Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011494.1 Corchorus capsularis cultivar CVL-1 contig11515, 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: 62159
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:149 original size:2 final size:2
Alignment explanation
Indices: 142--180 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
132 TTTGTAATGC
*
142 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
181 GAAGATCGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1983 original size:830 final size:831
Alignment explanation
Indices: 304--4692 Score: 6563
Period size: 830 Copynumber: 5.3 Consensus size: 831
294 TGATGAGCAA
* * *
304 GATGCTTAGTACTGCT-TTGATGAGATTGGTAATGGAACTTCACCACTATGGGTACCATCATCTA
1 GATGCTCAGTACTGCTATT-ATGAGATTGGTAATGGAACTCCACCACTATGGGTACCATAATCTA
* * * * *
368 AGTGATATTTCTCGGCAAGTGTGTCAAGCAGTTATGAA-AAGAATGCTAAAGGAGGCGGTAGGAT
65 AGTGCTATTTCTCGGCAAGTGCGTCAAGTAGTTAT-AAGAAGAATGCTAAAGGAAGCGGTAGGGT
** *
432 GTGGCACAGTTGGCGGATAGCGCGCCCTAGCAAGCGCTGGCACGGCCCGCACGGGAACAAGCTTA
129 GTGGCACAGTTGGCGGACGGCGCGCCCTGGCAAGCGCTGGCACGGCCCGCACGGGAACAAGCTTA
* **
497 CAATGGTTAATGTCGGAATACAAAGGCAAGAAGGAAAGAACGAAGACAATAGTACCAAAGCCAAA
194 CGATGGTTAATGTCGGAATACAAAGAAAAGAAGGAAAGAACGAAGACAATAGTACCAAAGCCAAA
*
562 AACGAAGACCGTAATTCTGGACATCTTGGTGAAGGGTTGGCTTTTTTACTATTCCTCTCTTTTTT
259 AACGAAGACCGCAATTCTGGACATCTTGGTGAAGGGTTGGCTTTTTTACTATTCCTCTCTTTTTT
* * *
627 GGTGAGCCCTTTATTTGTCTTCGTCTGTTGTACAATTTCACCTAAATAGTTTGTACCCTGGATTT
324 GGTG-GGCCTTTATTTGTCTTCGTCTGTTGTACCATCTCACCTAAATAGTTTGTACCCTGGATTT
692 TATTTGTC-----TTTTTTTAGTGGATAATAATTACCTTTATTGTTTTTCAAATACATACATATA
388 TATTTGTCTTTGTTTTTTTTAGTGGATAATAATTACCTTTATTG--TTT----T---T-C-----
* *
752 TATATATATATATATTGAAAGAAAGCTTTTCAATGTGTACTTTTTCATAACCCCTCAAGCTCTCT
438 -ATATATATATATATTGAATGAAAGCTTTTCAATGTGTGCTTTTTCATAACCCCTCAAGCTCTCT
* * ** *
817 CATGTTTTGTTATATATTACAAACCTTAGTATAAATTTTATTCATGGTTTTATAGTAATTTTACT
502 CATGTTTTGTTCTTTATTACAAAATTTAGTACAAATTTTATTCATGGTTTTATAGTAATTTTACT
882 TGAGAAATAACATATTGTATAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAA
567 TGAGAAATAACATATTGTATAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAA
* *
947 GTTTTATTTCGAACGTTACTCAACTTTAAGATAAAGATGATGGTTCTGATATCTTTAAGTATGAA
632 GTTTTATTTCGAACGTTACTCCACTTTAAGATAAAGATGATGGCTCTGATATCTTTAAGTATGAA
*
1012 AAGTAAAAATATTCAAAACCATAAATTTAATTACCCTCTAATTGAAAGATCTTCACTTACCAATC
697 AAGTAAAAATATTCAAAACCATAAATTTAATTACCCTCTAATTGAAAGATCTTCACTTACCAGTC
* * *
1077 CTCCCAGAAATTTACAAATTACCTTTTTTGCAACGTTACAACATTGTTCATCTTGTCACTGTTGT
762 CTCCCAGAAATTTACAAATTACCATTTTTGCAACGTTACAGCATTGTTCATCTCGTCACTGTTGT
1142 CTGCT
827 CTGCT
1147 GATGCTCAGTACTGCTATTATGAGATTGGTAATGGAACTCCACCACTATGGGTACCATAATCTAA
1 GATGCTCAGTACTGCTATTATGAGATTGGTAATGGAACTCCACCACTATGGGTACCATAATCTAA
* * *
1212 GTGCTATTTCTCGGTAAGTGTGTCAAGTAGTTATAAGAAGAATGATAAAGGAAGCGGTAGGGTGT
66 GTGCTATTTCTCGGCAAGTGCGTCAAGTAGTTATAAGAAGAATGCTAAAGGAAGCGGTAGGGTGT
* *
1277 GGCACAGTTGGCGGACGGCGCGCCCTGGCAAGTGCAGGCACGGCCCGCACGGGAACAAGCTTACG
131 GGCACAGTTGGCGGACGGCGCGCCCTGGCAAGCGCTGGCACGGCCCGCACGGGAACAAGCTTACG
*
1342 ATGGTTAATGTCGGAATACAAAGACAAGAAGGAAAGAACGAAGACAATAGTACCAAAGCCAAAAA
196 ATGGTTAATGTCGGAATACAAAGAAAAGAAGGAAAGAACGAAGACAATAGTACCAAAGCCAAAAA
* * *
1407 CGAAGACCGCAATTCTGCACATCTTGGTGAAGGGTTGGCTTTTTTAGTATTCCTCTCTCTTTTGG
261 CGAAGACCGCAATTCTGGACATCTTGGTGAAGGGTTGGCTTTTTTACTATTCCTCTCTTTTTTGG
* * ** *
1472 TGGGTCCTTTATTTGGCTTCGTTTGTTGTACCATCAAACCTAAATAGTTTGTAACCTGGATTTTA
326 TGGG-CCTTTATTTGTCTTCGTCTGTTGTACCATCTCACCTAAATAGTTTGTACCCTGGATTTTA
1537 TTTGTCTTTGTTTTTTTTAGTGGATAATAATTACCTTTATTGTTTTTCATATATATAT-T-TTGA
390 TTTGTCTTTGTTTTTTTTAGTGGATAATAATTACCTTTATTGTTTTTCATATATATATATATTGA
*
1600 ATGAAAGCTTTTCAATGTGTGCTTTTCCATAACCCCTCAAGCTCTCTCATGTTTTGTTCTTTATT
455 ATGAAAGCTTTTCAATGTGTGCTTTTTCATAACCCCTCAAGCTCTCTCATGTTTTGTTCTTTATT
1665 ACAAAATTTAGTACAAATTTTATTCATGGTTTTATAGTAATTTTACTTGAGAAATAACATATTGT
520 ACAAAATTTAGTACAAATTTTATTCATGGTTTTATAGTAATTTTACTTGAGAAATAACATATTGT
* *
1730 ATAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAAATTTTATTTTGAACGTTA
585 ATAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAAGTTTTATTTCGAACGTTA
* * *
1795 CTCCACTTTAAGATAAAGAAGATGGCTCTGATATCTTTAACTATGAAAAGTAAAAATCTTCAAAA
650 CTCCACTTTAAGATAAAGATGATGGCTCTGATATCTTTAAGTATGAAAAGTAAAAATATTCAAAA
* *
1860 CCATAAATTTAATTACCCTATAATTGAAAGATCTTAACTTACCAGTCCTCCCAGAAATTTACAAA
715 CCATAAATTTAATTACCCTCTAATTGAAAGATCTTCACTTACCAGTCCTCCCAGAAATTTACAAA
* * * *
1925 TTACCATTTTTGTAACATTACAGCGTTGTTCATCTCGTCACTGTTGTCTACT
780 TTACCATTTTTGCAACGTTACAGCATTGTTCATCTCGTCACTGTTGTCTGCT
* * *
1977 GATGCTCAGTACTGCTATTATGAGATTGGTCATGGAAATCCACCACTATGGGTACCATAATCTAT
1 GATGCTCAGTACTGCTATTATGAGATTGGTAATGGAACTCCACCACTATGGGTACCATAATCTAA
* * * * * *
2042 GTTCTATTTCTTGGCAAGTGCGTCAAGTAGTTAAAAGAATAATGCTAAATGAAGCTGTAGGGTGT
66 GTGCTATTTCTCGGCAAGTGCGTCAAGTAGTTATAAGAAGAATGCTAAAGGAAGCGGTAGGGTGT
* **
2107 GGCATAGTTGGC--A-------AAC-GGC--GCGCTGGCACGGCCCGCACGGGAACAAGCTTACG
131 GGCACAGTTGGCGGACGGCGCGCCCTGGCAAGCGCTGGCACGGCCCGCACGGGAACAAGCTTACG
** * *
2160 ATGGTTAATGTCGGTGTACAAAGAAAAGAAGGAAAGAACAAAGACAAAAGTACCAAAG-CAAGAA
196 ATGGTTAATGTCGGAATACAAAGAAAAGAAGGAAAGAACGAAGACAATAGTACCAAAGCCAA-AA
*** * *
2224 ACGAAGACTATAATTCTGGACATCTTGGTGAAGGGTTGGCTCTTTTACTATTCCTTTCTTTTTTG
260 ACGAAGACCGCAATTCTGGACATCTTGGTGAAGGGTTGGCTTTTTTACTATTCCTCTCTTTTTTG
* *
2289 GTGGGCCCTTTATTTGTCTTTGTCTGTTGTACCATCTCACCTAAATAGTTTGTACCCTAGATTTT
325 GTGGG-CCTTTATTTGTCTTCGTCTGTTGTACCATCTCACCTAAATAGTTTGTACCCTGGATTTT
* *
2354 ATTTGTC--TG-CTTTTTTAGTGGATAATAATTACCTTTATCGGTTTTTTAAAAAAAACACATAT
389 ATTTGTCTTTGTTTTTTTTAGTGGATAATAATTACCTTTAT-TG-TTTTT----------CATAT
2416 ATATAGATATATTGAATGAAAGCTTTTCAATGTGTGCTTTTTCATAACCCCTCAAG--CTCTCAT
442 ATAT--ATATATTGAATGAAAGCTTTTCAATGTGTGCTTTTTCATAACCCCTCAAGCTCTCTCAT
*
2479 GTTTTGTTCTTTATTACAATATTTAGTACAAATTTTATTCATGGTTTTATAGTAATTTTACTTGA
505 GTTTTGTTCTTTATTACAAAATTTAGTACAAATTTTATTCATGGTTTTATAGTAATTTTACTTGA
2544 GAAATAACATATTGTATAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAAGTT
570 GAAATAACATATTGTATAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAAGTT
* * *
2609 TTGTTTCGAACGTTACTCCACTTTAAGATAAAGATGATGGCTTTAATATCTTTAAGTATGAAAAG
635 TTATTTCGAACGTTACTCCACTTTAAGATAAAGATGATGGCTCTGATATCTTTAAGTATGAAAAG
* * * *
2674 TTAAAATATTCAAAACCATAAATTTAATTACTCTCTAATTGAGAGATCTTCACTTACCTGTCCTC
700 TAAAAATATTCAAAACCATAAATTTAATTACCCTCTAATTGAAAGATCTTCACTTACCAGTCCTC
* *
2739 TCAGAAATTTACAAATTACCA-TTTTGCAACGTTACAACATTGTTCATCTCGTCACTGTTGTCTG
765 CCAGAAATTTACAAATTACCATTTTTGCAACGTTACAGCATTGTTCATCTCGTCACTGTTGTCTG
*
2803 TT
830 CT
* * * * *
2805 GATGTTCAGTATTTCTATTATGAGATTGGTAATGGAACTCAACCACTATAGGTACCATAATCTAA
1 GATGCTCAGTACTGCTATTATGAGATTGGTAATGGAACTCCACCACTATGGGTACCATAATCTAA
* *
2870 GTGCTATTTCTCGGCAAGTGTGTCAAGTAGTTATAAGAAGAATGCTAAAGGAAGCAGTAGGGTGT
66 GTGCTATTTCTCGGCAAGTGCGTCAAGTAGTTATAAGAAGAATGCTAAAGGAAGCGGTAGGGTGT
* * *
2935 GGCACAGTTGGCGGACGGTGCGCCCTGGCAAACGCTGGCACAGCCCGCACGGGAACAAGCTTACG
131 GGCACAGTTGGCGGACGGCGCGCCCTGGCAAGCGCTGGCACGGCCCGCACGGGAACAAGCTTACG
*
3000 ATGGTTAATGTCGGAATACAAAGAAAAGAAGGAAAGAACGAAGACAATAGTACCAAAGCCAGAAA
196 ATGGTTAATGTCGGAATACAAAGAAAAGAAGGAAAGAACGAAGACAATAGTACCAAAGCCAAAAA
*
3065 CGAAGACCGCAATTCTGGACATCTTGGTGAAGGGTTGGCTTTTTTACTATTCTTCTCTTTTTTGG
261 CGAAGACCGCAATTCTGGACATCTTGGTGAAGGGTTGGCTTTTTTACTATTCCTCTCTTTTTTGG
*
3130 TGGGCCTTTTATTTGTCTTCGTCTGTTGTACCATCTCACCTAAATAGTTTGTACCCTAGATTTTA
326 TGGGCC-TTTATTTGTCTTCGTCTGTTGTACCATCTCACCTAAATAGTTTGTACCCTGGATTTTA
* *
3195 TTTGTCTTTGTTTTTTTTAGTGCATAATAATTACCTTTTTTGTTTTTCATATATATAT-T-TTGA
390 TTTGTCTTTGTTTTTTTTAGTGGATAATAATTACCTTTATTGTTTTTCATATATATATATATTGA
* *
3258 ATGAAAGCTTTTCAATGTGTGCTTTTTCAAAACCCCTCAAGCTTTCTCATGTTTTGTTCTTTATT
455 ATGAAAGCTTTTCAATGTGTGCTTTTTCATAACCCCTCAAGCTCTCTCATGTTTTGTTCTTTATT
3323 ACAAAATTTAGTACAAATTTTATTCATGGTTTTATAGTAATTTTACTTGAGAAATAACATATTGT
520 ACAAAATTTAGTACAAATTTTATTCATGGTTTTATAGTAATTTTACTTGAGAAATAACATATTGT
3388 ATAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAAGTTTTATTTCGAACGTTA
585 ATAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAAGTTTTATTTCGAACGTTA
* *
3453 CTCCACTTTAAGATAAAGATGATGGCTCTGATATCTTTAAGTTTGAAAAGTAAAAATCTTCAAAA
650 CTCCACTTTAAGATAAAGATGATGGCTCTGATATCTTTAAGTATGAAAAGTAAAAATATTCAAAA
3518 CCATAAATTTAATTACCCTCTAATTGAAAGATCTTCACTTACCAGTCCTCCCAGAAATTTACAAA
715 CCATAAATTTAATTACCCTCTAATTGAAAGATCTTCACTTACCAGTCCTCCCAGAAATTTACAAA
* * *
3583 TTACCATTTTTGCAACTTTACGGCATTGTTCATCTCGTCACTGTTATCTGCT
780 TTACCATTTTTGCAACGTTACAGCATTGTTCATCTCGTCACTGTTGTCTGCT
* * *
3635 GATGCTCAGTACTGCTATTATGAGATTGGTAATGGAATTCCACCACTATGGGTATCATAATATAA
1 GATGCTCAGTACTGCTATTATGAGATTGGTAATGGAACTCCACCACTATGGGTACCATAATCTAA
3700 GTGCTATTTCTCGGCAAGTGCGTCAAGTAGTTATAAGAAGAATGCTAAAGGAAGCGGTAGGGTGT
66 GTGCTATTTCTCGGCAAGTGCGTCAAGTAGTTATAAGAAGAATGCTAAAGGAAGCGGTAGGGTGT
*
3765 GGCACAGTTGGCGGACGGCGCGCCCTGTCAAGCGCTGGCACGGCCCGCACGGGAACAAGCTTACG
131 GGCACAGTTGGCGGACGGCGCGCCCTGGCAAGCGCTGGCACGGCCCGCACGGGAACAAGCTTACG
* *
3830 ATGGTTAATGTCGGAATACAAAGAAAATAAGGAAAGAACGAAGACAATAGTACCAAAGCCAGAAA
196 ATGGTTAATGTCGGAATACAAAGAAAAGAAGGAAAGAACGAAGACAATAGTACCAAAGCCAAAAA
* * * **
3895 CGAAGACCGCAATTCTGGACATCTTGGTGAAGCGTTGGCTCTTTTACTAATCCTCTAGTTTTTGG
261 CGAAGACCGCAATTCTGGACATCTTGGTGAAGGGTTGGCTTTTTTACTATTCCTCTCTTTTTTGG
* * *
3960 TGGGCCTTTATTTGTTTTCGTTTGTTATACCATCTCACCTAAATAGTTTGTACCCTGGATTTTAT
326 TGGGCCTTTATTTGTCTTCGTCTGTTGTACCATCTCACCTAAATAGTTTGTACCCTGGATTTTAT
4025 TTGTCTTTGTTTTTTTTAGTGGATAATAATTACCTTTATTGTTTTTCAGATATATATATATATAT
391 TTGTCTTTGTTTTTTTTAGTGGATAATAATTACCTTTATTGTTTTTC------ATATATATATAT
* *
4090 ATTGAATGAATGCTTTTCAATATGTGCTTTTTCATAACCCCTCAAGCTCTCTCATGTTTTGTTCT
450 ATTGAATGAAAGCTTTTCAATGTGTGCTTTTTCATAACCCCTCAAGCTCTCTCATGTTTTGTTCT
* * * *
4155 TTATTACAATATTTAGTTCAAATTTTATTCATGATTTTATAGTAATTTTACTTGAGAATTAACAT
515 TTATTACAAAATTTAGTACAAATTTTATTCATGGTTTTATAGTAATTTTACTTGAGAAATAACAT
* * * * * *
4220 ATTGTAAAGATTACTAAAGTGTTTGGAAGTGTAAACTTATTAATTATTTAAAGTTTTATTTCAAA
580 ATTGTATAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAAGTTTTATTTCGAA
* *
4285 CGTTACCCCACTTTAAGATAAAGATGATGGCTCTGATATCTTTAAATATGAAAAGTAAAAATATT
645 CGTTACTCCACTTTAAGATAAAGATGATGGCTCTGATATCTTTAAGTATGAAAAGTAAAAATATT
* *
4350 AAAAACCATAAATTTAATTACCCTCTAATTGAAAAATCTTCACTTACCAGTCCTCCCAGAAATTT
710 CAAAACCATAAATTTAATTACCCTCTAATTGAAAGATCTTCACTTACCAGTCCTCCCAGAAATTT
* **
4415 ACAAATTACCATTTTTGCAGCGTTATGGCATTGTTCATCTCGTCACTGTTGTCTGCT
775 ACAAATTACCATTTTTGCAACGTTACAGCATTGTTCATCTCGTCACTGTTGTCTGCT
* * * * * *
4472 AAGGAAGATGCTCAATACTGCTCTGATAAGATTGGTAATGGAACTCCACCACAATGGGTACCATT
1 ------GATGCTCAGTACTGCTATTATGAGATTGGTAATGGAACTCCACCACTATGGGTACCATA
* * * **
4537 ATCTAAGTGCTATTTCTCGGCAAGTGCGTCAAGTAGTTTTAAGAAGAATGCTAAAAGAGGTTGTA
60 ATCTAAGTGCTATTTCTCGGCAAGTGCGTCAAGTAGTTATAAGAAGAATGCTAAAGGAAGCGGTA
* * * * * ** * *
4602 GGGTGTGGCACAATTGGCAGACGGTGCACCCTGGCAAGCG-TCGACACATCCCGCACGGTAATAA
125 GGGTGTGGCACAGTTGGCGGACGGCGCGCCCTGGCAAGCGCT-GGCACGGCCCGCACGGGAACAA
* * * *
4666 GTTTAGGTTGGTTAATGTCGAAATACA
189 GCTTACGATGGTTAATGTCGGAATACA
4693 TTTGGATTTG
Statistics
Matches: 3237, Mismatches: 249, Indels: 120
0.90 0.07 0.03
Matches are distributed among these distances:
815 28 0.01
816 3 0.00
817 8 0.00
818 208 0.06
820 3 0.00
821 1 0.00
827 53 0.02
828 167 0.05
829 652 0.20
830 837 0.26
831 54 0.02
832 10 0.00
835 10 0.00
836 1 0.00
837 358 0.11
838 4 0.00
839 3 0.00
840 215 0.07
841 7 0.00
842 8 0.00
843 571 0.18
844 2 0.00
846 3 0.00
848 31 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (831 bp):
GATGCTCAGTACTGCTATTATGAGATTGGTAATGGAACTCCACCACTATGGGTACCATAATCTAA
GTGCTATTTCTCGGCAAGTGCGTCAAGTAGTTATAAGAAGAATGCTAAAGGAAGCGGTAGGGTGT
GGCACAGTTGGCGGACGGCGCGCCCTGGCAAGCGCTGGCACGGCCCGCACGGGAACAAGCTTACG
ATGGTTAATGTCGGAATACAAAGAAAAGAAGGAAAGAACGAAGACAATAGTACCAAAGCCAAAAA
CGAAGACCGCAATTCTGGACATCTTGGTGAAGGGTTGGCTTTTTTACTATTCCTCTCTTTTTTGG
TGGGCCTTTATTTGTCTTCGTCTGTTGTACCATCTCACCTAAATAGTTTGTACCCTGGATTTTAT
TTGTCTTTGTTTTTTTTAGTGGATAATAATTACCTTTATTGTTTTTCATATATATATATATTGAA
TGAAAGCTTTTCAATGTGTGCTTTTTCATAACCCCTCAAGCTCTCTCATGTTTTGTTCTTTATTA
CAAAATTTAGTACAAATTTTATTCATGGTTTTATAGTAATTTTACTTGAGAAATAACATATTGTA
TAGATCACTAAAGTGTTAGGAAGTGTAAACTAATTAATCATTTAAAGTTTTATTTCGAACGTTAC
TCCACTTTAAGATAAAGATGATGGCTCTGATATCTTTAAGTATGAAAAGTAAAAATATTCAAAAC
CATAAATTTAATTACCCTCTAATTGAAAGATCTTCACTTACCAGTCCTCCCAGAAATTTACAAAT
TACCATTTTTGCAACGTTACAGCATTGTTCATCTCGTCACTGTTGTCTGCT
Found at i:7150 original size:371 final size:370
Alignment explanation
Indices: 6450--7180 Score: 945
Period size: 371 Copynumber: 2.0 Consensus size: 370
6440 TATTAGGATG
* * * *
6450 TATTACTCCTTTAAAGATAAAGCACATACAAAGAAATGTCGCTAATCCGAAAATTTGGGATAGTA
1 TATTACTCCTTTAAAAATAAAGCACATACAAAGAAACGTCGCTAACCCGAAAATTTGGAATAGTA
* * * * *
6515 TCAATGGCATTTGCTTCTGATTTGTTGTGTCATCCTTTATGCCACAGCTGGAGACATCTGCCCTG
66 TCAATGACATTGGCTTCTGATTTGTTGTGTCATACTTTATGCCACAACTGAAGACATCTGCCCTG
* * * * **
6580 TCCTACGACTTTTGTTTCTCCATTTCAGGGTCAAATTGAGTTTTGATTTCATAAAACCCAAGAAA
131 TCCCACGACTTCTATTTCTCCATTTCAGGGTCAAATTAAGTTTTGATCCCATAAAACCCAAGAAA
* *
6645 GCCAAATTGTCCCACAAATAAAAAAAAATGCTATCAAGCAACACACGATGCGTTTAAACAAAGTC
196 GCCAAATTGTCCCACAAATAAAAAAAAATGCAATCAAGCAACACACGATGCGTTAAAACAAAGTC
* * * *
6710 GCCTCCTTCCTAAGCAAATTGTCGGTGTTTGAATCCCGAGGCCCCCGCATTATTTCAATGTTTGA
261 GCCTCCTTCCTAAGCAAAATGTCAGTGATTGAATCCCAAGGCCCCCGCATTATTTCAATGTTTGA
*
6775 ATCCCAATG-TTTCTACTTTGTTTGGAATTGTTTAAAATTTTCTCT
326 ATCCCAAGGCTTT-TACTTTGTTTGGAATTGTTTAAAATTTTCTCT
* * * *
6820 TATTAGTCCTTTAAAAATTAAGCACATACAAAGAAACGTTGCTAACCCGAAAATTTTGAATAGTA
1 TATTACTCCTTTAAAAATAAAGCACATACAAAGAAACGTCGCTAACCCGAAAATTTGGAATAGTA
* *
6885 TTAATGACATTGGCTTCTGATTTGTTGTGTCAATACTTTATGCCACAACTGAAGAGAT-TGCCCC
66 TCAATGACATTGGCTTCTGATTTGTTGTGTC-ATACTTTATGCCACAACTGAAGACATCTG-CCC
* **
6949 TGTCCC-CAGGCTTCTATTTCTCCATCTT-AGGGTCGGATTAAGTTTTGATCCCA-AAAACCCAA
129 TGTCCCAC-GACTTCTATTTCTCCAT-TTCAGGGTCAAATTAAGTTTTGATCCCATAAAACCCAA
* * * * * *
7011 GATAGCCAAATTGTCCCATAGATTAAAAAAAAATTCAATCAAG-ATACGCATGATGCGTTAAAAC
192 GAAAGCCAAATTGTCCCACA-AATAAAAAAAAATGCAATCAAGCA-ACACACGATGCGTTAAAAC
* * *** *
7075 AGAGTTGCCTCCTTCCTAAGCAAAATGTCAGTGATTGAATCCCAAGGCCTTTGCATCT-TTTCGA
255 AAAGTCGCCTCCTTCCTAAGCAAAATGTCAGTGATTGAATCCCAAGGCCCCCGCAT-TATTTCAA
*
7139 TGTTTGAATCCCAAGGCTTTTATTTTGTTTGGAATTGTTTAA
319 TGTTTGAATCCCAAGGCTTTTACTTTGTTTGGAATTGTTTAA
7181 GCCATTGATT
Statistics
Matches: 309, Mismatches: 44, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
370 116 0.38
371 187 0.61
372 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (370 bp):
TATTACTCCTTTAAAAATAAAGCACATACAAAGAAACGTCGCTAACCCGAAAATTTGGAATAGTA
TCAATGACATTGGCTTCTGATTTGTTGTGTCATACTTTATGCCACAACTGAAGACATCTGCCCTG
TCCCACGACTTCTATTTCTCCATTTCAGGGTCAAATTAAGTTTTGATCCCATAAAACCCAAGAAA
GCCAAATTGTCCCACAAATAAAAAAAAATGCAATCAAGCAACACACGATGCGTTAAAACAAAGTC
GCCTCCTTCCTAAGCAAAATGTCAGTGATTGAATCCCAAGGCCCCCGCATTATTTCAATGTTTGA
ATCCCAAGGCTTTTACTTTGTTTGGAATTGTTTAAAATTTTCTCT
Found at i:10585 original size:17 final size:17
Alignment explanation
Indices: 10563--10595 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10553 CACCAACAGT
10563 CAAATAAGCCCCTAAAC
1 CAAATAAGCCCCTAAAC
10580 CAAATAAGCCCCTAAA
1 CAAATAAGCCCCTAAA
10596 TTACCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.33, G:0.06, T:0.12
Consensus pattern (17 bp):
CAAATAAGCCCCTAAAC
Found at i:12697 original size:1 final size:1
Alignment explanation
Indices: 12691--12728 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
12681 CCATTTGATG
12691 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12729 CTAAGTCCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13047 original size:41 final size:41
Alignment explanation
Indices: 12998--13097 Score: 200
Period size: 41 Copynumber: 2.4 Consensus size: 41
12988 TAGTACGATG
12998 AATCAGAAGATGCTTGTGTTGCTTTCTTGGTGCCAAAAAAA
1 AATCAGAAGATGCTTGTGTTGCTTTCTTGGTGCCAAAAAAA
13039 AATCAGAAGATGCTTGTGTTGCTTTCTTGGTGCCAAAAAAA
1 AATCAGAAGATGCTTGTGTTGCTTTCTTGGTGCCAAAAAAA
13080 AATCAGAAGATGCTTGTG
1 AATCAGAAGATGCTTGTG
13098 GCAATGAACC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (41 bp):
AATCAGAAGATGCTTGTGTTGCTTTCTTGGTGCCAAAAAAA
Found at i:15108 original size:52 final size:52
Alignment explanation
Indices: 15035--15139 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
15025 GTTTCTCTCC
15035 CAACAAGTGGTATCAGGGCTCGGTTAGACTCGATCGGTGAGGCCCATGAGCA
1 CAACAAGTGGTATCAGGGCTCGGTTAGACTCGATCGGTGAGGCCCATGAGCA
*
15087 CAACAAGTGGTAT-TGGAGCTCGGTTAGACTCGATCGGTGAGGCCCATGAGCA
1 CAACAAGTGGTATCAGG-GCTCGGTTAGACTCGATCGGTGAGGCCCATGAGCA
15139 C
1 C
15140 GGTGAACCTG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 2 0.04
52 49 0.96
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (52 bp):
CAACAAGTGGTATCAGGGCTCGGTTAGACTCGATCGGTGAGGCCCATGAGCA
Found at i:16452 original size:2 final size:2
Alignment explanation
Indices: 16445--16524 Score: 54
Period size: 2 Copynumber: 39.5 Consensus size: 2
16435 ACATTAATTG
* * **
16445 AT AT AT AT AT AC AT AC AT AT AT AT AT AT AT GG AT AT AT AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* ** * *
16488 -T AG AT AT CG GT TT AT AT AT AT AT AT AT AT ACT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A
16525 GTTGGCCCCC
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
1 1 0.02
2 55 0.93
3 3 0.05
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (2 bp):
AT
Found at i:23238 original size:15 final size:15
Alignment explanation
Indices: 23218--23248 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23208 TAGTTATTTG
*
23218 TTTTTACCATAGCCT
1 TTTTTACCATACCCT
23233 TTTTTACCATACCCT
1 TTTTTACCATACCCT
23248 T
1 T
23249 GAAAACCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.29, G:0.03, T:0.48
Consensus pattern (15 bp):
TTTTTACCATACCCT
Found at i:25130 original size:16 final size:16
Alignment explanation
Indices: 25109--25160 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
25099 TATTGACAAT
25109 TAATATGATATATATA
1 TAATATGATATATATA
25125 TAATATGATATATATTA
1 TAATATGATATATA-TA
* *
25142 TTATATAATA-ATA-A
1 TAATATGATATATATA
25156 TAATA
1 TAATA
25161 ATAATAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 5 0.16
16 17 0.53
17 10 0.31
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (16 bp):
TAATATGATATATATA
Found at i:25152 original size:3 final size:3
Alignment explanation
Indices: 25146--25172 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25136 ATATTATTAT
25146 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
25173 TATTAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25608 original size:12 final size:12
Alignment explanation
Indices: 25591--25617 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25581 TAATATTAGA
25591 TATATATATAAT
1 TATATATATAAT
25603 TATATATATAAT
1 TATATATATAAT
25615 TAT
1 TAT
25618 TAAACGGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATATATAAT
Found at i:29173 original size:20 final size:20
Alignment explanation
Indices: 29148--29190 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
29138 ACCCGACATT
29148 TGACTCAATGATTCTCTGTA
1 TGACTCAATGATTCTCTGTA
29168 TGACTCAATGATTCTCTGTA
1 TGACTCAATGATTCTCTGTA
29188 TGA
1 TGA
29191 TCGCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (20 bp):
TGACTCAATGATTCTCTGTA
Found at i:31253 original size:31 final size:31
Alignment explanation
Indices: 31215--31356 Score: 166
Period size: 31 Copynumber: 4.6 Consensus size: 31
31205 TTAATTTGGC
*
31215 CAAATAAGGGCCTAACGTTATTGAAAATGCT
1 CAAATAAGGGTCTAACGTTATTGAAAATGCT
**
31246 CAAATAAGGGTCTAATC-TT-TT-AATTTGGC-
1 CAAATAAGGGTCTAA-CGTTATTGAAAAT-GCT
* *
31275 CAGATAAGAGTCTAACGTTATTGAAAATGCT
1 CAAATAAGGGTCTAACGTTATTGAAAATGCT
**
31306 CAAATAAGGGTCTAACGTTATCAAAAATGCT
1 CAAATAAGGGTCTAACGTTATTGAAAATGCT
*
31337 CAAATAAGGGTCTAATGTTA
1 CAAATAAGGGTCTAACGTTA
31357 GTTTGGATTG
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
28 1 0.01
29 18 0.19
30 8 0.09
31 65 0.70
32 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (31 bp):
CAAATAAGGGTCTAACGTTATTGAAAATGCT
Found at i:31314 original size:60 final size:60
Alignment explanation
Indices: 31155--31320 Score: 219
Period size: 60 Copynumber: 2.8 Consensus size: 60
31145 GCTAACTGCT
* *** **
31155 CAAATAAGGGCCTAACG-T-TTGCCAAAATGCTCAAATAAGAACCCGATCTTTTAATTTGGC
1 CAAATAAGAGCCTAACGTTATTG--AAAATGCTCAAATAAGGGTCTAATCTTTTAATTTGGC
*
31215 CAAATAAGGGCCTAACGTTATTGAAAATGCTCAAATAAGGGTCTAATCTTTTAATTTGGC
1 CAAATAAGAGCCTAACGTTATTGAAAATGCTCAAATAAGGGTCTAATCTTTTAATTTGGC
* *
31275 CAGATAAGAGTCTAACGTTATTGAAAATGCTCAAATAAGGGTCTAA
1 CAAATAAGAGCCTAACGTTATTGAAAATGCTCAAATAAGGGTCTAA
31321 CGTTATCAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
60 92 0.96
61 1 0.01
62 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (60 bp):
CAAATAAGAGCCTAACGTTATTGAAAATGCTCAAATAAGGGTCTAATCTTTTAATTTGGC
Found at i:31414 original size:31 final size:30
Alignment explanation
Indices: 31379--31480 Score: 102
Period size: 31 Copynumber: 3.4 Consensus size: 30
31369 CGTAAGACAT
31379 GCCCTTATTTGAGCATTTTGGCAACCGTTAG
1 GCCCTTATTTGAGCATTTTGGCAA-CGTTAG
** * **
31410 GCCCTTATTTG-GCCAAATT--CAAAGATGGG
1 GCCCTTATTTGAG-CATTTTGGCAACG-TTAG
31439 GCCCTTATTTGAGCATTTTGGCAAACGTTAG
1 GCCCTTATTTGAGCATTTTGGC-AACGTTAG
31470 GCCCTTATTTG
1 GCCCTTATTTG
31481 GCCAAATTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
28 1 0.02
29 20 0.36
30 2 0.04
31 29 0.53
32 3 0.05
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (30 bp):
GCCCTTATTTGAGCATTTTGGCAACGTTAG
Found at i:31452 original size:60 final size:59
Alignment explanation
Indices: 31379--31539 Score: 214
Period size: 60 Copynumber: 2.7 Consensus size: 59
31369 CGTAAGACAT
*
31379 GCCCTTATTTGAGCATTTTGGCAACCGTTAGGCCCTTATTTGGCCAAATTCAAAGATGGG
1 GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATT-AAAGATGGG
**
31439 GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTAAAGGATCAG
1 GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTAAA-GATGGG
* * * ** * *
31499 ACCCTTATTTAAGTATTTTATCAAACATTAGACCCTTATTT
1 GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTT
31540 AAGCAATTAG
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
59 3 0.03
60 87 0.97
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (59 bp):
GCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTAAAGATGGG
Found at i:36531 original size:87 final size:86
Alignment explanation
Indices: 36336--36545 Score: 226
Period size: 87 Copynumber: 2.4 Consensus size: 86
36326 CAGGCACAAA
* * * * *
36336 ATCCTCCACCAAATCAGTTTCCAAAGATTTTGCATCATTACTAACTAAAACTCCATTAGGAAGAT
1 ATCCTCCACCATATCAGTTTCCAAAGATTTTGCACCATAACCAACCAAAACTCCATTAGGAAGAT
*
36401 CACTGAAATTTGAATTCAAAAT
66 CAC-GAAAATTGAATTCAAAAT
* * * * *
36423 ATCCTCTACCATAAT-ATTTTCCAAAGATTTTGTACCATAACCACCCATAACTCCATTAGGAAGA
1 ATCCTCCACCAT-ATCAGTTTCCAAAGATTTTGCACCATAACCAACCAAAACTCCATTAGGAAGA
* *
36487 TCGC-AATCAATTGAATTCAAATT
65 TCACGAA--AATTGAATTCAAAAT
* * *
36510 ATCCTCCACCCTATCAGTTTCCATAGAATTTGCACC
1 ATCCTCCACCATATCAGTTTCCAAAGATTTTGCACC
36546 TAAAAATCCT
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
85 2 0.02
86 2 0.02
87 94 0.94
88 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (86 bp):
ATCCTCCACCATATCAGTTTCCAAAGATTTTGCACCATAACCAACCAAAACTCCATTAGGAAGAT
CACGAAAATTGAATTCAAAAT
Found at i:43190 original size:12 final size:12
Alignment explanation
Indices: 43173--43203 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
43163 TACTAAACCA
43173 ATCCTCCTCAAT
1 ATCCTCCTCAAT
*
43185 ATCCTCTTCAAT
1 ATCCTCCTCAAT
43197 ATCCTCC
1 ATCCTCC
43204 AAAACTCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.42, G:0.00, T:0.35
Consensus pattern (12 bp):
ATCCTCCTCAAT
Found at i:45439 original size:16 final size:16
Alignment explanation
Indices: 45418--45452 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45408 ACAATTCAGA
45418 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
*
45434 AAGCAGAAATGCTCTG
1 AAGCAGAAAAGCTCTG
45450 AAG
1 AAG
45453 TATTTCAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (16 bp):
AAGCAGAAAAGCTCTG
Found at i:45652 original size:91 final size:91
Alignment explanation
Indices: 45497--45720 Score: 362
Period size: 91 Copynumber: 2.5 Consensus size: 91
45487 GCTTAAGAAG
*
45497 ATTGAAAGAAGATCCACGTATGTGGAAAATTCTTCTTTCAAAGAAGACTCAATTATTGGAGAATT
1 ATTGAAAGAAGATCCACGTATGTGGAGAATTCTTCTTTCAAAGAAGACTCAATTATTGGAGAATT
*
45562 ACTGAAGACCCAGTTATTTGGG-AGTT
66 ACTGAAGACCCAGTTA-TTGGGAAATT
* * *
45588 ATTGAAAGAAGATCCATGTATGTGGAGTATTCTTCTTTCAAAGAAGA-TCCAATTATTGTAGAAT
1 ATTGAAAGAAGATCCACGTATGTGGAGAATTCTTCTTTCAAAGAAGACT-CAATTATTGGAGAAT
45652 TACTGAAGACCCAGTTATTGGGAAATT
65 TACTGAAGACCCAGTTATTGGGAAATT
*
45679 ATTGAAAGAAGATCCACGTATGTGGAGGATTCTTCTTTCAAA
1 ATTGAAAGAAGATCCACGTATGTGGAGAATTCTTCTTTCAAA
45721 TTATCAAAGA
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
90 6 0.05
91 118 0.95
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (91 bp):
ATTGAAAGAAGATCCACGTATGTGGAGAATTCTTCTTTCAAAGAAGACTCAATTATTGGAGAATT
ACTGAAGACCCAGTTATTGGGAAATT
Found at i:47904 original size:66 final size:65
Alignment explanation
Indices: 47812--47950 Score: 233
Period size: 66 Copynumber: 2.1 Consensus size: 65
47802 CAGTCAACCC
* *
47812 AAAAAAAAAAAGCTCACTAAGTTGAAAATTCTGCAAAGGACGGCTTAGGCAAAAGTTAGAGCAAA
1 AAAAAAAAAAAGCTCACTAAGTTGAAAATCCTGCAAAGGACGGCTTAGGCAAAACTTAGAGCAAA
* *
47877 AAAAAAAAAAAGGCTCGCTAAGTTGAAAATCCTGCAAAGGACGGCTTAGGCAAAACTTAGAGCAC
1 AAAAAAAAAAA-GCTCACTAAGTTGAAAATCCTGCAAAGGACGGCTTAGGCAAAACTTAGAGCAA
47942 A
65 A
47943 AAAAAAAA
1 AAAAAAAA
47951 TGAACTACGT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
65 11 0.16
66 58 0.84
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.15
Consensus pattern (65 bp):
AAAAAAAAAAAGCTCACTAAGTTGAAAATCCTGCAAAGGACGGCTTAGGCAAAACTTAGAGCAAA
Found at i:48717 original size:16 final size:16
Alignment explanation
Indices: 48696--48730 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
48686 ACAATTCAGA
48696 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
48712 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
48728 AAG
1 AAG
48731 TATTTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (16 bp):
AAGCAGAAAAGCTCTG
Found at i:48930 original size:91 final size:91
Alignment explanation
Indices: 48775--48998 Score: 335
Period size: 91 Copynumber: 2.5 Consensus size: 91
48765 GCTTAAGAAG
*
48775 ATTGAAAGAAGATCCACGTATGTGGAAAATTCTTCTTTCAAAGAAGACTCAATTATTGGAGAATT
1 ATTGAAAGAAGATCCACGTATGTGGAGAATTCTTCTTTCAAAGAAGACTCAATTATTGGAGAATT
*
48840 ACTAAAGACCCAGTTATTTGCG-AGTT
66 ACTAAAGACCCAGTTA-TTGCGAAATT
* * *
48866 ATTGAAAGAAGATCCATGTATGTGGAGTATTCTTCTTTCAAAGAAGA-TCCAATTATTGTAGAAT
1 ATTGAAAGAAGATCCACGTATGTGGAGAATTCTTCTTTCAAAGAAGACT-CAATTATTGGAGAAT
* *
48930 TACTGAAGACCCAGTTATTGGGAAATT
65 TACTAAAGACCCAGTTATTGCGAAATT
* *
48957 ATTGAAAGAAGATCAACGTATGTGGAGGATTCTTCTTTCAAA
1 ATTGAAAGAAGATCCACGTATGTGGAGAATTCTTCTTTCAAA
48999 TTATCAAAGA
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
90 5 0.04
91 116 0.96
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (91 bp):
ATTGAAAGAAGATCCACGTATGTGGAGAATTCTTCTTTCAAAGAAGACTCAATTATTGGAGAATT
ACTAAAGACCCAGTTATTGCGAAATT
Done.