Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2033
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: 39521
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Found at i:103 original size:33 final size:33
Alignment explanation
Indices: 3--1031 Score: 810
Period size: 33 Copynumber: 30.6 Consensus size: 33
1 AG
3 GTGCCACGGA-TTGTGGTGCTTTAAAAGGGAAAAAAGA
1 GTGCCACGGAGTTGTGG-GC-TTAAAA-GG--AAAAGA
*
40 GTGCCACGGAGTTGTGGGCTT-GAAGGAAAAGA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
*
72 GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
* *
105 GTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
* * * *
138 GTGCTACGTAGTCG-GGACTTAAAA-G----G-
1 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
164 GTGCCACGGAGTTGTGGGCTTTGAAAA-G--AAG-
1 GTGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAGA
*
195 GTGCCAACGGAGTTGTTGGCTTTAACAAGGGACAAAAGA
1 GTGCC-ACGGAGTTGTGGGC-TTAA-AA-GG--AAAAGA
* *
234 GTGCCACGGAGTTGTGGACTGTAAAAAGAAAA-A
1 GTGCCACGGAGTTGTGGGCT-TAAAAGGAAAAGA
*
267 GGTGCCACGGGTGTTGTGGGCTTTGAAAAGGAAAAAGA
1 -GTGCCAC-GGAGTTGTGGGC-TT-AAAAGG-AAAAGA
*
305 GTGCC-CGGAGTTGTGGGCTTAGAAGGAAAAGA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
*
337 G-GCCACGTAGTTGT-GGCTTTGAAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGC-TT-AAAAGG-AAAAGA
*
371 GTGCCGCGGAGTTGTGGGCTTTAACAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGC-TTAA-AA-GG-AAAAGA
*
408 GTGCCACGGA-TTGTGGGCTGTTAAAAAGAAAA-A
1 GTGCCACGGAGTTGTGGGC--TTAAAAGGAAAAGA
441 GGTGCCACGGAGTTGTGGGCTTGAAAAGGGAAAAAGA
1 -GTGCCACGGAGTTGTGGGCTT-AAAA-GG-AAAAGA
* * * *
478 GTGCCAC-AAATTGTGGGCTTAAAAAGAAAAAGT
1 GTGCCACGGAGTTGTGGGCTT-AAAAGGAAAAGA
* * *
511 GTTGCCACAGAGTTGTGGGCTTTGAAGGGAAAAAGA
1 G-TGCCACGGAGTTGTGGGC-TTAAAAGG-AAAAGA
** * *
547 GTGCCACACCAGTTGTGGGCTTTAAAAAGAAAAAGT
1 GTGCCAC-GGAGTTGTGGGC-TT-AAAAGGAAAAGA
* *
583 GTGCCACAGAGTTGT-GGCTTGAAAAAGAAAA-A
1 GTGCCACGGAGTTGTGGGCTT-AAAAGGAAAAGA
* *
615 GGTGCCACGGAGTTGTGGACTTAAAGATGAAAA-A
1 -GTGCCACGGAGTTGTGGGCTTAAA-AGGAAAAGA
*
649 GTGCCACGGAGTTGTGGGCTTTAAA-G--AAG-
1 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
678 GTGCCACGGAGTTGTGGGGCTTTGAAAA-GAAGAAG-
1 GTGCCACGGAGTTGT-GGGC-TT-AAAAGGAA-AAGA
*
713 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAG-
1 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
* * *
745 GTGCCACAGAG-TGTGTGGCTTTAAAAGAAAAAAA
1 GTGCCACGGAGTTGTG-GGC-TTAAAAGGAAAAGA
779 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGC-TT-AAAA-GG-AAAAGA
*
816 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG-
1 GTGCCACGGAGTTGTGGGC-TTAAA-AGGAAAAGA
*
850 GTGCCACGGAGTTGTGGGCTTAAAAAGAAAA-A
1 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
* * * * *
882 GGTGCCACGGTGTTGTGGACTTAAGATGAAAAAA
1 -GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
*
916 GTGCCACGGAGTTGT-GGCTTTGAAA-G--AAG-
1 GTGCCACGGAGTTGTGGGC-TTAAAAGGAAAAGA
945 GTGCCACGGTAGTTGT-GGCTTTGAAAA-GAAGAAG-
1 GTGCCACGG-AGTTGTGGGC-TT-AAAAGGAA-AAGA
* *
979 GTGCCACAGAGTTGTGGGCTTTAAAGGAAAAG-
1 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
1011 GTGCCACGGAGTTGTGGGCTT
1 GTGCCACGGAGTTGTGGGCTT
1032 TTGAAGCAAA
Statistics
Matches: 836, Mismatches: 82, Indels: 153
0.78 0.08 0.14
Matches are distributed among these distances:
26 11 0.01
27 4 0.00
28 2 0.00
29 31 0.04
30 18 0.02
31 26 0.03
32 128 0.15
33 198 0.24
34 116 0.14
35 117 0.14
36 77 0.09
37 78 0.09
38 25 0.03
39 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
Found at i:283 original size:35 final size:33
Alignment explanation
Indices: 158--1031 Score: 759
Period size: 35 Copynumber: 25.8 Consensus size: 33
148 GTCGGGACTT
* *
158 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGC-TTAAAAAG
* *
192 ---AAGGTGCCAACGGAGTTGTTGGCTTTAACAAGGG
1 AAAAAGGTGCC-ACGGAGTTGTGGGC-TTAA-AA-AG
*
226 ACAAAAGAGTGCCACGGAGTTGTGGACTGTAAAAAG
1 A-AAAAG-GTGCCACGGAGTTGTGGGCT-TAAAAAG
* *
262 AAAAAGGTGCCACGGGTGTTGTGGGCTTTGAAAAGG
1 AAAAAGGTGCCAC-GGAGTTGTGGGC-TT-AAAAAG
*
298 AAAAAGAGTGCC-CGGAGTTGTGGGCTT-AGAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTAAAAAG
* * *
330 GAAAAGAG-GCCACGTAGTTGT-GGCTTTGAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGC-TT-AAAAAG
* *
364 AAAAAGAGTGCCGCGGAGTTGTGGGCTTTAACAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGGC-TTAA-AA-AG
401 AAAAAGAGTGCCACGGA-TTGTGGGCTGTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGC--TTAAAAAG
*
436 AAAAAGGTGCCACGGAGTTGTGGGCTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTT-AAAA-AG
* *
471 AAAAAGAGTGCCAC-AAATTGTGGGCTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTAAAAAG
* * **
504 AAAAAGTGTTGCCACAGAGTTGTGGGCTTTGAAGGG
1 AAAAAG-G-TGCCACGGAGTTGTGGGC-TTAAAAAG
**
540 AAAAAGAGTGCCACACCAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCAC-GGAGTTGTGGGC-TTAAAAAG
*
576 AAAAAGTGTGCCACAGAGTTGT-GGCTTGAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTT-AAAAAG
* *
610 AAAAAGGTGCCACGGAGTTGTGGACTTAAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAA-AAG
*
644 AAAAA-GTGCCACGGAGTTGTGGGCTT-TAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAG
*
675 ---AAGGTGCCACGGAGTTGTGGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGT-GGGC-TTAAAAAG
* *
707 AAGAAGGTGCCACGGAGTTGTGGGCTT-TAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAG
* * *
739 GAAAAGGTGCCACAGAG-TGTGTGGCTTTAAAAG
1 AAAAAGGTGCCACGGAGTTGTG-GGCTTAAAAAG
* *
772 AAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 -AAAAAGGTGCCACGGAGTTGTGGGC-TT-AAAA-AG
*
809 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
1 AAAAAG-GTGCCACGGAGTTGTGGGC-TTAAAAAG
844 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAG
* * * *
877 AAAAAGGTGCCACGGTGTTGTGGACTTAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAG
* **
910 AAAAAAGTGCCACGGAGTTGT-GGCTTTGAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAG
*
942 ---AAGGTGCCACGGTAGTTGT-GGCTTTGAAAAG
1 AAAAAGGTGCCACGG-AGTTGTGGGC-TTAAAAAG
* * *
973 AAGAAGGTGCCACAGAGTTGTGGGCTT-TAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAG
*
1005 GAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTT
1032 TTGAAGCAAA
Statistics
Matches: 704, Mismatches: 82, Indels: 110
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.00
29 26 0.04
30 13 0.02
31 27 0.04
32 99 0.14
33 120 0.17
34 124 0.18
35 125 0.18
36 92 0.13
37 53 0.08
38 18 0.03
39 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAG
Found at i:450 original size:34 final size:34
Alignment explanation
Indices: 158--1032 Score: 844
Period size: 34 Copynumber: 25.8 Consensus size: 34
148 GTCGGGACTT
* *
158 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
192 ---AAGGTGCCAACGGAGTTGTTGGCTTTAACAAGGG
1 AAAAAGGTGCC-ACGGAGTTGTGGGCTTTAA-AA-AG
* *
226 ACAAAAGAGTGCCACGGAGTTGTGGACTGTAAAAAG
1 A-AAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
262 AAAAAGGTGCCACGGGTGTTGTGGGCTTTGAAAAGG
1 AAAAAGGTGCCAC-GGAGTTGTGGGCTTT-AAAAAG
*
298 AAAAAGAGTGCC-CGGAGTTGTGGGC-TT-AGAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* * *
330 GAAAAGAG-GCCACGTAGTTGT-GGCTTTGAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAAG
* *
364 AAAAAGAGTGCCGCGGAGTTGTGGGCTTTAACAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAA-AA-AG
401 AAAAAGAGTGCCACGGA-TTGTGGGCTGTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCT-TTAAAAAG
* *
436 AAAAAGGTGCCACGGAGTTGTGGGCTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AG
* *
471 AAAAAGAGTGCCAC-AAATTGTGGGC-TTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* * **
504 AAAAAGTGTTGCCACAGAGTTGTGGGCTTTGAAGGG
1 AAAAAG-G-TGCCACGGAGTTGTGGGCTTTAAAAAG
**
540 AAAAAGAGTGCCACACCAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCAC-GGAGTTGTGGGCTTTAAAAAG
* *
576 AAAAAGTGTGCCACAGAGTTGT-GGCTTGAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
610 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAG
644 AAAAA-GTGCCACGGAGTTGTGGGCTTT--AAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
675 ---AAGGTGCCACGGAGTTGTGGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGT-GGGCTTTAAAAAG
*
707 AAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
739 GAAAAGGTGCCACAGAG-TGTGTGGCTTT-AAAAG
1 AAAAAGGTGCCACGGAGTTGTG-GGCTTTAAAAAG
* *
772 AAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 -AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
*
809 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
844 AAAAAGGTGCCACGGAGTTGTGGGC-TTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* * * *
877 AAAAAGGTGCCACGGTGTTGTGGAC-TTAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
910 AAAAAAGTGCCACGGAGTTGT-GGCTTT-GAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
942 ---AAGGTGCCACGGTAGTTGT-GGCTTTGAAAAG
1 AAAAAGGTGCCACGG-AGTTGTGGGCTTTAAAAAG
* *
973 AAGAAGGTGCCACAGAGTTGTGGGCTTT--AAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
1005 GAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT
1033 TGAAGCAAAA
Statistics
Matches: 710, Mismatches: 79, Indels: 106
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.00
29 26 0.04
30 19 0.03
31 23 0.03
32 99 0.14
33 113 0.16
34 137 0.19
35 123 0.17
36 92 0.13
37 52 0.07
38 19 0.03
39 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
Found at i:1180 original size:125 final size:125
Alignment explanation
Indices: 976--1221 Score: 315
Period size: 125 Copynumber: 2.0 Consensus size: 125
966 TGAAAAGAAG
* * * *
976 AAGGTGCCACAGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTTGAAGCAA
1 AAGGTGCCACAGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTTGAAGCAA
1041 AATGCCACTAAGTCGTGGACTTTGAGATA-A-AATGCCACTGAGTCGTGGACTTTAAAGATA
66 AATGCCACTAAGTCGTGGACTTTGAGA-AGAGAATGCC-CTGAGTCGTGGACTTTAAAGATA
*
1101 AAGGATGCCACTGAGTCGTGGACTTTAAA-GAAAAGGATGCCACGG-GTCGTGGAC-TTTG-AGC
1 AAGG-TGCCACAGAGTCGTGGACTTTAAAGGAAAAGG-TGCCACGGAGTCGTGGACTTTTGAAGC
* * * *
1162 AGAGATTGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCCTTAGTCGTGGACTTTAAA
64 A-A-AATGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCCTGAGTCGTGGACTTTAAA
1222 AAGGTATTTG
Statistics
Matches: 106, Mismatches: 9, Indels: 12
0.83 0.07 0.09
Matches are distributed among these distances:
123 4 0.04
124 6 0.06
125 62 0.58
126 34 0.32
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (125 bp):
AAGGTGCCACAGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTTGAAGCAA
AATGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCCTGAGTCGTGGACTTTAAAGATA
Found at i:1181 original size:31 final size:30
Alignment explanation
Indices: 1005--1218 Score: 193
Period size: 31 Copynumber: 6.9 Consensus size: 30
995 GGCTTTAAAG
* * * *
1005 GAAAAGGTGCCACGGAGTTGTGGGCTTTTGAA
1 GAAAAGATGCCACTGAGTCGTGGAC-TTTG-A
* *
1037 GCAAA-ATGCCACTAAGTCGTGGACTTTGA
1 GAAAAGATGCCACTGAGTCGTGGACTTTGA
*
1066 GATAAA-ATGCCACTGAGTCGTGGACTTTAAA
1 GA-AAAGATGCCACTGAGTCGTGGACTTT-GA
*
1097 GATAAAGGATGCCACTGAGTCGTGGACTTTAAA
1 GA-AAA-GATGCCACTGAGTCGTGGACTTT-GA
*
1130 GAAAAGGATGCCAC-GGGTCGTGGACTTTGA
1 GAAAA-GATGCCACTGAGTCGTGGACTTTGA
* *
1160 GCAGAGATTGCCACTGAGTCGTGGACTTTGA
1 GAAAAGA-TGCCACTGAGTCGTGGACTTTGA
* *
1191 GAAGAGATTGCC-CTTAGTCGTGGACTTT
1 GAAAAGA-TGCCACTGAGTCGTGGACTTT
1219 AAAAAGGTAT
Statistics
Matches: 160, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
29 4 0.03
30 53 0.33
31 60 0.38
32 16 0.10
33 27 0.17
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (30 bp):
GAAAAGATGCCACTGAGTCGTGGACTTTGA
Found at i:2863 original size:43 final size:43
Alignment explanation
Indices: 2802--3588 Score: 712
Period size: 43 Copynumber: 17.1 Consensus size: 43
2792 TAAAGATGGA
* * *
2802 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2845 AAAGGTGCCAATGTGCTGATTCACCGGCCAGCTACATTGGACTA
1 AAAGGTGCCAATGTGCTGATTCA-AGGCCAGCTACATTGGACTT
*
2889 AAGTGAGGTGCCAATGTG-TGCTTCAAGGCCAGCTACATTGGACTT
1 AA---AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2934 AAAGATGAAGGTGCCCAAT-TG-TGAGTCAAGGCCAGCTACATTGGACTGAA
1 ----A--AAGGTG-CCAATGTGCTGATTCAAGGCCAGCTACATTGGACT--T
*
2984 AGATGAGGGGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 A-A--AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
3030 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
3079 AAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
3128 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
3171 AAAGATGAAGATGCCAATATGCTGATTCAAGTCC-GCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
3219 AAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
3262 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
3311 AAAGGTGCCAATGTGCTGATTCAAGGCCACCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGG---CCAGCTACATTGGACTT
* * *
3357 AAAGATGAAGATGCC-ATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
3405 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCT--ATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
3446 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
3495 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
3538 AAAGGTGAGGTGCCAA--TGCTGATTC-AGGCCAGCTACATTGGACTT
1 -AA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
3583 AGAAGG
1 A-AAGG
3589 GTTGCCACCG
Statistics
Matches: 630, Mismatches: 50, Indels: 130
0.78 0.06 0.16
Matches are distributed among these distances:
41 12 0.02
42 26 0.04
43 146 0.23
44 31 0.05
45 46 0.07
46 46 0.07
47 53 0.08
48 102 0.16
49 144 0.23
50 1 0.00
51 19 0.03
52 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:3065 original size:49 final size:49
Alignment explanation
Indices: 2756--3583 Score: 871
Period size: 49 Copynumber: 17.8 Consensus size: 49
2746 TCTTGCATTA
* * * *
2756 TGCCACTGTGCAGATTC-AGGCCTGCCACACTT-GACTTAAAGATGGAAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACA-TTGGACTTAAAGAT-G--AAGG
* * *
2807 TGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
2850 TGCCAATGTGCTGATTCACCGGCCAGCTACATTGGAC-TAAAG-TG-AGG
1 TGCCAATGTGCTGATTCA-AGGCCAGCTACATTGGACTTAAAGATGAAGG
*
2897 TGCCAATGTG-TGCTTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
2945 TGCCCAAT-TG-TGAGTCAAGGCCAGCTACATTGGACTGAAAGATG-AGG
1 TG-CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
2992 GGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
3041 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
3090 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
3133 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * * *
3182 TGCCAATATGCTGATTCAAGTCC-GCGATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
3224 TGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
3273 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
3316 TGCCAATGTGCTGATTCAAGGCCACCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGG---CCAGCTACATTGGACTTAAAGATGAAGG
* * *
3368 TGCC-ATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
3410 TGCCAATGTGCTGATTCAAGGCCAGCT--ATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
3457 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
3500 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
3548 TGCCAA--TGCTGATTC-AGGCCAGCTACATTGGACTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
3584 GAAGGGTTGC
Statistics
Matches: 657, Mismatches: 67, Indels: 112
0.79 0.08 0.13
Matches are distributed among these distances:
41 9 0.01
42 30 0.05
43 151 0.23
44 18 0.03
45 42 0.06
46 40 0.06
47 51 0.08
48 107 0.16
49 157 0.24
50 1 0.00
51 30 0.05
52 21 0.03
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
Found at i:3166 original size:92 final size:92
Alignment explanation
Indices: 2756--3588 Score: 1097
Period size: 92 Copynumber: 9.0 Consensus size: 92
2746 TCTTGCATTA
* * * * * *
2756 TGCCACTGTGCAGATTC-AGGCCTGCCACACTT-GACTTAAAGATGGAAAAGGTGCCGATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACA-TTGGACTTAAAGAT-G--AAGATGCCAATATGCT
*
2819 GATTCAAGGCCAGCTATATTGGACTTAAAGG
62 GATTCAAGGCCAGCGATATTGGACTTAAAGG
* * * *
2850 TGCCAATGTGCTGATTCACCGGCCAGCTACATTGGAC-TAAAG-TG-AGGTGCCAATGTG-TGCT
1 TGCCAATGTGCTGATTCA-AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
2911 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
65 TCAAGGCCAGCGATATTGGACTT----A--AAGG
* * ** *
2945 TGCCCAAT-TG-TGAGTCAAGGCCAGCTACATTGGACTGAAAGATG-AGGGGCCAATGTGCTGAT
1 TG-CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
3007 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
65 TCAAGGCCAGCGATATTGGACTT----A--AAGG
* *
3041 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
3106 CAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
3133 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
*
3198 CAAGTCC-GCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
*
3224 TGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
3289 CAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
3316 TGCCAATGTGCTGATTCAAGGCCACCAGCTACATTGGACTTAAAGATGAAGATGCC-ATATGCTG
1 TGCCAATGTGCTGATTCAAGG---CCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTG
3380 ATTCAAGGCCAGCGATATTGGACTTAAAGG
63 ATTCAAGGCCAGCGATATTGGACTTAAAGG
3410 TGCCAATGTGCTGATTCAAGGCCAGCT--ATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
3473 CAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* *
3500 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCC-A-ATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* *
3562 C-AGGCCAGCTACATTGGACTTAGAAGG
66 CAAGGCCAGCGATATTGGACTTA-AAGG
3589 GTTGCCACCG
Statistics
Matches: 684, Mismatches: 31, Indels: 53
0.89 0.04 0.07
Matches are distributed among these distances:
88 19 0.03
89 63 0.09
90 77 0.11
91 101 0.15
92 127 0.19
93 19 0.03
94 86 0.13
95 66 0.10
96 58 0.08
97 33 0.05
98 35 0.05
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGG
Found at i:3625 original size:33 final size:34
Alignment explanation
Indices: 3583--3751 Score: 239
Period size: 33 Copynumber: 5.2 Consensus size: 34
3573 CATTGGACTT
3583 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
3616 AGAATGG-TTGCCACCAAC-T-TGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
*
3647 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAA
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
3681 AGAAGGGTTTGCCA-CGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
3714 AGAA-GGTTTGCCACCGA-TT-TGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
3745 A-AAGGGT
1 AGAAGGGT
3752 GAAAGATGCC
Statistics
Matches: 123, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
30 2 0.02
31 33 0.27
32 22 0.18
33 42 0.34
34 24 0.20
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:3659 original size:65 final size:67
Alignment explanation
Indices: 3583--3751 Score: 237
Period size: 65 Copynumber: 2.6 Consensus size: 67
3573 CATTGGACTT
*
3583 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAAC-T-TGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCA-CAACTTGTGTGGGCTT
*
3644 TGG
65 TAG
* *
3647 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGGTTTGCCACGACTTGTGTGGGCTTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACAACTTGTGTGGGCTTT
3712 AG
66 AG
3714 AGAA-GGTTTGCCACCGA-TT-TGTGGGCTTTAGA-AAGGGT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
3752 GAAAGATGCC
Statistics
Matches: 96, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
63 6 0.06
64 19 0.20
65 36 0.38
66 20 0.21
67 15 0.16
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (67 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACAACTTGTGTGGGCTTT
AG
Found at i:3799 original size:35 final size:34
Alignment explanation
Indices: 3753--4630 Score: 639
Period size: 34 Copynumber: 25.7 Consensus size: 34
3743 AGAAAGGGTG
* *
3753 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
* *
3786 CAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAA
1 -AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-AGAA
* *
3823 AAAGAGTGCCACGGAGTTTGTGGGCTTAGAAGGAAA
1 AAAGAGTGCCACGGAG-TTGTGGGCTTAAAAAG-AA
* *
3859 AAAGAGTGCCACAGGAGTTGTGGGCTT-AGAAGGA
1 AAAGAGTGCCAC-GGAGTTGTGGGCTTAAAAAGAA
* *
3893 AAAGAGTGCCACGTAGTTGTGGGCTT--AAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
* * * *
3925 AAAGAGTGCTTACGTAGTCGTGGACTT-AAAAG--
1 AAAGAGTGC-CACGGAGTTGTGGGCTTAAAAAGAA
**
3957 ---G-GTGCCACGGAGTTGTTGGGCTTTGAAAG--
1 AAAGAGTGCCACGGAGTTG-TGGGCTTAAAAAGAA
*
3986 -AAG-GTGCCACGGAGTTGT-GGC-TAACAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAA-AA-AGAA
*
4018 AAAGAGTGCCCACGGAGTTGTGGACTGTAAAAAGAA
1 AAAGAGTG-CCACGGAGTTGTGGGCT-TAAAAAGAA
* *
4054 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAAGAA
*
4089 AAAGAGTGCCAC-AAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAA
* * *
4123 AAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-AGAA
** *
4160 AAAGAGTGCCACAAAGTTATGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAA
* *
4195 AAAGTGTGCCACAGAG-T-TGGGCTTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC--TTAAAAAGAA
* * *
4229 AAAG-GTGCCACGGAGTTGTGGACTTAAGATG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
**
4261 AAA-AGTGCCACGGAGTTGTGGGCTTTGAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
*
4292 -AAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAA
* * *
4325 GAAG-GTGCCCACGGAGTTGTGGGCTT-TAAAGGA
1 AAAGAGTG-CCACGGAGTTGTGGGCTTAAAAAGAA
** *
4358 AAAG-GTGCCATAGAGTTGTGGGCTTTAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
* *
4391 AAAAAGTGCCACGGAGTTGTGGGCTTTTGAAAAGGGAAAA
1 AAAGAGTGCCACGGAGTTGTGGGC--TT-AAAA---AGAA
4431 AAAGAGTGCCACGGAGTTGTGGGCTTTATAAACAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTA-AAA-AGAA
4468 AAAG-GTGCCACGGAGTTGTGTGGGCTTTTTAAAAAGAA
1 AAAGAGTGCCACGGAG-T-TGTGGGC---TTAAAAAGAA
* * *
4506 AAA-AGGTTTGCCACGGTGGTTGTGGACTTAAAGATG-A
1 AAAGA-G--TGCCACGG-AGTTGTGGGCTTAAA-AAGAA
**
4543 AAA-AGTGCCACGGAGTTGTGGGCTTTGAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
*
4574 -AAG-GTGCCACGGAGTTGTGGGCTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
*
4606 GAACG-GTGCCACGGAGTTGTGGGCT
1 -AAAGAGTGCCACGGAGTTGTGGGCT
4631 CCTTTAAAGG
Statistics
Matches: 705, Mismatches: 77, Indels: 124
0.78 0.08 0.14
Matches are distributed among these distances:
27 7 0.01
28 11 0.02
29 10 0.01
30 50 0.07
31 21 0.03
32 58 0.08
33 81 0.11
34 129 0.18
35 109 0.15
36 88 0.12
37 65 0.09
38 20 0.03
39 10 0.01
40 36 0.05
41 9 0.01
42 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
Found at i:4554 original size:151 final size:140
Alignment explanation
Indices: 4295--4679 Score: 361
Period size: 141 Copynumber: 2.7 Consensus size: 140
4285 TTGAAAGAAG
* *
4295 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCCACGGAGTTGTGGGCTTTAAAGGAAA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCCACGGAGTTGTGGGCTTTAAAGAAAA
* *
4360 AGGTGCCATAGAGTTGTGGGCTTTAAAAGAAAAAAAGTGCCACGGAGTTGTGGGCTTTTGAAAAG
66 AGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAAAAGTGCCACGGAGTTGTGGGC-TTTGAAAAG
4425 GGAAAAAAAGA
130 GGAAAAAAAGA
*
4436 GTGCCACGGAGTTGTGGGCTTTATAAACAGAAAAAGGTG-CCACGGAGTTGTGTGGGCTTTTTAA
1 GTGCCACGGAGTTGTGGGCTTT-GAAA-AGAAAAAGGTGCCCACGGAG-T-TGTGGGC--TTT--
* * *
4500 AAAGAAAAAAGGTTTGCCACGGTGGTTGTGGAC-TT-AAAGATGAAAAAGTGCCACGGAGTTGTG
58 AAAG-AAAAAGG--TGCCACAG-AGTTGTGGACTTTAAAAGA-AAAAAAGTGCCACGGAGTTGTG
4563 GGCTTTG-AAA--G-----AAG-
118 GGCTTTGAAAAGGGAAAAAAAGA
*
4577 GTGCCACGGAGTTGTGGGC-TTGAAAAGAAGAACGGTG-CCACGGAGTTGTGGGCTCCTTTAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAA-AAAGGTGCCCACGGAGTTGTGGG---CTTTAAA-
* * *
4640 GAAAAAGGTGGCCAC-GGGTTTGTGGGCTTT-GAAGAAAAAA
61 GAAAAAGGT-GCCACAGAG-TTGTGGACTTTAAAAGAAAAAA
4680 TGCCACTAAG
Statistics
Matches: 210, Mismatches: 13, Indels: 49
0.77 0.05 0.18
Matches are distributed among these distances:
133 2 0.01
134 13 0.06
135 11 0.05
136 10 0.05
137 7 0.03
138 8 0.04
139 17 0.08
140 3 0.01
141 41 0.20
142 14 0.07
143 11 0.05
144 7 0.03
146 3 0.01
147 1 0.00
148 4 0.02
149 9 0.04
150 9 0.04
151 32 0.15
152 8 0.04
ACGTcount: A:0.31, C:0.12, G:0.34, T:0.23
Consensus pattern (140 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCCACGGAGTTGTGGGCTTTAAAGAAAA
AGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGG
GAAAAAAAGA
Found at i:4750 original size:33 final size:32
Alignment explanation
Indices: 4661--4794 Score: 127
Period size: 31 Copynumber: 4.3 Consensus size: 32
4651 CCACGGGTTT
* * * *
4661 GTGGGCTTTGAAGA-AAAAATGCCACTAAGTC
1 GTGGACTTTAAAGATAAAGATGCCACTGAGTC
* *
4692 GTGGACGTT-GAGAT-AA-ATG-CACTGAGTC
1 GTGGACTTTAAAGATAAAGATGCCACTGAGTC
4720 GTGGACTTTAAAGATAAAGGATGCCACTGAGTGTC
1 GTGGACTTTAAAGATAAA-GATGCCACTGA--GTC
* *
4755 GTGGACTTTAAAGA-AATGATGCCACTGGGTC
1 GTGGACTTTAAAGATAAAGATGCCACTGAGTC
4786 GTGGACTTT
1 GTGGACTTT
4795 GAGCAGAGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 16
0.78 0.07 0.14
Matches are distributed among these distances:
28 16 0.18
29 7 0.08
30 7 0.08
31 19 0.22
32 3 0.03
33 16 0.18
34 2 0.02
35 17 0.20
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (32 bp):
GTGGACTTTAAAGATAAAGATGCCACTGAGTC
Found at i:4759 original size:35 final size:31
Alignment explanation
Indices: 4711--4794 Score: 114
Period size: 33 Copynumber: 2.6 Consensus size: 31
4701 GAGATAAATG
*
4711 CACTGAGTCGTGGACTTTAAAGATAAAGGATGC
1 CACTGGGTCGTGGACTTTAAAG--AAAGGATGC
*
4744 CACTGAGTGTCGTGGACTTTAAAGAAATGATGC
1 CACTG-G-GTCGTGGACTTTAAAGAAAGGATGC
4777 CACTGGGTCGTGGACTTT
1 CACTGGGTCGTGGACTTT
4795 GAGCAGAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
31 12 0.26
32 1 0.02
33 18 0.38
35 16 0.34
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (31 bp):
CACTGGGTCGTGGACTTTAAAGAAAGGATGC
Found at i:4825 original size:32 final size:29
Alignment explanation
Indices: 4752--4855 Score: 111
Period size: 31 Copynumber: 3.4 Consensus size: 29
4742 GCCACTGAGT
* **
4752 GTCGTGGACTTTAAAGAA-ATGATGCCACTGG
1 GTCGTGGACTTT-GAGAAGAT--TGCCACTTA
4783 GTCGTGGACTTTGAGCAGAGATTGCCACTTA
1 GTCGTGGACTTTGAG-A-AGATTGCCACTTA
*
4814 GTTCTTGGACTTTGAGAAGATTGCCACTTA
1 G-TCGTGGACTTTGAGAAGATTGCCACTTA
4844 GTCGTGGACTTT
1 GTCGTGGACTTT
4856 AAAAAGGTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.16
30 16 0.25
31 22 0.34
32 14 0.22
33 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (29 bp):
GTCGTGGACTTTGAGAAGATTGCCACTTA
Found at i:4837 original size:30 final size:31
Alignment explanation
Indices: 4774--4855 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 31
4764 AAAGAAATGA
**
4774 TGCCACTGGGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTTAGTCGTGGACTTTGAGCAGAGAT
*
4805 TGCCACTTAGTTCTTGGACTTTGAG-A-AGAT
1 TGCCACTTAG-TCGTGGACTTTGAGCAGAGAT
4835 TGCCACTTAGTCGTGGACTTT
1 TGCCACTTAGTCGTGGACTTT
4856 AAAAAGGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 10 0.22
30 14 0.30
31 9 0.20
32 13 0.28
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (31 bp):
TGCCACTTAGTCGTGGACTTTGAGCAGAGAT
Found at i:6166 original size:14 final size:16
Alignment explanation
Indices: 6146--6184 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
6136 CTTTGCAACC
6146 CTTTTTTTTACAC-CT
1 CTTTTTTTTACACTCT
*
6161 -TTTTTTTTACTCTCT
1 CTTTTTTTTACACTCT
6176 CTTTTTTTT
1 CTTTTTTTT
6185 TTTTTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 11 0.52
15 2 0.10
16 8 0.38
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (16 bp):
CTTTTTTTTACACTCT
Found at i:13162 original size:52 final size:52
Alignment explanation
Indices: 13084--13211 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
13074 CGAAATATGA
*
13084 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
13136 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
13188 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
13212 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:13238 original size:13 final size:13
Alignment explanation
Indices: 13220--13244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13210 CAAAGATCAG
13220 TGTATCGATACAA
1 TGTATCGATACAA
13233 TGTATCGATACA
1 TGTATCGATACA
13245 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:13322 original size:33 final size:33
Alignment explanation
Indices: 13285--13351 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
13275 AGTAGCTTAA
13285 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
13318 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
13351 A
1 A
13352 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:13325 original size:13 final size:13
Alignment explanation
Indices: 13307--13331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13297 CAAAAAAATA
13307 TGTATCGATACAT
1 TGTATCGATACAT
13320 TGTATCGATACA
1 TGTATCGATACA
13332 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:13631 original size:49 final size:49
Alignment explanation
Indices: 13559--14242 Score: 910
Period size: 49 Copynumber: 14.6 Consensus size: 49
13549 CTTATTCAAG
13559 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
*
13608 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
13656 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * *
13705 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
13754 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
13797 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* * *
13846 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAGTGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* * *
13889 GCTGATTCAAGGCCAGGTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
13938 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
13981 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
14030 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
14073 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
14122 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
*
14165 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
14213 GCTGATTCAAGGCCAGCTACATTGGACTTA
1 GCTGATTCAAGGCCAGCTACATTGGACTTA
14243 GAAGGGTTGC
Statistics
Matches: 553, Mismatches: 51, Indels: 63
0.83 0.08 0.09
Matches are distributed among these distances:
43 187 0.34
45 5 0.01
47 4 0.01
48 89 0.16
49 268 0.48
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
Found at i:13839 original size:92 final size:92
Alignment explanation
Indices: 13559--14247 Score: 1103
Period size: 92 Copynumber: 7.4 Consensus size: 92
13549 CTTATTCAAG
* * *
13559 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAG
* *
13624 CTACATTGGACTTAAAGATG-AGGTGCCAATGT
60 CTACATTGGACTTAAAGATGAAGATGCCAATAT
* * *
13656 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAG
*
13721 CTACATTGGACTTAAAGATGATGATGCCAATAT
60 CTACATTGGACTTAAAGATGAAGATGCCAATAT
13754 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
13819 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
* *
13846 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAGTGTGCTGATTCAAGGCCAGGTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
13911 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
13938 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
14003 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
14030 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
14095 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
14122 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
* * *
14187 TGGACTTAAAGGTG-AGGTGCCAATGT
66 TGGACTTAAAGATGAAGATGCCAATAT
* *
14213 GCTGATTCAAGGCCAGCTACATTGGACTTAGAAGG
1 GCTGATTCAAGGCCAGCGATATTGGACTTA-AAGG
14248 GTTGCCACCG
Statistics
Matches: 574, Mismatches: 16, Indels: 9
0.96 0.03 0.02
Matches are distributed among these distances:
91 38 0.07
92 414 0.72
94 1 0.00
97 85 0.15
98 36 0.06
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
TGGACTTAAAGATGAAGATGCCAATAT
Found at i:14324 original size:67 final size:68
Alignment explanation
Indices: 14242--14415 Score: 293
Period size: 67 Copynumber: 2.6 Consensus size: 68
14232 CATTGGACTT
*
14242 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
*
14305 TGG
66 TAG
*
14308 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
14373 TAG
66 TAG
14376 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGGT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
14416 GAAAGATGCC
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
66 13 0.13
67 62 0.60
68 28 0.27
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (68 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
TAG
Found at i:14329 original size:34 final size:34
Alignment explanation
Indices: 14242--14415 Score: 293
Period size: 33 Copynumber: 5.2 Consensus size: 34
14232 CATTGGACTT
14242 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
14275 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
14308 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
14342 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
14376 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
14409 A-AAGGGT
1 AGAAGGGT
14416 GAAAGATGCC
Statistics
Matches: 133, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
32 2 0.02
33 69 0.52
34 62 0.47
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:14527 original size:34 final size:35
Alignment explanation
Indices: 14397--15198 Score: 962
Period size: 34 Copynumber: 23.3 Consensus size: 35
14387 CACCGACTTG
** *
14397 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGT
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGT
* * *
14433 TGTGGAC-TTAAAAAGAACAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
14466 TGTGGGCTTTAAAAGGGAAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GG-AAAAAGAGTGCCACGGAGT
* *
14503 TGTGGGC-TTAGAAGGAAAAAGAGTGTCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
14537 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
14570 TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
14606 TGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAA-AA-GGAAAAAGAGTGCCACGGAGT
* *
14643 TGTGGGCTGTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
**
14677 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* * *
14714 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* **
14749 TGTGGGCTTTGAAAGGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAA-AGGAAAAAGAGTGCCACGGAGT
* * *
14786 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
14821 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
14855 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
*
14889 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
14921 TGTGGGCTTTAAAA-GAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
14954 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
14991 TGTGGGCTTTAAACA-GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
15025 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
15059 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
15093 TGTGGGCTTTGAAA-G---AAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
15123 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
15157 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
15189 TGTGGGCTTT
1 TGTGGGCTTT
15199 GAAGAAAAAA
Statistics
Matches: 688, Mismatches: 43, Indels: 74
0.85 0.05 0.09
Matches are distributed among these distances:
30 24 0.03
31 4 0.01
32 58 0.08
33 80 0.12
34 219 0.32
35 107 0.16
36 73 0.11
37 123 0.18
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:14539 original size:71 final size:68
Alignment explanation
Indices: 14397--15197 Score: 977
Period size: 71 Copynumber: 11.6 Consensus size: 68
14387 CACCGACTTG
** * * *
14397 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAACAAGGTGCCAC
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCAC
14461 GGAGT
64 GGAGT
* * *
14466 TGTGGGCTTTAAAAGGGAAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGTCA
1 TGTGGGCTTTAAAA-GG-AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAG-GTGCCA
14531 CGGAGT
63 CGGAGT
* * *
14537 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAAGAAAAAG-GTGCCA
14600 CGGAGT
63 CGGAGT
14606 TGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAGGTGCCA
1 TGTGGGCTTTAA-AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCT-TAAAAAGAAAAAGGTGCCA
14671 CGGAGT
63 CGGAGT
**
14677 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAG-GTGCC
*
14742 ACAGAGT
62 ACGGAGT
* **
14749 TGTGGGCTTTGAAAGGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-AAA-AGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAG-GTGCC
*
14814 ACAGAGT
62 ACGGAGT
* * *
14821 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCACG
14885 GAGT
65 GAGT
* * *
14889 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGG
14951 AGT
66 AGT
*
14954 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCA
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCA
15019 CGGAGT
63 CGGAGT
* * * *
15025 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAA-AAGAAAAAGGTGCCACG
15089 GAGT
65 GAGT
* * *
15093 TGTGGGCTTTGAAA-G---AAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCACG
15153 GAGT
65 GAGT
15157 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGTTGTGGGCTT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
15198 TGAAGAAAAA
Statistics
Matches: 661, Mismatches: 46, Indels: 54
0.87 0.06 0.07
Matches are distributed among these distances:
63 3 0.00
64 50 0.08
65 39 0.06
66 45 0.07
67 37 0.06
68 80 0.12
69 90 0.14
70 64 0.10
71 120 0.18
72 108 0.16
73 25 0.04
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (68 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGG
AGT
Found at i:15286 original size:63 final size:60
Alignment explanation
Indices: 15039--15389 Score: 220
Period size: 63 Copynumber: 5.5 Consensus size: 60
15029 GGCTTTAAAA
* * * * * * *
15039 AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTG
1 AGAAAAA--TGCCACTGAGTCGTGGACTTTAA-A-GAAAAGA-TGCCACTGAGTCGTGGACTTTG
* * * * * * * *
15104 A-AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AGAA-AA-ATGCCACTGAGTCGTGGACTTT--AAAGAA-AAGATGCCACTGAGTCGTGGACTTT-
*
15168 A
60 G
* * * * * * *
15169 AGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTAAGTCGTGGACTTTG
1 A-GAAAA-ATGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTG
*
15231 AGATAAAATGCCACTGAGTCGTGGACTTTAAAGATAAAGGATGCCACTGAGTCGTGGACTTTAA
1 AGA-AAAATGCCACTGAGTCGTGGACTTTAAAGA-AAA-GATGCCACTGAGTCGTGGACTTT-G
* * * *
15295 AGAAAAGGATGCCACTGGGTCGTGGACTTT-GAGCAGAGATTGCCACTGAGTCGTGGACTTTG
1 AGAAAA--ATGCCACTGAGTCGTGGACTTTAAAGAAAAGA-TGCCACTGAGTCGTGGACTTTG
* *
15357 AGAAGAGATTGCCACTTAGTCGTGGACTTTAAA
1 AGAA-A-AATGCCACTGAGTCGTGGACTTTAAA
15390 AAGGTATTTG
Statistics
Matches: 237, Mismatches: 31, Indels: 38
0.77 0.10 0.12
Matches are distributed among these distances:
61 24 0.10
62 32 0.14
63 68 0.29
64 56 0.24
65 28 0.12
66 27 0.11
67 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (60 bp):
AGAAAAATGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:15311 original size:32 final size:32
Alignment explanation
Indices: 14420--15309 Score: 629
Period size: 34 Copynumber: 26.2 Consensus size: 32
14410 AAGGGTGAAA
* * *
14420 GATGCCACGAAGTTGTGGACTTAAAAAGAACAAG
1 GATGCCACGGAGTTGTGGGCTT-TAAAGAA-AAG
*
14454 G-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAA
1 GATGCCACGGAGTTGTGGGCTTT-AAA--G-AAAAG
*
14489 GAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTTA-AA-GAAAAG
*
14523 GAGTGTCACGGAGTTGTGGGC-TTAGAAGGAAAA-
1 GA-TGCCACGGAGTTGTGGGCTTTA-AA-GAAAAG
* *
14556 GAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTT--AAA-GAAAAG
*
14592 GAGTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTT-A-AA--GAAAAG
*
14629 GAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCT-T-TAAAG-AAAAG
*
14665 G-TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 GATGCCACGGAGTTGTGGGCTTT--AAA--GAAAAG
**
14700 GAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
* *
14736 TG-TGCCACAGAGTTGTGGGCTTTGAAAGGGGAAAAA
1 -GATGCCACGGAGTTGTGGGCTTT-AAA---GAAAAG
**
14772 GAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
*
14808 TG-TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG
1 -GATGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
14843 G-TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG
1 GATGCCACGGAGTTGTGGGCTTT--AAAGAA-AAG
14877 G-TGCCACGGAGTTGTGGGCTTTAAAGGAAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAA-GAAAAG
*
14909 G-TGCCACAGAGTTGTGGGCTTTAAAAGAAAA-
1 GATGCCACGGAGTTGTGGGCTTT-AAAGAAAAG
* *
14940 AAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTT--AAA--GAAAAG
14977 GAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCTTT-AA-AG-AAAAG
15013 G-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 GATGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
* *
15047 G-TGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 GATGCCACGGAGTTGTGGGCTTTAAAGA--AAAG
*
15079 AAGTGCCACGGAGTTGTGGGCTTTGAAAG--AAG
1 GA-TGCCACGGAGTTGTGGGCTTT-AAAGAAAAG
15111 G-TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG
1 GATGCCACGGAGTTGTGGGCTTT--AAAGAA-AAG
15145 G-TGCCACGGAGTTGTGGGCTTTAAAGGAAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAA-GAAAAG
*
15177 G-TGCCACGGAGTTGTGGGCTTTGAAGAAAA-
1 GATGCCACGGAGTTGTGGGCTTTAAAGAAAAG
* ** * * *
15207 AATGCCACTAAGTCGTGGACTTT-GAGATAAA-
1 GATGCCACGGAGTTGTGGGCTTTAAAGA-AAAG
* * *
15238 -ATGCCACTGAGTCGTGGACTTTAAAGATAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAAGA-AAAG
* * *
15270 GATGCCACTGAGTCGTGGACTTTAAAGAAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAAGAAAAG
15302 GATGCCAC
1 GATGCCAC
15310 TGGGTCGTGG
Statistics
Matches: 750, Mismatches: 46, Indels: 122
0.82 0.05 0.13
Matches are distributed among these distances:
30 46 0.06
31 40 0.05
32 79 0.11
33 101 0.13
34 209 0.28
35 84 0.11
36 67 0.09
37 119 0.16
38 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (32 bp):
GATGCCACGGAGTTGTGGGCTTTAAAGAAAAG
Found at i:15325 original size:126 final size:126
Alignment explanation
Indices: 14874--15389 Score: 368
Period size: 126 Copynumber: 4.0 Consensus size: 126
14864 TGAAAAGAAG
* * * * * *
14874 AAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAG-AA
1 AAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTT--GAGCAA
** * * * * * * *
14938 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
64 AAAA-TGCCACTAAGTCGTGGACTTTG---A--G-AAGAGAATGCCACTGAGTCGTGGACTTT-A
*
15003 ACAGAAA
121 A-AGATA
* * * * *
15010 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATG
1 AAGGTGCCACGGAGTCGTGGACTTT--AAAGGAAAAGGTGCCACGGAGTCGTGGACTT--TGA-G
** * * * * * *
15075 -AAAAAAGTGCCACGGAGTTGTGGGCTTTGA-AAGA-AGGTGCCACGGAGTTGTGGGCTTTGAAA
61 CAAAAAA-TGCCACTAAGTCGTGGACTTTGAGAAGAGA-ATGCCACTGAGTCGTGGACTTT--AA
15137 AGA-A
122 AGATA
* * * *
15141 GAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG-AA
1 -AAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTG-AGCAA
15205 AAAATGCCACTAAGTCGTGGACTTTGAGATA-A-AATGCCACTGAGTCGTGGACTTTAAAGATA
64 AAAATGCCACTAAGTCGTGGACTTTGAGA-AGAGAATGCCACTGAGTCGTGGACTTTAAAGATA
*
15267 AAGGATGCCACTGAGTCGTGGACTTTAAA-GAAAAGGATGCCACTGG-GTCGTGGACTTTGAGCA
1 AAGG-TGCCACGGAGTCGTGGACTTTAAAGGAAAAGG-TGCCAC-GGAGTCGTGGACTTTGAGCA
* * * * * *
15330 GAGATTGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTTAGTCGTGGACTTTAAA
63 AAAAATGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCACTGAGTCGTGGACTTTAAA
15390 AAGGTATTTG
Statistics
Matches: 334, Mismatches: 28, Indels: 45
0.82 0.07 0.11
Matches are distributed among these distances:
125 19 0.06
126 67 0.20
127 63 0.19
128 11 0.03
129 2 0.01
130 29 0.09
131 2 0.01
132 53 0.16
133 3 0.01
136 26 0.08
138 29 0.09
139 30 0.09
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (126 bp):
AAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTGAGCAAAA
AATGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCACTGAGTCGTGGACTTTAAAGATA
Found at i:15342 original size:31 final size:30
Alignment explanation
Indices: 15077--15386 Score: 230
Period size: 31 Copynumber: 9.9 Consensus size: 30
15067 TAAAGATGAA
* * *
15077 AAAAG-TGCCACGGAGTTGTGGGCTTTGA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * * *
15105 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AA-AAGATGCCACTGAGTCGTGGACTTTG---AG
* * * * *
15139 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG
1 AA-AAGATGCCACTGAGTCGTGGACTTT-GA-G
* * * *
15172 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
15203 AAAAAATGCCACTAAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
15233 ATAAA-ATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTT-GAG
*
15264 ATAAAGGATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAA-GATGCCACTGAGTCGTGGACTTT-GAG
*
15297 AAAAGGATGCCACTGGGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
15328 CAGAGATTGCCACTGAGTCGTGGACTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
* *
15359 AAGAGATTGCCACTTAGTCGTGGACTTT
1 AAAAGA-TGCCACTGAGTCGTGGACTTT
15387 AAAAAGGTAT
Statistics
Matches: 251, Mismatches: 17, Indels: 25
0.86 0.06 0.09
Matches are distributed among these distances:
28 2 0.01
29 3 0.01
30 48 0.19
31 86 0.34
32 53 0.21
33 31 0.12
34 28 0.11
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:17153 original size:49 final size:49
Alignment explanation
Indices: 16940--18154 Score: 1573
Period size: 49 Copynumber: 25.8 Consensus size: 49
16930 GTCTTGCATT
* * * * * *
16940 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGAAGGAAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ATG--AAG
** * *
16992 GTGCTGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
17035 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
17083 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
17132 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
17180 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
17229 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
17278 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
17321 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
17370 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
17413 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
17461 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
17510 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
17558 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
17607 GTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
17656 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
17699 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
17748 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
17791 GTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
17840 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
17883 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
17932 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
17975 GTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
18024 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
18067 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
18115 GTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTA
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
18155 GAAGGGTTGC
Statistics
Matches: 1018, Mismatches: 93, Indels: 108
0.84 0.08 0.09
Matches are distributed among these distances:
43 300 0.29
45 7 0.01
47 6 0.01
48 229 0.22
49 446 0.44
52 30 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:17373 original size:92 final size:92
Alignment explanation
Indices: 16940--18159 Score: 1766
Period size: 92 Copynumber: 13.0 Consensus size: 92
16930 GTCTTGCATT
* * * * * * * **
16940 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGAAGGAAAAGGTGCTGATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ATG--AAGATGCCAATATGCT
*
17005 GATTCAAGGCCAGCTATATTGGACTTAAAG
63 GATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
17035 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
17099 TCAAGGCCAGCTACATTGGACTTAAAGATGAAG
66 TCAAGGCCAGCGATATTGGACTT----A--AAG
* * *
17132 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
17196 TCAAGGCCAGCTACATTGGACTTAAAGATGAAG
66 TCAAGGCCAGCGATATTGGACTT----A--AAG
* *
17229 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
17294 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
17321 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
17386 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
* * *
17413 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
17477 TCAAGGCCAGCTACATTGGACTTAAAGATGAAG
66 TCAAGGCCAGCGATATTGGACTT----A--AAG
* * *
17510 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
17574 TCAAGGCCAGCTACATTGGACTTAAAGATGAAG
66 TCAAGGCCAGCGATATTGGACTT----A--AAG
* * *
17607 GTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
17672 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
17699 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
17764 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
*
17791 GTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
17856 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
17883 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
17948 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
*
17975 GTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
18040 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
* * *
18067 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* * *
18131 TCAAGGCTAGCTACATTGGACTTAGAAG
66 TCAAGGCCAGCGATATTGGACTTA-AAG
18159 G
1 G
18160 GTTGCCACCG
Statistics
Matches: 1064, Mismatches: 46, Indels: 33
0.93 0.04 0.03
Matches are distributed among these distances:
91 111 0.10
92 551 0.52
94 3 0.00
95 40 0.04
97 287 0.27
98 72 0.07
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAG
Found at i:17693 original size:378 final size:378
Alignment explanation
Indices: 16940--18159 Score: 2016
Period size: 378 Copynumber: 3.2 Consensus size: 378
16930 GTCTTGCATT
* * * * * * * **
16940 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGAAGGAAAAGGTGCTGATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ATG--AAGATGCCAATATGCT
*
17005 GATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
63 GATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
17070 ACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
128 ACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
17135 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAA
193 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAA
17200 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
258 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
17265 CTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
323 CTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
17321 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
17386 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
66 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
17451 TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
131 TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
17516 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGC
196 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGC
*
17581 CAGCTACATTGGACTTAAAGATGAAGGTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
261 CAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
17646 AAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
326 AAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
17699 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
*
17764 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACT
66 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * * * *
17829 TAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCC
131 TAAAGGTG-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
* * *
17888 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAG
195 AATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGATTCAAG
* * * *
17953 GCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGAC
259 GCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
*
18012 TTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
324 TTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
18067 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* * *
18131 TCAAGGCTAGCTACATTGGACTTAGAAGG
66 TCAAGGCCAGCGATATTGGACTTA-AAGG
18160 GTTGCCACCG
Statistics
Matches: 804, Mismatches: 32, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
367 37 0.05
368 140 0.17
370 1 0.00
373 48 0.06
374 37 0.05
375 1 0.00
378 463 0.58
379 37 0.05
380 2 0.00
381 38 0.05
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (378 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGC
CAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
AAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
Found at i:18236 original size:67 final size:68
Alignment explanation
Indices: 18154--18327 Score: 284
Period size: 67 Copynumber: 2.6 Consensus size: 68
18144 CATTGGACTT
*
18154 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
*
18217 TGG
66 TAG
*
18220 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
18285 TAG
66 TAG
*
18288 AGAA-GGTTTGCCACCGACTTCTGTGGGCTTTAGA-AAGGGT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
18328 GAAAGATGCC
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
66 13 0.13
67 61 0.60
68 28 0.27
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (68 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
TAG
Found at i:18241 original size:34 final size:34
Alignment explanation
Indices: 18154--18327 Score: 284
Period size: 33 Copynumber: 5.2 Consensus size: 34
18144 CATTGGACTT
18154 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
18187 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
18220 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
18254 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
*
18288 AGAA-GGTTTGCCACCGACTTCTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
18321 A-AAGGGT
1 AGAAGGGT
18328 GAAAGATGCC
Statistics
Matches: 132, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
32 2 0.02
33 68 0.52
34 62 0.47
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:18439 original size:34 final size:35
Alignment explanation
Indices: 18309--19310 Score: 1181
Period size: 34 Copynumber: 29.3 Consensus size: 35
18299 CACCGACTTC
** *
18309 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGT
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGT
* * *
18345 TGTGGAC-TTAAAAAGAACAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
18378 TGTGGGCTTTAAAAGGGAAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAA-GG-AAAAAGAGTGCCACGGAGT
*
18415 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
18449 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
18482 TATGGGCTTT-AAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
18515 CGTGGAC-TTAAAA-G-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
18542 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* *
18579 TGTGGGCTGTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
18613 TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
* *
18649 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
18682 TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
18718 TGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAA-AA-GGAAAAAGAGTGCCACGGAGT
* *
18755 TGTGGGCTGTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
**
18789 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* * *
18826 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
**
18861 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* * *
18898 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
18933 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
18967 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
*
19001 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
19033 TGTGGGCTTTAAAA-GAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
19066 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
19103 TGTGGGCTTTAAACA-GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
19137 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
19171 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
19205 TGTGGGCTTTGAAA-G---AAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
19235 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
19269 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
19301 TGTGGGCTTT
1 TGTGGGCTTT
19311 GAAGAAAAAA
Statistics
Matches: 862, Mismatches: 55, Indels: 102
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.02
28 3 0.00
29 4 0.00
30 24 0.03
31 5 0.01
32 61 0.07
33 133 0.15
34 247 0.29
35 127 0.15
36 99 0.11
37 143 0.17
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:18452 original size:71 final size:70
Alignment explanation
Indices: 18309--19310 Score: 1202
Period size: 71 Copynumber: 14.6 Consensus size: 70
18299 CACCGACTTC
** * * *
18309 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGTTGTGGAC-TTAAAAAGAACAAG-GTGCC
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCC
18371 ACGGAGT
64 ACGGAGT
* * *
18378 TGTGGGCTTTAAAAGGGAAAAAAGAGTGCCACAGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCC
1 TGTGGGCTTTAAAA-GG-AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCC
18442 ACGGAGT
64 ACGGAGT
* * * *
18449 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGTTATGGGCTTT--AAAGGAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCAC
*
18510 GTAGT
66 GGAGT
* *
18515 CGTGGAC-TTAAAA-G-----G-GTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA--GAAAAAGAGTGCC
18572 ACGGAGT
64 ACGGAGT
* * *
18579 TGTGGGCTGTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAAGAGTGCCA
18643 CGGAGT
65 CGGAGT
* * *
18649 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAAGAGTGCCA
18712 CGGAGT
65 CGGAGT
*
18718 TGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAG-GTGCC
1 TGTGGGCTTTAA-AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCC
18782 ACGGAGT
64 ACGGAGT
** *
18789 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCC
*
18854 ACAGAGT
64 ACGGAGT
** *
18861 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCC
*
18926 ACAGAGT
64 ACGGAGT
* * *
18933 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCAC
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCAC
18996 GGAGT
66 GGAGT
*
19001 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAA-AGTGCCAC
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCAC
19061 GGAGT
66 GGAGT
*
19066 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG-GTGCC
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCC
19130 ACGGAGT
64 ACGGAGT
* * *
19137 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCA
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AAGAAAAAGAGTGCCA
19199 CGGAGT
65 CGGAGT
* * *
19205 TGTGGGCTTTGAAA-G---AAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCAC
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCAC
19264 GGAGT
66 GGAGT
19269 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGTTGTGGGCTTT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
19311 GAAGAAAAAA
Statistics
Matches: 837, Mismatches: 58, Indels: 79
0.86 0.06 0.08
Matches are distributed among these distances:
60 20 0.02
61 1 0.00
62 3 0.00
63 3 0.00
64 73 0.09
65 41 0.05
66 82 0.10
67 35 0.04
68 85 0.10
69 119 0.14
70 93 0.11
71 144 0.17
72 112 0.13
73 26 0.03
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (70 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCAC
GGAGT
Found at i:18535 original size:27 final size:28
Alignment explanation
Indices: 18497--18555 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
18487 GCTTTAAAGG
*
18497 AAAAGAGTGCCACGTAGTCGTGGAC-TT
1 AAAAGAGTGCCACGGAGTCGTGGACTTT
* * *
18524 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTCGTGGACTTT
18552 AAAA
1 AAAA
18556 AGGGAAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (28 bp):
AAAAGAGTGCCACGGAGTCGTGGACTTT
Found at i:19398 original size:63 final size:60
Alignment explanation
Indices: 19151--19501 Score: 220
Period size: 63 Copynumber: 5.5 Consensus size: 60
19141 GGCTTTAAAA
* * * * * * *
19151 AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTG
1 AGAAAAA--TGCCACTGAGTCGTGGACTTTAA-A-GAAAAGA-TGCCACTGAGTCGTGGACTTTG
* * * * * * * *
19216 A-AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AGAA-AA-ATGCCACTGAGTCGTGGACTTT--AAAGAA-AAGATGCCACTGAGTCGTGGACTTT-
*
19280 A
60 G
* * * * * * *
19281 AGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTAAGTCGTGGACTTTG
1 A-GAAAA-ATGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTG
*
19343 AGATAAAATGCCACTGAGTCGTGGACTTTAAAGATAAAGGATGCCACTGAGTCGTGGACTTTAA
1 AGA-AAAATGCCACTGAGTCGTGGACTTTAAAGA-AAA-GATGCCACTGAGTCGTGGACTTT-G
* * * *
19407 AGAAAAGGATGCCACTGGGTCGTGGACTTT-GAGCAGAGATTGCCACTGAGTCGTGGACTTTG
1 AGAAAA--ATGCCACTGAGTCGTGGACTTTAAAGAAAAGA-TGCCACTGAGTCGTGGACTTTG
* *
19469 AGAAGAGATTGCCACTTAGTCGTGGACTTTAAA
1 AGAA-A-AATGCCACTGAGTCGTGGACTTTAAA
19502 AAGGTATTTG
Statistics
Matches: 237, Mismatches: 31, Indels: 38
0.77 0.10 0.12
Matches are distributed among these distances:
61 24 0.10
62 32 0.14
63 68 0.29
64 56 0.24
65 28 0.12
66 27 0.11
67 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (60 bp):
AGAAAAATGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:19423 original size:32 final size:32
Alignment explanation
Indices: 18332--19421 Score: 732
Period size: 34 Copynumber: 32.2 Consensus size: 32
18322 AAGGGTGAAA
* * *
18332 GATGCCACGAAGTTGTGGACTTAAAAAGAACAAG
1 GATGCCACGGAGTTGTGGGCTT-TAAAGAA-AAG
*
18366 G-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAA
1 GATGCCACGGAGTTGTGGGCTTT-AAA--G-AAAAG
* *
18401 GAGTGCCACAGAGTTGTGGGC-TTAGAAGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTTA-AA-GAAAAG
18435 GAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAA-
1 GA-TGCCACGGAGTTGTGGGCTTTA-AA-GAAAAG
* *
18468 GAGTGCCACGTAGTTATGGGCTTTAAAGGAAAA-
1 GA-TGCCACGGAGTTGTGGGCTTTAAA-GAAAAG
* * *
18501 GAGTGCCACGTAGTCGTGGAC-TT----AAAAG
1 GA-TGCCACGGAGTTGTGGGCTTTAAAGAAAAG
* *
18529 GGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAA
1 GATGCCACGGAGTTGTGGGCTTT--AAA--GAAAAG
*
18565 GAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCT-T-TAAAG-AAAAG
*
18601 G-TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGGCTTT--AAA-GAAAAG
18635 GAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAA-
1 GA-TGCCACGGAGTTGTGGGCTTTA-AA-GAAAAG
* *
18668 GAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTT--AAA-GAAAAG
*
18704 GAGTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTT-A-AA--GAAAAG
*
18741 GAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCT-T-TAAAG-AAAAG
*
18777 G-TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 GATGCCACGGAGTTGTGGGCTTT--AAA--GAAAAG
**
18812 GAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
* *
18848 TG-TGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 -GATGCCACGGAGTTGTGGGCTTT--AAA--GAAAAG
**
18884 GAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
*
18920 TG-TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG
1 -GATGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
18955 G-TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG
1 GATGCCACGGAGTTGTGGGCTTT--AAAGAA-AAG
18989 G-TGCCACGGAGTTGTGGGCTTTAAAGGAAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAA-GAAAAG
*
19021 G-TGCCACAGAGTTGTGGGCTTTAAAAGAAAA-
1 GATGCCACGGAGTTGTGGGCTTT-AAAGAAAAG
* *
19052 AAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTT--AAA--GAAAAG
19089 GAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCTTT-AA-AG-AAAAG
19125 G-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 GATGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
* *
19159 G-TGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 GATGCCACGGAGTTGTGGGCTTTAAAGA--AAAG
*
19191 AAGTGCCACGGAGTTGTGGGCTTTGAAAG--AAG
1 GA-TGCCACGGAGTTGTGGGCTTT-AAAGAAAAG
19223 G-TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG
1 GATGCCACGGAGTTGTGGGCTTT--AAAGAA-AAG
19257 G-TGCCACGGAGTTGTGGGCTTTAAAGGAAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAA-GAAAAG
*
19289 G-TGCCACGGAGTTGTGGGCTTTGAAGAAAA-
1 GATGCCACGGAGTTGTGGGCTTTAAAGAAAAG
* ** * * *
19319 AATGCCACTAAGTCGTGGACTTT-GAGATAAA-
1 GATGCCACGGAGTTGTGGGCTTTAAAGA-AAAG
* * *
19350 -ATGCCACTGAGTCGTGGACTTTAAAGATAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAAGA-AAAG
* * *
19382 GATGCCACTGAGTCGTGGACTTTAAAGAAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAAGAAAAG
19414 GATGCCAC
1 GATGCCAC
19422 TGGGTCGTGG
Statistics
Matches: 916, Mismatches: 61, Indels: 160
0.81 0.05 0.14
Matches are distributed among these distances:
27 19 0.02
28 3 0.00
30 46 0.05
31 40 0.04
32 81 0.09
33 149 0.16
34 244 0.27
35 92 0.10
36 95 0.10
37 144 0.16
38 3 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (32 bp):
GATGCCACGGAGTTGTGGGCTTTAAAGAAAAG
Found at i:19437 original size:126 final size:126
Alignment explanation
Indices: 18986--19501 Score: 368
Period size: 126 Copynumber: 4.0 Consensus size: 126
18976 TGAAAAGAAG
* * * * * *
18986 AAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAG-AA
1 AAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTT--GAGCAA
** * * * * * * *
19050 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
64 AAAA-TGCCACTAAGTCGTGGACTTTG---A--G-AAGAGAATGCCACTGAGTCGTGGACTTT-A
*
19115 ACAGAAA
121 A-AGATA
* * * * *
19122 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATG
1 AAGGTGCCACGGAGTCGTGGACTTT--AAAGGAAAAGGTGCCACGGAGTCGTGGACTT--TGA-G
** * * * * * *
19187 -AAAAAAGTGCCACGGAGTTGTGGGCTTTGA-AAGA-AGGTGCCACGGAGTTGTGGGCTTTGAAA
61 CAAAAAA-TGCCACTAAGTCGTGGACTTTGAGAAGAGA-ATGCCACTGAGTCGTGGACTTT--AA
19249 AGA-A
122 AGATA
* * * *
19253 GAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG-AA
1 -AAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTG-AGCAA
19317 AAAATGCCACTAAGTCGTGGACTTTGAGATA-A-AATGCCACTGAGTCGTGGACTTTAAAGATA
64 AAAATGCCACTAAGTCGTGGACTTTGAGA-AGAGAATGCCACTGAGTCGTGGACTTTAAAGATA
*
19379 AAGGATGCCACTGAGTCGTGGACTTTAAA-GAAAAGGATGCCACTGG-GTCGTGGACTTTGAGCA
1 AAGG-TGCCACGGAGTCGTGGACTTTAAAGGAAAAGG-TGCCAC-GGAGTCGTGGACTTTGAGCA
* * * * * *
19442 GAGATTGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTTAGTCGTGGACTTTAAA
63 AAAAATGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCACTGAGTCGTGGACTTTAAA
19502 AAGGTATTTG
Statistics
Matches: 334, Mismatches: 28, Indels: 45
0.82 0.07 0.11
Matches are distributed among these distances:
125 19 0.06
126 67 0.20
127 63 0.19
128 11 0.03
129 2 0.01
130 29 0.09
131 2 0.01
132 53 0.16
133 3 0.01
136 26 0.08
138 29 0.09
139 30 0.09
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (126 bp):
AAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTGAGCAAAA
AATGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCACTGAGTCGTGGACTTTAAAGATA
Found at i:19454 original size:31 final size:30
Alignment explanation
Indices: 19189--19498 Score: 230
Period size: 31 Copynumber: 9.9 Consensus size: 30
19179 TAAAGATGAA
* * *
19189 AAAAG-TGCCACGGAGTTGTGGGCTTTGA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * * *
19217 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AA-AAGATGCCACTGAGTCGTGGACTTTG---AG
* * * * *
19251 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG
1 AA-AAGATGCCACTGAGTCGTGGACTTT-GA-G
* * * *
19284 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
19315 AAAAAATGCCACTAAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
19345 ATAAA-ATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTT-GAG
*
19376 ATAAAGGATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAA-GATGCCACTGAGTCGTGGACTTT-GAG
*
19409 AAAAGGATGCCACTGGGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
19440 CAGAGATTGCCACTGAGTCGTGGACTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
* *
19471 AAGAGATTGCCACTTAGTCGTGGACTTT
1 AAAAGA-TGCCACTGAGTCGTGGACTTT
19499 AAAAAGGTAT
Statistics
Matches: 251, Mismatches: 17, Indels: 25
0.86 0.06 0.09
Matches are distributed among these distances:
28 2 0.01
29 3 0.01
30 48 0.19
31 86 0.34
32 53 0.21
33 31 0.12
34 28 0.11
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:21265 original size:49 final size:49
Alignment explanation
Indices: 21052--22266 Score: 1573
Period size: 49 Copynumber: 25.8 Consensus size: 49
21042 GTCTTGCATT
* * * * * *
21052 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGAAGGAAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ATG--AAG
** * *
21104 GTGCTGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
21147 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
21195 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
21244 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
21292 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
21341 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
21390 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
21433 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
21482 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
21525 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
21573 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
21622 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
21670 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
21719 GTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
21768 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
21811 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
21860 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
21903 GTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
21952 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
21995 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
22044 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
22087 GTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
22136 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
22179 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
22227 GTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTA
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
22267 GAAGGGTTGC
Statistics
Matches: 1018, Mismatches: 93, Indels: 108
0.84 0.08 0.09
Matches are distributed among these distances:
43 300 0.29
45 7 0.01
47 6 0.01
48 229 0.22
49 446 0.44
52 30 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:21485 original size:92 final size:92
Alignment explanation
Indices: 21052--22271 Score: 1766
Period size: 92 Copynumber: 13.0 Consensus size: 92
21042 GTCTTGCATT
* * * * * * * **
21052 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGAAGGAAAAGGTGCTGATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ATG--AAGATGCCAATATGCT
*
21117 GATTCAAGGCCAGCTATATTGGACTTAAAG
63 GATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
21147 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
21211 TCAAGGCCAGCTACATTGGACTTAAAGATGAAG
66 TCAAGGCCAGCGATATTGGACTT----A--AAG
* * *
21244 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
21308 TCAAGGCCAGCTACATTGGACTTAAAGATGAAG
66 TCAAGGCCAGCGATATTGGACTT----A--AAG
* *
21341 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
21406 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
21433 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
21498 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
* * *
21525 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
21589 TCAAGGCCAGCTACATTGGACTTAAAGATGAAG
66 TCAAGGCCAGCGATATTGGACTT----A--AAG
* * *
21622 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* *
21686 TCAAGGCCAGCTACATTGGACTTAAAGATGAAG
66 TCAAGGCCAGCGATATTGGACTT----A--AAG
* * *
21719 GTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
21784 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
21811 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
21876 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
*
21903 GTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
21968 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
21995 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
22060 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
*
22087 GTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
22152 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
* * *
22179 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* * *
22243 TCAAGGCTAGCTACATTGGACTTAGAAG
66 TCAAGGCCAGCGATATTGGACTTA-AAG
22271 G
1 G
22272 GTTGCCACCG
Statistics
Matches: 1064, Mismatches: 46, Indels: 33
0.93 0.04 0.03
Matches are distributed among these distances:
91 111 0.10
92 551 0.52
94 3 0.00
95 40 0.04
97 287 0.27
98 72 0.07
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAG
Found at i:21805 original size:378 final size:378
Alignment explanation
Indices: 21052--22271 Score: 2016
Period size: 378 Copynumber: 3.2 Consensus size: 378
21042 GTCTTGCATT
* * * * * * * **
21052 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGAAGGAAAAGGTGCTGATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ATG--AAGATGCCAATATGCT
*
21117 GATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
63 GATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
21182 ACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
128 ACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
21247 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAA
193 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAA
21312 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
258 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
21377 CTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
323 CTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
21433 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
21498 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
66 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
21563 TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
131 TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
21628 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGC
196 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGC
*
21693 CAGCTACATTGGACTTAAAGATGAAGGTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
261 CAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
21758 AAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
326 AAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
21811 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
*
21876 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACT
66 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * * * *
21941 TAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCC
131 TAAAGGTG-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
* * *
22000 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAG
195 AATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGATTCAAG
* * * *
22065 GCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGAC
259 GCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
*
22124 TTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
324 TTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
22179 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* * *
22243 TCAAGGCTAGCTACATTGGACTTAGAAGG
66 TCAAGGCCAGCGATATTGGACTTA-AAGG
22272 GTTGCCACCG
Statistics
Matches: 804, Mismatches: 32, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
367 37 0.05
368 140 0.17
370 1 0.00
373 48 0.06
374 37 0.05
375 1 0.00
378 463 0.58
379 37 0.05
380 2 0.00
381 38 0.05
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (378 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGC
CAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
AAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
Found at i:22348 original size:67 final size:68
Alignment explanation
Indices: 22266--22439 Score: 284
Period size: 67 Copynumber: 2.6 Consensus size: 68
22256 CATTGGACTT
*
22266 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
*
22329 TGG
66 TAG
*
22332 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
22397 TAG
66 TAG
*
22400 AGAA-GGTTTGCCACCGACTTCTGTGGGCTTTAGA-AAGGGT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
22440 GAAAGATGCC
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
66 13 0.13
67 61 0.60
68 28 0.27
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (68 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
TAG
Found at i:22353 original size:34 final size:34
Alignment explanation
Indices: 22266--22439 Score: 284
Period size: 33 Copynumber: 5.2 Consensus size: 34
22256 CATTGGACTT
22266 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
22299 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
22332 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
22366 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
*
22400 AGAA-GGTTTGCCACCGACTTCTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
22433 A-AAGGGT
1 AGAAGGGT
22440 GAAAGATGCC
Statistics
Matches: 132, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
32 2 0.02
33 68 0.52
34 62 0.47
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:22551 original size:34 final size:35
Alignment explanation
Indices: 22421--23423 Score: 1183
Period size: 34 Copynumber: 29.3 Consensus size: 35
22411 CACCGACTTC
** *
22421 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGT
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGT
* * *
22457 TGTGGAC-TTAAAAAGAACAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
22490 TGTGGGCTTTAAAAGGGAAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GG-AAAAAGAGTGCCACGGAGT
*
22527 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
22561 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
22594 TATGGGCTTT-AAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
22627 CGTGGAC-TTAAAA-G-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
22654 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* *
22691 TGTGGGCTGTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
22725 TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
* *
22761 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
22794 TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
22830 TGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAA-AA-GGAAAAAGAGTGCCACGGAGT
* *
22867 TGTGGGCTGTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
**
22901 TGTGGGCTTTGAAAAGGCAAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGG--AAAAAGAGTGCCACGGAGT
* * *
22939 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
**
22974 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* * *
23011 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
23046 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
23080 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
*
23114 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
23146 TGTGGGCTTTAAAA-GAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
23179 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
23216 TGTGGGCTTTAAACA-GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
23250 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
23284 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
23318 TGTGGGCTTTGAAA-G---AAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
23348 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
23382 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
23414 TGTGGGCTTT
1 TGTGGGCTTT
23424 GAAGAAAAAA
Statistics
Matches: 864, Mismatches: 53, Indels: 104
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.02
28 3 0.00
29 4 0.00
30 24 0.03
31 5 0.01
32 61 0.07
33 133 0.15
34 248 0.29
35 127 0.15
36 88 0.10
37 135 0.16
38 20 0.02
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:22647 original size:27 final size:28
Alignment explanation
Indices: 22609--22667 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
22599 GCTTTAAAGG
*
22609 AAAAGAGTGCCACGTAGTCGTGGAC-TT
1 AAAAGAGTGCCACGGAGTCGTGGACTTT
* * *
22636 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTCGTGGACTTT
22664 AAAA
1 AAAA
22668 AGGGAAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (28 bp):
AAAAGAGTGCCACGGAGTCGTGGACTTT
Found at i:22913 original size:107 final size:103
Alignment explanation
Indices: 22636--23423 Score: 1016
Period size: 107 Copynumber: 7.6 Consensus size: 103
22626 TCGTGGACTT
* *
22636 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTGT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* *
22701 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
64 AAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAG
* * *
22742 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-
*
22805 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAACAAGGG
64 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA-AA-AG
*
22848 AAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-
**
22912 AAAAGGCAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAG
64 AAAAGG--AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* * **
22955 AAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTT
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* *
23020 TAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAAG
63 TAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
23062 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTT-A
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
23125 AAGG-AAAAGGTGCCACAGAGTTGTGGGCTTT-AAAAG
66 AAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
23161 AAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
23226 AAACA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
64 AAA-AGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* * *
23266 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGTTGTGGGCTTTG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
*
23329 AAA-G---AAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
65 AAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
23364 AAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAGGAAAAG-GTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
23424 GAAGAAAAAA
Statistics
Matches: 617, Mismatches: 43, Indels: 54
0.86 0.06 0.08
Matches are distributed among these distances:
96 28 0.05
97 1 0.00
98 53 0.09
99 34 0.06
100 25 0.04
101 13 0.02
102 51 0.08
103 59 0.10
104 49 0.08
105 58 0.09
106 56 0.09
107 114 0.18
108 15 0.02
109 41 0.07
110 20 0.03
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (103 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
AAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
Found at i:23511 original size:63 final size:60
Alignment explanation
Indices: 23264--23614 Score: 220
Period size: 63 Copynumber: 5.5 Consensus size: 60
23254 GGCTTTAAAA
* * * * * * *
23264 AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTG
1 AGAAAAA--TGCCACTGAGTCGTGGACTTTAA-A-GAAAAGA-TGCCACTGAGTCGTGGACTTTG
* * * * * * * *
23329 A-AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AGAA-AA-ATGCCACTGAGTCGTGGACTTT--AAAGAA-AAGATGCCACTGAGTCGTGGACTTT-
*
23393 A
60 G
* * * * * * *
23394 AGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTAAGTCGTGGACTTTG
1 A-GAAAA-ATGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTG
*
23456 AGATAAAATGCCACTGAGTCGTGGACTTTAAAGATAAAGGATGCCACTGAGTCGTGGACTTTAA
1 AGA-AAAATGCCACTGAGTCGTGGACTTTAAAGA-AAA-GATGCCACTGAGTCGTGGACTTT-G
* * * *
23520 AGAAAAGGATGCCACTGGGTCGTGGACTTT-GAGCAGAGATTGCCACTGAGTCGTGGACTTTG
1 AGAAAA--ATGCCACTGAGTCGTGGACTTTAAAGAAAAGA-TGCCACTGAGTCGTGGACTTTG
* *
23582 AGAAGAGATTGCCACTTAGTCGTGGACTTTAAA
1 AGAA-A-AATGCCACTGAGTCGTGGACTTTAAA
23615 AAGGTATTTG
Statistics
Matches: 237, Mismatches: 31, Indels: 38
0.77 0.10 0.12
Matches are distributed among these distances:
61 24 0.10
62 32 0.14
63 68 0.29
64 56 0.24
65 28 0.12
66 27 0.11
67 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (60 bp):
AGAAAAATGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:23536 original size:32 final size:32
Alignment explanation
Indices: 22444--23534 Score: 734
Period size: 34 Copynumber: 32.2 Consensus size: 32
22434 AAGGGTGAAA
* * *
22444 GATGCCACGAAGTTGTGGACTTAAAAAGAACAAG
1 GATGCCACGGAGTTGTGGGCTT-TAAAGAA-AAG
*
22478 G-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAA
1 GATGCCACGGAGTTGTGGGCTTT-AAA--G-AAAAG
*
22513 GAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTTA-AA-GAAAAG
22547 GAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAA-
1 GA-TGCCACGGAGTTGTGGGCTTTA-AA-GAAAAG
* *
22580 GAGTGCCACGTAGTTATGGGCTTTAAAGGAAAA-
1 GA-TGCCACGGAGTTGTGGGCTTTAAA-GAAAAG
* * *
22613 GAGTGCCACGTAGTCGTGGAC-TT----AAAAG
1 GA-TGCCACGGAGTTGTGGGCTTTAAAGAAAAG
* *
22641 GGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAA
1 GATGCCACGGAGTTGTGGGCTTT--AAA--GAAAAG
*
22677 GAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCT-T-TAAAG-AAAAG
*
22713 G-TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGGCTTT--AAA-GAAAAG
22747 GAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAA-
1 GA-TGCCACGGAGTTGTGGGCTTTA-AA-GAAAAG
* *
22780 GAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTT--AAA-GAAAAG
*
22816 GAGTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTT-A-AA--GAAAAG
*
22853 GAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCT-T-TAAAG-AAAAG
*
22889 G-TGCCACGGAGTTGTGGGCTTTGAAAAGGCAAAAAA
1 GATGCCACGGAGTTGTGGGCTTT--AAA-G--AAAAG
**
22925 GAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
* *
22961 TG-TGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 -GATGCCACGGAGTTGTGGGCTTT--AAA--GAAAAG
**
22997 GAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
*
23033 TG-TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG
1 -GATGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
23068 G-TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG
1 GATGCCACGGAGTTGTGGGCTTT--AAAGAA-AAG
23102 G-TGCCACGGAGTTGTGGGCTTTAAAGGAAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAA-GAAAAG
*
23134 G-TGCCACAGAGTTGTGGGCTTTAAAAGAAAA-
1 GATGCCACGGAGTTGTGGGCTTT-AAAGAAAAG
* *
23165 AAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 GA-TGCCACGGAGTTGTGGGCTTT--AAA--GAAAAG
23202 GAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG
1 GA-TGCCACGGAGTTGTGGGCTTT-AA-AG-AAAAG
23238 G-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 GATGCCACGGAGTTGTGGGCTTT--AAAG-AAAAG
* *
23272 G-TGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 GATGCCACGGAGTTGTGGGCTTTAAAGA--AAAG
*
23304 AAGTGCCACGGAGTTGTGGGCTTTGAAAG--AAG
1 GA-TGCCACGGAGTTGTGGGCTTT-AAAGAAAAG
23336 G-TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG
1 GATGCCACGGAGTTGTGGGCTTT--AAAGAA-AAG
23370 G-TGCCACGGAGTTGTGGGCTTTAAAGGAAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAA-GAAAAG
*
23402 G-TGCCACGGAGTTGTGGGCTTTGAAGAAAA-
1 GATGCCACGGAGTTGTGGGCTTTAAAGAAAAG
* ** * * *
23432 AATGCCACTAAGTCGTGGACTTT-GAGATAAA-
1 GATGCCACGGAGTTGTGGGCTTTAAAGA-AAAG
* * *
23463 -ATGCCACTGAGTCGTGGACTTTAAAGATAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAAGA-AAAG
* * *
23495 GATGCCACTGAGTCGTGGACTTTAAAGAAAAG
1 GATGCCACGGAGTTGTGGGCTTTAAAGAAAAG
23527 GATGCCAC
1 GATGCCAC
23535 TGGGTCGTGG
Statistics
Matches: 920, Mismatches: 59, Indels: 158
0.81 0.05 0.14
Matches are distributed among these distances:
27 19 0.02
28 3 0.00
30 46 0.05
31 40 0.04
32 81 0.09
33 149 0.16
34 245 0.27
35 87 0.09
36 101 0.11
37 123 0.13
38 26 0.03
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (32 bp):
GATGCCACGGAGTTGTGGGCTTTAAAGAAAAG
Found at i:23550 original size:126 final size:126
Alignment explanation
Indices: 23099--23614 Score: 368
Period size: 126 Copynumber: 4.0 Consensus size: 126
23089 TGAAAAGAAG
* * * * * *
23099 AAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAG-AA
1 AAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTT--GAGCAA
** * * * * * * *
23163 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
64 AAAA-TGCCACTAAGTCGTGGACTTTG---A--G-AAGAGAATGCCACTGAGTCGTGGACTTT-A
*
23228 ACAGAAA
121 A-AGATA
* * * * *
23235 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATG
1 AAGGTGCCACGGAGTCGTGGACTTT--AAAGGAAAAGGTGCCACGGAGTCGTGGACTT--TGA-G
** * * * * * *
23300 -AAAAAAGTGCCACGGAGTTGTGGGCTTTGA-AAGA-AGGTGCCACGGAGTTGTGGGCTTTGAAA
61 CAAAAAA-TGCCACTAAGTCGTGGACTTTGAGAAGAGA-ATGCCACTGAGTCGTGGACTTT--AA
23362 AGA-A
122 AGATA
* * * *
23366 GAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG-AA
1 -AAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTG-AGCAA
23430 AAAATGCCACTAAGTCGTGGACTTTGAGATA-A-AATGCCACTGAGTCGTGGACTTTAAAGATA
64 AAAATGCCACTAAGTCGTGGACTTTGAGA-AGAGAATGCCACTGAGTCGTGGACTTTAAAGATA
*
23492 AAGGATGCCACTGAGTCGTGGACTTTAAA-GAAAAGGATGCCACTGG-GTCGTGGACTTTGAGCA
1 AAGG-TGCCACGGAGTCGTGGACTTTAAAGGAAAAGG-TGCCAC-GGAGTCGTGGACTTTGAGCA
* * * * * *
23555 GAGATTGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTTAGTCGTGGACTTTAAA
63 AAAAATGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCACTGAGTCGTGGACTTTAAA
23615 AAGGTATTTG
Statistics
Matches: 334, Mismatches: 28, Indels: 45
0.82 0.07 0.11
Matches are distributed among these distances:
125 19 0.06
126 67 0.20
127 63 0.19
128 11 0.03
129 2 0.01
130 29 0.09
131 2 0.01
132 53 0.16
133 3 0.01
136 26 0.08
138 29 0.09
139 30 0.09
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (126 bp):
AAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTGAGCAAAA
AATGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCACTGAGTCGTGGACTTTAAAGATA
Found at i:23567 original size:31 final size:30
Alignment explanation
Indices: 23302--23611 Score: 230
Period size: 31 Copynumber: 9.9 Consensus size: 30
23292 TAAAGATGAA
* * *
23302 AAAAG-TGCCACGGAGTTGTGGGCTTTGA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * * *
23330 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AA-AAGATGCCACTGAGTCGTGGACTTTG---AG
* * * * *
23364 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG
1 AA-AAGATGCCACTGAGTCGTGGACTTT-GA-G
* * * *
23397 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
23428 AAAAAATGCCACTAAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
23458 ATAAA-ATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTT-GAG
*
23489 ATAAAGGATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAA-GATGCCACTGAGTCGTGGACTTT-GAG
*
23522 AAAAGGATGCCACTGGGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
23553 CAGAGATTGCCACTGAGTCGTGGACTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
* *
23584 AAGAGATTGCCACTTAGTCGTGGACTTT
1 AAAAGA-TGCCACTGAGTCGTGGACTTT
23612 AAAAAGGTAT
Statistics
Matches: 251, Mismatches: 17, Indels: 25
0.86 0.06 0.09
Matches are distributed among these distances:
28 2 0.01
29 3 0.01
30 48 0.19
31 86 0.34
32 53 0.21
33 31 0.12
34 28 0.11
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:24929 original size:15 final size:15
Alignment explanation
Indices: 24906--24951 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
24896 TTTGCCTTTG
*
24906 CACCCTTTTTTTTTA
1 CACCTTTTTTTTTTA
24921 CACCTTTTTTTTTTA
1 CACCTTTTTTTTTTA
*
24936 CTCTCTCTTTTTTTTT
1 CAC-CT-TTTTTTTTT
24952 TTGTTTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 2 0.07
17 9 0.33
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (15 bp):
CACCTTTTTTTTTTA
Found at i:31916 original size:52 final size:52
Alignment explanation
Indices: 31852--31979 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
31842 CGAAATATGA
*
31852 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGAAACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGAAACATCTGGGC
*
31904 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGAAACATCTGGGC
31956 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
31980 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 21 0.29
52 47 0.64
53 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGAAACATCTGGGC
Found at i:31992 original size:51 final size:50
Alignment explanation
Indices: 31852--31999 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 50
31842 CGAAATATGA
* *
31852 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGAAACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGC
31904 AAATTTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGC
31956 AAA-TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
32000 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.38
52 46 0.52
53 1 0.01
54 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGC
Found at i:32006 original size:13 final size:13
Alignment explanation
Indices: 31988--32012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31978 CAAAGATCAG
31988 TGTATCGATACAA
1 TGTATCGATACAA
32001 TGTATCGATACA
1 TGTATCGATACA
32013 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:32399 original size:49 final size:49
Alignment explanation
Indices: 32327--33010 Score: 928
Period size: 49 Copynumber: 14.6 Consensus size: 49
32317 CTTATTCAAG
32327 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
*
32376 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
32424 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* * *
32473 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
32522 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
32565 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* * *
32614 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAGTGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
32657 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
32706 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
32749 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
32798 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
32841 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
32890 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
*
32933 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
32981 GCTGATTCAAGGCCAGCTACATTGGACTTA
1 GCTGATTCAAGGCCAGCTACATTGGACTTA
33011 GAAGGGTTGC
Statistics
Matches: 557, Mismatches: 47, Indels: 63
0.84 0.07 0.09
Matches are distributed among these distances:
43 188 0.34
45 5 0.01
47 4 0.01
48 89 0.16
49 271 0.49
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
Found at i:32589 original size:92 final size:92
Alignment explanation
Indices: 32327--33015 Score: 1121
Period size: 92 Copynumber: 7.4 Consensus size: 92
32317 CTTATTCAAG
* * *
32327 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAG
* *
32392 CTACATTGGACTTAAAGATG-AGGTGCCAATGT
60 CTACATTGGACTTAAAGATGAAGATGCCAATAT
* *
32424 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAG
*
32489 CTACATTGGACTTAAAGATGATGATGCCAATAT
60 CTACATTGGACTTAAAGATGAAGATGCCAATAT
32522 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
32587 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
*
32614 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
32679 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
32706 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
32771 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
32798 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
32863 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
32890 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
* * *
32955 TGGACTTAAAGGTG-AGGTGCCAATGT
66 TGGACTTAAAGATGAAGATGCCAATAT
* *
32981 GCTGATTCAAGGCCAGCTACATTGGACTTAGAAGG
1 GCTGATTCAAGGCCAGCGATATTGGACTTA-AAGG
33016 GTTGCCACCG
Statistics
Matches: 576, Mismatches: 14, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
91 38 0.07
92 417 0.72
94 1 0.00
97 84 0.15
98 36 0.06
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
TGGACTTAAAGATGAAGATGCCAATAT
Found at i:33092 original size:67 final size:68
Alignment explanation
Indices: 33010--33177 Score: 279
Period size: 67 Copynumber: 2.5 Consensus size: 68
33000 CATTGGACTT
*
33010 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
*
33073 TGG
66 TAG
*
33076 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
33141 TAG
66 TAG
*
33144 AGAA-GGTTTGCCACCGACTTCTGTGGGCTTTAGA
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGA
33178 AAGTGTGAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
66 7 0.07
67 61 0.64
68 28 0.29
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (68 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
TAG
Found at i:33097 original size:34 final size:34
Alignment explanation
Indices: 33010--33177 Score: 279
Period size: 33 Copynumber: 5.0 Consensus size: 34
33000 CATTGGACTT
33010 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
33043 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
33076 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
33110 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
*
33144 AGAA-GGTTTGCCACCGACTTCTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
33177 A
1 A
33178 AAGTGTGAAA
Statistics
Matches: 127, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
33 65 0.51
34 62 0.49
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:33271 original size:37 final size:35
Alignment explanation
Indices: 33185--34338 Score: 1105
Period size: 34 Copynumber: 33.7 Consensus size: 35
33175 AGAAAGTGTG
* * * *
33185 AAAGATGCCACGAAGTTGTGGAC-TTAAAAAG-AAC
1 AAAG-TGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
*
33219 AAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAA-GG-AAAA
*
33256 AAAGTGCCACGGAGTTGTGGGC-TTAGAAGG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* * *
33289 AGAGTGCCACGTAGTTATGGGCTTT-AAAGG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* * * *
33322 AGAGTGCCACGTAGTCGTGGAC-TTAAAAGG----
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
33352 ---GTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAA
* * *
33386 AGAGTGCCACGGAGTTGTGGGCTGTAAAAAG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
*
33420 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAA
* *
33456 AGAGTGCCACGGAGTTGTGGGC-TTAGAAGG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* *
33489 AGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAA
*
33525 AGAGTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAA-AA-GGAAAA
* * *
33562 AGAGTGCCACGGAGTTGTGGGCTGTAAAAAG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
*
33596 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAA
* *
33633 AGAGTGCCACGGAGTTGTGGGC-TTAGAAGG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* *
33666 AGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAA
*
33702 AGAGTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAA-AA-GGAAAA
* * *
33739 AGAGTGCCACGGAGTTGTGGGCTGTAAAAAG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
*
33773 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAA
* *
33810 AGAGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAA
* ** * *
33847 AGAGTGCCACAAAGTTGTGGGCTTGAAAAAGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
** * *
33882 AGTGTGCCACAGAGTTGTGGGCTTTAAAAAG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* * *
33916 AAGGTGCCACGGAGTTGTGGAC-TTAAAGATG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAAA
*
33950 AAAGTGCCACGGAGTTGTGGGCTTT-----GAAAG
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* * * *
33980 AAGGTACCACGGAGTTGTGGGCGTTGAAAA-G-AAG
1 AAAGTGCCACGGAGTTGTGGGC-TTTAAAAGGAAAA
*
34014 AAGGTGCCACGGAGTTGTGGGCTTT-AAAGG--AA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* *
34046 AAGGTGCCACAGAGTTGTGGGCTTTAAAA-G-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
34079 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAA
*
34116 AGAGTGCCACGGAGTTGTGGGCTTTAAACA-G-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAAA
* *
34150 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* * *
34184 AAGGTGCCACGGAGTTGTGGAC-TTAAAGATG-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAAA
* *
34218 AAAGTGCCACAGAGTTGTGGGCTTT-----GAAAG
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* *
34248 AAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G-AAG
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAA
*
34282 AAGGTGCCACGGAGTTGTGGGCTTT-AAAGG--AA
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
*
34314 AAGGTGCCACGGAGTTGTGGGCTTT
1 AAAGTGCCACGGAGTTGTGGGCTTT
34339 GAAGAAAAAA
Statistics
Matches: 975, Mismatches: 85, Indels: 122
0.82 0.07 0.10
Matches are distributed among these distances:
27 16 0.02
28 2 0.00
29 6 0.01
30 49 0.05
31 2 0.00
32 60 0.06
33 160 0.16
34 277 0.28
35 78 0.08
36 106 0.11
37 219 0.22
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (35 bp):
AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
Found at i:33357 original size:27 final size:28
Alignment explanation
Indices: 33319--33377 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
33309 GCTTTAAAGG
*
33319 AAAAGAGTGCCACGTAGTCGTGGAC-TT
1 AAAAGAGTGCCACGGAGTCGTGGACTTT
* * *
33346 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTCGTGGACTTT
33374 AAAA
1 AAAA
33378 AGGGAAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (28 bp):
AAAAGAGTGCCACGGAGTCGTGGACTTT
Found at i:33432 original size:34 final size:34
Alignment explanation
Indices: 33346--34338 Score: 1169
Period size: 34 Copynumber: 28.8 Consensus size: 34
33336 TCGTGGACTT
*
33346 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA--G
*
33382 AAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
33417 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAG
*
33452 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AGAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* * *
33485 GAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAAG
*
33521 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAACAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAA-AA-AG
*
33558 AAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
33593 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
*
33629 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AGAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* * *
33662 GAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAAG
*
33698 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAACAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAA-AA-AG
*
33735 AAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
33770 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
* *
33806 AAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAA-AG
** *
33843 AAAAAGAGTGCCACAAAGTTGTGGGCTTGAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
33878 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
33913 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAG
* *
33947 AAAAAAGTGCCACGGAGTTGTGGGCTTT-GAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* * *
33980 ---AAGGTACCACGGAGTTGTGGGCGTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
34011 AAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
34043 GAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
34076 AAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
*
34112 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
34147 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
* *
34181 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAG
* * *
34215 AAAAAAGTGCCACAGAGTTGTGGGCTTT-GAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
34248 ---AAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
34279 AAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
34311 GAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT
34339 GAAGAAAAAA
Statistics
Matches: 850, Mismatches: 71, Indels: 76
0.85 0.07 0.08
Matches are distributed among these distances:
30 45 0.05
31 8 0.01
32 59 0.07
33 95 0.11
34 236 0.28
35 99 0.12
36 121 0.14
37 187 0.22
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
Found at i:33725 original size:177 final size:175
Alignment explanation
Indices: 33185--34371 Score: 1386
Period size: 177 Copynumber: 7.0 Consensus size: 175
33175 AGAAAGTGTG
* * * * *
33185 AAAGA-TGCCACGAAGTTGTGGAC-TTAAAAAGAACAAG-GTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAA
* * * * *
33247 AGGGAAAAAAAAGTGCCACGGAGTTGTGGGC-TT-AGAAGG-AAAAGAGTGCCACGTAGTTATGG
66 A---AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
* *
33309 GCTTTA-AAGGAAAAGAGTGCCACGTAGTCGTGGAC-TT-AAAA-G--
128 GCTTTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAA
33351 ---G-GTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTGTA
33412 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
64 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
33477 C-TTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAA
129 CTTTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAA
33523 AAAGAGTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAA-AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTGTA
33588 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGG
64 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGG
33653 GC-TTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAA
128 GCTTTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAA
33700 AAAGAGTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAA-AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTGTA
*
33765 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGG
64 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGG
* ** *
33830 GCTTTGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGC-TTGAAAAAGAA
128 GCTTT-AGAA-GG-AAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAA
* * * *
33880 AAAGTGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACT-TAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAA
* * *
33943 GATGAAAAAAGTGCCACGGAGTTGTGGGCTTTG-AAA-G---AAG-GTACCACGGAGTTGTGGGC
66 -AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC
* * *
34002 GTT-GAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTT--AAAGG-A
130 TTTAG-AAGGAA-AAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAA
* *
34045 AAAG-GTGCCACAGAGTTGTGGGCTTTAAAA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTGT-AA
*
34107 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAACA-GAAAAAG-GTGCCACGGAGTTGTG
65 AA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAA-AGGAAAAAGAGTGCCACGGAGTTGTG
* * * * *
34169 GGCTTTAAAAAGAAAA-AGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAA
127 GGCTTTAGAAGGAAAAGA-GTGCCACGTAGTTGTGGGCTTTGAAA-AGGAA
* * * *
34217 AAA-AGTGCCACAGAGTTGTGGGCTTTGAAA-G---AAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAA
*
34276 AAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAGG-AAAAG-GTGCCACGGAGTTGTGGGCT
66 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
* * *
34337 TT-GAA-GAAAA-AATGCCAC-TAAGTCGTGGACTTTGA
131 TTAGAAGGAAAAGAGTGCCACGT-AGTTGTGGGCTTTGA
34372 GATAAAATGC
Statistics
Matches: 924, Mismatches: 47, Indels: 103
0.86 0.04 0.10
Matches are distributed among these distances:
161 15 0.02
162 8 0.01
163 45 0.05
164 83 0.09
165 23 0.02
166 64 0.07
167 102 0.11
168 11 0.01
169 34 0.04
170 69 0.07
171 5 0.01
172 30 0.03
174 1 0.00
175 3 0.00
176 102 0.11
177 253 0.27
178 9 0.01
179 5 0.01
180 39 0.04
181 23 0.02
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (175 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAA
AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
TTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAA
Found at i:34426 original size:63 final size:61
Alignment explanation
Indices: 34120--34529 Score: 227
Period size: 63 Copynumber: 6.4 Consensus size: 61
34110 GGAAAAAGAG
* * * * * * * *
34120 TGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 TGCCACTGAGTCGTGGACTTT-AA-AGAAAAAGATGCCACTGAGTCGTGGACTTT---GAGAAAA
34185 A
61 A
* * * * * *
34186 GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACAGAGTTGTGGGCTTTGA-AAGA
1 --TGCCACTGAGTCGTGGACTTTAAAGA--AAAAGA-TGCCACTGAGTCGTGGACTTTGAGAA-A
*
34249 AGG
60 A-A
* * * * * * * * *
34252 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAG
1 TGCCACTGAGTCGTGGACTTT--AAAGAAAAAGATGCCACTGAGTCGTGGACTTT-GA-GAAAA-
*
34317 G
61 A
* * * * *
34318 TGCCACGGAGTTGTGGGCTTTGAAGAAAAA-ATGCCACTAAGTCGTGGACTTTGAGATAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGA-AAAA
*
34379 TGCCACTGAGTCGTGGACTTTAAAGATAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTAAAGA-AAAAGATGCCACTGAGTCGTGGACTTT-GAGAAAA--A
* * * * *
34444 TGCCACTGGGTCGTGGACTTT-GAG-CAGAGATTGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGA-TGCCACTGAGTCGTGGACTTTGAGAA-A-AA
*
34506 TGCCACTTAGTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAA
34530 AAGGTATTTG
Statistics
Matches: 285, Mismatches: 36, Indels: 47
0.77 0.10 0.13
Matches are distributed among these distances:
61 24 0.08
62 35 0.12
63 64 0.22
64 52 0.18
65 33 0.12
66 27 0.09
67 13 0.05
68 37 0.13
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAA
Found at i:34465 original size:126 final size:124
Alignment explanation
Indices: 33415--34530 Score: 612
Period size: 140 Copynumber: 8.3 Consensus size: 124
33405 GGCTGTAAAA
* *
33415 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-T
1 AGAAAAA--TGCCACGGAGTCGTGGACTTT-AAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTT
* * ** *
33479 TAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTG
61 TA-AA-GAAAAG-GTGCCACGGAGTTGTGGACTTTG--AA-GAAAAA-A-TGCCACTAAGTCGTG
*
33544 GGCTTTAACAAG
118 GACTTT-----G
* * * *
33556 GGAAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AG-AAAA-A-TGCCACGGAGTCGTGGACT-TTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * * *
33621 GAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGT-AGTTGTG
62 --AAA--G-AAAAG-GTGCCACGGAGTTGTGGACTTTGAA-GAAAA-AATGCCAC-TAAGTCGTG
*
33685 GGCTTTG
118 GACTTTG
* *
33692 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGTTGT
1 ---A-G-AAAA-A-TGCCACGGAGTCGTGGACTTTAA-AA--GAAAAAG-GTGCCACGGAGTTGT
* *
33757 GGGCTGTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC-A
55 GGGCT-T-TAAAG-AAAAGGTGCCACGGAGTTGTGGACTTTG--AA--GAAAAA-A-TGCCACTA
* *
33821 GAGTTGTGGGCTTTG
111 -AGTCGTGGACTTTG
** * * * *
33836 AAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTGAAAAAGAAAAAGTGTGCCACAGAGTTGTG
1 ---A--G-AAAA-A-TGCCACGGAGTCGTGGACTT-TAAAAGAAAAAG-GTGCCACGGAGTTGTG
* * ** *
33901 GGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTT
56 GGCTTT--AAAG-AAAAGGTGCCACGGAGTTGTGGACTT--TGAAGAAAAAA-TGCCACTAAGTC
*
33966 GTGGGCTTTG
115 GTGGACTTTG
* * * * * *
33976 A-AAGAAGGTACCACGGAGTTGTGGGCGTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AGAA-AA-ATGCCACGGAGTCGTGGAC-TTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
* * * ** * *
34040 AAGGAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTG
63 AA-GAAAAGGTGCCACGGAGTTGTGGACTTT-GAAGAAAAAA-TGCCACTAAGTCGTGGACTTTG
* *
34105 AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGG
1 ---A--G-AAAA-A-TGCCACGGAGTCGTGGACTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGG
* * *
34170 GCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCAC-AGAGTT
57 GCTTT--AAAG-AAAAGGTGCCACGGAGTTGTGGACTT--TGAAGAAAAAA-TGCCACTA-AGTC
*
34234 GTGGGCTTTG
115 GTGGACTTTG
* * * *
34244 A-AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AGAA-AA-ATGCCACGGAGTCGTGGACTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
*
34308 AAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTAAGTCGTGGACTTTG
63 AA-GAAAAGGTGCCACGGAGTTGTGGACTTTGAAGAAAAAATGCCACTAAGTCGTGGACTTTG
* * * * *
34371 AGATAAAATGCCACTGAGTCGTGGACTTT-AAAGATAAAAGATGCCACTGAGTCGTGGACTTTAA
1 AGA-AAAATGCCACGGAGTCGTGGACTTTAAAAGA-AAAAGGTGCCACGGAGTTGTGGGCTTTAA
* * * * *
34435 AGAAAAGGATGCCACTGG-GTCGTGGACTTTG-AGCAGAGATTGCCACTGAGTCGTGGACTTTG
64 AGAAAAGG-TGCCAC-GGAGTTGTGGACTTTGAAG-AAAAAATGCCACTAAGTCGTGGACTTTG
* **
34497 AGAAGAGATTGCCACTTAGTCGTGGACTTTAAAA
1 AGAA-A-AATGCCACGGAGTCGTGGACTTTAAAA
34531 AGGTATTTGA
Statistics
Matches: 842, Mismatches: 67, Indels: 145
0.80 0.06 0.14
Matches are distributed among these distances:
125 15 0.02
126 70 0.08
127 60 0.07
128 16 0.02
129 32 0.04
130 55 0.07
131 2 0.00
132 74 0.09
133 33 0.04
134 5 0.01
135 8 0.01
136 50 0.06
137 2 0.00
138 27 0.03
139 32 0.04
140 93 0.11
141 42 0.05
142 49 0.06
143 92 0.11
144 52 0.06
145 31 0.04
146 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (124 bp):
AGAAAAATGCCACGGAGTCGTGGACTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAG
AAAAGGTGCCACGGAGTTGTGGACTTTGAAGAAAAAATGCCACTAAGTCGTGGACTTTG
Found at i:34482 original size:31 final size:30
Alignment explanation
Indices: 34217--34526 Score: 230
Period size: 31 Copynumber: 9.9 Consensus size: 30
34207 TAAAGATGAA
* * *
34217 AAAAG-TGCCACAGAGTTGTGGGCTTTGA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * * *
34245 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AA-AAGATGCCACTGAGTCGTGGACTTTG---AG
* * * * *
34279 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG
1 AA-AAGATGCCACTGAGTCGTGGACTTT-GA-G
* * * *
34312 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
34343 AAAAAATGCCACTAAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
34373 ATAAA-ATGCCACTGAGTCGTGGACTTTAAAGAT
1 A-AAAGATGCCACTGAGTCGTGGACTTT---GAG
*
34406 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
1 AAAAGATGCCACTGAGTCGTGGACTTT-GAG
*
34437 AAAAGGATGCCACTGGGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
34468 CAGAGATTGCCACTGAGTCGTGGACTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
* *
34499 AAGAGATTGCCACTTAGTCGTGGACTTT
1 AAAAGA-TGCCACTGAGTCGTGGACTTT
34527 AAAAAGGTAT
Statistics
Matches: 246, Mismatches: 20, Indels: 29
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.01
29 3 0.01
30 47 0.19
31 85 0.35
32 52 0.21
33 29 0.12
34 28 0.11
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:35841 original size:14 final size:14
Alignment explanation
Indices: 35822--35862 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
35812 GCCTTTGCAC
35822 CCTTTTTTTTTACA
1 CCTTTTTTTTTACA
*
35836 CCTTTTTTTTTACT
1 CCTTTTTTTTTACA
35850 CTCTCTTTTTTTT
1 C-CT-TTTTTTTT
35863 TTGTTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 14 0.58
15 2 0.08
16 8 0.33
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (14 bp):
CCTTTTTTTTTACA
Done.