Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167930.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_193, 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: 53604
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.35
Warning! 1000 characters in sequence are not A, C, G, or T
Found at i:563 original size:24 final size:24
Alignment explanation
Indices: 523--569 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
513 AAACCATATC
* *
523 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTACAAATATAATTA
546 ATATTAATAATTACAAATATAATT
1 ATATT-ATAATTACAAATATAATT
570 TAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTACAAATATAATTA
Found at i:2760 original size:46 final size:47
Alignment explanation
Indices: 2692--2784 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 47
2682 AGATTGTTTG
** * *
2692 TGAATTAAGTATTTGGAGAAAGATTGTAGATTATT-TGATATGTGTT
1 TGAATTAAGTATTTACAAAAAGATTGTAGATTATTGTGATAAGTGTT
*
2738 TGAATTAAGTATTTACAAAAAGATTGTGGATTATTGTGATAAGTGTT
1 TGAATTAAGTATTTACAAAAAGATTGTAGATTATTGTGATAAGTGTT
2785 GGATATGGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 31 0.76
47 10 0.24
ACGTcount: A:0.34, C:0.01, G:0.23, T:0.42
Consensus pattern (47 bp):
TGAATTAAGTATTTACAAAAAGATTGTAGATTATTGTGATAAGTGTT
Found at i:4758 original size:25 final size:25
Alignment explanation
Indices: 4716--4766 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
4706 TATTTGCTTT
*
4716 ATTTGAAATAAATGTATTTCTTTTG
1 ATTTGAAATAAATGTATTTCATTTG
4741 ATTT-AAATAAATGTTATTTCATTTG
1 ATTTGAAATAAATG-TATTTCATTTG
4766 A
1 A
4767 ACAATTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (25 bp):
ATTTGAAATAAATGTATTTCATTTG
Found at i:19684 original size:19 final size:19
Alignment explanation
Indices: 19648--19682 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
19638 CTAGCATTGT
19648 TCTTAACATTGTCTTTTTA
1 TCTTAACATTGTCTTTTTA
19667 TCTT-ACATTG-CTTTTT
1 TCTTAACATTGTCTTTTT
19683 TTGTTCTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (19 bp):
TCTTAACATTGTCTTTTTA
Found at i:19895 original size:10 final size:9
Alignment explanation
Indices: 19866--19894 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
19856 ATCTTGTTTC
19866 TTCTTTTTT
1 TTCTTTTTT
19875 TTCTTTTTT
1 TTCTTTTTT
19884 TTCTTTTTT
1 TTCTTTTTT
19893 TT
1 TT
19895 TAATTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:21821 original size:458 final size:460
Alignment explanation
Indices: 21011--21918 Score: 1360
Period size: 458 Copynumber: 2.0 Consensus size: 460
21001 TATATTAAAT
21011 ATTTCGAATCAAATTCAAATATTAAATATATATATATATATATATTAAATTCAGATCGAATTTTA
1 ATTTCGAATCAAATTCAAATATT-AATATATATATATATATATATTAAATTCAGATCGAATTTTA
* ** * * * *
21076 AATCGAAAGATAAAAATTTTAAAAAAATTTGAATCACGGGAAATTAAGGTGGTGAGAAAAAAATT
65 AATCGAAAGATAAAAAATAAAAAAAAAATCGAATCACGGGAAATTAAAGTAGTGAGAAAAAAATT
21141 GAAAAAAAAAAGATTCAAAATCGTAGCATTTGATTTAATTTAAATAATTTTTAAAAATAAAAAAT
130 GAAAAAAAAAAGATTCAAAATCGTAGCATTTGATTTAATTTAAATAATTTTTAAAAATAAAAAAT
*
21206 AAAAAATTGATTTGAAATTTTAGAATTCGATTTAGTATGGATAAATTTTTTCTTATTTGATTCGG
195 AAAAAATTGATTTGAAATTTTAGAATTCGATTTAGTATGGATAAATTTTTTCTCATTTGATTCGG
* * * *
21271 ATCAAATTTGAATATTAAATATATATATATATATATATTAGATTTAGATTGAATTTTGAATCGAA
260 ATCAAATTCGAATATTAAATATATATATATATATATATTAGATTCAGATCGAATTTTGAATCAAA
*
21336 AGGTAAAAAATCTAAAAAAATATAAAAAAAAACAAATCACGAGGAAAACAGATCGTAAGAAAATT
325 AGATAAAAAATCTAAAAAAATATAAAAAAAAACAAATCACGAGGAAAACAGATCGTAAGAAAATT
* ** * *
21401 TTGAAAAAATAAAAAAATTGATTTGAAATTTTAGTATTCGATTTAATTTTGATCAATTTTTTTCT
390 TTGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTCGATTTAATTTGGATCAATTTTTTTCT
21466 TATTCA
455 TATTCA
*
21472 ATTT-GAATCAAATTCAAATATT-A-A-ATATATATATATATATTAAATTCATATCGAATTTTAA
1 ATTTCGAATCAAATTCAAATATTAATATATATATATATATATATTAAATTCAGATCGAATTTTAA
** *
21533 ATCGAAAGATAAAAAATAAAAAAAAAATCGAATCGTGGGGAA-TACAAGTAGTGAGAAAAAAAGT
66 ATCGAAAGATAAAAAATAAAAAAAAAATCGAATCACGGGAAATTA-AAGTAGTGAGAAAAAAA-T
* * * * *
21597 TGAAAAAAAAAAGATTCAAAATCGTAGTATTTGATTTGATTTAAATTATTTTTTAAAATTGAAAA
129 TGAAAAAAAAAAGATTCAAAATCGTAGCATTTGATTTAATTTAAA-TAATTTTTAAAAATAAAAA
* * * * *
21662 ATAAAAATTTGATTTGAAATTTTAGTATTTGATTTAGTTTGGATTAATTTTTTTCTCATTTGATT
193 ATAAAAAATTGATTTGAAATTTTAGAATTCGATTTAGTATGGA-TAAATTTTTTCTCATTTGATT
*
21727 CGGATTAAATTCGAATATTAAATATATATATATATATATATTAGATTCAGATCGAATTTTGAATC
257 CGGATCAAATTCGAATATTAAATATATATATATATATATATTAGATTCAGATCGAATTTTGAATC
* * * * *
21792 AAAAGATAAAAAATTTTAAAAAA-ATAAAAAAAAACAAATCACGAGGAAAATAGATGGTGAGAAA
322 AAAAGATAAAAAATCTAAAAAAATATAAAAAAAAACAAATCACGAGGAAAACAGATCGTAAGAAA
* **
21856 ATTTTGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTTGATTTGGTTTGGATCAATTTT
387 ATTTTGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTCGATTTAATTTGGATCAATTTT
21919 AATATTGAAA
Statistics
Matches: 402, Mismatches: 41, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
455 2 0.00
456 85 0.21
457 45 0.11
458 149 0.37
459 99 0.25
460 18 0.04
461 4 0.01
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.36
Consensus pattern (460 bp):
ATTTCGAATCAAATTCAAATATTAATATATATATATATATATATTAAATTCAGATCGAATTTTAA
ATCGAAAGATAAAAAATAAAAAAAAAATCGAATCACGGGAAATTAAAGTAGTGAGAAAAAAATTG
AAAAAAAAAAGATTCAAAATCGTAGCATTTGATTTAATTTAAATAATTTTTAAAAATAAAAAATA
AAAAATTGATTTGAAATTTTAGAATTCGATTTAGTATGGATAAATTTTTTCTCATTTGATTCGGA
TCAAATTCGAATATTAAATATATATATATATATATATTAGATTCAGATCGAATTTTGAATCAAAA
GATAAAAAATCTAAAAAAATATAAAAAAAAACAAATCACGAGGAAAACAGATCGTAAGAAAATTT
TGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTCGATTTAATTTGGATCAATTTTTTTCTT
ATTCA
Found at i:21976 original size:63 final size:64
Alignment explanation
Indices: 21859--21981 Score: 169
Period size: 63 Copynumber: 1.9 Consensus size: 64
21849 TGAGAAAATT
**
21859 TTGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTTGATTTGGTTTGGATCAATTTTAATA
1 TTGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTTGATTTAATTTGGATCAATTTTAATA
* * * *
21923 TTGAAAAAAT-AAAAAATTGATTCAAAATTTTAGTATTT-AGTTTAATTTTGATCAGTTTT
1 TTGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTTGA-TTTAATTTGGATCAATTTT
21982 TTTATTATTC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 1 0.02
63 41 0.79
64 10 0.19
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (64 bp):
TTGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTTGATTTAATTTGGATCAATTTTAATA
Found at i:22461 original size:63 final size:64
Alignment explanation
Indices: 22353--22473 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 64
22343 TAGATAATGA
* * *
22353 GAAAAAATAAAAAAATTAATTCAAAATTATAGTATTTGATTTAGTTTGGATCAGTTTTAAAATT
1 GAAAAAATAAAAAAATTAATTCAAAATTATAGTATTCGATATAGTTTGGATCAATTTTAAAATT
* ** * * *
22417 GAAAAAAT-AAAAAATTGATTTGAAATTTTAGTATTCGGTATAGTTTTGATCAATTTT
1 GAAAAAATAAAAAAATTAATTCAAAATTATAGTATTCGATATAGTTTGGATCAATTTT
22474 TTTCTTATTC
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
63 40 0.83
64 8 0.17
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.40
Consensus pattern (64 bp):
GAAAAAATAAAAAAATTAATTCAAAATTATAGTATTCGATATAGTTTGGATCAATTTTAAAATT
Found at i:22971 original size:63 final size:64
Alignment explanation
Indices: 22852--22976 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 64
22842 GTGAGAAAAA
** *
22852 ATTGAAAAAATAAAAAAAATTAATTCAAAATTATAGTATTTGATATGGTTTGGATCAATTTTAAT
1 ATTGAAAAAAT-AAAAAAATTAATTCAAAATTATAGTATTCAATATAGTTTGGATCAATTTTAAT
* * * * *
22917 ATTGAAAAAAT-AAAAAATTGATTCGAAATTTTAGTATTCAATTTAGTTTTGATCAATTTT
1 ATTGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTCAATATAGTTTGGATCAATTTT
22977 TTTCTTATTC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 41 0.79
65 11 0.21
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (64 bp):
ATTGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTCAATATAGTTTGGATCAATTTTAAT
Found at i:23697 original size:62 final size:63
Alignment explanation
Indices: 23626--23744 Score: 170
Period size: 62 Copynumber: 1.9 Consensus size: 63
23616 AAAATTTTGA
*
23626 AAAAAATAAAAAATTGATTCAAA-ATTATAATATTTGATTTGGTTTGGATC-ATTTTTAAAATT
1 AAAAAATAAAAAATTGATTCAAAGATT-TAATATTTGATTTAGTTTGGATCAATTTTTAAAATT
* * * *
23688 AAAAAATAAAAATTTGATTCAAAGCTTTAGTATTTGGTTTAGTTTGGATCAATTTTT
1 AAAAAATAAAAAATTGATTCAAAGATTTAATATTTGATTTAGTTTGGATCAATTTTT
23745 TTTTATTCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 42 0.84
63 8 0.16
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (63 bp):
AAAAAATAAAAAATTGATTCAAAGATTTAATATTTGATTTAGTTTGGATCAATTTTTAAAATT
Found at i:23841 original size:995 final size:973
Alignment explanation
Indices: 21401--24064 Score: 2806
Period size: 995 Copynumber: 2.7 Consensus size: 973
21391 TAAGAAAATT
* * * * *
21401 TTGAAAAAATAAAAAAATTGATTTGAAATTTTAGTATTCGATTTAATTTTGATCAATTTTTTTCT
1 TTGAAAAAAT-AAAAAATTAATTTGAAATTATAGTATTCGGTATAGTTTTGATCAATTTTTTTCT
* * * *
21466 TATTCAATTTGAATCAAATTCAAATATTAAATATATATATATATATTAAATTCATATCGAATTTT
65 TATTCAATTTCAATTAAATTCAAATATT-AA-ATA-A-ATATATATTAAATTCAAATCAAATTTT
* * * **
21531 AAATCGAAAGATAAAAAATAAAAAAAAAATCGAATCGTGGGGAATACAAGTAGTGAGAAAAAAAG
126 AAATCAAAAGATAAAAAAT-TAAAAAAAATCAAATCGCAGGGAATACAAGTAGTGAGAAAAAAAG
** * * **
21596 TTGAAAAAAAAAAGATTCAAAATCGTAGTATTTGATTTGATTTAAATTATTTTTTAAAATTGAAA
190 TTG--AAAAAAAA-ATTCAAAATTATAATATTTGATTTGATTTAAATCA-TTTTTAAAATCAAAA
* * * ** *
21661 AATAAAAATTTGATTTGAAATTTTAGTATTTGATTTAGTTTGGATTAATTTTTTTCTCATTTGAT
251 AATAAAAATTTGATTTCAAACTTTAGCATTCAATTTAGTTTGGATCAA-TTTTTTCT-ATTTGAT
* * * *
21726 TCGGATTAAATTCGAATATTAAATATATATATATATATATATTAGATTCAGATCGAATTTTGAAT
314 TC-----AGA-TC--A-A-TCAATAT-TA-A-ATATATATAGTAGATTCAGATCGAATTTTAAAT
* * * *
21791 CAAAAGATAAAAAATTTTAAAAAAATAAAAAAAAACAAATCACGAGGAAAATAGATGGTGAGAAA
366 CGAAAGATAAAAAA--CT-----AA-AAAAAAATACAAATCAC------AACAGATGGTGAGAAA
**
21856 ATTTTGAAAAAAT-AAAAAAATTAATTCAAAATTATAGTATTTGATTTGGTTTGGATCAATTTTA
417 AAATTGAAAAAATAAAAAAAATTAATTCAAAATTATAGTATTTGATTTGGTTTGGATCAATTTTA
* *
21920 ATATTGAAAAAATAAAAAATTGATTCAAAATTTTAGTATTTAGTTTAATTTTGATCAGTTTTTTT
482 ATATTGAAAAAATAAAAAATTGATTCAAAATTTTAGTATTTAGTTTAGTTTTGATCAATTTTTTT
* * *
21985 ATTATTCAATTCGAATCAAATTCGAATGTTAAATATATATATATATATATATTAAATTCAGATTG
547 -TTATTCAATTAGAATCAAATTTGAATATTAAA-A-A-A-ATATATATATATT-AATTCAGATTG
*
22050 AATTTTGAATCGAAAGGTAAAAAATT----AAAAAAAATCAAATCGTGGGGAATATAAGTGGTGA
606 AATTTTGAATCTAAAGGT-AAAAATTAAAAAAAAAAAATCAAATCGTGGGGAATATAAGTGGTGA
* * * * *
22111 GAAAAAGTGAAAAAAAAATCAAAATTGTAGTATTTGATTTGATTTAAATTATTTTTGAAATTAAA
670 AAAAAAGTGAAAAAAAAATCAAAATCGTAATATTTGACTTGATTTAAACTATTTTTGAAATTAAA
* *
22176 AAAAATTGATTTGAAATTTTAGTATTCGATTTAGTTTGGATCAATTTTTTTCTTATTCGATTCGG
735 AAAAATTGATTTGAAATTTTAGTATTCAATTTAGTTTGGATCAAATTTTTTCTTATTCGATTCGG
* * ** *
22241 TCAAATTTGAATATTAAATATATATATTAGATTCGGATCGAATTTTGAATAGAAAGATAAAAAAT
800 TCAAATTTGAATATTAAATATATATATTAGAGTCGAATAAAAGTTTGAATAGAAAGATAAAAAAT
*
22306 CTAAAAATAGTAAAAAAAAAACAAATTACGAGGAAAATAGATAATGAGAAAAAATAAAAAAATTA
865 CTAAAAAAAGTAAAAAAAAAACAAATTACGAGGAAAATAGATAATGAGAAAAAATAAAAAAATTA
*
22371 ATTCAAAATTATAGTATTTGATTTAGTTTGGATCAGTTTTAAAA
930 ATTCAAAATTATAGTATTTGATTGAGTTTGGATCAGTTTTAAAA
* *
22415 TTGAAAAAATAAAAAATTGATTTGAAATTTTAGTATTCGGTATAGTTTTGATCAATTTTTTTCTT
1 TTGAAAAAATAAAAAATTAATTTGAAATTATAGTATTCGGTATAGTTTTGATCAATTTTTTTCTT
* *
22480 ATTCAATTTGAATTAAATTCAAATATTAAATAAATATATATTAAATTCAAATCGAATTTTAAATC
66 ATTCAATTTCAATTAAATTCAAATATTAAATAAATATATATTAAATTCAAATCAAATTTTAAATC
* * * *
22545 GAAAGATAAAAAATTAAAAAAAATCGAATCGCAGGGAATACATGTGGTGAGAAAAAAAGTTGAAA
131 AAAAGATAAAAAATTAAAAAAAATCAAATCGCAGGGAATACAAGTAGTGAGAAAAAAAGTTGAAA
* * *
22610 AAAAAATTCAAAATTGTAATATTTGATTTGATTTAAATTATTTTTAAAATCGAAAAATAAAAATT
196 AAAAAATTCAAAATTATAATATTTGATTTGATTTAAATCATTTTTAAAATCAAAAAATAAAAATT
* * * *
22675 TGATTTGAAATTTTGGCATTCAATTTAGTTTGGATTAATTTTTTTCTCATTTGATTCAGATCAAA
261 TGATTTCAAACTTTAGCATTCAATTTAGTTTGGATCAA-TTTTTTCT-ATTTGATTCAGATC-AA
* *
22740 TTCGAATATTAAATATATATATTAGATTCAGATCGGATTTTAAATCGAAAGATAAAAAATCTAAA
323 -TC-AATATTAAATATATATAGTAGATTCAGATCGAATTTTAAATCGAAAGATAAAAAA-CTAAA
22805 AAAAAATAAAAAAAACAAATCACGAGGAAAACAGATGGTGAGAAAAAATTGAAAAAATAAAAAAA
385 AAAAAAT-------ACAAATCAC------AACAGATGGTGAGAAAAAATTGAAAAAATAAAAAAA
*
22870 ATTAATTCAAAATTATAGTATTTGATATGGTTTGGATCAATTTTAATATTGAAAAAATAAAAAAT
437 ATTAATTCAAAATTATAGTATTTGATTTGGTTTGGATCAATTTTAATATTGAAAAAATAAAAAAT
* * * *
22935 TGATTCGAAATTTTAGTATTCAATTTAGTTTTGATCAATTTTTTTCTTATTCAATTTGAATCAAA
502 TGATTCAAAATTTTAGTATTTAGTTTAGTTTTGATCAATTTTTTT-TTATTCAATTAGAATCAAA
* * *
23000 TTTGAATATTAAAAAAAAATATATATATTAATTCAGATCGGATTTTGAATCTAAAGGTAAAAATT
566 TTTGAATATTAAAAAAATATATATATATTAATTCAGATTGAATTTTGAATCTAAAGGTAAAAATT
* * *
23065 AAAAAAAAAAAATTAAATCGTGGGGAATATAGGTGGTGCGAAAAAAATTGAAAAAAAAATTCAAA
631 AAAAAAAAAAAATCAAATCGTGGGGAATATAAGTGGT--GAAAAAAAGTGAAAAAAAAA-TCAAA
23130 ATCGTAATATTTGACTTGATTTAAACTA-TTTTGAAAATTAAAAAAATAAAAATTTGATTTGAAA
693 ATCGTAATATTTGACTTGATTTAAACTATTTTTG-AAATT----AAA-AAAAA-TTGATTTGAAA
* *
23194 TTTTAGTATTCAATTTAGTTTGGA-CAAAATTTTTT-TTATTTGATTCGGATTAAATTTGAATAT
751 TTTTAGTATTCAATTTAGTTTGGATC-AAATTTTTTCTTATTCGATTCGG-TCAAATTTGAATAT
*
23257 TAAATATATATATTAGAGTCGAATAAAAGTTTGAATTGAAAGATAAAAAATCTAAAAAAAGTAAA
814 TAAATATATATATTAGAGTCGAATAAAAGTTTGAATAGAAAGATAAAAAATCTAAAAAAAGTAAA
* * *
23322 GGAAAAAA-AAATTACGAGGAAAATAGGTATTGAGAAAAAATTGAAAAAAAAAATTAATTCAAAA
879 -AAAAAAACAAATTACGAGGAAAATAGATAATGAGAAAAAA-T----AAAAAAATTAATTCAAAA
*
23386 TTATAGTATTTGATTGGGTTTGGATCAGTTTTAAAA
938 TTATAGTATTTGATTGAGTTTGGATCAGTTTTAAAA
* * *
23422 TTGAAAAAAATAAAAAATTAATTTGAAATTATAGTGTT-GGATTTAGTTTTGATCAGTTTTTTTC
1 TTG-AAAAAATAAAAAATTAATTTGAAATTATAGTATTCGG-TATAGTTTTGATCAATTTTTTTC
*
23486 TTATTCAATTCAAATCAATTTTGAATATT-AAATATATATATATATATATATATATTAAATTCAG
64 TTATTCAATT----TCAA--TT-AA-ATTCAAATAT-TA-A-ATA-A-ATATATATTAAATTCAA
* * * **
23550 ATCAAATTTTGAATTAAAAGATAAAAAATT-AAAAAAATCAAATTGTGGGGAATACAAGTAGTGA
116 ATCAAATTTTAAATCAAAAGATAAAAAATTAAAAAAAATCAAATCGCAGGGAATACAAGTAGTGA
** * **
23614 G-AAAAATTTTGAAAAAAATAAAAAATTGATTCAAAATTATAATATTTGATTTGGTTTGGATCAT
181 GAAAAAAAGTTG-----AA-AAAAAA---ATTCAAAATTATAATATTTGATTTGATTTAAATCAT
* * ***
23678 TTTTAAAATTAAAAAATAAAAATTTGA-TTCAAAGCTTTAGTATTTGGTTTAGTTTGGATCAA-T
237 TTTTAAAATCAAAAAATAAAAATTTGATTTCAAA-CTTTAGCATTCAATTTAGTTTGGATCAATT
* * *
23741 TTTT-T-TTT-ATTCA-AT---TCACATTTTAAATATATATAGTAGATT-TGAATCGAATTTTGA
301 TTTTCTATTTGATTCAGATCAATCA-ATATTAAATATATATAGTAGATTCAG-ATCGAATTTTAA
* **
23798 ATCGTAAGATAAAAAA-T-AAAAAAAAT-TGAATCAC-A-AG-TGGTGAGAAAAAATTGAAAAAA
364 ATCGAAAGATAAAAAACTAAAAAAAAATACAAATCACAACAGATGGTGAGAAAAAATTGAAAAAA
* * * * ** ** * *
23857 -AATAAAAAATTGATTTAAAATCATAATATTTGATTTAATTTAAATCAATTTTAA-AATAAAAAA
429 TAA-AAAAAATTAATTCAAAATTATAGTATTTGATTTGGTTTGGATCAATTTTAATATTGAAAAA
* ** *
23920 ATAAAAAATTGATTCAAAATTTTAGTATTTGGTTTAGTTTAAATCAA--TTTTTTTATTCGATTA
493 ATAAAAAATTGATTCAAAATTTTAGTATTTAGTTTAGTTTTGATCAATTTTTTTTTATTCAATTA
* * * * * *
23983 AAATCAAATTTAAATATTATATATATATATATATATTAGATT-TGAATTGAATTTTGAAT-TAAA
558 GAATCAAATTTGAATATTAAAAAAATATATATATATTA-ATTCAG-ATTGAATTTTGAATCT-AA
* *
24046 AGATAAAAAATAAAAAAAA
620 AGGTAAAAATTAAAAAAAA
24065 TTGAATAGAA
Statistics
Matches: 1451, Mismatches: 137, Indels: 146
0.84 0.08 0.08
Matches are distributed among these distances:
987 7 0.00
988 2 0.00
989 7 0.00
990 26 0.02
991 55 0.04
992 40 0.03
993 34 0.02
994 136 0.09
995 227 0.16
996 41 0.03
997 8 0.01
998 2 0.00
999 2 0.00
1000 3 0.00
1001 18 0.01
1002 143 0.10
1003 7 0.00
1004 83 0.06
1005 33 0.02
1006 8 0.01
1007 57 0.04
1008 105 0.07
1009 45 0.03
1010 1 0.00
1011 3 0.00
1012 14 0.01
1013 79 0.05
1014 14 0.01
1015 56 0.04
1016 5 0.00
1017 1 0.00
1018 11 0.01
1019 30 0.02
1020 44 0.03
1021 5 0.00
1022 3 0.00
1023 2 0.00
1024 7 0.00
1025 5 0.00
1026 5 0.00
1027 77 0.05
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (973 bp):
TTGAAAAAATAAAAAATTAATTTGAAATTATAGTATTCGGTATAGTTTTGATCAATTTTTTTCTT
ATTCAATTTCAATTAAATTCAAATATTAAATAAATATATATTAAATTCAAATCAAATTTTAAATC
AAAAGATAAAAAATTAAAAAAAATCAAATCGCAGGGAATACAAGTAGTGAGAAAAAAAGTTGAAA
AAAAAATTCAAAATTATAATATTTGATTTGATTTAAATCATTTTTAAAATCAAAAAATAAAAATT
TGATTTCAAACTTTAGCATTCAATTTAGTTTGGATCAATTTTTTCTATTTGATTCAGATCAATCA
ATATTAAATATATATAGTAGATTCAGATCGAATTTTAAATCGAAAGATAAAAAACTAAAAAAAAA
TACAAATCACAACAGATGGTGAGAAAAAATTGAAAAAATAAAAAAAATTAATTCAAAATTATAGT
ATTTGATTTGGTTTGGATCAATTTTAATATTGAAAAAATAAAAAATTGATTCAAAATTTTAGTAT
TTAGTTTAGTTTTGATCAATTTTTTTTTATTCAATTAGAATCAAATTTGAATATTAAAAAAATAT
ATATATATTAATTCAGATTGAATTTTGAATCTAAAGGTAAAAATTAAAAAAAAAAAATCAAATCG
TGGGGAATATAAGTGGTGAAAAAAAGTGAAAAAAAAATCAAAATCGTAATATTTGACTTGATTTA
AACTATTTTTGAAATTAAAAAAAATTGATTTGAAATTTTAGTATTCAATTTAGTTTGGATCAAAT
TTTTTCTTATTCGATTCGGTCAAATTTGAATATTAAATATATATATTAGAGTCGAATAAAAGTTT
GAATAGAAAGATAAAAAATCTAAAAAAAGTAAAAAAAAAACAAATTACGAGGAAAATAGATAATG
AGAAAAAATAAAAAAATTAATTCAAAATTATAGTATTTGATTGAGTTTGGATCAGTTTTAAAA
Found at i:23930 original size:62 final size:62
Alignment explanation
Indices: 23852--23970 Score: 184
Period size: 62 Copynumber: 1.9 Consensus size: 62
23842 AAAAAATTGA
*
23852 AAAAAAATAAAAAATTGATTTAAAATCATAATATTTGATTTAATTTAAATCAATTTTAAAAT
1 AAAAAAATAAAAAATTGATTCAAAATCATAATATTTGATTTAATTTAAATCAATTTTAAAAT
** * * *
23914 AAAAAAATAAAAAATTGATTCAAAATTTTAGTATTTGGTTTAGTTTAAATCAATTTT
1 AAAAAAATAAAAAATTGATTCAAAATCATAATATTTGATTTAATTTAAATCAATTTT
23971 TTTATTCGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.40
Consensus pattern (62 bp):
AAAAAAATAAAAAATTGATTCAAAATCATAATATTTGATTTAATTTAAATCAATTTTAAAAT
Found at i:24107 original size:21 final size:21
Alignment explanation
Indices: 24081--24122 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
24071 AGAATAAAAT
*
24081 TATATATA-TTT-ATTTTTTA
1 TATATATATTTTAAATTTTTA
24100 TATATATATTTTAAATTTTTA
1 TATATATATTTTAAATTTTTA
24121 TA
1 TA
24123 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATATATTTTAAATTTTTA
Found at i:24122 original size:19 final size:18
Alignment explanation
Indices: 24080--24122 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
24070 TAGAATAAAA
**
24080 TTATATATATTTATTTTT
1 TTATATATATTTAAATTT
24098 TATATATATATTTTAAATTT
1 T-TATATATA-TTTAAATTT
24118 TTATA
1 TTATA
24123 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 12 0.57
20 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATATATTTAAATTT
Found at i:25324 original size:21 final size:20
Alignment explanation
Indices: 25294--25425 Score: 129
Period size: 21 Copynumber: 6.3 Consensus size: 20
25284 GCTCACCTCT
25294 AGATGTAGGACTGTAACCAGG
1 AGATG-AGGACTGTAACCAGG
* *
25315 AGAGGTAGGACTGTAACCGGG
1 AGATG-AGGACTGTAACCAGG
* *
25336 AGATGAAGGACTATATCCAGG
1 AGATG-AGGACTGTAACCAGG
*
25357 AGATGATGGGCTGTAACCAGG
1 AGATGA-GGACTGTAACCAGG
* *
25378 AGATGAAGGACTATATCCAGG
1 AGATG-AGGACTGTAACCAGG
*
25399 AGATGATGGGCTGTAACCAGG
1 AGATGA-GGACTGTAACCAGG
*
25420 GGATGA
1 AGATGA
25426 CGCAGGAGAG
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
20 2 0.02
21 88 0.97
22 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.36, T:0.18
Consensus pattern (20 bp):
AGATGAGGACTGTAACCAGG
Found at i:25356 original size:42 final size:42
Alignment explanation
Indices: 25294--25425 Score: 167
Period size: 42 Copynumber: 3.1 Consensus size: 42
25284 GCTCACCTCT
* * * *
25294 AGATGTAGGACTGTAACCAGGAGAGG-TAGGACTGTAACCGGG
1 AGATGAAGGACTATATCCAGGAGAGGAT-GGACTGTAACCAGG
* *
25336 AGATGAAGGACTATATCCAGGAGATGATGGGCTGTAACCAGG
1 AGATGAAGGACTATATCCAGGAGAGGATGGACTGTAACCAGG
* *
25378 AGATGAAGGACTATATCCAGGAGATGATGGGCTGTAACCAGG
1 AGATGAAGGACTATATCCAGGAGAGGATGGACTGTAACCAGG
*
25420 GGATGA
1 AGATGA
25426 CGCAGGAGAG
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 81 0.99
43 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.36, T:0.18
Consensus pattern (42 bp):
AGATGAAGGACTATATCCAGGAGAGGATGGACTGTAACCAGG
Found at i:25419 original size:63 final size:63
Alignment explanation
Indices: 25304--25425 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
25294 AGATGTAGGA
* * * *
25304 CTGTAACCAGGAGAGGTAGGACTGTAACCGGGAGATGAAGGACTATATCCAGGAGATGATGGG
1 CTGTAACCAGGAGAGGAAGGACTATAACCAGGAGATGAAGGACTATAACCAGGAGATGATGGG
* * * * * *
25367 CTGTAACCAGGAGATGAAGGACTATATCCAGGAGATGATGGGCTGTAACCAGGGGATGA
1 CTGTAACCAGGAGAGGAAGGACTATAACCAGGAGATGAAGGACTATAACCAGGAGATGA
25426 CGCAGGAGAG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.35, T:0.18
Consensus pattern (63 bp):
CTGTAACCAGGAGAGGAAGGACTATAACCAGGAGATGAAGGACTATAACCAGGAGATGATGGG
Found at i:28231 original size:42 final size:42
Alignment explanation
Indices: 28172--28303 Score: 185
Period size: 42 Copynumber: 3.1 Consensus size: 42
28162 CTCTCCTGCG
*
28172 TCATCCCCTGGTTACAGCCCATCATCTCCTGGATATAGTCCT
1 TCATCTCCTGGTTACAGCCCATCATCTCCTGGATATAGTCCT
28214 TCATCTCCTGGTTACAGCCCATCATCTCCTGGATATAGTCCT
1 TCATCTCCTGGTTACAGCCCATCATCTCCTGGATATAGTCCT
* * * * *
28256 TCATCTCCCGGTTACAGTCC-TACCTCTCCTGGTTACAGTCCT
1 TCATCTCCTGGTTACAGCCCAT-CATCTCCTGGATATAGTCCT
*
28298 ACATCT
1 TCATCT
28304 AGTCCTTCAT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 1 0.01
42 81 0.99
ACGTcount: A:0.18, C:0.36, G:0.14, T:0.33
Consensus pattern (42 bp):
TCATCTCCTGGTTACAGCCCATCATCTCCTGGATATAGTCCT
Found at i:28294 original size:21 final size:21
Alignment explanation
Indices: 28173--28303 Score: 131
Period size: 21 Copynumber: 6.2 Consensus size: 21
28163 TCTCCTGCGT
* *
28173 CATCCCCTGGTTACAG-CCCA
1 CATCTCCTGGTTACAGTCCTA
* * *
28193 TCATCTCCTGGATATAGTCCTT
1 -CATCTCCTGGTTACAGTCCTA
*
28215 CATCTCCTGGTTACAG-CCCA
1 CATCTCCTGGTTACAGTCCTA
* * *
28235 TCATCTCCTGGATATAGTCCTT
1 -CATCTCCTGGTTACAGTCCTA
*
28257 CATCTCCCGGTTACAGTCCTA
1 CATCTCCTGGTTACAGTCCTA
*
28278 CCTCTCCTGGTTACAGTCCTA
1 CATCTCCTGGTTACAGTCCTA
28299 CATCT
1 CATCT
28304 AGTCCTTCAT
Statistics
Matches: 87, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
20 2 0.02
21 81 0.93
22 4 0.05
ACGTcount: A:0.18, C:0.36, G:0.14, T:0.32
Consensus pattern (21 bp):
CATCTCCTGGTTACAGTCCTA
Found at i:28328 original size:21 final size:21
Alignment explanation
Indices: 28304--28357 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
28294 TCCTACATCT
*
28304 AGTCCTTCATCTCCCGGTTAC
1 AGTCCTACATCTCCCGGTTAC
* *
28325 AGTCCTACCTCTCCTGGTTAC
1 AGTCCTACATCTCCCGGTTAC
28346 AGTCCTACATCT
1 AGTCCTACATCT
28358 AGAGGTGAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.37, G:0.13, T:0.33
Consensus pattern (21 bp):
AGTCCTACATCTCCCGGTTAC
Found at i:28331 original size:54 final size:54
Alignment explanation
Indices: 28249--28359 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
28239 CTCCTGGATA
28249 TAGTCCTTCATCTCCCGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTACATC
1 TAGTCCTTCATCTCCCGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTACATC
28303 TAGTCCTTCATCTCCCGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTACATC
1 TAGTCCTTCATCTCCCGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTACATC
28357 TAG
1 TAG
28360 AGGTGAGCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.17, C:0.36, G:0.14, T:0.33
Consensus pattern (54 bp):
TAGTCCTTCATCTCCCGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTACATC
Found at i:28446 original size:16 final size:17
Alignment explanation
Indices: 28425--28459 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
28415 GTCATTTCGG
*
28425 TTCGGTT-TAATCGGTT
1 TTCGGTTGTAATCGATT
28441 TTCGGTTGTAATCGATT
1 TTCGGTTGTAATCGATT
28458 TT
1 TT
28460 AAAGATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.51
Consensus pattern (17 bp):
TTCGGTTGTAATCGATT
Found at i:29776 original size:64 final size:64
Alignment explanation
Indices: 29686--29808 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
29676 AATCGAATAA
*
29686 AAAAATTGATTTAAAACTAAACCAAATACTAAAATTTTGAATCAATTTTTTATTTTTTTATTTT
1 AAAAATTGATTTAAAACTAAACCAAATACTAAAATTTTAAATCAATTTTTTATTTTTTTATTTT
* * * ** *
29750 AAAAATTGATTT-AAATTAAAATCAAATATTATGATTTTAAATTAATTTTTTATTTTTTT
1 AAAAATTGATTTAAAACT-AAACCAAATACTAAAATTTTAAATCAATTTTTTATTTTTTT
29809 TCAATTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 4 0.08
64 47 0.92
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (64 bp):
AAAAATTGATTTAAAACTAAACCAAATACTAAAATTTTAAATCAATTTTTTATTTTTTTATTTT
Found at i:29989 original size:62 final size:63
Alignment explanation
Indices: 29916--30034 Score: 170
Period size: 62 Copynumber: 1.9 Consensus size: 63
29906 TTGAATAAAA
*
29916 AAAAATTGATCCAAACTAAACCAAATACTA-AAGCTTTGAATCAATTTTTTATTTTTTAATTTT
1 AAAAATTGATCCAAACCAAACCAAATACTATAA-CTTTGAATCAATTTTTTATTTTTTAATTTT
* * * *
29979 AAAAA-TGATCCAAACCAAATCAAATATTATAATTTTGAATCGATTTTTTATTTTTT
1 AAAAATTGATCCAAACCAAACCAAATACTATAACTTTGAATCAATTTTTTATTTTTT
30035 TCAAAATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 43 0.86
63 7 0.14
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (63 bp):
AAAAATTGATCCAAACCAAACCAAATACTATAACTTTGAATCAATTTTTTATTTTTTAATTTT
Found at i:30787 original size:63 final size:64
Alignment explanation
Indices: 30697--30821 Score: 171
Period size: 63 Copynumber: 2.0 Consensus size: 64
30687 GAATAAGAAA
* *
30697 AAAATTGATCAAAACTAAATCGAATACTAAAATTTCGAATCAA-TTTTTTATTTTTTCAATATT
1 AAAATTGATCAAAACCAAATCAAATACTAAAATTTCGAATCAATTTTTTTATTTTTTCAATATT
* * * * *
30760 AAAATTGATCCAAACCATATCAAATACTATAATTTTGAATTAATTTTTTTTATTTTTTCAAT
1 AAAATTGATCAAAACCAAATCAAATACTAAAATTTCGAATCAA-TTTTTTTATTTTTTCAAT
30822 TTTTTCTCAC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 36 0.68
65 17 0.32
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (64 bp):
AAAATTGATCAAAACCAAATCAAATACTAAAATTTCGAATCAATTTTTTTATTTTTTCAATATT
Found at i:31749 original size:63 final size:64
Alignment explanation
Indices: 31683--31805 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 64
31673 TGAATAATAA
*
31683 AAAAACTGATCAAAACTAAA-CTAAATACTA-AATTTTGAATCAA-TTTTTATTTTTTCAATATT
1 AAAAACTGATCAAAACCAAATC-AAATACTATAATTTTGAATCAATTTTTTATTTTTTCAATATT
* * *
31745 AAAAATTGATCCAAACCAAATCAAATACTATAATTTTGAATTAATTTTTTTATTTTTTCAA
1 AAAAACTGATCAAAACCAAATCAAATACTATAATTTTGAATCAA-TTTTTTATTTTTTCAA
31806 AATTTTCTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
62 25 0.47
63 13 0.25
65 15 0.28
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.41
Consensus pattern (64 bp):
AAAAACTGATCAAAACCAAATCAAATACTATAATTTTGAATCAATTTTTTATTTTTTCAATATT
Found at i:32575 original size:450 final size:456
Alignment explanation
Indices: 31745--32643 Score: 1270
Period size: 450 Copynumber: 2.0 Consensus size: 456
31735 TTTCAATATT
* * ** * *
31745 AAAAATTGATCCAAACCAAATCAAATACTATAATTTTGAATTAATTTTTTTATTTTTTCAAAATT
1 AAAAATTGATCAAAACCAAATCAAATACTAAAATTTCAAATCAATTTTTTTATTTTTTCAAAAAT
*
31810 TTCTCACCATCTATTTTCCTCGTGATTTGTTTTTTTTATTTTTTTAAAATTTTTTATCTTTTGAT
66 TTCTCACCATCTATTTTCCTCGTGATTTGTTTTTTTTATTTTTTTAAAATTTTTTATCTTTCGAT
* *
31875 TCAAAATTCGATCTGAATCTAATATATATATATATATATATATATTTTAATATTCGAATTTAATC
131 TCAAAATTCAATCT-AA--TAATATATATATATATATATATATATTTTAATATTCAAATTTAATC
*
31940 CGAATCAAATGAGAAAAAAATTAATCCAAACTAAATCAAATACTAAAATTTCAAATCAAATTTTT
193 CGAATCAAATAAGAAAAAAATTAATCCAAACTAAATCAAATACTAAAATTTCAAATCAAATTTTT
32005 ATTTTTCATTTTAAAAATAATTTAAATCAAATCAAATACTACGATTTTGAATCTTTTTTTTTTCA
258 ATTTTTCATTTTAAAAATAATTTAAATCAAATCAAATACTACGATTTTGAATCTTTTTTTTTTCA
* * * **
32070 ACTTTTTTCTCACTACTTGTATTCCCACGATTCGATTTTTTTTTATTTTTATCTTTCGATTTAAA
323 ACTTTTTTCTCACCACCTGTATTCCCACGATTCAATTTTTTTAAATTTTTATCTTTCGATTTAAA
32135 ATTCGATATGAATTT-A-ATATATA-ATATATATTTAATATTTGAATTTGATTC-AAATTGAATA
388 ATTCGATATGAATTTAATATATATATATATATATTTAATATTTGAATTTGATTCGAAATTGAATA
32196 AGAA
453 AGAA
** *
32200 AAAAATTGATCAAAATTAAATCGAATACTAAAATTTCAAATCAATTTTTTTA-TTTTTCAAAAAA
1 AAAAATTGATCAAAACCAAATCAAATACTAAAATTTCAAATCAATTTTTTTATTTTTTC-AAAAA
* * * * *
32264 TTTCTTACGATCTGTTTTCCTCGTGATTTGTTTTTTTTTTATATTTTTTTAGA-TTTTTATCTTT
65 TTTCTCACCATCTATTTTCCTCGTGATTTG--TTTTTTTTAT-TTTTTTAAAATTTTTTATCTTT
* *
32328 CGATTTCAAAATTCAATCT-A-AATCTA-ATATATATATATATATA-TTTAATATTCAAATTTGA
127 CGA-TTCAAAATTCAATCTAATAATATATATATATATATATATATATTTTAATATTCAAATTTAA
* * * *
32389 TCCGAATCAAATAAG-AAAAAATTTATCCATACTAAATCGAATTCTAAAATTTCAAATCAAATTT
191 TCCGAATCAAATAAGAAAAAAATTAATCCAAACTAAATCAAATACTAAAATTTCAAATCAAATTT
* *
32453 TT-TTTTT-ATTTTTAAAAATTATTTAAATTAAATCAAATACTACGATTTTGAATC-TTTTTTTT
256 TTATTTTTCA-TTTTAAAAATAATTTAAATCAAATCAAATACTACGATTTTGAATCTTTTTTTTT
* **
32515 TC-ATTTTTTTCTCACCACCTGTATTTCCCGTGATTCAAATTTTTTTAAAATTTTTATCTTTCGA
320 TCAACTTTTTTCTCACCACCTGTA-TTCCCACGATTC-AATTTTTTT-AAATTTTTATCTTTCGA
*
32579 TTTAAAATTCGATCTGAATTTAATATATATATATATATATTTAATATTTGAATTTGATTCGAAAT
382 TTTAAAATTCGATATGAATTTAATATATATATATATATATTTAATATTTGAATTTGATTCGAAAT
32644 ATTTAATATA
Statistics
Matches: 396, Mismatches: 35, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
447 18 0.05
448 21 0.05
449 56 0.14
450 82 0.21
451 31 0.08
452 24 0.06
453 33 0.08
454 10 0.03
455 75 0.19
456 1 0.00
457 23 0.06
458 22 0.06
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.47
Consensus pattern (456 bp):
AAAAATTGATCAAAACCAAATCAAATACTAAAATTTCAAATCAATTTTTTTATTTTTTCAAAAAT
TTCTCACCATCTATTTTCCTCGTGATTTGTTTTTTTTATTTTTTTAAAATTTTTTATCTTTCGAT
TCAAAATTCAATCTAATAATATATATATATATATATATATATTTTAATATTCAAATTTAATCCGA
ATCAAATAAGAAAAAAATTAATCCAAACTAAATCAAATACTAAAATTTCAAATCAAATTTTTATT
TTTCATTTTAAAAATAATTTAAATCAAATCAAATACTACGATTTTGAATCTTTTTTTTTTCAACT
TTTTTCTCACCACCTGTATTCCCACGATTCAATTTTTTTAAATTTTTATCTTTCGATTTAAAATT
CGATATGAATTTAATATATATATATATATATTTAATATTTGAATTTGATTCGAAATTGAATAAGA
A
Found at i:32654 original size:40 final size:41
Alignment explanation
Indices: 32600--32681 Score: 139
Period size: 40 Copynumber: 2.0 Consensus size: 41
32590 ATCTGAATTT
*
32600 AATATATATATATATATATTTAATATTTGAATTTGATTCGA
1 AATATATATATATATATATTTAATATTCGAATTTGATTCGA
*
32641 AATATTTA-ATATATATATTTAATATTCGAATTTGATTCGA
1 AATATATATATATATATATTTAATATTCGAATTTGATTCGA
32681 A
1 A
32682 TTGAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 32 0.82
41 7 0.18
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (41 bp):
AATATATATATATATATATTTAATATTCGAATTTGATTCGA
Found at i:34014 original size:18 final size:18
Alignment explanation
Indices: 33987--34021 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
33977 CTAAGAACAA
33987 AAAAAGCAATG-TAAGAT
1 AAAAAGCAATGTTAAGAT
34004 AAAAAGACAATGTTAAGA
1 AAAAAG-CAATGTTAAGA
34022 ACAATGCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (18 bp):
AAAAAGCAATGTTAAGAT
Found at i:48938 original size:22 final size:24
Alignment explanation
Indices: 48898--48941 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
48888 CTTTAATTGT
48898 TCAAATGAAATAACATTTATTTAA
1 TCAAATGAAATAACATTTATTTAA
48922 TCAAA-GAAAT-ACATTTATTT
1 TCAAATGAAATAACATTTATTT
48942 CAAATAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 5 0.25
24 5 0.25
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.39
Consensus pattern (24 bp):
TCAAATGAAATAACATTTATTTAA
Found at i:50927 original size:46 final size:47
Alignment explanation
Indices: 50859--50951 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 47
50849 AACACTATGC
* * **
50859 AACACTTATCACAATAATCTACAATCTTTTTGTAAATACTTAATTCA
1 AACACATATCACAATAATCTACAATCTTTCTCCAAATACTTAATTCA
50906 AACACATATCA-AATAATCTACAATCTTTCTCCAAATACTTAATTCA
1 AACACATATCACAATAATCTACAATCTTTCTCCAAATACTTAATTCA
50952 CAAACAATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 32 0.76
47 10 0.24
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.35
Consensus pattern (47 bp):
AACACATATCACAATAATCTACAATCTTTCTCCAAATACTTAATTCA
Found at i:53074 original size:24 final size:24
Alignment explanation
Indices: 53036--53082 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
53026 TTTTCTTTTA
* *
53036 AATTATATTTGTAATTATTAATATT
1 AATTATATTTATAATCA-TAATATT
53061 AATT-TATTTATAATCATAATAT
1 AATTATATTTATAATCATAATAT
53083 GATATGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTATATTTATAATCATAATATT
Done.