Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold485
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: 18851
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Found at i:1566 original size:98 final size:100
Alignment explanation
Indices: 1387--1642 Score: 376
Period size: 99 Copynumber: 2.6 Consensus size: 100
1377 TATATAAAAG
** * * *
1387 GGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTTTG
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-GATCCACCATATCTTTG
1452 AATGTGAAAGGGGTTGCTATGTGCTGATT-CCCCGA
65 AATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGA
*
1487 GGGTTGCTAAGTGCTGATT-CCCGGTTCATTGG-GGTGCTAAGTGC-GATCCACCATATCTTTGA
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGGATCCACCATATCTTTG-
1549 AATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGA
65 AATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCGA
* *
1586 GGGTTGCTAAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-GATCCACCA
1643 ATAACGGTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 11
0.88 0.06 0.07
Matches are distributed among these distances:
96 17 0.12
97 9 0.06
98 31 0.22
99 34 0.24
100 28 0.20
101 12 0.09
103 9 0.06
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (100 bp):
GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGGATCCACCATATCTTTGA
ATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGA
Found at i:5173 original size:606 final size:608
Alignment explanation
Indices: 2840--8326 Score: 10602
Period size: 608 Copynumber: 9.1 Consensus size: 608
2830 AGGGGTGTTA
*
2840 CAGTACTGAAGTCCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
2905 AGAGGATCCATATCAGAGATTATTGAAATTGGAA-CCCATGCAGTCTTACAAT-TCAGAAATGTA
66 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
2968 GAGCTTCACTAAC-TTTGCAGAGAGTAGTCCATCTGAAACAGGAATAAAATGAGCGGACTTGGTC
131 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTG-AACAGGAATAAAATGAGCGGACTTGGTC
*
3032 AACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCTATAGAGTAC
195 AACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTAC
3097 TTGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCA-ACGAT-
260 TTGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATC
3160 CCAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCAC
325 CCAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCAC
3225 CCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATC
390 CCAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATC
*
3290 TAGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCTCAACT
455 TAGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACT
3355 ACCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATT
520 ACCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATT
3420 GACCATCGGTCTGAGGATGGAACG
585 GACCATCGGTCTGAGGATGGAACG
3444 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
3509 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
66 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
3574 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
131 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
3639 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
196 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
3704 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
261 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
3769 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
326 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
3834 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
391 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
3899 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCT-CCACACT
456 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCA-ACT
3963 ACCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATT
520 ACCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATT
4028 GACCATCGGTCTGAGGATGGAACG
585 GACCATCGGTCTGAGGATGGAACG
4052 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
4117 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
66 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
4182 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
131 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
4247 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
196 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
4312 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
261 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
4377 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
326 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
4442 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
391 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
4507 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
456 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
4572 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
521 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
4637 ACCATCGGTCTGAGGATGGAACG
586 ACCATCGGTCTGAGGATGGAACG
4660 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
4725 AGAGGATCCATATCAGAGATTATTGAAATTGGAA-CCCATGCAGTCTTACAATCTCAGAAATGTA
66 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
4789 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
131 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
4854 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGT-CCCCATAGAGTACT
196 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
4918 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
261 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
4983 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
326 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
5048 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
391 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
5113 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
456 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
5178 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
521 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
5243 ACCATCGGTCTGAGGATGGAACG
586 ACCATCGGTCTGAGGATGGAACG
5266 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
*
5331 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGTAGTCTTACAATCTCAGAAATGTA
66 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
*
5396 GAGCTTCACTAAC-TTT--------T-G--CA---G---A-G-ATAAAATGAGCGGACTTTGTCA
131 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
*
5441 ACCGAACCGTAGAAGCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
196 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
5506 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
261 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
5571 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
326 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
5636 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
391 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
5701 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
456 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
5766 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
521 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
5831 ACCATCGGTCTGAGGATGGAACG
586 ACCATCGGTCTGAGGATGGAACG
5854 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
5919 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
66 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
5984 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
131 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
6049 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
196 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
6114 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
261 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
6179 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
326 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
6244 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
391 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
6309 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCT-CCACACT
456 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCA-ACT
6373 ACCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATT
520 ACCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATT
6438 GACCATCGGTCTGAGGATGGAACG
585 GACCATCGGTCTGAGGATGGAACG
6462 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
6527 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
66 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
6592 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
131 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
6657 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
196 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
6722 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
261 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
6787 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
326 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
6852 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
391 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
6917 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCT-CCAACTA
456 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
6981 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
521 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
7046 ACCATCGGTCTGAGGATGGAACG
586 ACCATCGGTCTGAGGATGGAACG
7069 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
7134 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
66 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
7199 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
131 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
7264 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
196 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
7329 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
261 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
7394 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
326 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
7459 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
391 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
7524 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
456 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
7589 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
521 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
7654 ACCATCGGTCTGAGGATGGAACG
586 ACCATCGGTCTGAGGATGGAACG
7677 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
7742 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
66 AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
*
7807 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAAAAGGAATAAAATGAGCGGACTTGGTCA
131 GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
7872 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
196 ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
*
7937 TAATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
261 TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
*
8002 CAAATTAGTCTAATATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
326 CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
* * *
8067 CAACTCAGTCTAATATAACAGAGAATGACACTTATGACCATATAGAGCCTCGTCAGGTGCCTTCT
391 CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
* *
8132 AGATGTTAGATTGGAAACTATTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
456 AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
*
8197 CCTCAAAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
521 CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
8262 ACCATCGGTCTGAGGATGGAACG
586 ACCATCGGTCTGAGGATGGAACG
8285 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTT
1 CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTT
8327 ACCCGTATTA
Statistics
Matches: 4834, Mismatches: 18, Indels: 58
0.98 0.00 0.01
Matches are distributed among these distances:
587 70 0.01
588 505 0.10
589 4 0.00
592 1 0.00
595 2 0.00
597 2 0.00
598 2 0.00
600 2 0.00
603 1 0.00
604 98 0.02
605 18 0.00
606 639 0.13
607 824 0.17
608 2663 0.55
609 3 0.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (608 bp):
CAGTACTGAAGTTCAATCTCGAACCCAGAGCCTTGTGAAGTTTCTTCTAGAACCGTGAAGTGAAG
AGAGGATCCATATCAGAGATTATTGAAATTGGAACCCCATGCAGTCTTACAATCTCAGAAATGTA
GAGCTTCACTAACTTTTGCAGAGAGTAGTCCATCTGAACAGGAATAAAATGAGCGGACTTGGTCA
ACCGAACCGTAGAACCTTTTTCCACGGAGTTACCTTAAGAAATACAAAGTCCCCCATAGAGTACT
TGATATCTCTGATTTTCAGATTTGCATAAGACTTCTATCTATCAGAAGACGCCTTCAGACGATCC
CAAATTAGTCTAACATTATCTTCAGTCTCGGAAACCAACTCAGGACCCAAAACCCGTCGCTCACC
CAACTCAGTCTAATATAACAGAGTATGACACTTATGACCATATAGAGCCTCGTAAGGTGCCATCT
AGATGCTAGATTGGAAACTGTTATTGTAGGCGAACTCAACTAACGGTAAAAAATCCTCCCAACTA
CCTCAGAAATAAATCACATAGCTCCAAATCATATCCTCTAGTATATGAATCACCCTCTCAAATTG
ACCATCGGTCTGAGGATGGAACG
Found at i:9673 original size:28 final size:25
Alignment explanation
Indices: 9641--9709 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 25
9631 GGTGGATATC
*
9641 GCACTTAGCACCACCAATGGGGGAATCA
1 GCACTTAGCACC-CC--TCGGGGAATCA
9669 GCACTTAGCAACCCCTCGGGGAATCA
1 GCACTTAGC-ACCCCTCGGGGAATCA
*
9695 GCACATAGCAACCCC
1 GCACTTAGC-ACCCC
9710 CTTTCACATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 24 0.63
28 11 0.29
29 3 0.08
ACGTcount: A:0.30, C:0.35, G:0.22, T:0.13
Consensus pattern (25 bp):
GCACTTAGCACCCCTCGGGGAATCA
Found at i:9711 original size:27 final size:26
Alignment explanation
Indices: 9660--9709 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9650 ACCACCAATG
*
9660 GGGGAATCAGCACTTAGCAACCCCTC
1 GGGGAATCAGCACATAGCAACCCCTC
9686 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
9710 CTTTCACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.12
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTC
Found at i:9792 original size:26 final size:26
Alignment explanation
Indices: 9762--9812 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
9752 ACCAATGAAC
*
9762 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
9788 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
9813 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:9805 original size:103 final size:103
Alignment explanation
Indices: 9528--9890 Score: 596
Period size: 103 Copynumber: 3.6 Consensus size: 103
9518 TAACCGTTAT
* *
9528 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
9593 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
9630 TGGTGGATATCGCACTTAGCACCACCAATG----GGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
9691 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
9729 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
9794 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
9832 TGGTGGATCA-CGCACATAGCACCACCAATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
9891 TTATATACAA
Statistics
Matches: 247, Mismatches: 7, Indels: 13
0.93 0.03 0.05
Matches are distributed among these distances:
97 28 0.11
98 26 0.11
99 43 0.17
102 28 0.11
103 121 0.49
104 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:10245 original size:29 final size:29
Alignment explanation
Indices: 10212--10275 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
10202 TAATCCACCA
10212 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
10241 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
10271 CCCAA
1 CCCAA
10276 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:10249 original size:30 final size:30
Alignment explanation
Indices: 10219--10275 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10209 CCACCCAACT
10219 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
10248 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
10276 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17276 original size:103 final size:104
Alignment explanation
Indices: 17096--17361 Score: 464
Period size: 103 Copynumber: 2.6 Consensus size: 104
17086 TAACCGTTAT
* *
17096 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17161 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
17200 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17264 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
17303 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
17362 TTATATACAA
Statistics
Matches: 155, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
103 100 0.65
104 55 0.35
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:17715 original size:29 final size:29
Alignment explanation
Indices: 17682--17745 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17672 TAATCCACCA
17682 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17711 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17741 CCCAA
1 CCCAA
17746 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17719 original size:30 final size:30
Alignment explanation
Indices: 17689--17745 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17679 CCACCCAACT
17689 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17718 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17746 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Done.