Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001912.1 Hibiscus syriacus cultivar Beakdansim tig00003870_pilon, 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: 84483
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:2670 original size:742 final size:745
Alignment explanation
Indices: 1398--3640 Score: 3181
Period size: 742 Copynumber: 3.0 Consensus size: 745
1388 CTGTGTTGCG
* *
1398 GACAACTTGCACAAAGTTTCTCAAATCTTTCCCAATATTCATAAAATGACTCTCCGTCTTTTTGT
1 GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
** ** * *
1463 TTAATTCCCAGAATATTTCTCCTCAACTCATTTTCCTTCGCTTTTGGGAAAAATATATCCAGAAA
66 TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTCCTTCGC-TTTGGGAAAAACCTGTCAAGAAA
* * *
1528 GATTTGATTTAAAT-AAGCCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTA
130 TA-TTCAATTAAATCAA-CCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTA
* * *
1592 GCTAAACCAGATAAAGAAAATGGAAAAACTCTCAATTTAACTTGGTCGTCGGAAACTCCCTGTTG
193 GCTAAACCAGATAAAGAAAATGGAAAAGCTCTCAATTTAACTTGGTCGTTGGAAACTCCCTGTGG
* * *
1657 TTCCATGCTTGAACAGACTAAGTGGAATTCTACCAAATGTTTATGCGGACTTTCACCTGGAAGAC
258 TTTCATGCTTGAACAGACTAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGAC
* *
1722 CGTTGAAAGTAGGAAGAAGATGAATGAGCCCCGTCTTAAGTTGAAACAGAGTTTTC-CTTTGAGG
323 CGTTGAAGGTA-GAAGAAGATGAATGAG-CCCGTCTTAAGTTGAAACAGAG-TTTCACCTTGAGG
* *
1786 AAAGGTGATGCAAAGCGGTTGTTGGACCGCGGGAGTTGCGCCTAATTCTCAGATACTGCGATTGT
385 AAAGGTGATGCAAAGGGGTTGTTGGACCGCGAGAGTTGCGCCTAATTCTCAGATACTGCGATTGT
* * * ** *
1851 CCATCAATTCAGGTGATGTTGGCGTAAAATAAAATTCAACGTTTGCAGTTGCATCGGGTATTTCT
450 CCATCAATTTAGGTGATGTTTGCATAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATTACT
* * *
1916 TCTTCGCAAGTATTGGAATTAAATGATGCTTCGGGATTTAGATCTGATTGTTCTTGGTGACGTAC
515 TCTTCGCAAGTATTGGAATTAAATGATGCTTCGGGATTT-GATCTGATTGTTCTTGGCGTCATAC
1981 TTCTTGTTGTTTCCTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGCTTTGATAT
579 TTCTTGTTGTTTCCTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGCTTTGATAT
2046 GATGTTCAAATCTACTAGCTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCAG
644 GATGTTCAAATCTACTAGCTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCAG
2111 TAACTTTTGTCGAAGTCCCCGACAACGGCACCAATTT
709 TAACTTTTGTCGAAGTCCCCGACAACGGCACCAATTT
2148 GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
1 GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
* * * ** *
2213 TTAATTCCCAAAATGCTTCTCTTCAACTCGTTTTCCTTCGCTACGGGAAAAA-CTGTCAATAAAT
66 TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTCCTTCGCTTTGGGAAAAACCTGTCAAGAAAT
* *
2277 ATTCAATTAAATCAACCCATGTTTTTATTGAATTTAGAGTTAAGTAGAATAACCACTCTTTAGCT
131 ATTCAATTAAATCAACCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAGCT
* *
2342 AAA-CAGAT-AAG-AAAGGGAAAAGCTCTCAATTTAACTTAGTCGTTGGAAACTCCCTGTGGTTT
196 AAACCAGATAAAGAAAATGGAAAAGCTCTCAATTTAACTTGGTCGTTGGAAACTCCCTGTGGTTT
*
2404 CATGCTTGAAC-GA-TAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGGCCGT
261 CATGCTTGAACAGACTAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGACCGT
* * *
2467 TGAAGGTAGTAAGAAGATGAATAAGCCCTATCTTAAGTTGAAATAGAGTTTCACCTTGAGGAAAG
326 TGAAGGTAG-AAGAAGATGAATGAGCCC-GTCTTAAGTTGAAACAGAGTTTCACCTTGAGGAAAG
* * * ** *
2532 GTGATGCAAAGGGGTTGTTGGACCGCGAGAATTACGCCTAATCCTTGGATACTGCGACTGTCCAT
389 GTGATGCAAAGGGGTTGTTGGACCGCGAGAGTTGCGCCTAATTCTCAGATACTGCGATTGTCCAT
* * *
2597 CAATTTAGGTGATGTTTCCATAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATTGCATCTT
454 CAATTTAGGTGATGTTTGCATAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATTACTTCTT
* *
2662 CACAAGTATTGGCATTAAATGATGCTTCGGGAATTTGATCTGATTGTTCTTGGCGTCATACTTCT
519 CGCAAGTATTGGAATTAAATGATGCTTCGGG-ATTTGATCTGATTGTTCTTGGCGTCATACTTCT
* * * *
2727 TGTTGTTCCTCTTTCTTTTCTCAAATTGTTAGTCCACATAGTCTCTGAGCTAGCGC-TTGATATG
583 TGTTGTT--TC-CTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGCTTTGATATG
* * * *
2791 AGGTT-TAA---ACT--CTCTTCGGTATTTTGCCTAGTCAT-AATCAAAAGTAAACTAAATCAGT
645 ATGTTCAAATCTACTAGCTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCAGT
*
2849 AACTTTTATCGAAGTCCCCGACAACGGCACCAATTT
710 AACTTTTGTCGAAGTCCCCGACAACGGCACCAATTT
* *
2885 GACAACTAGCATAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
1 GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
*
2950 TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTGCTTCGCTGTTGGGAAAAACCTGTCAAGAAA
66 TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTCCTTCGCT-TTGGGAAAAACCTGTCAAGAAA
* *
3015 TATTCAATTTAAATCAGCCCATGTATTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAG
130 TATTCAA-TTAAATCAACCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAG
* *
3080 CTAAACCAGATAAAGAAAATGGAAAAGCTCTCGATTTAACTTGGTCGTTGGAAACTCCCTTTGGT
194 CTAAACCAGATAAAGAAAATGGAAAAGCTCTCAATTTAACTTGGTCGTTGGAAACTCCCTGTGGT
* * * *
3145 TTCATGCTTGAACAGACTAAGTGGAATTCTGCCAAATATTTATACAGACTTTCACTTGGAAGACT
259 TTCATGCTTGAACAGACTAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGACC
* *
3210 GCTGAAGGTAGAAGAAGATGAATGAGCCACGTCTTAAGTTGAAACGGAGTTTCACCTTGAGGAAA
324 GTTGAAGGTAGAAGAAGATGAATGAGCC-CGTCTTAAGTTGAAACAGAGTTTCACCTTGAGGAAA
* * * ** ** * * * *
3275 TGTGATACAAAAGGGTTGTTAAACCGCGAGAGTTGCGGTTAATTCTCATATAGTGCAATTTTCCA
388 GGTGATGCAAAGGGGTTGTTGGACCGCGAGAGTTGCGCCTAATTCTCAGATACTGCGATTGTCCA
* * * * * *
3340 TCAATTTAGGTGATG-TTGGAGTGAAATGCGATTCAATGTTTGTAGTTGCATCGGGTATTATTTC
453 TCAATTTAGGTGATGTTTGCA-TAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATTACTTC
**** *
3404 TTCGCAAGTATTTTTGTTAAATGATGCTTCGGGATCTGGATCTGATTGTTCTTGGCGTCATACTT
517 TTCGCAAGTATTGGAATTAAATGATGCTTCGGGAT-TTGATCTGATTGTTCTTGGCGTCATACTT
* * * * * *
3469 CTTATTGTTTCCTCTTTTCCCGAATTTTTAGTCCACGTAGTCTCTGGGATAGCACTTCGATATG-
581 CTTGTTGTTTCCTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGCTTTGATATGA
* * * *
3533 TGGTTCAAAATCTACTAGCTCTTTGGGATTTTGCCTAGTCATAAATCAAAAACAATCTAAAACAG
646 T-GTTC-AAATCTACTAGCTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCAG
* *
3598 TAACTTTTGTCGAAGTCCCCGGCAACGGCGCCAATTT
709 TAACTTTTGTCGAAGTCCCCGACAACGGCACCAATTT
3635 GACAAC
1 GACAAC
3641 GCGTCATTTT
Statistics
Matches: 1322, Mismatches: 142, Indels: 58
0.87 0.09 0.04
Matches are distributed among these distances:
737 158 0.12
738 31 0.02
739 17 0.01
740 61 0.05
741 49 0.04
742 287 0.22
743 71 0.05
744 285 0.22
745 97 0.07
746 5 0.00
747 63 0.05
748 10 0.01
749 31 0.02
750 157 0.12
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (745 bp):
GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTCCTTCGCTTTGGGAAAAACCTGTCAAGAAAT
ATTCAATTAAATCAACCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAGCT
AAACCAGATAAAGAAAATGGAAAAGCTCTCAATTTAACTTGGTCGTTGGAAACTCCCTGTGGTTT
CATGCTTGAACAGACTAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGACCGT
TGAAGGTAGAAGAAGATGAATGAGCCCGTCTTAAGTTGAAACAGAGTTTCACCTTGAGGAAAGGT
GATGCAAAGGGGTTGTTGGACCGCGAGAGTTGCGCCTAATTCTCAGATACTGCGATTGTCCATCA
ATTTAGGTGATGTTTGCATAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATTACTTCTTCG
CAAGTATTGGAATTAAATGATGCTTCGGGATTTGATCTGATTGTTCTTGGCGTCATACTTCTTGT
TGTTTCCTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGCTTTGATATGATGTTC
AAATCTACTAGCTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCAGTAACTTT
TGTCGAAGTCCCCGACAACGGCACCAATTT
Found at i:3451 original size:744 final size:740
Alignment explanation
Indices: 1398--3640 Score: 3146
Period size: 744 Copynumber: 3.0 Consensus size: 740
1388 CTGTGTTGCG
* *
1398 GACAACTTGCACAAAGTTTCTCAAATCTTTCCCAATATTCATAAAATGACTCTCCGTCTTTTTGT
1 GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
** * * *
1463 TTAATTCCCAGAATATTTCTCCTCAACTCATTTTCCTTCGCTTTTGGGAAAAATATATCCAGAAA
66 TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTCCTTCGC-TTTGGGAAAAA-CTGTCAAGAAA
* ** *
1528 GATTTGATTTAAATAAGCCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAG
129 TATTCAATTTAAATCAGCCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAG
* *
1593 CTAAACCAGATAAAGAAAATGGAAAAACTCTCAATTTAACTTGGTCGTCGGAAACTCCCTGTT-G
194 CTAAACCAGATAAAGAAAATGGAAAAGCTCTCAATTTAACTTGGTCGTTGGAAACTCCCT-TTGG
* * *
1657 TTCCATGCTTGAACAGACTAAGTGGAATTCTACCAAATGTTTATGCGGACTTTCACCTGGAAGAC
258 TTTCATGCTTGAACAGACTAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGAC
* *
1722 CGTTGAAAGTAGGAAGAAGATGAATGAGCCCCGTCTTAAGTTGAAACAGAGTTTTC-CTTTGAGG
323 CGTTGAAGGTA-GAAGAAGATGAATGAG-CCCGTCTTAAGTTGAAACAGAG-TTTCACCTTGAGG
*
1786 AAAGGTGATGC-AAAGCGGTTGTTGGACCGCGGGAGTTGCGCCTAATTCTCAGATACTGCGATTG
385 AAAGGTGATGCAAAAG-GGTTGTTGGACCGCGAGAGTTGCGCCTAATTCTCAGATACTGCGATTG
* * **
1850 TCCATCAATTCAGGTGATGTTGGCGTAAAATAAAATTCAACGTTTGCAGTTGCATCGGGTATTTC
449 TCCATCAATTTAGGTGATGTTGGAGTAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATTT-
* * *
1915 TTCTTCGCAAGTATTGGAATTAAATGATGCTTCGGGATTTAGATCTGATTGTTCTTGGTGACGTA
513 TTCTTCGCAAGTATTGGAATTAAATGATGCTTCGGGA-TTAGATCTGATTGTTCTTGGCGTCATA
1980 CTTCTTGTTGTTTCCTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGCTTTGATA
577 CTTCTTGTTGTTTCCTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGC-TTGATA
*
2045 TGATGTTCAAATCTACTAGCTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCA
641 TGAGGTTCAAA--TACTA-CTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCA
2110 GTAACTTTTGTCGAAGTCCCCGACAACGGCACCAATTT
703 GTAACTTTTGTCGAAGTCCCCGACAACGGCACCAATTT
2148 GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
1 GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
* * * ** *
2213 TTAATTCCCAAAATGCTTCTCTTCAACTCGTTTTCCTTCGCTACGGGAAAAACTGTCAATAAATA
66 TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTCCTTCGCTTTGGGAAAAACTGTCAAGAAATA
* * *
2278 TTCAA-TTAAATCAACCCATGTTTTTATTGAATTTAGAGTTAAGTAGAATAACCACTCTTTAGCT
131 TTCAATTTAAATCAGCCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAGCT
* * *
2342 AAA-CAGAT-AAG-AAAGGGAAAAGCTCTCAATTTAACTTAGTCGTTGGAAACTCCCTGTGGTTT
196 AAACCAGATAAAGAAAATGGAAAAGCTCTCAATTTAACTTGGTCGTTGGAAACTCCCTTTGGTTT
*
2404 CATGCTTGAAC-GA-TAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGGCCGT
261 CATGCTTGAACAGACTAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGACCGT
* * *
2467 TGAAGGTAGTAAGAAGATGAATAAGCCCTATCTTAAGTTGAAATAGAGTTTCACCTTGAGGAAAG
326 TGAAGGTAG-AAGAAGATGAATGAGCCC-GTCTTAAGTTGAAACAGAGTTTCACCTTGAGGAAAG
* * * * ** *
2532 GTGATGCAAAGGGGTTGTTGGACCGCGAGAATTACGCCTAATCCTTGGATACTGCGACTGTCCAT
389 GTGATGCAAAAGGGTTGTTGGACCGCGAGAGTTGCGCCTAATTCTCAGATACTGCGATTGTCCAT
** **
2597 CAATTTAGGTGATGTTTCCA-TAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATTGCATCT
454 CAATTTAGGTGATG-TTGGAGTAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATT-TTTCT
* * *
2661 TCACAAGTATTGGCATTAAATGATGCTTCGGGAATTTGATCTGATTGTTCTTGGCGTCATACTTC
517 TCGCAAGTATTGGAATTAAATGATGCTTCGGG-ATTAGATCTGATTGTTCTTGGCGTCATACTTC
* * * *
2726 TTGTTGTTCCTCTTTCTTTTCTCAAATTGTTAGTCCACATAGTCTCTGAGCTAGCGCTTGATATG
581 TTGTTGTT--TC-CTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGCTTGATATG
* * *
2791 AGGTT-TAA-ACT-CTCTTCGGTATTTTGCCTAGTCAT-AATCAAAAGTAAACTAAATCAGTAAC
643 AGGTTCAAATACTACTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCAGTAAC
*
2852 TTTTATCGAAGTCCCCGACAACGGCACCAATTT
708 TTTTGTCGAAGTCCCCGACAACGGCACCAATTT
* *
2885 GACAACTAGCATAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
1 GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
*
2950 TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTGCTTCGCTGTTGGGAAAAACCTGTCAAGAAA
66 TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTCCTTCGCT-TTGGGAAAAA-CTGTCAAGAAA
*
3015 TATTCAATTTAAATCAGCCCATGTATTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAG
129 TATTCAATTTAAATCAGCCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAG
*
3080 CTAAACCAGATAAAGAAAATGGAAAAGCTCTCGATTTAACTTGGTCGTTGGAAACTCCCTTTGGT
194 CTAAACCAGATAAAGAAAATGGAAAAGCTCTCAATTTAACTTGGTCGTTGGAAACTCCCTTTGGT
* * * *
3145 TTCATGCTTGAACAGACTAAGTGGAATTCTGCCAAATATTTATACAGACTTTCACTTGGAAGACT
259 TTCATGCTTGAACAGACTAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGACC
* *
3210 GCTGAAGGTAGAAGAAGATGAATGAGCCACGTCTTAAGTTGAAACGGAGTTTCACCTTGAGGAAA
324 GTTGAAGGTAGAAGAAGATGAATGAGCC-CGTCTTAAGTTGAAACAGAGTTTCACCTTGAGGAAA
* * ** ** * * * *
3275 TGTGATACAAAAGGGTTGTTAAACCGCGAGAGTTGCGGTTAATTCTCATATAGTGCAATTTTCCA
388 GGTGATGCAAAAGGGTTGTTGGACCGCGAGAGTTGCGCCTAATTCTCAGATACTGCGATTGTCCA
* * * *
3340 TCAATTTAGGTGATGTTGGAGTGAAATGCGATTCAATGTTTGTAGTTGCATCGGGTATTATTTCT
453 TCAATTTAGGTGATGTTGGAGTAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATT-TTTCT
**** *
3405 TCGCAAGTATTTTTGTTAAATGATGCTTCGGGATCTGGATCTGATTGTTCTTGGCGTCATACTTC
517 TCGCAAGTATTGGAATTAAATGATGCTTCGGGAT-TAGATCTGATTGTTCTTGGCGTCATACTTC
* * * * * *
3470 TTATTGTTTCCTCTTTTCCCGAATTTTTAGTCCACGTAGTCTCTGGGATAGCACTTCGATATGTG
581 TTGTTGTTTCCTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGCTT-GATATGAG
* * * *
3535 GTTCAAAATCTACTAGCTCTTTGGGATTTTGCCTAGTCATAAATCAAAAACAATCTAAAACAGTA
645 GTTC-AAA--TACTA-CTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCAGTA
* *
3600 ACTTTTGTCGAAGTCCCCGGCAACGGCGCCAATTT
706 ACTTTTGTCGAAGTCCCCGACAACGGCACCAATTT
3635 GACAAC
1 GACAAC
3641 GCGTCATTTT
Statistics
Matches: 1318, Mismatches: 144, Indels: 62
0.86 0.09 0.04
Matches are distributed among these distances:
737 158 0.12
738 31 0.02
739 17 0.01
740 61 0.05
741 51 0.04
742 281 0.21
743 74 0.06
744 283 0.21
745 97 0.07
746 5 0.00
747 61 0.05
748 11 0.01
749 31 0.02
750 157 0.12
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (740 bp):
GACAACTTGCACAAAGTTTCTTAAATCTTTCCCAATATTCATAAAATAACTCTCCGTCTTTTTGT
TTAATTCCCAGAATGCTTCTCCTCAACTCATTTTCCTTCGCTTTGGGAAAAACTGTCAAGAAATA
TTCAATTTAAATCAGCCCATGTTTTTATTGAATTTGGAGGTAAGTAGAATAACCACTCTTTAGCT
AAACCAGATAAAGAAAATGGAAAAGCTCTCAATTTAACTTGGTCGTTGGAAACTCCCTTTGGTTT
CATGCTTGAACAGACTAAGTGGAATTCTGCCAAATGTTTATGCAGACTTTCACCTGGAAGACCGT
TGAAGGTAGAAGAAGATGAATGAGCCCGTCTTAAGTTGAAACAGAGTTTCACCTTGAGGAAAGGT
GATGCAAAAGGGTTGTTGGACCGCGAGAGTTGCGCCTAATTCTCAGATACTGCGATTGTCCATCA
ATTTAGGTGATGTTGGAGTAAAATACGATTCAACGTTTGCAGTTGCATCGGGTATTTTTCTTCGC
AAGTATTGGAATTAAATGATGCTTCGGGATTAGATCTGATTGTTCTTGGCGTCATACTTCTTGTT
GTTTCCTCTTTTCTCGAATTGTTAGTCCACGTAGTCTCTGGGCTAGCGCTTGATATGAGGTTCAA
ATACTACTCTTCGGGATTTTGCCTAGTCATAAATCAAAAGCAAACTAAATCAGTAACTTTTGTCG
AAGTCCCCGACAACGGCACCAATTT
Found at i:5513 original size:20 final size:19
Alignment explanation
Indices: 5480--5531 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
5470 TTCTAGCATG
* * *
5480 GAGTATCGACACTACTAAGT
1 GAGTATCGATACTAAT-AGA
*
5500 GAGTATCAATACTAATAGA
1 GAGTATCGATACTAATAGA
5519 GAGTATCGATACT
1 GAGTATCGATACT
5532 CATGGTATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (19 bp):
GAGTATCGATACTAATAGA
Found at i:8359 original size:19 final size:18
Alignment explanation
Indices: 8337--8406 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
8327 AAATGTTCAT
8337 GTCAAAGTCAATGTGTTAG
1 GTCAAAGTCAATG-GTTAG
** *
8356 GTCAAAGTCAACAAGTCAG
1 GTCAAAGTCAA-TGGTTAG
* *
8375 GTC-AAGTCAACAGGTTGG
1 GTCAAAGTCAA-TGGTTAG
8393 GTCAAAGTCAATGG
1 GTCAAAGTCAATGG
8407 GTCAGATCGG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 17 0.40
19 25 0.60
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (18 bp):
GTCAAAGTCAATGGTTAG
Found at i:8395 original size:18 final size:19
Alignment explanation
Indices: 8354--8403 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
8344 TCAATGTGTT
8354 AGGTCAAAGTCAACAAGTC
1 AGGTCAAAGTCAACAAGTC
* *
8373 AGGTC-AAGTCAACAGGTT
1 AGGTCAAAGTCAACAAGTC
*
8391 GGGTCAAAGTCAA
1 AGGTCAAAGTCAA
8404 TGGGTCAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (19 bp):
AGGTCAAAGTCAACAAGTC
Found at i:14140 original size:21 final size:20
Alignment explanation
Indices: 14115--14164 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
14105 CCGTTAGACA
14115 GGGGGAATCGGTACCCCCCGG
1 GGGGGAATCGGT-CCCCCCGG
* * *
14136 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCGGTCCCCCCGG
14156 GGGGGAATC
1 GGGGGAATC
14165 TATACCCCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.14, C:0.28, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGGGAATCGGTCCCCCCGG
Found at i:14152 original size:19 final size:20
Alignment explanation
Indices: 14115--14193 Score: 88
Period size: 19 Copynumber: 3.9 Consensus size: 20
14105 CCGTTAGACA
* *
14115 GGGGGAATCGGTACCCCCCGG
1 GGGGGAATCTGTA-CCCCCTG
*
14136 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTG
* *
14156 GGGGGAATCTATA-CCCCTA
1 GGGGGAATCTGTACCCCCTG
14175 GGGGGAATCTGTACGCCCC
1 GGGGGAATCTGTAC-CCCC
14194 GAGTAATCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
19 17 0.35
20 17 0.35
21 15 0.31
ACGTcount: A:0.16, C:0.30, G:0.35, T:0.18
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:17575 original size:21 final size:20
Alignment explanation
Indices: 17547--17632 Score: 109
Period size: 21 Copynumber: 4.2 Consensus size: 20
17537 CCGTTAGACA
17547 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
*
17567 GGGGTGGAATCGCTACCCCCT
1 GGGG-GGAATCGGTACCCCCT
*
17588 AGGGGGGAATCTGTACCCCCT
1 -GGGGGGAATCGGTACCCCCT
**
17609 GGGGGGGAATCTATACCCCCT
1 -GGGGGGAATCGGTACCCCCT
17630 GGG
1 GGG
17633 CAATCTGATT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
20 7 0.12
21 48 0.81
22 4 0.07
ACGTcount: A:0.16, C:0.29, G:0.37, T:0.17
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:17598 original size:42 final size:42
Alignment explanation
Indices: 17546--17629 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
17536 ACCGTTAGAC
* *
17546 AGGGGGGAATCGGTACCCCCTGGGGTGGAATCGCTACCCCCT
1 AGGGGGGAATCGGTACCCCCTGGGGGGGAATCGATACCCCCT
* *
17588 AGGGGGGAATCTGTACCCCCTGGGGGGGAATCTATACCCCCT
1 AGGGGGGAATCGGTACCCCCTGGGGGGGAATCGATACCCCCT
17630 GGGCAATCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.18, C:0.30, G:0.35, T:0.18
Consensus pattern (42 bp):
AGGGGGGAATCGGTACCCCCTGGGGGGGAATCGATACCCCCT
Found at i:23971 original size:20 final size:21
Alignment explanation
Indices: 23925--23971 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
23915 GAGATTATTT
*
23925 TAATTTTTCAATTTTGAAATA
1 TAATTTTTCAATTTTGAAAAA
* **
23946 TCATTTTTGTATTTT-AAAAA
1 TAATTTTTCAATTTTGAAAAA
23966 TAATTT
1 TAATTT
23972 CTCAGAATCC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
TAATTTTTCAATTTTGAAAAA
Found at i:31207 original size:21 final size:20
Alignment explanation
Indices: 31183--31221 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31173 CATAAACATA
*
31183 AAGTATCGATACTTATTATAT
1 AAGTATCAATACTT-TTATAT
31204 AAGTATCAATACTTTTAT
1 AAGTATCAATACTTTTAT
31222 TCCAGTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (20 bp):
AAGTATCAATACTTTTATAT
Found at i:31224 original size:180 final size:183
Alignment explanation
Indices: 30912--32261 Score: 819
Period size: 199 Copynumber: 7.0 Consensus size: 183
30902 CGATACTTGG
** * *
30912 AATTTTGAAATGTATTACTTTAAAGTAATACGTAAATTTACAATGTAAACGGTAAATATCTACCG
1 AATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCG
30977 GTTTAATGATAATAGGTGTAAACATAAAGTATAAATACTTATTATATAGGTATCGATA-TTGTTA
66 GTTTAATGATAATAGGTGTAAACATAAAGTATAAATACTTATTATATAGGTATCGATACTT-TTA
*
31041 TTCCAGTATGCATCTCAAACAATTTGTACTAAAAAAGTATCGATA-AT-TAT-A
130 TTCCAGTATGCATCTCAAACAATTTGCACTAAAAAAGTATCGATACATATATAA
* *
31092 AATTTTGAAACCTATTTCTTTAAAGTAATAGGTAAATTTACAATAG-AAACGGTAAAAATCTATC
1 AATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAAT-GTAAACGGTAAAAATCTACC
** ** * *
31156 GGTTTAATGATAATAGGCATAAACATAAAGTATCGATACTTATTATATAAGTATCAATACTTTTA
65 GGTTTAATGATAATAGGTGTAAACATAAAGTATAAATACTTATTATATAGGTATCGATACTTTTA
** *
31221 TTCCAGTACACATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACATATATAA
130 TTCCAGTATGCATCTCAAACAATTTGCAC-TAAAAAAGTATCGAT--ACATATATAA
* *
31278 AGTATCGATAAGACTTCCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAATGGT
1 A--AT---T-----TT--GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGT
* * * * * *
31343 AAAAATCTACCGATTTAATGATAATAGGTGTAAACATCAAGTATTAATATGTTTTTGTATAGGTA
54 AAAAATCTACCGGTTTAATGATAATAGGTGTAAACATAAAGTATAAATA-CTTATTATATAGGTA
31408 TCGATACTTTTATTCCAGTATGC-T-TGCAAAACAATTTGCA-TGAAAAAAGTATCGATACACAT
118 TCGATACTTTTATTCCAGTATGCATCT-C-AAACAATTTGCACT-AAAAAAGTATCGAT--ACA-
*
31470 GTACAAAGTATCGGTACTTTT
177 -T----A-TA----TA----A
** * ** *
31491 AATTTCAAAACCTATTACTATAAAGTAATACATAAATTTACAATGTAAATGGT-AAAATCTACCG
1 AATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCG
* * * * * * *
31555 GTTTAATTATAATAAGTTTAAACATAAAGTA-ACGATACTTATTATATTGGTATCGAAACTGTTA
66 GTTTAATGATAATAGGTGTAAACATAAAGTATA-AATACTTATTATATAGGTATCGATACTTTTA
* **
31619 TTCCAGTATGCATCTCAAATAATTTGCACGCAAAAAGTATCGATACACATATATAAAGTATA
130 TTCCAGTATGCATCTCAAACAATTTGCACTAAAAAAGTATCGAT--AC--ATAT--A-TA-A
* * *
31681 GATACTTGGACTTTCGAAACCAATTACTTTAATGTAATAGGTAAATTTACAATATAAACGGTAAA
1 -A-A--T----TTT-GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAA
** * * * * *
31746 AATCTATTGATTTAATAATAATAGGTG-AAACATCAAGTATCAAA-ACTTTTTTTATAGGTATCG
57 AATCTACCGGTTTAATGATAATAGGTGTAAACATAAAGTAT-AAATACTTATTATATAGGTATCG
* * * ** *
31809 ATACTTTTATTCCAATTTG-ATTCTCAAACATTTTGCACGCACAAAGTATCGATACACATGTACA
121 ATACTTTTATTCCAGTATGCA-TCTCAAACAATTTGCACTAAAAAAGTATCGAT--ACA--T---
31873 AAGTATCAA
178 -A-TAT-AA
* * * ** **
31882 TACTTGGAACTTCGAAACCCATTACTGTAAAGTAATACATAAATTTACAATGTAAACGGTAAACG
1 -AATT-----TT-GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAA
* * *** *
31947 TTTACTGGTTTAATGATAATAGGCACAAACATAAAGTATCAATACGTTA-TATATAGGTATCGAT
59 TCTACCGGTTTAATGATAATAGGTGTAAACATAAAGTATAAATAC-TTATTATATAGGTATCGAT
** * ** * *
32011 ACTTTTAGTT-CAGTATGTTTCTC-AACATTTTGCACGCAAAATGTATTGATACACATATATAAA
123 ACTTTTA-TTCCAGTATGCATCTCAAACAATTTGCACTAAAAAAGTATCGAT--ACATATAT-AA
* * * * *
32074 GTATCGATACGTGAAATTCCAAAACCGATTACTTTAAAGT-TTAGGTAACTTTACAATGTAAATG
1 --A---AT---T----TT--GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACG
* * ** * * * ** ** *
32138 GTAAAATTCTACCGATAGATTGATAATAGGCGTAAATACCAAGTATCGATA-TTGTCTATATAGG
52 GTAAAAATCTACCGGTTTAATGATAATAGGTGTAAACATAAAGTATAAATACTTAT-TATATAGG
* * * ** *
32202 TATCAATACTTTTATTCCAGTATGCTTCTCAAATAATTTGCACGCAAAATGTATCGATAC
116 TATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACTAAAAAAGTATCGATAC
32262 TTTATACACA
Statistics
Matches: 937, Mismatches: 142, Indels: 165
0.75 0.11 0.13
Matches are distributed among these distances:
180 138 0.15
181 17 0.02
183 1 0.00
184 2 0.00
185 3 0.00
186 2 0.00
188 2 0.00
190 1 0.00
191 2 0.00
192 6 0.01
193 6 0.01
194 3 0.00
195 1 0.00
196 6 0.01
197 8 0.01
198 203 0.22
199 359 0.38
200 111 0.12
201 52 0.06
202 2 0.00
203 2 0.00
204 2 0.00
205 2 0.00
208 1 0.00
209 2 0.00
211 2 0.00
213 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (183 bp):
AATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCG
GTTTAATGATAATAGGTGTAAACATAAAGTATAAATACTTATTATATAGGTATCGATACTTTTAT
TCCAGTATGCATCTCAAACAATTTGCACTAAAAAAGTATCGATACATATATAA
Found at i:31609 original size:199 final size:198
Alignment explanation
Indices: 31074--32390 Score: 1254
Period size: 199 Copynumber: 6.6 Consensus size: 198
31064 TTGTACTAAA
* ** * * *
31074 AAAGTATCGATAATTATAAATTTTGAAACCTATTTCTTTAAAGTAATAGGTAAATTTACAATAG-
1 AAAGTATCGATACTT-GGAATTTCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAAT-GT
* *
31138 AAACGGTAAAAATCTATCGGTTTAATGATAATAGGCATAAACATAAAGTATCGATACTTATTATA
64 AAACGGTAAAAATCTACCGGTTTAATGATAATAGGCATAAACATAAAGTATCAATACTTATTATA
* * **
31203 TAAGTATCAATACTTTTATTCCAGTACACATCTCAAACAATTTGCACGCAAAAAAGTATCGATAC
129 TAGGTATCGATACTTTTATTCCAGTATGC-T-TCAAACAATTTGCACGC-AAAAAGTATCGATAC
31268 ACATATAT
191 ACATATAT
* * *
31276 AAAGTATCGATA---AGACTTCCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGATACTTGGAATTTCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* * ** * * * * *
31338 ATGGTAAAAATCTACCGATTTAATGATAATAGGTGTAAACATCAAGTATTAATATGTTTTTGTAT
66 ACGGTAAAAATCTACCGGTTTAATGATAATAGGCATAAACATAAAGTATCAATA-CTTATTATAT
* *
31403 AGGTATCGATACTTTTATTCCAGTATGCTTGCAAAACAATTTGCATGAAAAAAGTATCGATACAC
130 AGGTATCGATACTTTTATTCCAGTATGCTT-C-AAACAATTTGCACGCAAAAAGTATCGATACAC
* *
31468 ATGTAC
193 ATATAT
* ** * * * **
31474 AAAGTATCGGTACTTTTAATTTCAAAACCTATTACTATAAAGTAATACATAAATTTACAATGTAA
1 AAAGTATCGATACTTGGAATTTCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* * * ** * * *
31539 ATGGT-AAAATCTACCGGTTTAATTATAATAAGTTTAAACATAAAGTAACGATACTTATTATATT
66 ACGGTAAAAATCTACCGGTTTAATGATAATAGGCATAAACATAAAGTATCAATACTTATTATATA
* * *
31603 GGTATCGAAACTGTTATTCCAGTATGCATCTCAAATAATTTGCACGCAAAAAGTATCGATACACA
131 GGTATCGATACTTTTATTCCAGTATGC-T-TCAAACAATTTGCACGCAAAAAGTATCGATACACA
31668 TATAT
194 TATAT
* * * * *
31673 AAAGTATAGATACTTGGACTTTCGAAACCAATTACTTTAATGTAATAGGTAAATTTACAATATAA
1 AAAGTATCGATACTTGGAATTTCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
** * * * * * *
31738 ACGGTAAAAATCTATTGATTTAATAATAATAGG--TGAAACATCAAGTATCAAAACTTTTTTTAT
66 ACGGTAAAAATCTACCGGTTTAATGATAATAGGCAT-AAACATAAAGTATCAATACTTATTATAT
* * * * *
31801 AGGTATCGATACTTTTATTCCAATTTGATTCTCAAACATTTTGCACGCACAAAGTATCGATACAC
130 AGGTATCGATACTTTTATTCCAGTATG-CT-TCAAACAATTTGCACGCAAAAAGTATCGATACAC
* *
31866 ATGTAC
193 ATATAT
* * * * **
31872 AAAGTATCAATACTTGGAACTTCGAAACCCATTACTGTAAAGTAATACATAAATTTACAATGTAA
1 AAAGTATCGATACTTGGAATTTCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
** * * *
31937 ACGGTAAACGTTTACTGGTTTAATGATAATAGGCACAAACATAAAGTATCAATACGTTA-TATAT
66 ACGGTAAAAATCTACCGGTTTAATGATAATAGGCATAAACATAAAGTATCAATAC-TTATTATAT
* * * * *
32001 AGGTATCGATACTTTTAGTT-CAGTATGTTTCTCAACATTTTGCACGCAAAATGTATTGATACAC
130 AGGTATCGATACTTTTA-TTCCAGTATGCTTC-AAACAATTTGCACGCAAAAAGTATCGATACAC
32065 ATATAT
193 ATATAT
* * * * * *
32071 AAAGTATCGATACGTGAAATTCCAAAACCGATTACTTTAAAGT-TTAGGTAACTTTACAATGTAA
1 AAAGTATCGATACTTGGAATTTCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* * * ** * * * ** * *
32135 ATGGTAAAATTCTACCGATAGATTGATAATAGGCGTAAATACCAAGTATCGATA-TTGTCTATAT
66 ACGGTAAAAATCTACCGGTTTAATGATAATAGGCATAAACATAAAGTATCAATACTTAT-TATAT
* * *
32199 AGGTATCAATACTTTTATTCCAGTATGCTTCTCAAATAATTTGCACGCAAAATGTATCGATACTT
130 AGGTATCGATACTTTTATTCCAGTATGC-T-TCAAACAATTTGCACGCAAAAAGTATCG------
32264 TATACACATATAT
187 -ATACACATATAT
* ** * * *
32277 AAAGTATCAATACTTATAATTTCGAAACCTATTA-TTGTAAAGTAATAGGTTAATTTACAATGAA
1 AAAGTATCGATACTTGGAATTTCGAAACCGATTACTT-TAAAGTAATAGGTAAATTTACAATGTA
* * ** * * *
32341 AACGGTAAGAGTCTACCAATATAATGATAATAGGCGTAAACATCAAGTAT
65 AACGGTAAAAATCTACCGGTTTAATGATAATAGGCATAAACATAAAGTAT
32391 TGATACACTT
Statistics
Matches: 912, Mismatches: 172, Indels: 57
0.80 0.15 0.05
Matches are distributed among these distances:
196 2 0.00
197 4 0.00
198 208 0.23
199 421 0.46
200 109 0.12
201 51 0.06
202 12 0.01
205 2 0.00
206 45 0.05
207 58 0.06
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (198 bp):
AAAGTATCGATACTTGGAATTTCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
ACGGTAAAAATCTACCGGTTTAATGATAATAGGCATAAACATAAAGTATCAATACTTATTATATA
GGTATCGATACTTTTATTCCAGTATGCTTCAAACAATTTGCACGCAAAAAGTATCGATACACATA
TAT
Found at i:31622 original size:398 final size:396
Alignment explanation
Indices: 31099--32396 Score: 1480
Period size: 398 Copynumber: 3.2 Consensus size: 396
31089 ATAAATTTTG
* * ** *
31099 AAACCTATTTCTTTAAAGTAATAGGTAAATTTACAATAG-AAACGGTAAAAATCTATCGGTTTAA
1 AAACCTATTACTATAAAGTAATACATAAATTTACAAT-GTAAACGGT-AAAATCTACCGGTTTAA
*
31163 TGATAATAGGCATAAACATAAAGTATCGATACTTATTATATAAGTATC-AATACTTTTATTCCAG
64 TGATAATAGGCATAAACATAAAGTATCGATACTTATTATATAGGTATCGAA-ACTTTTATTCCAG
**
31227 TACACATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACATATATAAAGTATCGATA-AGA
128 TATGCATCTCAAACAATTTGCACGC-AAAAAGTATCGATACACATATATAAAGTATCGATACAGA
31291 CTTCCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAATGGTAAAAATCTACCGA
192 CTTCCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAATGGTAAAAATCTACCGA
*
31356 TTTAATGATAATAGGTGTAAACATCAAGTATTAATATGTTTTTGTATAGGTATCGATACTTTTAT
257 TTTAATGATAATAGGTGTAAACATCAAGTATCAATAT-TTTTT-TATAGGTATCGATACTTTTAT
* * * **
31421 TCCAGTATGCTTGC-AAAACAATTTGCATGAAAAAAGTATCGATACACATGTACAAAGTATCGGT
320 TCCAGTATGCTT-CTCAAACAATTTGCACGCAAAAAGTATCGATACACATGTACAAAGTATCAAT
** *
31485 ACTTTTAATTTCA
384 ACTTGGAACTTCA
* *
31498 AAACCTATTACTATAAAGTAATACATAAATTTACAATGTAAATGGTAAAATCTACCGGTTTAATT
1 AAACCTATTACTATAAAGTAATACATAAATTTACAATGTAAACGGTAAAATCTACCGGTTTAATG
* ** * * *
31563 ATAATAAGTTTAAACATAAAGTAACGATACTTATTATATTGGTATCGAAACTGTTATTCCAGTAT
66 ATAATAGGCATAAACATAAAGTATCGATACTTATTATATAGGTATCGAAACTTTTATTCCAGTAT
* * *
31628 GCATCTCAAATAATTTGCACGCAAAAAGTATCGATACACATATATAAAGTATAGATACTTGGACT
131 GCATCTCAAACAATTTGCACGCAAAAAGTATCGATACACATATATAAAGTATCGATAC--AGACT
* * * * * **
31693 TTCGAAACCAATTACTTTAATGTAATAGGTAAATTTACAATATAAACGGTAAAAATCTATTGATT
194 TCCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAATGGTAAAAATCTACCGATT
* *
31758 TAATAATAATAGGTG-AAACATCAAGTATCAAAACTTTTTTTATAGGTATCGATACTTTTATTCC
259 TAATGATAATAGGTGTAAACATCAAGTATCAATA-TTTTTTTATAGGTATCGATACTTTTATTCC
* * * * *
31822 AATTTGATTCTCAAACATTTTGCACGCACAAAGTATCGATACACATGTACAAAGTATCAATACTT
323 AGTATGCTTCTCAAACAATTTGCACGCAAAAAGTATCGATACACATGTACAAAGTATCAATACTT
*
31887 GGAACTTCG
388 GGAACTTCA
* * * * *
31896 AAACCCATTACTGTAAAGTAATACATAAATTTACAATGTAAACGGTAAACGTTTACTGGTTTAAT
1 AAACCTATTACTATAAAGTAATACATAAATTTACAATGTAAACGGTAAA-ATCTACCGGTTTAAT
* * *
31961 GATAATAGGCACAAACATAAAGTATCAATACGTTA-TATATAGGTATCGATACTTTTAGTT-CAG
65 GATAATAGGCATAAACATAAAGTATCGATAC-TTATTATATAGGTATCGAAACTTTTA-TTCCAG
** * * * *
32024 TATGTTTCTC-AACATTTTGCACGCAAAATGTATTGATACACATATATAAAGTATCGATACGTGA
128 TATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATACACATATATAAAGTATCGATAC-AG-
* * * * *
32088 AATTCCAAAACCGATTACTTTAAAGT-TTAGGTAACTTTACAATGTAAATGGTAAAATTCTACCG
191 ACTTCCGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAATGGTAAAAATCTACCG
** * * * * * * * *
32152 ATAGATTGATAATAGGCGTAAATACCAAGTATCGATATTGTCTATATAGGTATCAATACTTTTAT
256 ATTTAATGATAATAGGTGTAAACATCAAGTATCAATATT-TTTTTATAGGTATCGATACTTTTAT
* * * *
32217 TCCAGTATGCTTCTCAAATAATTTGCACGCAAAATGTATCGATACTTTATACACATATATAAAGT
320 TCCAGTATGCTTCTCAAACAATTTGCACGCAAAAAGTATCG-------ATACACATGTACAAAGT
** * *
32282 ATCAATACTTATAATTTCG
378 ATCAATACTTGGAACTTCA
* * ** * * * ** *
32301 AAACCTATTATTGTAAAGTAATAGGTTAATTTACAATGAAAACGGTAAGAGTCTACCAATATAAT
1 AAACCTATTACTATAAAGTAATACATAAATTTACAATGTAAACGGTAA-AATCTACCGGTTTAAT
* * *
32366 GATAATAGGCGTAAACATCAAGTATTGATAC
65 GATAATAGGCATAAACATAAAGTATCGATAC
32397 ACTTGTATAA
Statistics
Matches: 758, Mismatches: 120, Indels: 36
0.83 0.13 0.04
Matches are distributed among these distances:
397 82 0.11
398 356 0.47
399 128 0.17
400 82 0.11
405 109 0.14
406 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (396 bp):
AAACCTATTACTATAAAGTAATACATAAATTTACAATGTAAACGGTAAAATCTACCGGTTTAATG
ATAATAGGCATAAACATAAAGTATCGATACTTATTATATAGGTATCGAAACTTTTATTCCAGTAT
GCATCTCAAACAATTTGCACGCAAAAAGTATCGATACACATATATAAAGTATCGATACAGACTTC
CGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAATGGTAAAAATCTACCGATTTA
ATGATAATAGGTGTAAACATCAAGTATCAATATTTTTTTATAGGTATCGATACTTTTATTCCAGT
ATGCTTCTCAAACAATTTGCACGCAAAAAGTATCGATACACATGTACAAAGTATCAATACTTGGA
ACTTCA
Found at i:33042 original size:225 final size:225
Alignment explanation
Indices: 32611--33212 Score: 838
Period size: 225 Copynumber: 2.7 Consensus size: 225
32601 CGGTAATATA
* *
32611 TTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATTGTCAGATTTCTAAGACCCC
1 TTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATTGTCAGATTTCTAAGGCCCG
** * *
32676 ATCAGCTTTAAAC-AGACGCTACATATTACATTAAATAAGTGCTACTTGTTATGTTACTATGATT
66 ATCAGCTTTAAACAAGACGCTACATATTACA-TAAATAAGCACTACTTGTTATGTTATTATGGTT
* * *
32740 GATAATGTTTCCAGTAATTAATCTATTTTGTTATCATTGAATTTCTAAGGCTTCATCAGCTTAAG
130 GATAATGTTTCCAGTAATTAA-CTATTTTGTTATCATCGAATTTCTAAGGCTCCATCAGCTTAAA
32805 CGTTGATAACATTTTAGGCGCTACCTAAAATG
194 CGTTGATAACATTTTAGGCGCTACCTAAAATG
*
32837 TTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCT-TCGGATTTCTAAGGCCC
1 TTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTAT-TGTCAGATTTCTAAGGCCC
* *
32901 GATCAACTTTAAACAAGCAC-C-ACATATTACATAAATAAGCACTACTTGTTATATTATTATGGT
65 GATCAGCTTTAAACAAG-ACGCTACATATTACATAAATAAGCACTACTTGTTATGTTATTATGGT
* * * *
32964 TGATAATGTTTTCAGTAATTAACATATTTTGTTATCGTCGGATTTCTAAGGCTCCATTAGCTTAA
129 TGATAATGTTTCCAGTAATTAAC-TATTTTGTTATCATCGAATTTCTAAGGCTCCATCAGCTTAA
* * **
33029 ACTTTGGTAACATTTTAGGCGCTACCTAGTATG
193 ACGTTGATAACATTTTAGGCGCTACCTAAAATG
* * * *
33062 TTGATAATGTTGATAACAAATCAAGTAATTAACTTATTTTGTTATTGTCAAATTTCTAAGGTCTC
1 TTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATTGTCAGATTTCTAAGG-CCC
* * * * *
33127 G-TCAGCTTTAAA-AAGACGCTACCTATTACGTTACATAATCACTACCTGTTATGTTATTATGGT
65 GATCAGCTTTAAACAAGACGCTACATATTAC-ATAAATAAGCACTACTTGTTATGTTATTATGGT
33190 TGATAATGTTTCCAGTAATTAAC
129 TGATAATGTTTCCAGTAATTAAC
33213 CAGTTATGTT
Statistics
Matches: 334, Mismatches: 33, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
223 2 0.01
224 6 0.02
225 185 0.55
226 135 0.40
227 4 0.01
228 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (225 bp):
TTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATTGTCAGATTTCTAAGGCCCG
ATCAGCTTTAAACAAGACGCTACATATTACATAAATAAGCACTACTTGTTATGTTATTATGGTTG
ATAATGTTTCCAGTAATTAACTATTTTGTTATCATCGAATTTCTAAGGCTCCATCAGCTTAAACG
TTGATAACATTTTAGGCGCTACCTAAAATG
Found at i:52791 original size:20 final size:20
Alignment explanation
Indices: 52708--52820 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
52698 AACAAAGAAG
52708 TCAAATTCGCAACGT-G-TTT
1 TCAAATTCGCAAC-TCGATTT
* * *
52727 GCCAAATTCGCAACACTGAATT
1 -TCAAATTCGCAACTC-GATTT
* * *
52749 TCAAATTTGCAA-TTGAATT
1 TCAAATTCGCAACTCGATTT
52768 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACTCGATTT
*
52788 TCAAATTCTCAACTCGATTT
1 TCAAATTCGCAACTCGATTT
**
52808 TTGAATTCGCAAC
1 TCAAATTCGCAAC
52821 AGGTTTTAGT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
19 16 0.21
20 46 0.61
21 11 0.15
22 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCAAATTCGCAACTCGATTT
Found at i:52996 original size:14 final size:15
Alignment explanation
Indices: 52977--53014 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
52967 TCCCCATCTC
52977 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
52991 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
53007 TAATTTTT
1 TAATTTTT
53015 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:56092 original size:18 final size:18
Alignment explanation
Indices: 56069--56104 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
56059 AAGCAAAAGG
*
56069 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
56087 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
56105 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:56315 original size:20 final size:20
Alignment explanation
Indices: 56286--56324 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56276 TTGCGATTGA
56286 TGCGAAAGTCAAATTCGCAT
1 TGCGAAAGTCAAATTCGCAT
*
56306 TGCGATAGTCAAATTCGCA
1 TGCGAAAGTCAAATTCGCA
56325 ACGCGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
TGCGAAAGTCAAATTCGCAT
Found at i:56330 original size:20 final size:20
Alignment explanation
Indices: 56287--56332 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
56277 TGCGATTGAT
**
56287 GCGAAAGTCAAATTCGCATT
1 GCGAAAGTCAAATTCGCAAC
*
56307 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
56327 GCGAAA
1 GCGAAA
56333 TCGCAAACCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:56358 original size:14 final size:14
Alignment explanation
Indices: 56320--56358 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
56310 ATAGTCAAAT
56320 TCGCAACGCG-AAA
1 TCGCAACGCGAAAA
56333 TCGCAAAC-CGAAAA
1 TCGC-AACGCGAAAA
56347 TCGCAACGCGAA
1 TCGCAACGCGAA
56359 TTTGACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.41, C:0.31, G:0.21, T:0.08
Consensus pattern (14 bp):
TCGCAACGCGAAAA
Found at i:56512 original size:64 final size:64
Alignment explanation
Indices: 56433--56590 Score: 282
Period size: 64 Copynumber: 2.5 Consensus size: 64
56423 TTGAATAAAC
56433 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTT-CACATCAATTA
*
56497 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTCCCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTCACATCAATTA
56561 AACAAATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
56591 ATTCAATTAA
Statistics
Matches: 91, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
64 69 0.76
65 22 0.24
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTCACATCAATTA
Found at i:57942 original size:21 final size:21
Alignment explanation
Indices: 57908--58035 Score: 159
Period size: 21 Copynumber: 6.1 Consensus size: 21
57898 TATCGGGCAC
*
57908 GAGAGGGGCCTCTTGAACGGT
1 GAGAGGGGCCTCTTGAACGAT
* * *
57929 GGGAAGGACCTCTTGAACGAT
1 GAGAGGGGCCTCTTGAACGAT
* *
57950 GACAGGGGCCTCTTGAACGGT
1 GAGAGGGGCCTCTTGAACGAT
*
57971 GGGAGGGGCCTCTTGAACGAT
1 GAGAGGGGCCTCTTGAACGAT
57992 GAGAGGGGCCTCTTGAACGAT
1 GAGAGGGGCCTCTTGAACGAT
**
58013 -AGGAGACGCCTCTTGAACGAT
1 GA-GAGGGGCCTCTTGAACGAT
58034 GA
1 GA
58036 CAGGTGCATC
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
20 1 0.01
21 88 0.98
22 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.38, T:0.19
Consensus pattern (21 bp):
GAGAGGGGCCTCTTGAACGAT
Found at i:57970 original size:42 final size:41
Alignment explanation
Indices: 57911--58039 Score: 186
Period size: 42 Copynumber: 3.1 Consensus size: 41
57901 CGGGCACGAG
57911 AGGGGCCTCTTGAACGGTGGGAAGGACCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGGTGGGAAGG-CCTCTTGAACGATGAC
* *
57953 AGGGGCCTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAG
1 AGGGGCCTCTTGAACGGTGGGA-AGGCCTCTTGAACGATGAC
* * *
57995 AGGGGCCTCTTGAACGATAGGAGACGCCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGGTGGGA-AGGCCTCTTGAACGATGAC
58037 AGG
1 AGG
58040 TGCATCGGGC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 77 0.97
43 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.37, T:0.19
Consensus pattern (41 bp):
AGGGGCCTCTTGAACGGTGGGAAGGCCTCTTGAACGATGAC
Found at i:58485 original size:63 final size:63
Alignment explanation
Indices: 58350--58489 Score: 158
Period size: 63 Copynumber: 2.2 Consensus size: 63
58340 GTAAAGTAGA
* * *
58350 TACCTCACCACGTAGTGCACCATTGTCATCGCGTAAAACATCCACCTCACCACATAAAGACCG
1 TACCTCATCACGTAGTGCACCATTGTCATCACGTAAAACATCCACCTCACCACACAAAGACCG
* * ** ** *
58413 TACCCCATCACGTAGTGCACCATTGTCTTCACGTAAAGTA-CCGACCTCATGACGCAAAGCACCG
1 TACCTCATCACGTAGTGCACCATTGTCATCACGTAAAACATCC-ACCTCACCACACAAAG-ACCG
58477 -ACCTCATCACGTA
1 TACCTCATCACGTA
58490 ACTCCCCTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
62 2 0.03
63 58 0.91
64 4 0.06
ACGTcount: A:0.30, C:0.36, G:0.14, T:0.20
Consensus pattern (63 bp):
TACCTCATCACGTAGTGCACCATTGTCATCACGTAAAACATCCACCTCACCACACAAAGACCG
Found at i:60232 original size:20 final size:20
Alignment explanation
Indices: 60192--60271 Score: 73
Period size: 20 Copynumber: 4.3 Consensus size: 20
60182 AATTCACAAT
*
60192 GCGAAAATGAAAATTGCAAC
1 GCGAAAATGAAAATCGCAAC
* *
60212 GCGAACATGAAAATCGGAA-
1 GCGAAAATGAAAATCGCAAC
*
60231 -CG---A-CAAAATCGCAAC
1 GCGAAAATGAAAATCGCAAC
*
60246 GTGAAAATGAAAATCGCAAC
1 GCGAAAATGAAAATCGCAAC
60266 GCGAAA
1 GCGAAA
60272 CTAAATTCGC
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
14 9 0.20
15 1 0.02
16 1 0.02
18 2 0.04
19 1 0.02
20 32 0.70
ACGTcount: A:0.49, C:0.19, G:0.21, T:0.11
Consensus pattern (20 bp):
GCGAAAATGAAAATCGCAAC
Found at i:60245 original size:34 final size:34
Alignment explanation
Indices: 60201--60266 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
60191 TGCGAAAATG
* * *
60201 AAAATTGCAACGCGAACATGAAAATCGGAACGAC
1 AAAATCGCAACGCGAAAATGAAAATCGCAACGAC
*
60235 AAAATCGCAACGTGAAAATGAAAATCGCAACG
1 AAAATCGCAACGCGAAAATGAAAATCGCAACG
60267 CGAAACTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.12
Consensus pattern (34 bp):
AAAATCGCAACGCGAAAATGAAAATCGCAACGAC
Found at i:61801 original size:22 final size:22
Alignment explanation
Indices: 61760--61801 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
61750 ATATTGTTAT
**
61760 GTATCGATACTTTTTTTATAAA
1 GTATCGATACTTTTAATATAAA
61782 GTATCGATACTTTTAATATA
1 GTATCGATACTTTTAATATA
61802 TCCGGCAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (22 bp):
GTATCGATACTTTTAATATAAA
Found at i:61872 original size:112 final size:113
Alignment explanation
Indices: 61729--61996 Score: 441
Period size: 112 Copynumber: 2.4 Consensus size: 113
61719 CTTTACTGAT
*
61729 TTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACTTTTTTTATAAAGTATCGATACTT
1 TTTGTCATATTTTTACATGTTATATTGTTATGTATCGATACTTTTTTTATAAAGTATCGATACTT
* *
61794 TTAATATATCCGGCAGCTCTTTA-CGGTTTTGTCATAATGAAACTGGC
66 TTAACATATCCGACAGCTCTTTACCGGTTTTGTCATAATGAAACTGGC
* * *
61841 TTTGTCATATTTTTACATGTTATATTATTATGTATCGATA-TATTTTTATAAAGTATCGGTACTT
1 TTTGTCATATTTTTACATGTTATATTGTTATGTATCGATACTTTTTTTATAAAGTATCGATACTT
* * *
61905 TTAACATATCCGATAGCTCTTTACCGGTTTTGTCATGATGAAACTGGT
66 TTAACATATCCGACAGCTCTTTACCGGTTTTGTCATAATGAAACTGGC
61953 TTTGTCATATTTTTACATGTTATATTGTTATGTATCGATACTTT
1 TTTGTCATATTTTTACATGTTATATTGTTATGTATCGATACTTT
61997 ATAGACGCTA
Statistics
Matches: 143, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
111 42 0.29
112 99 0.69
113 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (113 bp):
TTTGTCATATTTTTACATGTTATATTGTTATGTATCGATACTTTTTTTATAAAGTATCGATACTT
TTAACATATCCGACAGCTCTTTACCGGTTTTGTCATAATGAAACTGGC
Found at i:62310 original size:72 final size:73
Alignment explanation
Indices: 62078--62331 Score: 422
Period size: 73 Copynumber: 3.5 Consensus size: 73
62068 CAACATATTG
*
62078 GTAGGTAATTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTAA
1 GTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTAA
62143 AAAAAACC
66 AAAAAACC
* *
62151 GTAGGTATTTTAATGTAATAGGTAGTGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTCA
1 GTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTAA
62216 AAAAAACC
66 AAAAAACC
* * *
62224 AGTAAGTATTTTAATGTAATAGGTAACGTCTA-TTTTTTTACCGTTTACATTATTAGCAACCTT-
1 -GTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTA
62287 AAAAAAACC
65 AAAAAAACC
62296 GTTAGGTATTTTAATGTAATAGGTAGCGCCTATTTT
1 G-TAGGTATTTTAATGTAATAGGTAGCGCCTATTTT
62332 ATATTTTCGG
Statistics
Matches: 168, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
71 1 0.01
72 36 0.21
73 104 0.62
74 27 0.16
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (73 bp):
GTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTAA
AAAAAACC
Found at i:64185 original size:17 final size:17
Alignment explanation
Indices: 64163--64202 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
64153 AACTAATACC
64163 ATGAAACTCTTCAACTA
1 ATGAAACTCTTCAACTA
64180 ATGAAACTCTTCAACTA
1 ATGAAACTCTTCAACTA
64197 ATGAAA
1 ATGAAA
64203 ATAATATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (17 bp):
ATGAAACTCTTCAACTA
Found at i:73992 original size:22 final size:21
Alignment explanation
Indices: 73962--74042 Score: 72
Period size: 23 Copynumber: 3.7 Consensus size: 21
73952 TCTGACAGGA
*
73962 GGAATCGATACCCCCTTGAAGG
1 GGAACCGATACCCCCTTGAA-G
* *
73984 GGAACCGATTCCCCCTTTGAATA
1 GGAACCGATACCCCC-TTGAA-G
* *
74007 GGAACCGATTCCCCCTTGGAG
1 GGAACCGATACCCCCTTGAAG
* *
74028 GGAATCAATACCCCC
1 GGAACCGATACCCCC
74043 AACGGGTTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 12 0.24
22 17 0.35
23 20 0.41
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (21 bp):
GGAACCGATACCCCCTTGAAG
Found at i:74003 original size:23 final size:23
Alignment explanation
Indices: 73960--74023 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
73950 TTTCTGACAG
* *
73960 GAGGAATCGATACCCCC-TTGAA
1 GAGGAACCGATTCCCCCTTTGAA
*
73982 GGGGAACCGATTCCCCCTTTGAA
1 GAGGAACCGATTCCCCCTTTGAA
*
74005 TAGGAACCGATTCCCCCTT
1 GAGGAACCGATTCCCCCTT
74024 GGAGGGAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (23 bp):
GAGGAACCGATTCCCCCTTTGAA
Found at i:74541 original size:13 final size:14
Alignment explanation
Indices: 74513--74547 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
74503 CATATATTGA
*
74513 TTTTCAAACCTTGT
1 TTTTCAAACCTCGT
74527 TTTTCAAA-CTCGT
1 TTTTCAAACCTCGT
74540 TTTTCAAA
1 TTTTCAAA
74548 TTGCCCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.49
Consensus pattern (14 bp):
TTTTCAAACCTCGT
Found at i:76644 original size:20 final size:20
Alignment explanation
Indices: 76611--76653 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
76601 GGGCAGATTG
76611 CCTAGAGGGAACCGATTCCC
1 CCTAGAGGGAACCGATTCCC
* *
76631 CCTAGGGGGTACCGATTCCC
1 CCTAGAGGGAACCGATTCCC
76651 CCT
1 CCT
76654 GAAAGGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.37, G:0.26, T:0.19
Consensus pattern (20 bp):
CCTAGAGGGAACCGATTCCC
Found at i:76661 original size:21 final size:20
Alignment explanation
Indices: 76611--76661 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
76601 GGGCAGATTG
* *
76611 CCTAGAGGGAACCGATTCCC
1 CCTAAAGGGTACCGATTCCC
**
76631 CCTAGGGGGTACCGATTCCC
1 CCTAAAGGGTACCGATTCCC
76651 CCTGAAAGGGT
1 CCT-AAAGGGT
76662 TTGGCTCCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (20 bp):
CCTAAAGGGTACCGATTCCC
Found at i:83487 original size:28 final size:27
Alignment explanation
Indices: 83424--83488 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
83414 TGTCTGATTT
*
83424 GTTGGGCTTAATTTGAAAGACAGGGTA
1 GTTGGGCTTAATTTGAAAGACAGAGTA
* * * *
83451 GTTGGGCTTAGTTTGAATGATATGAGTC
1 GTTGGGCTTAATTTGAAAGACA-GAGTA
83479 GTTGGGCTTA
1 GTTGGGCTTA
83489 TTAAGGGCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 19 0.59
28 13 0.41
ACGTcount: A:0.23, C:0.08, G:0.34, T:0.35
Consensus pattern (27 bp):
GTTGGGCTTAATTTGAAAGACAGAGTA
Done.