Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 77 of 136
Found at i:25149540 original size:81 final size:80
Alignment explanation
Indices: 25149404--25149838 Score: 398
Period size: 81 Copynumber: 5.4 Consensus size: 80
25149394 TATAACGGTC
* * ** * * * **
25149404 ATTTTACCCATT-GGGGGTATTTCGATAATTTTACCCTTTGGGGGCATTTCGGTAATTTTACCCT
1 ATTTTACCC-TTCGAGGGTATTTCGGTAATTTTACCAATCGAGGGTATTTTAGTAATTTTACCCT
25149468 TCGAGGGTATTTCGAT
65 TCGAGGGTATTTCGAT
* * *
25149484 AGTTTTATCCTTCAAGGGTATTTCAGTAATTTTACCAATCGAGGGTATTTTAGTAATTTTACCCT
1 A-TTTTACCCTTCGAGGGTATTTCGGTAATTTTACCAATCGAGGGTATTTTAGTAATTTTACCCT
*
25149549 TCGAGAGTATTTC-AGT
65 TCGAGGGTATTTCGA-T
* *
25149565 AATTTTACCCTTTGAGGGTATTTCGATAA-TTTACACAAT-GAGGGTATTTTAGTAATTTTACCC
1 -ATTTTACCCTTCGAGGGTATTTCGGTAATTTTAC-CAATCGAGGGTATTTTAGTAATTTTACCC
** * * *
25149628 AACGAAGGTATTTTGGT
64 TTCGAGGGTATTTCGAT
* ** *
25149645 CATTTTACTCTTCGAGGGTA-TTCTGGTAATTTTACCCTTCGCGGGTATTTT-GATAATTTTACC
1 -ATTTTACCCTTCGAGGGTATTTC-GGTAATTTTACCAATCGAGGGTATTTTAG-TAATTTTACC
* *
25149708 CTTCAAGGGTATTTCGGT
63 CTTCGAGGGTATTTCGAT
* * * * ** *
25149726 AAATTTACCCTTCGGGGGTATTTTGGAAATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCTC
1 -ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCAATCGAGGGTATTTTAGTAATTTTACC-C
*
25149791 TT-GAGGATATTTCGAT
64 TTCGAGGGTATTTCGAT
* *
25149807 CATTTTACCCTTCGGGGGTATTTCGGTCATTT
1 -ATTTTACCCTTCGAGGGTATTTCGGTAATTT
25149839 GCCCACAACT
Statistics
Matches: 290, Mismatches: 52, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
79 3 0.01
80 67 0.23
81 213 0.73
82 7 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (80 bp):
ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCAATCGAGGGTATTTTAGTAATTTTACCCTT
CGAGGGTATTTCGAT
Found at i:25150957 original size:36 final size:36
Alignment explanation
Indices: 25150882--25150949 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
25150872 CTCCCACAAA
**
25150882 CTCCTTGATTTTCTCCTAAAATCCCTCCTCTTATCC
1 CTCCTTGATTTTCTCCTAAAATCCCTCCTCCAATCC
*
25150918 CTCCTTGATTTTCTCCATCAAAT-CCTCC-CCAA
1 CTCCTTGATTTTCTCC-TAAAATCCCTCCTCCAA
25150950 CTGCCTCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 2 0.07
36 21 0.75
37 5 0.18
ACGTcount: A:0.19, C:0.40, G:0.03, T:0.38
Consensus pattern (36 bp):
CTCCTTGATTTTCTCCTAAAATCCCTCCTCCAATCC
Found at i:25154483 original size:15 final size:16
Alignment explanation
Indices: 25154458--25154487 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25154448 AATTTGTTCA
25154458 ATTATTTAAATTTTTT
1 ATTATTTAAATTTTTT
25154474 ATTA-TTAAATTTTT
1 ATTATTTAAATTTTT
25154488 ATAGATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTATTTAAATTTTTT
Found at i:25155262 original size:17 final size:17
Alignment explanation
Indices: 25155240--25155275 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25155230 AATTAATTTT
*
25155240 AATTAATTAATTTTCTC
1 AATTAAATAATTTTCTC
*
25155257 AATTAAATGATTTTCTC
1 AATTAAATAATTTTCTC
25155274 AA
1 AA
25155276 CCTGATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:25157752 original size:50 final size:50
Alignment explanation
Indices: 25157684--25157859 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 50
25157674 GATTATGAAC
*
25157684 GGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGA
1 GGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
* * *
25157734 GGTCCCACGTAAGGCCATGTCTGGGACATGGCGTTGGCACCAAGATGAGA
1 GGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
* * * * * *
25157784 GGTCCCCCATTAGACCATGTCTGGGACATGGGATGGGCACCGATATGAGA
1 GGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
** * * *
25157834 ACTCTCAAGTAAGACCATATCTGGGA
1 GGTCCCACGTAAGACCATGTCTGGGA
25157860 TATAACATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 105 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
GGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
Found at i:25158148 original size:20 final size:20
Alignment explanation
Indices: 25158123--25158171 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
25158113 TGAGTTATTT
25158123 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
25158143 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
25158163 AAG-AAGCAA
1 AAGTAAGCAA
25158172 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:25158420 original size:24 final size:24
Alignment explanation
Indices: 25158388--25158433 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
25158378 ACATTTTTAC
25158388 TTCTGGCATGTATAGGGACTTAAG
1 TTCTGGCATGTATAGGGACTTAAG
25158412 TTCTGGCATGTATAGGGACTTA
1 TTCTGGCATGTATAGGGACTTA
25158434 GTCATTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (24 bp):
TTCTGGCATGTATAGGGACTTAAG
Found at i:25165506 original size:50 final size:50
Alignment explanation
Indices: 25165410--25165588 Score: 205
Period size: 50 Copynumber: 3.5 Consensus size: 50
25165400 AGATCCCATG
* * *
25165410 TAAGACCATGTCTCGGACATGGCATTGGTATTATTGAGGTTATGAGAGGTCCCACA
1 TAAGACCATGTCTGGGACATGGCGTTGG---CATTGA-G--ATGAGAGGTCCCACA
*
25165466 TAAGACCATGTCTGGGACATGGCGTTGGCATTGAGATGAGAGGTCTCACA
1 TAAGACCATGTCTGGGACATGGCGTTGGCATTGAGATGAGAGGTCCCACA
** ***
25165516 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCTTG
1 TAAGACCATGTCTGGGACATGGCGTTGGCATTGAGATGAGAGGTCCCACA
* *
25165566 TAAGACTATGTCTAGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
25165589 ATGGGTACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
50 79 0.71
52 1 0.01
53 5 0.05
56 26 0.23
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCGTTGGCATTGAGATGAGAGGTCCCACA
Found at i:25165921 original size:20 final size:20
Alignment explanation
Indices: 25165896--25165944 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
25165886 TGAGTTATTT
25165896 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
25165916 AAGTAAG-AGAGTAAGTGAAG
1 AAGTAAGCA-AGTAAGTAAAC
25165936 AAG-AAGCAA
1 AAGTAAGCAA
25165945 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.55, C:0.06, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:25168577 original size:21 final size:21
Alignment explanation
Indices: 25168552--25168591 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25168542 TATTCTTCAT
* *
25168552 AATAATTAATAATATTGATTA
1 AATAATAAATAATAGTGATTA
25168573 AATAATAAATAATAGTGAT
1 AATAATAAATAATAGTGAT
25168592 ATTTTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
AATAATAAATAATAGTGATTA
Found at i:25172912 original size:22 final size:21
Alignment explanation
Indices: 25172887--25172930 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
25172877 CCGGATAATG
25172887 TTATTTTTAAATTTTTCTATTT
1 TTATTTTTAAATTTTTC-ATTT
**
25172909 TTATTTTTCTATTTTTCATTT
1 TTATTTTTAAATTTTTCATTT
25172930 T
1 T
25172931 CTTCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTTTTAAATTTTTCATTT
Found at i:25172916 original size:14 final size:15
Alignment explanation
Indices: 25172897--25172930 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
25172887 TTATTTTTAA
25172897 ATTTTTCTATTTTT-
1 ATTTTTCTATTTTTC
25172911 ATTTTTCTATTTTTC
1 ATTTTTCTATTTTTC
25172926 ATTTT
1 ATTTT
25172931 CTTCATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTCTATTTTTC
Found at i:25174453 original size:9 final size:8
Alignment explanation
Indices: 25174432--25174466 Score: 52
Period size: 9 Copynumber: 4.1 Consensus size: 8
25174422 ACACATTCTC
25174432 AACAGAAT
1 AACAGAAT
25174440 AACAGAAGT
1 AACAGAA-T
25174449 AACAGAAAT
1 AACAG-AAT
25174458 AACAGAAT
1 AACAGAAT
25174466 A
1 A
25174467 CTAAGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 11 0.44
9 12 0.48
10 2 0.08
ACGTcount: A:0.63, C:0.11, G:0.14, T:0.11
Consensus pattern (8 bp):
AACAGAAT
Found at i:25190008 original size:11 final size:11
Alignment explanation
Indices: 25189992--25190016 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25189982 TCATTAACTC
25189992 AATTATCATCA
1 AATTATCATCA
25190003 AATTATCATCA
1 AATTATCATCA
25190014 AAT
1 AAT
25190017 GTAAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTATCATCA
Found at i:25192543 original size:2 final size:2
Alignment explanation
Indices: 25192536--25192563 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25192526 CGCTTGGGTA
25192536 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
25192564 CATGTTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:25197944 original size:37 final size:37
Alignment explanation
Indices: 25197898--25197971 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
25197888 GAACACTTTC
* *
25197898 AATCGAAATCCGAAAGGCTATTGAATTGAAATAGAGT
1 AATCCAAATCCAAAAGGCTATTGAATTGAAATAGAGT
25197935 AATCCAAATCCAAAAGGCTATTGAATTGAAATAGAGT
1 AATCCAAATCCAAAAGGCTATTGAATTGAAATAGAGT
25197972 TTACTTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCCAAATCCAAAAGGCTATTGAATTGAAATAGAGT
Found at i:25212223 original size:27 final size:26
Alignment explanation
Indices: 25212185--25212453 Score: 186
Period size: 27 Copynumber: 10.0 Consensus size: 26
25212175 ATGGGCCACC
25212185 AATTATCAAAATACCCCCATAAGGTAA
1 AATTATCAAAATACCCCCA-AAGGTAA
* * *
25212212 AATTATCGAAATAACCTCGAAAGGTAA
1 AATTATCAAAAT-ACCCCCAAAGGTAA
** * ** *
25212239 AATTATTGAAATTCCCTTTAACGGTAA
1 AATTATCAAAATACCC-CCAAAGGTAA
* *
25212266 AATTA-CTGAAATACCCCCATAGGCTAA
1 AATTATC-AAAATACCCCCAAAGG-TAA
* * *
25212293 AATTACCAAAATACCCTCGAAGGGTAA
1 AATTATCAAAATACCC-CCAAAGGTAA
*
25212320 AATTATCAAAATA-CCTCAAAGGGTAA
1 AATTATCAAAATACCCCCAAA-GGTAA
* * *
25212346 AATTACCGAAATACCCTCATAAGGTAA
1 AATTATCAAAATACCCCCA-AAGGTAA
* *
25212373 AATTACCAAAATACCCTC-AAGAGTAA
1 AATTATCAAAATACCCCCAAAG-GTAA
* *
25212399 AATTATCAAAATACCCTCGAAATGTAA
1 AATTATCAAAATACCC-CCAAAGGTAA
* *
25212426 AATGA-CTAAAATACTCCCAAAGGGTAA
1 AATTATC-AAAATACCCCCAAA-GGTAA
25212453 A
1 A
25212454 GTGACAGTTA
Statistics
Matches: 194, Mismatches: 34, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
25 5 0.03
26 47 0.24
27 128 0.66
28 14 0.07
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (26 bp):
AATTATCAAAATACCCCCAAAGGTAA
Found at i:25212360 original size:53 final size:52
Alignment explanation
Indices: 25212185--25212453 Score: 213
Period size: 53 Copynumber: 5.0 Consensus size: 52
25212175 ATGGGCCACC
* * *
25212185 AATTATCAAAATACCC-CCATAAGGTAAAATTATCGAAATAACCTCGAAA-GGTAA
1 AATTACCAAAATACCCTCGA-AAGGTAAAATTA-CAAAAT-ACCTC-AAAGGGTAA
*** * ** * * * * *
25212239 AATTATTGAAATTCCCTTTAACGGTAAAATTACTGAAATACCCCCATAGGCTAA
1 AATTACCAAAATACCCTCGAAAGGTAAAATTAC-AAAATA-CCTCAAAGGGTAA
*
25212293 AATTACCAAAATACCCTCGAAGGGTAAAATTATCAAAATACCTCAAAGGGTAA
1 AATTACCAAAATACCCTCGAAAGGTAAAATTA-CAAAATACCTCAAAGGGTAA
* *
25212346 AATTACCGAAATACCCTC-ATAAGGTAAAATTACCAAAATACCCTC-AAGAGTAA
1 AATTACCAAAATACCCTCGA-AAGGTAAAATTA-CAAAATA-CCTCAAAGGGTAA
* * * *
25212399 AATTATCAAAATACCCTCGAAATGTAAAATGACTAAAATACTCCCAAAGGGTAA
1 AATTACCAAAATACCCTCGAAAGGTAAAATTAC-AAAATAC-CTCAAAGGGTAA
25212453 A
1 A
25212454 GTGACAGTTA
Statistics
Matches: 174, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
52 3 0.02
53 90 0.52
54 79 0.45
55 2 0.01
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (52 bp):
AATTACCAAAATACCCTCGAAAGGTAAAATTACAAAATACCTCAAAGGGTAA
Found at i:25212426 original size:80 final size:80
Alignment explanation
Indices: 25212193--25212428 Score: 291
Period size: 80 Copynumber: 2.9 Consensus size: 80
25212183 CCAATTATCA
* * * ** *
25212193 AAATACCCCCATAAGGTAAAATTATCGAAATAACCTCGAA-AGGTAAAATTATTGAAATTCCCTT
1 AAATACCCCCATAAGGTAAAATTACCAAAATACCCTCGAAGA-GTAAAATTATCAAAATACCC-T
* * *
25212257 TAACGGTAAAATTACTG
64 CAAAGGTAAAATTACCG
*
25212274 AAATACCCCCAT-AGGCTAAAATTACCAAAATACCCTCGAAGGGTAAAATTATCAAAATA-CCTC
1 AAATACCCCCATAAGG-TAAAATTACCAAAATACCCTCGAAGAGTAAAATTATCAAAATACCCTC
25212337 AAAGGGTAAAATTACCG
65 AAA-GGTAAAATTACCG
*
25212354 AAATACCCTCATAAGGTAAAATTACCAAAATACCCTC-AAGAGTAAAATTATCAAAATACCCTCG
1 AAATACCCCCATAAGGTAAAATTACCAAAATACCCTCGAAGAGTAAAATTATCAAAATACCCTC-
*
25212418 AAATGTAAAAT
65 AAAGGTAAAAT
25212429 GACTAAAATA
Statistics
Matches: 136, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
79 23 0.17
80 60 0.44
81 53 0.39
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (80 bp):
AAATACCCCCATAAGGTAAAATTACCAAAATACCCTCGAAGAGTAAAATTATCAAAATACCCTCA
AAGGTAAAATTACCG
Found at i:25212720 original size:26 final size:26
Alignment explanation
Indices: 25212649--25212723 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
25212639 ATGCCATATA
* * *
25212649 TACTGTTACTGGTAGCTTTCCTACGT
1 TACTGTTACTGGTAGCTTTGCTGCAT
*
25212675 TACTGTTATTGGTAGCTTTGCTGCAT
1 TACTGTTACTGGTAGCTTTGCTGCAT
*
25212701 TACTGTTACTGGCAGCTTTGCTG
1 TACTGTTACTGGTAGCTTTGCTG
25212724 TAATATTGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.43
Consensus pattern (26 bp):
TACTGTTACTGGTAGCTTTGCTGCAT
Found at i:25212881 original size:28 final size:28
Alignment explanation
Indices: 25212836--25212968 Score: 142
Period size: 28 Copynumber: 4.8 Consensus size: 28
25212826 ATTGTAATGT
*
25212836 TTACTGTAATGGGATAAGGCCCACACTA
1 TTACTGTAATGGGCTAAGGCCCACACTA
* * * *
25212864 TTTCTGTATTGGGCTAAGGCCCACAGTG
1 TTACTGTAATGGGCTAAGGCCCACACTA
* *
25212892 TTACTGTAATGGCCTAAGGCCCACAATA
1 TTACTGTAATGGGCTAAGGCCCACACTA
* * * * *
25212920 CTT-CTGTATTAGGCTAAGGCCTATACTG
1 -TTACTGTAATGGGCTAAGGCCCACACTA
25212948 TTACTGTAATGGGCTAAGGCC
1 TTACTGTAATGGGCTAAGGCC
25212969 ATACTGTACT
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
27 2 0.02
28 80 0.95
29 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (28 bp):
TTACTGTAATGGGCTAAGGCCCACACTA
Found at i:25212925 original size:56 final size:56
Alignment explanation
Indices: 25212836--25212968 Score: 194
Period size: 56 Copynumber: 2.4 Consensus size: 56
25212826 ATTGTAATGT
* * * * *
25212836 TTACTGTAATGGGATAAGGCCCACACTATTTCTGTATTGGGCTAAGGCCCACAGTG
1 TTACTGTAATGGGCTAAGGCCCACAATACTTCTGTATTAGGCTAAGGCCCACACTG
* * *
25212892 TTACTGTAATGGCCTAAGGCCCACAATACTTCTGTATTAGGCTAAGGCCTATACTG
1 TTACTGTAATGGGCTAAGGCCCACAATACTTCTGTATTAGGCTAAGGCCCACACTG
25212948 TTACTGTAATGGGCTAAGGCC
1 TTACTGTAATGGGCTAAGGCC
25212969 ATACTGTACT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (56 bp):
TTACTGTAATGGGCTAAGGCCCACAATACTTCTGTATTAGGCTAAGGCCCACACTG
Found at i:25219476 original size:27 final size:26
Alignment explanation
Indices: 25219459--25219843 Score: 330
Period size: 27 Copynumber: 14.3 Consensus size: 26
25219449 ACTCCCGTAA
* *
25219459 GGTAAAATTACTAAAATACCCTGAAAG
1 GGTAAAATTACTGAAATACCC-CAAAG
*
25219486 GGTAAAATTACCGAAATACCCTCAAAG
1 GGTAAAATTACTGAAATACCC-CAAAG
*
25219513 GGTAAAATTACTGAAATACCCCATAG
1 GGTAAAATTACTGAAATACCCCAAAG
25219539 GGTAAAATTA-TAGAAATACCCTCAAAG
1 GGTAAAATTACT-GAAATACCC-CAAAG
*
25219566 GGTAAAATTATTGAAATACCCTCAAAG
1 GGTAAAATTACTGAAATACCC-CAAAG
* *
25219593 GGTAAAATTA-TCGAAATACCCCCGATG
1 GGTAAAATTACT-GAAATA-CCCCAAAG
* * * **
25219620 GATAAAATTAC-CAAAGCACCCTTGAAG
1 GGTAAAATTACTGAAA-TACCC-CAAAG
*
25219647 GGTAAAATTATTGAAATACCCTCGAAA-
1 GGTAAAATTACTGAAATACCC-C-AAAG
*
25219674 GGTAAAATTACTGAAATACCCCTATAG
1 GGTAAAATTACTGAAATACCCC-AAAG
**
25219701 GGTAAAATTTTTGAAATACCCTCAAAG
1 GGTAAAATTACTGAAATACCC-CAAAG
** *
25219728 GGTAAAATTACCAAAATACCCCTGAAG
1 GGTAAAATTACTGAAATACCCC-AAAG
*
25219755 GGTAAAATTACTAAAATACCCTCAAAG
1 GGTAAAATTACTGAAATACCC-CAAAG
**
25219782 GGTAAAATTACCAAAATACCCCCGAAA-
1 GGTAAAATTACTGAAATA-CCCC-AAAG
** ** *
25219809 GGTAAAAAGACCAAAATACCCCCGAAG
1 GGTAAAATTACTGAAATA-CCCCAAAG
25219836 GGTAAAAT
1 GGTAAAAT
25219844 GATCGTTATA
Statistics
Matches: 304, Mismatches: 37, Indels: 34
0.81 0.10 0.09
Matches are distributed among these distances:
25 1 0.00
26 36 0.12
27 250 0.82
28 17 0.06
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.21
Consensus pattern (26 bp):
GGTAAAATTACTGAAATACCCCAAAG
Found at i:25219517 original size:54 final size:54
Alignment explanation
Indices: 25219438--25219843 Score: 398
Period size: 54 Copynumber: 7.5 Consensus size: 54
25219428 TGGGCCACAG
*
25219438 ATTATCGAAATACTCC-CGTAA-GGTAAAATTACTAAAATACCCTGAAAGGGTAAA
1 ATTATCGAAATAC-CCTC-AAAGGGTAAAATTACTAAAATACCCTGAAAGGGTAAA
* * * *
25219492 ATTACCGAAATACCCTCAAAGGGTAAAATTACTGAAATACCC-CATAGGGTAAA
1 ATTATCGAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTGAAAGGGTAAA
* * * *
25219545 ATTATAGAAATACCCTCAAAGGGTAAAATTATTGAAATACCCTCAAAGGGTAAA
1 ATTATCGAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTGAAAGGGTAAA
* * * * * **
25219599 ATTATCGAAATACCCCCGATGGATAAAATTACCAAAGCACCCTTG-AAGGGTAAA
1 ATTATCGAAATACCCTCAAAGGGTAAAATTACTAAAATACCC-TGAAAGGGTAAA
* * *
25219653 ATTATTGAAATACCCTCGAAA-GGTAAAATTACTGAAATACCCCT-ATAGGGTAAA
1 ATTATCGAAATACCCTC-AAAGGGTAAAATTACTAAAATA-CCCTGAAAGGGTAAA
* * *
25219707 ATTTTTGAAATACCCTCAAAGGGTAAAATTACCAAAATACCCCTG-AAGGGTAAA
1 ATTATCGAAATACCCTCAAAGGGTAAAATTACTAAAATA-CCCTGAAAGGGTAAA
* * *
25219761 ATTA-CTAAAATACCCTCAAAGGGTAAAATTACCAAAATACCCCCGAAA-GGTAAA
1 ATTATC-GAAATACCCTCAAAGGGTAAAATTACTAAAATA-CCCTGAAAGGGTAAA
** * * * *
25219815 AAGACCAAAATACCCCCGAAGGGTAAAAT
1 ATTATCGAAATACCCTCAAAGGGTAAAAT
25219844 GATCGTTATA
Statistics
Matches: 298, Mismatches: 42, Indels: 24
0.82 0.12 0.07
Matches are distributed among these distances:
53 55 0.18
54 235 0.79
55 8 0.03
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (54 bp):
ATTATCGAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTGAAAGGGTAAA
Found at i:25219813 original size:81 final size:81
Alignment explanation
Indices: 25219459--25219843 Score: 417
Period size: 81 Copynumber: 4.8 Consensus size: 81
25219449 ACTCCCGTAA
*
25219459 GGTAAAATTACTAAAATACCCT-GAAAGGGTAAAATTACCGAAATACCCTCAAAGGGTAAAATTA
1 GGTAAAATTACTAAAATACCCTCGAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTA
*
25219523 CTGAAATACCCCATAG
66 CTGAAATACCCCAAAG
** *
25219539 GGTAAAATTA-TAGAAATACCCTC-AAAGGGTAAAATTATTGAAATACCCTCAAAGGGTAAAATT
1 GGTAAAATTACTA-AAATACCCTCGAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATT
* *
25219602 A-TCGAAATACCCCCGATG
65 ACT-GAAATA-CCCCAAAG
* * ** * ** *
25219620 GATAAAATTACCAAAGCACCCTTG-AAGGGTAAAATTATTGAAATACCCTCGAAAGGTAAAATTA
1 GGTAAAATTACTAAAATACCCTCGAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTA
*
25219684 CTGAAATACCCCTATAG
66 CTGAAATACCCC-AAAG
** * *
25219701 GGTAAAATTTTTGAAATACCCTC-AAAGGGTAAAATTACCAAAATACCC-CTGAAGGGTAAAATT
1 GGTAAAATTACTAAAATACCCTCGAAAGGGTAAAATTACCGAAATACCCTC-GAAGGGTAAAATT
*
25219764 ACTAAAATACCCTCAAAG
65 ACTGAAATACCC-CAAAG
* * ** * *
25219782 GGTAAAATTACCAAAATACCCCCGAAA-GGTAAAAAGACCAAAATACCCCCGAAGGGTAAAAT
1 GGTAAAATTACTAAAATACCCTCGAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAAT
25219844 GATCGTTATA
Statistics
Matches: 256, Mismatches: 36, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
79 3 0.01
80 69 0.27
81 177 0.69
82 7 0.03
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.21
Consensus pattern (81 bp):
GGTAAAATTACTAAAATACCCTCGAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTA
CTGAAATACCCCAAAG
Found at i:25220065 original size:26 final size:26
Alignment explanation
Indices: 25220036--25220159 Score: 151
Period size: 26 Copynumber: 4.8 Consensus size: 26
25220026 ATACCACTTA
25220036 TACTGTTACTGGCAGCTTTGTTGCGT
1 TACTGTTACTGGCAGCTTTGTTGCGT
*
25220062 TACTGTTACTGGTAGCTTTGTTGCGT
1 TACTGTTACTGGCAGCTTTGTTGCGT
* * * *
25220088 TACTATTACTGGAAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGTTGCGT
* *
25220114 TACTGTTACTGGCAGATTTGCTT-TGT
1 TACTGTTACTGGCAGCTTTG-TTGCGT
* *
25220140 TACTATTACTGGCAACTTTG
1 TACTGTTACTGGCAGCTTTG
25220160 CTACAATATT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 82 0.99
27 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.43
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGTTGCGT
Found at i:25220320 original size:28 final size:28
Alignment explanation
Indices: 25220271--25220381 Score: 147
Period size: 28 Copynumber: 4.0 Consensus size: 28
25220261 TGCATTGTAT
*
25220271 TGTTTACTGTAATGGGCT-AGGCCCATAC
1 TGTTT-CTGTAATGGGCTAAGGCCCACAC
*
25220299 TGTTTCTGTATTGGGCTAAGGCCCACAC
1 TGTTTCTGTAATGGGCTAAGGCCCACAC
25220327 TGTTAT-TGTAATGGGCTAAGGCCCACAC
1 TGTT-TCTGTAATGGGCTAAGGCCCACAC
* *
25220355 TATTTCTATAATGGGCTAAGG-CCACAC
1 TGTTTCTGTAATGGGCTAAGGCCCACAC
25220382 CGTATGATAC
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
27 18 0.24
28 56 0.75
29 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (28 bp):
TGTTTCTGTAATGGGCTAAGGCCCACAC
Found at i:25223665 original size:14 final size:14
Alignment explanation
Indices: 25223646--25223674 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25223636 AATCACTTAG
25223646 TCTGTATGTATAGT
1 TCTGTATGTATAGT
25223660 TCTGTATGTATAGT
1 TCTGTATGTATAGT
25223674 T
1 T
25223675 TCCTGCGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (14 bp):
TCTGTATGTATAGT
Found at i:25229807 original size:45 final size:45
Alignment explanation
Indices: 25229709--25229824 Score: 184
Period size: 46 Copynumber: 2.6 Consensus size: 45
25229699 TTTGAGTAGT
25229709 TCTGATCAAGTGACAAAGTGATAAGTGGTACCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTACC-TTAGCTACACTTA
25229755 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTA-CCTTAGCTACACTTA
*
25229800 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
25229825 ATCATACGTA
Statistics
Matches: 68, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
43 12 0.18
44 5 0.07
45 19 0.28
46 30 0.44
47 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTACCTTAGCTACACTTA
Found at i:25237147 original size:29 final size:29
Alignment explanation
Indices: 25237104--25237261 Score: 196
Period size: 29 Copynumber: 5.4 Consensus size: 29
25237094 ATCATCGACC
*
25237104 AATGAAAAGGGATAGCTTCAGCTATTGAAT
1 AATGAAAAGGGATAGCTTCGGCTA-TGAAT
*
25237134 -ATGAAAAGGGATAGCTTCGGCTAAAGAAT
1 AATGAAAAGGGATAGCTTCGGCT-ATGAAT
* *
25237163 -ATGAAAAAGGATAGCTTCGGCTATCAAT
1 AATGAAAAGGGATAGCTTCGGCTATGAAT
* *
25237191 AATGAAAAGGGATAGATTCAGCTATCG-AT
1 AATGAAAAGGGATAGCTTCGGCTAT-GAAT
* *
25237220 AATGAAAAGGGATAGCTTTGGCTATCAAT
1 AATGAAAAGGGATAGCTTCGGCTATGAAT
25237249 AATGAAAAGGGAT
1 AATGAAAAGGGAT
25237262 GTTGACGACC
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.04
29 106 0.95
30 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (29 bp):
AATGAAAAGGGATAGCTTCGGCTATGAAT
Found at i:25237275 original size:29 final size:28
Alignment explanation
Indices: 25237185--25237291 Score: 94
Period size: 29 Copynumber: 3.7 Consensus size: 28
25237175 AGCTTCGGCT
* *
25237185 ATCAATAATGAAAAGGGATAGATTCAGCT
1 ATCAATAATGAAAAGGGAT-GATTGAGCC
* * *
25237214 ATCGATAATGAAAAGGGATAGCTTTG-GCT
1 ATCAATAATGAAAAGGGAT-G-ATTGAGCC
25237243 ATCAATAATGAAAAGGGATG-TTGACGACC
1 ATCAATAATGAAAAGGGATGATTGA-G-CC
25237272 ATCAACT-ATGAAAAGGGATG
1 ATCAA-TAATGAAAAGGGATG
25237292 GTGACAACCA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.04
28 2 0.03
29 60 0.88
30 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.23
Consensus pattern (28 bp):
ATCAATAATGAAAAGGGATGATTGAGCC
Found at i:25237276 original size:87 final size:88
Alignment explanation
Indices: 25237104--25237290 Score: 224
Period size: 87 Copynumber: 2.1 Consensus size: 88
25237094 ATCATCGACC
* * *
25237104 AATGAAAAGGGATAGCTTCAGCTATTGAATATGAAAAGGGATAGCTTCGGCTAAAGAATATGAAA
1 AATGAAAAGGGATAGATTCAGCTATCGAATATGAAAAGGGATAGCTTCGGCTAAACAATATGAAA
* *
25237169 AAGGATAGCTTCGGCTATCAA-T
66 AAGGATAGCTTCGACCATCAACT
* *
25237191 AATGAAAAGGGATAGATTCAGCTATCG-ATAATGAAAAGGGATAGCTTTGGCT-ATCAATAATGA
1 AATGAAAAGGGATAGATTCAGCTATCGAAT-ATGAAAAGGGATAGCTTCGGCTAAACAAT-ATGA
*
25237254 AAAGGGAT-G-TTGACGACCATCAACT
64 AAAAGGATAGCTT--CGACCATCAACT
25237279 -ATGAAAAGGGAT
1 AATGAAAAGGGAT
25237291 GGTGACAACC
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
85 2 0.02
86 7 0.08
87 77 0.89
88 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.24
Consensus pattern (88 bp):
AATGAAAAGGGATAGATTCAGCTATCGAATATGAAAAGGGATAGCTTCGGCTAAACAATATGAAA
AAGGATAGCTTCGACCATCAACT
Found at i:25237283 original size:58 final size:57
Alignment explanation
Indices: 25237105--25237290 Score: 189
Period size: 58 Copynumber: 3.2 Consensus size: 57
25237095 TCATCGACCA
* * * * * **
25237105 ATGAAAAGGGATAGCTTCAGCTATTGAAT-ATGAAAAGGGATAGCTTCGGCTAAAGAAT
1 ATGAAAAGGGATAGCTTCGGCTA-TCAATAATGAAAAGGGATAGATTCAGC-CATCAAT
* * *
25237163 ATGAAAAAGGATAGCTTCGGCTATCAATAATGAAAAGGGATAGATTCAGCTATCGAT
1 ATGAAAAGGGATAGCTTCGGCTATCAATAATGAAAAGGGATAGATTCAGCCATCAAT
* *
25237220 AATGAAAAGGGATAGCTTTGGCTATCAATAATGAAAAGGGAT-G-TTGACGACCATCAACT
1 -ATGAAAAGGGATAGCTTCGGCTATCAATAATGAAAAGGGATAGATTCA-G-CCATCAA-T
25237279 ATGAAAAGGGAT
1 ATGAAAAGGGAT
25237291 GGTGACAACC
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
56 3 0.03
57 9 0.08
58 96 0.88
59 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (57 bp):
ATGAAAAGGGATAGCTTCGGCTATCAATAATGAAAAGGGATAGATTCAGCCATCAAT
Found at i:25237382 original size:29 final size:29
Alignment explanation
Indices: 25237250--25237382 Score: 135
Period size: 29 Copynumber: 4.6 Consensus size: 29
25237240 GCTATCAATA
* *
25237250 ATGAAAAGGGAT-GTTGACGACCATC-AACT
1 ATGAAAAGGGATGGTT-TCAACCATCGAA-T
** *
25237279 ATGAAAAGGGATGGTGACAACCATCGATT
1 ATGAAAAGGGATGGTTTCAACCATCGAAT
*
25237308 AATGAAAAGGGATGGTTTCAAGCATCGAAT
1 -ATGAAAAGGGATGGTTTCAACCATCGAAT
* **
25237338 ATGAAAACGGATGGTTTTGACCATCGAAT
1 ATGAAAAGGGATGGTTTCAACCATCGAAT
*
25237367 ATGAAAAGGGACGGTT
1 ATGAAAAGGGATGGTT
25237383 ATGGAAAGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
29 60 0.68
30 28 0.32
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCAACCATCGAAT
Found at i:25243271 original size:29 final size:29
Alignment explanation
Indices: 25243236--25243301 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
25243226 TCATCGAACA
25243236 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
25243265 ATGAAAAAGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
25243294 ATGAAAAG
1 ATGAAAAG
25243302 AGATGACGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:25243357 original size:29 final size:29
Alignment explanation
Indices: 25243287--25243522 Score: 156
Period size: 29 Copynumber: 8.1 Consensus size: 29
25243277 AGCTTCGGCT
* * ** *
25243287 ATCGATTATGAAAAGAGATGACGACAACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* *
25243316 ATC-AACTACGAAAAGGGATGGTGACAACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
* ** *
25243345 ATCGAATATGAAAAGGGATAGCTTTCG-CT
1 ATCGAATATGAAAAGGGAT-GGTGACGACC
* *
25243374 ATCG-ATAATGTAAAGGAATGGTGACGACC
1 ATCGAAT-ATGAAAAGGGATGGTGACGACC
* * * *
25243403 AT-TAATTATGAAAAGGGGTGTTGACAACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
* **
25243432 ATCGATTAATGAAAAGGGATGGTTTCGACC
1 ATCGAAT-ATGAAAAGGGATGGTGACGACC
* * ** *
25243462 ATCAAATATGAAAACGGATGGTTCCGATC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* *
25243491 ATCGAATATGAAAAGGGACGGTTACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
25243520 ATC
1 ATC
25243523 ATTTAGCACA
Statistics
Matches: 158, Mismatches: 40, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
28 7 0.04
29 122 0.77
30 29 0.18
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:25243364 original size:87 final size:87
Alignment explanation
Indices: 25243258--25243451 Score: 239
Period size: 87 Copynumber: 2.2 Consensus size: 87
25243248 AGCTTCGGCT
* *
25243258 ATCGAATATGAAAAAGGATAGC-TTCGGCTATCGATTATGAAAA-GAGATGACGACAACCATCAA
1 ATCGAATATGAAAAGGGATAGCTTTC-GCTATCGATAATGAAAAGGA-ATGACGACAACCATCAA
25243321 CTACGAAAAGGGATGGTGACAACC
64 CTACGAAAAGGGATGGTGACAACC
* ** * * *
25243345 ATCGAATATGAAAAGGGATAGCTTTCGCTATCGATAATGTAAAGGAATGGTGACGACCATTAATT
1 ATCGAATATGAAAAGGGATAGCTTTCGCTATCGATAATGAAAAGGAATGACGACAACCATCAACT
* * *
25243410 ATGAAAAGGGGTGTTGACAACC
66 ACGAAAAGGGATGGTGACAACC
*
25243432 ATCGATTAATGAAAAGGGAT
1 ATCGAAT-ATGAAAAGGGAT
25243452 GGTTTCGACC
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
87 75 0.82
88 17 0.18
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (87 bp):
ATCGAATATGAAAAGGGATAGCTTTCGCTATCGATAATGAAAAGGAATGACGACAACCATCAACT
ACGAAAAGGGATGGTGACAACC
Found at i:25252390 original size:29 final size:29
Alignment explanation
Indices: 25252316--25252438 Score: 99
Period size: 28 Copynumber: 4.3 Consensus size: 29
25252306 CATATAACTT
* * * *
25252316 AGCCTTTATGGCTATATTTATTAAATGGA
1 AGCCTTTGTGGCTATCTTTGTTAAAAGGA
* *
25252345 AGCCTCTGTAG-TGATCTTTGTTAAAAGGA
1 AGCCTTTGTGGCT-ATCTTTGTTAAAAGGA
* * *
25252374 ATCCTTTGTGGCTATCTCTGTT-AACGGA
1 AGCCTTTGTGGCTATCTTTGTTAAAAGGA
* * *
25252402 AGCCTTTGTGACTATCTCTCTT-AAAGGA
1 AGCCTTTGTGGCTATCTTTGTTAAAAGGA
*
25252430 AGCATTTGT
1 AGCCTTTGT
25252439 TAAAAGGGAG
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
28 38 0.50
29 37 0.49
30 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.38
Consensus pattern (29 bp):
AGCCTTTGTGGCTATCTTTGTTAAAAGGA
Found at i:25255656 original size:20 final size:20
Alignment explanation
Indices: 25255628--25255707 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
25255618 CGTGCCTCTG
* *
25255628 TTTGGACTTCAGTACCCCTA
1 TTTGTACTTTAGTACCCCTA
*
25255648 TTTGTACTTTTGTACCCCTAA
1 TTTGTACTTTAGTACCCCT-A
* * * * *
25255669 ATTGCAC-ATACGTGCCCCTT
1 TTTGTACTTTA-GTACCCCTA
25255689 TTTGTACTTTAGTACCCCT
1 TTTGTACTTTAGTACCCCT
25255708 GAATTACACA
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (20 bp):
TTTGTACTTTAGTACCCCTA
Found at i:25255780 original size:41 final size:41
Alignment explanation
Indices: 25255642--25255787 Score: 193
Period size: 41 Copynumber: 3.6 Consensus size: 41
25255632 GACTTCAGTA
** *
25255642 CCCCTATTTGTACTTTTGTACCCCTAAATTGCACATACGTG
1 CCCCTATTTGTACTTCGGTACCCCTAAATTACACATACGTG
* ** *
25255683 CCCCTTTTTGTACTTTAGTACCCCTGAATTACACATACGTG
1 CCCCTATTTGTACTTCGGTACCCCTAAATTACACATACGTG
* * * *
25255724 CCCCTGTTTCTACTTCGGTACCCCTAAATTATAGATACGTG
1 CCCCTATTTGTACTTCGGTACCCCTAAATTACACATACGTG
25255765 CCCCTATTTGTACTTCGGTACCC
1 CCCCTATTTGTACTTCGGTACCC
25255788 TTGGATGTAC
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (41 bp):
CCCCTATTTGTACTTCGGTACCCCTAAATTACACATACGTG
Found at i:25260212 original size:30 final size:27
Alignment explanation
Indices: 25260161--25260220 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
25260151 AAATCTATCC
*
25260161 TTTTATTATTATTGTTATTATTTAACTAA
1 TTTTATTATTATCGTTATTATTT--CTAA
* *
25260190 TTTTATTTATTCTCGTTTTTATTTCTAA
1 TTTTA-TTATTATCGTTATTATTTCTAA
25260218 TTT
1 TTT
25260221 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.26
29 5 0.19
30 15 0.56
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (27 bp):
TTTTATTATTATCGTTATTATTTCTAA
Found at i:25268258 original size:22 final size:22
Alignment explanation
Indices: 25268233--25268292 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
25268223 GAACAAGCCA
*
25268233 CCACTAATTTGCATATGAACTG
1 CCACTAATTTGCAGATGAACTG
25268255 CCACTAATTTGCAGATGAACTG
1 CCACTAATTTGCAGATGAACTG
* *
25268277 CCACTAGTTTGTAGAT
1 CCACTAATTTGCAGAT
25268293 AAGCTACCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (22 bp):
CCACTAATTTGCAGATGAACTG
Found at i:25268302 original size:22 final size:22
Alignment explanation
Indices: 25268232--25268303 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
25268222 TGAACAAGCC
*
25268232 ACCACTAATTTGCATATGAACT
1 ACCACTAATTTGCAGATGAACT
*
25268254 GCCACTAATTTGCAGATGAACT
1 ACCACTAATTTGCAGATGAACT
* * *
25268276 GCCACTAGTTTGTAGAT-AAGCT
1 ACCACTAATTTGCAGATGAA-CT
25268298 ACCACT
1 ACCACT
25268304 GATAACACTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 2 0.05
22 42 0.95
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (22 bp):
ACCACTAATTTGCAGATGAACT
Found at i:25272373 original size:27 final size:27
Alignment explanation
Indices: 25272343--25272404 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
25272333 AAAATTATCA
25272343 AAATACCCTCGAAGGGTAAAATGACCG
1 AAATACCCTCGAAGGGTAAAATGACCG
*
25272370 AAATACCCTCGAAGGGTAAAATGACTG
1 AAATACCCTCGAAGGGTAAAATGACCG
25272397 AAATACCC
1 AAATACCC
25272405 CTATAAGGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATGACCG
Found at i:25272414 original size:27 final size:26
Alignment explanation
Indices: 25272343--25272434 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 26
25272333 AAAATTATCA
* * *
25272343 AAATACCCTCGAAGGGTAAAATGACCG
1 AAATACCC-CTAAAGGTAAAATGACTG
* *
25272370 AAATACCCTCGAAGGGTAAAATGACTG
1 AAATACCC-CTAAAGGTAAAATGACTG
*
25272397 AAATACCCCTATAAGGTAAAATGATTG
1 AAATACCCCTA-AAGGTAAAATGACTG
**
25272424 TTATACCCCTA
1 AAATACCCCTA
25272435 GGAGATGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.03
27 56 0.97
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (26 bp):
AAATACCCCTAAAGGTAAAATGACTG
Found at i:25275250 original size:41 final size:41
Alignment explanation
Indices: 25275172--25275252 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
25275162 TATTTTGTTG
*
25275172 AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTAGATACCCCTA
* * *
25275213 AATTGTACATGCGTGCCCCTGTTTGTACTTCAG-TACCCCT
1 AATTGCACATACGTGCCCCTATTTGTACTT-AGATACCCCT
25275253 GGATGTAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTATTTGTACTTAGATACCCCTA
Found at i:25292782 original size:15 final size:15
Alignment explanation
Indices: 25292762--25292807 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
25292752 TCACTCGCTT
25292762 TTTCTTTTTCATCTC
1 TTTCTTTTTCATCTC
*
25292777 TTTC-TTTTC-TCAC
1 TTTCTTTTTCATCTC
25292790 TTT-TTTTTCACTCTC
1 TTTCTTTTTCA-TCTC
25292805 TTT
1 TTT
25292808 TTTCAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.42
14 5 0.19
15 10 0.38
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTCTTTTTCATCTC
Found at i:25292827 original size:19 final size:20
Alignment explanation
Indices: 25292803--25292847 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
25292793 TTTTTCACTC
25292803 TCTTTTT-TCAAGTTTTC-TT
1 TCTTTTTCTC-AGTTTTCTTT
*
25292822 TCTTTTTCTCATTTTTCTTT
1 TCTTTTTCTCAGTTTTCTTT
25292842 TCTTTT
1 TCTTTT
25292848 GTATTTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (20 bp):
TCTTTTTCTCAGTTTTCTTT
Found at i:25292868 original size:14 final size:13
Alignment explanation
Indices: 25292820--25292871 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
25292810 TCAAGTTTTC
25292820 TTTCTTTTTCTCATT
1 TTTCTTTTTCT--TT
25292835 TTTC-TTTTCTTT
1 TTTCTTTTTCTTT
* *
25292847 TGTATTTTTGCTTT
1 TTTCTTTTT-CTTT
25292861 TTTCTTTTTCT
1 TTTCTTTTTCT
25292872 CTCACTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 4 0.13
13 6 0.19
14 17 0.55
15 4 0.13
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTCTTTTTCTTT
Found at i:25296657 original size:11 final size:11
Alignment explanation
Indices: 25296641--25296690 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
25296631 TCGTAAGTGT
25296641 TTGAGCTGAAA
1 TTGAGCTGAAA
25296652 TTGAGCTG--A
1 TTGAGCTGAAA
*
25296661 TTCGAGCT--CA
1 TT-GAGCTGAAA
25296671 TTGAGCTGAAA
1 TTGAGCTGAAA
25296682 TTGAGCTGA
1 TTGAGCTGA
25296691 TTCGAGCTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 8 0.24
10 8 0.24
11 18 0.53
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (11 bp):
TTGAGCTGAAA
Found at i:25296675 original size:19 final size:19
Alignment explanation
Indices: 25296651--25296709 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
25296641 TTGAGCTGAA
25296651 ATTGAGCTGATTCGAGCTC
1 ATTGAGCTGATTCGAGCTC
25296670 ATTGAGCTGA----A----
1 ATTGAGCTGATTCGAGCTC
25296681 ATTGAGCTGATTCGAGCTC
1 ATTGAGCTGATTCGAGCTC
25296700 ATTGAGCTGA
1 ATTGAGCTGA
25296710 AATGGAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 16
0.67 0.00 0.33
Matches are distributed among these distances:
11 10 0.31
15 2 0.06
19 20 0.62
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (19 bp):
ATTGAGCTGATTCGAGCTC
Found at i:25296677 original size:30 final size:30
Alignment explanation
Indices: 25296641--25296712 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
25296631 TCGTAAGTGT
25296641 TTGAGCTGAAATTGAGCTGATTCGAGCTCA
1 TTGAGCTGAAATTGAGCTGATTCGAGCTCA
25296671 TTGAGCTGAAATTGAGCTGATTCGAGCTCA
1 TTGAGCTGAAATTGAGCTGATTCGAGCTCA
25296701 TTGAGCTGAAAT
1 TTGAGCTGAAAT
25296713 GGAATTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATTGAGCTGATTCGAGCTCA
Found at i:25298743 original size:28 final size:28
Alignment explanation
Indices: 25298688--25298836 Score: 167
Period size: 28 Copynumber: 5.4 Consensus size: 28
25298678 TATACCGTAT
*
25298688 CAGT-ACAGTGT-GGCCTTAACCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCATTA
* *
25298714 CAGTAACAGTGTGGGGCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCATTA
* * *
25298742 CAGAAATAGTGTGGGCCTTAGCCTATTA
1 CAGTAACAGTGTGGGCCTTAGCCCATTA
* * *
25298770 TAGTAACAATGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCATTA
* * *
25298798 TAGAAATAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCATTA
25298826 CAGTAAACAGT
1 CAGT-AACAGT
25298837 ACAATGCAGT
Statistics
Matches: 99, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
26 4 0.04
27 7 0.07
28 83 0.84
29 5 0.05
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCATTA
Found at i:25298775 original size:56 final size:56
Alignment explanation
Indices: 25298694--25298836 Score: 216
Period size: 56 Copynumber: 2.6 Consensus size: 56
25298684 GTATCAGTAC
* *
25298694 AGTGT-GGCCTTAACCCATTACAGTAACAGTGTGGGGCTTAGCCCAATACAGAAAT
1 AGTGTGGGCCTTAGCCCATTACAGTAACAGTGTGGGCCTTAGCCCAATACAGAAAT
* * * *
25298749 AGTGTGGGCCTTAGCCTATTATAGTAACAATGTGGGCCTTAGCCCAATATAGAAAT
1 AGTGTGGGCCTTAGCCCATTACAGTAACAGTGTGGGCCTTAGCCCAATACAGAAAT
25298805 AGTGTGGGCCTTAGCCCATTACAGTAAACAGT
1 AGTGTGGGCCTTAGCCCATTACAGT-AACAGT
25298837 ACAATGCAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 5 0.06
56 67 0.87
57 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (56 bp):
AGTGTGGGCCTTAGCCCATTACAGTAACAGTGTGGGCCTTAGCCCAATACAGAAAT
Found at i:25298971 original size:26 final size:26
Alignment explanation
Indices: 25298942--25299044 Score: 161
Period size: 26 Copynumber: 4.0 Consensus size: 26
25298932 ACACCAATAT
*
25298942 CGCAACAAAGCTGCCAGTAATAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
* *
25298968 CGCAGCAAAGTTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
*
25298994 CGTAACAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
*
25299020 CGCAACAAAGCTGCCAGTAAGAGTA
1 CGCAACAAAGCTGCCAGTAACAGTA
25299045 TATGTGGCAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (26 bp):
CGCAACAAAGCTGCCAGTAACAGTAA
Found at i:25299068 original size:52 final size:52
Alignment explanation
Indices: 25298945--25299070 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
25298935 CCAATATCGC
** * * *
25298945 AACAAAGCTGCCAGTAATAGTAACGCAGCAAAGTTGCCAGTAACAGTAACGT
1 AACAAAGCCACCAGTAACAGTAACGCAACAAAGCTGCCAGTAACAGTAACGT
** * *
25298997 AACAAAGCTGCCAGTAACAGTAACGCAACAAAGCTGCCAGTAAGAGTATATGT
1 AACAAAGCCACCAGTAACAGTAACGCAACAAAGCTGCCAGTAACAGTA-ACGT
**
25299050 GGCAAAGCCACCAG-AACAGTA
1 AACAAAGCCACCAGTAACAGTA
25299071 TACTTCCCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 51 0.80
53 13 0.20
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.15
Consensus pattern (52 bp):
AACAAAGCCACCAGTAACAGTAACGCAACAAAGCTGCCAGTAACAGTAACGT
Found at i:25299253 original size:27 final size:27
Alignment explanation
Indices: 25299223--25299672 Score: 407
Period size: 27 Copynumber: 16.7 Consensus size: 27
25299213 TCCATTTCCT
**
25299223 AGGGGTATAACGGTAATTTTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* *
25299250 AGGGGTATTTCGATCATTTTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* * * **
25299277 GGGGGTATTTTGATCCTTTTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* * *
25299304 AGAGGTATTTCAGTAATTTTACCCTTT
1 AGGGGTATTTCGGTAATTTTACCCTTC
* *
25299331 ATGGGTATTTCGATAATTTTACCCTT-
1 AGGGGTATTTCGGTAATTTTACCCTTC
* * *
25299357 TGAGGGTATTTTGGTAATTTTA--CTTT
1 AG-GGGTATTTCGGTAATTTTACCCTTC
*
25299383 ATGGGGGTATTTTGGTAATTTTACCCTTC
1 A--GGGGTATTTCGGTAATTTTACCCTTC
* *
25299412 AAGGGTATTTCGGTAACTTTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* *
25299439 -GAGGGTATTTCGGTAATTTTACCATTT
1 AG-GGGTATTTCGGTAATTTTACCCTTC
* * * *
25299466 GGGGGTGTTTCAGTAATTTTACCCATC
1 AGGGGTATTTCGGTAATTTTACCCTTC
** ** *
25299493 AATGGTATTTCAATAAATTTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
25299520 -GAGGGTATTTCGGTAATTTTACCCTT-
1 AG-GGGTATTTCGGTAATTTTACCCTTC
* *
25299546 AGGGGTATTTTGTTAATTTTACCCTT-
1 AGGGGTATTTCGGTAATTTTACCCTTC
* *
25299572 TGTGGGTATTTTGGTAATTTTACCCTAT-
1 AG-GGGTATTTCGGTAATTTTACCCT-TC
**
25299600 AGGGGTATTTCTATAATTTTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
25299627 -GAGGGTATTTCGGTAATTTTACCCTAT-
1 AG-GGGTATTTCGGTAATTTTACCCT-TC
*
25299654 AGAGGTATTTCGGTAATTT
1 AGGGGTATTTCGGTAATTT
25299673 GTGGCCCATT
Statistics
Matches: 347, Mismatches: 60, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.01
26 25 0.07
27 309 0.89
28 6 0.02
29 4 0.01
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.43
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTTACCCTTC
Found at i:25299671 original size:54 final size:54
Alignment explanation
Indices: 25299222--25299672 Score: 455
Period size: 54 Copynumber: 8.4 Consensus size: 54
25299212 TTCCATTTCC
** * * *
25299222 TAGGGGTATAACGGTAATTTTACCCTTC-AGGGGTATTTCGATCATTTTACCCT-
1 TAGGGGTATTTCGATAATTTTACCCTTCGA-GGGTATTTCGGTAATTTTACCCTA
* * ** * *
25299275 TCGGGGGTATTTTGATCCTTTTACCCTTC-AGAGGTATTTCAGTAATTTTACCCTT
1 T-AGGGGTATTTCGATAATTTTACCCTTCGAG-GGTATTTCGGTAATTTTACCCTA
* * * **
25299330 TATGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTTGGTAATTTTACTTTA
1 TAGGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTA
* * * * *
25299384 TGGGGGTATTTTGGTAATTTTACCCTTCAAGGGTATTTCGGTAACTTTACCCT-
1 TAGGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTA
* * * * * * *
25299437 TCGAGGGTATTTCGGTAATTTTACCATTTGGGGGTGTTTCAGTAATTTTACCC-A
1 TAG-GGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTA
** * *
25299491 TCAATGGTATTTCAATAAATTTACCCTTCGAGGGTATTTCGGTAATTTTACCCT-
1 T-AGGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTA
* * * * *
25299545 TAGGGGTATTTTGTTAATTTTACCCTTTGTGGGTATTTTGGTAATTTTACCCTA
1 TAGGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTA
*
25299599 TAGGGGTATTTCTATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTA
1 TAGGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTA
* *
25299653 TAGAGGTATTTCGGTAATTT
1 TAGGGGTATTTCGATAATTT
25299673 GTGGCCCATT
Statistics
Matches: 320, Mismatches: 69, Indels: 17
0.79 0.17 0.04
Matches are distributed among these distances:
53 47 0.15
54 270 0.84
55 3 0.01
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.43
Consensus pattern (54 bp):
TAGGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTA
Found at i:25299865 original size:42 final size:42
Alignment explanation
Indices: 25299803--25299887 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
25299793 TCTTTTTCGG
25299803 CTTTTCGGCTTTTACCGATTTGCAGATGAGAGGGTGTGATCA
1 CTTTTCGGCTTTTACCGATTTGCAGATGAGAGGGTGTGATCA
* *
25299845 CTTTTCGGCTTTTGCTGATTTGCAGATGAGAGGGTGTGATCA
1 CTTTTCGGCTTTTACCGATTTGCAGATGAGAGGGTGTGATCA
25299887 C
1 C
25299888 ACACCTGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.36
Consensus pattern (42 bp):
CTTTTCGGCTTTTACCGATTTGCAGATGAGAGGGTGTGATCA
Found at i:25303367 original size:5 final size:5
Alignment explanation
Indices: 25303357--25303381 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25303347 TCACTCAACC
25303357 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
25303382 ATTAATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:25306430 original size:29 final size:30
Alignment explanation
Indices: 25306381--25306470 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 30
25306371 TTTATTTAAT
25306381 GTGCAATTTGATACACA--AACTTTAATT-TG
1 GTGCAA-TT-ATACACATGAACTTTAATTGTG
*
25306410 GTGCAATTATACACATGAACTTTGATTGTG
1 GTGCAATTATACACATGAACTTTAATTGTG
* * * *
25306440 GTTCAAATGTATACATGAAACTTTAATTGTG
1 GTGCAATTATACACATG-AACTTTAATTGTG
25306471 ATTTAATCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
27 7 0.14
28 2 0.04
29 15 0.29
30 15 0.29
31 12 0.24
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (30 bp):
GTGCAATTATACACATGAACTTTAATTGTG
Found at i:25306469 original size:31 final size:31
Alignment explanation
Indices: 25306397--25306470 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
25306387 TTTGATACAC
*
25306397 AAACTTTAATT-TGGTGCAATTATACACATG
1 AAACTTTAATTGTGGTGCAAATATACACATG
* * * *
25306427 -AACTTTGATTGTGGTTCAAATGTATACATG
1 AAACTTTAATTGTGGTGCAAATATACACATG
25306457 AAACTTTAATTGTG
1 AAACTTTAATTGTG
25306471 ATTTAATCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 9 0.25
30 15 0.42
31 12 0.33
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (31 bp):
AAACTTTAATTGTGGTGCAAATATACACATG
Found at i:25307384 original size:21 final size:22
Alignment explanation
Indices: 25307346--25307386 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25307336 TTCAAAATTA
25307346 AAATTCTATTCATCTAAAATGT
1 AAATTCTATTCATCTAAAATGT
* *
25307368 AAATT-TATTTATTTAAAAT
1 AAATTCTATTCATCTAAAAT
25307387 TATTTGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATTCTATTCATCTAAAATGT
Found at i:25327321 original size:28 final size:30
Alignment explanation
Indices: 25327260--25327324 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
25327250 ATAAAAATAA
*
25327260 ATAAAATTAATTTTTTTTCATAAATCAAGT
1 ATAAAATTAATTTTTTTTCATAAATAAAGT
25327290 -TAAAATTAA-TTTTTTT-AT-AATAAAAGT
1 ATAAAATTAATTTTTTTTCATAAAT-AAAGT
25327317 ATAAAATT
1 ATAAAATT
25327325 CGACAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.09
27 6 0.19
28 14 0.44
29 9 0.28
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (30 bp):
ATAAAATTAATTTTTTTTCATAAATAAAGT
Found at i:25336119 original size:40 final size:40
Alignment explanation
Indices: 25336062--25336146 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
25336052 AGTGTCATTA
25336062 GAGGCCCTAACACATGGTTGAGTGATGTAGATACATGTTG
1 GAGGCCCTAACACATGGTTGAGTGATGTAGATACATGTTG
*
25336102 GAGGCCCTAACATATGGTTGAGTGATGTAGATACATGTTG
1 GAGGCCCTAACACATGGTTGAGTGATGTAGATACATGTTG
25336142 GAGGC
1 GAGGC
25336147 TAAAATCGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (40 bp):
GAGGCCCTAACACATGGTTGAGTGATGTAGATACATGTTG
Found at i:25338233 original size:14 final size:14
Alignment explanation
Indices: 25338214--25338244 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25338204 TTCTGAGATG
25338214 TTTTCAAGTTATGT
1 TTTTCAAGTTATGT
25338228 TTTTCAAGTTATGT
1 TTTTCAAGTTATGT
25338242 TTT
1 TTT
25338245 ATGCGTGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTTTCAAGTTATGT
Found at i:25357388 original size:11 final size:11
Alignment explanation
Indices: 25357374--25357423 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
25357364 GGTGCTAGGA
25357374 TGGTTGAATGG
1 TGGTTGAATGG
*
25357385 TGG-TGATTAGG
1 TGGTTGAAT-GG
*
25357396 TGGTTGTATGG
1 TGGTTGAATGG
25357407 TGG-TGATATGG
1 TGGTTGA-ATGG
25357418 TGGTTG
1 TGGTTG
25357424 TTCAGTGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
10 6 0.19
11 20 0.65
12 5 0.16
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.40
Consensus pattern (11 bp):
TGGTTGAATGG
Found at i:25357424 original size:22 final size:22
Alignment explanation
Indices: 25357344--25357424 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
25357334 GATACGATTT
* * *
25357344 TGATGTGGTGGTGGTGTGGTGG
1 TGATATGGTGGTTGTATGGTGG
* *
25357366 TGCTA-GGATGGTTGAATGGTGG
1 TGATATGG-TGGTTGTATGGTGG
25357388 TGAT-TAGGTGGTTGTATGGTGG
1 TGATAT-GGTGGTTGTATGGTGG
25357410 TGATATGGTGGTTGT
1 TGATATGGTGGTTGT
25357425 TCAGTGGTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.04
22 43 0.90
23 3 0.06
ACGTcount: A:0.12, C:0.01, G:0.48, T:0.38
Consensus pattern (22 bp):
TGATATGGTGGTTGTATGGTGG
Found at i:25357431 original size:22 final size:22
Alignment explanation
Indices: 25357369--25357433 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
25357359 GTGGTGGTGC
* *
25357369 TAGGATGGTTGAATGGTGGTGAT
1 TAGG-TGGTTGTATAGTGGTGAT
*
25357392 TAGGTGGTTGTATGGTGGTGA-
1 TAGGTGGTTGTATAGTGGTGAT
25357413 TATGGTGGTTGT-TCAGTGGTG
1 TA-GGTGGTTGTAT-AGTGGTG
25357434 TTTCAGTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 3 0.08
22 31 0.82
23 4 0.11
ACGTcount: A:0.15, C:0.02, G:0.45, T:0.38
Consensus pattern (22 bp):
TAGGTGGTTGTATAGTGGTGAT
Found at i:25369322 original size:16 final size:17
Alignment explanation
Indices: 25369301--25369332 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25369291 AAAAACAACA
25369301 TAATAAACATT-TAATT
1 TAATAAACATTATAATT
25369317 TAATAAACATTATAAT
1 TAATAAACATTATAAT
25369333 GATTACAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAAACATTATAATT
Found at i:25371512 original size:21 final size:19
Alignment explanation
Indices: 25371477--25371531 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
25371467 GCACACATGA
* * *
25371477 TTCCACTACTCACACACGG
1 TTCCACTAATCAAACACAG
*
25371496 TTCCACTAATCAGACACAG
1 TTCCACTAATCAAACACAG
25371515 TTCCACTAATCAAACAC
1 TTCCACTAATCAAACAC
25371532 CATTAACGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.36, G:0.07, T:0.22
Consensus pattern (19 bp):
TTCCACTAATCAAACACAG
Found at i:25378445 original size:35 final size:35
Alignment explanation
Indices: 25378399--25378470 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
25378389 GTGGCACTAC
25378399 GTCACTTCTTTCAATTATGAGGTTAAAAAAAATTG
1 GTCACTTCTTTCAATTATGAGGTTAAAAAAAATTG
25378434 GTCACTTCTTTCAATTATGAGGTTAAAAAAAATTG
1 GTCACTTCTTTCAATTATGAGGTTAAAAAAAATTG
25378469 GT
1 GT
25378471 GTCGGTCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (35 bp):
GTCACTTCTTTCAATTATGAGGTTAAAAAAAATTG
Found at i:25381171 original size:27 final size:27
Alignment explanation
Indices: 25381133--25381263 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 27
25381123 CCATAATAGT
25381133 TAATTTTACCCATCGGGGGTATTTCGA
1 TAATTTTACCCATCGGGGGTATTTCGA
* * *
25381160 TAATTTTACCCAT-TGGGGTATTTTGG
1 TAATTTTACCCATCGGGGGTATTTCGA
* **
25381186 TAATTTTACCTATCAAGGGTATTTC-A
1 TAATTTTACCCATCGGGGGTATTTCGA
*
25381212 GTAATTTTACCTATCGGGGGTATTTCGA
1 -TAATTTTACCCATCGGGGGTATTTCGA
*
25381240 TAATTTTACCCATCGAGGGTATTT
1 TAATTTTACCCATCGGGGGTATTT
25381264 TGGTATAGTC
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.25
27 66 0.74
28 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTTTACCCATCGGGGGTATTTCGA
Found at i:25381217 original size:53 final size:54
Alignment explanation
Indices: 25381133--25381263 Score: 176
Period size: 53 Copynumber: 2.4 Consensus size: 54
25381123 CCATAATAGT
* * * *
25381133 TAATTTTACCCATCGGGGGTATTTCGATAATTTTACCCAT-TGGGGTATTTTGG
1 TAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGGGGGTATTTCGA
* * *
25381186 TAATTTTACCTATCAAGGGTATTTC-AGTAATTTTACCTATCGGGGGTATTTCGA
1 TAATTTTACCCATCGAGGGTATTTCGA-TAATTTTACCCATCGGGGGTATTTCGA
25381240 TAATTTTACCCATCGAGGGTATTT
1 TAATTTTACCCATCGAGGGTATTT
25381264 TGGTATAGTC
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
52 1 0.01
53 34 0.51
54 32 0.48
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (54 bp):
TAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGGGGGTATTTCGA
Found at i:25382799 original size:25 final size:25
Alignment explanation
Indices: 25382762--25382815 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
25382752 TGAACCTCTG
25382762 ACCTCCTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTGTGACGCC
* * * **
25382787 ACCTCTTTGCCACACTTGTGTTGCC
1 ACCTCCTTACCACACCTGTGACGCC
25382812 ACCT
1 ACCT
25382816 TGCCGTTACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.17, C:0.43, G:0.13, T:0.28
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACGCC
Found at i:25385037 original size:114 final size:113
Alignment explanation
Indices: 25384758--25385037 Score: 373
Period size: 114 Copynumber: 2.5 Consensus size: 113
25384748 ATAGTCTATA
* * * * * * *
25384758 AATTTTAGGTTCAATGTTTG-AACATTTTAGTAAAAAAAAAATGTATCGATACCCTTTCCATAGT
1 AATTTAAGCTTCAATGTTTGAAAAAATTTAGCAAAAAACAAATGTATCGATACCCTTGCCATAGT
* * * * *
25384822 ATTGATACTAGGGTCAAAGTATCGATACCTTTTCCTGGTATCGATACC
66 ATTAATACCAGGGTCAAAGTATCGACACCCTTGCCTGGTATCGATACC
* * * *
25384870 AATTTGAGCTTCGATGTTTGAAAAAATTTAGCAAAAGAACAAAGGTGTCGATACCCTTGCCATAG
1 AATTTAAGCTTCAATGTTTGAAAAAATTTAGCAAAA-AACAAATGTATCGATACCCTTGCCATAG
*
25384935 TATTAATACCAGGGTCATAGTATCGACACCCTTGCCTGGTATCGATACC
65 TATTAATACCAGGGTCAAAGTATCGACACCCTTGCCTGGTATCGATACC
*
25384984 AATTTAAGCTTCAATGTTTGAAAAAAATTTAGCAAAAAACAAATGTATTGATAC
1 AATTTAAGCTTCAATGTTTG-AAAAAATTTAGCAAAAAACAAATGTATCGATAC
25385038 AGGTATCGAT
Statistics
Matches: 144, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
112 17 0.12
113 12 0.08
114 99 0.69
115 16 0.11
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (113 bp):
AATTTAAGCTTCAATGTTTGAAAAAATTTAGCAAAAAACAAATGTATCGATACCCTTGCCATAGT
ATTAATACCAGGGTCAAAGTATCGACACCCTTGCCTGGTATCGATACC
Found at i:25388549 original size:30 final size:31
Alignment explanation
Indices: 25388514--25388576 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
25388504 AATAAGTATG
25388514 TATATATACATATACATGTATATGCAT-TAAAA
1 TATAT-TA-ATATACATGTATATGCATGTAAAA
* *
25388546 TATATTAATATATATGTATATGTATGTAAAA
1 TATATTAATATACATGTATATGCATGTAAAA
25388577 GTGTGCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 16 0.57
31 7 0.25
32 5 0.18
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (31 bp):
TATATTAATATACATGTATATGCATGTAAAA
Found at i:25389984 original size:44 final size:44
Alignment explanation
Indices: 25389912--25390027 Score: 162
Period size: 44 Copynumber: 2.7 Consensus size: 44
25389902 TGTTGGTTCG
* * *
25389912 ATCCGCTCTACTGC-ACTTCAGAGAGATACAATTTGTAGCTTCA
1 ATCCACTCTACTGCAAATTCAGAGAGATACAACTTGTAGCTTCA
* *
25389955 ATTCACTCTGCTGCAAATTCAGAGAGATACAACTTGTAGCTTCA
1 ATCCACTCTACTGCAAATTCAGAGAGATACAACTTGTAGCTTCA
* *
25389999 ATCCACTCTACTGCAACTTCAAAGAGATA
1 ATCCACTCTACTGCAAATTCAGAGAGATA
25390028 AGATTCATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
43 11 0.17
44 52 0.83
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (44 bp):
ATCCACTCTACTGCAAATTCAGAGAGATACAACTTGTAGCTTCA
Found at i:25390217 original size:50 final size:48
Alignment explanation
Indices: 25390160--25390354 Score: 113
Period size: 45 Copynumber: 4.1 Consensus size: 48
25390150 TGCTCCACTA
25390160 CAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAACCTACTG
1 CAACTTTAGGGAGATAAGACTCGTTAT-GTAGATTTAATCC-ACCTACTG
* * * * * * *
25390210 CAACTTTAGAGG-TATAGGA-T--TCAT-CA-TTTTAATCCGCTCCACTG
1 CAACTTTAG-GGAGATAAGACTCGTTATGTAGATTTAATCCAC-CTACTG
* * * * * * **
25390254 CAACTTCAGGGAGATAAGATTTGTTATCTACAGTCTGCTCCA-CTA-T-
1 CAACTTTAGGGAGATAAGACTCGTTATGTAGA-TTTAATCCACCTACTG
25390300 -AACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAACCTACTG
1 CAACTTTAGGGAGATAAGACTCGTTAT-GTAGATTTAATCC-ACCTACTG
*
25390349 TAACTT
1 CAACTT
25390355 CAGAGGTATA
Statistics
Matches: 104, Mismatches: 26, Indels: 30
0.65 0.16 0.19
Matches are distributed among these distances:
43 3 0.03
44 26 0.25
45 30 0.29
46 4 0.04
47 10 0.10
48 4 0.04
49 1 0.01
50 24 0.23
51 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (48 bp):
CAACTTTAGGGAGATAAGACTCGTTATGTAGATTTAATCCACCTACTG
Found at i:25390379 original size:139 final size:138
Alignment explanation
Indices: 25390139--25390453 Score: 486
Period size: 139 Copynumber: 2.3 Consensus size: 138
25390129 TAAGATCCGC
* *
25390139 TATCTACAGCCTGCTCCACTACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAAC
1 TATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAAC
* *
25390204 CTACTGCAACTTTAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
66 CTACTGCAACTTCAGAGGTATAGGATTCAACATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
*
25390269 AAGATTTG
131 AAGATTAG
25390277 TTATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAA
1 -TATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAA
* * * *
25390342 CCTACTGTAACTTCAGAGGTATAGGATTCAACGTTTTAATCTGCTCCACTGCAACTTTAGGGAGA
65 CCTACTGCAACTTCAGAGGTATAGGATTCAACATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
25390407 TAAGATTAG
130 TAAGATTAG
* * * * * *
25390416 TAGCTTCAATTTGCTCCGCTATAACTTCAGGGAGATAA
1 TATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAA
25390454 CATTGGTATC
Statistics
Matches: 161, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
138 32 0.20
139 129 0.80
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (138 bp):
TATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAAC
CTACTGCAACTTCAGAGGTATAGGATTCAACATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
AAGATTAG
Found at i:25390448 original size:44 final size:44
Alignment explanation
Indices: 25390379--25390723 Score: 282
Period size: 44 Copynumber: 7.8 Consensus size: 44
25390369 TCAACGTTTT
* * *
25390379 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGTATCTTC
* * * * *
25390423 AATTTGCTCCGCTATAACTTCAGGGAGATAACATTGGTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGTATCTTC
* * * * * *
25390467 AACCTGCTCCACTGCAACTCCAGGGAGATAAGGTTTGTTATCTAC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAG-TATCTTC
* * * * * *
25390512 AATATACTCCACTACAACTTTAGTGAGATAAGATCAGTAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGTATCTTC
* * ** * *
25390556 AGTCTGCTCCTCTGTAACTTCAGGGCGATAAGACTCA-TATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGA-TTAGTATCTTC
* * * * *
25390600 AGTCTACTCCACTGCAACTTCATGGAAATAAGACTTA-TATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGA-TTAGTATCTTC
* * * *
25390644 AA-CTTGCTCCACCACAACTTCAAGGAGATAAGGTTTGCTATCTTC
1 AATC-TGCTCCACTACAACTTCAGGGAGATAAGATTAG-TATCTTC
* * *
25390689 AGTCTGTTCCACTATAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATT
25390724 TGATTTGATA
Statistics
Matches: 234, Mismatches: 61, Indels: 11
0.76 0.20 0.04
Matches are distributed among these distances:
43 3 0.01
44 160 0.68
45 70 0.30
46 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGTATCTTC
Found at i:25390544 original size:133 final size:131
Alignment explanation
Indices: 25390385--25390719 Score: 348
Period size: 133 Copynumber: 2.5 Consensus size: 131
25390375 TTTTAATCTG
* * * *
25390385 CTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTCAATTTGCTCCGCTATAACTTCAGGGAG
1 CTCCACTACAACTTTA-GGAGATAAGATTAGTAGCTTCAGTCTGCTCCACTATAACTTCAGGGAG
* ** * * ** *
25390450 ATAACATTGGTATCTTCAACCTGCTCCACTGCAACTCCAGGGAGATAAGGTTTGTTATCTACAA-
65 ATAACACTCATATCTTCAACCTACTCCACTGCAACTCCAGGGAAATAAGACTT-ATATCTACAAC
25390514 TATA
129 T-TA
* * * *
25390518 CTCCACTACAACTTTAGTGAGATAAGATCAGTAGCTTCAGTCTGCTCCTCTGTAACTTCAGGGCG
1 CTCCACTACAACTTTAG-GAGATAAGATTAGTAGCTTCAGTCTGCTCCACTATAACTTCAGGGAG
* ** * * *
25390583 ATAAGACTCATATCTTCAGTCTACTCCACTGCAACTTCATGGAAATAAGACTTATATCTTCAACT
65 ATAACACTCATATCTTCAACCTACTCCACTGCAACTCCAGGGAAATAAGACTTATATCTACAACT
*
25390648 TG
130 TA
* * * * * *
25390650 CTCCACCACAACTTCAAGGAGATAAGGTTTGCTATCTTCAGTCTGTTCCACTATAACTTCAGGGA
1 CTCCACTACAACTT-TAGGAGATAAGATTAG-TAGCTTCAGTCTGCTCCACTATAACTTCAGGGA
25390715 GATAA
64 GATAA
25390720 GATTTGATTT
Statistics
Matches: 166, Mismatches: 32, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
132 33 0.20
133 133 0.80
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (131 bp):
CTCCACTACAACTTTAGGAGATAAGATTAGTAGCTTCAGTCTGCTCCACTATAACTTCAGGGAGA
TAACACTCATATCTTCAACCTACTCCACTGCAACTCCAGGGAAATAAGACTTATATCTACAACTT
A
Found at i:25390914 original size:41 final size:44
Alignment explanation
Indices: 25390848--25390963 Score: 112
Period size: 45 Copynumber: 2.7 Consensus size: 44
25390838 ATTTTGGTTC
* * * * *
25390848 GCTCCACTACAACTTCTGGGAGATAAGACT-C-ATC-GTGGTCT
1 GCTCTACTGCAACTTCAGAGAGATAAGACTGCTATCTGTAGTCT
*
25390889 GCTCTACTGCAACTTCAGAGAGATAAGATCTGCTATCTTTAGTCT
1 GCTCTACTGCAACTTCAGAGAGATAAGA-CTGCTATCTGTAGTCT
** * *
25390934 ATTCTACTGCAACCTCAGTGAGATAAGACT
1 GCTCTACTGCAACTTCAGAGAGATAAGACT
25390964 TGTAGCTTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 24 0.39
42 2 0.03
43 1 0.02
44 5 0.08
45 29 0.48
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
GCTCTACTGCAACTTCAGAGAGATAAGACTGCTATCTGTAGTCT
Found at i:25391179 original size:103 final size:102
Alignment explanation
Indices: 25390889--25391180 Score: 311
Period size: 103 Copynumber: 2.8 Consensus size: 102
25390879 ATCGTGGTCT
* *** * *
25390889 GCTCTACTGCAACTTCAGAGAGATAAGATCTGCTATC-TTTAG-TCTATTCTACTGCAACCTCAG
1 GCTCTACTGCAACTTCAGAGAGATAAGATC--C-ATCATTTTGATCCGCTCCACTGCAACTTCAG
* * * *
25390952 TGAGATA-AGACTTGTAGCTTCAATAAAGTCTGATACAATCT
63 GGAGATAGA-AC-TATAACTTCAATAAAGTCTGATACAATCC
* * ** * * *
25390993 ACTCTACTACAACTTTGGAGAGATAAGATCCATCATTTTAATCCGCTTCACTGCAACTTCAGGAA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTGATCCGCTCCACTGCAACTTCAGGGA
* *
25391058 GATAGGACTAGTAACTTCAATAAAGTCTGATACGATCC
66 GATAGAACTA-TAACTTCAATAAAGTCTGATACAATCC
*
25391096 GCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTGACCCGCTCCACTGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTGATCCGCTCCACTGCAACTTCAGGGA
*
25391161 GATAGAACTCATATCTTCAA
66 GATAGAACT-ATAACTTCAA
25391181 GTTGCCCCAC
Statistics
Matches: 154, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
101 3 0.02
102 5 0.03
103 119 0.77
104 27 0.18
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (102 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTGATCCGCTCCACTGCAACTTCAGGGA
GATAGAACTATAACTTCAATAAAGTCTGATACAATCC
Found at i:25391451 original size:44 final size:44
Alignment explanation
Indices: 25391140--25391660 Score: 253
Period size: 44 Copynumber: 11.6 Consensus size: 44
25391130 ATTTTGACCC
**
25391140 GCTCCACTGCAACTTCAGGGAGAT-AGAACTCATATCTTCAAGT-T
1 GCTCCACTGCAACTTCAGGGAGATAAG-ACTTGTATCTTCAA-TCT
* *
25391184 GCCCCACTGCAACTTCAGAGG-GATAAGACTTGTAAT-TTCAACCT
1 GCTCCACTGCAACTTCAG-GGAGATAAGACTTGT-ATCTTCAATCT
* * * *
25391228 GCTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-C--T--TGTAT--CTTCAATCT
* * * * *
25391279 GTTCCACCGCAGCTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TATCTTCAATCT
* * ** * *
25391324 ACTCCACTGCAACTTCAGGGAGATAGGA--TCCATCATTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTATC--TTCAATCT
** * * * *
25391368 ATTCCACTACAACTTCAGGGAGGTAGGA-TTAGTAACTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAATCT
*
25391412 GCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAA-CTT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAATC-T
* ** *
25391456 GCCCCACTGCAACTTCATGGG-GATAAGGTTTGCTAT-TTGAATCT
1 GCTCCACTGCAACTTCA-GGGAGATAAGACTTG-TATCTTCAATCT
* * * * * *
25391500 GCTCTATTGCAACTTCAGAGAGATAA-AGTT-TGAT-AT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGT-ATCTTCAATCT
* * ** * ** *
25391541 GCTCTAATGCAACTTCAGAAAGATGAGATCTGTTATGGTAGATTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-C---T-T-GTATCTTCAATCT
* * * * *
25391591 GTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTG-TATCTTCAATCT
25391636 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
25391661 GAATCCACAA
Statistics
Matches: 363, Mismatches: 77, Indels: 73
0.71 0.15 0.14
Matches are distributed among these distances:
41 28 0.08
42 7 0.02
43 6 0.02
44 172 0.47
45 81 0.22
46 4 0.01
47 6 0.02
48 3 0.01
49 4 0.01
50 24 0.07
51 28 0.08
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAATCT
Found at i:25391674 original size:45 final size:45
Alignment explanation
Indices: 25391583--25391692 Score: 105
Period size: 45 Copynumber: 2.4 Consensus size: 45
25391573 TTATGGTAGA
* * *** *
25391583 TTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATCCACAATC
*
25391628 TTTAATCTGCTCCACTGCAACTTCAGGGAGAT-AGAATCCACAATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAG-ATCCACAATC
* * * *
25391673 TTCAACCTACTCTACTGCAA
1 TTTAATCTGCTCCACTGCAA
25391693 ACTCGGAGAG
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 2 0.04
45 51 0.96
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (45 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATCCACAATC
Found at i:25392217 original size:24 final size:24
Alignment explanation
Indices: 25392167--25392224 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
25392157 CGGATTGCCC
*
25392167 CCACTGTAATCTTTAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* *
25392191 CCATTGTAATCTTCAAGGTT-AAGT
1 CCACTGTAATCTTCAAAGTTCAA-T
25392215 CCACTGTAAT
1 CCACTGTAAT
25392225 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:25393292 original size:7 final size:7
Alignment explanation
Indices: 25393280--25393323 Score: 52
Period size: 7 Copynumber: 5.7 Consensus size: 7
25393270 TGGCCTCTCC
25393280 TTTTTCT
1 TTTTTCT
25393287 TTTTTCT
1 TTTTTCT
25393294 CCTTTTTCT
1 --TTTTTCT
25393303 TTTTTCTT
1 TTTTTC-T
25393311 CTTTTTCT
1 -TTTTTCT
25393319 TTTTT
1 TTTTT
25393324 TGACTCAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 18 0.55
8 2 0.06
9 13 0.39
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:25393296 original size:16 final size:16
Alignment explanation
Indices: 25393275--25393323 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
25393265 CACCTTGGCC
25393275 TCTCCTTTTTCTTTTT
1 TCTCCTTTTTCTTTTT
25393291 TCTCCTTTTTCTTTTT
1 TCTCCTTTTTCTTTTT
*
25393307 TCTTCTTTTTCTTTTT
1 TCTCCTTTTTCTTTTT
25393323 T
1 T
25393324 TGACTCAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TCTCCTTTTTCTTTTT
Found at i:25394028 original size:22 final size:21
Alignment explanation
Indices: 25393988--25394028 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25393978 TGAAAAGTGT
*
25393988 TTTTATTAATAAACAATTTAG
1 TTTTATTAAAAAACAATTTAG
*
25394009 TTTTATTAAAACAACGATTT
1 TTTTATTAAAA-AACAATTT
25394029 TGGTCCACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (21 bp):
TTTTATTAAAAAACAATTTAG
Found at i:25394967 original size:30 final size:31
Alignment explanation
Indices: 25394932--25394994 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
25394922 AATAAGTATG
25394932 TATATATACATATACATGTATATGCAT-TAAAA
1 TATAT-TA-ATATACATGTATATGCATGTAAAA
* *
25394964 TATATTAATATATATGTATATGTATGTAAAA
1 TATATTAATATACATGTATATGCATGTAAAA
25394995 GTGTGCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 16 0.57
31 7 0.25
32 5 0.18
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (31 bp):
TATATTAATATACATGTATATGCATGTAAAA
Found at i:25397181 original size:19 final size:20
Alignment explanation
Indices: 25397139--25397190 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
25397129 TTCAAGGATG
25397139 TGCAATCTTAGATATGATATA
1 TGCAATCTTAGATATGA-ATA
25397160 TGCAATCTTAGATATG-ATA
1 TGCAATCTTAGATATGAATA
25397179 TGCAATCTTAGA
1 TGCAATCTTAGA
25397191 AGATGTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 15 0.48
21 16 0.52
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (20 bp):
TGCAATCTTAGATATGAATA
Found at i:25397540 original size:3 final size:3
Alignment explanation
Indices: 25397532--25397573 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
25397522 TGTTATTAAG
*
25397532 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25397574 CTATATATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:25398441 original size:12 final size:12
Alignment explanation
Indices: 25398424--25398456 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
25398414 AAACAGGCTT
25398424 TTAGCGGCGTTC
1 TTAGCGGCGTTC
*
25398436 TTAGCGGCGTTT
1 TTAGCGGCGTTC
25398448 TTAGCGGCG
1 TTAGCGGCG
25398457 GTTGATACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.36, T:0.33
Consensus pattern (12 bp):
TTAGCGGCGTTC
Found at i:25398743 original size:114 final size:115
Alignment explanation
Indices: 25398543--25398852 Score: 400
Period size: 114 Copynumber: 2.7 Consensus size: 115
25398533 GCGATTTCCA
* *
25398543 GAAAGCGCCGC-AAAATACCTAAGCCCAACGACGCCGTTTT-TCGAGCTTTCGAGGGATTTAGCG
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCT-GAGCTTTCG-GGGATTTAGCG
* * *
25398606 G-TGTTTTTAAGAAAGCGCCGCTAATG-CTCAGGGCTTTAGTGGCGTTTTTAC
64 GCTGTTTTTAAGAAAGCGCCGCTAATGCCT-AGGGCTTTAGCGACGATTTTAC
* *
25398657 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGTTTTCTAAGCTTTCGGGGATTTAGCGGC
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
** * *
25398722 T-TTTTTGGGGAAGCGCCGCTAATGCCTAGGGCTTTAGCGACGATTTTGC
66 TGTTTTTAAGAAAGCGCCGCTAATGCCTAGGGCTTTAGCGACGATTTTAC
* * *
25398771 GAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTGGCGGC
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
*
25398836 -GCTTTTT-ATAAAGCGCC
66 TG-TTTTTAAGAAAGCGCC
25398853 ACAAAAACCT
Statistics
Matches: 171, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
114 127 0.74
115 43 0.25
116 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (115 bp):
GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
TGTTTTTAAGAAAGCGCCGCTAATGCCTAGGGCTTTAGCGACGATTTTAC
Found at i:25398892 original size:185 final size:186
Alignment explanation
Indices: 25398648--25399037 Score: 568
Period size: 185 Copynumber: 2.1 Consensus size: 186
25398638 GCTTTAGTGG
**
25398648 CGTTTTTACGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGTTTTCTAAGCTTTCGGGGA
1 CGTTTTTAATAAAGCGCCAC-AAAAAACCTAAGCCCAACGACGTCGTTTTCTAAGCTTTCGGGGA
* * * * * * * *
25398713 TTTAGCGGCTTTTTTGGGGAAGCGCCGCTAATGCCTAGGGCTTTAGCGACGATTTTGCGAAAGTG
65 TTTAGCAGCATTTTTCGGGAAGCGACGCTAATACCCAAGGCTTTAGCGACGATTTTGCGAAAGCG
* * *
25398778 CCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTGGCGG
130 CCACAAAAAAACCTAAGCCCAACGACACCATTTTCTGAGCTTTCGGGGATTTAGCGA
* * *
25398835 CGCTTTTT-ATAAAGCGCCAC-AAAAACCTAATCCCAACGATGTCGTTTTCTGAGCTTTCGGGGA
1 CG-TTTTTAATAAAGCGCCACAAAAAACCTAAGCCCAACGACGTCGTTTTCTAAGCTTTCGGGGA
* * *
25398898 TTTAGCAGCATTTTTCGGGAAGCGACGCTAATACCCAAGGCTTTAGCGGCGTTTTTGCTAAAGCG
65 TTTAGCAGCATTTTTCGGGAAGCGACGCTAATACCCAAGGCTTTAGCGACGATTTTGCGAAAGCG
25398963 CCACAAAAAAACCTAAGCCCAACGACACCATTTTCTGAGCTTTCGGGGATTTAGCGA
130 CCACAAAAAAACCTAAGCCCAACGACACCATTTTCTGAGCTTTCGGGGATTTAGCGA
*
25399020 CGTTTTTAATTAAGCGCC
1 CGTTTTTAATAAAGCGCC
25399038 GCTAATGCTC
Statistics
Matches: 181, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
184 5 0.03
185 159 0.88
187 12 0.07
188 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (186 bp):
CGTTTTTAATAAAGCGCCACAAAAAACCTAAGCCCAACGACGTCGTTTTCTAAGCTTTCGGGGAT
TTAGCAGCATTTTTCGGGAAGCGACGCTAATACCCAAGGCTTTAGCGACGATTTTGCGAAAGCGC
CACAAAAAAACCTAAGCCCAACGACACCATTTTCTGAGCTTTCGGGGATTTAGCGA
Found at i:25399035 original size:114 final size:114
Alignment explanation
Indices: 25398831--25399414 Score: 698
Period size: 115 Copynumber: 5.1 Consensus size: 114
25398821 CGGGGATTTG
* * *
25398831 GCGGCGCTTTTT-ATAAAGCGCCAC--AAAAACCTAATCCCAACGATGTCGTTTTCTGAGCTTTC
1 GCGGCG-TTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTC
* ** * * * *
25398893 GGGGATTTAGC-AGCATTTTTCGGGAAGCGACGCTAATACCCAAGGCTTTA
65 GGGGATTTAGCGA-CGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGCTTTA
* * *
25398943 GCGGCGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACACCATTTTCTGAGCTTTCG
1 GCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* *
25399008 GGGATTTAGCGACGTTTTTAATTAAGCGCCGCTAATGCTCAGGGGCTTTA
66 GGGATTTAGCGACGTTTTTAAGTAAGCGCCGCTAATGCTCA-AGGCTTTA
* *
25399058 GCGGTGTTTTT-ACTAAAGCGCCACAAAAAAACCTAAGCCCGACGACGCCGTTTTCTGAGCTTTC
1 GCGGCGTTTTTGA-TAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTC
* *
25399122 GGGGATTTTGCGACGTTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTA
65 GGGGATTTAGCGACG-TTTTTAAGTAAGCGCCGCTAATGCTCAAGGCTTTA
* * * * *
25399173 GCAGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACACCGTTTTTTGAGTTTTCA
1 GCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
*
25399238 GGGATTTAGCGGCGTTTTTTAAGTAAGCGCCGCTAATGCTC-AGGCTTTTA
66 GGGATTTAGCGACG-TTTTTAAGTAAGCGCCGCTAATGCTCAAGGC-TTTA
** * * * *
25399288 GCGGCGTTTTTGGGAAGGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTTAGCTTTCG
1 GCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* * * * *
25399353 TGGATTTAGTGGCATTTTTAA-TAAAGTGCCGCTAATGCTC-AGTGCTTTA
66 GGGATTTAGCGACGTTTTTAAGT-AAGCGCCGCTAATGCTCAAG-GCTTTA
*
25399402 GCGGCATTTTTGA
1 GCGGCGTTTTTGA
25399415 GGATGCGCCG
Statistics
Matches: 412, Mismatches: 49, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
111 5 0.01
112 17 0.04
113 1 0.00
114 108 0.26
115 254 0.62
116 27 0.07
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (114 bp):
GCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
GGGATTTAGCGACGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGCTTTA
Found at i:25401174 original size:365 final size:366
Alignment explanation
Indices: 25400487--25401193 Score: 1182
Period size: 365 Copynumber: 1.9 Consensus size: 366
25400477 AGATATGCGG
*
25400487 CGTTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGCTTCGTTTCGGCTTAG
1 CGTTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAG
* *
25400552 GGAATAAGTTTTAGTTGTGGCATTTTTCCGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAAA
66 GGAATAAATTTTAGTTGTGGCATTTTTCCGAAAAGCACCGTAAATAATATTTAAACTTTGCCAAA
* * *
25400617 ACAGCGTCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTATAAACGCCGCAATGAT
131 ACAGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAACGCCGCAAGGAT
** ** *
25400682 GTATAAAATTTTTTGAAAACGGTGCCGGTTCGATAATATATTAATTGTGGCGTTTTTGGGAAAAC
196 GTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAAC
* *
25400747 GCTAGAATGTTTCCTTATATTTTAATAAAATGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGTG
261 GCCAGAATGTTTCCTTATATTTTAATAAAACGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGTG
* *
25400812 GCGTTTTTAATTCAAACACCGTAAAAGGTAGACATTACCAA
326 GCATTTTTAATTAAAACACCGTAAAAGGTAGACATTACCAA
* *
25400853 CGTTTTGAT-AAAAAATGCCACAAATATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAG
1 CGTTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAG
* * * *
25400917 GGAATAAATTTTAGTTGTGGCATTTTTCCTAAAAGCACTGTAAATAATATTTGAACTTTGCGAAA
66 GGAATAAATTTTAGTTGTGGCATTTTTCCGAAAAGCACCGTAAATAATATTTAAACTTTGCCAAA
* * *
25400982 ACAGCGCCGTTTCAGTTGAAGGATGGAATCTTTTAGTGGCGTTTTATTAAAAATGTCGCAAGGAT
131 ACAGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAACGCCGCAAGGAT
25401047 GTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAAC
196 GTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAAC
*
25401112 GCCAGAATGTTTCCTTATATTTTTATAAAACGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGTG
261 GCCAGAATGTTTCCTTATATTTTAATAAAACGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGTG
25401177 GCATTTTTAATTAAAAC
326 GCATTTTTAATTAAAAC
25401194 GCCGCAAATG
Statistics
Matches: 316, Mismatches: 25, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
365 307 0.97
366 9 0.03
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (366 bp):
CGTTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAG
GGAATAAATTTTAGTTGTGGCATTTTTCCGAAAAGCACCGTAAATAATATTTAAACTTTGCCAAA
ACAGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAACGCCGCAAGGAT
GTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAAC
GCCAGAATGTTTCCTTATATTTTAATAAAACGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGTG
GCATTTTTAATTAAAACACCGTAAAAGGTAGACATTACCAA
Found at i:25401887 original size:18 final size:18
Alignment explanation
Indices: 25401864--25401901 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25401854 CGTTTGTTAG
*
25401864 TTACTTGCTGTGTTAATA
1 TTACTTGCAGTGTTAATA
25401882 TTACTTGCAGTGTTAATA
1 TTACTTGCAGTGTTAATA
25401900 TT
1 TT
25401902 TTTGAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.50
Consensus pattern (18 bp):
TTACTTGCAGTGTTAATA
Found at i:25402974 original size:23 final size:23
Alignment explanation
Indices: 25402946--25402989 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
25402936 CTTATATGTA
*
25402946 AACTTACATAATACATTACTTTT
1 AACTTACATAATACATAACTTTT
25402969 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
25402990 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:25403128 original size:25 final size:25
Alignment explanation
Indices: 25403097--25403189 Score: 105
Period size: 25 Copynumber: 3.6 Consensus size: 25
25403087 ATAACATAAC
* *
25403097 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
25403122 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
25403147 AACTTAAATATCTTACACAACTTACAT
1 AACTTACATA--ATACATAACTTACAT
*
25403174 AACCTACATAATACAT
1 AACTTACATAATACAT
25403190 NNNNNNNNNN
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
25 35 0.62
27 21 0.38
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.29
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:25403129 original size:9 final size:9
Alignment explanation
Indices: 25403097--25403184 Score: 85
Period size: 9 Copynumber: 10.2 Consensus size: 9
25403087 ATAACATAAC
25403097 AACTTACAT
1 AACTTACAT
25403106 AA--TACAT
1 AACTTACAT
* *
25403113 AGCATACAT
1 AACTTACAT
25403122 AACTTACAT
1 AACTTACAT
*
25403131 AA--TACAA
1 AACTTACAT
25403138 AACTTACAT
1 AACTTACAT
*
25403147 AACTTAAAT
1 AACTTACAT
* *
25403156 ATCTTACAC
1 AACTTACAT
25403165 AACTTACAT
1 AACTTACAT
*
25403174 AACCTACAT
1 AACTTACAT
25403183 AA
1 AA
25403185 TACATNNNNN
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
7 12 0.19
9 51 0.81
ACGTcount: A:0.49, C:0.22, G:0.01, T:0.28
Consensus pattern (9 bp):
AACTTACAT
Found at i:25406418 original size:21 final size:21
Alignment explanation
Indices: 25406394--25406467 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
25406384 AACTTAAAGT
* *
25406394 AGAGGCGGCAACGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
*
25406415 AGAGGCTGCAGCGAGGGAAGT
1 AGAGGCTGCAGCGAGGGAAGC
* *
25406436 AGAGGCTACAGCGAGAGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
25406457 AGAGGCTGCAG
1 AGAGGCTGCAG
25406468 GGCGAGAAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.32, C:0.18, G:0.45, T:0.05
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGGGAAGC
Found at i:25406474 original size:21 final size:21
Alignment explanation
Indices: 25406394--25406479 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
25406384 AACTTAAAGT
* * *
25406394 AGAGGCGGCAACGAGGGAAGC
1 AGAGGCTGCAGCGAGAGAAGC
* *
25406415 AGAGGCTGCAGCGAGGGAAGT
1 AGAGGCTGCAGCGAGAGAAGC
*
25406436 AGAGGCTACAGCGAGAGAAGC
1 AGAGGCTGCAGCGAGAGAAGC
* *
25406457 AGAGGCTGCAGGGCGAGAAGC
1 AGAGGCTGCAGCGAGAGAAGC
25406478 AG
1 AG
25406480 CGAGAGAAGC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.33, C:0.17, G:0.45, T:0.05
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGAGAAGC
Found at i:25406979 original size:42 final size:42
Alignment explanation
Indices: 25406888--25407047 Score: 216
Period size: 43 Copynumber: 3.8 Consensus size: 42
25406878 AATAGTGCCA
* * **
25406888 CTAAAGAACATTA-CTTTTCGCGGCATTTGTGATGAAAGCGCCG
1 CTAAAGAACATGATC-TTTAGCGGCATTT-TTTTGAAAGCGCCG
*
25406931 CTAAAGAACATGATCTCTAGCGGCATTTTTTTGAAAGCGCCG
1 CTAAAGAACATGATCTTTAGCGGCATTTTTTTGAAAGCGCCG
25406973 CTAAAGAACATGATCTTTAGCGGCATTTTTTTTTG-AAGCGCCG
1 CTAAAGAACATGATCTTTAGCGGCA--TTTTTTTGAAAGCGCCG
*
25407016 CTAAAGAACATGACCTTTAGCGGCATTTTTTT
1 CTAAAGAACATGATCTTTAGCGGCATTTTTTT
25407048 CTGTAAACGC
Statistics
Matches: 107, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
41 7 0.07
42 36 0.34
43 55 0.51
44 9 0.08
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
CTAAAGAACATGATCTTTAGCGGCATTTTTTTGAAAGCGCCG
Found at i:25408283 original size:14 final size:14
Alignment explanation
Indices: 25408262--25408298 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
25408252 ACTTAATAAA
25408262 AGAAGAACAATTA-
1 AGAAGAACAATTAT
25408275 AGAAAGAAC-ATTAT
1 AG-AAGAACAATTAT
25408289 AGAAGAACAA
1 AGAAGAACAA
25408299 ACATGCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.62, C:0.08, G:0.16, T:0.14
Consensus pattern (14 bp):
AGAAGAACAATTAT
Found at i:25409205 original size:20 final size:20
Alignment explanation
Indices: 25409166--25409207 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25409156 GATTATACTA
*
25409166 TTGATATTTGTTTTTCTATT
1 TTGATATTTGCTTTTCTATT
25409186 TTGATATTTGACTTTT-TATT
1 TTGATATTTG-CTTTTCTATT
25409206 TT
1 TT
25409208 ATTTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.69
Consensus pattern (20 bp):
TTGATATTTGCTTTTCTATT
Found at i:25422673 original size:24 final size:24
Alignment explanation
Indices: 25422646--25422705 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
25422636 TATCATATTC
*
25422646 AAGCTATCACAAAACATACCACAT
1 AAGCTATCACAAAACATACAACAT
* *
25422670 AAGCCATTC-CAAAACATGCAACAT
1 AAGCTA-TCACAAAACATACAACAT
* *
25422694 AAGATAGCACAA
1 AAGCTATCACAA
25422706 TGACATAAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.50, C:0.27, G:0.08, T:0.15
Consensus pattern (24 bp):
AAGCTATCACAAAACATACAACAT
Found at i:25424797 original size:19 final size:19
Alignment explanation
Indices: 25424749--25424804 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
25424739 CAGAGTAAAT
* *
25424749 ATACTAGCACATATAGTGC
1 ATACTAGCACACAAAGTGC
*
25424768 ATA-TTGACACACAAAGTGC
1 ATACTAG-CACACAAAGTGC
*
25424787 ATACTAGCACACGAAGTG
1 ATACTAGCACACAAAGTG
25424805 AATAAACCCG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.07
19 26 0.87
20 2 0.07
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (19 bp):
ATACTAGCACACAAAGTGC
Found at i:25432555 original size:13 final size:13
Alignment explanation
Indices: 25432539--25432563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25432529 GATGAAGTTT
25432539 CCTGATTCAGAAA
1 CCTGATTCAGAAA
25432552 CCTGATTCAGAA
1 CCTGATTCAGAA
25432564 TGCGCTACCT
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:0.24, G:0.16, T:0.24
Consensus pattern (13 bp):
CCTGATTCAGAAA
Found at i:25434131 original size:12 final size:12
Alignment explanation
Indices: 25434114--25434139 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25434104 CTTTGCCAGA
25434114 TCCCTTTTCTCT
1 TCCCTTTTCTCT
25434126 TCCCTTTTCTCT
1 TCCCTTTTCTCT
25434138 TC
1 TC
25434140 TCCACCGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (12 bp):
TCCCTTTTCTCT
Found at i:25435036 original size:27 final size:27
Alignment explanation
Indices: 25434814--25435036 Score: 306
Period size: 27 Copynumber: 8.3 Consensus size: 27
25434804 GAGTCGTGGC
*
25434814 AAATAACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
**
25434841 AAATGAATGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
25434868 AAATGACTGAAATACTCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
25434895 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* **
25434922 AAATGATCGAAATACCCTTAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
25434949 AAATAACCAAAATACCCTCGAAAGGGT-
1 AAATGACCGAAATACCCTCG-AAGGGTA
25434976 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
25435003 AAATGACCGAAATACCC-CCATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
25435030 AAATGAC
1 AAATGAC
25435037 TATTATACCC
Statistics
Matches: 175, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.05
27 161 0.92
28 6 0.03
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:25437212 original size:13 final size:13
Alignment explanation
Indices: 25437196--25437248 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
25437186 TTTAAACCAA
25437196 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
25437209 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
25437222 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
25437235 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
25437248 A
1 A
25437249 ATGAAGATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:25442589 original size:40 final size:40
Alignment explanation
Indices: 25442539--25442974 Score: 442
Period size: 40 Copynumber: 10.9 Consensus size: 40
25442529 TACTCTGTAG
* * *
25442539 TTGGTGTGTTTTGGTTGGACCAGCTCTTATGAGCTTCTGT
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
* ** *
25442579 TTGGCGTGTTTCGGTTGAATCAAATCTTATGAGCTTCTAT
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * * *
25442619 TTGGTGTGTTTCAGTTGGATAAACTCTTATGAGCATCTGT
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * * * * *
25442659 CTAGCGTGTTTTAGG-TGGACCAGCTCTAATTAGCTTTTGT
1 TTGGCGTG-TTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
* * *
25442699 TTGGTGTGTTTTGGTTGGATCAGCTCTTATGAGCTTTTGT
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
*
25442739 TTGGCGTGTTTCGGGTGGATCAGCTCTTATGAGCTTCTGT
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
*
25442779 TTGGCGTGTTTCAGTTGGATCAGCTCTTATGAGCTTCTGT
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * * * *
25442819 TTCGCATGTTTTGGGTGGATCAGCTTTTATGAGCTTTTGT
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * *
25442859 TTCGCATGTTTCGGTTGGATCAGCTCTTATAAGCTTCTAT
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * * * * * *
25442899 TTGGCATATTTTGATTAGATCAGCACTTATGAGCTTTTGC
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * *
25442939 TCGGCGTGTTTCGGTTGGATTAGTTGTTATGAGCTT
1 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTT
25442975 TTATCTGGTG
Statistics
Matches: 322, Mismatches: 72, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
39 5 0.02
40 313 0.97
41 4 0.01
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.44
Consensus pattern (40 bp):
TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
Found at i:25443655 original size:29 final size:30
Alignment explanation
Indices: 25443585--25443683 Score: 132
Period size: 30 Copynumber: 3.3 Consensus size: 30
25443575 TACTATTTAT
25443585 ATTTTGGCCCCTCAC-TTTTTCTAAAATTAC
1 ATTTTGGCCCC-CACTTTTTTCTAAAATTAC
25443615 ATTTTGGCCCCCACTTTTTTCTGAAAA-TAC
1 ATTTTGGCCCCCACTTTTTTCT-AAAATTAC
**
25443645 ATTTTGG-CCCCTTTTTTTTCTAAAATTAC
1 ATTTTGGCCCCCACTTTTTTCTAAAATTAC
*
25443674 ATTTTAGCCC
1 ATTTTGGCCC
25443684 TTGGAGCTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
28 4 0.06
29 24 0.39
30 30 0.48
31 4 0.06
ACGTcount: A:0.22, C:0.25, G:0.08, T:0.44
Consensus pattern (30 bp):
ATTTTGGCCCCCACTTTTTTCTAAAATTAC
Found at i:25444689 original size:10 final size:10
Alignment explanation
Indices: 25444671--25444730 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
25444661 GGAAAGAGTT
25444671 AAAG-AAGAA
1 AAAGAAAGAA
*
25444680 AAAGGAAGAA
1 AAAGAAAGAA
*
25444690 AATA-AAAAAA
1 AA-AGAAAGAA
25444700 AGAAGAAAGAAA
1 A-AAGAAAG-AA
25444712 AAAGAAAGAA
1 AAAGAAAGAA
*
25444722 AAAGGAAGA
1 AAAGAAAGA
25444731 GAAATAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
9 4 0.10
10 23 0.55
11 12 0.29
12 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.02
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:25444711 original size:21 final size:22
Alignment explanation
Indices: 25444675--25444737 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
25444665 AGAGTTAAAG
*
25444675 AAGAAAAAGGAAGAAAATAA-A
1 AAGAAAAAGAAAGAAAATAAGA
25444696 AA-AAAGAAGAAAGAAAA-AAGA
1 AAGAAA-AAGAAAGAAAATAAGA
*
25444717 AAGAAAAAGGAAGAGAAATAA
1 AAGAAAAAGAAAGA-AAATAA
25444738 TCAGGTCCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 5 0.14
21 22 0.63
22 6 0.17
23 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (22 bp):
AAGAAAAAGAAAGAAAATAAGA
Found at i:25444713 original size:17 final size:17
Alignment explanation
Indices: 25444671--25444725 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
25444661 GGAAAGAGTT
* *
25444671 AAAGAAGAAAAAGGAAG
1 AAAGAAAAAAAAAGAAG
25444688 AAA-ATAAAAAAAAGAAG
1 AAAGA-AAAAAAAAGAAG
25444705 AAAGAAAAAAGAAAGAA-
1 AAAGAAAAAA-AAAGAAG
25444722 AAAG
1 AAAG
25444726 GAAGAGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 1 0.03
17 25 0.76
18 7 0.21
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAAAAAGAAG
Found at i:25444718 original size:11 final size:11
Alignment explanation
Indices: 25444678--25444734 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
25444668 GTTAAAGAAG
*
25444678 AAAAAGGAAGA
1 AAAAAGAAAGA
25444689 AAATAA-AAA-A
1 AAA-AAGAAAGA
*
25444699 AAGAAGAAAGA
1 AAAAAGAAAGA
25444710 AAAAAGAAAGA
1 AAAAAGAAAGA
*
25444721 AAAAGGAAGAGA
1 AAAAAGAA-AGA
25444733 AA
1 AA
25444735 TAATCAGGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 2 0.05
10 6 0.16
11 23 0.61
12 7 0.18
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:25444723 original size:27 final size:27
Alignment explanation
Indices: 25444671--25444724 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
25444661 GGAAAGAGTT
** *
25444671 AAAGAAGAAAAAGGAAGAAAATAAAAA
1 AAAGAAGAAAAAAAAAGAAAAGAAAAA
25444698 AAAGAAGAAAGAAAAAAG-AAAGAAAAA
1 AAAGAAGAAA-AAAAAAGAAAAGAAAAA
25444725 GGAAGAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (27 bp):
AAAGAAGAAAAAAAAAGAAAAGAAAAA
Done.