Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 3 of 182
Found at i:723171 original size:60 final size:60
Alignment explanation
Indices: 723058--723182 Score: 214
Period size: 60 Copynumber: 2.1 Consensus size: 60
723048 TTATATTATG
*
723058 TTTAATTTTTAAAATTTAAACTTTAAACTATATACTTTTAAGGATAAATAAAAAATATTA
1 TTTAATTTTTAAAATTTAAACTTTAAACTATATACATTTAAGGATAAATAAAAAATATTA
* *
723118 TTTAATTTTTGAAATTTGAACTTTAAACTATATACATTTAAGGATAAATAAAAAATATTA
1 TTTAATTTTTAAAATTTAAACTTTAAACTATATACATTTAAGGATAAATAAAAAATATTA
*
723178 ATTAA
1 TTTAA
723183 ATTAAATTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (60 bp):
TTTAATTTTTAAAATTTAAACTTTAAACTATATACATTTAAGGATAAATAAAAAATATTA
Found at i:726597 original size:46 final size:46
Alignment explanation
Indices: 726544--726719 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
726534 TGGTTGAGCA
726544 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
726590 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
726635 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
726683 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
726720 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:726700 original size:93 final size:93
Alignment explanation
Indices: 726541--726711 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
726531 GGATGGTTGA
* * * *
726541 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
726606 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
726634 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
726699 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
726712 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:732806 original size:50 final size:50
Alignment explanation
Indices: 732747--732849 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
732737 TTAGACTCCT
*
732747 TAATGAGTCTCGTTTCAAATGAAATCAAATACAACACATTTTGAATTCTG
1 TAATGAGTCTAGTTTCAAATGAAATCAAATACAACACATTTTGAATTCTG
*
732797 TAATGAGTCTAGTTTCAAATTAAATCAAATACAACACATTTTGAATTCTG
1 TAATGAGTCTAGTTTCAAATGAAATCAAATACAACACATTTTGAATTCTG
732847 TAA
1 TAA
732850 AATGAGAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (50 bp):
TAATGAGTCTAGTTTCAAATGAAATCAAATACAACACATTTTGAATTCTG
Found at i:733271 original size:49 final size:49
Alignment explanation
Indices: 733211--733999 Score: 1079
Period size: 49 Copynumber: 16.3 Consensus size: 49
733201 CAAGACAGTG
*
733211 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733260 TATATATGTGATAAGGGCTAATGGCCGATGTGATGAACGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733309 TATATATGTGATAAGGGCTAATGGCCGATGTGATGAACGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733358 TATATATGTGATAAGGGCTAATGGCCGATGTGATGAACGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733407 TATATATGTGATAAGGGCTAATGGCCGATGTGATGAACGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733456 TATATATGTGATAAGGGCTAATGGCCGATGTGATGAACGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
733505 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733554 TATATGTGATAAGGCCTAATGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATG-T---G-ATAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733607 TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733654 TATATATGTGATAAGGCCTAATGGCCGATGGGATGAATGTGAAACTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733701 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* ** *
733750 TATATATGTGATAAGGCCTAATAGCCCTTGTGATGAATGTGATAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733797 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG-G-G
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
733844 TATATATGTGATAAGGCCTAATGGCCGATGGGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
733891 TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * *
733938 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
733987 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
734000 TCCCGAAGGG
Statistics
Matches: 684, Mismatches: 44, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 293 0.43
48 5 0.01
49 339 0.50
50 1 0.00
52 1 0.00
53 9 0.01
54 3 0.00
55 32 0.05
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:733627 original size:47 final size:47
Alignment explanation
Indices: 733574--733999 Score: 618
Period size: 47 Copynumber: 9.0 Consensus size: 47
733564 AAGGCCTAAT
*
733574 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
733621 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
733668 GGCCTAATGGCCGATGGGATGAATGTGAAACTGTATATGTGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
733715 GGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
* ** *
733764 GGCCTAATAGCCCTTGTGATGAATGTGATAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
733811 GGCCTAATAGCCGATGTGATGAATGTGAAAGGGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
733858 GGCCTAATGGCCGATGGGATGAATGTGAAAGTGTATATGTGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
733905 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * * *
733952 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
733999 G
1 G
734000 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
47 298 0.88
49 41 0.12
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:734174 original size:37 final size:37
Alignment explanation
Indices: 734118--734196 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
734108 CCGAGCTCTA
* * *
734118 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGAGT
*
734155 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
734192 AAGAC
1 AAGAC
734197 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:745010 original size:15 final size:15
Alignment explanation
Indices: 744990--745020 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
744980 TAAACGAGCA
*
744990 GATAAGAGGGAGTCT
1 GATAAGAGGGAATCT
745005 GATAAGAGGGAATCT
1 GATAAGAGGGAATCT
745020 G
1 G
745021 CTTTTACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.39, T:0.19
Consensus pattern (15 bp):
GATAAGAGGGAATCT
Found at i:745048 original size:67 final size:67
Alignment explanation
Indices: 744940--745072 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 67
744930 GGATAAAAGC
*
744940 TAAGAGGGAATCTGCTTTTACAAAATGAAAGACATAAAGCTAAACGAGCAGATAAGAGGGAGTCT
1 TAAGAGGGAATCTGCTTTTACAAAATGAAAGACATAAAGCTAAACGAGCAGATAAGAGGGAATCT
745005 GA
66 GA
* *
745007 TAAGAGGGAATCTGCTTTTACAAATTGAAAGACATAAAGCTAAACGAGTAGATAAGAGGGAATCT
1 TAAGAGGGAATCTGCTTTTACAAAATGAAAGACATAAAGCTAAACGAGCAGATAAGAGGGAATCT
745072 G
66 G
745073 CTTTTATAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (67 bp):
TAAGAGGGAATCTGCTTTTACAAAATGAAAGACATAAAGCTAAACGAGCAGATAAGAGGGAATCT
GA
Found at i:745761 original size:16 final size:16
Alignment explanation
Indices: 745740--745770 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
745730 GAACCACTTG
745740 AAAAAGGTAACAAGGT
1 AAAAAGGTAACAAGGT
745756 AAAAAGGTAACAAGG
1 AAAAAGGTAACAAGG
745771 ATAGAACCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.26, T:0.10
Consensus pattern (16 bp):
AAAAAGGTAACAAGGT
Found at i:755667 original size:52 final size:52
Alignment explanation
Indices: 755586--755738 Score: 279
Period size: 52 Copynumber: 2.9 Consensus size: 52
755576 TAAATAATTA
*
755586 TCTTTCACTTTGTAAAAGTAGATTCCCTCTTATCTGCTCGTTTAGCTTTATG
1 TCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTTATG
* *
755638 TCTTTCAATTTGTAAAAGCAGATTTCCTCTTATCTGCTCGTTTAGCTTTATG
1 TCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTTATG
755690 TCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTT
1 TCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTT
755739 TATCCCCTAT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 96 1.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.46
Consensus pattern (52 bp):
TCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCTTTATG
Found at i:757959 original size:32 final size:32
Alignment explanation
Indices: 757916--758005 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 32
757906 AATAGTATTT
* *
757916 TATT-AATTTAATATTAAATTGATTATCTTAA
1 TATTAAATTTAATATTAAATTGATTAACATAA
* * * *
757947 TATTAAATTTAAT-CTAATATTTATCAAGATAA
1 TATTAAATTTAATATTAA-ATTGATTAACATAA
* *
757979 GATTAAATTTAATATTAAAGTGATTAA
1 TATTAAATTTAATATTAAATTGATTAA
758006 GTTTAATCAT
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
31 7 0.16
32 35 0.78
33 3 0.07
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (32 bp):
TATTAAATTTAATATTAAATTGATTAACATAA
Found at i:760612 original size:101 final size:102
Alignment explanation
Indices: 760431--760770 Score: 409
Period size: 101 Copynumber: 3.4 Consensus size: 102
760421 CTTTTATCAT
* * * * * * * * *
760431 TCGATACACGTAGTAGCCTTCACATAGTACTACATACATGATC-AAGTTTTACAGTTCACGTAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTCCAGTACACATAGT
* * * ***
760495 AGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
760532 -CGGTTCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTCCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTCCAGTACACATAGT
760596 AGCCTTCACTTAGTACTA-ACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * ** *
760632 TCAATTTACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGC-TTCTCAGTATTCATTG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTC-CAGTACACATAG
760696 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* *
760734 TCGATTCACATAGTAGCCTTCACACACTACTACACAC
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACAC
760771 ATGTTCATCG
Statistics
Matches: 205, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
100 52 0.25
101 102 0.50
102 51 0.25
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTCCAGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:760750 original size:51 final size:50
Alignment explanation
Indices: 760431--760769 Score: 269
Period size: 50 Copynumber: 6.7 Consensus size: 50
760421 CTTTTATCAT
* * * ** * *
760431 TCGATACACGTAGTAGCCTTCACATAGTACTACATACATGATCAAGTTT-
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACATGTGACCAAATTTA
* * * *
760480 TAC-AGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTT-
1 T-CGA-TTCACATAGTAGCCTTCACATAGTACTACACATGTGACCAAATTTA
* *
760530 TACGGTTCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTT-
1 T-CGATTCACATAGTAGCCTTCACATAGTACTACACATGTGACCAAA--TTTA
* * * * *
760582 CCGGTACACATAGTAGCCTTCACTTAGTACTA-ACATGTGACCATCATTTA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACATGTGACCA-AATTTA
* * * * * * *
760632 TCAATTTACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTC
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACATGTGACCAAA-TTTA
* * *
760683 TCAGTATT--CATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
1 TC-G-ATTCACATAGTAGCCTTCACATAGTACTACACATGTGACCA-AATTTA
* *
760734 TCGATTCACATAGTAGCCTTCACACACTACTACACA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACA
760770 CATGTTCATC
Statistics
Matches: 239, Mismatches: 37, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
49 8 0.03
50 122 0.51
51 102 0.43
52 4 0.02
53 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (50 bp):
TCGATTCACATAGTAGCCTTCACATAGTACTACACATGTGACCAAATTTA
Found at i:764753 original size:25 final size:26
Alignment explanation
Indices: 764684--764753 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
764674 TAGAAGCTTT
* *
764684 GAATCGGTATGCTTTCACGAGCTGTA
1 GAATCGGTAAGCTCTCACGAGCTGTA
* *
764710 -AATCAGTAAGCTCAT-ACGAGTTG-A
1 GAATCGGTAAGCTC-TCACGAGCTGTA
764734 GAATCGGTAAGCTCTCACGA
1 GAATCGGTAAGCTCTCACGA
764754 CCTACAATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.06
25 33 0.92
26 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (26 bp):
GAATCGGTAAGCTCTCACGAGCTGTA
Found at i:769917 original size:20 final size:20
Alignment explanation
Indices: 769894--769946 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
769884 ACCCTTTCAA
*
769894 ATTTTCTTA-TTTTTATTTGC
1 ATTTTCTTACTTTCTA-TTGC
769914 A-TTTCATTACTTTCTATTGC
1 ATTTTC-TTACTTTCTATTGC
*
769934 ATTTTCTTTCTTT
1 ATTTTCTTACTTT
769947 AACTTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 4 0.14
20 15 0.54
21 9 0.32
ACGTcount: A:0.15, C:0.15, G:0.04, T:0.66
Consensus pattern (20 bp):
ATTTTCTTACTTTCTATTGC
Found at i:782716 original size:138 final size:138
Alignment explanation
Indices: 782506--783062 Score: 804
Period size: 138 Copynumber: 4.1 Consensus size: 138
782496 GAGAACATAT
* * * *
782506 ATATAATGAATATATGAATTTGATTCTTAC-AAATATTAA-T-TATATATTTTATCAAATTTATG
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
* *
782568 AATAGAAACAATTATATTAATTAATTTCGGTCAAAATATAAATGACATGGAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAATGACATGGAAATTAATATTCTTT
782633 T-GATAAGA
131 TGGA-AAGA
* ** *
782641 ATATAATTAATATATAAATTTGATTCATTTAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
*
782706 AATATAAACAATTATATTAATTAATTTCGATCAAAATGTTAAAT-ACATGGAAATTAATATTCTT
66 AATATAAACAATTATATTAATTAATTTCGATCAAAAT-ATAAATGACATGGAAATTAATATTCTT
*
782770 TTGGGAAGA
130 TTGGAAAGA
* * *
782779 ATATACTTAATATATGATTTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
* * * * *
782844 AATATAAGCAGTTTTATTAATTAATTTTGATCAAAATATAAAAGACATGGAAATTAATATAT-TT
66 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAATGACATGGAAATTAATAT-TCTT
782908 TTGGAAAGA
130 TTGGAAAGA
* * * *
782917 ATACAATTAATATATGAATTTGATTCGTACAAAATATTAATTGTATATATTTTGCTAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
*
782982 AATATAAACAATTATATTAATTAATTTC-AGTCAAAATATAAATGACATGAAAATTAATATTCTT
66 AATATAAACAATTATATTAATTAATTTCGA-TCAAAATATAAATGACATGGAAATTAATATTCTT
783046 TTGGAAAGA
130 TTGGAAAGA
783055 ATATAATT
1 ATATAATT
783063 CATTTTTCTA
Statistics
Matches: 375, Mismatches: 38, Indels: 15
0.88 0.09 0.04
Matches are distributed among these distances:
135 25 0.07
136 9 0.02
137 7 0.02
138 327 0.87
139 7 0.02
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAATGACATGGAAATTAATATTCTTT
TGGAAAGA
Found at i:783160 original size:74 final size:74
Alignment explanation
Indices: 783038--783259 Score: 412
Period size: 74 Copynumber: 3.0 Consensus size: 74
783028 ATGAAAATTA
783038 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGA
1 ATATTCTTTTGGAAAGAA-ATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGA
783103 GAATAATCCT
65 GAATAATCCT
783113 ATATTCTTTTGGAAAGAAATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAG
1 ATATTCTTTTGGAAAGAAATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAG
783178 AATAATCCT
66 AATAATCCT
783187 ATATTCTTTTGGAAAGAAATAATTCATTTTTCTAACTTTCCATTTG-CATTCTCTATTAATAAG-
1 ATATTCTTTTGGAAAGAAATAATTCATTTTTCTAACTTTCCATTTGTC-TTCTCTATTAATAAGA
783250 GAATAATCCT
65 GAATAATCCT
783260 GGTTTTCCTT
Statistics
Matches: 146, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
73 11 0.08
74 117 0.80
75 18 0.12
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (74 bp):
ATATTCTTTTGGAAAGAAATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAG
AATAATCCT
Found at i:786527 original size:16 final size:18
Alignment explanation
Indices: 786499--786533 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
786489 GTAGGTTCAT
786499 CCAATTATTTAAC-ATAA
1 CCAATTATTTAACGATAA
786516 CCAATT-TTTAACGATAA
1 CCAATTATTTAACGATAA
786533 C
1 C
786534 GCATGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (18 bp):
CCAATTATTTAACGATAA
Found at i:801812 original size:45 final size:44
Alignment explanation
Indices: 801713--801843 Score: 160
Period size: 45 Copynumber: 3.0 Consensus size: 44
801703 CGTGTACCGG
* * *
801713 GTATCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCAG
1 GTATCATTGATTAT-AAGGTGGTTGCTATGTGCTGATTCCACCAA
801758 GTA-CTATTGATTATGAAGGTGGTTGCTATGTGCTGATTCCACCAA
1 GTATC-ATTGATTAT-AAGGTGGTTGCTATGTGCTGATTCCACCAA
* *
801803 GTATCATTGACTATAAGGGTGG-TGCTATGTGATGA-TCCACC
1 GTATCATTGATTATAA-GGTGGTTGCTATGTGCTGATTCCACC
801844 GTGTATCTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
43 6 0.08
44 15 0.19
45 55 0.71
46 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (44 bp):
GTATCATTGATTATAAGGTGGTTGCTATGTGCTGATTCCACCAA
Found at i:807186 original size:14 final size:15
Alignment explanation
Indices: 807162--807191 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
807152 TTGCACGATG
807162 TTTCTTTCTCCTCAT
1 TTTCTTTCTCCTCAT
807177 TTTC-TTCTCCTCAT
1 TTTCTTTCTCCTCAT
807191 T
1 T
807192 CTTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTCTTTCTCCTCAT
Found at i:807521 original size:18 final size:18
Alignment explanation
Indices: 807500--807545 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
807490 CTTTCTCATT
**
807500 TTCAGCAACTTCTTCTTC
1 TTCAGCAACAACTTCTTC
807518 TTCAGCAACAACTTCTTC
1 TTCAGCAACAACTTCTTC
*
807536 TTCTGCAACA
1 TTCAGCAACA
807546 GCAACTTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.33, G:0.07, T:0.37
Consensus pattern (18 bp):
TTCAGCAACAACTTCTTC
Found at i:807529 original size:21 final size:21
Alignment explanation
Indices: 807505--807567 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
807495 TCATTTTCAG
* *
807505 CAACTTCTTCTTCTTCAGCAA
1 CAACTTCTTCTTCTGCAACAA
*
807526 CAACTTCTTCTTCTGCAACAG
1 CAACTTCTTCTTCTGCAACAA
807547 CAACTTC--CTTCT-CAACAA
1 CAACTTCTTCTTCTGCAACAA
807565 CAA
1 CAA
807568 TGTTCTCTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.21
19 5 0.13
21 25 0.66
ACGTcount: A:0.29, C:0.35, G:0.05, T:0.32
Consensus pattern (21 bp):
CAACTTCTTCTTCTGCAACAA
Found at i:811498 original size:25 final size:25
Alignment explanation
Indices: 811470--811520 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
811460 TTGTATGGTG
*
811470 TATGTTTAATCATTTAGAGATTGAA
1 TATGTTTAATCATTTAAAGATTGAA
811495 TATGTTTAATCATTTAAAGATTGAA
1 TATGTTTAATCATTTAAAGATTGAA
811520 T
1 T
811521 TAGTAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (25 bp):
TATGTTTAATCATTTAAAGATTGAA
Found at i:814768 original size:40 final size:40
Alignment explanation
Indices: 814670--814932 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
814660 TCCTCGTTCA
* * * * *
814670 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
814709 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
814749 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
814789 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
814829 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
814869 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
814909 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
814933 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:822721 original size:40 final size:40
Alignment explanation
Indices: 822623--822885 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
822613 TCCTCGTTCA
* * * * *
822623 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
822662 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
822702 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
822742 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
822782 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
822822 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
822862 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
822886 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:829928 original size:14 final size:14
Alignment explanation
Indices: 829909--829942 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
829899 TTAAGAAATG
829909 TAATTAATCAAACA
1 TAATTAATCAAACA
829923 TAATTAATCAAACA
1 TAATTAATCAAACA
*
829937 CAATTA
1 TAATTA
829943 TGTCTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (14 bp):
TAATTAATCAAACA
Found at i:835482 original size:17 final size:18
Alignment explanation
Indices: 835449--835482 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
835439 ATTCTTTTGC
*
835449 TATTTCTTTTGTCACTCG
1 TATTTCTGTTGTCACTCG
835467 TATTTCTGTT-TCACTC
1 TATTTCTGTTGTCACTC
835483 TCGTCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.24, G:0.09, T:0.56
Consensus pattern (18 bp):
TATTTCTGTTGTCACTCG
Found at i:835515 original size:13 final size:14
Alignment explanation
Indices: 835489--835526 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
835479 ACTCTCGTCA
*
835489 TTCTTTTCTTTCTTT
1 TTCTTTT-TCTCTTT
835504 TT-TTTTTCTCTTT
1 TTCTTTTTCTCTTT
835517 TTCTTTTTCT
1 TTCTTTTTCT
835527 TGCTGATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTCTTTTTCTCTTT
Found at i:837065 original size:36 final size:36
Alignment explanation
Indices: 837025--837093 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
837015 TTTGGGGGTC
*
837025 TCTGACGCGTTGTCCTCCTTCGCCTAATTGTTCGTT
1 TCTGACGCGTTGTACTCCTTCGCCTAATTGTTCGTT
*
837061 TCTGACGCGTTGTACTTCTTCGCCTAATTGTTC
1 TCTGACGCGTTGTACTCCTTCGCCTAATTGTTC
837094 CAATTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.10, C:0.29, G:0.19, T:0.42
Consensus pattern (36 bp):
TCTGACGCGTTGTACTCCTTCGCCTAATTGTTCGTT
Found at i:837671 original size:8 final size:9
Alignment explanation
Indices: 837658--837693 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
837648 TAAATTTTGA
837658 ATTTTTTTT
1 ATTTTTTTT
837667 ATTTTTTTT
1 ATTTTTTTT
837676 ATTTTTTTCT
1 ATTTTTTT-T
*
837686 CTTTTTTT
1 ATTTTTTT
837694 ACAATATCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:837690 original size:18 final size:17
Alignment explanation
Indices: 837660--837694 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
837650 AATTTTGAAT
837660 TTTTTTTATTTTTTTTA
1 TTTTTTTATTTTTTTTA
*
837677 TTTTTTTCTCTTTTTTTA
1 TTTTTTTAT-TTTTTTTA
837695 CAATATCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTATTTTTTTTA
Found at i:849097 original size:3 final size:3
Alignment explanation
Indices: 849084--849155 Score: 69
Period size: 3 Copynumber: 24.0 Consensus size: 3
849074 GCATGTATAT
*
849084 ATA AGA ATA ATA ATA ATA ATA ATA ATA AT- ATA CGAT- ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA AT-A ATA
* *
849130 ATA ATA ATA ATA A-A CTA ATA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
849156 TAGACAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
2 5 0.09
3 47 0.82
4 3 0.05
5 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:850289 original size:34 final size:35
Alignment explanation
Indices: 850227--850295 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
850217 TCATAAATCT
850227 TGGGTTTTTAAGAGAAAAGAAGTGAAACTGAAGAG
1 TGGGTTTTTAAGAGAAAAGAAGTGAAACTGAAGAG
850262 TGGGTTTTTAAGAGAAAA-AAGTGAAACTGAAGAG
1 TGGGTTTTTAAGAGAAAAGAAGTGAAACTGAAGAG
850296 AGCGAGAGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 16 0.47
35 18 0.53
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.23
Consensus pattern (35 bp):
TGGGTTTTTAAGAGAAAAGAAGTGAAACTGAAGAG
Found at i:852369 original size:34 final size:34
Alignment explanation
Indices: 852326--852394 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
852316 CCATTTCAAA
852326 TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
1 TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
852360 TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
1 TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
852394 T
1 T
852395 TCCAGTCACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (34 bp):
TCATCTCCTGCTCAGTCTTATCACCAATGGCAAT
Found at i:858968 original size:1 final size:1
Alignment explanation
Indices: 858962--859032 Score: 70
Period size: 1 Copynumber: 71.0 Consensus size: 1
858952 CAGTGGAGGC
* * * * * * * *
858962 AAAAAAAAACAAAAAACAAAAAACAAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAACAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
859027 AAAAAA
1 AAAAAA
859033 CATCTACCGG
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.89, C:0.10, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:858990 original size:25 final size:24
Alignment explanation
Indices: 858962--859025 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 24
858952 CAGTGGAGGC
858962 AAAAAAAAACAAAAAACAAAAAACA
1 AAAAAAAAACAAAAAACAAAAAA-A
858987 AAAAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAC-AAAAAACAAAAAAA
*
859012 AAACAAAAACAAAA
1 AAAAAAAAACAAAA
859026 GAAAAAACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
24 4 0.11
25 20 0.54
26 13 0.35
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAAAAACAAAAAACAAAAAAA
Found at i:858993 original size:11 final size:11
Alignment explanation
Indices: 858962--859032 Score: 83
Period size: 11 Copynumber: 6.5 Consensus size: 11
858952 CAGTGGAGGC
858962 AAAAAAAAACA
1 AAAAAAAAACA
858973 AAAAACAAAA-A
1 AAAAA-AAAACA
858984 ACAAAAAAAA-A
1 A-AAAAAAAACA
*
858995 ACAAAAAAACA
1 AAAAAAAAACA
859006 AAAAAAAAACA
1 AAAAAAAAACA
* *
859017 AAAACAAAAGA
1 AAAAAAAAACA
859028 AAAAA
1 AAAAA
859033 CATCTACCGG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
10 7 0.13
11 37 0.71
12 8 0.15
ACGTcount: A:0.89, C:0.10, G:0.01, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:858993 original size:18 final size:18
Alignment explanation
Indices: 858961--859034 Score: 107
Period size: 19 Copynumber: 4.1 Consensus size: 18
858951 TCAGTGGAGG
*
858961 CAAAAAA-AAACAAAAAA
1 CAAAAAACAAAAAAAAAA
858978 CAAAAAACAAAAAAAAAA
1 CAAAAAACAAAAAAAAAA
858996 CAAAAAAACAAAAAAAAAA
1 C-AAAAAACAAAAAAAAAA
859015 C-AAAAACAAAAGAAAAAA
1 CAAAAAACAAAA-AAAAAA
859033 CA
1 CA
859035 TCTACCGGGG
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
17 17 0.33
18 17 0.33
19 18 0.35
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.00
Consensus pattern (18 bp):
CAAAAAACAAAAAAAAAA
Found at i:859509 original size:13 final size:13
Alignment explanation
Indices: 859467--859512 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
859457 AACTTCACTT
*
859467 GAAAAAAAAGAAAC
1 GAAAAAGAA-AAAC
859481 -AAAAAGAAAAAC
1 GAAAAAGAAAAAC
859493 GAAAAAGAAAAGA-
1 GAAAAAGAAAA-AC
859506 GAAAAAG
1 GAAAAAG
859513 GAGAGGCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 4 0.14
13 24 0.83
14 1 0.03
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAC
Found at i:862541 original size:107 final size:107
Alignment explanation
Indices: 862355--862576 Score: 399
Period size: 107 Copynumber: 2.1 Consensus size: 107
862345 CATTGTATTT
*
862355 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCT
1 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
* *
862420 AACGTGTTGGGTTTCGATTTCTCGTTCAACCAAATGGCCAAA
66 AACGTGCTGGGTTTCGATTTCTCGTTCAACCAAATAGCCAAA
862462 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
1 TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
* *
862527 AACGTGCTGGGTTTCGATTTCTCGTTCGACTAAATAGCCAAA
66 AACGTGCTGGGTTTCGATTTCTCGTTCAACCAAATAGCCAAA
862569 TATCCTTT
1 TATCCTTT
862577 TAAAACTTCA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 110 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (107 bp):
TATCCTTTCAATAATTTCAAAACGAGGCAATGTTTTGCGTTAGGAAATTCGAGAAAACGTGCCCT
AACGTGCTGGGTTTCGATTTCTCGTTCAACCAAATAGCCAAA
Found at i:868622 original size:18 final size:17
Alignment explanation
Indices: 868594--868628 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
868584 ATTTTTAAGA
*
868594 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
868611 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
868629 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:868882 original size:16 final size:16
Alignment explanation
Indices: 868861--868899 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
868851 TTGATTTGCT
*
868861 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
868877 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
868893 ATTACAC
1 ATTACAC
868900 CTCTAATCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:868900 original size:16 final size:16
Alignment explanation
Indices: 868874--868930 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
868864 ACACAGCTTT
* *
868874 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
868890 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
*
868906 TCTAATACACCTCTAA
1 TCCAATACACCTCTAA
868922 TCCAATACA
1 TCCAATACA
868931 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.32
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:873117 original size:13 final size:13
Alignment explanation
Indices: 873099--873148 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
873089 AAGTTATATA
*
873099 AAATAATTAAAAT
1 AAATAACTAAAAT
873112 AAATAACTAAAAT
1 AAATAACTAAAAT
873125 -AAT---TAAAAT
1 AAATAACTAAAAT
873134 AAATAACTAAAAT
1 AAATAACTAAAAT
873147 AA
1 AA
873149 TTAAAATAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 6 0.19
10 3 0.09
12 3 0.09
13 20 0.62
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAACTAAAAT
Found at i:873122 original size:22 final size:22
Alignment explanation
Indices: 873097--873166 Score: 124
Period size: 22 Copynumber: 3.2 Consensus size: 22
873087 CCAAGTTATA
873097 TAAAATAATTAAAATAAATAAC
1 TAAAATAATTAAAATAAATAAC
873119 TAAAATAATTAAAATAAATAAC
1 TAAAATAATTAAAATAAATAAC
873141 TAAAATAATTAAAATAGAATAA-
1 TAAAATAATTAAAATA-AATAAC
873163 TAAA
1 TAAA
873167 TCTACGATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 42 0.89
23 5 0.11
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (22 bp):
TAAAATAATTAAAATAAATAAC
Found at i:873645 original size:8 final size:8
Alignment explanation
Indices: 873632--873663 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
873622 AAAAATTTGG
873632 AATAATAA
1 AATAATAA
873640 AATAATAA
1 AATAATAA
873648 AATAATAA
1 AATAATAA
873656 AATAATAA
1 AATAATAA
873664 GAGCTGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAATAA
Found at i:881424 original size:43 final size:43
Alignment explanation
Indices: 881376--881573 Score: 212
Period size: 43 Copynumber: 4.7 Consensus size: 43
881366 ATTTTATGTG
881376 AAAGGGGTTGCTAAGTGTTGATTCCACCGTAT-ATTTGATTGT
1 AAAGGGGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
* * * *
881418 AAAAGGGGTTGCTATGTGTTGATTCC-CCGTATCA-CTGAATAT
1 -AAAGGGGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
*
881460 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATC-TTTGATTGT
1 AAAGG-GGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
* * * **
881503 GAAAGGGGTTGCTATGTGCTGATTCC-CCGTATCACTAAATT-T
1 -AAAGGGGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
*
881545 -AAGGTGGTTGCTAAGTGTTGAATCCACCG
1 AAAGG-GGTTGCTAAGTGTTGATTCCACCG
881574 AGTAATGGAT
Statistics
Matches: 131, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
40 4 0.03
41 22 0.17
42 40 0.31
43 60 0.46
44 5 0.04
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
AAAGGGGTTGCTAAGTGTTGATTCCACCGTATCATTTGATTGT
Found at i:881526 original size:85 final size:84
Alignment explanation
Indices: 881376--881573 Score: 317
Period size: 85 Copynumber: 2.4 Consensus size: 84
881366 ATTTTATGTG
*
881376 AAAGG-GGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGTTGA
1 AAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGCTGA
*
881440 TTCCCCGTATCACTGAATAT
66 TTCCCCGTATCACTAAAT-T
* * *
881460 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 AAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGCTGA
881525 TTCCCCGTATCACTAAATT
66 TTCCCCGTATCACTAAATT
* *
881544 TAAGGTGGTTGCTAAGTGTTGAATCCACCG
1 AAAGGTGGTTGCTAAGTGTTGATTCCACCG
881574 AGTAATGGAT
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 33 0.31
85 72 0.69
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (84 bp):
AAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGCTGA
TTCCCCGTATCACTAAATT
Found at i:898843 original size:21 final size:21
Alignment explanation
Indices: 898816--898875 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
898806 TCGGGTGGAC
*
898816 CAGCTCTTTAGAGCTTTTGTT
1 CAGCTCTTTAGAGCTTCTGTT
* * *
898837 TAGCTCTTTTGTGCTTCTGTT
1 CAGCTCTTTAGAGCTTCTGTT
898858 CAGCTC-TTATGAGCTTCT
1 CAGCTCTTTA-GAGCTTCT
898876 ATTGGCGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.48
Consensus pattern (21 bp):
CAGCTCTTTAGAGCTTCTGTT
Found at i:902314 original size:41 final size:41
Alignment explanation
Indices: 902263--902365 Score: 179
Period size: 41 Copynumber: 2.5 Consensus size: 41
902253 AAAACAGATT
*
902263 CACCGGCATTTAGCCTACTAGGCTTAAAGCCTGATTCAGTA
1 CACCGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTCAGTA
* *
902304 CACCGACATTTAGCCTGCTAGGCTTAAAGCCTGATTTAGTA
1 CACCGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTCAGTA
902345 CACCGGCATTTAGCCTGCTAG
1 CACCGGCATTTAGCCTGCTAG
902366 ACATTTAGTC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (41 bp):
CACCGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTCAGTA
Found at i:902458 original size:41 final size:41
Alignment explanation
Indices: 902261--902470 Score: 156
Period size: 41 Copynumber: 5.1 Consensus size: 41
902251 AAAAAACAGA
* * * * * *
902261 TTCACCGGCATTTAGCCTACTAGGCTTAAAGCCTG-ATTCAG
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT-AC
* * * * * * * *
902302 TACACCGACATTTAGCCTGCTAGGCTTAAAGCCTGATTTAG
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
* * ** *
902343 TACACCGGCATTTAGCCTGCTAGACATTTAGTCCGAAATGTA-
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTG-AAT-TAC
* *
902385 -TCACCGGCATTAAGCATGCTAGACGTAAAGTCTGAATTAC
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
* *
902425 TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGTATTAC
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
902466 ATTCA
1 -TTCA
902471 ACCACCTTAT
Statistics
Matches: 140, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
39 2 0.01
40 3 0.02
41 125 0.89
42 8 0.06
43 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
Found at i:904176 original size:13 final size:13
Alignment explanation
Indices: 904158--904183 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
904148 CAATCAAATG
904158 CACACAAAATAAT
1 CACACAAAATAAT
904171 CACACAAAATAAT
1 CACACAAAATAAT
904184 ATTAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
CACACAAAATAAT
Found at i:913333 original size:49 final size:49
Alignment explanation
Indices: 913228--913356 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
913218 CTTCGGGACT
* * * *
913228 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
913275 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
913324 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
913357 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:924248 original size:13 final size:13
Alignment explanation
Indices: 924232--924261 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
924222 TTTTTATCTT
*
924232 TTAATTTTCTTAG
1 TTAATTTACTTAG
924245 TTAATTTACTTAG
1 TTAATTTACTTAG
924258 TTAA
1 TTAA
924262 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:932248 original size:41 final size:39
Alignment explanation
Indices: 932191--932427 Score: 190
Period size: 41 Copynumber: 5.8 Consensus size: 39
932181 ATCACTCGTT
932191 GGAATCAGCACTTAGCAACCACCTTATATTCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTT-TATTCAATGATACGG
* *
932232 GGAATCAGCACATAGCAACCCCTTTCACTATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTT-A-T-TCAATGATACGG
* * * *
932274 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAG
1 -GGAATCAGCACTTAGCAACC-CCTTT--ATTCAATGATACGG
* * *
932317 GGAATCAACATTTAGCAACCCCTTT-TTCATCAGTGATTCGG
1 GGAATCAGCACTTAGCAACCCCTTTATTCA--A-TGATACGG
* * * * * *
932358 GGAATCTGCACTTAGCAACCTCTTTTTTATCAGTAATTCGG
1 GGAATCAGCACTTAGCAACC-CCTTTAT-TCAATGATACGG
*
932399 GGAATCTGCACTTAGCAACCCCTTT-TTCA
1 GGAATCAGCACTTAGCAACCCCTTTATTCA
932428 TCAAATGAAT
Statistics
Matches: 163, Mismatches: 21, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
38 6 0.04
39 2 0.01
40 10 0.06
41 75 0.46
42 33 0.20
43 28 0.17
44 8 0.05
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (39 bp):
GGAATCAGCACTTAGCAACCCCTTTATTCAATGATACGG
Found at i:932415 original size:82 final size:83
Alignment explanation
Indices: 932190--932430 Score: 272
Period size: 82 Copynumber: 2.9 Consensus size: 83
932180 AATCACTCGT
* * * * *
932190 TGGAATCAGCACTTAGCAACCACC-TTATATTCAATGATACGGGGAATCAGCACATAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
**
932254 TTTCACTATCAAGGATACGG
66 TTTTTC-ATC-AGGATACGG
* * *
932274 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAGGGAATCAACATTTAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
*
932339 TTTTTCATCAGTGATTCGG
66 TTTTTCATCAG-GATACGG
* * *** * *
932358 -GGAATCTGCACTTAGCAACC-TCTTTTTTATCAGTAATTCGGGGAATCTGCACTTAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
932421 TTTTTCATCA
66 TTTTTCATCA
932431 AATGAATCCC
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
82 44 0.33
83 21 0.16
84 33 0.25
85 36 0.27
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (83 bp):
TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
TTTTTCATCAGGATACGG
Found at i:938794 original size:49 final size:49
Alignment explanation
Indices: 938616--938795 Score: 165
Period size: 50 Copynumber: 3.7 Consensus size: 49
938606 GAGAGGTCCT
* * *
938616 ATGTAAGACCATGTCT--GACATGGCATTGGCACTA-AGATGAGAGATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCAGTATA-A-GAAACATCCC
** * *
938664 CCGTAAAACCATGTCTGGGACATGGCA-TGTGCACCG-ATATGAGAAC-TCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTG-GCA--GTATAAGA-AACATCCC
* * *
938714 ATGTAAGACCATATCTGGGATATGACATTGGCAGTATAAGAAACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCAGTATAAGAAACATCCC
*
938763 ATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
938796 TGTTATTATC
Statistics
Matches: 104, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
48 17 0.16
49 40 0.38
50 42 0.40
51 4 0.04
52 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (49 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCAGTATAAGAAACATCCC
Found at i:951913 original size:31 final size:32
Alignment explanation
Indices: 951877--951941 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
951867 CTTAGATAAT
951877 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
951908 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
951940 TT
1 TT
951942 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:960929 original size:36 final size:36
Alignment explanation
Indices: 960889--960958 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
960879 GATAATAACA
*
960889 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAC
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAC
* * *
960925 TGCCAATGTCATATCCCAGATATGGTCTTACATG
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATG
960959 GGAGTTCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (36 bp):
TGCCAAAGCCATATCCCAGACATGGTCTTACATGAC
Found at i:961000 original size:50 final size:50
Alignment explanation
Indices: 960938--961070 Score: 160
Period size: 50 Copynumber: 2.7 Consensus size: 50
960928 CAATGTCATA
* * * * *
960938 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGCTCTCATATCAGTGCCAACGCCATG
* * *
960988 TCCCAGACATGGTCTTAC-GGGGGGCCTCTCATCTCAGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGAG-CTCTCATATCAGTGCCAACGCCATG
* *
961038 TCCCAAACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTTACATGGGAGCTCTCATA
961071 ATCTCAATGA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 4 0.06
50 61 0.90
51 3 0.04
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGAGCTCTCATATCAGTGCCAACGCCATG
Found at i:962486 original size:35 final size:35
Alignment explanation
Indices: 962436--962504 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
962426 AAACCATTGC
* *
962436 TCCGATTAGGGCCAAAATCGGGATGTTACAAGTGT
1 TCCGACTAGGCCCAAAATCGGGATGTTACAAGTGT
962471 TCCGACTAGGCCCAAAATCGGGATGTTACAAGTG
1 TCCGACTAGGCCCAAAATCGGGATGTTACAAGTG
962505 CGTAGTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (35 bp):
TCCGACTAGGCCCAAAATCGGGATGTTACAAGTGT
Found at i:964821 original size:35 final size:35
Alignment explanation
Indices: 964771--964839 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
964761 AAACCATTGC
* *
964771 TCCGATTAGGGCCAAAATCGGGATGTTACAAGTGT
1 TCCGACTAGGCCCAAAATCGGGATGTTACAAGTGT
964806 TCCGACTAGGCCCAAAATCGGGATGTTACAAGTG
1 TCCGACTAGGCCCAAAATCGGGATGTTACAAGTG
964840 CGTAGTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (35 bp):
TCCGACTAGGCCCAAAATCGGGATGTTACAAGTGT
Found at i:968963 original size:17 final size:17
Alignment explanation
Indices: 968941--968976 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
968931 TCTTTACATG
*
968941 ATAAATAGCACAATAAC
1 ATAAATAGCAAAATAAC
*
968958 ATAAATATCAAAATAAC
1 ATAAATAGCAAAATAAC
968975 AT
1 AT
968977 TAAAACGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.22
Consensus pattern (17 bp):
ATAAATAGCAAAATAAC
Found at i:969613 original size:28 final size:28
Alignment explanation
Indices: 969573--969629 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
969563 CCATGCAAGC
*
969573 AAAAATGGCTTGACCGAAACCTAGCTAT
1 AAAAATGGCTTGACCAAAACCTAGCTAT
*
969601 AAAAATGGCTTGACCAAAACCTAGTTAT
1 AAAAATGGCTTGACCAAAACCTAGCTAT
969629 A
1 A
969630 CTCCTTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (28 bp):
AAAAATGGCTTGACCAAAACCTAGCTAT
Found at i:970812 original size:13 final size:14
Alignment explanation
Indices: 970794--970834 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
970784 TTAGGGTTTG
970794 TAAAATAATA-AAA
1 TAAAATAATATAAA
*
970807 TAAAATAACATAAA
1 TAAAATAATATAAA
*
970821 -AAAATAATTTAAA
1 TAAAATAATATAAA
970834 T
1 T
970835 TGCAAAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAAATAATATAAA
Found at i:972105 original size:11 final size:11
Alignment explanation
Indices: 972089--972117 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
972079 TAACCTTGAG
972089 CAAGTATGGTA
1 CAAGTATGGTA
972100 CAAGTATGGTA
1 CAAGTATGGTA
972111 CAAGTAT
1 CAAGTAT
972118 TGATTTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (11 bp):
CAAGTATGGTA
Found at i:978156 original size:13 final size:13
Alignment explanation
Indices: 978138--978166 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
978128 ATCTTGATTA
978138 AAATCGTATTTTG
1 AAATCGTATTTTG
978151 AAATCGTATTTTG
1 AAATCGTATTTTG
978164 AAA
1 AAA
978167 CGAGGATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (13 bp):
AAATCGTATTTTG
Found at i:981318 original size:35 final size:35
Alignment explanation
Indices: 981243--981404 Score: 155
Period size: 35 Copynumber: 4.6 Consensus size: 35
981233 GCACATCGAC
* * * * *
981243 AATCCAACCAAAATACACCAGATGCTCACAAGAGCC
1 AATCCATCCGAAACACACCA-ATGCTCATAAGAGCT
* *
981279 AATCCATCCAAAACACACCAATGCTCATAAGAACT
1 AATCCATCCGAAACACACCAATGCTCATAAGAGCT
* * *
981314 AATCCCTTCGAAACACATCAATGCTCATAAGAGCT
1 AATCCATCCGAAACACACCAATGCTCATAAGAGCT
* * * * *
981349 AATCCCTCTGAAATACAACAATGCTCATGAGAGCT
1 AATCCATCCGAAACACACCAATGCTCATAAGAGCT
*
981384 AGTCCAAT-CGAAACACACCAA
1 AATCC-ATCCGAAACACACCAA
981405 AACAAAAAGT
Statistics
Matches: 105, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
35 86 0.82
36 19 0.18
ACGTcount: A:0.42, C:0.30, G:0.10, T:0.17
Consensus pattern (35 bp):
AATCCATCCGAAACACACCAATGCTCATAAGAGCT
Found at i:988003 original size:26 final size:26
Alignment explanation
Indices: 987967--988017 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
987957 CTAAAATGAA
*
987967 CCTTAAACAACAAGTTTGTTC-TAGAG
1 CCTTAAACAAC-ACTTTGTTCATAGAG
987993 CCTTAAACAACACTTTGTTCATAGA
1 CCTTAAACAACACTTTGTTCATAGA
988018 TTGGCCTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (26 bp):
CCTTAAACAACACTTTGTTCATAGAG
Found at i:996997 original size:51 final size:49
Alignment explanation
Indices: 996870--997043 Score: 177
Period size: 51 Copynumber: 3.4 Consensus size: 49
996860 GAAAGTGATA
* * ** * *
996870 GTCACGTGTGTAGTACTATATGCAGGCTACTATGTGTACCAAAAAGATAG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-TTG
* * *
996920 GTCGCATGTGTAGTATTATGTGCAGGCTACTATGCGTACCGGATAGCTTCG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-TT-G
* * * * *
996971 ATCACGTGTGTAGTACTATGTACAGGCTACTACGTGTATCGGATAGTGATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT--TG
997022 GTCACATGTGTAGTACTATGTG
1 GTCACATGTGTAGTACTATGTG
997044 AACCCGTATC
Statistics
Matches: 100, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
50 40 0.40
51 59 0.59
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTTG
Found at i:997095 original size:41 final size:41
Alignment explanation
Indices: 997046--997296 Score: 236
Period size: 41 Copynumber: 6.0 Consensus size: 41
997036 ACTATGTGAA
997046 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
* *
997087 CCCATATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
* * * * *
997128 TACCGTATCCTTGATTGTGAA-AGGGGTTGCTATGTGCTGATTC
1 -CCCGTATCATTGATTAT-AAGA-TGGTTGCTAAGTGCTGATTC
** * * * *
997171 CCTATATCATTAATTATAAGGTGGGTGTTAAGTGCTGATTC
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
* * * * * *
997212 CACCGTATCATTTATTGTGAA-AGGTGTTGCTATGTGTTCATTC
1 C-CCGTATCATTGATTAT-AAGATG-GTTGCTAAGTGCTGATTC
* * *
997255 CCCGTATCATTGATTATAAGGTGGTTGCTACGTGTTGATTC
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
997296 C
1 C
997297 ACCGGGATCC
Statistics
Matches: 165, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
41 77 0.47
42 52 0.32
43 36 0.22
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (41 bp):
CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
Found at i:997187 original size:84 final size:84
Alignment explanation
Indices: 997047--997300 Score: 341
Period size: 84 Copynumber: 3.0 Consensus size: 84
997037 CTATGTGAAC
* * *
997047 CCGTATCATTGATTAT--AAGATGGTTGCTAAGTGCTGATTCCCCATATCATTGATTATAAGGTG
1 CCGTATCATTGATTGTGAAAG-GGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTG
*
997110 GTTGCTAAGTGCTGATTCTA
65 GTTGCTAAGTGCTGATTCCA
* * *
997130 CCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCTATATCATTAATTATAAGGTGG
1 CCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTGG
* *
997195 GTGTTAAGTGCTGATTCCA
66 TTGCTAAGTGCTGATTCCA
* * * * *
997214 CCGTATCATTTATTGTGAAAGGTGTTGCTATGTGTTCATTCCCCGTATCATTGATTATAAGGTGG
1 CCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTGG
* *
997279 TTGCTACGTGTTGATTCCA
66 TTGCTAAGTGCTGATTCCA
997298 CCG
1 CCG
997301 GGATCCTTTG
Statistics
Matches: 148, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
83 14 0.09
84 131 0.89
85 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (84 bp):
CCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTGG
TTGCTAAGTGCTGATTCCA
Found at i:999437 original size:80 final size:79
Alignment explanation
Indices: 999353--999524 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
999343 GGACTAAGAT
*
999353 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
999417 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
999433 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
999498 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
999512 CCGAAGGCATTTG
1 CCGAAGGCATTTG
999525 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:999504 original size:39 final size:39
Alignment explanation
Indices: 999300--999522 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
999290 TTGAATGCTG
* * * * *
999300 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
999340 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
999379 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
999420 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
999460 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
999499 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
999523 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:999542 original size:79 final size:80
Alignment explanation
Indices: 999380--999557 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
999370 AGATACAAAT
* * * *
999380 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
999445 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
999460 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
999524 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
999539 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
999558 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:1005997 original size:101 final size:102
Alignment explanation
Indices: 1005882--1006066 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
1005872 AAATTGATGG
* *
1005882 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAA--GATAGGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGAT-GGTCACATGTGTAGT
*
1005945 ATTATGTGAAGGCTACTATGCGTATCGGATAGCTTTGA
65 ACTATGTGAAGGCTACTATGCGTATCGGATAGCTTTGA
* * * * *
1005983 TCACGTGTGTAGTACTATTTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
*
1006048 CTATGTGTAGGCTACTATG
66 CTATGTGAAGGCTACTATG
1006067 TGAACCCGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 38 0.52
102 32 0.44
103 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
CTATGTGAAGGCTACTATGCGTATCGGATAGCTTTGA
Found at i:1006009 original size:51 final size:50
Alignment explanation
Indices: 1005879--1006068 Score: 227
Period size: 51 Copynumber: 3.8 Consensus size: 50
1005869 GTGAAATTGA
* * * *
1005879 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAAGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTT
* * * * *
1005929 AGGTCGCATGTGTAGTATTATGTGAAGGCTACTATGCGTATCGGATAGCTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAG-TT
* * * * *
1005980 TGATCACGTGTGTAGTACTATTTGCAGGCTACTACGTGTATCGGATAGTGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGT-T
*
1006031 TGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTG
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1006069 AACCCGTATC
Statistics
Matches: 114, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 41 0.36
51 73 0.64
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTT
Found at i:1006212 original size:70 final size:75
Alignment explanation
Indices: 1006103--1006337 Score: 273
Period size: 70 Copynumber: 3.1 Consensus size: 75
1006093 GGTTGCTAAG
* * *
1006103 TGCTGATTCCACCGTATCCTTTATTGTGAAAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGA
1 TGCTGATTCCA-C-TATCCGTAATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGA
1006168 TTATAAGGTGGT
64 TTATAAGGTGGT
*
1006180 TG-TGATT-C-C-A-CCGTAATTGTGAAAGGGGTTGCTGTGTGCTGATTCCCCGTATCATTGATT
1 TGCTGATTCCACTATCCGTAATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATT
1006240 ATAAGGTGGTTGCT
66 ATAAGGT-G--G-T
* * *
1006254 AAGTGCTGATTCCACTATATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAAT
1 ---TGCTGATTCCAC--TATCCGTAATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCAT
1006319 TGATTATAAGGTGGT
61 TGATTATAAGGTGGT
1006334 TGCT
1 TGCT
1006338 AAGTGCTAAT
Statistics
Matches: 136, Mismatches: 8, Indels: 28
0.79 0.05 0.16
Matches are distributed among these distances:
70 53 0.39
71 2 0.01
73 2 0.01
74 1 0.01
75 1 0.01
76 5 0.04
77 8 0.06
78 5 0.04
79 1 0.01
80 2 0.01
81 1 0.01
83 2 0.01
84 53 0.39
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.37
Consensus pattern (75 bp):
TGCTGATTCCACTATCCGTAATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATT
ATAAGGTGGT
Found at i:1006253 original size:41 final size:40
Alignment explanation
Indices: 1006202--1006350 Score: 172
Period size: 41 Copynumber: 3.6 Consensus size: 40
1006192 GTAATTGTGA
*
1006202 AAGGGGTTGCTGTGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
* ** * *
1006242 AAGGTGGTTGCTAAGTGCTGATTCCACTATATCCTTGATTGT
1 AAGG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGATTAT
*
1006284 GAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTAT
1 --AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
* *
1006326 AAGGTGGTTGCTAAGTGCTAATTCC
1 AAGG-GGTTGCTATGTGCTGATTCC
1006351 ACCGGGATCC
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
40 8 0.09
41 36 0.40
42 23 0.26
43 19 0.21
44 4 0.04
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (40 bp):
AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
Found at i:1006336 original size:84 final size:84
Alignment explanation
Indices: 1006195--1006352 Score: 289
Period size: 84 Copynumber: 1.9 Consensus size: 84
1006185 TTCCACCGTA
* *
1006195 ATTGTGAAAGGGGTTGCTGTGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGC
1 ATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTATAAGGTGGTTGCTAAGTGC
*
1006260 TGATTCCACTATATCCTTG
66 TAATTCCACTATATCCTTG
1006279 ATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTATAAGGTGGTTGCTAAGTGC
1 ATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTATAAGGTGGTTGCTAAGTGC
1006344 TAATTCCAC
66 TAATTCCAC
1006353 CGGGATCCTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 71 1.00
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (84 bp):
ATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTATAAGGTGGTTGCTAAGTGC
TAATTCCACTATATCCTTG
Found at i:1007406 original size:51 final size:51
Alignment explanation
Indices: 1007337--1007563 Score: 151
Period size: 51 Copynumber: 4.5 Consensus size: 51
1007327 TGTGGCACGG
* * *
1007337 ACTATGTGTAGGCCACTATGTGAAAGTGAGAGCGAT-GGTCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAG-GAGAGCGATAGGTCACATGTGTAGT
* ** ** *
1007388 ACTATGTGCAGGCTACTATGTG-TACCAGAAAGATAGGTCGCATGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAGGAGAGCGATAGGTCACATGTGTAGT
* * * * * * * *
1007438 ATTATGTGCAGGCTACTATGCGTACCA-GATAGC-TTCGATCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTG-A-AAGGAGAGCGATAGGTCACATGTGTAGT
* ** * **
1007489 ACTATGTGCAAGCTACTACATGT-ATCGGATAGTTAT-GGTCACATGTGTAGT
1 ACTATGTGCAGGCTACT--ATGTGAAAGGAGAGCGATAGGTCACATGTGTAGT
*
1007540 ACTATGTGTAGGCTACTATGTGAA
1 ACTATGTGCAGGCTACTATGTGAA
1007564 CCCGTATCAT
Statistics
Matches: 134, Mismatches: 33, Indels: 19
0.72 0.18 0.10
Matches are distributed among these distances:
49 10 0.07
50 35 0.26
51 82 0.61
52 3 0.02
53 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (51 bp):
ACTATGTGCAGGCTACTATGTGAAAGGAGAGCGATAGGTCACATGTGTAGT
Found at i:1007446 original size:50 final size:50
Alignment explanation
Indices: 1007373--1007561 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 50
1007363 TGAGAGCGAT
* * *
1007373 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAAGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTTA
* * * *
1007423 GGTCGCATGTGTAGTATTATGTGCAGGCTACTATGCGTACCAGATAGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAG-TTA
* * * ** * *
1007474 GATCACGTGTGTAGTACTATGTGCAAGCTACTACATGTATCGGATAGTTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTTA
*
1007524 TGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTG
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1007562 AACCCGTATC
Statistics
Matches: 113, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 44 0.39
51 69 0.61
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTTA
Found at i:1007725 original size:76 final size:77
Alignment explanation
Indices: 1007596--1007835 Score: 340
Period size: 76 Copynumber: 3.1 Consensus size: 77
1007586 GGTTGGTAAG
*
1007596 TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCCATGTGCTGATTCCCCGTATCATTGA
1 TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGA
1007661 TTATAAGGTGGT
66 TTATAAGGTGGT
* * *
1007673 TG-TGATTCCATCGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGATTCCCCGTATGATTGA
1 TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGA
1007737 TTATAAGGTGGTTACT
66 TTATAAGGTGG----T
* * *
1007753 AAGTGCTGATTCCACCATATCCTTGATTGCGAAAGGGGTTGCTAT-TGCTGATTCCCCATATCAT
1 ---TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCAT
1007817 TGATTATAAGGTGGT
63 TGATTATAAGGTGGT
1007832 TGCT
1 TGCT
1007836 AAGTGCTGAT
Statistics
Matches: 145, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
76 73 0.50
77 2 0.01
79 1 0.01
80 1 0.01
83 33 0.23
84 35 0.24
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (77 bp):
TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGA
TTATAAGGTGGT
Found at i:1007838 original size:83 final size:84
Alignment explanation
Indices: 1007675--1007851 Score: 284
Period size: 83 Copynumber: 2.1 Consensus size: 84
1007665 AAGGTGGTTG
* * * * *
1007675 TGATTCCATCGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGATTCCCCGTATGATTGATTA
1 TGATTCCACCATATCCTTGATTACGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTA
1007740 TAAGGTGGTTACTAAGTGC
66 TAAGGTGGTTACTAAGTGC
*
1007759 TGATTCCACCATATCCTTGATTGCGAAAGGGGTTGCTAT-TGCTGATTCCCCATATCATTGATTA
1 TGATTCCACCATATCCTTGATTACGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTA
*
1007823 TAAGGTGGTTGCTAAGTGC
66 TAAGGTGGTTACTAAGTGC
1007842 TGATTCCACC
1 TGATTCCACC
1007852 GGGATCCTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
83 51 0.59
84 35 0.41
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (84 bp):
TGATTCCACCATATCCTTGATTACGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTA
TAAGGTGGTTACTAAGTGC
Found at i:1007843 original size:41 final size:40
Alignment explanation
Indices: 1007686--1007848 Score: 177
Period size: 41 Copynumber: 3.9 Consensus size: 40
1007676 GATTCCATCG
* * *
1007686 TATCCTTGATTATGAAAGGGGTTGCTATGTGCTGATTCCCCG
1 TATCATTGATTAT--AAGGGGTTGCTAAGTGCTGATTCCCCA
* *
1007728 TATGATTGATTATAAGGTGGTTACTAAGTGCTGATTCCACCA
1 TATCATTGATTATAAGG-GGTTGCTAAGTGCTGATTCC-CCA
* *
1007770 TATCCTTGATTGCGA-AAGGGGTTGCT-ATTGCTGATTCCCCA
1 TATCATTGATT---ATAAGGGGTTGCTAAGTGCTGATTCCCCA
1007811 TATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC
1 TATCATTGATTATAAGG-GGTTGCTAAGTGCTGATTCC
1007849 ACCGGGATCC
Statistics
Matches: 102, Mismatches: 11, Indels: 17
0.78 0.08 0.13
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 11 0.11
41 42 0.41
42 33 0.32
43 6 0.06
44 4 0.04
45 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (40 bp):
TATCATTGATTATAAGGGGTTGCTAAGTGCTGATTCCCCA
Found at i:1013858 original size:10 final size:11
Alignment explanation
Indices: 1013839--1013872 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
1013829 CCAAGCAGCA
1013839 CATTTAAAGCT
1 CATTTAAAGCT
1013850 CATTT-AAGCT
1 CATTTAAAGCT
1013860 CATTTAAAGCT
1 CATTTAAAGCT
1013871 CA
1 CA
1013873 ATTGCTAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (11 bp):
CATTTAAAGCT
Found at i:1019545 original size:50 final size:50
Alignment explanation
Indices: 1019470--1019568 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
1019460 GAAAGAACGG
*
1019470 TTCCCAGCCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTTC
1 TTCCCAACCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTTC
1019520 TTCCCAACCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTT
1 TTCCCAACCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTT
1019569 TTCAAGTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (50 bp):
TTCCCAACCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTTC
Found at i:1019946 original size:15 final size:15
Alignment explanation
Indices: 1019926--1019955 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1019916 TAGTTAAATT
1019926 AATTAATTAACTTAA
1 AATTAATTAACTTAA
*
1019941 AATTAATTAATTTAA
1 AATTAATTAACTTAA
1019956 TAAAATCTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTAATTAACTTAA
Found at i:1020453 original size:32 final size:33
Alignment explanation
Indices: 1020416--1020481 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
1020406 TCACATGCTA
* *
1020416 AGGCTA-TTCGGTTCTGGTTGTTCACA-CACAAG
1 AGGCTATTTCGATTCTAGTT-TTCACACCACAAG
*
1020448 AGGCTATTTCTATTCTAGTTTTCACACCACAAG
1 AGGCTATTTCGATTCTAGTTTTCACACCACAAG
1020481 A
1 A
1020482 CCATTGAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (33 bp):
AGGCTATTTCGATTCTAGTTTTCACACCACAAG
Found at i:1023105 original size:79 final size:78
Alignment explanation
Indices: 1023003--1023225 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
1022993 GCTCCTCGTT
* *
1023003 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
1023068 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
1023083 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
1023147 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
1023161 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
1023224 GA
63 GA
1023226 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:1023120 original size:39 final size:40
Alignment explanation
Indices: 1023003--1023225 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
1022993 GCTCCTCGTT
* *
1023003 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
1023043 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
1023083 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
1023122 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
1023161 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
1023202 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1023226 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:1029415 original size:18 final size:18
Alignment explanation
Indices: 1029389--1029431 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1029379 TCATTCCCAT
*
1029389 TTCACTCATCCTTCA-TC
1 TTCATTCATCCTTCATTC
*
1029406 ATTCATTCATTCTTCATTC
1 -TTCATTCATCCTTCATTC
1029425 TTCATTC
1 TTCATTC
1029432 TTCACTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.49
Consensus pattern (18 bp):
TTCATTCATCCTTCATTC
Found at i:1029432 original size:7 final size:7
Alignment explanation
Indices: 1029404--1029435 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1029394 TCATCCTTCA
1029404 TCATTCAT
1 TCATTC-T
1029412 TCATTCT
1 TCATTCT
1029419 TCATTCT
1 TCATTCT
1029426 TCATTCT
1 TCATTCT
1029433 TCA
1 TCA
1029436 CTTGTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.19, C:0.28, G:0.00, T:0.53
Consensus pattern (7 bp):
TCATTCT
Found at i:1029813 original size:73 final size:73
Alignment explanation
Indices: 1029730--1029882 Score: 270
Period size: 73 Copynumber: 2.1 Consensus size: 73
1029720 TTTGACAAAG
* *
1029730 ATCATCTGATTCATGTTTATGATGTCTATACCTTAATCGTTCATGCTTTCAATTTAACTCATGCA
1 ATCATTTGATTCATGTTTATGATGTCTATACCTTAATCGTTCATGCTTTCAATTAAACTCATGCA
1029795 TGTATTTC
66 TGTATTTC
*
1029803 ATCATTTGATTCATGTTTATGATGTCTATACCTTCATCGTTCATGCTTTCAATTAAACTCATGCA
1 ATCATTTGATTCATGTTTATGATGTCTATACCTTAATCGTTCATGCTTTCAATTAAACTCATGCA
1029868 TGTATTTC
66 TGTATTTC
1029876 ATTCATT
1 A-TCATT
1029883 AAAATGTGAT
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 71 0.93
74 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (73 bp):
ATCATTTGATTCATGTTTATGATGTCTATACCTTAATCGTTCATGCTTTCAATTAAACTCATGCA
TGTATTTC
Found at i:1034348 original size:26 final size:27
Alignment explanation
Indices: 1034305--1034366 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
1034295 AAAATTTACT
1034305 AAAATATTATAACTTTTTTTATTTACCAA
1 AAAATA-TATAAC-TTTTTTATTTACCAA
1034334 AAAATATATAA-TTTTTTATTTACCAA
1 AAAATATATAACTTTTTTATTTACCAA
*
1034360 AATATAT
1 AAAATAT
1034367 CAAAAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 21 0.66
28 5 0.16
29 6 0.19
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAATATATAACTTTTTTATTTACCAA
Found at i:1034473 original size:27 final size:27
Alignment explanation
Indices: 1034443--1034509 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
1034433 CACCAATGGG
1034443 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* * *
1034470 ATTGGCTGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
1034497 ATTGGCGGCACCA
1 ATTGGCGGCACCA
1034510 CTTAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:1034561 original size:4 final size:4
Alignment explanation
Indices: 1034552--1034689 Score: 101
Period size: 4 Copynumber: 34.0 Consensus size: 4
1034542 GAAGGAGAGG
* *
1034552 GAAA GAAA GAAA GAAA GAAA GAAA TGAGAG GAAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA
* *
1034600 GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA G-AA G-AA
1 GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA
*
1034647 GAAAA GGAAAA GAGAA GAAA -AAA GAAA GAAA GAAG GAAA GAAA
1 G-AAA -G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1034690 AGGAAATGAG
Statistics
Matches: 111, Mismatches: 10, Indels: 26
0.76 0.07 0.18
Matches are distributed among these distances:
3 18 0.16
4 65 0.59
5 21 0.19
6 7 0.06
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:1034631 original size:44 final size:43
Alignment explanation
Indices: 1034583--1034755 Score: 191
Period size: 44 Copynumber: 4.1 Consensus size: 43
1034573 AAATGAGAGG
*
1034583 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAG-AAA
1034627 AAAGAAAGAAAGAAGAA-G-AAGAAAAGGAAAAGAG-A-AGAAA
1 AAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAA
*
1034667 AAAGAAAG--AAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAA
* * * *
1034708 AAAG-AAGAAGAAGAAGAGGGAAG-AAAGGAAAAAAAGAAGAAAAA
1 AAAGAAAGAAAAAG-A-AGGAAAGAAAAGG-AAAAGAGAAGAGAAA
1034752 AAAG
1 AAAG
1034756 GTAAATTTAT
Statistics
Matches: 112, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
37 5 0.04
38 2 0.02
39 15 0.13
40 15 0.13
41 11 0.10
42 4 0.04
43 21 0.19
44 34 0.30
45 5 0.04
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.01
Consensus pattern (43 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAA
Found at i:1034685 original size:82 final size:83
Alignment explanation
Indices: 1034583--1034752 Score: 240
Period size: 82 Copynumber: 2.0 Consensus size: 83
1034573 AAATGAGAGG
1034583 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAG-AAAAA-AAGAAAGAAAGAAGA-AG
1 AAAGAAAG--AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAG-AAG-AAGAAGAGAG
*
1034645 AAGAAAAGG-AAAAGAGAAGAAA
62 AAG-AAAGGAAAAAAAGAAGAAA
* *
1034667 AAAGAAAGAAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAAGAAGAAGAAGAAGAGGGAAGA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAGAAGAAGAAGAGAGAAGA
1034732 AAGGAAAAAAAGAAGAAA
66 AAGGAAAAAAAGAAGAAA
1034750 AAA
1 AAA
1034753 AAGGTAAATT
Statistics
Matches: 79, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
82 41 0.52
83 27 0.34
84 11 0.14
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.01
Consensus pattern (83 bp):
AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAGAAGAAGAAGAGAGAAGA
AAGGAAAAAAAGAAGAAA
Found at i:1034695 original size:18 final size:16
Alignment explanation
Indices: 1034553--1034755 Score: 120
Period size: 16 Copynumber: 12.2 Consensus size: 16
1034543 AAGGAGAGGG
1034553 AAAGAAAGAAAGAAAG-
1 AAAGAAAG-AAGAAAGA
1034569 AAAGAAATGAGAGGAAAGA
1 AAAGAAA-GA-A-GAAAGA
*
1034588 AAGAAAAAGAAGGAAAGA
1 AA-AGAAAGAA-GAAAGA
*
1034606 AAAGGAAAGGAGAAGAGA
1 AAA-GAAAGAAGAA-AGA
1034624 AAA-AAAGAAAGAAAGA
1 AAAGAAAG-AAGAAAGA
*
1034640 AGAAG-AAGAA-AAGGA
1 A-AAGAAAGAAGAAAGA
*
1034655 AAAGAGAAGAAAAAAG-
1 AAAGA-AAGAAGAAAGA
1034671 AAAGAAAGAAGGAAAGA
1 AAAGAAAGAA-GAAAGA
1034688 AAAGGAAATG-AG-AAGA
1 AAA-GAAA-GAAGAAAGA
1034704 GAAA-AAAGAAG-AAGA
1 -AAAGAAAGAAGAAAGA
**
1034719 AGAAGAGGGAAGAAAGGA
1 A-AAGAAAGAAGAAA-GA
*
1034737 AAA-AAAGAAGAAAAA
1 AAAGAAAGAAGAAAGA
1034752 AAAG
1 AAAG
1034756 GTAAATTTAT
Statistics
Matches: 151, Mismatches: 12, Indels: 48
0.72 0.06 0.23
Matches are distributed among these distances:
14 5 0.03
15 25 0.17
16 49 0.32
17 29 0.19
18 34 0.23
19 5 0.03
20 4 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (16 bp):
AAAGAAAGAAGAAAGA
Found at i:1035960 original size:159 final size:160
Alignment explanation
Indices: 1035539--1035988 Score: 403
Period size: 159 Copynumber: 2.8 Consensus size: 160
1035529 TATTCCCCCT
* * *
1035539 TAACACACTAAATTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAAGACTA
1 TAACACACT-AA-TAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATA-GA
* *
1035604 AGTTTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAA
63 A-ATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCAGAAGTAA
*
1035669 GAGTGTATTACTAACTTTTATAAAATTCAGATATAA
127 GAGTGTATTA-T-ACTTTTACAAAATTCAGATATAA
* * * * * *
1035705 TTA-ATAC-AA-AAT--ATTTCAAAGA-AATGTACTGAAATAATATAAAATAATAAAATACGAGA
1 TAACACACTAATAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATA-GA-A
* * * *
1035764 ATAATAT-ATTTTTATTTAAAGTAATAAAAAT-C-GAGAAAATAATAC-AAGCAAAGGGTAGAGG
64 AT--TATGATATTT-TTTAAAGTAAT-AAAATGCGGAGAAAAAAATACGAA-CAAAGGGCAGAAG
* *
1035825 TAAG-G-GT-TT-T-TTTTTACACCAAATT-A-ATTTAAA
124 TAAGAGTGTATTATACTTTTACA--AAATTCAGATAT-AA
* *
1035858 TAACACACTAGAGTAATAAATTTCAAACATTATGCACAGAAATAATGTAAAATTATAAAATTAGA
1 TAACACACTA-A-TAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAA-TAGA
* * *
1035923 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAATAAATGGCCGAAGTAAG
63 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCAGAAGTAAG
1035988 A
128 A
1035989 TTTTTTTACT
Statistics
Matches: 228, Mismatches: 33, Indels: 52
0.73 0.11 0.17
Matches are distributed among these distances:
152 9 0.04
153 5 0.02
154 9 0.04
155 1 0.00
156 3 0.01
157 7 0.03
158 51 0.22
159 70 0.31
160 29 0.13
161 35 0.15
162 2 0.01
163 2 0.01
165 3 0.01
166 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (160 bp):
TAACACACTAATAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATAGAAAT
TATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCAGAAGTAAGAGT
GTATTATACTTTTACAAAATTCAGATATAA
Found at i:1041290 original size:3 final size:3
Alignment explanation
Indices: 1041282--1041327 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
1041272 AATACTAACG
1041282 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1041328 TAATAATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:1041427 original size:19 final size:21
Alignment explanation
Indices: 1041403--1041441 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1041393 ATTAAAACAA
*
1041403 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
1041422 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
1041442 ATCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:1041648 original size:27 final size:27
Alignment explanation
Indices: 1041592--1041649 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
1041582 CCAAACAATA
***
1041592 TGGCACCATTGGTGCCGCCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATGCCAT
*
1041619 TGGCA-CATTTGGTGCCGCTAATGCCAT
1 TGGCACCA-TTGGTGCCGCCAATGCCAT
1041646 TGGC
1 TGGC
1041650 GTGACCAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGCCAT
Found at i:1041756 original size:26 final size:27
Alignment explanation
Indices: 1041710--1041778 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1041700 TGTTTTTTTG
*
1041710 ATATATTTTGG-ATAATAAAAAATTTAT
1 ATATATTTTGGTA-AATAAAAAAGTTAT
*
1041737 ATATTTTTTGGTAAATAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAGTTAT
1041764 A-ATATTTTGGTAAAT
1 ATATATTTTGGTAAAT
1041779 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.34
27 24 0.63
28 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAGTTAT
Found at i:1045524 original size:21 final size:21
Alignment explanation
Indices: 1045498--1045556 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1045488 TTCGGGTGGA
1045498 TAAGCTCTTACGAGCTTCTGT
1 TAAGCTCTTACGAGCTTCTGT
* *
1045519 TAAGCTCTTACAAGCTTTTGT
1 TAAGCTCTTACGAGCTTCTGT
1045540 TCAA-CT-TT-CGAGCTTCT
1 T-AAGCTCTTACGAGCTTCT
1045557 ATTGGTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.21
20 2 0.06
21 22 0.67
22 2 0.06
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (21 bp):
TAAGCTCTTACGAGCTTCTGT
Found at i:1046844 original size:20 final size:19
Alignment explanation
Indices: 1046773--1046844 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 19
1046763 ATTTTACTCC
1046773 CTTTTACTT-TCCCCTCAAA
1 CTTTTACTTCTCCCCT-AAA
*
1046792 -TTTTAC-TC-CCCCAAAA
1 CTTTTACTTCTCCCCTAAA
1046808 CCTTTTA-TTCTCCCCCTAAA
1 -CTTTTACTTCT-CCCCTAAA
1046828 CTTTTACTTCTCACCCT
1 CTTTTACTTCTC-CCCT
1046845 TTACCCCCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
16 3 0.07
17 5 0.12
18 13 0.30
19 7 0.16
20 15 0.35
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.40
Consensus pattern (19 bp):
CTTTTACTTCTCCCCTAAA
Found at i:1047118 original size:18 final size:19
Alignment explanation
Indices: 1047076--1047118 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
1047066 TGTCAATTTC
*
1047076 ACATTTTATCTTTAAAATA
1 ACATTTTATCTTAAAAATA
*
1047095 AC-TTTTAT-TTAAAAATT
1 ACATTTTATCTTAAAAATA
1047112 ACATTTT
1 ACATTTT
1047119 TACATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 10 0.48
19 2 0.10
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (19 bp):
ACATTTTATCTTAAAAATA
Found at i:1050189 original size:60 final size:60
Alignment explanation
Indices: 1050071--1050197 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
1050061 CCTAAATATA
* *
1050071 AAAAATTCAATAAACTTAGCCCTCAATGTTTACAAAATTTGTAATTTTAGTTAGAATTCT
1 AAAAATTCAATAAACTTAGCCCTCAATGTTTACAAAATTTATAATTTTAATTAGAATTCT
* * * * * **
1050131 AAAAGTTCTATAAATTTAGCTCTCAATGTTTGCAAAATTTATCAA-TTTAATTCTAATTCT
1 AAAAATTCAATAAACTTAGCCCTCAATGTTTACAAAATTTAT-AATTTTAATTAGAATTCT
1050191 AAAAATT
1 AAAAATT
1050198 AAAAAAAGTG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 54 0.96
61 2 0.04
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (60 bp):
AAAAATTCAATAAACTTAGCCCTCAATGTTTACAAAATTTATAATTTTAATTAGAATTCT
Found at i:1050801 original size:60 final size:59
Alignment explanation
Indices: 1050709--1050828 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 59
1050699 TTTTTTTGAA
* * * ** *
1050709 ATTTTTATAATTAGAACTAAAATGATACATTTTGTAAATGTTGATAGCTAAATTTATTG
1 ATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGCTAAATTTATTG
* *
1050768 ATTTTTAAGAATTTGAAGTAAAATGACAAATTTTGTAAACATTGAGAGCTAAATTTATTG
1 ATTTTT-AGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGCTAAATTTATTG
1050828 A
1 A
1050829 ACTTTTTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 6 0.12
60 46 0.88
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (59 bp):
ATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGCTAAATTTATTG
Found at i:1053788 original size:19 final size:19
Alignment explanation
Indices: 1053760--1053804 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1053750 ATTGGGCCGA
*
1053760 AATGGG-TCGTGTGGGTTC
1 AATGGGCTCGTGTGGGCTC
1053778 AATGGGCTCGTGTGGGCTC
1 AATGGGCTCGTGTGGGCTC
1053797 AATGGGCT
1 AATGGGCT
1053805 GGTGGGCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.13, C:0.16, G:0.42, T:0.29
Consensus pattern (19 bp):
AATGGGCTCGTGTGGGCTC
Found at i:1054070 original size:27 final size:27
Alignment explanation
Indices: 1054020--1054349 Score: 383
Period size: 27 Copynumber: 12.3 Consensus size: 27
1054010 AGAGGTCGAT
* * *
1054020 AAATGACCAAAATACCCCCGCAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
1054047 AAATGACCGAATTACTCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
1054074 AAATGACCAAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
1054101 AAATGATCGAATTACCCCTACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
1054128 AAATGACCGAATTACCCTCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
1054155 AAATGACCTAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
1054182 AAATGACCGAATTA-CCCTATAAGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* ** *
1054208 ACATGATTGAATTACCCTCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* ** *
1054235 AACTGACTAAATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
1054262 AAATGATCGAATTTCCCCCACAAGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
1054289 AAATGACCAAATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * * * *
1054316 AAATAACCAAAATACCCTCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
1054343 AAATGAC
1 AAATGAC
1054350 TATTATACCC
Statistics
Matches: 255, Mismatches: 47, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.08
27 235 0.92
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCACAGGGTA
Found at i:1055860 original size:11 final size:12
Alignment explanation
Indices: 1055846--1055878 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1055836 GAACCCAAGA
1055846 TGAATTAATTT-
1 TGAATTAATTTG
*
1055857 TGAATTCATTTG
1 TGAATTAATTTG
1055869 TGAATTAATT
1 TGAATTAATT
1055879 CACTTGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:1056720 original size:20 final size:20
Alignment explanation
Indices: 1056678--1056714 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
1056668 GATATTTGGG
*
1056678 AAAATTAATTTTAATCAAGT
1 AAAATTAATATTAATCAAGT
1056698 AAAATTAA-ATTAATCAA
1 AAAATTAATATTAATCAA
1056715 ATTAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATTAATATTAATCAAGT
Found at i:1061721 original size:27 final size:27
Alignment explanation
Indices: 1061691--1061774 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
1061681 GGGCATTCCC
* ** * *
1061691 TTCATAGATCTCCATGAAGGCTTCTTT
1 TTCATAGATCGCCACAAAGACTTCCTT
1061718 TTCATAGATCGCCACAAAGACTTCCTT
1 TTCATAGATCGCCACAAAGACTTCCTT
* * *
1061745 TTCATATATAGCCACAAAGACTTCTTT
1 TTCATAGATCGCCACAAAGACTTCCTT
1061772 TTC
1 TTC
1061775 TGGCGTGTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (27 bp):
TTCATAGATCGCCACAAAGACTTCCTT
Found at i:1070287 original size:16 final size:17
Alignment explanation
Indices: 1070266--1070306 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1070256 ATTATGTGTT
1070266 TTAATTTATAA-TATAA
1 TTAATTTATAATTATAA
*
1070282 TTAATTT-TAATTTTAA
1 TTAATTTATAATTATAA
1070298 TCTAATTTA
1 T-TAATTTA
1070307 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 12 0.57
17 6 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATTTATAATTATAA
Found at i:1070303 original size:21 final size:23
Alignment explanation
Indices: 1070264--1070316 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 23
1070254 AAATTATGTG
1070264 TTTTAATTTATAATATAA-TTAA
1 TTTTAATTTATAATATAATTTAA
*
1070286 TTTTAATTT-TAATCTAATTTAA
1 TTTTAATTTATAATATAATTTAA
1070308 -TTTAATTTA
1 TTTTAATTTA
1070317 ATTTGGGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTAATTTATAATATAATTTAA
Found at i:1070308 original size:5 final size:5
Alignment explanation
Indices: 1070282--1070320 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
1070272 TATAATATAA
*
1070282 TTAATT TTAATT TTAAT CTAAT TTAAT TTAAT TTAAT TT
1 TTAA-T TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TT
1070321 GGGTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 21 0.68
6 10 0.32
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:1077975 original size:25 final size:25
Alignment explanation
Indices: 1077947--1077996 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1077937 CAAATTTTCT
*
1077947 TTTAA-ATTTCAATTTTATTTAATTA
1 TTTAATATTTCAA-TTTATTGAATTA
*
1077972 TTTAATTTTTCAATTTATTGAATTA
1 TTTAATATTTCAATTTATTGAATTA
1077997 ATATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATATTTCAATTTATTGAATTA
Done.