Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008100.1 Hibiscus syriacus cultivar Beakdansim tig00110630_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: 1372717
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 4 of 7
Found at i:675041 original size:22 final size:22
Alignment explanation
Indices: 675001--675042 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
674991 ATTGAAGTAG
*
675001 GTATCGGTACCATATAAGAGAA
1 GTATCGGTACCATAGAAGAGAA
675023 GTATCGGTACTCAT-GAAGAG
1 GTATCGGTAC-CATAGAAGAG
675043 TACCGATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (22 bp):
GTATCGGTACCATAGAAGAGAA
Found at i:675794 original size:23 final size:23
Alignment explanation
Indices: 675761--675822 Score: 99
Period size: 22 Copynumber: 2.7 Consensus size: 23
675751 TCGAGGGTTT
675761 TATGTGGTCCTTCGGGACAAAAC
1 TATGTGGTCCTTCGGGACAAAAC
* *
675784 TATGTGATCCTTC-GGACAAACC
1 TATGTGGTCCTTCGGGACAAAAC
675806 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
675823 TAAATATGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGACAAAAC
Found at i:679967 original size:20 final size:20
Alignment explanation
Indices: 679944--679986 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
679934 AATCCACCAC
*
679944 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
679964 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
679984 ATG
1 ATG
679987 GGCTCTTAGA
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:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:685875 original size:20 final size:20
Alignment explanation
Indices: 685852--685894 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
685842 AATCCACCAC
*
685852 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
685872 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
685892 ATG
1 ATG
685895 GGCTCTTAGA
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:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:685900 original size:946 final size:946
Alignment explanation
Indices: 684069--685961 Score: 3301
Period size: 946 Copynumber: 2.0 Consensus size: 946
684059 AATAACCATG
* *
684069 CGAACTCCCACCAAATAGGATTAGTTCATGGTGGAGTTTGAAATCAACAAGCAAAAAATAAGATT
1 CGAACTCCCACCAAATAGGATTAGTTCATGGTGGAGTTCGAAATCAACAAGCAAAAAACAAGATT
684134 CATTCGTTCCTTACAACCCAACAACAAAATATAAAAGCAAGTACTAAGGGGAGGAGAAAAAGCCT
66 CATTCGTTCCTTACAACCCAACAACAAAATATAAAAGCAAGTACTAAGGGGAGGAGAAAAAGCCT
*
684199 TCAACGTGCACTGCCAAATGCCTTCCTCGGCCACCAAGGACTGCTCCCAGCGGACTAGCTCCTCT
131 TCAACGTGCACTGCCAAATGCCTTCCTCGGCCACCAAAGACTGCTCCCAGCGGACTAGCTCCTCT
* *
684264 CGGATGCTCAGAACACCACTCCCTTCTGCTAGTCAAGGAGAAATGCCACGGCAAGTGGGATTGAC
196 CGGATGCTCAGAACACCACTCCCTTCAGCTAGTCAAGGAGAAATGCCACGGCAAGTAGGATTGAC
* * * * *
684329 GAAGAAAGATGAGACTTTCTCACTCTAACTTTTTAAGATCAAATGTGGCTGGAACTAAAGTCTTC
261 GAAGAAAGATAAAACTCTCTCACTCTAACTTTTTAAGATCAAATATGGCTGGAACCAAAGTCTTC
684394 TTCAATATGGCTTCCTCCTCTATTTATAGGGGAAAAGAAATCCTAAGCTTTGGTGTTAACCATCC
326 TTCAATATGGCTTCCTCCTCTATTTATAGGGGAAAAGAAATCCTAAGCTTTGGTGTTAACCATCC
* * * **
684459 TAGAAAACCCTAAAACCATGGTTGATTTGCTTGGGAGTTGGGCAGAGTTGGTTGTGATCCAGCCT
391 TAGAAAACCCCAAAACCATGGTTGATTTACTTGGGAGTCGGGCAGAACTGGTTGTGATCCAGCCT
*
684524 GGGTTGCTTGCTTAGACCCGGCACAATCCCACTGCAGACGCCCAAGGACAGACAGAACCTGCAAG
456 GGGTTGCTGGCTTAGACCCGGCACAATCCCACTGCAGACGCCCAAGGACAGACAGAACCTGCAAG
* *
684589 GTCAGGCGACGTTATTATCAAAGTCGGCGGTTGCAGTGCCGGTTCCTTCAGGCAGGATCTTCGAG
521 GTCAGGCGACGTTATTATCAAAGTCGGCGATTGCAGTGCCGGTTCCTCCAGGCAGGATCTTCGAG
*
684654 GCAGATTTCTTGGGTAGAGCTCTCGAGGAGTCAGAGACCGCTGGCTGCAAAAATATCTTCTTTCA
586 GCAGATTTCTTGGGCAGAGCTCTCGAGGAGTCAGAGACCGCTGGCTGCAAAAATATCTTCTTTCA
* *
684719 CTTTGTTTGCTTTCGAAATGCCAATCAGACTCGGTATTTTCATTCTGCTCAGCAGTCTCCTTATG
651 CTTTGTTCGCTTTCGAAATGCCAATCAGACTCGGCATTTTCATTCTGCTCAGCAGTCTCCTTATG
*
684784 CCACGGTATTTTCTTTCCTCTTTTCCTTGCTTTCAATACCTGCACACCATCAGACAAGTACCTTT
716 CCACGGCATTTTCTTTCCTCTTTTCCTTGCTTTCAATACCTGCACACCATCAGACAAGTACCTTT
684849 CCCATAAAGCAGTACCGCTGTAAAAATAAAATGCCACGGCAAACTGAAATCCACCACATGCAACT
781 CCCATAAAGCAGTACCGCTGTAAAAATAAAATGCCACGGCAAACTGAAATCCACCACATGCAACT
*
684914 CTATGCTCCTAAATGCATCTAAATAGTCCTAAATGGGCTCTTAGACATTCAATAACTTAAGTGAA
846 ATATGCTCCTAAATGCATCTAAATAGTCCTAAATGGGCTCTTAGACATTCAATAACTTAAGTGAA
*
684979 AAGGTCCCAAAATATGACTTTTTCAAGGAGTTATCA
911 AAGGTCCCAAAATATGACCTTTTCAAGGAGTTATCA
* * * *
685015 CGAACTCCCACCAAATAGTATTAGTTCATGGTGGGGTTCGAAATCAACAAGCACAAAGCAAGATT
1 CGAACTCCCACCAAATAGGATTAGTTCATGGTGGAGTTCGAAATCAACAAGCAAAAAACAAGATT
*
685080 CATTCGTTCCTTACAACCCAATCAACAAAATATGAAAA-CAAGTACTAAGGGGATGAGAAAAAGC
66 CATTCGTTCCTTACAACCCAA-CAACAAAATAT-AAAAGCAAGTACTAAGGGGAGGAGAAAAAGC
* * * * *
685144 CTTCGACGTGCACTGCCTAATG-CTTCCCTCTGCCACCACAAG-CTGCTCCTAGCGGACTGGCTC
129 CTTCAACGTGCACTGCCAAATGCCTT-CCTCGGCCACCA-AAGACTGCTCCCAGCGGACTAGCTC
* *
685207 CTCTCGGATGCTCAGAACGCCACTCCCTTCAGCTTGTCAAGGAGAAATGCCACGGCAAGTAGGAT
192 CTCTCGGATGCTCAGAACACCACTCCCTTCAGCTAGTCAAGGAGAAATGCCACGGCAAGTAGGAT
* *
685272 TGAC-AGAGAAAGATAAAACTCTCTCTCTCTAACTTTTT-AGCTCAAATATGGCTGGAACCAAAG
257 TGACGA-AGAAAGATAAAACTCTCTCACTCTAACTTTTTAAGATCAAATATGGCTGGAACCAAAG
685335 TCTTCTTCAATATGGCTTCCTCCTCTATTTATAGGGGAAAAGAAATCCTAAGCTTTGGTGTTAAC
321 TCTTCTTCAATATGGCTTCCTCCTCTATTTATAGGGGAAAAGAAATCCTAAGCTTTGGTGTTAAC
*
685400 CATCCTAGGAAACCCCAAAACCATGGTTGATTTACTTGGGAGTCGGGCAGAACTGGTTGTGATCC
386 CATCCTAGAAAACCCCAAAACCATGGTTGATTTACTTGGGAGTCGGGCAGAACTGGTTGTGATCC
* *
685465 AGCCTGGGTTGCTGGCTTAGACCCGGCACAATCCCACTGCAGACGCCCAAGGACATACAGAACTT
451 AGCCTGGGTTGCTGGCTTAGACCCGGCACAATCCCACTGCAGACGCCCAAGGACAGACAGAACCT
*
685530 GCAAGGTCAGGCGGCGTTATTATCAAAGTCGGCGATTGCAGTGCCGGTTCCTCCAGGCAGGATCT
516 GCAAGGTCAGGCGACGTTATTATCAAAGTCGGCGATTGCAGTGCCGGTTCCTCCAGGCAGGATCT
685595 TCGAGGCAGATTTCTTGGGCAGAGCTCTCGAGGAGTCAGAGACCGCTGGCTGCAAAAATATCTTC
581 TCGAGGCAGATTTCTTGGGCAGAGCTCTCGAGGAGTCAGAGACCGCTGGCTGCAAAAATATCTTC
685660 TTTCACTTTGTTCGCTTTCGAAATGCCAATCAGACTCGGCATTTTCATTCTGCTCAGCAGTCTCC
646 TTTCACTTTGTTCGCTTTCGAAATGCCAATCAGACTCGGCATTTTCATTCTGCTCAGCAGTCTCC
*
685725 TTATGCCACTGCATTTTCTTTCCTCTTTTCCTTGCTTTCAATACCTGCACACCATCAGACAAGTA
711 TTATGCCACGGCATTTTCTTTCCTCTTTTCCTTGCTTTCAATACCTGCACACCATCAGACAAGTA
*
685790 CCTTTCCCATAAAGCAGTACTGCTGTAAAAATAAAATGCCACGGCAAACTGAAATCCACCACATG
776 CCTTTCCCATAAAGCAGTACCGCTGTAAAAATAAAATGCCACGGCAAACTGAAATCCACCACATG
*
685855 CAACTATATGCTCCTAAATGCATCTAAATGGTCCTAAATGGGCTCTTAGACATTCAATAACTTAA
841 CAACTATATGCTCCTAAATGCATCTAAATAGTCCTAAATGGGCTCTTAGACATTCAATAACTTAA
685920 GTGAAAAGGTCCCAAAATATGACCTTTTCAAGGAGTTATCA
906 GTGAAAAGGTCCCAAAATATGACCTTTTCAAGGAGTTATCA
685961 C
1 C
685962 TTGCCAAATG
Statistics
Matches: 897, Mismatches: 45, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
946 712 0.79
947 179 0.20
948 6 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (946 bp):
CGAACTCCCACCAAATAGGATTAGTTCATGGTGGAGTTCGAAATCAACAAGCAAAAAACAAGATT
CATTCGTTCCTTACAACCCAACAACAAAATATAAAAGCAAGTACTAAGGGGAGGAGAAAAAGCCT
TCAACGTGCACTGCCAAATGCCTTCCTCGGCCACCAAAGACTGCTCCCAGCGGACTAGCTCCTCT
CGGATGCTCAGAACACCACTCCCTTCAGCTAGTCAAGGAGAAATGCCACGGCAAGTAGGATTGAC
GAAGAAAGATAAAACTCTCTCACTCTAACTTTTTAAGATCAAATATGGCTGGAACCAAAGTCTTC
TTCAATATGGCTTCCTCCTCTATTTATAGGGGAAAAGAAATCCTAAGCTTTGGTGTTAACCATCC
TAGAAAACCCCAAAACCATGGTTGATTTACTTGGGAGTCGGGCAGAACTGGTTGTGATCCAGCCT
GGGTTGCTGGCTTAGACCCGGCACAATCCCACTGCAGACGCCCAAGGACAGACAGAACCTGCAAG
GTCAGGCGACGTTATTATCAAAGTCGGCGATTGCAGTGCCGGTTCCTCCAGGCAGGATCTTCGAG
GCAGATTTCTTGGGCAGAGCTCTCGAGGAGTCAGAGACCGCTGGCTGCAAAAATATCTTCTTTCA
CTTTGTTCGCTTTCGAAATGCCAATCAGACTCGGCATTTTCATTCTGCTCAGCAGTCTCCTTATG
CCACGGCATTTTCTTTCCTCTTTTCCTTGCTTTCAATACCTGCACACCATCAGACAAGTACCTTT
CCCATAAAGCAGTACCGCTGTAAAAATAAAATGCCACGGCAAACTGAAATCCACCACATGCAACT
ATATGCTCCTAAATGCATCTAAATAGTCCTAAATGGGCTCTTAGACATTCAATAACTTAAGTGAA
AAGGTCCCAAAATATGACCTTTTCAAGGAGTTATCA
Found at i:689672 original size:23 final size:23
Alignment explanation
Indices: 689646--689694 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
689636 CTATGGAAGC
*
689646 AGCTAGTGTTTCTTACAGTTCGT
1 AGCTAGTGTTACTTACAGTTCGT
*
689669 AGCTGGTGTTACTTACAGTTCGT
1 AGCTAGTGTTACTTACAGTTCGT
689692 AGC
1 AGC
689695 CACAGCCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (23 bp):
AGCTAGTGTTACTTACAGTTCGT
Found at i:693919 original size:29 final size:29
Alignment explanation
Indices: 693876--693958 Score: 148
Period size: 29 Copynumber: 2.8 Consensus size: 29
693866 CTCACCTAAC
693876 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
693906 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
693935 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
693959 ATTTAGTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:696749 original size:21 final size:21
Alignment explanation
Indices: 696697--696749 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
696687 AAAAATAAAA
* * **
696697 AAAAAGGCAAAAAAAAGAGGG
1 AAAAAGACAAAAAAAAAAGCC
*
696718 AAAAAAACAAAAAAAAAAGCC
1 AAAAAGACAAAAAAAAAAGCC
*
696739 AAAAAGCCAAA
1 AAAAAGACAAA
696750 TTTTCAAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.74, C:0.11, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAAGACAAAAAAAAAAGCC
Found at i:700382 original size:18 final size:19
Alignment explanation
Indices: 700361--700407 Score: 87
Period size: 18 Copynumber: 2.5 Consensus size: 19
700351 AAGAAAAGGC
700361 AAAACAAAAAGAGG-AAAA
1 AAAACAAAAAGAGGAAAAA
700379 AAAACAAAAAGAGGAAAAA
1 AAAACAAAAAGAGGAAAAA
700398 AAAACAAAAA
1 AAAACAAAAA
700408 AAAAGCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAACAAAAAGAGGAAAAA
Found at i:700411 original size:41 final size:41
Alignment explanation
Indices: 700335--700412 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
700325 TTTTTTTTTC
**
700335 AAAAAAACAAAAACAAAAGAAAAGGCAAAACAAAAAGAGGA
1 AAAAAAACAAAAACAAAAGAAAAAACAAAACAAAAAGAGGA
*
700376 AAAAAAACAAAAAGAGGAAA-AAAAAACAAAA-AAAAAG
1 AAAAAAACAAAAACA--AAAGAAAAAACAAAACAAAAAG
700413 CCAAATTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 20 0.62
42 9 0.28
43 3 0.09
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (41 bp):
AAAAAAACAAAAACAAAAGAAAAAACAAAACAAAAAGAGGA
Found at i:712843 original size:29 final size:29
Alignment explanation
Indices: 712800--712882 Score: 148
Period size: 29 Copynumber: 2.8 Consensus size: 29
712790 CTCACCTAAC
712800 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
712830 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
712859 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
712883 ATTTAGTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:713470 original size:7 final size:7
Alignment explanation
Indices: 713460--713484 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
713450 CGGTGGCAGA
713460 TCGAAAG
1 TCGAAAG
713467 TCGAAAG
1 TCGAAAG
713474 TCGAAAG
1 TCGAAAG
713481 TCGA
1 TCGA
713485 GCGGGTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (7 bp):
TCGAAAG
Found at i:714213 original size:29 final size:28
Alignment explanation
Indices: 714180--714245 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
714170 GAATTATTCT
* * *
714180 ATTTTTTATCTTAGTCCCC-AGACTTTAT
1 ATTTTTTACCTTA-ACCCCTAGACTTTAG
*
714208 AGTTTTATACCTTAACCCCTAGACTTTAG
1 A-TTTTTTACCTTAACCCCTAGACTTTAG
714237 ATTTTTTAC
1 ATTTTTTAC
714246 ACCTTAGTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (28 bp):
ATTTTTTACCTTAACCCCTAGACTTTAG
Found at i:719199 original size:18 final size:18
Alignment explanation
Indices: 719176--719222 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
719166 CTAATATCAG
*
719176 TTTTTTTCTGTCTCATTT
1 TTTTTTTCTCTCTCATTT
* *
719194 TTTTTTTGTCTCTCGTTT
1 TTTTTTTCTCTCTCATTT
*
719212 TTTTTTCCTCT
1 TTTTTTTCTCT
719223 GGCAATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.02, C:0.19, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTTTTTCTCTCTCATTT
Found at i:719212 original size:16 final size:16
Alignment explanation
Indices: 719175--719216 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
719165 GCTAATATCA
719175 GTTTTTTTCTGTCTCAT
1 GTTTTTTT-TGTCTCAT
*
719192 TTTTTTTTTGTCTC-T
1 GTTTTTTTTGTCTCAT
719207 CGTTTTTTTT
1 -GTTTTTTTT
719217 TCCTCTGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 1 0.05
16 14 0.64
17 7 0.32
ACGTcount: A:0.02, C:0.14, G:0.10, T:0.74
Consensus pattern (16 bp):
GTTTTTTTTGTCTCAT
Found at i:721658 original size:53 final size:54
Alignment explanation
Indices: 721601--721702 Score: 122
Period size: 52 Copynumber: 1.9 Consensus size: 54
721591 TAAATATATA
*
721601 TAATTAATAGTATTGTAAT-A-GTTATGTTTAAAATT-AGTT-ATTTAAATTTGAAT
1 TAATTAA-AGTATT-TAATAACGTTAT-TTTAAAATTAAATTAATTTAAATTTGAAT
* *
721654 TAATTAAATTATTTATTAACGTTATTTTAAAATTAAATTAATTTAAATT
1 TAATTAAAGTATTTAATAACGTTATTTTAAAATTAAATTAATTTAAATT
721703 GAAATTTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
51 3 0.07
52 15 0.36
53 15 0.36
54 9 0.21
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (54 bp):
TAATTAAAGTATTTAATAACGTTATTTTAAAATTAAATTAATTTAAATTTGAAT
Found at i:721932 original size:24 final size:25
Alignment explanation
Indices: 721888--721948 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
721878 AAATTTTATC
* *
721888 TAATATATAATA-TAAAGAATAAAT
1 TAATAAATAATATTAAAGAATAAAA
*
721912 TAATAAATAATATTATA-AATAAAA
1 TAATAAATAATATTAAAGAATAAAA
* *
721936 TAAAAAAGAATAT
1 TAATAAATAATAT
721949 ATTTCTTGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (25 bp):
TAATAAATAATATTAAAGAATAAAA
Found at i:723759 original size:19 final size:19
Alignment explanation
Indices: 723735--723771 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
723725 AACTGCCCCA
723735 GATAAAATTATGAATCAAT
1 GATAAAATTATGAATCAAT
723754 GATAAAATTATGAATCAA
1 GATAAAATTATGAATCAA
723772 CAATTCCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (19 bp):
GATAAAATTATGAATCAAT
Found at i:728788 original size:22 final size:22
Alignment explanation
Indices: 728736--728788 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
728726 TCAGGAGTTA
** *
728736 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTACATGATATAATTC
*
728758 CAAGG-GTTACATGATATAATTT
1 C-AGGAGTTACATGATATAATTC
728780 CAGGAGTTA
1 CAGGAGTTA
728789 TAACAGCTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (22 bp):
CAGGAGTTACATGATATAATTC
Found at i:731837 original size:6 final size:6
Alignment explanation
Indices: 731826--731862 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
731816 TCAGCTCAGC
*
731826 TCGTGG TCGTGG TCGTGT TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
731863 AATACGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.16, G:0.46, T:0.38
Consensus pattern (6 bp):
TCGTGG
Found at i:732189 original size:22 final size:22
Alignment explanation
Indices: 732137--732189 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
732127 TCAGGAGTTA
** *
732137 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTACATGATATAATTC
*
732159 CAAGG-GTTACATGATATAATTT
1 C-AGGAGTTACATGATATAATTC
732181 CAGGAGTTA
1 CAGGAGTTA
732190 TAACAGCTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (22 bp):
CAGGAGTTACATGATATAATTC
Found at i:736512 original size:21 final size:19
Alignment explanation
Indices: 736488--736532 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
736478 CTTTTTGTTT
*
736488 TTTTCTTTCATCATTTATTTA
1 TTTTATTTCATCA-TT-TTTA
*
736509 TTTTATTTTATCATTTTTA
1 TTTTATTTCATCATTTTTA
736528 TTTTA
1 TTTTA
736533 CTAACTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 11 0.50
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTATTTCATCATTTTTA
Found at i:741341 original size:2 final size:2
Alignment explanation
Indices: 741336--741374 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
741326 TTAGTGTTAT
741336 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
741375 TTCCTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:746188 original size:7 final size:7
Alignment explanation
Indices: 746176--746240 Score: 69
Period size: 7 Copynumber: 8.7 Consensus size: 7
746166 AATCAAGAAC
746176 AAAAAAG
1 AAAAAAG
746183 AAAAAAG
1 AAAAAAG
746190 AAAAAA-
1 AAAAAAG
746196 AAACAAAG
1 AAA-AAAG
746204 AAAAAAG
1 AAAAAAG
746211 AGAAACAAG
1 A-AAA-AAG
*
746220 AACAAAAAT
1 -A-AAAAAG
746229 AAAAAAG
1 AAAAAAG
746236 AAAAA
1 AAAAA
746241 GGGACAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
6 3 0.06
7 31 0.62
8 7 0.14
9 5 0.10
10 4 0.08
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:746221 original size:30 final size:30
Alignment explanation
Indices: 746176--746240 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 30
746166 AATCAAGAAC
*
746176 AAAAAAGAAAAAAGAA-AAAAA-AACAAAG
1 AAAAAAGAAAAAAGAACAAAAATAAAAAAG
746204 AAAAAAGAGAAACAAGAACAAAAATAAAAAAG
1 AAAAAAGA-AAA-AAGAACAAAAATAAAAAAG
746236 AAAAA
1 AAAAA
746241 GGGACAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 8 0.25
29 3 0.09
30 5 0.16
31 5 0.16
32 11 0.34
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.02
Consensus pattern (30 bp):
AAAAAAGAAAAAAGAACAAAAATAAAAAAG
Found at i:746247 original size:23 final size:21
Alignment explanation
Indices: 746170--746251 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 21
746160 AGATCCAATC
746170 AAGAACAAAAAAGAAAAAAGAAAA
1 AAGAAC-AAAAA-AAAAAAG-AAA
* *
746194 AAAAACAAAGAAAAAAGAGAAA
1 AAGAACAAA-AAAAAAAAGAAA
746216 CAAGAACAAAAATAAAAAAGAAA
1 -AAGAACAAAAA-AAAAAAGAAA
*
746239 AAGGGACAAAAAA
1 AA-GAACAAAAAA
746252 CACATGCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
22 8 0.16
23 34 0.69
24 7 0.14
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.01
Consensus pattern (21 bp):
AAGAACAAAAAAAAAAAGAAA
Found at i:747090 original size:22 final size:22
Alignment explanation
Indices: 747016--747092 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
747006 GCTACCCCAT
*
747016 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
747038 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
747060 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
747082 CAAACCTTTGA
1 CAAACCTTTGA
747093 CCAAACATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:747847 original size:37 final size:35
Alignment explanation
Indices: 747804--747937 Score: 151
Period size: 37 Copynumber: 3.7 Consensus size: 35
747794 TTTCCAATAT
* *
747804 AAATTTTGTCTCGCTTGAGACAGTCTCATTTAAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTC-TTTGAAAC
* * * *
747840 AAGATTTTATCTCGCTTGAGATAGTTTTTCTTTGAAAC
1 AA-ATTTTGTCTCCCTTGAGACAG--TCTCTTTGAAAC
* *
747878 AAATTTCGTCTCCCTTGAGACAGTCTTCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAGTC-TCTTTGAAAC
747914 AAATTTTGTCTCCCTTGAGACAGT
1 AAATTTTGTCTCCCTTGAGACAGT
747938 TTCTCTCCAG
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
35 1 0.01
36 34 0.41
37 36 0.43
38 9 0.11
39 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (35 bp):
AAATTTTGTCTCCCTTGAGACAGTCTCTTTGAAAC
Found at i:747913 original size:36 final size:36
Alignment explanation
Indices: 747804--747941 Score: 163
Period size: 36 Copynumber: 3.8 Consensus size: 36
747794 TTTCCAATAT
* *
747804 AAATTTTGTCTCGCTTGAGACAGTC-TCATTTAAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTC-TTTGAAAC
* * * *
747840 AAGATTTTATCTCGCTTGAGATAGTTTTTCTTTGAAAC
1 AA-ATTTTGTCTCCCTTGAGACAG-TCTTCTTTGAAAC
* *
747878 AAATTTCGTCTCCCTTGAGACAGTCTTCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
747914 AAATTTTGTCTCCCTTGAGACAGT-TTCT
1 AAATTTTGTCTCCCTTGAGACAGTCTTCT
747942 CTCCAGACAA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
35 3 0.03
36 36 0.41
37 36 0.41
38 10 0.11
39 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
Found at i:749006 original size:106 final size:106
Alignment explanation
Indices: 747942--749004 Score: 1617
Period size: 106 Copynumber: 10.0 Consensus size: 106
747932 GACAGTTTCT
* * *
747942 CTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
748007 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * * * ** *
748048 CTCAAGACAGCACAAGCTCAACTTCAC-AGCGAAGGGGCAGCTGACTGTCAACAAACAACTTCTC
1 CTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
748112 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
748154 CTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
748219 ATTTCAGAGCAAATTTCAACTTCACAGCGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
748260 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCTA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
748325 ATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
748366 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
748431 ATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
748472 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
748537 ATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
748578 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAATAAACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* * * *
748643 ATTTCAGAGTCAATTTCAACTTCATAACGAATGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
748684 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
748749 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * ** * *
748790 CTCGAGACGATGCAAGTTCAACTTCAAAACGAAGGGACCGTTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* * * *
748855 ATTTCGGAGCCAATTTCAACTTCACAACAAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * * * * *
748896 CTCGAGACAACACAAGTTCAACTTCACAACGATGGGACGGCTGGTTGTCAACAAATAATTTCCCG
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
748961 ATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGA
749002 CTC
1 CTC
749005 GAAACAATCC
Statistics
Matches: 871, Mismatches: 83, Indels: 6
0.91 0.09 0.01
Matches are distributed among these distances:
105 1 0.00
106 869 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
Found at i:750361 original size:20 final size:20
Alignment explanation
Indices: 750336--750373 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
750326 TTTTTTATTA
750336 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
750356 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
750374 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:750402 original size:37 final size:39
Alignment explanation
Indices: 750318--750403 Score: 106
Period size: 37 Copynumber: 2.3 Consensus size: 39
750308 ATTACTTTTG
* *
750318 ATTTTCTTTTTTTTATTATTTTACTTATATATATATGCT
1 ATTTTCTTTTTTATATTATTTTACTCATATATATATGCT
* * *
750357 -TTTACTTTTTTATA-TATTTTACTCATTTATTTAT-CT
1 ATTTTCTTTTTTATATTATTTTACTCATATATATATGCT
750393 ATTTTCTTTTT
1 ATTTTCTTTTT
750404 ATCTTTATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 2 0.05
37 26 0.65
38 12 0.30
ACGTcount: A:0.21, C:0.09, G:0.01, T:0.69
Consensus pattern (39 bp):
ATTTTCTTTTTTATATTATTTTACTCATATATATATGCT
Found at i:750561 original size:16 final size:15
Alignment explanation
Indices: 750513--750561 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 15
750503 ATTAGTGTTA
750513 TTATATTT-TTTATT
1 TTATATTTCTTTATT
750527 TTATATATTCTATTCATT
1 TTATAT-TTCT-TT-ATT
750545 TTATATTTACTTTATT
1 TTATATTT-CTTTATT
750561 T
1 T
750562 CTTTCTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.20
15 2 0.07
16 5 0.17
17 6 0.20
18 11 0.37
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATATTTCTTTATT
Found at i:755827 original size:10 final size:10
Alignment explanation
Indices: 755806--755838 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
755796 GCCTAAATTG
755806 AAAAAAG-G-
1 AAAAAAGAGA
755814 AAAAAAGAGA
1 AAAAAAGAGA
755824 AAAAAAGAGA
1 AAAAAAGAGA
755834 AAAAA
1 AAAAA
755839 GAACAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 7 0.30
9 1 0.04
10 15 0.65
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAAGAGA
Found at i:755827 original size:17 final size:17
Alignment explanation
Indices: 755805--755852 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
755795 TGCCTAAATT
755805 GAAAAAAGGAAAAAAGA
1 GAAAAAAGGAAAAAAGA
755822 GAAAAAAAGAGAAAAAAGA
1 G-AAAAAAG-GAAAAAAGA
*
755841 -ACAAAA-GAAAAA
1 GAAAAAAGGAAAAA
755853 GAAAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
17 6 0.21
18 7 0.25
19 9 0.32
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (17 bp):
GAAAAAAGGAAAAAAGA
Found at i:755835 original size:27 final size:27
Alignment explanation
Indices: 755805--755864 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
755795 TGCCTAAATT
*
755805 GAAAAAAGGAA-AAAAGAGAAAA-AAAGA
1 GAAAAAA-GAACAAAAGA-AAAAGAAAAA
755832 GAAAAAAGAACAAAAGAAAAAGAAAAA
1 GAAAAAAGAACAAAAGAAAAAGAAAAA
755859 GAAAAA
1 GAAAAA
755865 TAAGGTGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (27 bp):
GAAAAAAGAACAAAAGAAAAAGAAAAA
Found at i:755838 original size:12 final size:13
Alignment explanation
Indices: 755816--755864 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
755806 AAAAAAGGAA
755816 AAAAGAGAAAAA-
1 AAAAGAGAAAAAG
*
755828 AAGAGA-AAAAAG
1 AAAAGAGAAAAAG
*
755840 AACAAAAGAAAAAG
1 AA-AAGAGAAAAAG
755854 AAAA-AGAAAAA
1 AAAAGAGAAAAA
755865 TAAGGTGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.16
12 14 0.45
13 4 0.13
14 8 0.26
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAAAAG
Found at i:755846 original size:10 final size:9
Alignment explanation
Indices: 755814--755864 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
755804 TGAAAAAAGG
755814 AAAAAAGAGA
1 AAAAAAGA-A
*
755824 AAAAAAGAG
1 AAAAAAGAA
755833 AAAAAAGAA
1 AAAAAAGAA
755842 CAAAAGAA-AA
1 -AAAA-AAGAA
755852 AGAAAAAGAA
1 A-AAAAAGAA
755862 AAA
1 AAA
755865 TAAGGTGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 13 0.37
10 20 0.57
11 2 0.06
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:758866 original size:19 final size:19
Alignment explanation
Indices: 758842--758971 Score: 84
Period size: 22 Copynumber: 6.3 Consensus size: 19
758832 GTGTATATAT
758842 TTATTTATTTTTATTTTTA
1 TTATTTATTTTTATTTTTA
*
758861 TTATTT-CTTTTATATTTTA
1 TTATTTATTTTTAT-TTTTA
* *
758880 TGTATATATTTAATTATATTT-
1 T-TATTTATTT--TTATTTTTA
758901 TTATTTATTTTCTATATATTTA
1 TTATTTATTTT-TAT-T-TTTA
*
758923 TTATTTTCATTTTTATTCATTA
1 TTA-TTT-ATTTTTATT-TTTA
* *
758945 TTATTATATTATATATTTTTT
1 TTATT-TATT-TTTATTTTTA
758966 TTATTT
1 TTATTT
758972 TTTAGATCTT
Statistics
Matches: 87, Mismatches: 11, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
18 7 0.08
19 15 0.17
20 13 0.15
21 18 0.21
22 19 0.22
23 10 0.11
24 5 0.06
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (19 bp):
TTATTTATTTTTATTTTTA
Found at i:758875 original size:34 final size:35
Alignment explanation
Indices: 758837--758973 Score: 86
Period size: 40 Copynumber: 3.7 Consensus size: 35
758827 TACATGTGTA
758837 TATATTTAT-TTAT-TTTTATTTTTATTATTTCTTT
1 TATATTTATATTATATTTTATTTTTATTATTT-TTT
*
758871 TATATTT-TATGTATATATTTAATTATATTTTTATTTATTT
1 TATATTTATAT-TATAT-TTT-ATT-T-TTATTATTT-TTT
* * *
758911 TCTATATAT-TTATTATTTTCATTTTTATTCATTATTAT
1 TATATTTATATTA-TATTTT-ATTTTTATT-ATT-TTTT
*
758949 TATATTATATATT-TTTTTTATTTTT
1 TATATT-TATATTATATTTTATTTTT
758974 TAGATCTTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
33 1 0.01
34 8 0.10
35 3 0.04
36 1 0.01
37 13 0.16
38 18 0.22
39 13 0.16
40 22 0.28
41 1 0.01
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.71
Consensus pattern (35 bp):
TATATTTATATTATATTTTATTTTTATTATTTTTT
Found at i:758903 original size:31 final size:30
Alignment explanation
Indices: 758882--758970 Score: 78
Period size: 30 Copynumber: 2.9 Consensus size: 30
758872 ATATTTTATG
*
758882 TATATATTTAATTATATTTTTATTTATTTTC
1 TATATATTT-ATTATATTTTTATTTATTATC
758913 TATATATTTATTAT-TTTCATT-TTTATTCAT-
1 TATATATTTATTATATTT--TTATTTATT-ATC
*
758943 TAT-TATTATATTATATATTTTTTTTATT
1 TATATATT-TATTATAT-TTTTATTTATT
758971 TTTTAGATCT
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
29 7 0.14
30 22 0.44
31 19 0.38
32 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
TATATATTTATTATATTTTTATTTATTATC
Found at i:758910 original size:33 final size:34
Alignment explanation
Indices: 758873--758961 Score: 87
Period size: 34 Copynumber: 2.6 Consensus size: 34
758863 ATTTCTTTTA
758873 TATTTTATGTATATATTTA-ATTAT-ATTTTTATT
1 TATTTTAT-TATATATTTATATTATCATTTTTATT
* *
758906 TATTTT-CTATATATTTATTATTTTCATTTTTATT
1 TATTTTATTATATATTTA-TATTATCATTTTTATT
* *
758940 CATTATTATTATAT-TATATATT
1 TATT-TTATTATATATTTATATT
758962 TTTTTTATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
31 10 0.22
33 10 0.22
34 16 0.35
35 5 0.11
36 5 0.11
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (34 bp):
TATTTTATTATATATTTATATTATCATTTTTATT
Found at i:758923 original size:43 final size:46
Alignment explanation
Indices: 758833--758921 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 46
758823 TATATACATG
*
758833 TGTATATATTTATTTATTTTTATTTTTATTATTTCTTTTATATTTTA
1 TGTATATATTTATTTATTTTTA-TTTTATTATTTCTTATATATTTTA
758880 TGTATATATTTAATTATATTTTTA-TTTA-T-TTTC-TATATATTT
1 TGTATATATTT-ATT-TATTTTTATTTTATTATTTCTTATATATTT
758922 ATTATTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
44 8 0.21
45 4 0.10
46 1 0.03
47 15 0.38
48 3 0.08
49 8 0.21
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (46 bp):
TGTATATATTTATTTATTTTTATTTTATTATTTCTTATATATTTTA
Found at i:759241 original size:36 final size:38
Alignment explanation
Indices: 759194--759280 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
759184 TGATGTGAGG
*
759194 TATATATATATATTCTT-TT-TTTAAAAC-ATTACTATA
1 TATATATATATATACTTATTATTTAAAACTATTA-TATA
** *
759230 TATATATATATATACTTATTATTTATTACTATTATTTA
1 TATATATATATATACTTATTATTTAAAACTATTATATA
759268 TATATATATATAT
1 TATATATATATAT
759281 GTACATATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.36
37 2 0.05
38 22 0.50
39 4 0.09
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (38 bp):
TATATATATATATACTTATTATTTAAAACTATTATATA
Found at i:759417 original size:17 final size:17
Alignment explanation
Indices: 759364--759429 Score: 51
Period size: 23 Copynumber: 3.4 Consensus size: 17
759354 TTTTGCTTGG
759364 ATTTTATTATTTATTTGT
1 ATTTTATT-TTTATTTGT
759382 ATTATCTATTCTTTCTTATTTGT
1 ATT-T-TA---TTT-TTATTTGT
*
759405 ATTTTATTTTTATTTAT
1 ATTTTATTTTTATTTGT
759422 ATGTTTAT
1 AT-TTTAT
759430 ACGTTTATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
17 9 0.22
18 11 0.28
19 1 0.03
20 2 0.05
21 2 0.05
22 2 0.05
23 13 0.32
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (17 bp):
ATTTTATTTTTATTTGT
Found at i:759468 original size:20 final size:20
Alignment explanation
Indices: 759443--759482 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
759433 TTTATTAATA
* *
759443 ATATATATATTTTTTATTTT
1 ATATATATATCTATTATTTT
759463 ATATATATATCTATTATTTT
1 ATATATATATCTATTATTTT
759483 TATTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
ATATATATATCTATTATTTT
Found at i:759522 original size:2 final size:2
Alignment explanation
Indices: 759515--759540 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
759505 AACAACATGT
759515 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
759541 AAAGGGGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:763532 original size:17 final size:18
Alignment explanation
Indices: 763510--763547 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
763500 ATCGCCGACC
763510 AAATTTTACTATTCACA-
1 AAATTTTACTATTCACAT
763527 AAA-TTTACTATTCACAT
1 AAATTTTACTATTCACAT
763544 AAAT
1 AAAT
763548 AGTAACCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTTACTATTCACAT
Found at i:764881 original size:33 final size:33
Alignment explanation
Indices: 764857--764933 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
764847 GATTCGTTGC
*
764857 TCGTTAAGCTCGACTCGTTCCTCGACTTGTTTT
1 TCGTTAAGCTCGACTCATTCCTCGACTTGTTTT
* *
764890 TCGTTAAGTTCGACTCATTCATCGACTTGTTTT
1 TCGTTAAGCTCGACTCATTCCTCGACTTGTTTT
764923 TCGTTAAGCTC
1 TCGTTAAGCTC
764934 ACTAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.43
Consensus pattern (33 bp):
TCGTTAAGCTCGACTCATTCCTCGACTTGTTTT
Found at i:765069 original size:39 final size:39
Alignment explanation
Indices: 765025--765113 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
765015 GTTTTGTTTA
*
765025 TATTAAAATAATATTA-TTAA-TTAATAATATTTTATTATT
1 TATTAAAA-AATAATAGTTAACTT-ATAATATTTTATTATT
* *
765064 TATTAAAAAATAATAGTTAACTTATTATTTTTTATTATT
1 TATTAAAAAATAATAGTTAACTTATAATATTTTATTATT
*
765103 TATTAATAAAT
1 TATTAAAAAAT
765114 TAGTAATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
38 6 0.14
39 36 0.82
40 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (39 bp):
TATTAAAAAATAATAGTTAACTTATAATATTTTATTATT
Found at i:765091 original size:25 final size:24
Alignment explanation
Indices: 765036--765092 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
765026 ATTAAAATAA
** * *
765036 TATTATTAATTAATAATATTTTAT
1 TATTATTAAAAAATAATAGTTAAT
765060 TATTTATTAAAAAATAATAGTTAACT
1 TA-TTATTAAAAAATAATAGTTAA-T
765086 TATTATT
1 TATTATT
765093 TTTTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.07
25 22 0.81
26 3 0.11
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TATTATTAAAAAATAATAGTTAAT
Found at i:769239 original size:16 final size:17
Alignment explanation
Indices: 769218--769252 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
769208 AATATTAATT
*
769218 TTAAATTTAATTTT-TA
1 TTAAATTAAATTTTATA
769234 TTAAATTAAATTTTATA
1 TTAAATTAAATTTTATA
769251 TT
1 TT
769253 TGAATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTAAATTAAATTTTATA
Found at i:770484 original size:21 final size:21
Alignment explanation
Indices: 770437--770485 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
770427 TGACTATCGT
770437 AATGCGATTTTCCAATTTCGC
1 AATGCGATTTTCCAATTTCGC
**
770458 GTTGCGATTTTCCCAA-TTCGC
1 AATGCGATTTT-CCAATTTCGC
770479 AATGCGA
1 AATGCGA
770486 ATAAGTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (21 bp):
AATGCGATTTTCCAATTTCGC
Found at i:770500 original size:20 final size:21
Alignment explanation
Indices: 770475--770526 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
770465 TTTTCCCAAT
*
770475 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
770495 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
770516 TCGCAATGCGA
1 TCGCAATGCGA
770527 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:770505 original size:41 final size:41
Alignment explanation
Indices: 770460--770710 Score: 186
Period size: 41 Copynumber: 6.1 Consensus size: 41
770450 AATTTCGCGT
** * *
770460 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAATACGTAAATCGCAA
* * * *
770501 TGCGAATTTGGAAAATCGCAATGCG-ATAC-TGACTATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAATACGT-A-AATCGCAA
* * * * * * **
770542 TGCAATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCGTAAATCGCAATGCGA-ATACGTAAATCGCAA
* * *
770583 TGTGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAATACGTAAATCGCAA
* ** * *
770624 CGCGA-TTAAGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAA-TACGTAAATCGCAA
* ** *
770665 TGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAATACGTAAATCGCAA
770706 TGCGA
1 TGCGA
770711 ATCTTACTAT
Statistics
Matches: 162, Mismatches: 40, Indels: 16
0.74 0.18 0.07
Matches are distributed among these distances:
39 1 0.01
40 26 0.16
41 112 0.69
42 19 0.12
43 3 0.02
44 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (41 bp):
TGCGATTTTCGTAAATCGCAATGCGAATACGTAAATCGCAA
Found at i:770570 original size:21 final size:21
Alignment explanation
Indices: 770536--770608 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
770526 ATACTGACTA
* *
770536 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
770557 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
** *
770577 TCGCGTTGTGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
770598 TCGCAATGCGA
1 TCGCAATGCGA
770609 ATACGTAAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:770659 original size:21 final size:21
Alignment explanation
Indices: 770475--770712 Score: 170
Period size: 20 Copynumber: 11.6 Consensus size: 21
770465 TTTTCCCAAT
*
770475 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTACGTAAA
** *
770495 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTACGTAAA
*
770516 TCGCAATGCG-A-TAC-TGACTA
1 TCGCAATGCGAATTACGT-A-AA
* * *
770536 TCGCAATGC-AATTTTCCTAAT
1 TCGCAATGCGAA-TTACGTAAA
* * *
770557 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGAATTACGTAAA
** * * * * *
770577 TCGCGTTGTGATTTTCATAAT
1 TCGCAATGCGAATTACGTAAA
770598 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGTAAA
* *
770618 TCGCAACGCG-ATTAAGTAAA
1 TCGCAATGCGAATTACGTAAA
* *
770638 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGTAAA
* *
770659 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGTAAA
770680 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGTAAA
770700 TCGCAATGCGAAT
1 TCGCAATGCGAAT
770713 CTTACTATCA
Statistics
Matches: 174, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.02
20 88 0.51
21 78 0.45
22 4 0.02
23 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (21 bp):
TCGCAATGCGAATTACGTAAA
Found at i:771339 original size:19 final size:19
Alignment explanation
Indices: 771317--771475 Score: 123
Period size: 19 Copynumber: 9.1 Consensus size: 19
771307 GAAACCAAAA
*
771317 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
771336 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
771355 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
771369 TCTCGTTGGGATTTTCATT
1 TCGCGTTGCGATTTTCATT
771388 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
771402 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
771421 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
771435 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
771454 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
771474 TC
1 TC
771476 AACCAAAAGA
Statistics
Matches: 110, Mismatches: 14, Indels: 32
0.71 0.09 0.21
Matches are distributed among these distances:
14 29 0.26
16 7 0.06
17 8 0.07
19 50 0.45
20 16 0.15
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:771382 original size:33 final size:33
Alignment explanation
Indices: 771339--771467 Score: 204
Period size: 33 Copynumber: 3.9 Consensus size: 33
771329 TTTCATTTCG
**
771339 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
* **
771372 CGTTGGGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
771405 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
771438 CGTTGCGATAGTCATTTCCGCGTTGCGATT
1 CGTTGCGATAGTCATTT-CGCGTTGCGATT
771468 TTCATTTCAA
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 79 0.87
34 12 0.13
ACGTcount: A:0.11, C:0.23, G:0.24, T:0.42
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
Found at i:771410 original size:14 final size:14
Alignment explanation
Indices: 771358--771446 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
771348 TTTCATTTCG
771358 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
771372 CGTTGGGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
771391 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
771405 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
771424 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
771438 CGTTGCGAT
1 CGTTGCGAT
771447 AGTCATTTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 29 0.49
16 5 0.08
17 5 0.08
19 20 0.34
ACGTcount: A:0.10, C:0.24, G:0.25, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:771428 original size:52 final size:52
Alignment explanation
Indices: 771317--771433 Score: 125
Period size: 52 Copynumber: 2.2 Consensus size: 52
771307 GAAACCAAAA
* * *
771317 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCAGTTCGCGTAGCGATTC
* *
771369 TCTCGTTGGGATTTTCATTTCGCGTTGCGATTCTCTC-GTT-GCGATAGTC-ATT-
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATT-T-TCAGTTCGCG-TAG-CGATTC
771421 TCGCGTTGCGATT
1 TCGCGTTGCGATT
771434 CTCTCGTTGC
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
52 43 0.80
53 8 0.15
54 3 0.06
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.44
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCAGTTCGCGTAGCGATTC
Found at i:771593 original size:25 final size:26
Alignment explanation
Indices: 771539--771593 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
771529 TTATGTTTAT
*
771539 TGTTTTTGGTATATCTTCACATTGTA
1 TGTTTTTGGTATATCTTAACATTGTA
771565 -GTTTTTGGTATATC-TAAC-TTGGTA
1 TGTTTTTGGTATATCTTAACATT-GTA
771589 TGTTT
1 TGTTT
771594 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.08
24 6 0.23
25 18 0.69
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (26 bp):
TGTTTTTGGTATATCTTAACATTGTA
Found at i:773644 original size:21 final size:21
Alignment explanation
Indices: 773620--773686 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
773610 TCATTCCTCG
773620 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
773641 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
773662 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
773683 AGAG
1 AGAG
773687 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:773644 original size:42 final size:42
Alignment explanation
Indices: 773568--773686 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
773558 GACTCGCCTG
* * * * * * *
773568 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
773610 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
773652 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
773687 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:775057 original size:14 final size:14
Alignment explanation
Indices: 775038--775073 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
775028 ATTGTTTAAT
775038 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
775052 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
775066 TGATTTGT
1 TGATTTGT
775074 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:775196 original size:19 final size:19
Alignment explanation
Indices: 775180--775297 Score: 105
Period size: 19 Copynumber: 6.7 Consensus size: 19
775170 AAAAATGACT
*
775180 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
775199 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
775213 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
775232 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAATGAAA
* *
775251 ATCGCAA--TG--A-CAAA
1 ATCGCAACGCGAAATGAAA
775265 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
775284 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
775298 CTAAATTCGC
Statistics
Matches: 82, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
14 20 0.24
15 2 0.02
16 3 0.04
17 3 0.04
18 2 0.02
19 52 0.63
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:775252 original size:52 final size:52
Alignment explanation
Indices: 775180--775302 Score: 176
Period size: 52 Copynumber: 2.3 Consensus size: 52
775170 AAAAATGACT
* * * *
775180 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAA-TGAAA
1 ATCGCAACGCGAAATAAAAATCGCAACGACAAAATCGCAACGCGAAACT-AAA
*
775232 ATCGCAACGCGAAATAAAAATCGCAATGACAAAATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAATAAAAATCGCAACGACAAAATCGCAACGCGAAACTAAA
775284 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAA-TAAA
775303 TTCGCGTTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
52 59 0.92
53 5 0.08
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (52 bp):
ATCGCAACGCGAAATAAAAATCGCAACGACAAAATCGCAACGCGAAACTAAA
Found at i:775298 original size:19 final size:19
Alignment explanation
Indices: 775212--775307 Score: 107
Period size: 19 Copynumber: 5.3 Consensus size: 19
775202 GCAACGAGAG
775212 AATCGCAACGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
775231 AATCGCAACGCGAAA-TAAA
1 AATCGCAACGCGAAACT-AA
*
775250 AATCGCAA--TG--AC-AA
1 AATCGCAACGCGAAACTAA
775264 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
775283 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
775302 ATTCGC
1 AATCGC
775308 GTTGTGATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
14 10 0.15
15 1 0.01
16 1 0.01
17 1 0.01
18 2 0.03
19 52 0.78
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:775350 original size:33 final size:33
Alignment explanation
Indices: 775307--775433 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
775297 ACTAAATTCG
* * *
775307 CGTTGTGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
775340 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
775373 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
775406 CGTTGCGCTTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
775434 AGTAATTTTC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:775499 original size:20 final size:20
Alignment explanation
Indices: 775427--775499 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
775417 TCATTTCGCA
* * *
775427 TTGCGATAGTAATTTTCGCG
1 TTGCGATAGTCATTTACGTG
* *
775447 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTACG-TG
*
775467 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTACGTG
775488 TTGCGATAGTCA
1 TTGCGATAGTCA
775500 AATGATTGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.55
21 12 0.30
22 3 0.08
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTACGTG
Found at i:777775 original size:3 final size:3
Alignment explanation
Indices: 777767--777811 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
777757 CGGAGACTTT
* * *
777767 TTC TTC TTC TTT TTC TTC TTC TTT TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
777812 AGGATTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:777780 original size:12 final size:12
Alignment explanation
Indices: 777763--777811 Score: 98
Period size: 12 Copynumber: 4.1 Consensus size: 12
777753 TCTTCGGAGA
777763 CTTTTTCTTCTT
1 CTTTTTCTTCTT
777775 CTTTTTCTTCTT
1 CTTTTTCTTCTT
777787 CTTTTTCTTCTT
1 CTTTTTCTTCTT
777799 CTTTTTCTTCTT
1 CTTTTTCTTCTT
777811 C
1 C
777812 AGGATTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:778020 original size:24 final size:24
Alignment explanation
Indices: 777986--778039 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
777976 CTGAAACATC
*
777986 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
778010 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
778034 ATCAAA
1 ATCAAA
778040 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:778811 original size:20 final size:20
Alignment explanation
Indices: 778796--778914 Score: 132
Period size: 20 Copynumber: 6.0 Consensus size: 20
778786 TCGTTGTTAT
778796 AGTCAGAATCTCGTTGCGAA
1 AGTCAGAATCTCGTTGCGAA
*
778816 AGTCAGAATCGCGTTGCGAA
1 AGTCAGAATCTCGTTGCGAA
*
778836 AGTCAGAATCACGTTGCGAA
1 AGTCAGAATCTCGTTGCGAA
* * *
778856 AGTAAGTATCGCGTTGCGAA
1 AGTCAGAATCTCGTTGCGAA
* *
778876 AGTAAGTATCGT-GTTGCGAA
1 AGTCAGAATC-TCGTTGCGAA
* * *
778896 AGTAAGTATCGCGTTGCGA
1 AGTCAGAATCTCGTTGCGA
778915 TTTTCCCAAT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
20 90 1.00
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (20 bp):
AGTCAGAATCTCGTTGCGAA
Found at i:778842 original size:40 final size:40
Alignment explanation
Indices: 778796--778914 Score: 177
Period size: 40 Copynumber: 3.0 Consensus size: 40
778786 TCGTTGTTAT
* *
778796 AGTCAGAATCTCGTTGCGAAAGTCAGAATCGCGTTGCGAA
1 AGTCAGAATCTCGTTGCGAAAGTAAGTATCGCGTTGCGAA
*
778836 AGTCAGAATCACGTTGCGAAAGTAAGTATCGCGTTGCGAA
1 AGTCAGAATCTCGTTGCGAAAGTAAGTATCGCGTTGCGAA
* *
778876 AGTAAGTATCGT-GTTGCGAAAGTAAGTATCGCGTTGCGA
1 AGTCAGAATC-TCGTTGCGAAAGTAAGTATCGCGTTGCGA
778915 TTTTCCCAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (40 bp):
AGTCAGAATCTCGTTGCGAAAGTAAGTATCGCGTTGCGAA
Found at i:778946 original size:21 final size:21
Alignment explanation
Indices: 778922--778976 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
778912 CGATTTTCCC
*
778922 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATAAGGA
**
778943 AATT-GCAATGCGAATTTGGA
1 AATTCGCAATGCGAATAAGGA
*
778963 AAATCGCAATGCGA
1 AATTCGCAATGCGA
778977 TACTGACTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTCGCAATGCGAATAAGGA
Found at i:778998 original size:20 final size:20
Alignment explanation
Indices: 778965--779025 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
778955 AATTTGGAAA
*
778965 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
778985 ATCGCAACGTGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
779006 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
779026 TTCGTAACGA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
19 2 0.06
20 13 0.42
21 14 0.45
22 2 0.06
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:779291 original size:20 final size:20
Alignment explanation
Indices: 779266--779339 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
779256 CAACGGGGAA
*
779266 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGGCT
779286 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
779306 ATCGTAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
779326 ATCGCAATGCGAAA
1 ATCGCAACGCGAAA
779340 TGAAAATCGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:779387 original size:19 final size:19
Alignment explanation
Indices: 779365--779409 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
779355 GGTTTTCTCG
779365 TTGCGATAGCCATTTCGCA
1 TTGCGATAGCCATTTCGCA
***
779384 TTGCGATTTTCATTTCGCA
1 TTGCGATAGCCATTTCGCA
779403 TTGCGAT
1 TTGCGAT
779410 TCTCTCGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (19 bp):
TTGCGATAGCCATTTCGCA
Found at i:781040 original size:40 final size:42
Alignment explanation
Indices: 780996--781087 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
780986 CCTCTTCAAC
*
780996 GATGACAGTGGCCTCTTGAACG-GTGG-GGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
781036 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
781078 GATGACAGGG
1 GATGACAGGG
781088 AGTCGGGCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 20 0.43
41 3 0.07
42 23 0.50
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:781051 original size:21 final size:21
Alignment explanation
Indices: 781022--781087 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
781012 TGAACGGTGG
*
781022 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGACA
* ** *
781043 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGACA
781064 GGGGACTCTTGAGGGATGACA
1 GGGGACTCTTGAGGGATGACA
781085 GGG
1 GGG
781088 AGTCGGGCTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.21, C:0.14, G:0.44, T:0.21
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGACA
Found at i:781448 original size:20 final size:20
Alignment explanation
Indices: 781423--781475 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
781413 GAAGAATAGT
*
781423 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
781443 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
781463 TGACTATCGCAAC
1 TTACTTTCGCAAC
781476 TCAGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:781473 original size:40 final size:40
Alignment explanation
Indices: 781429--781562 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 40
781419 TAGTTTACTT
* *
781429 TCGCAACAC-GAAACTTACTTTCGCAACGCGAAAATGACTA
1 TCGCAACACAGAAA-TGACTATCGCAACGCGAAAATGACTA
* * * *
781469 TCGCAACTCAGAAATGGCTATCGCAACGCGGAAATGGCTA
1 TCGCAACACAGAAATGACTATCGCAACGCGAAAATGACTA
* * * **
781509 TCGCAACGCAGAAATGGCTATCGCAATGCG-AAATGAAAA
1 TCGCAACACAGAAATGACTATCGCAACGCGAAAATGACTA
781548 TCGCAACGACA-AAAT
1 TCGCAAC-ACAGAAAT
781563 CGCAACGCGA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
39 17 0.21
40 59 0.74
41 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (40 bp):
TCGCAACACAGAAATGACTATCGCAACGCGAAAATGACTA
Found at i:781483 original size:20 final size:20
Alignment explanation
Indices: 781449--781543 Score: 131
Period size: 20 Copynumber: 4.8 Consensus size: 20
781439 AAACTTACTT
*
781449 TCGCAACGC-GAAAATGACTA
1 TCGCAACGCAG-AAATGGCTA
*
781469 TCGCAACTCAGAAATGGCTA
1 TCGCAACGCAGAAATGGCTA
*
781489 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCAGAAATGGCTA
781509 TCGCAACGCAGAAATGGCTA
1 TCGCAACGCAGAAATGGCTA
*
781529 TCGCAATGC-GAAATG
1 TCGCAACGCAGAAATG
781544 AAAATCGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.09
20 61 0.90
21 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (20 bp):
TCGCAACGCAGAAATGGCTA
Found at i:781603 original size:19 final size:19
Alignment explanation
Indices: 781581--781697 Score: 92
Period size: 19 Copynumber: 6.6 Consensus size: 19
781571 GAAACACAAA
781581 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
781600 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
781616 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
781633 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
781649 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
***
781666 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
781685 TCCGCATTGCGAT
1 T-CGCATTGCGAT
781698 AGTCATTTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
14 12 0.15
15 6 0.08
16 8 0.10
17 8 0.10
18 6 0.08
19 27 0.35
20 11 0.14
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:781622 original size:14 final size:14
Alignment explanation
Indices: 781603--781661 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
781593 TTTCATTTCG
781603 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
781617 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
781634 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
781650 CGTTGCGATTTT
1 CGTTGCGATTTT
781662 TATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:781628 original size:33 final size:33
Alignment explanation
Indices: 781586--781677 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
781576 ACAAATCGCA
*
781586 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
781619 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
781652 TTGCGATTTTTATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
781678 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:781716 original size:20 final size:20
Alignment explanation
Indices: 781663--781705 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
781653 TGCGATTTTT
781663 ATTT-CGCATTGCGATAGCC
1 ATTTCCGCATTGCGATAGCC
*
781682 ATTTCCGCATTGCGATAGTC
1 ATTTCCGCATTGCGATAGCC
781702 ATTT
1 ATTT
781706 TCGTGTTGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGCC
Found at i:782274 original size:18 final size:18
Alignment explanation
Indices: 782251--782298 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
782241 CGGGTCGATC
782251 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
782269 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
782287 AGGTGATGGCTC
1 AGGTGATGGCTC
782299 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:783665 original size:20 final size:20
Alignment explanation
Indices: 783617--783675 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
783607 AATAGTTTCT
* *
783617 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
783637 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
783657 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
783676 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:783965 original size:22 final size:22
Alignment explanation
Indices: 783938--783981 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
783928 GATGGAGATA
783938 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
783960 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
783982 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:784196 original size:20 final size:20
Alignment explanation
Indices: 784168--784281 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
784158 GACTATATAT
* *
784168 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
*
784188 TATCGCGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTAAG
784208 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
** *
784228 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTAAG
* *
784249 TATCGCGTTGCGATAGTTAG
1 TATCGCGTTGCGAAAGTAAG
784269 TATCGCGTTGCGA
1 TATCGCGTTGCGA
784282 TTTTCCAAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.77
21 14 0.17
22 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:784271 original size:41 final size:40
Alignment explanation
Indices: 784165--784285 Score: 161
Period size: 41 Copynumber: 3.0 Consensus size: 40
784155 TGCGACTATA
* * **
784165 TATTATCTCGTTGCGAAAGTCAGTATCGCGTTGCGAAATT
1 TATTATCGCGTTGCGAAAGTAAGTATCGCGTTGCGATTTT
* *
784205 AAGTATCGCGTTGCGAAAGTAAGTATCGCGTTGCGATTTT
1 TATTATCGCGTTGCGAAAGTAAGTATCGCGTTGCGATTTT
* *
784245 GTATTATCGCGTTGCGATAGTTAGTATCGCGTTGCGATTTT
1 -TATTATCGCGTTGCGAAAGTAAGTATCGCGTTGCGATTTT
784286 CCAAATTCGC
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
40 34 0.49
41 36 0.51
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (40 bp):
TATTATCGCGTTGCGAAAGTAAGTATCGCGTTGCGATTTT
Found at i:784301 original size:41 final size:41
Alignment explanation
Indices: 784175--784345 Score: 127
Period size: 41 Copynumber: 4.2 Consensus size: 41
784165 TATTATCTCG
* * ** * *
784175 TTGCGAAAGTCAGTATCGCGTTGCGAAATT-AAGTATCGCG
1 TTGCGATAGTTAGTATCGCGTTGCGATTTTCAAATATCGCA
* * ** * *
784215 TTGCGAAAGTAAGTATCGCGTTGCGATTTTGTATTATCGCG
1 TTGCGATAGTTAGTATCGCGTTGCGATTTTCAAATATCGCA
784256 TTGCGATAGTTAGTATCGCGTTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTTAGTATCGCGTTGCGATTTT-CAAATATCGCA
* * *
784297 TTGCGAT-TTTCCA-AATTCGCATTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTT--AGTA-TCGCGTTGCGATTTT-CAAATATCGCA
784339 TTGCGAT
1 TTGCGAT
784346 TTACTTATTC
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
40 29 0.26
41 48 0.43
42 35 0.31
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTTAGTATCGCGTTGCGATTTTCAAATATCGCA
Found at i:784357 original size:20 final size:21
Alignment explanation
Indices: 784271--784364 Score: 145
Period size: 21 Copynumber: 4.5 Consensus size: 21
784261 ATAGTTAGTA
*
784271 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
784292 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
784313 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
784334 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
784354 TCGCATTGCGA
1 TCGCATTGCGA
784365 ATTGGGAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
20 17 0.25
21 52 0.75
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:784379 original size:41 final size:42
Alignment explanation
Indices: 784271--784379 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 42
784261 ATAGTTAGTA
* * * * *
784271 TCGCGTTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGAATTGCCAAAATCGCATTGCGATTTTACAAAT
* * * **
784313 TCGCATTGCGATTTTCCAAATTCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGAATTGCCAAAATCGCATTGCGATTTTACAAAT
**
784354 TCGCATTGCGAATTGGGAAAATCGCA
1 TCGCATTGCGAATTGCCAAAATCGCA
784380 ACGCGAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
41 27 0.47
42 31 0.53
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (42 bp):
TCGCATTGCGAATTGCCAAAATCGCATTGCGATTTTACAAAT
Found at i:784406 original size:21 final size:22
Alignment explanation
Indices: 784354--784406 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
784344 ATTTACTTAT
784354 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
784375 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
784396 TCGCATTGCGA
1 TCGCATTGCGA
784407 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:790109 original size:39 final size:39
Alignment explanation
Indices: 790066--790184 Score: 120
Period size: 39 Copynumber: 3.1 Consensus size: 39
790056 TTTAAAAAAT
*
790066 AATTTAGGATGTTAATGTGAAATAATTTAAGAAATTAAA
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
* **
790105 AATTTAGAATGTT-ATGGTAGTAA-AATTTAAGAAATTAGG
1 AATTTAGAATGTTAAT-GT-GAAATAATTTAAGAAATTAAA
* * *
790144 AATTTAGAATATTAGA-GTGAAATAATTTGA-AAATTATA
1 AATTTAGAATGTTA-ATGTGAAATAATTTAAGAAATTAAA
790182 AAT
1 AAT
790185 AAACATTTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
38 14 0.21
39 48 0.73
40 3 0.05
41 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (39 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
Found at i:794746 original size:95 final size:94
Alignment explanation
Indices: 794634--794816 Score: 253
Period size: 95 Copynumber: 1.9 Consensus size: 94
794624 TACTAAAAGG
* * *
794634 GAAAGTATCGATACCATGGATTACATAATGTCA-AAATGGTATCGATACTGAAAGGGGGTATCAA
1 GAAAGTATCGATACCATGCATTACAGAATGT-ATAAATGGTATCGATACTGAAAGAGGGTATCAA
*
794698 TACTATAGTATA-ATAGTATCGATACTGAGA
65 TACCATAGTATAGA-AGTATCGATACTGAGA
* * **
794728 GAAAGGTATCGATGCCATGCATTACAGAATGTATAAATGGTATCGATACTGAGAGAGGGTATCGG
1 GAAA-GTATCGATACCATGCATTACAGAATGTATAAATGGTATCGATACTGAAAGAGGGTATCAA
794793 TACCATAGTATAGAAGTATCGATA
65 TACCATAGTATAGAAGTATCGATA
794817 TCATGGTAGT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
94 5 0.06
95 72 0.92
96 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (94 bp):
GAAAGTATCGATACCATGCATTACAGAATGTATAAATGGTATCGATACTGAAAGAGGGTATCAAT
ACCATAGTATAGAAGTATCGATACTGAGA
Found at i:795341 original size:26 final size:26
Alignment explanation
Indices: 795310--795391 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 26
795300 ATAACGGTGC
795310 ATGAAAGGCATGAAAGGATGCCATAA
1 ATGAAAGGCATGAAAGGATGCCATAA
* * *
795336 ATGAAATGCAT-AACGG-T----T-C
1 ATGAAAGGCATGAAAGGATGCCATAA
795355 ATGAAAGGCATGAAAGGATGCCATAA
1 ATGAAAGGCATGAAAGGATGCCATAA
*
795381 ATGAAATGCAT
1 ATGAAAGGCAT
795392 AACGATGCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
19 10 0.24
20 5 0.12
21 1 0.02
24 1 0.02
25 5 0.12
26 20 0.48
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (26 bp):
ATGAAAGGCATGAAAGGATGCCATAA
Found at i:795431 original size:45 final size:45
Alignment explanation
Indices: 795240--795418 Score: 277
Period size: 45 Copynumber: 4.0 Consensus size: 45
795230 TAAAACGAAT
* * * * *
795240 CCATAAATGAAACGCATAATGATACATTAAAGGCATGAAAAGATG
1 CCATAAATGAAATGCATAACGATGCATGAAAGGCATGAAAGGATG
*
795285 CCATAAATGAAATGCATAACGGTGCATGAAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATAACGATGCATGAAAGGCATGAAAGGATG
* *
795330 CCATAAATGAAATGCATAACGGTTCATGAAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATAACGATGCATGAAAGGCATGAAAGGATG
*
795375 CCATAAATGAAATGCATAACGATGCATTAAAGGCATGAAAGGAT
1 CCATAAATGAAATGCATAACGATGCATGAAAGGCATGAAAGGAT
795419 TCTTTAAATG
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 124 1.00
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (45 bp):
CCATAAATGAAATGCATAACGATGCATGAAAGGCATGAAAGGATG
Found at i:796627 original size:45 final size:45
Alignment explanation
Indices: 796518--796633 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 45
796508 GGTAGACCTG
* * * *
796518 GGTCACACAGTATCAACATCTCCCAAGTATCTCAAGTGAGGTCTA
1 GGTCACATAGCATCAACACCTCCCAAGTATCTCAAGCGAGGTCTA
* * * * *
796563 GGTCACATCGCACCGACACCTTCCAAGTATCTCAGGCGAGGTC-A
1 GGTCACATAGCATCAACACCTCCCAAGTATCTCAAGCGAGGTCTA
*
796607 GAGTTACATAGCATCAACACCTCCCAA
1 G-GTCACATAGCATCAACACCTCCCAA
796634 TACCTTAGGC
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 2 0.04
45 54 0.96
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (45 bp):
GGTCACATAGCATCAACACCTCCCAAGTATCTCAAGCGAGGTCTA
Found at i:797718 original size:21 final size:22
Alignment explanation
Indices: 797672--797730 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
797662 CAAAACAAAG
* *
797672 AAGGGATCTATCA-TTTCTTTC
1 AAGGGATCAATCATTTTCTCTC
* *
797693 GAGGGATCGATCATTTTCTCT-
1 AAGGGATCAATCATTTTCTCTC
*
797714 AAGGGATCAATCCTTTT
1 AAGGGATCAATCATTTT
797731 GAAAAGGGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (22 bp):
AAGGGATCAATCATTTTCTCTC
Found at i:798282 original size:15 final size:14
Alignment explanation
Indices: 798262--798301 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
798252 CTTGAAGGAG
798262 ATGAAGGAAGAAGAA
1 ATGAAGGAAGAAG-A
798277 ATGAA-GAAGAAGA
1 ATGAAGGAAGAAGA
798290 ATGAAGAGAAGA
1 ATGAAG-GAAGA
798302 GAAGTGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.26
14 7 0.30
15 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (14 bp):
ATGAAGGAAGAAGA
Found at i:799346 original size:26 final size:26
Alignment explanation
Indices: 799317--799369 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
799307 TGTGAATATA
* *
799317 TATACACATAAGGTCGTGTCCACCAT
1 TATACACATAAAGTCGTATCCACCAT
*
799343 TATACACATAAAGTTGTATCCACCAT
1 TATACACATAAAGTCGTATCCACCAT
799369 T
1 T
799370 TGCATTAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (26 bp):
TATACACATAAAGTCGTATCCACCAT
Found at i:809871 original size:14 final size:14
Alignment explanation
Indices: 809852--809883 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
809842 AATATAGGGC
*
809852 TTAGCTGTTATCGT
1 TTAGCTGGTATCGT
809866 TTAGCTGGTATCGT
1 TTAGCTGGTATCGT
809880 TTAG
1 TTAG
809884 TTGACATAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.12, G:0.25, T:0.47
Consensus pattern (14 bp):
TTAGCTGGTATCGT
Found at i:810575 original size:10 final size:10
Alignment explanation
Indices: 810560--810597 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
810550 GGACCGGTTG
810560 AAAACCGGAA
1 AAAACCGGAA
*
810570 AAAACCAGAA
1 AAAACCGGAA
810580 AAAACC-GAGA
1 AAAACCGGA-A
810590 AAAACCGG
1 AAAACCGG
810598 GATTTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 2 0.08
10 22 0.88
11 1 0.04
ACGTcount: A:0.61, C:0.21, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAACCGGAA
Found at i:810582 original size:11 final size:11
Alignment explanation
Indices: 810560--810593 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
810550 GGACCGGTTG
810560 AAAACCG-GAA
1 AAAACCGAGAA
810570 AAAACC-AGAA
1 AAAACCGAGAA
810580 AAAACCGAGAA
1 AAAACCGAGAA
810591 AAA
1 AAA
810594 CCGGGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.68, C:0.18, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAACCGAGAA
Found at i:819764 original size:100 final size:100
Alignment explanation
Indices: 819591--819783 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
819581 GTCGGTTCAG
* *
819591 GTCAAAATCTATCGAATTTGGGTTAAATTGTCATACCTAATTATGCTTAGTTTATTATTTCATTC
1 GTCAAAACCTATCGAATTTAGGTTAAATTGTCATACCTAATTATGCTTAGTTTATTATTTCATTC
819656 ATATCATTCCTATTTATGTCATGATTATGGGTCAA
66 ATATCATTCCTATTTATGTCATGATTATGGGTCAA
* * *
819691 GTCAAAACCTGTCGAATTTATGTTAAATTGTCATCCCTAATTATGCTTAGTTTATTATTTCATTC
1 GTCAAAACCTATCGAATTTAGGTTAAATTGTCATACCTAATTATGCTTAGTTTATTATTTCATTC
819756 ATATCATTCCTATTTATGTCATGATTAT
66 ATATCATTCCTATTTATGTCATGATTAT
819784 ACTTTGCATC
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.45
Consensus pattern (100 bp):
GTCAAAACCTATCGAATTTAGGTTAAATTGTCATACCTAATTATGCTTAGTTTATTATTTCATTC
ATATCATTCCTATTTATGTCATGATTATGGGTCAA
Found at i:820450 original size:20 final size:20
Alignment explanation
Indices: 820427--820474 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
820417 ATCGTACATT
*
820427 TTCATCAAGAGTCGTGTCTC
1 TTCATCAAGAGTCATGTCTC
* *
820447 TTCACCAAGAGTTATGTCTC
1 TTCATCAAGAGTCATGTCTC
820467 TTCATCAA
1 TTCATCAA
820475 ATATCACCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (20 bp):
TTCATCAAGAGTCATGTCTC
Found at i:821547 original size:15 final size:15
Alignment explanation
Indices: 821529--821564 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
821519 TTGTTAAAAA
821529 TATAATATATATTAT
1 TATAATATATATTAT
*
821544 TATAAAATATATTAT
1 TATAATATATATTAT
*
821559 TTTAAT
1 TATAAT
821565 TGTTTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATAATATATATTAT
Found at i:821573 original size:24 final size:24
Alignment explanation
Indices: 821513--821588 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 24
821503 TAAAATAGGG
*
821513 TTTTAATTG-TTAAAAATATAATA
1 TTTTAATTGTTTTAAAATATAATA
* * * *
821536 -TAT-ATTATTATAAAATATATTA
1 TTTTAATTGTTTTAAAATATAATA
821558 TTTTAATTGTTTTAAAATATTAATA
1 TTTTAATTGTTTTAAAATA-TAATA
821583 TATTTA
1 T-TTTA
821589 GGTCGAGGTG
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
21 3 0.08
22 13 0.33
23 2 0.05
24 12 0.31
25 5 0.13
26 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTTAATTGTTTTAAAATATAATA
Found at i:823638 original size:17 final size:17
Alignment explanation
Indices: 823604--823636 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
823594 TTTAATTATA
823604 ATTATATAATTATATTT
1 ATTATATAATTATATTT
*
823621 ATTATTTAA-TATATTT
1 ATTATATAATTATATTT
823637 TACCTTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATATAATTATATTT
Found at i:826659 original size:127 final size:127
Alignment explanation
Indices: 826514--826758 Score: 418
Period size: 127 Copynumber: 1.9 Consensus size: 127
826504 TTATTATATA
*
826514 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
826579 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTATATGCT
826641 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
826706 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
826759 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (127 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTATATGCT
Found at i:827116 original size:28 final size:27
Alignment explanation
Indices: 827085--827147 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
827075 AGTTGATACA
*
827085 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
827113 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
827141 ATATTTT
1 ATATTTT
827148 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:827248 original size:16 final size:18
Alignment explanation
Indices: 827227--827260 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
827217 ATTTCTTATT
827227 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
827243 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
827261 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:827407 original size:21 final size:21
Alignment explanation
Indices: 827383--827425 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
827373 TATTACCTTA
827383 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
827404 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
827425 A
1 A
827426 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:827443 original size:35 final size:35
Alignment explanation
Indices: 827394--827479 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
827384 ATTGAAGTAT
** * *
827394 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
827429 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
827464 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
827480 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:827662 original size:29 final size:29
Alignment explanation
Indices: 827610--827667 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
827600 GCAAACGGAA
* *
827610 TAAATGTTGGGGGACTGTATTGCAAGTTT
1 TAAATGTTGGGGGACTGAAATGCAAGTTT
827639 TAAATGTTGGGGGACCT-AAATGCAAGTTT
1 TAAATGTTGGGGGA-CTGAAATGCAAGTTT
827668 CAGAAATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (29 bp):
TAAATGTTGGGGGACTGAAATGCAAGTTT
Found at i:828914 original size:21 final size:20
Alignment explanation
Indices: 828885--828925 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
828875 ATACTGCAAA
828885 GACAATATCGATACTCACCCT
1 GACAATATCGATACTC-CCCT
*
828906 GACAGTATCGATACTCCCCT
1 GACAATATCGATACTCCCCT
828926 TTGAAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.29, C:0.34, G:0.12, T:0.24
Consensus pattern (20 bp):
GACAATATCGATACTCCCCT
Done.