCCCTAAGCAATAGGGGAGCAGATAGAAGACGACAAACCTTATCTTTCCA-AGATAGTGGGAAG
130 ATCCCTAAGCAATAGGGGAGCAGATAGAAGACGACAAACCTTATCTTTCCATA-ATAATGGGAAG
*
1531 CAAATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGTAGATCT
194 CAAATTTAAGTCACCAAGCCATGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGTAGATCT
*
1596 TATC-CCTCTAAGCAGTAGTGGAGCAGATCG-ATGACGACAAA-CGTTATATTTCCAAGATAGTG
259 TATCTCC-CTAAGCAGTAGTGGAGCAGATCGAAGGACG-CAAATC-TTATATTTCCAAGATAGTG
* *
1658 GGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGTA
321 GGAAGCAGATTTAAGCCATAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGCA
1723 GATCTTATC-CCTCTAAGCAGTAGTGGA-GCAGATCGATGACGACAAA-CGTTATATTTCCAAGA
386 GATCTTATCTCC-CTAAGCAGTAGT-GATGCAGATCGATGACGACAAATC-TTATATTTCCAAGA
* * * *
1785 TAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAA
448 TAGGGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGGGGGTTAAAAA
* *
1850 TTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATTTCCAA
513 TTGTAGATCTTATCCCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAACGTTATATTTCCAA
* * *
1915 GATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCT
578 GATAGTGGGAAGCAGACTTAAGCCACCAAGCCTTGTCA
*
1953 CCCTGAGCAGCAGCGGAG
1 CCCTAAGCAGCAGCGGAG
1971 GGGGTTGAAA
Statistics
Matches: 568, Mismatches: 58, Indels: 16
0.88 0.09 0.02
Matches are distributed among these distances:
615 12 0.02
616 554 0.98
617 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (615 bp):
CCCTAAGCAGCAGCGGAGAGAACGAAGACGGCAAATCCTATCTTTCCAAGATAGTGGGAAGCAGA
TTTAAGCCAGCAAGCCTTGGCTCCCCGAGCAGCAGCGGAGGGGGTTGAAAATTGTAGATCTTATA
TCCCTAAGCAATAGGGGAGCAGATAGAAGACGACAAACCTTATCTTTCCATAATAATGGGAAGCA
AATTTAAGTCACCAAGCCATGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGTAGATCTTA
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGACGCAAATCTTATATTTCCAAGATAGTGGGAAG
CAGATTTAAGCCATAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTTGAAAATTGCAGATCT
TATCTCCCTAAGCAGTAGTGATGCAGATCGATGACGACAAATCTTATATTTCCAAGATAGGGGGA
AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGGGGGTTAAAAATTGTAGAT
CTTATCCCTCTAAGAAGTAGTGGAGCAGATCGATGACAACAAACGTTATATTTCCAAGATAGTGG
GAAGCAGACTTAAGCCACCAAGCCTTGTCA
Found at i:2200 original size:132 final size:132
Alignment explanation
Indices: 1384--2192 Score: 1318
Period size: 132 Copynumber: 6.1 Consensus size: 132
1374 CTTTTCTTTT
* *
1384 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCCGAGCAGCAGCGGAGTGGGTT
1 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
* * * * * * *
1449 GAAAATTGTAGATCTTATATCC-CTAAGCAATAGGGGAGCAGATAGAAGACGACAAACCTTATCT
66 GAAAATTGTAGATCTTAT-CCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATAT
1513 TTC
130 TTC
* * *
1516 CAAGATAGTGGGAAGCAAATTTAAGTCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
1 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
1581 GAAAATTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATT
66 GAAAATTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATT
1646 TC
131 TC
1648 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
1 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
1713 GAAAATTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATT
66 GAAAATTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATT
1778 TC
131 TC
1780 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
1 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
1845 GAAAATTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATT
66 GAAAATTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATT
1910 TC
131 TC
1912 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
1 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
* * * * * * * *
1977 GAAAATTGTAGATCTTATATCC-CTAAGCAATAGGGGAGCAGATAGAAGACGGCAAACCTTATCT
66 GAAAATTGTAGATCTTAT-CCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATAT
2041 TTC
130 TTC
* * * * * * * *
2044 CAAGATAGGGGGAAGTAGATTTAAGCCACCAGGCAATTGTCTCCCTGA-CAGCAACGGAGTGGAT
1 CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGC-CTTGTCTCCCTGAGCAGCAGCGGAGGGGGT
2108 TGAAAATTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATAT
65 TGAAAATTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATAT
2173 TTC
130 TTC
2176 CAAGATAGTGGGAAGCA
1 CAAGATAGTGGGAAGCA
2193 TTTTTAAGTG
Statistics
Matches: 632, Mismatches: 41, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
131 4 0.01
132 614 0.97
133 14 0.02
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (132 bp):
CAAGATAGTGGGAAGCAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGGGGGTT
GAAAATTGTAGATCTTATCCCTCTAAGCAGTAGTGGAGCAGATCGATGACGACAAACGTTATATT
TC
Done.