Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008421.1 Hibiscus syriacus cultivar Beakdansim tig00111201_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: 1159951
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:412 original size:17 final size:17
Alignment explanation
Indices: 387--421 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
377 ATGAAAATGT
*
387 TTTAATATATTTTATTA
1 TTTAATATACTTTATTA
*
404 TTTACTATACTTTATTA
1 TTTAATATACTTTATTA
421 T
1 T
422 ACTTTGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAATATACTTTATTA
Found at i:1150 original size:91 final size:91
Alignment explanation
Indices: 968--1146 Score: 231
Period size: 89 Copynumber: 2.0 Consensus size: 91
958 ATTTTTCTTA
* * *
968 AAGTTATTTTAAAAGACATTTTTTATGTATTCGAACTACCAACCCAAAGGTCGTTGACGACTCTA
1 AAGTTATTTTAAAAGACATTTTTTAGGTATTCGAACTACCAACCCAAAGGTCGATGACGACTCCA
* *
1033 AATTTAAATTAAACAAAAATTTAAAT
66 AATTTAAATAAAACAAAAATTAAAAT
* *
1059 AAGTTATTTTAAAAGACA-TTTTTAGGTA-TCGAGCTACCTAACCCAAA-GTCGATGGCGACTCC
1 AAGTTATTTTAAAAGACATTTTTTAGGTATTCGAACTACC-AACCCAAAGGTCGATGACGACTCC
**
1121 AAACTTTAAA-AAAATGAAAATTAAAA
65 AAA-TTTAAATAAAACAAAAATTAAAA
1147 AATATTTCAA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
89 36 0.47
90 23 0.30
91 18 0.23
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (91 bp):
AAGTTATTTTAAAAGACATTTTTTAGGTATTCGAACTACCAACCCAAAGGTCGATGACGACTCCA
AATTTAAATAAAACAAAAATTAAAAT
Found at i:7674 original size:19 final size:19
Alignment explanation
Indices: 7635--7672 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7625 ATCATGAATA
*
7635 TAAAAGGAAAAATTTAATT
1 TAAAAGGAAAAATATAATT
7654 TAAAAGGAAAAA-ATAATT
1 TAAAAGGAAAAATATAATT
7672 T
1 T
7673 TAGAACGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (19 bp):
TAAAAGGAAAAATATAATT
Found at i:10203 original size:20 final size:21
Alignment explanation
Indices: 10178--10220 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
10168 TTAACTGAAA
10178 AAATTAAAAA-AAT-TAGAGTT
1 AAATTAAAAAGAATCTA-AGTT
10198 AAATTAAAAAGAATCTAAGTT
1 AAATTAAAAAGAATCTAAGTT
10219 AA
1 AA
10221 TAATGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 9 0.43
22 2 0.10
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (21 bp):
AAATTAAAAAGAATCTAAGTT
Found at i:13928 original size:962 final size:973
Alignment explanation
Indices: 10120--17838 Score: 14511
Period size: 962 Copynumber: 8.0 Consensus size: 973
10110 AATCAATAAA
10120 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
1 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
*
10185 A-AAAATTAGAGTTAAATTAAAAAGAATCTAAGTT-AATAATGAAAAAGAGAAAGAGAAAG-AAT
66 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
10247 TTAAATAAAGT-AAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
131 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
*
10311 ATATATATACACATTTAATAATAAA-AATATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAA
196 ATATATATACACATTTAATAATAAACTA-ATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAA
10375 TGAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGAC
260 TGAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGAC
10440 TTAAATAAATTATCTCCTATCCGTTTAAAGAGCA-AGATTCTCTAGGGGATCTGGATCGAGTCAT
325 TTAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCAT
10504 CGGGTCATTTAATCAAAGATAAAATCTCAAAAAAACAATTAAAATTGAATGAAAATAATAAATAA
390 CGGGTCATTTAATCAAAGATAAAATCTC-AAAAAACAATTAAAATTGAATGAAAATAATAAATAA
10569 AATAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCAT-AAAAAACCTCAAGGAATG
454 AATAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATG
10633 ATAAATCTATAAAGA-TTATCTCAAAGTCTTTTCTCCTTATTCTTTGG-TTTCTCTAGTCCCACG
519 ATAAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACG
10696 AAA-TTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAA
584 AAATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAA
10760 GATTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTC-AAAAGCT
649 GATTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCT
*
10824 TTCTTCCTTGTTCCCGGGTTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACG
714 TTCTTCCTTGTTCCTGGG-TTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACG
10889 AAAACCAAAGACAAGACCAAATTGGACAAAGAAATAAG-AAAAAAAAGAATTATATCAATCAAAA
778 AAAACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAA
10953 GATTTTA--TTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTA
843 GATTTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTA
*
11016 TTTATAAGCCCCCAACAACCCT-AAAGCAAAAAAAA--AAC-TC-TTTTGTTAATTCTAGATATA
908 TTTATAAGCCCCCAACAACCCTAAAAGCAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATA
11076 C
973 C
11077 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATT-AAAAATAGAATG-TAACT---AAAA--AA
1 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
*
11135 ATTAAATTAGAGTTAAATTAAAAAGAATATAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
66 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
11200 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
131 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
11265 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
196 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
11330 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
261 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
11395 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
326 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
11460 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
391 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
11525 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATGAT
456 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATGAT
11590 AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
521 AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
11655 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAAT-AAAATAAAGAAGA
586 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAGA
*
11719 TTGTCTGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
651 TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
11784 CTTCCTTGTTCCTGGG-TTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAAA
716 CTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAAA
11848 ACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAGA-
781 ACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAGAT
11912 TTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTATTT
846 TTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTATTT
*
11977 ATAAGCCCGCAACAACCCT-AAAGCAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATAC
911 ATAAGCCCCCAACAACCCTAAAAGCAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATAC
12039 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAG-ATGTTAACTGAAAAAATTAA
1 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
12103 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATG-AAAAGAGAAAGAGAAAGAAAT
66 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
12167 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAAT-A-AT
131 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
12230 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
196 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
12295 GAATT-AATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGAT-GGACT
261 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
*
12358 TAAATAAATTATCTCCTATCCATTTAAAGAGCACAGATTCTCTA-GGGATCTGGATCGAGTCATC
326 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
12422 GGGTCA-TTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
391 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
12486 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATGAT
456 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATGAT
12551 AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
521 AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
12616 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAAT-AAAATAAAGAAGA
586 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAGA
12680 TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGC-TT
651 TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
12744 CTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAAAACGA
716 CTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAG--AAAACGA
*
12809 AAACCAAAGACAAGACCAAATTGGACAAAGAAATAAG--AAAAAAAGAATTATAACAATCAAAAG
779 AAACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAG
12872 ATTTTA-TTTATTGCTCTAATATTTTAGGTTCCAACCC-TTTTTTTACAAAATAAGAATGTCTAT
844 ATTTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTAT
12935 TTATAAGCCCCCAACAACCCTAAAAGCAAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATA
909 TTATAAGCCCCCAACAACCCTAAAAGC-AAAAAAAACTAACATCTTTTTGTTAATGCTAGATATA
13000 C
973 C
13001 TAAATAGATCATGAATGTAAAGGGAAAAGTTAA-TAAAAAATAGAATGTTAACTGAAAAAATTAA
1 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
13065 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
66 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
13130 TTAAATAAAGT-AAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
131 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
13194 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
196 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
13259 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
261 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
*
13324 TAAATAAATTATCTCCTATCCGTTTAATGAGCACAGA-T-TCTAGGGGATCTGGATCGAGTCATC
326 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
13387 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAAT-AATAAAA
391 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
13451 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATGAT
456 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATGAT
*
13516 AAATCTATAAAGATTTATATCAAAGTC-TTTCTCCTTATTCTTTGGTTTT-TCTAGTCCCACGAA
521 AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
13579 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAGA
586 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAGA
13644 TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
651 TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
13709 CTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAAA
716 CTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAAA
*
13774 ACCAAAGACAAGACCAAATTGGACAAAG-AATAAG-AAAAAAAAGAATTATATCAATCAATAGAT
781 ACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAGAT
*
13837 TTTA-TTTATTGCTCTAATATTTTAGGTTCCAACCC-TTTTTTTACAAAATAAGAATATCTA-TT
846 TTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTATTT
13899 ATAAGCCCCCAACAACCCTAAAAGCAAAAAAAACTAACATC-TTTTGTTAATGCTAGATATAC
911 ATAAGCCCCCAACAACCCTAAAAGCAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATAC
13961 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
1 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
14026 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
66 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
14091 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
131 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
*
14156 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAGAAGGTAAAGTGTTAAT
196 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
14221 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
261 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
14286 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTA-GGGATCTGGATCGAGTCATC
326 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
* *
14350 GGGTCATTTAATCAAAGATTAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATTAAA
391 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
*
14415 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAACCCTCAAGGAATGAT
456 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATGAT
14480 AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
521 AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
14545 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAGA
586 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAGA
14610 TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
651 TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
*
14675 CTTCCTTGTTCCTCGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAAA
716 CTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAAA
14740 ACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAGAT
781 ACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAGAT
14805 TTTATTTTATTGCTCTAATATTTTAGGTTCCAACCC-TTTTTTTACAAAATAAGAATGTCTATTT
846 TTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTATTT
14869 ATAAGCCCCCAACAACCCTAAAAGCAAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATAC
911 ATAAGCCCCCAACAACCCTAAAAGC-AAAAAAAACTAACATCTTTTTGTTAATGCTAGATATAC
14933 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
1 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
14998 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
66 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
15063 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
131 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
15128 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
196 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
*
15193 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACAATAGGACT
261 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
15258 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
326 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
15323 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
391 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
*
15388 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAAAACTCAAGGAATGA
456 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCAT-AAAAAAACCTCAAGGAATGA
15453 TAAATCTATAAAGATTTATCTCAAAGTC-TTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGA
520 TAAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGA
15517 AATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAG
585 AATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAG
15582 ATTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTT
650 ATTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTT
* *
15647 TCTTCTTTGTTCCTGGGTTTTTTCTCCAAAAATAAAGTTTTTT-----AAG-AAAAGAAAACGAA
715 TCTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAA
15706 AACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAGA
780 AACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAGA
15771 TTTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTATT
845 TTTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTATT
15836 TATAAGCCCCCAACAACCCTAAAAGCAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATAC
910 TATAAGCCCCCAACAACCCTAAAAGCAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATAC
15900 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
1 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
15965 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
66 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
16030 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
131 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
*
16095 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAGAAGGTAAAGTGTTAAT
196 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
16160 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
261 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
16225 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTA-GGG----GGATCGAGTCATC
326 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
16285 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
391 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
*
16350 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAACCCTCAAGGAATGAT
456 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATGAT
16415 AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
521 AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
16480 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAGA
586 ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAGA
16545 TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
651 TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
*
16610 CTTCCTTGTTCCTCGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAAA
716 CTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAAA
16675 ACCAAAGACAAGACCAAATTGGA-AAAGAAATAAG-AAAAAAAAGAATTATATCAATCAAAAGA-
781 ACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAGAT
16737 TTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTATTT
846 TTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTATTT
16802 ATAAGCCCCCAACAACCCTAAAAGCAAAAAAAACTAACATC-TTTTGTTAATGCTAGATATAC
911 ATAAGCCCCCAACAACCCTAAAAGCAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATAC
16864 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
1 TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
16929 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
66 ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
16994 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
131 TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
17059 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
196 ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
*
17124 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACAATAGGACT
261 GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
17189 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
326 TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
17254 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
391 GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
17319 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAAACCTCAAGGAATGA
456 TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCAT-AAAAAAACCTCAAGGAATGA
17384 TAAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGA
520 TAAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGA
17449 AATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAG
585 AATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAG
17514 ATTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTT
650 ATTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTT
*
17579 TCTTCCTTGTTCCTGGGTTTTTTCTCCAAAAATAAAGTTTTTT-----AAG-AAAAGAAAACGAA
715 TCTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAA
17638 AACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAAGAATTATATCAATCAAAAG
780 AACCAAAGACAAGACCAAATTGGACAAAGAAATAAG-AAAAAAAAAGAATTATATCAATCAAAAG
17703 ATTTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTAT
844 ATTTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTAT
17768 TTATAAGCCCCCAACAACCCTAAAAGCAAAAAAAAAAACTAACATCTTTTTGTTAATGCTAGATA
909 TTATAAGCCCCCAACAACCCTAAAAGC---AAAAAAAACTAACATCTTTTTGTTAATGCTAGATA
17833 TAC
971 TAC
17836 TAA
1 TAA
17839 TTAAAAGAAA
Statistics
Matches: 6635, Mismatches: 48, Indels: 143
0.97 0.01 0.02
Matches are distributed among these distances:
950 3 0.00
951 31 0.00
952 29 0.00
953 14 0.00
954 295 0.04
955 97 0.01
956 131 0.02
957 149 0.02
958 163 0.02
960 121 0.02
961 595 0.09
962 849 0.13
963 402 0.06
964 751 0.11
965 453 0.07
966 362 0.05
967 649 0.10
968 259 0.04
969 177 0.03
970 282 0.04
971 32 0.00
972 412 0.06
973 333 0.05
974 46 0.01
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (973 bp):
TAAATAGATCATGAATGTAAAGGGAAAAGTTAATTAAAAAATAGAATGTTAACTGAAAAAATTAA
ATTAAATTAGAGTTAAATTAAAAAGAATCTAAGTTAAATAATGAAAAAGAGAAAGAGAAAGAAAT
TTAAATAAAGTAAAAAAATAAAATGAAAAGTTACACCCATTTAAAAAATGAAAATTAAATAATAT
ATATATATACACATTTAATAATAAACTAATAGTTTAAAAAAGAAAAGAAAAGGTAAAGTGTTAAT
GAATTAAATCAAAAGTGAAAAGTTAAATTAAAATAAATTAAAATAAAATTATGAACGATAGGACT
TAAATAAATTATCTCCTATCCGTTTAAAGAGCACAGATTCTCTAGGGGATCTGGATCGAGTCATC
GGGTCATTTAATCAAAGATAAAATCTCAAAAAACAATTAAAATTGAATGAAAATAATAAATAAAA
TAAAGAGAAAAGAAATTCGTTCAAGATCCACAATCAACTTTCATAAAAAAACCTCAAGGAATGAT
AAATCTATAAAGATTTATCTCAAAGTCTTTTCTCCTTATTCTTTGGTTTTCTCTAGTCCCACGAA
ATTTTTAAATAGAATCAAGGTCATGATTGACCGAAACAACAAAAATAAAATAAAAATAAAGAAGA
TTGTCAGTTTTCAATGACAAACCTCAAGAAATGCTAAATCTATGAAGATTAATTCAAAAAGCTTT
CTTCCTTGTTCCTGGGTTTTTTCTCCTAAAATAAAGTTTTTTAAGAAAAGAAAAAGAAAACGAAA
ACCAAAGACAAGACCAAATTGGACAAAGAAATAAGAAAAAAAAAGAATTATATCAATCAAAAGAT
TTTATTTTATTGCTCTAATATTTTAGGTTCCAACCCTTTTTTTTACAAAATAAGAATGTCTATTT
ATAAGCCCCCAACAACCCTAAAAGCAAAAAAAACTAACATCTTTTTGTTAATGCTAGATATAC
Found at i:22306 original size:3 final size:3
Alignment explanation
Indices: 22298--22370 Score: 128
Period size: 3 Copynumber: 24.3 Consensus size: 3
22288 ATATTAATTG
*
22298 ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
22346 ATT ATT ATC ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
22371 AATATATTAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:22378 original size:12 final size:11
Alignment explanation
Indices: 22289--22379 Score: 57
Period size: 12 Copynumber: 8.2 Consensus size: 11
22279 TTTTTACCCA
22289 TATTAAT-TGAT
1 TATTAATAT-AT
*
22300 TATTATTATTAT
1 TATTAATA-TAT
22312 TA-TAAT-TAT
1 TATTAATATAT
*
22321 TATTATTATTAT
1 TATTAATA-TAT
*
22333 TATTATTATTAT
1 TATTAATA-TAT
*
22345 TATTATTATCAT
1 TATTAATAT-AT
22357 TATT-AT-TAT
1 TATTAATATAT
22366 TATTAAATATAT
1 TATT-AATATAT
22378 TA
1 TA
22380 AATACATATA
Statistics
Matches: 67, Mismatches: 4, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
9 11 0.16
10 4 0.06
11 13 0.19
12 38 0.57
13 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (11 bp):
TATTAATATAT
Found at i:23778 original size:17 final size:16
Alignment explanation
Indices: 23744--23778 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
23734 GTTAGAATTG
*
23744 TATTTTTTTTAATTTT
1 TATTTTTTTTAATATT
23760 TATTTTTTTTATATATT
1 TATTTTTTTTA-ATATT
23777 TA
1 TA
23779 AATGTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTTTTAATATT
Found at i:23820 original size:13 final size:13
Alignment explanation
Indices: 23804--23843 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
23794 ATATAATAAA
23804 TAAATATTTATTT
1 TAAATATTTATTT
*
23817 TAAATAAATTATTT
1 TAAAT-ATTTATTT
23831 T-AATATTTATTT
1 TAAATATTTATTT
23843 T
1 T
23844 TCAATATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:24558 original size:15 final size:13
Alignment explanation
Indices: 24538--24575 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
24528 TTTATATGTT
24538 TTATTTTATTTGCAA
1 TTATTTTATTT-C-A
24553 TTATTTTATTTCA
1 TTATTTTATTTCA
24566 TTA-TTTATTT
1 TTATTTTATTT
24576 TGTCAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 1 0.04
15 11 0.48
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTTTATTTCA
Found at i:35203 original size:8 final size:8
Alignment explanation
Indices: 35188--35236 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
35178 ATGCTTGAAG
35188 AAAAAA-A
1 AAAAAAGA
*
35195 AAGAAA-A
1 AAAAAAGA
35202 AAAAAAGA
1 AAAAAAGA
35210 AAAAAAGA
1 AAAAAAGA
*
35218 AAAAGAG-
1 AAAAAAGA
35225 AAAAAAGA
1 AAAAAAGA
35233 AAAA
1 AAAA
35237 GGGGGGGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
7 17 0.47
8 19 0.53
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:35220 original size:15 final size:15
Alignment explanation
Indices: 35185--35236 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 15
35175 ATTATGCTTG
35185 AAGAAAAAA-AAAGAA
1 AAGAAAAAAGAAA-AA
35200 AA-AAAAAAGAAAAA
1 AAGAAAAAAGAAAAA
35214 AAG-AAAAAGAGAAAA
1 AAGAAAAAAGA-AAAA
35229 AAGAAAAA
1 AAGAAAAA
35237 GGGGGGGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
14 17 0.52
15 12 0.36
16 4 0.12
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAGAAAAA
Found at i:35237 original size:15 final size:14
Alignment explanation
Indices: 35185--35237 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 14
35175 ATTATGCTTG
*
35185 AAGAAAAAAAAAGAA
1 AAGAAAAAGAAA-AA
*
35200 AAAAAAAAGAAAAA
1 AAGAAAAAGAAAAA
35214 AAGAAAAAGAGAAAA
1 AAGAAAAAGA-AAAA
35229 AAGAAAAAG
1 AAGAAAAAG
35238 GGGGGGTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 11 0.32
15 23 0.68
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAAAA
Found at i:36494 original size:83 final size:83
Alignment explanation
Indices: 36355--36707 Score: 629
Period size: 83 Copynumber: 4.3 Consensus size: 83
36345 AACATTAACT
36355 GGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 GGAAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
36419 AGAACCAATCATTGAATTG
65 AGAACCAATCATTGAATTG
*
36438 GGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
1 GGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
36503 GAACCAATCATTGAATTG
66 GAACCAATCATTGAATTG
*
36521 GGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGAC
1 GGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-C
*
36585 AGAACCAATCATTGAATTT
65 AGAACCAATCATTGAATTG
*
36604 GGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
1 GGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
*
36669 GAACCAATCATTGAATTT
66 GAACCAATCATTGAATTG
36687 GGAAGATGAATTTGCTCATAG
1 GGAAGATGAATTTGCTCATAG
36708 TAGAAATAAG
Statistics
Matches: 262, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
82 4 0.02
83 253 0.97
84 5 0.02
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (83 bp):
GGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
GAACCAATCATTGAATTG
Found at i:37709 original size:114 final size:114
Alignment explanation
Indices: 37509--37908 Score: 567
Period size: 114 Copynumber: 3.5 Consensus size: 114
37499 AATCTATCAT
* *
37509 TTGATGGATT-GATATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATTAGCT-TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
37573 AAGTTCATAATGAGAAGAATTTGTTCAACTTTTTACCTGAATTCATCAAA
65 AAGTTCATAATGAGAAGAATTTGTTCAACTTTTTACCTGAATTCATCAAA
37623 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
37688 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACTTTTTACCTGAATTCATCAAA
* *
37737 TTGATGGATTATCTTTTCCAGATAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * * * *
37801 AGTTCATAATGAGAAGAACTTGTTCAA-TCTTTTGCTTGATTTCAT-TAT
66 AGTTCATAATGAGAAGAATTTGTTCAACT-TTTTACCTGAATTCATCAAA
* * * * *
37849 TTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 TTGATGGATTAGCTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAG
37909 AACTTGTTCA
Statistics
Matches: 261, Mismatches: 18, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
111 1 0.00
112 18 0.07
113 95 0.36
114 131 0.50
115 3 0.01
116 13 0.05
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (114 bp):
TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAATTTGTTCAACTTTTTACCTGAATTCATCAAA
Found at i:38253 original size:3 final size:3
Alignment explanation
Indices: 38245--38314 Score: 113
Period size: 3 Copynumber: 23.3 Consensus size: 3
38235 ATATTAATTG
* *
38245 ATT ATT ATT ATT ATT ATA ATA ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
38293 ATT ATC ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
38315 AATATATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:38271 original size:18 final size:18
Alignment explanation
Indices: 38248--38323 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
38238 TTAATTGATT
38248 ATTATTATTATTATAATA
1 ATTATTATTATTATAATA
* *
38266 ATTATTATTATTATTATT
1 ATTATTATTATTATAATA
* *
38284 ATTATTATTATTATCATT
1 ATTATTATTATTATAATA
38302 ATTATTATTATTA-AATA
1 ATTATTATTATTATAATA
38319 TATTA
1 -ATTA
38324 AATACATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
17 2 0.04
18 50 0.96
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATTATTATTATAATA
Found at i:42424 original size:12 final size:11
Alignment explanation
Indices: 42409--42448 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
42399 TTCGAAAATC
42409 AGAAATAAAAAA
1 AGAAA-AAAAAA
42421 AGAAAAAAAAGA
1 AGAAAAAAAA-A
42433 AGAAAAAAAAA
1 AGAAAAAAAAA
42444 GAGAA
1 -AGAA
42449 CAAAGGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.23
12 20 0.77
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:42441 original size:13 final size:13
Alignment explanation
Indices: 42409--42445 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
42399 TTCGAAAATC
*
42409 AGAAATAAAAA-A
1 AGAAAAAAAAAGA
42421 AG-AAAAAAAAGA
1 AGAAAAAAAAAGA
42433 AGAAAAAAAAAGA
1 AGAAAAAAAAAGA
42446 GAACAAAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 7 0.32
12 5 0.23
13 10 0.45
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.03
Consensus pattern (13 bp):
AGAAAAAAAAAGA
Found at i:52506 original size:49 final size:49
Alignment explanation
Indices: 52445--52653 Score: 260
Period size: 49 Copynumber: 4.3 Consensus size: 49
52435 AATGCCTAAC
52445 GGTGCATTTTTGGCAAAAAGGTGCCACTAATGCAAGTTAGATGACAACT
1 GGTGCATTTTTGGCAAAAAGGTGCCACTAATGCAAGTTAGATGACAACT
* * * *
52494 GGGTG-ATTTTTGGTAGAAAGGTGCCACTAATTCAAGTTAGATGACAAAT
1 -GGTGCATTTTTGGCAAAAAGGTGCCACTAATGCAAGTTAGATGACAACT
* ** * * * *
52543 TGAACATTTTTGGCAGAAAGGTACCACTAATGCAAGTTAAATGCCTAAC-
1 GGTGCATTTTTGGCAAAAAGGTGCCACTAATGCAAGTTAGATGAC-AACT
*
52592 GGTGCATTTTTGGCAAAAAGGTGCCACTAATGCAAGTTAGATGACAAAT
1 GGTGCATTTTTGGCAAAAAGGTGCCACTAATGCAAGTTAGATGACAACT
* *
52641 AGTGCATATTTGG
1 GGTGCATTTTTGG
52654 TAGGAATTTA
Statistics
Matches: 133, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.02
49 124 0.93
50 6 0.05
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (49 bp):
GGTGCATTTTTGGCAAAAAGGTGCCACTAATGCAAGTTAGATGACAACT
Found at i:52601 original size:98 final size:97
Alignment explanation
Indices: 52449--52640 Score: 287
Period size: 98 Copynumber: 2.0 Consensus size: 97
52439 CCTAACGGTG
* * * *
52449 CATTTTTGGCAAAAAGGTGCCACTAATGCAAGTTAGATGACAACTGGGTGATTTTTGGTAGAAAG
1 CATTTTTGGCAAAAAGGTACCACTAATGCAAGTTAAATGACAAC-GGGTGATTTTTGGCAAAAAG
*
52514 GTGCCACTAATTCAAGTTAGATGACAAATTGAA
65 GTGCCACTAATGCAAGTTAGATGACAAATTGAA
* *
52547 CATTTTTGGCAGAAAGGTACCACTAATGCAAGTTAAATGCCTAAC-GGTGCATTTTTGGCAAAAA
1 CATTTTTGGCAAAAAGGTACCACTAATGCAAGTTAAATGAC-AACGGGTG-ATTTTTGGCAAAAA
52611 GGTGCCACTAATGCAAGTTAGATGACAAAT
64 GGTGCCACTAATGCAAGTTAGATGACAAAT
52641 AGTGCATATT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
97 4 0.05
98 78 0.92
99 3 0.04
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (97 bp):
CATTTTTGGCAAAAAGGTACCACTAATGCAAGTTAAATGACAACGGGTGATTTTTGGCAAAAAGG
TGCCACTAATGCAAGTTAGATGACAAATTGAA
Found at i:53282 original size:24 final size:24
Alignment explanation
Indices: 53250--53313 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
53240 GACTTAAGAC
53250 GTTG-ATCGGGTCAAAGTCAATGG
1 GTTGAATCGGGTCAAAGTCAATGG
53273 GTTGAATCGGGTCAAAGTCAATGG
1 GTTGAATCGGGTCAAAGTCAATGG
*
53297 GTTGAATCAGGTCAAAG
1 GTTGAATCGGGTCAAAG
53314 AGTTAAGGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
23 4 0.10
24 35 0.90
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (24 bp):
GTTGAATCGGGTCAAAGTCAATGG
Found at i:56786 original size:64 final size:64
Alignment explanation
Indices: 56676--56827 Score: 175
Period size: 64 Copynumber: 2.4 Consensus size: 64
56666 CAGTGTGTAT
* * * *
56676 TGCACAAGAAGTGCATCGATGCACCCATTAAAAATGTAAACATCGAATGCAAT-TGGTGCATCGA
1 TGCATAAGGAGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGCAATAT-GTGCATCGA
* ** *
56740 TGCATAAGGAGTGCATCGATGCATCCCCTT-AAAATGAAAACATCGAAGGTGATATGTGTATCGA
1 TGCATAAGGAGTGCATCGATGCA-CCCATTAAAAATGAAAACATCGAAGGCAATATGTGCATCGA
*
56804 TGCAT-GGGTAGTGCATCGATGCAC
1 TGCATAAGG-AGTGCATCGATGCAC
56828 ATGTTAAAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
63 3 0.04
64 67 0.88
65 6 0.08
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (64 bp):
TGCATAAGGAGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGCAATATGTGCATCGA
Found at i:56860 original size:20 final size:20
Alignment explanation
Indices: 56815--56892 Score: 120
Period size: 20 Copynumber: 3.7 Consensus size: 20
56805 GCATGGGTAG
56815 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
56839 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
56859 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
56879 TGCATCGATGCACT
1 TGCATCGATGCACT
56893 TCATGGGGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
20 38 0.70
22 1 0.02
23 2 0.04
24 13 0.24
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:60975 original size:64 final size:63
Alignment explanation
Indices: 60892--61048 Score: 172
Period size: 64 Copynumber: 2.5 Consensus size: 63
60882 TTCAGTGTGT
** * *
60892 ATCGATGCATAGAAAGTGCATCGATGCACCCATTAAAAATGGAAACATCAAATGTAATTGGTGC
1 ATCGATGCATAGGTAGTGCATCGATGCACCCATT-AAAATGAAAACATCAAAGGTAATTGGTGC
* * * * * * *
60956 ATTGATGCATAAGG-AGTGCATTGATGCATCCCCTTAAAATGAAAACATCGAAGGTGATTTGTGT
1 ATCGATGCAT-AGGTAGTGCATCGATGCA-CCCATTAAAATGAAAACATCAAAGGTAATTGGTGC
*
61020 ATCGATGCATGGGTAGTGCATCGATGCAC
1 ATCGATGCATAGGTAGTGCATCGATGCAC
61049 ATGTTAAAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
63 3 0.04
64 67 0.87
65 7 0.09
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (63 bp):
ATCGATGCATAGGTAGTGCATCGATGCACCCATTAAAATGAAAACATCAAAGGTAATTGGTGC
Found at i:61081 original size:20 final size:22
Alignment explanation
Indices: 61036--61093 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
61026 GCATGGGTAG
61036 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
61060 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
61080 TGCATCGATGCACT
1 TGCATCGATGCACT
61094 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:62909 original size:19 final size:19
Alignment explanation
Indices: 62860--62920 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
62850 GATTATCCGT
*
62860 TAGCA-GCAGAGAGGTCAG
1 TAGCAGGCAGAGAGGTCTG
*
62878 TA-CAGGCAAAGAGGTCTG
1 TAGCAGGCAGAGAGGTCTG
*
62896 TAGCAGGTAGAGAGGTCTG
1 TAGCAGGCAGAGAGGTCTG
62915 TAGCAG
1 TAGCAG
62921 TGTGTCAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 2 0.05
18 15 0.41
19 20 0.54
ACGTcount: A:0.31, C:0.15, G:0.38, T:0.16
Consensus pattern (19 bp):
TAGCAGGCAGAGAGGTCTG
Found at i:75552 original size:25 final size:25
Alignment explanation
Indices: 75518--75587 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
75508 TTAAAACAGT
75518 TTTGAAAAATATTAAATATAATAGC
1 TTTGAAAAATATTAAATATAATAGC
75543 TTTGAAAAATATTAAATATAATAGC
1 TTTGAAAAATATTAAATATAATAGC
*
75568 TTTGAAAAATATTATATATA
1 TTTGAAAAATATTAAATATA
75588 TATATATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (25 bp):
TTTGAAAAATATTAAATATAATAGC
Found at i:75609 original size:43 final size:46
Alignment explanation
Indices: 75562--75652 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 46
75552 TATTAAATAT
* *
75562 AATAGCTTTGAAAAATATTAT-ATATATA-TATATATAG-TTTGAA
1 AATAGCTTTGAAAAATATTATCAAAAATACTATATATAGTTTTGAA
* * *
75605 AATAGTTTTGAAAAATGTTTTCAAAAATACTATATATAGTTTTGAA
1 AATAGCTTTGAAAAATATTATCAAAAATACTATATATAGTTTTGAA
75651 AA
1 AA
75653 CCTTTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 18 0.45
44 5 0.12
45 9 0.22
46 8 0.20
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (46 bp):
AATAGCTTTGAAAAATATTATCAAAAATACTATATATAGTTTTGAA
Found at i:75675 original size:30 final size:33
Alignment explanation
Indices: 75606--75688 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 33
75596 TAGTTTGAAA
** *
75606 ATAGTTTTGAAAAATGTTTTCAAAAATACTATAT
1 ATAGTTTTG-AAAACCTTTTCAAAAATACAATAT
75640 ATAGTTTTGAAAACCTTTT-AAAAATA-AAT-T
1 ATAGTTTTGAAAACCTTTTCAAAAATACAATAT
75670 ATAGTTTTGAAAACCTTTT
1 ATAGTTTTGAAAACCTTTT
75689 GAGAGTAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 20 0.43
31 2 0.04
32 7 0.15
33 8 0.17
34 9 0.20
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (33 bp):
ATAGTTTTGAAAACCTTTTCAAAAATACAATAT
Found at i:75856 original size:6 final size:5
Alignment explanation
Indices: 75839--75882 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
75829 ATGCTTTATA
* *
75839 ATTTT ATTTT ATTTTT ATTTT ATTTT ATTCT AATTT ATTTT ATT
1 ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
75883 ATCTTATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:76789 original size:14 final size:13
Alignment explanation
Indices: 76759--76802 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
76749 ATGAAGGAAA
*
76759 AAAAGAGAAAATTG
1 AAAA-AGAAAATAG
76773 AAAAAGAAAATAAG
1 AAAAAGAAAAT-AG
*
76787 AAAAAGAAAAGAG
1 AAAAAGAAAATAG
76800 AAA
1 AAA
76803 TGAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (13 bp):
AAAAAGAAAATAG
Found at i:78557 original size:2 final size:2
Alignment explanation
Indices: 78546--78583 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
78536 GTTTTGAAAA
78546 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78584 GTTTTGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78639 original size:90 final size:88
Alignment explanation
Indices: 78526--78799 Score: 242
Period size: 90 Copynumber: 3.1 Consensus size: 88
78516 ATATATATAG
78526 TTTG-AAAATAGTTTTGAAAAATATTATATATATATATATATATATATATATATATATAGTTTTG
1 TTTGAAAAATA-TTTTGAAAAATATTATATATATATATATATATATATATATATATATAGTTTTG
* *
78590 AAAACCTTTTGAAAAAATATGTAGTT
65 AAAACCTTTTGAAAAAATAT-CA-AT
* * * * * * * *
78616 TTTTAAAACTATTTTGAAAAATATTATATA-AT-TTTGAAAAACTTTTAAAAATAATATATAGTT
1 TTTGAAAAATATTTTGAAAAATATTATATATATATAT-ATATA--TATATATAT-ATATATAGTT
*
78679 TTGAAAACCTTTTGAAAGTAATA-CAAT
62 TTGAAAACCTTTTGAAA-AAATATCAAT
* *
78706 TTTGAAAAATGTTTTGAAAAACATTATATACTATATAGT-T-TATATATATAT-TATA-AGTTTT
1 TTTGAAAAATATTTTGAAAAATATTATATA-TATATA-TATATATATATATATATATATAGTTTT
* *
78767 GAAAACATTCTGAAAATAATAT-AAT
64 GAAAACCTTTTGAAAA-AATATCAAT
*
78792 TCTGAAAA
1 TTTGAAAA
78800 CAATTTTTAA
Statistics
Matches: 147, Mismatches: 25, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
86 33 0.22
87 4 0.03
88 2 0.01
89 11 0.07
90 49 0.33
91 13 0.09
92 29 0.20
93 5 0.03
94 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (88 bp):
TTTGAAAAATATTTTGAAAAATATTATATATATATATATATATATATATATATATATAGTTTTGA
AAACCTTTTGAAAAAATATCAAT
Found at i:78666 original size:30 final size:31
Alignment explanation
Indices: 78573--78735 Score: 140
Period size: 30 Copynumber: 5.3 Consensus size: 31
78563 ATATATATAT
*
78573 ATATATATATAGTTTTGAAAACCTTTTGAAAA
1 ATAT-TATATAGTTTTGAAAAACTTTTGAAAA
* **
78605 A-A-TATGTAGTTTTTTAAAACTATTTTGAAAA
1 ATATTATATAGTTTTGAAAAAC--TTTTGAAAA
*
78636 ATATTATATAATTTTGAAAAACTTTT-AAAA
1 ATATTATATAGTTTTGAAAAACTTTTGAAAA
* *
78666 ATAATATATAGTTTTGAAAACCTTTTG-AAA
1 ATATTATATAGTTTTGAAAAACTTTTGAAAA
* * * *
78696 GTA--ATACAATTTTGAAAAATGTTTTGAAAA
1 ATATTATATAGTTTTGAAAAA-CTTTTGAAAA
*
78726 ACATTATATA
1 ATATTATATA
78736 CTATATAGTT
Statistics
Matches: 103, Mismatches: 19, Indels: 18
0.74 0.14 0.13
Matches are distributed among these distances:
28 13 0.13
29 19 0.18
30 36 0.35
31 15 0.15
32 6 0.06
33 14 0.14
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (31 bp):
ATATTATATAGTTTTGAAAAACTTTTGAAAA
Found at i:80813 original size:109 final size:109
Alignment explanation
Indices: 80616--80813 Score: 272
Period size: 109 Copynumber: 1.8 Consensus size: 109
80606 GTAAAGTTAG
* * *
80616 GGGTTAATTATGTTTAAGTCCCACTAGGTTTAGCGTCTTTTTGCATATTGGTCACCTGCAATGAC
1 GGGTTAATTATGTTTAAGTCCCACTAAGTTTAGCGTCTTTTTGCATATTGGTCACATGCAACGAC
*
80681 CAAAATTGGTATTTACCATTTTTTATACGTGTTATATATTGAAT
66 CAAAATTGGTATTTACCACTTTTTATACGTGTTATATATTGAAT
* * * * **
80725 GGGTTAATCTTTGTTT-AGTCCCTCTAAGTTTAGCGTGTTTTTGCATTTTGGTCACATGTGACGA
1 GGGTTAAT-TATGTTTAAGTCCCACTAAGTTTAGCGTCTTTTTGCATATTGGTCACATGCAACGA
* *
80789 CCAAAATTGTTATTTACCCCTTTTT
65 CCAAAATTGGTATTTACCACTTTTT
80814 TCTTGTATGA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
109 70 0.92
110 6 0.08
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (109 bp):
GGGTTAATTATGTTTAAGTCCCACTAAGTTTAGCGTCTTTTTGCATATTGGTCACATGCAACGAC
CAAAATTGGTATTTACCACTTTTTATACGTGTTATATATTGAAT
Found at i:83030 original size:20 final size:20
Alignment explanation
Indices: 82992--83030 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
82982 AAGAGCCCAT
*
82992 TTAGGACCATTTAGATGCAG
1 TTAGGACCATATAGATGCAG
* *
83012 TTAGGAGCATATAGTTGCA
1 TTAGGACCATATAGATGCA
83031 TGTGGTGGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (20 bp):
TTAGGACCATATAGATGCAG
Found at i:87957 original size:20 final size:20
Alignment explanation
Indices: 87932--87974 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
87922 TCTAAGAGCC
*
87932 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
87952 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
87972 CAT
1 CAT
87975 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:98601 original size:59 final size:59
Alignment explanation
Indices: 98437--98614 Score: 186
Period size: 59 Copynumber: 3.1 Consensus size: 59
98427 GGCTGTAGAT
* * * * *
98437 TCGGGATTTCACTGAAGTATAACTAGCGCATATGGTGAGCACGACCTTAT-TTTCATAC
1 TCGGGACTGCACTAAAGTATAACTAGTGCATATGGTGAGCACGACCTTATGTGTCATAC
* * * * * *
98495 TCGGGATTGCATTAAAGTAT---TATTTCATATGGTTG-GCACGACTTTATGTGTCATAT
1 TCGGGACTGCACTAAAGTATAACTAGTGCATATGG-TGAGCACGACCTTATGTGTCATAC
* * *
98551 TTGGGACTGCACTAAAGTATAACTAGTGCAAATGGTGAGTACGACCTTATGTGTCATAC
1 TCGGGACTGCACTAAAGTATAACTAGTGCATATGGTGAGCACGACCTTATGTGTCATAC
98610 TCGGG
1 TCGGG
98615 TTAGCACCAC
Statistics
Matches: 95, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
55 20 0.21
56 25 0.26
58 19 0.20
59 31 0.33
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (59 bp):
TCGGGACTGCACTAAAGTATAACTAGTGCATATGGTGAGCACGACCTTATGTGTCATAC
Found at i:105033 original size:44 final size:45
Alignment explanation
Indices: 104959--105049 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 45
104949 TTCGGGATTT
* *
104959 CACTAAAGTATAACTAGTGCATATGGTGGGCACAACCTTATTTGTCA
1 CACTAAAGTAT-A-TAGTGCATATAGTGGGCACAACCTTATGTGTCA
* *
105006 CACTAAAGTAT-TAGTGTATATAGTGGGCACGACCTTATGTGTCA
1 CACTAAAGTATATAGTGCATATAGTGGGCACAACCTTATGTGTCA
105050 TATTCGGGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 29 0.73
47 11 0.28
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (45 bp):
CACTAAAGTATATAGTGCATATAGTGGGCACAACCTTATGTGTCA
Found at i:108893 original size:22 final size:23
Alignment explanation
Indices: 108868--108939 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
108858 TATCGAAATG
108868 CCACATAG-AATGTCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
* *
108890 CCACATAGTATTGTCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
** * *
108913 CCATGTAGAAATATACCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
108936 CCAC
1 CCAC
108940 GTAAAACCCT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 8 0.20
23 33 0.80
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (23 bp):
CCACATAGAAATGTCCCGAAGGA
Found at i:114899 original size:24 final size:24
Alignment explanation
Indices: 114872--114919 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
114862 GCTCGTATAT
* *
114872 ATTGCACCGAAGTGCCGCATAGAA
1 ATTGCACCGAAATGCCACATAGAA
*
114896 ATTGCATCGAAATGCCACATAGAA
1 ATTGCACCGAAATGCCACATAGAA
114920 TGTCCCGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (24 bp):
ATTGCACCGAAATGCCACATAGAA
Found at i:114973 original size:23 final size:23
Alignment explanation
Indices: 114910--114979 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 23
114900 CATCGAAATG
114910 CCACATAGAA-TGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
* *
114932 CCACATAGTATTATCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
* * *
114955 CCATATAGAATTGTACCGATGGA
1 CCACATAGAATTGTCCCGAAGGA
114978 CC
1 CC
114980 GCGTAAAACC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 9 0.22
23 31 0.77
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (23 bp):
CCACATAGAATTGTCCCGAAGGA
Found at i:118155 original size:33 final size:34
Alignment explanation
Indices: 118071--118156 Score: 88
Period size: 32 Copynumber: 2.6 Consensus size: 34
118061 AATACTTCAC
*
118071 GTGAAGAAAG-AAAAAGGAAGAAGAATGAAAAAAA
1 GTGAA-AAAGAAAAAAGAAAGAAGAATGAAAAAAA
* * * *
118105 ATGAAAAGGAATAAAGAAAGAA-AATG-AAAAAT
1 GTGAAAAAGAAAAAAGAAAGAAGAATGAAAAAAA
118137 GTGAAAAAGAAAATAAGAAA
1 GTGAAAAAGAAAA-AAGAAA
118157 ATAAAAATAG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
32 15 0.36
33 13 0.31
34 14 0.33
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (34 bp):
GTGAAAAAGAAAAAAGAAAGAAGAATGAAAAAAA
Found at i:118156 original size:14 final size:13
Alignment explanation
Indices: 118139--118176 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
118129 TGAAAAATGT
118139 GAAAAAGAAAATAA
1 GAAAAAGAAAAT-A
118153 GAAAATA-AAAATA
1 GAAAA-AGAAAATA
118166 GAAAAAGAAAA
1 GAAAAAGAAAA
118177 GAAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.05
13 10 0.45
14 10 0.45
15 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATA
Found at i:119963 original size:129 final size:130
Alignment explanation
Indices: 119478--119983 Score: 473
Period size: 130 Copynumber: 3.9 Consensus size: 130
119468 AGGCAAGAAA
* * * * *
119478 AACAAATCTACCTAT-ATTCAATCTTCCCAGAAAAGCAGTAGAGTGAATCAACGTTTCCTGATCT
1 AACAAATCTACCT-TGATTCAATCTTCCCTGAAAAGCAGTGGAATGAATCAACATTTCCAGATCT
* * * *
119542 AATCTACCCTGAAGAGCAA-TGAAGCAGATCCCTTTTTTTCAAGATTTGATCTTCCCTAAAGAGC
65 GATCTACCCTGAAGAG-AAGCGGAGCAGATCCC--TTTTTC-AGATTTGATCTTCCCTAAGGAGC
*
119606 AGTAG
126 AGTGG
* * * * * * * ** *
119611 AACAAGTGTTCCTCGATTCAATCTTCCCTAAAAAGAAGTGGAATAAATCAACATTTTTAAATCTG
1 AACAAATCTACCTTGATTCAATCTTCCCTGAAAAGCAGTGGAATGAATCAACATTTCCAGATCTG
* ** * * *
119676 ATCTACCATGAAGAGCGGCGGAGCAGATCCCTTTTTCAGATTTGATTTTCCCTGAGGAGAAGTGG
66 ATCTACCCTGAAGAGAAGCGGAGCAGATCCCTTTTTCAGATTTGATCTTCCCTAAGGAGCAGTGG
* * * ** * ** * *
119741 AGCAAATATA-CTTCGATTCAATCTTCTCTGAAGTGTAGTGGAATGAATCAATGTTTTCAGATAT
1 AACAAATCTACCTT-GATTCAATCTTCCCTGAAAAGCAGTGGAATGAATCAACATTTCCAGATCT
* * * * * * * *
119805 GGTGTACCTTGAATAGCAGCAGAGAATATCCCTTTTTCAGATTTGA-CTTCCCTAAGGAGCAGTG
65 GATCTACCCTGAAGAGAAGCGGAGCAGATCCCTTTTTCAGATTTGATCTTCCCTAAGGAGCAGTG
119869 G
130 G
* *
119870 AACAAATCTACCTTGATTAAATCTTCCCTGAAGAGCAGTGGAATGAATCAACATTTCCAGATCTG
1 AACAAATCTACCTTGATTCAATCTTCCCTGAAAAGCAGTGGAATGAATCAACATTTCCAGATCTG
* ** *
119935 ATCTACCCTGAAGAGAAGCGGAGCATAT-CAATTTTCAGATTTCATCTTC
66 ATCTACCCTGAAGAGAAGCGGAGCAGATCCCTTTTTCAGATTTGATCTTC
119984 AAAAATCTCT
Statistics
Matches: 295, Mismatches: 73, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
128 13 0.04
129 94 0.32
130 109 0.37
131 6 0.02
133 73 0.25
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (130 bp):
AACAAATCTACCTTGATTCAATCTTCCCTGAAAAGCAGTGGAATGAATCAACATTTCCAGATCTG
ATCTACCCTGAAGAGAAGCGGAGCAGATCCCTTTTTCAGATTTGATCTTCCCTAAGGAGCAGTGG
Found at i:120039 original size:3 final size:3
Alignment explanation
Indices: 120026--120057 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
120016 TTTTGTTAAA
120026 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T
120058 TAATTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:122676 original size:19 final size:19
Alignment explanation
Indices: 122652--122693 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
122642 ATGCAAATCG
*
122652 AAAATTTATTATTTTAATT
1 AAAATTTAATATTTTAATT
*
122671 AAAA-TTAATATTTTTATT
1 AAAATTTAATATTTTAATT
122689 AAAAT
1 AAAAT
122694 GACAAATACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AAAATTTAATATTTTAATT
Found at i:125673 original size:18 final size:19
Alignment explanation
Indices: 125637--125681 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
125627 ATGCATACTA
*
125637 TTCATTTTAGCATGTTTAG
1 TTCATTTAAGCATGTTTAG
*
125656 TTCATTTAAGCGTG-TTAG
1 TTCATTTAAGCATGTTTAG
*
125674 TTTATTTA
1 TTCATTTA
125682 TGTATACTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (19 bp):
TTCATTTAAGCATGTTTAG
Found at i:125716 original size:18 final size:18
Alignment explanation
Indices: 125671--125726 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
125661 TTAAGCGTGT
* * *
125671 TAGTTTATTTATGTATAC
1 TAGTTAATTTAGGTATGC
*
125689 TGGTTAATTTAGGTATGC
1 TAGTTAATTTAGGTATGC
*
125707 TAGTTCATTT-GAGTATGC
1 TAGTTAATTTAG-GTATGC
125725 TA
1 TA
125727 ATTCCCTTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 1 0.03
18 30 0.97
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (18 bp):
TAGTTAATTTAGGTATGC
Found at i:127909 original size:16 final size:16
Alignment explanation
Indices: 127867--127917 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
127857 ATTAATTCTC
127867 TTATTTTTTTTTCATT
1 TTATTTTTTTTTCATT
*
127883 TTATATCTTTTGTT--TT
1 TTAT-T-TTTTTTTCATT
127899 TTATTTTTTTTTCGATT
1 TTATTTTTTTTTC-ATT
127916 TT
1 TT
127918 GAATAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
14 6 0.21
15 1 0.04
16 10 0.36
17 5 0.18
18 6 0.21
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (16 bp):
TTATTTTTTTTTCATT
Found at i:127957 original size:21 final size:21
Alignment explanation
Indices: 127933--127980 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
127923 ATAACTTAGA
127933 TTCTTGTAATACATTTTTCTT
1 TTCTTGTAATACATTTTTCTT
** *
127954 TTCTATTGTGGTACATTTTTTTT
1 TTC--TTGTAATACATTTTTCTT
127977 TTCT
1 TTCT
127981 ACTCTTGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
21 4 0.18
23 18 0.82
ACGTcount: A:0.15, C:0.12, G:0.08, T:0.65
Consensus pattern (21 bp):
TTCTTGTAATACATTTTTCTT
Found at i:128365 original size:14 final size:15
Alignment explanation
Indices: 128339--128375 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
128329 TTTGGGTTTA
128339 GTATT-TTTATTTTT
1 GTATTATTTATTTTT
128353 GTATTATTT-TTTTT
1 GTATTATTTATTTTT
128367 GTGATTATT
1 GT-ATTATT
128376 GTCCCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (15 bp):
GTATTATTTATTTTT
Found at i:129340 original size:9 final size:9
Alignment explanation
Indices: 129294--129355 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
129284 AACATAGGCA
129294 AAATGAAAAT
1 AAAT-AAAAT
*
129304 AAAGAAACAT
1 AAATAAA-AT
129314 AAATAAAA-
1 AAATAAAAT
* *
129322 ATAGAAAAT
1 AAATAAAAT
129331 AAATAAAAT
1 AAATAAAAT
129340 AAAT-AAAT
1 AAATAAAAT
129348 AAAATAAA
1 -AAATAAA
129356 CACAATCAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 10 0.24
9 19 0.45
10 13 0.31
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (9 bp):
AAATAAAAT
Found at i:129341 original size:26 final size:26
Alignment explanation
Indices: 129293--129346 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
129283 TAACATAGGC
129293 AAAATGAAAATAAAGAAACATAAATA
1 AAAATGAAAATAAAGAAACATAAATA
*
129319 AAAATAGAAAATAAATAAA-ATAAATA
1 AAAAT-GAAAATAAAGAAACATAAATA
129345 AA
1 AA
129347 TAAAATAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (26 bp):
AAAATGAAAATAAAGAAACATAAATA
Found at i:129343 original size:13 final size:14
Alignment explanation
Indices: 129300--129355 Score: 57
Period size: 13 Copynumber: 4.2 Consensus size: 14
129290 GGCAAAATGA
*
129300 AAATAAAGAAACAT
1 AAATAAATAAACAT
*
129314 AAATAAA-AATAGA-
1 AAATAAATAA-ACAT
129327 AAATAAATAAA-AT
1 AAATAAATAAACAT
129340 AAATAAATAAA-AT
1 AAATAAATAAACAT
129353 AAA
1 AAA
129356 CACAATCAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 1 0.03
13 26 0.68
14 11 0.29
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (14 bp):
AAATAAATAAACAT
Found at i:129347 original size:17 final size:16
Alignment explanation
Indices: 129312--129355 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
129302 ATAAAGAAAC
*
129312 ATAAATAAAAATAGAAA
1 ATAAAT-AAAATAAAAA
129329 ATAAATAAAATAAATAA
1 ATAAATAAAATAAA-AA
129346 ATAAAATAAA
1 AT-AAATAAA
129356 CACAATCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 10 0.42
18 7 0.29
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
ATAAATAAAATAAAAA
Found at i:131974 original size:106 final size:106
Alignment explanation
Indices: 131779--132033 Score: 368
Period size: 106 Copynumber: 2.4 Consensus size: 106
131769 TGTATTGTCC
* * * *
131779 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACGGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACGGGGAAATTGTTTATTGACAA
* * *
131844 CCAGTCACCCATTTGTTGTGAAGTTGAGCTTGTGTTGTCTT
66 CCAGTCACCCATTCGTTCTAAAGTTGAGCTTGTGTTGTCTT
* * *
131885 GAGTCCAATAACCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACGGGGAAATTGTTTATTGACAA
* *
131950 TCAGTCGTCCC-TTCGTTCTAAAGTTGAGCTTGTGTTGTCTT
66 CCAGTC-ACCCATTCGTTCTAAAGTTGAGCTTGTGTTGTCTT
* *
131991 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA
132034 TTTAGAAAGC
Statistics
Matches: 133, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
106 130 0.98
107 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACGGGGAAATTGTTTATTGACAA
CCAGTCACCCATTCGTTCTAAAGTTGAGCTTGTGTTGTCTT
Found at i:133183 original size:8 final size:8
Alignment explanation
Indices: 133170--133212 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
133160 CTTATTTTTC
133170 TTTTCTCT
1 TTTTCTCT
133178 TTTTCT-T
1 TTTTCTCT
133185 TTGTTCT-T
1 TT-TTCTCT
133193 TTTTCTCT
1 TTTTCTCT
133201 TTTTCTCT
1 TTTTCTCT
133209 TTTT
1 TTTT
133213 TTCAATTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
8 26 0.79
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTCTCT
Found at i:133203 original size:17 final size:15
Alignment explanation
Indices: 133170--133215 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
133160 CTTATTTTTC
*
133170 TTTTCTCTTTTTCTT
1 TTTTCTTTTTTTCTT
133185 TTGTTCTTTTTTCTCTT
1 TT-TTCTTTTTT-TCTT
133202 TTTCTCTTTTTTTC
1 TTT-TCTTTTTTTC
133216 AATTTAGAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 2 0.07
16 11 0.41
17 14 0.52
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTTTTCTT
Found at i:143771 original size:20 final size:19
Alignment explanation
Indices: 143748--143800 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 19
143738 AACATAGGCA
*
143748 AAATGAAAATAAAGAA-ACAT
1 AAAT-AAAATAAA-AATAAAT
143768 AAATAAAAATAGAAAATAAAT
1 AAAT-AAAATA-AAAATAAAT
143789 AAATAAAATAAA
1 AAATAAAATAAA
143801 CAGGATAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 2 0.07
20 18 0.62
21 9 0.31
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (19 bp):
AAATAAAATAAAAATAAAT
Found at i:143797 original size:26 final size:26
Alignment explanation
Indices: 143747--143800 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
143737 TAACATAGGC
143747 AAAATGAAAATAAAGAAACATAAATA
1 AAAATGAAAATAAAGAAACATAAATA
* *
143773 AAAATAGAAAATAAATAAATA-AAATA
1 AAAAT-GAAAATAAAGAAACATAAATA
143799 AA
1 AA
143801 CAGGATAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (26 bp):
AAAATGAAAATAAAGAAACATAAATA
Found at i:143948 original size:2 final size:2
Alignment explanation
Indices: 143941--143967 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
143931 GTATAGGTAA
143941 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
143968 AATGTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:144059 original size:2 final size:2
Alignment explanation
Indices: 144054--144080 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
144044 TAGAAAAAAG
144054 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
144081 AAGTTATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:145379 original size:30 final size:27
Alignment explanation
Indices: 145330--145385 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 27
145320 TTTGTACAAC
145330 ATATGTAATAAATTATTATATAATATA
1 ATATGTAATAAATTATTATATAATATA
145357 ATATGTAATATAAGTATATTATATAATAT
1 ATATGTAATA-AA-T-TATTATATAATAT
145386 CAAAGGACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 10 0.38
28 2 0.08
29 1 0.04
30 13 0.50
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (27 bp):
ATATGTAATAAATTATTATATAATATA
Found at i:154830 original size:2 final size:2
Alignment explanation
Indices: 154823--154878 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
154813 GAATTGTTGC
154823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
154865 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
154879 TCCTCATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:163365 original size:78 final size:79
Alignment explanation
Indices: 163213--163365 Score: 245
Period size: 79 Copynumber: 1.9 Consensus size: 79
163203 TTTATTGATT
* *
163213 GCTTGATGGTATACGTGTGTTATGATTGGATCAAGGCCCAATCACCAAAATCTAAAGATATCTTC
1 GCTTGATGGTATACGTATGTTATGATTGGATCAAGGCCCAAACACCAAAATCTAAAGATATCTTC
163278 ATGTTGTACCCATA
66 ATGTTGTACCCATA
* * * *
163292 GCTTTATGGTATATGTATGTTATGATTGGATCAAGGCCTAAACA-CAAAATCTAAAGATGTCTTC
1 GCTTGATGGTATACGTATGTTATGATTGGATCAAGGCCCAAACACCAAAATCTAAAGATATCTTC
163356 ATGTTGTACC
66 ATGTTGTACC
163366 ATTTTCACAA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 29 0.43
79 39 0.57
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (79 bp):
GCTTGATGGTATACGTATGTTATGATTGGATCAAGGCCCAAACACCAAAATCTAAAGATATCTTC
ATGTTGTACCCATA
Found at i:164357 original size:14 final size:15
Alignment explanation
Indices: 164333--164361 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
164323 ATCAAAAGTG
164333 TCTATTTTTTTATTT
1 TCTATTTTTTTATTT
164348 TCTA-TTTTTTATTT
1 TCTATTTTTTTATTT
164362 GCTGTTCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TCTATTTTTTTATTT
Found at i:165261 original size:13 final size:13
Alignment explanation
Indices: 165243--165267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
165233 TTGAACCAAA
165243 ACTATTTTTTTGC
1 ACTATTTTTTTGC
165256 ACTATTTTTTTG
1 ACTATTTTTTTG
165268 TACTGCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (13 bp):
ACTATTTTTTTGC
Found at i:176485 original size:24 final size:24
Alignment explanation
Indices: 176458--176552 Score: 122
Period size: 24 Copynumber: 4.0 Consensus size: 24
176448 CACCACAGCT
* *
176458 CGTATAAATTACACCGAAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
*
176482 CGTAGAATTTGCACCGAAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
*
176506 CGTAGAATTTGCACCGAAGTG-CA
1 CGTAGAAATTGCACCGAAGTGCCA
*
176529 GCGTAGAAA-TGCACCGTAGTGCCA
1 -CGTAGAAATTGCACCGAAGTGCCA
176553 TATAATATTG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 13 0.20
24 51 0.80
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGTGCCA
Found at i:182785 original size:24 final size:24
Alignment explanation
Indices: 182758--182828 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
182748 CACCACAGCT
*
182758 CGTATAAATTGCACCGAAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
* * *
182782 CGTAGAATTTGCACCGAAGTACCG
1 CGTAGAAATTGCACCGAAGTGCCA
*
182806 CGTAGAAA-TGCACCGTAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
182829 TAATATTGTC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 12 0.31
24 27 0.69
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGTGCCA
Found at i:191682 original size:42 final size:40
Alignment explanation
Indices: 191564--191682 Score: 103
Period size: 42 Copynumber: 2.9 Consensus size: 40
191554 ATCCTGCCCG
* * * *
191564 AAAGTCTTATGGATTGCCCGAAGGACTTATCATCTTGCTCA
1 AAAGACTTATAGA-TGCCCGAAGGACTTATCATCATGATCA
* * *
191605 AAAGACTTATAGATGACCCGAAGGATTTAAACATCATGATCG
1 AAAGACTTATAGATG-CCCGAAGGACTT-ATCATCATGATCA
* * *
191647 AAATACTTATTGATAGCCTGAAGGACTTACTCATCA
1 AAAGACTTATAGAT-GCCCGAAGGACTTA-TCATCA
191683 AGAAACCCTT
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
40 2 0.03
41 23 0.37
42 36 0.58
43 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (40 bp):
AAAGACTTATAGATGCCCGAAGGACTTATCATCATGATCA
Found at i:191954 original size:42 final size:41
Alignment explanation
Indices: 191841--191954 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 41
191831 GCCCAAAGGT
* *
191841 CTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* * *
191882 CTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
191924 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
191955 AGAAACCCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 21 0.34
42 40 0.65
43 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:192160 original size:283 final size:280
Alignment explanation
Indices: 191553--192365 Score: 1184
Period size: 283 Copynumber: 2.9 Consensus size: 280
191543 ATGTTGAGAA
* * *
191553 CATCCTGCCCGAAAGTCTTATGGATTGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTATAGA
1 CATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGA
* * * * * *
191618 TGACCCGAAGGATTTAAACATCATGATCGAAATACTTATTGATAGCCTGAAGGACTTACTCATCA
66 TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCA
*
191683 AGAAACCCTTGAAAATCAAGCTTAGTTTCATAGTTGTCAAGGAACCCCT---A--AGGCTT-A--
131 AGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAATTAGGCTTAACT
* *
191740 GCTTTATTTTTTTAAAAAACTCTTTGGAGATAATCATCAAGAAACCCCAAAAAATGAGGCTTAGT
196 TCTTTTTTTTTTTAAAAAACTCTTTGGAGATAATCATCAAGAAACCCCAAAAAATGAGGCTTAGT
191805 TTCTAAAACTCATTTGAAAT
261 TTCTAAAACTCATTTGAAAT
* *
191825 CATTCTGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGA
1 CATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGA
191890 TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCA
66 TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCA
**
191955 AGAAACCCTTGAAAATCAAGCTGCGTTTCTTAGTTGTCAAGGAACCCCTAAAATTAGGCTTAACT
131 AGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAATTAGGCTTAACT
* * ** *
192020 TCTTTTTTTTTTTAAAAAAATACTCTTTGGAGATAATCATCAAGATATCCCTGAAAATTAGGCTT
196 TCTTTTTTTTTTT--AAAAA-ACTCTTTGGAGATAATCATCAAGAAACCCCAAAAAATGAGGCTT
192085 AGTTTCTAAAACTCATTTGAAAT
258 AGTTTCTAAAACTCATTTGAAAT
* *
192108 CATCCTGCCTGAAGGTCTTATGGATGGCCCGAAGGACTTATCATTTTGCTCGAAAGACTTATAGA
1 CATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGA
* **
192173 TGGCATGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCA
66 TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCA
* * * *
192238 AGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAATGAACCCTTAAAAATTAGTCTTAGC
131 AGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCT-AAAATTAGGCTTAAC
* * * * *
192303 TTC----ATTTTTTACAAAATTCTTTAGAGATAATCATCAA-AAACCCCAAAAAATCAGGCTTAG
195 TTCTTTTTTTTTTTAAAAAACTCTTTGGAGATAATCATCAAGAAACCCCAAAAAATGAGGCTTAG
192363 TTT
260 TTT
192366 ATTAGTTGTC
Statistics
Matches: 486, Mismatches: 43, Indels: 20
0.89 0.08 0.04
Matches are distributed among these distances:
272 165 0.34
275 1 0.00
276 21 0.04
277 26 0.05
278 5 0.01
280 17 0.03
282 5 0.01
283 230 0.47
284 16 0.03
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (280 bp):
CATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGA
TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCA
AGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAATTAGGCTTAACT
TCTTTTTTTTTTTAAAAAACTCTTTGGAGATAATCATCAAGAAACCCCAAAAAATGAGGCTTAGT
TTCTAAAACTCATTTGAAAT
Found at i:192237 original size:42 final size:41
Alignment explanation
Indices: 192124--192237 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 41
192114 GCCTGAAGGT
* **
192124 CTTATGGATGGCCCGAAGGACTTATCATTTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
** * *
192165 CTTATAGATGGCATGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
192207 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
192238 AGAAACCCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
41 20 0.34
42 38 0.64
43 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:192371 original size:100 final size:95
Alignment explanation
Indices: 192249--192462 Score: 268
Period size: 100 Copynumber: 2.2 Consensus size: 95
192239 GAAACCCTTG
* * * * *
192249 AAAATCAAGCTTAGTTTCTTAGTTGTCAATGAACCCTTAAAAATTAGTCTTAGCTTCATTTTTTA
1 AAAATCAGGCTTAGTTTATTAGTTGTCAAGGAACCCTTAAAAATTAGGCTTAGCTTC--CTTTTA
* * *
192314 CAAAATTCTTTAGAGATAATCATCAA-AAACCCCAA
64 -AAAACTCATT-GA-A-AATCATAAAGAAACCCCAA
*
192349 AAAATCAGGCTTAGTTTATTAGTTGTCAAGGAACCCTTATAAATTAGGCTTAGCTTCCTTTTAAA
1 AAAATCAGGCTTAGTTTATTAGTTGTCAAGGAACCCTTAAAAATTAGGCTTAGCTTCCTTTTAAA
**
192414 AACTCATTGAAAATCATAAAGAAACCCCTG
66 AACTCATTGAAAATCATAAAGAAACCCCAA
192444 AAAATCAGGCTTAGTTTAT
1 AAAATCAGGCTTAGTTTAT
192463 AAAAAAACTC
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
94 8 0.08
95 27 0.26
96 2 0.02
97 8 0.08
98 5 0.05
100 52 0.51
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (95 bp):
AAAATCAGGCTTAGTTTATTAGTTGTCAAGGAACCCTTAAAAATTAGGCTTAGCTTCCTTTTAAA
AACTCATTGAAAATCATAAAGAAACCCCAA
Found at i:192490 original size:54 final size:54
Alignment explanation
Indices: 192411--192514 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
192401 GCTTCCTTTT
*
192411 AAAAACTCATTGAAAATCATAAAGAAACCCCTGAAAATCAGGCTTAGTTTATAA
1 AAAAACTCATTGAAAATCATAAAGAAACCCCTAAAAATCAGGCTTAGTTTATAA
* *
192465 AAAAACTCATTTGAAAA-CATCAAGAAACCCCTAAAAATTAGGCTTAGTTT
1 AAAAACTCA-TTGAAAATCATAAAGAAACCCCTAAAAATCAGGCTTAGTTT
192515 CTTTTATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 39 0.85
55 7 0.15
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (54 bp):
AAAAACTCATTGAAAATCATAAAGAAACCCCTAAAAATCAGGCTTAGTTTATAA
Found at i:192734 original size:22 final size:22
Alignment explanation
Indices: 192709--192750 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
192699 ATATGCTTTG
192709 ATGTAT-GAAATGTGAATGCAAC
1 ATGTATCGAAATGT-AATGCAAC
*
192731 ATGTATCTAAATGTAATGCA
1 ATGTATCGAAATGTAATGCA
192751 TGACTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (22 bp):
ATGTATCGAAATGTAATGCAAC
Found at i:194447 original size:7 final size:7
Alignment explanation
Indices: 194426--194501 Score: 80
Period size: 7 Copynumber: 10.0 Consensus size: 7
194416 GGTTTTCTTC
194426 TCTTTTT
1 TCTTTTT
194433 CTCTTTTTT
1 -TC-TTTTT
194442 TCTTTTT
1 TCTTTTT
194449 TCTTTTT
1 TCTTTTT
*
194456 TCTGTTT
1 TCTTTTT
*
194463 TCTGTTT
1 TCTTTTT
194470 TCTTCTTCCT
1 TCTT-TT--T
194480 TCTTTTTT
1 TC-TTTTT
194488 TCTTTTT
1 TCTTTTT
194495 TCTTTTT
1 TCTTTTT
194502 CTCTATTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
7 40 0.66
8 9 0.15
9 5 0.08
10 5 0.08
11 2 0.03
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:194529 original size:39 final size:39
Alignment explanation
Indices: 194444--194536 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
194434 TCTTTTTTTC
* * *
194444 TTTTTTCTTTTTTCTGTTTTCTGTTTTCTTCTTCCTTCT
1 TTTTTTCTTTTTTCTGTTTTCTATTTTATCCTTCCTTCT
*
194483 TTTTTTCTTTTTTCTTTTTCTCTATTTTATCCTT-CTT-T
1 TTTTTTCTTTTTTCTGTTT-TCTATTTTATCCTTCCTTCT
194521 TTTCTTTCTCTTTTTC
1 TTT-TTTCT-TTTTTC
194537 CCCATGTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 4 0.09
39 26 0.55
40 17 0.36
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.75
Consensus pattern (39 bp):
TTTTTTCTTTTTTCTGTTTTCTATTTTATCCTTCCTTCT
Found at i:198428 original size:36 final size:36
Alignment explanation
Indices: 198379--198666 Score: 315
Period size: 36 Copynumber: 8.0 Consensus size: 36
198369 ATGGAAACAA
198379 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
*
198415 TTAAGGGAAACTGTCTCATAG-GAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCA-AGAGAGACAAAATTTGTT
*
198451 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
*
198487 TCAAGTGAAACTGTCTCAA-AGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGA-GAGACAAAATTTGTT
* *
198523 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATC
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
* ** * *
198559 TCAAGGGAGACAAAATTTGT-TTTA-AGAGA-AACA---GTC
1 TCAA-GG-G---AAA-CTGTCTCAAGAGAGACAAAATTTGTT
* * *
198595 TCGAGGGATACTGTCTCAAGGGAGAC-AAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
*
198630 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
198666 T
1 T
198667 TAAGAGAGAT
Statistics
Matches: 213, Mismatches: 22, Indels: 34
0.79 0.08 0.13
Matches are distributed among these distances:
30 3 0.01
31 4 0.02
32 6 0.03
34 1 0.00
35 30 0.14
36 147 0.69
37 5 0.02
38 1 0.00
39 3 0.01
40 5 0.02
41 5 0.02
42 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (36 bp):
TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
Found at i:198562 original size:21 final size:21
Alignment explanation
Indices: 198536--198576 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
198526 AGGGAAACTG
198536 TCTCAAGAGAGACAAAATTTA
1 TCTCAAGAGAGACAAAATTTA
*
198557 TCTCAAGGGAGACAAAATTT
1 TCTCAAGAGAGACAAAATTT
198577 GTTTTAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (21 bp):
TCTCAAGAGAGACAAAATTTA
Found at i:198568 original size:57 final size:57
Alignment explanation
Indices: 198500--198662 Score: 196
Period size: 57 Copynumber: 3.0 Consensus size: 57
198490 AGTGAAACTG
*
198500 TCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA
* * * * * * *
198557 TCTCAAGGGAGACAAAATTTGTTTTAAGAGAAACAGTCTC--GAG-G--GATA-CTG
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA
*
198608 TCTCAAGGGAGAC-AAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
198663 GTTTTAAGAG
Statistics
Matches: 85, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
50 23 0.27
51 14 0.16
52 4 0.05
53 1 0.01
54 1 0.01
55 5 0.06
56 1 0.01
57 36 0.42
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (57 bp):
TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA
Found at i:198637 original size:35 final size:36
Alignment explanation
Indices: 198598--198666 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
198588 AACAGTCTCG
*
198598 AGGGATACTGTCTCAAGGGAGAC-AAATTTGTTTCA
1 AGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCA
198633 AGGGAAACTGTCTCAAGGGAGACAAAATTTGTTT
1 AGGGAAACTGTCTCAAGGGAGACAAAATTTGTTT
198667 TAAGAGAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 22 0.69
36 10 0.31
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (36 bp):
AGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCA
Found at i:198697 original size:107 final size:108
Alignment explanation
Indices: 198496--198690 Score: 293
Period size: 107 Copynumber: 1.8 Consensus size: 108
198486 TTCAAGTGAA
198496 ACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATCTC
1 ACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATCTC
* ** *
198561 AAGGGAGACAAAATTTGTTTTAAGAGAAACAGTCTCGAGGGAT
66 AAGAGAGACAAAATTCATTTCAAGAGAAACAGTCTCGAGGGAT
* * * * *
198604 ACTGTCTCAAGGGAGAC-AAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTT
1 ACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATCTC
*
198668 AAGAGAGATAAAATTCATTTCAA
66 AAGAGAGACAAAATTCATTTCAA
198691 TGGAAACGTT
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
107 61 0.79
108 16 0.21
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (108 bp):
ACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATCTC
AAGAGAGACAAAATTCATTTCAAGAGAAACAGTCTCGAGGGAT
Found at i:198903 original size:36 final size:36
Alignment explanation
Indices: 198857--198963 Score: 99
Period size: 36 Copynumber: 3.0 Consensus size: 36
198847 AAATTCGTTT
* * *
198857 TTTAGAGAAAACAATCTCAAGTGAGATTAATTTTGC
1 TTTAGGGAAAACTATCTCAAGTGAGATAAATTTTGC
* * * * * *
198893 TTTAGGGAAAATTATCTCCAGCGAGACAAAATTTGT
1 TTTAGGGAAAACTATCTCAAGTGAGATAAATTTTGC
* *
198929 TCTTA-GGAAAACTATCTCATGTGAGATCAATTTTG
1 T-TTAGGGAAAACTATCTCAAGTGAGATAAATTTTG
198964 TTCTAAATAT
Statistics
Matches: 54, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 51 0.94
37 3 0.06
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.34
Consensus pattern (36 bp):
TTTAGGGAAAACTATCTCAAGTGAGATAAATTTTGC
Found at i:200378 original size:2 final size:2
Alignment explanation
Indices: 200371--200401 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
200361 TTAGCTTTAT
*
200371 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
200402 TGGTATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:203676 original size:22 final size:21
Alignment explanation
Indices: 203634--203676 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
203624 GAAATGAAAG
* *
203634 AAATCAAACGAATTGTAAATT
1 AAATAAAACGAATTCTAAATT
*
203655 AAATAAAACTGAATTCTCAATT
1 AAATAAAAC-GAATTCTAAATT
203677 TTTAACTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (21 bp):
AAATAAAACGAATTCTAAATT
Found at i:204952 original size:17 final size:17
Alignment explanation
Indices: 204930--204985 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
204920 TTAAATCATC
204930 TAGTTCATTTAGGGAAG
1 TAGTTCATTTAGGGAAG
*
204947 TAGTTCA-TTA---AAC
1 TAGTTCATTTAGGGAAG
204960 TAGTTCATTTAGGGAAG
1 TAGTTCATTTAGGGAAG
204977 TAGTTCATT
1 TAGTTCATT
204986 AAACTAGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
16 3 0.09
17 18 0.55
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (17 bp):
TAGTTCATTTAGGGAAG
Found at i:204965 original size:13 final size:13
Alignment explanation
Indices: 204947--204998 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 13
204937 TTTAGGGAAG
204947 TAGTTCATTAAAC
1 TAGTTCATTAAAC
*
204960 TAGTTCATTTAGGGAAG
1 TAGTTCA-TTA---AAC
204977 TAGTTCATTAAAC
1 TAGTTCATTAAAC
204990 TAGTTCATT
1 TAGTTCATT
204999 CATCAAACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 18 0.55
14 3 0.09
16 3 0.09
17 9 0.27
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (13 bp):
TAGTTCATTAAAC
Found at i:204965 original size:30 final size:30
Alignment explanation
Indices: 204929--204998 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
204919 TTTAAATCAT
204929 CTAGTTCATTTAGGGAAGTAGTTCATTAAA
1 CTAGTTCATTTAGGGAAGTAGTTCATTAAA
204959 CTAGTTCATTTAGGGAAGTAGTTCATTAAA
1 CTAGTTCATTTAGGGAAGTAGTTCATTAAA
204989 CTAGTTCATT
1 CTAGTTCATT
204999 CATCAAACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (30 bp):
CTAGTTCATTTAGGGAAGTAGTTCATTAAA
Found at i:205000 original size:17 final size:17
Alignment explanation
Indices: 204980--205022 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
204970 AGGGAAGTAG
204980 TTCATTAAACTAGTTCA
1 TTCATTAAACTAGTTCA
* *
204997 TTCATCAAACTAGTTCG
1 TTCATTAAACTAGTTCA
*
205014 TTTATTAAA
1 TTCATTAAA
205023 TTAACTCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (17 bp):
TTCATTAAACTAGTTCA
Found at i:205011 original size:30 final size:30
Alignment explanation
Indices: 204929--205012 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
204919 TTTAAATCAT
* ** *
204929 CTAGTTCATTTAGGGAAGTAGTTCATTAAA
1 CTAGTTCATTCAGCAAACTAGTTCATTAAA
* ** *
204959 CTAGTTCATTTAGGGAAGTAGTTCATTAAA
1 CTAGTTCATTCAGCAAACTAGTTCATTAAA
*
204989 CTAGTTCATTCATCAAACTAGTTC
1 CTAGTTCATTCAGCAAACTAGTTC
205013 GTTTATTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (30 bp):
CTAGTTCATTCAGCAAACTAGTTCATTAAA
Found at i:206274 original size:20 final size:20
Alignment explanation
Indices: 206251--206298 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
206241 AAAAAAAGTC
206251 AAAAAAGTAAAAAAAAACAA
1 AAAAAAGTAAAAAAAAACAA
* *
206271 AAAACAA-TAGAAAGAAACAA
1 AAAA-AAGTAAAAAAAAACAA
*
206291 AAAGAAGT
1 AAAAAAGT
206299 TTAAAGATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 19 0.83
21 2 0.09
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.06
Consensus pattern (20 bp):
AAAAAAGTAAAAAAAAACAA
Found at i:215316 original size:36 final size:36
Alignment explanation
Indices: 215265--215363 Score: 144
Period size: 36 Copynumber: 2.8 Consensus size: 36
215255 CAAGATAAGG
215265 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
* ** * *
215301 TTGTTTCAAGTGAAACTGTCAAAAGAGATACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
*
215337 TTGTTTCAAGGGAAACTTTCTCAAGGG
1 TTGTTTCAAGGGAAACTGTCTCAAGGG
215364 TGACTGTCTC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
Found at i:215407 original size:36 final size:36
Alignment explanation
Indices: 215357--215454 Score: 142
Period size: 36 Copynumber: 2.7 Consensus size: 36
215347 GGAAACTTTC
** *
215357 TCAAGGGTGACTGTCTCAAGGGAGTCAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
*
215393 TCAAGGGAATCTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* *
215429 TCAAGGTAAACTGTCTCAAGAGAGAC
1 TCAAGGGAAACTGTCTCAAGGGAGAC
215455 TGTCTCAAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (36 bp):
TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
Found at i:215421 original size:87 final size:87
Alignment explanation
Indices: 215270--215541 Score: 402
Period size: 87 Copynumber: 3.1 Consensus size: 87
215260 TAAGGTTGTT
* * * * *
215270 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGTGAAACTGTCAAAAGAGATACAAA
1 TCAAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTAAAGGGAGACAAA
215335 ATTTGTTTCAAGGGAAACTTTC
66 ATTTGTTTCAAGGGAAACTTTC
* * * *
215357 TCAAGGGTGACTGTCTCAAGGGAGTCAAAATTTGTTTCAAGGGAATCTGTCTCAAGGGAGACAAA
1 TCAAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTAAAGGGAGACAAA
* *
215422 ATTTGTTTCAAGGTAAACTGTC
66 ATTTGTTTCAAGGGAAACTTTC
* *
215444 TCAAGAGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTTAAGGGAGACAAA
1 TCAAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTAAAGGGAGACAAA
215509 ATTTGTTTCAAGGGAAA-TTGTC
66 ATTTGTTTCAAGGGAAACTT-TC
*
215531 TCAAGAGAGAC
1 TCAAGGGAGAC
215542 AAAATTCATT
Statistics
Matches: 166, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
86 1 0.01
87 165 0.99
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (87 bp):
TCAAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTAAAGGGAGACAAA
ATTTGTTTCAAGGGAAACTTTC
Found at i:215434 original size:21 final size:20
Alignment explanation
Indices: 215372--215434 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
215362 GGTGACTGTC
215372 TCAAGGGAGTCAAAATTTGTT
1 TCAAGGGAG-CAAAATTTGTT
* *
215393 TCAA-GG-G---AATCTGTC
1 TCAAGGGAGCAAAATTTGTT
215408 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAG-CAAAATTTGTT
215429 TCAAGG
1 TCAAGG
215435 TAAACTGTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 10 0.31
16 2 0.06
17 1 0.03
19 1 0.03
20 2 0.06
21 16 0.50
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (20 bp):
TCAAGGGAGCAAAATTTGTT
Found at i:215448 original size:51 final size:51
Alignment explanation
Indices: 215393--215505 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
215383 AAAATTTGTT
*
215393 TCAAGGGA-ATCTGTCTCAAGGGAGACAAAATTTGTTTCAAGGTAAACTGTC
1 TCAAGGGAGA-CTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
*
215444 TCAAGAGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
1 TCAAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
*
215495 TTAAGGGAGAC
1 TCAAGGGAGAC
215506 AAAATTTGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (51 bp):
TCAAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
Found at i:215456 original size:15 final size:15
Alignment explanation
Indices: 215438--215469 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
215428 TTCAAGGTAA
215438 ACTGTCTCAAGAGAG
1 ACTGTCTCAAGAGAG
*
215453 ACTGTCTCAAGGGAG
1 ACTGTCTCAAGAGAG
215468 AC
1 AC
215470 AAAATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (15 bp):
ACTGTCTCAAGAGAG
Found at i:215484 original size:36 final size:36
Alignment explanation
Indices: 215444--215698 Score: 175
Period size: 36 Copynumber: 7.4 Consensus size: 36
215434 GTAAACTGTC
* *
215444 TCAAGAGAGACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
*
215480 TCAAGGGAAACTGTCTTAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* * **
215516 TCAAGGGAAATTGTCTCAAGAGAGACAAAATTCATT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* * *
215552 TCAATGGAAACAT-TTTCAA---AG-----TTTATGTT
1 TCAAGGGAAAC-TGTCTCAAGGGAGACAAAATT-TGTT
*
215581 TCAAGGGAAACAGTCTCAAGGGAGACAAAACTTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAA-TTTGTT
* * *
215618 ACAAGGGAAACATAT-TCAA---AG----ATTTTAGTT
1 TCAAGGGAAAC-TGTCTCAAGGGAGACAAAATTT-GTT
* *
215648 TCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
**
215684 TTGAGAGGAAACTGT
1 TCAAG-GGAAACTGT
215699 ATCACGTGAG
Statistics
Matches: 167, Mismatches: 29, Indels: 45
0.69 0.12 0.19
Matches are distributed among these distances:
28 2 0.01
29 22 0.13
30 17 0.10
32 2 0.01
33 4 0.02
34 2 0.01
36 84 0.50
37 31 0.19
38 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (36 bp):
TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
Found at i:215484 original size:123 final size:118
Alignment explanation
Indices: 215265--215547 Score: 320
Period size: 123 Copynumber: 2.3 Consensus size: 118
215255 CAAGATAAGG
* *
215265 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGTGAAACTGTCAAAAGAGAT
1 TTGTTTCAAGGGAATCTGTCTCAAGGGAGACAAAATTTGTTTCAAGTGAAACTGTCAAAAGAGAG
* ** *
215330 ACAAAATTTGTTTCAAGGGAAACTTTCTCAAGGGTGACTGTCTCAAGGGAGTCAAAAT
66 AC---A--TGTCTCAAGGGAAACTTTCTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
**
215388 TTGTTTCAAGGGAATCTGTCTCAAGGGAGACAAAATTTGTTTCAAG-GTAAACTGTCTCAAGAGA
1 TTGTTTCAAGGGAATCTGTCTCAAGGGAGACAAAATTTGTTTCAAGTG-AAACTGTCAAAAGAGA
* * *
215452 GAC-TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTTAAGGGAGACAAAAT
65 GACATGTCTCAA-GG-G---AAACTT-TCTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
*
215511 TTGTTTCAAGGGAAAT-TGTCTCAAGAGAGACAAAATT
1 TTGTTTCAAGGG-AATCTGTCTCAAGGGAGACAAAATT
215548 CATTTCAATG
Statistics
Matches: 140, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
117 7 0.05
118 2 0.01
119 1 0.01
122 6 0.04
123 121 0.86
124 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (118 bp):
TTGTTTCAAGGGAATCTGTCTCAAGGGAGACAAAATTTGTTTCAAGTGAAACTGTCAAAAGAGAG
ACATGTCTCAAGGGAAACTTTCTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
Found at i:215485 original size:21 final size:21
Alignment explanation
Indices: 215459--215523 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
215449 AGAGACTGTC
215459 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
*
215480 TCAA-GG-G---AAA-CTGTCT
1 TCAAGGGAGACAAAATTTGT-T
215496 T-AAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
215516 TCAAGGGA
1 TCAAGGGA
215524 AATTGTCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
15 5 0.15
16 7 0.21
17 1 0.03
19 1 0.03
20 7 0.21
21 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:215694 original size:67 final size:66
Alignment explanation
Indices: 215512--215695 Score: 212
Period size: 67 Copynumber: 2.8 Consensus size: 66
215502 AGACAAAATT
* ** * * *
215512 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTCATTTCAA-TGGAAACATTTTCAAAGTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGGAAACATATTCAAAGTTT
215576 A
66 A
* * **
215577 TGTTTCAAGGGAAACAGTCTCAAGGGAGACAAAACTTTGTTACAAG-GGAAACATATTCAAAGAT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTTAAGAGGAAACATATTCAAAG-T
215641 TT-
64 TTA
* *
215643 TAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTGAGAGGAAAC
1 T-GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGGAAAC
215696 TGTATCACGT
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
65 31 0.31
66 31 0.31
67 39 0.39
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (66 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGGAAACATATTCAAAGTTT
A
Found at i:215768 original size:36 final size:36
Alignment explanation
Indices: 215723--215832 Score: 105
Period size: 36 Copynumber: 3.0 Consensus size: 36
215713 AAAACGTTTT
* * *
215723 TTAGAGAAAACAATCTCAAGCGAGATTAATTTTGTT-
1 TTAG-GAAAACTATCTCAAGTGAGATAAATTTTGTTC
* * * * *
215759 TTAAGGAAAATTGTCTCCAGTGAGACAAAATTTGTTC
1 TT-AGGAAAACTATCTCAAGTGAGATAAATTTTGTTC
* *
215796 TTAGGAAAACTATCTCATGTGAGATCAATTTTGTTC
1 TTAGGAAAACTATCTCAAGTGAGATAAATTTTGTTC
215832 T
1 T
215833 AAATATTTCA
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
36 53 0.93
37 4 0.07
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (36 bp):
TTAGGAAAACTATCTCAAGTGAGATAAATTTTGTTC
Found at i:216182 original size:3 final size:3
Alignment explanation
Indices: 216169--216202 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
216159 AATTTGGCTG
216169 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
216203 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:220451 original size:24 final size:24
Alignment explanation
Indices: 220401--220460 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
220391 GTCATGTTCA
* ***
220401 TTCATTTATATTCGTTTATGTTTG
1 TTCATTTATGTTCGTTTATGCGCG
*
220425 TTCGTTTATGTTCGTTTATGCGCG
1 TTCATTTATGTTCGTTTATGCGCG
220449 TTCATTTATGTT
1 TTCATTTATGTT
220461 TAGCCCAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.13, C:0.12, G:0.17, T:0.58
Consensus pattern (24 bp):
TTCATTTATGTTCGTTTATGCGCG
Found at i:220648 original size:10 final size:10
Alignment explanation
Indices: 220630--220688 Score: 55
Period size: 10 Copynumber: 5.5 Consensus size: 10
220620 CCTATTTTCA
220630 TTTATGTTCG
1 TTTATGTTCG
* *
220640 TTTACGTTCA
1 TTTATGTTCG
*
220650 TTTATGTTTG
1 TTTATGTTCG
220660 TTTATATCCGTTCG
1 -TT-TAT--GTTCG
220674 TTTATGTTCG
1 TTTATGTTCG
220684 TTTAT
1 TTTAT
220689 CATTTAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 25 0.64
11 2 0.05
12 6 0.15
13 2 0.05
14 4 0.10
ACGTcount: A:0.14, C:0.12, G:0.15, T:0.59
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:220651 original size:20 final size:21
Alignment explanation
Indices: 220626--220687 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 21
220616 AAAACCTATT
220626 TTCATTTATGTTCGTTTA-CG
1 TTCATTTATGTTCGTTTACCG
*
220646 TTCATTTATGTTTGTTTATATCCG
1 TTCATTTATGTTCG-TT-TA-CCG
*
220670 TTCGTTTATGTTCGTTTA
1 TTCATTTATGTTCGTTTA
220688 TCATTTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 13 0.37
21 2 0.06
22 4 0.11
23 2 0.06
24 14 0.40
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.58
Consensus pattern (21 bp):
TTCATTTATGTTCGTTTACCG
Found at i:221223 original size:28 final size:27
Alignment explanation
Indices: 221190--221282 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 27
221180 ATTAAATAGT
221190 TATTTTAGTTATTCTTTTTTTATTAAAG
1 TATTTTAGTT-TTCTTTTTTTATTAAAG
* ** *
221218 TATTTTAGTTCTCTCAATTTGATTAAATAG
1 TATTTTAGTTTTCT-TTTTTTATT-AA-AG
* *
221248 TTATATTAGTTCTTATTTTTTTATTAAAG
1 -TATTTTAGTT-TTCTTTTTTTATTAAAG
221277 TATTTT
1 TATTTT
221283 TTTTGAATTA
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
27 3 0.06
28 21 0.43
29 4 0.08
30 4 0.08
31 15 0.31
32 2 0.04
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.60
Consensus pattern (27 bp):
TATTTTAGTTTTCTTTTTTTATTAAAG
Found at i:221258 original size:31 final size:31
Alignment explanation
Indices: 221170--221260 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 31
221160 CAAAGAAATG
*
221170 TCTCAATTTGATTAAATAGTTATTTTAGTTA
1 TCTCAATTTGATTAAATAGTTATTTTAGTTC
** *
221201 T-TCTTTTTTTATT-AA-AG-TATTTTAGTTC
1 TCTC-AATTTGATTAAATAGTTATTTTAGTTC
*
221229 TCTCAATTTGATTAAATAGTTATATTAGTTC
1 TCTCAATTTGATTAAATAGTTATTTTAGTTC
221260 T
1 T
221261 TATTTTTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
28 17 0.36
29 6 0.13
30 6 0.13
31 18 0.38
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.55
Consensus pattern (31 bp):
TCTCAATTTGATTAAATAGTTATTTTAGTTC
Found at i:221267 original size:59 final size:59
Alignment explanation
Indices: 221170--221282 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
221160 CAAAGAAATG
* *
221170 TCTCAATTTGATTAAATAGTTATTTTAGTTATTCTTTTTTTATTAAAGTATTTTAGTTC
1 TCTCAATTTGATTAAATAGTTATATTAGTTATTATTTTTTTATTAAAGTATTTTAGTTC
*
221229 TCTCAATTTGATTAAATAGTTATATTAGTTCTTATTTTTTTATTAAAGTATTTT
1 TCTCAATTTGATTAAATAGTTATATTAGTTATTATTTTTTTATTAAAGTATTTT
221283 TTTTGAATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (59 bp):
TCTCAATTTGATTAAATAGTTATATTAGTTATTATTTTTTTATTAAAGTATTTTAGTTC
Found at i:221274 original size:31 final size:31
Alignment explanation
Indices: 221180--221275 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 31
221170 TCTCAATTTG
* *
221180 ATTAAATAGTTATTTTAGTTATTCTTTTTTT
1 ATTAAATAGTTATTTTAGTTCTTATTTTTTT
* *
221211 ATT-AA-AG-TATTTTAGTTCTCTCA--ATTTG
1 ATTAAATAGTTATTTTAGTTCT-T-ATTTTTTT
*
221239 ATTAAATAGTTATATTAGTTCTTATTTTTTT
1 ATTAAATAGTTATTTTAGTTCTTATTTTTTT
221270 ATTAAA
1 ATTAAA
221276 GTATTTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
28 17 0.33
29 6 0.12
30 5 0.10
31 23 0.45
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (31 bp):
ATTAAATAGTTATTTTAGTTCTTATTTTTTT
Found at i:227925 original size:45 final size:45
Alignment explanation
Indices: 227839--227948 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
227829 AGCGATGTTT
* * **
227839 ATAAAAATGCCACAAAAGGTTAAGATATTTAGCGGCGTTTTTCAG
1 ATAAAAACGCCACAAAAGGTTAAGATATTTAACGGAATTTTTCAG
* **
227884 ATAAAAACGCCATAAAAGGTTAAGATATTTAACGGAATTTTTTGG
1 ATAAAAACGCCACAAAAGGTTAAGATATTTAACGGAATTTTTCAG
* * *
227929 ATATAAACGGCGCAAAAGGT
1 ATAAAAACGCCACAAAAGGT
227949 CTGGTATATA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (45 bp):
ATAAAAACGCCACAAAAGGTTAAGATATTTAACGGAATTTTTCAG
Found at i:230027 original size:8 final size:7
Alignment explanation
Indices: 230016--230060 Score: 51
Period size: 6 Copynumber: 6.6 Consensus size: 7
230006 CAATAATAAT
230016 TAAATATA
1 TAAA-ATA
230024 TAAACATA
1 TAAA-ATA
230032 TAAAAT-
1 TAAAATA
230038 TAAAATA
1 TAAAATA
230045 T-AAATA
1 TAAAATA
230051 T-AAATA
1 TAAAATA
230057 TAAA
1 TAAA
230061 TAAACAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
6 18 0.53
7 5 0.15
8 11 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (7 bp):
TAAAATA
Found at i:230045 original size:21 final size:22
Alignment explanation
Indices: 230004--230048 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
229994 TAATAATAAT
230004 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
230026 AACATATAA-AATTAAA-ATATA
1 AACA-ATAATAATTAAATATATA
230047 AA
1 AA
230049 TATAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:231520 original size:3 final size:3
Alignment explanation
Indices: 231512--231572 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
231502 AATTTTTATT
** * *
231512 TAA TAA TAA TAA TAA TAA TAA TATA TTT TATT TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA
* *
231559 AAA TAA AAA TAA TA
1 TAA TAA TAA TAA TA
231573 GAATAAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
3 41 0.89
4 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:231847 original size:45 final size:45
Alignment explanation
Indices: 231756--231859 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
231746 CTCGAAGACT
* * * *
231756 TTTTGAAAACATCTTGCACTGCAGGGCTTACGGATGACCCTGAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAGAGG
* *
231801 TTTTGAAAGCATCATGCACTGAAGGGCTTATAGATGA-CCAGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAG-AGG
* *
231846 TTTTAAAAATATCA
1 TTTTGAAAACATCA
231860 AAAAGATCCC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 3 0.06
45 46 0.94
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAGAGG
Found at i:231896 original size:121 final size:121
Alignment explanation
Indices: 231690--232274 Score: 931
Period size: 121 Copynumber: 4.8 Consensus size: 121
231680 TGTTGAATAA
* *
231690 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCTCGAAGAC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGC
*
231755 TTTTTGAAAACATCTTGCACTGCAGGGCTTACGGATGACCCTG-AGGTTTTGAAAGC
66 TTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCC-GAAGGTTTTGAAAGC
* * * * *
231811 ATCATGCACTGAAGGGCTTATAGATGACCAGAAGGTTTTAAAAATATCAAAAAGATCCCTAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGC
* *
231876 TTTTTGAAAACATCCTGCACTGTAGGGTTTACGGATGACCCGAAGGTTTTGAAAGC
66 TTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGC
* *
231932 ATCATGCACTGAAGGGCATACAGATGACCTGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGC
* * * *
231997 TTTTTGAAAACATTCTGCACTGCATGGCTTATGGATGGCCCGAAGGTTTTGAAAGC
66 TTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGC
* * *
232053 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCACCTGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGC
*
232118 TTTTTGAAAACATCCTGCACTGCATGGCTTACGGATGACCCGAAGGTTTTGAAAGC
66 TTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGC
* * *
232174 ATCATGCACTGAAGGGCTTACAAATGACTCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGC
*
232239 TTTTTGAAAACATCATGCAC-GCAGGGCTTACGGATG
66 TTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATG
232275 TGGGAAATAG
Statistics
Matches: 427, Mismatches: 36, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
120 16 0.04
121 411 0.96
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (121 bp):
ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGC
TTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGC
Found at i:231941 original size:45 final size:45
Alignment explanation
Indices: 231877--231980 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
231867 CCCTAAGGCT
* * ** *
231877 TTTTGAAAACATCCTGCACTGTAGGGTTTACGGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCATACAGATGACCCGAAGG
* *
231922 TTTTGAAAGCATCATGCACTGAAGGGCATACAGATGACCTGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCATACAGATGACCCGAAGG
*
231967 TTTTGAAAATATCA
1 TTTTGAAAACATCA
231981 AAAAGCTCCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCATACAGATGACCCGAAGG
Done.