Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4658001
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 23
Found at i:1929094 original size:23 final size:21
Alignment explanation
Indices: 1929068--1929125 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 21
1929058 CATTTGGAAT
1929068 ATATATATGTGGTCCTTAAGGAG
1 ATATATATGTGGTCCTT-AGG-G
* * * *
1929091 ATATCTATATGGTTCTTCGGG
1 ATATATATGTGGTCCTTAGGG
*
1929112 ACATATATGTGGTC
1 ATATATATGTGGTC
1929126 ATTCGGGACA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 11 0.41
22 2 0.07
23 14 0.52
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (21 bp):
ATATATATGTGGTCCTTAGGG
Found at i:1930861 original size:8 final size:8
Alignment explanation
Indices: 1930850--1930875 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1930840 CCTTTTTCCA
1930850 ATTTGTTT
1 ATTTGTTT
1930858 ATTTGTTT
1 ATTTGTTT
1930866 ATTTGTTT
1 ATTTGTTT
1930874 AT
1 AT
1930876 CGATAATCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (8 bp):
ATTTGTTT
Found at i:1931574 original size:20 final size:22
Alignment explanation
Indices: 1931549--1931594 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1931539 ATATTACGAA
*
1931549 ATATTTT-AATT-TAAAATGTT
1 ATATTTTCAATTCTAAAATATT
*
1931569 ATATTTTCTATTCTAAAATATT
1 ATATTTTCAATTCTAAAATATT
1931591 ATAT
1 ATAT
1931595 AAGTTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 12 0.55
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
ATATTTTCAATTCTAAAATATT
Found at i:1933342 original size:36 final size:36
Alignment explanation
Indices: 1933301--1933408 Score: 216
Period size: 36 Copynumber: 3.0 Consensus size: 36
1933291 GTTCAAGAGT
1933301 GAGATGAGTTTTCTAGTCTTCTAACTTCAAACGTAC
1 GAGATGAGTTTTCTAGTCTTCTAACTTCAAACGTAC
1933337 GAGATGAGTTTTCTAGTCTTCTAACTTCAAACGTAC
1 GAGATGAGTTTTCTAGTCTTCTAACTTCAAACGTAC
1933373 GAGATGAGTTTTCTAGTCTTCTAACTTCAAACGTAC
1 GAGATGAGTTTTCTAGTCTTCTAACTTCAAACGTAC
1933409 CATGTGTTTG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (36 bp):
GAGATGAGTTTTCTAGTCTTCTAACTTCAAACGTAC
Found at i:1934566 original size:31 final size:31
Alignment explanation
Indices: 1934531--1934593 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
1934521 TTGATATTAA
*
1934531 TAAATAAAAATATATTAAAATTTTAATAATT
1 TAAATAAAAATAAATTAAAATTTTAATAATT
* * *
1934562 TAAATAAAACTAAATTATAATTTTTATAATT
1 TAAATAAAAATAAATTAAAATTTTAATAATT
1934593 T
1 T
1934594 TTAATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAATAAAAATAAATTAAAATTTTAATAATT
Found at i:1934731 original size:11 final size:11
Alignment explanation
Indices: 1934715--1934774 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
1934705 CGTGACTAAG
1934715 ATAATAATAAA
1 ATAATAATAAA
*
1934726 ATAATAATTAA
1 ATAATAATAAA
1934737 ATCAATAATTAAA
1 AT-AATAA-TAAA
1934750 AT-AT-A-AAA
1 ATAATAATAAA
* *
1934758 GTAATAACAAA
1 ATAATAATAAA
1934769 ATAATA
1 ATAATA
1934775 TTGTAATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 2 0.05
11 22 0.55
12 5 0.12
13 5 0.12
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:1935584 original size:13 final size:13
Alignment explanation
Indices: 1935566--1935603 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1935556 TGGGTTTGTG
1935566 GCTCGTCTCTGTT
1 GCTCGTCTCTGTT
1935579 GCTCGTCTCTGTT
1 GCTCGTCTCTGTT
1935592 GCTCGTCTCTGT
1 GCTCGTCTCTGT
1935604 CCTTCTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.24, T:0.45
Consensus pattern (13 bp):
GCTCGTCTCTGTT
Found at i:1936017 original size:3 final size:3
Alignment explanation
Indices: 1936009--1936043 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
1935999 TATATTTATT
1936009 TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA T
1936044 TTGGGAGTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1936567 original size:31 final size:31
Alignment explanation
Indices: 1936532--1936592 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1936522 TTGATATTAA
*
1936532 TAAATAAAAATATATTAAAATTTTAATAATT
1 TAAATAAAAATAAATTAAAATTTTAATAATT
* * *
1936563 TAAATAAAACTAAATTATAATTTTTATAAT
1 TAAATAAAAATAAATTAAAATTTTAATAAT
1936593 ATTTAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
TAAATAAAAATAAATTAAAATTTTAATAATT
Found at i:1937572 original size:13 final size:13
Alignment explanation
Indices: 1937554--1937578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1937544 TGGGTTCGTG
1937554 GCTCGTCTCTGTT
1 GCTCGTCTCTGTT
1937567 GCTCGTCTCTGT
1 GCTCGTCTCTGT
1937579 CCCTCTTCTT
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:0.00, C:0.32, G:0.24, T:0.44
Consensus pattern (13 bp):
GCTCGTCTCTGTT
Found at i:1937971 original size:2 final size:2
Alignment explanation
Indices: 1937964--1938004 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
1937954 TTTGGGCCTT
*
1937964 TA TA TA TA TA TA TA TA TA TA TA TA TT TA -A TA -A TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1938003 TA
1 TA
1938005 ATAATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1937998 original size:3 final size:3
Alignment explanation
Indices: 1937990--1938066 Score: 145
Period size: 3 Copynumber: 25.3 Consensus size: 3
1937980 TATATATATT
1937990 TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1938036 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1938067 TTGGGAGTCG
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 70 0.96
4 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1938587 original size:31 final size:31
Alignment explanation
Indices: 1938552--1938612 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1938542 TTGATATTAA
*
1938552 TAAATAAAAATATATTAAAATTTTAATAATT
1 TAAATAAAAATAAATTAAAATTTTAATAATT
* * *
1938583 TAAATAAAACTAAATTATAATTTTTATAAT
1 TAAATAAAAATAAATTAAAATTTTAATAAT
1938613 ATTTAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
TAAATAAAAATAAATTAAAATTTTAATAATT
Found at i:1939603 original size:13 final size:13
Alignment explanation
Indices: 1939585--1939622 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1939575 TGGGTTCGTG
1939585 GCTCGTCTCTGTT
1 GCTCGTCTCTGTT
1939598 GCTCGTCTCTGTT
1 GCTCGTCTCTGTT
1939611 GCTCGTCTCTGT
1 GCTCGTCTCTGT
1939623 CCCTCTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.24, T:0.45
Consensus pattern (13 bp):
GCTCGTCTCTGTT
Found at i:1940040 original size:3 final size:3
Alignment explanation
Indices: 1940032--1940073 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
1940022 TATATTTATT
*
1940032 TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA AAA TA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1940074 GTATGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1940322 original size:76 final size:76
Alignment explanation
Indices: 1940191--1940400 Score: 366
Period size: 76 Copynumber: 2.8 Consensus size: 76
1940181 AGATGAAAAA
* * *
1940191 TTTGTAAACATCATGCACTGAAGGACTTACAGATGACCCCAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
1940256 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
1940267 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
1940332 CCCGAAGGCTT
66 CCCGAAGGCTT
*
1940343 TTTGAAAACATCATGCACTGAAGGGCTTACATATGACCCGAAGGTTTTGAAAACATCA
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
1940401 TGCACTGAAG
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 127 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:1940398 original size:45 final size:45
Alignment explanation
Indices: 1940332--1940445 Score: 201
Period size: 45 Copynumber: 2.5 Consensus size: 45
1940322 TCAAAAAGCT
*
1940332 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACATATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1940379 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1940424 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
1940446 AAAAGCTCCC
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
45 58 0.88
47 8 0.12
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1940410 original size:25 final size:25
Alignment explanation
Indices: 1940342--1940411 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 25
1940332 CCCGAAGGCT
1940342 TTTTGAAAACATCATGCACTGAAGG
1 TTTTGAAAACATCATGCACTGAAGG
** *
1940367 GCTT----ACAT-ATG-ACCCGAAGG
1 TTTTGAAAACATCATGCA-CTGAAGG
1940387 TTTTGAAAACATCATGCACTGAAGG
1 TTTTGAAAACATCATGCACTGAAGG
1940412 GCTTACAGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
19 1 0.03
20 11 0.34
21 4 0.12
24 4 0.12
25 11 0.34
26 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (25 bp):
TTTTGAAAACATCATGCACTGAAGG
Found at i:1940467 original size:76 final size:74
Alignment explanation
Indices: 1940379--1940521 Score: 268
Period size: 76 Copynumber: 1.9 Consensus size: 74
1940369 TTACATATGA
1940379 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1940444 CAAAAAGCT
66 CAAAAAGCT
1940453 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1940518 ATCA
64 ATCA
1940522 TGCACTGAAG
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
74 8 0.12
76 59 0.88
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
CAAAAAGCT
Found at i:1940519 original size:45 final size:45
Alignment explanation
Indices: 1940453--1940608 Score: 294
Period size: 45 Copynumber: 3.4 Consensus size: 45
1940443 TCAAAAAGCT
1940453 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1940500 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1940545 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1940590 CCCGAAGGTTTTGAAAACA
1 CCCGAAGGTTTTGAAAACA
1940609 ACATAAAGCT
Statistics
Matches: 109, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
45 101 0.93
47 8 0.07
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1940532 original size:166 final size:166
Alignment explanation
Indices: 1940332--1943550 Score: 2589
Period size: 166 Copynumber: 20.0 Consensus size: 166
1940322 TCAAAAAGCT
*
1940332 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACATATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1940397 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGC
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGC
*
1940462 TTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
129 TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1940500 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* *
1940565 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCTCCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*** *
1940630 TTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1940666 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* *
1940731 CATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
1940795 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * * * *** *
1940831 CCCGAAGGCTTTGAAAACATCA---A---AA-AGC-TCCCGA--A---G-GCTTTTTGGAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
** * * * *
1940882 CATGCACTGAAGGATTTACAGATGACCCTAAGGTTTTGAAAACATC---ATGC-ACTGAAGGGCT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAA-GGCT
*** ** * * *** * * * * *
1940943 TACAGATGAC-CCGAAGGTTTTGAA-AACAT-CAAAAAGCT
130 TTTTGAAAACATC--ATGCACTGAAGGACTTAC-AGATG-A
**
1940981 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAA--GGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1941046 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGC
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGC
*
1941111 TTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
129 TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1941149 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* *
1941214 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCTCCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*** *
1941279 TTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1941315 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * * *
1941380 CATGCACTGAAGGACTTACAGATTACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
1941445 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * * * *** *
1941481 CCCTAAGG-TTTGAAAACATCA---A---AA-AGC-TCCCGA--A---G-GCTTTTTGGAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* *
1941531 CATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
* *
1941596 TTTGGAAACATCATGCACTGAAGGATTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1941632 CCCTAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * * *** ** * * *** ** * * * *
1941697 CAAAAAGCTCCCGAA-GGCTTTTTGAAAACATC--ATGCACTGAAGGGC-TTACAGATG-ACCCG
66 C---ATGC-ACTGAAGGGCTTACAGATGAC-CCGAAGGTTTTGAA-AACATCA-AAAAGCTCCCG
*
1941757 AAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
124 AAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1941798 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * * * * * *
1941863 CATAAAGCTCCCGAA-GGCTTTTTGGAAACATCATG-CACTGAAGGATTT------A-C-AGATG
66 CAT---GC-ACTGAAGGGC---TT----ACA-GATGAC-CCGAAGGTTTTGAAAACATCAAAAAG
* * *
1941918 -ACCCTAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
118 CTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * * ***
1941964 CCCGAAGGTTTTGAAAACATCA---A---AA-AGC-TCCCGA--A---G-GCTTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * *
1942015 CATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAACATC---ATGC-ACTGAAGGGCT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAA-GGCT
*** ** * * *** * * * *
1942075 TACAGATGAC-CCGAAGGTTTTGAA-AACAT-CAAAAAG-
130 TTTTGAAAACATC--ATGCACTGAAGGACTTAC-AGATGA
**
1942111 CTCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 C-CCGAA--GGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1942176 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC---ATGC-ACTGAAGG
63 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAA-G
*** ** * * *** * * * * *
1942237 GCTTACAGATGAC-CCGAAGGTTTTGAA-AAC-AACATAAAGCT
127 GCTTTTTGAAAACATC--ATGCACTGAAGGACTTACA-GATG-A
** *** *
1942278 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAA--GGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
* * *
1942343 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC---ATGC-ACTGAAGGA
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGG-
*** * * * * * ** * * * * *
1942404 CTTACAGATTACCCTAAGGCTTTGAA-AACAT-CAAAAAGCT
128 CTTTTTGA-AAACATCATGCACTGAAGGACTTAC-AGATG-A
** * * *
1942444 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAAC
1 CCCGAA--GGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
* * * *** ** * *** * * * * *
1942508 ATCAAAAAGCTCCCGAA-GGCTTTTTG--GAAAC-ATCATGCACTGAAGGAC-TTACAGATG-AC
64 ATC---ATGC-ACTGAAGGGCTTACAGATGACCCGA--AGGTTTTGAA-AACATCA-AAAAGCTC
* * *
1942567 CCGAAGGC--TTTGAAAACATCA---A---AAAG-C-TCCCGA--A
121 CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*** * ** *
1942601 ---G-GCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGACCCTAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1942662 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
1942727 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1942763 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
*
1942828 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATAAAGCTCCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*** *
1942893 TTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1942929 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * *
1942994 CATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGC-T
*
1943059 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
130 TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * * * *** *
1943096 CCCTAAGG-TTTGAAAACATCA---A---AA-AGC-TCCCGA--A---G-GCTTTTTGGAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* *
1943146 CATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
1943211 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * * * *** *
1943247 CCCTAAGGTTTTGAAAACATCA---A---AA-AGC-TCCCGA--A---G-GCTTTTTGGAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * *
1943298 CATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTTCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
* * *
1943363 TTTGGAAACATCATGCACTGTAGGACTTATAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * * * *** *
1943399 CCCTAAGGCTTTGAAAACATCA---A---AA-AGCTT-CCGA--A---G-GCTTTTTGGAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * *
1943450 CATGCACTGAAGGACTTACAGATGACCCCAAGGTTTTGAAAACATCAAAAAGCTTCCGAAGGCTT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
1943515 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1943551 GGGAAATAGT
Statistics
Matches: 2611, Mismatches: 292, Indels: 312
0.81 0.09 0.10
Matches are distributed among these distances:
140 3 0.00
141 9 0.00
142 4 0.00
145 6 0.00
146 5 0.00
147 4 0.00
148 29 0.01
149 42 0.02
150 43 0.02
151 255 0.10
152 438 0.17
153 4 0.00
154 1 0.00
155 5 0.00
156 4 0.00
157 10 0.00
158 23 0.01
159 13 0.00
160 19 0.01
161 4 0.00
162 5 0.00
163 4 0.00
164 46 0.02
165 172 0.07
166 1293 0.50
167 55 0.02
168 50 0.02
169 38 0.01
170 12 0.00
171 9 0.00
173 2 0.00
174 1 0.00
175 3 0.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (166 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1940642 original size:76 final size:74
Alignment explanation
Indices: 1940545--1940684 Score: 226
Period size: 76 Copynumber: 1.9 Consensus size: 74
1940535 TTACAGATGA
*** *
1940545 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAA
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAA
1940610 CATAAAGCT
66 CATAAAGCT
1940619 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1940684 A
64 A
1940685 TCATGCACTG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 8 0.13
76 52 0.87
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAA
CATAAAGCT
Found at i:1940686 original size:45 final size:45
Alignment explanation
Indices: 1940619--1940780 Score: 218
Period size: 45 Copynumber: 3.6 Consensus size: 45
1940609 ACATAAAGCT
1940619 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
1 CCCGAAGGC--TTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
***
1940666 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
* *** *
1940711 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
*
1940756 CCCTAAGG-TTTGAAAACATCAAAAA
1 CCCGAAGGCTTTGAAAACATCAAAAA
1940781 GCTCCCGAAG
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
44 14 0.13
45 83 0.78
47 9 0.08
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (45 bp):
CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
Found at i:1940807 original size:75 final size:76
Alignment explanation
Indices: 1940711--1940928 Score: 379
Period size: 76 Copynumber: 2.9 Consensus size: 76
1940701 TTACAGATGA
*
1940711 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1940773 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1940784 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1940849 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1940860 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1940925 ATCA
66 ATCA
1940929 TGCACTGAAG
Statistics
Matches: 137, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
73 8 0.06
75 43 0.31
76 86 0.63
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:1940934 original size:45 final size:45
Alignment explanation
Indices: 1940860--1940973 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
1940850 TCAAAAAGCT
* *
1940860 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
1940907 CCCTAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1940952 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
1940974 AAAAGCTCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 55 0.89
47 7 0.11
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1941047 original size:45 final size:45
Alignment explanation
Indices: 1940981--1941094 Score: 210
Period size: 45 Copynumber: 2.5 Consensus size: 45
1940971 TCAAAAAGCT
1940981 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1941028 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1941073 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
1941095 AAAAGCTCCC
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
45 59 0.88
47 8 0.12
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1941116 original size:76 final size:74
Alignment explanation
Indices: 1941028--1941170 Score: 268
Period size: 76 Copynumber: 1.9 Consensus size: 74
1941018 TTACAGATGA
1941028 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1941093 CAAAAAGCT
66 CAAAAAGCT
1941102 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1941167 ATCA
64 ATCA
1941171 TGCACTGAAG
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
74 8 0.12
76 59 0.88
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
CAAAAAGCT
Found at i:1941168 original size:45 final size:45
Alignment explanation
Indices: 1941102--1941257 Score: 294
Period size: 45 Copynumber: 3.4 Consensus size: 45
1941092 TCAAAAAGCT
1941102 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1941149 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1941194 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1941239 CCCGAAGGTTTTGAAAACA
1 CCCGAAGGTTTTGAAAACA
1941258 ACATAAAGCT
Statistics
Matches: 109, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
45 101 0.93
47 8 0.07
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1941213 original size:121 final size:118
Alignment explanation
Indices: 1940191--1941215 Score: 832
Period size: 121 Copynumber: 8.5 Consensus size: 118
1940181 AGATGAAAAA
* *
1940191 TTTGTAAACATCATGCACTGAAGGACTTACAGATGACCCCAAGGTTTTGAAAACATCA-AAAAGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCCAAGGTTTTGAAAACATCACAAAAG-
* *
1940255 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
64 ACCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
* * * *** ** * * *** ** *
1940312 TTTGAAAACATCAAAAAGCTCCCGAA-GGCTTTTTGAAAACATC-ATGCACTGAAGGGC-TTACA
1 TTTGAAAACATC---ATGC-ACTGAAGGGCTTACAGATGAC-CCAAGGTTTTGAA-AACATCACA
* * *
1940374 TATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
60 AAAGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
* * * *** ** * * *** ** *
1940433 TTTGAAAACATCAAAAAGCTCCCGAA-GGCTTTTTGAAAACATC-ATGCACTGAAGGGC-TTACA
1 TTTGAAAACATC---ATGC-ACTGAAGGGCTTACAGATGAC-CCAAGGTTTTGAA-AACATCACA
* * *
1940495 GATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
60 AAAGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1940554 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA--ACATAAAG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTGAAAACATCACA-AAAG
* ***
1940617 CTCCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGC
64 -ACCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
*
1940675 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT--C--ATG-
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTGAAAACATCACAAAAGA
* ** * * *** ** * * * *
1940735 CACTGAAGGACTT-ACAGATGAC-CCTAAGGTTTGAA-AACAT-CAAAAAGCTCCCGAAGGC
65 C-CCGAAGGTTTTGA-A-A--ACATC-ATGCACTGAAGGGCTTAC-AGATG-ACCCGAAGGC
* * *
1940793 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA-AAAA
1 --TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTGAAAACATCACAAAA
* * ** * *
1940857 GCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGACCCTAAGGT
63 G-ACCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1940916 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA-AAAAGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTGAAAACATCACAAAAG-
* *
1940980 TCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
64 ACCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1941037 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA-AAAAGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTGAAAACATCACAAAAG-
* *
1941101 TCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
64 ACCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1941158 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTGAAAACATCA
1941216 TGCACTGAAG
Statistics
Matches: 777, Mismatches: 89, Indels: 76
0.82 0.09 0.08
Matches are distributed among these distances:
114 1 0.00
115 3 0.00
116 3 0.00
117 20 0.03
118 34 0.04
119 14 0.02
120 53 0.07
121 578 0.74
123 34 0.04
124 27 0.03
125 7 0.01
126 3 0.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (118 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAGGTTTTGAAAACATCACAAAAGAC
CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
Found at i:1941282 original size:121 final size:119
Alignment explanation
Indices: 1941149--1942222 Score: 834
Period size: 121 Copynumber: 8.9 Consensus size: 119
1941139 TTACAGATGA
*** *
1941149 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
1941214 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
1941268 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
*
1941333 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAT---GC-
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
* * ** * * ** ** * * * *
1941385 ACTGAAGGACTT-ACAGATTAC-CCTAAGGCTTTGAA-AACAT-CAAAAAGCTCCCGAAGGCTTT
1 CCCGAAGGTTTTGA-A-A--ACATCAAAAAC--TGAAGGGCTTAC-AGATG-ACCCGAAGGC--T
* * * * *
1941446 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCT
56 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
* *** *
1941509 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
* * * * * * *
1941574 ATCAAAAAGCTCCCGAA-GGCTTTTTGGAAACATCATG-CACTGAAGGATTT----AC-AGAT--
64 ATC---ATGC-ACTGAAGGGC---TT----ACA-GATGAC-CCGAAGGTTTTGAAAACAACATAA
*
1941630 -G-A
116 AGCT
* *** *
1941632 CCCTAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
* * * *** ** * * *** ** * * * *
1941697 CAAAAAGCTCCCGAA-GGCTTTTTGAAAACATC--ATGCACTGAAGGGCTTACA-GATG-A
66 C---ATGC-ACTGAAGGGCTTACAGATGAC-CCGAAGGTTTTGAA-AAC-AACATAAAGCT
*** *
1941753 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
*
1941818 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATAAAGCT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
* *** ** * *
1941872 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
* *
1941937 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
***
1941993 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
* *
1942057 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
*** *
1942113 -CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1942177 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
1942223 TCATGCACTG
Statistics
Matches: 801, Mismatches: 99, Indels: 109
0.79 0.10 0.11
Matches are distributed among these distances:
112 3 0.00
113 1 0.00
114 3 0.00
115 3 0.00
116 1 0.00
117 19 0.02
118 26 0.03
119 91 0.11
120 144 0.18
121 437 0.55
122 13 0.02
123 22 0.03
124 14 0.02
125 1 0.00
126 5 0.01
127 1 0.00
128 2 0.00
130 4 0.00
131 8 0.01
132 3 0.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (119 bp):
CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
Found at i:1941291 original size:76 final size:74
Alignment explanation
Indices: 1941194--1941333 Score: 226
Period size: 76 Copynumber: 1.9 Consensus size: 74
1941184 TTACAGATGA
*** *
1941194 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAA
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAA
1941259 CATAAAGCT
66 CATAAAGCT
1941268 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1941333 A
64 A
1941334 TCATGCACTG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 8 0.13
76 52 0.87
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAA
CATAAAGCT
Found at i:1941335 original size:45 final size:45
Alignment explanation
Indices: 1941268--1941430 Score: 218
Period size: 45 Copynumber: 3.6 Consensus size: 45
1941258 ACATAAAGCT
1941268 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
1 CCCGAAGGC--TTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
***
1941315 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
* *** * *
1941360 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATTA
1 CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
*
1941405 CCCTAAGGCTTTGAAAACATCAAAAA
1 CCCGAAGGCTTTGAAAACATCAAAAA
1941431 GCTCCCGAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 96 0.91
47 9 0.09
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (45 bp):
CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
Found at i:1941526 original size:75 final size:76
Alignment explanation
Indices: 1941360--1941653 Score: 522
Period size: 76 Copynumber: 3.9 Consensus size: 76
1941350 TTACAGATGA
* *
1941360 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATTACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1941423 ATCAAAAAGCT
66 ATCAAAAAGCT
1941434 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1941498 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1941509 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1941574 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1941585 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1941650 ATCA
66 ATCA
1941654 TGCACTGAAG
Statistics
Matches: 211, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
74 8 0.04
75 74 0.35
76 129 0.61
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:1941642 original size:151 final size:150
Alignment explanation
Indices: 1941360--1941653 Score: 527
Period size: 151 Copynumber: 2.0 Consensus size: 150
1941350 TTACAGATGA
* *
1941360 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATTACCCTAAGGCTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACAT
1941425 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-
66 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGT
1941489 TTTGAAAACATCAAAAAGCT
131 TTTGAAAACATCAAAAAGCT
*
1941509 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
1941574 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGACCCTAAG
64 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAG
1941639 GTTTTGAAAACATCA
129 GTTTTGAAAACATCA
1941654 TGCACTGAAG
Statistics
Matches: 138, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
149 8 0.06
151 117 0.85
152 13 0.09
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (150 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGT
TTTGAAAACATCAAAAAGCT
Found at i:1941659 original size:45 final size:45
Alignment explanation
Indices: 1941585--1941698 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
1941575 TCAAAAAGCT
* *
1941585 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
1941632 CCCTAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1941677 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
1941699 AAAAGCTCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 55 0.89
47 7 0.11
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1941772 original size:45 final size:45
Alignment explanation
Indices: 1941706--1941865 Score: 302
Period size: 45 Copynumber: 3.5 Consensus size: 45
1941696 TCAAAAAGCT
1941706 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1941753 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1941798 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1941843 CCCGAAGGTTTTGAAAACATCAT
1 CCCGAAGGTTTTGAAAACATCAT
1941866 AAAGCTCCCG
Statistics
Matches: 113, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
45 105 0.93
47 8 0.07
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1941896 original size:76 final size:74
Alignment explanation
Indices: 1941798--1941941 Score: 234
Period size: 76 Copynumber: 1.9 Consensus size: 74
1941788 TTACAGATGA
*
1941798 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACAT
1941863 CATAAAGCT
66 CATAAAGCT
* * *
1941872 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1941937 ATCAT
64 ATCAT
1941942 GCACTGAAGG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 8 0.12
76 56 0.88
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACAT
CATAAAGCT
Found at i:1941946 original size:45 final size:45
Alignment explanation
Indices: 1941872--1941985 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
1941862 TCATAAAGCT
* *
1941872 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
1941919 CCCTAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1941964 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
1941986 AAAAGCTCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 55 0.89
47 7 0.11
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1942059 original size:44 final size:45
Alignment explanation
Indices: 1941993--1942105 Score: 201
Period size: 44 Copynumber: 2.5 Consensus size: 45
1941983 TCAAAAAGCT
1941993 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1942040 CCCGAAGG-TTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1942084 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
1942106 AAAAGCTCCG
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
44 44 0.68
45 13 0.20
47 8 0.12
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1942179 original size:45 final size:45
Alignment explanation
Indices: 1942113--1942267 Score: 292
Period size: 45 Copynumber: 3.4 Consensus size: 45
1942103 TCAAAAAGCT
1942113 CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1 CCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1942160 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1942205 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1942250 CCGAAGGTTTTGAAAACA
1 CCGAAGGTTTTGAAAACA
1942268 ACATAAAGCT
Statistics
Matches: 108, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
45 101 0.94
47 7 0.06
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
Found at i:1942301 original size:76 final size:74
Alignment explanation
Indices: 1942204--1942343 Score: 226
Period size: 76 Copynumber: 1.9 Consensus size: 74
1942194 TTACAGATGA
*** *
1942204 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAA
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAA
1942269 CATAAAGCT
66 CATAAAGCT
1942278 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1942343 A
64 A
1942344 TCATGCACTG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 8 0.13
76 52 0.87
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAA
CATAAAGCT
Found at i:1942345 original size:45 final size:45
Alignment explanation
Indices: 1942278--1942440 Score: 218
Period size: 45 Copynumber: 3.6 Consensus size: 45
1942268 ACATAAAGCT
1942278 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
1 CCCGAAGGC--TTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
***
1942325 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
* *** * *
1942370 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATTA
1 CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
*
1942415 CCCTAAGGCTTTGAAAACATCAAAAA
1 CCCGAAGGCTTTGAAAACATCAAAAA
1942441 GCTCCCGAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 96 0.91
47 9 0.09
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (45 bp):
CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
Found at i:1942536 original size:75 final size:76
Alignment explanation
Indices: 1942370--1942663 Score: 522
Period size: 76 Copynumber: 3.9 Consensus size: 76
1942360 TTACAGATGA
* *
1942370 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATTACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1942433 ATCAAAAAGCT
66 ATCAAAAAGCT
1942444 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1942508 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1942519 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1942584 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1942595 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1942660 ATCA
66 ATCA
1942664 TGCACTGAAG
Statistics
Matches: 211, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
74 8 0.04
75 74 0.35
76 129 0.61
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:1942652 original size:151 final size:150
Alignment explanation
Indices: 1942370--1942663 Score: 527
Period size: 151 Copynumber: 2.0 Consensus size: 150
1942360 TTACAGATGA
* *
1942370 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATTACCCTAAGGCTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACAT
1942435 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-
66 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGT
1942499 TTTGAAAACATCAAAAAGCT
131 TTTGAAAACATCAAAAAGCT
*
1942519 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
1942584 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGACCCTAAG
64 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAG
1942649 GTTTTGAAAACATCA
129 GTTTTGAAAACATCA
1942664 TGCACTGAAG
Statistics
Matches: 138, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
149 8 0.06
151 117 0.85
152 13 0.09
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (150 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGT
TTTGAAAACATCAAAAAGCT
Found at i:1942669 original size:45 final size:45
Alignment explanation
Indices: 1942595--1942708 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
1942585 TCAAAAAGCT
* *
1942595 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGATTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
1942642 CCCTAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1942687 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
1942709 AAAAGCTCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 55 0.89
47 7 0.11
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1942782 original size:45 final size:45
Alignment explanation
Indices: 1942716--1942875 Score: 302
Period size: 45 Copynumber: 3.5 Consensus size: 45
1942706 TCAAAAAGCT
1942716 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1942763 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1942808 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1942853 CCCGAAGGTTTTGAAAACATCAT
1 CCCGAAGGTTTTGAAAACATCAT
1942876 AAAGCTCCCG
Statistics
Matches: 113, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
45 105 0.93
47 8 0.07
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1942905 original size:76 final size:74
Alignment explanation
Indices: 1942808--1942951 Score: 234
Period size: 76 Copynumber: 1.9 Consensus size: 74
1942798 TTACAGATGA
*** *
1942808 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
1942873 CATAAAGCT
66 CATAAAGCT
1942882 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1942947 ATCAT
64 ATCAT
1942952 GCACTGAAGG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 8 0.12
76 56 0.88
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
CATAAAGCT
Found at i:1942949 original size:45 final size:45
Alignment explanation
Indices: 1942882--1943044 Score: 227
Period size: 45 Copynumber: 3.6 Consensus size: 45
1942872 TCATAAAGCT
1942882 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
1 CCCGAAGGC--TTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
***
1942929 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
* *** *
1942974 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
*
1943019 CCCTAAGGCTTTGAAAACATCAAAAA
1 CCCGAAGGCTTTGAAAACATCAAAAA
1943045 GCTCCCGAAG
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 97 0.92
47 9 0.08
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (45 bp):
CCCGAAGGCTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGA
Found at i:1942996 original size:121 final size:119
Alignment explanation
Indices: 1942159--1942992 Score: 575
Period size: 121 Copynumber: 6.9 Consensus size: 119
1942149 TTACAGATGA
*** *
1942159 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
1942224 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
1942278 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
*
1942343 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAT---GC-
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
* * ** * * ** ** * * * *
1942395 ACTGAAGGACTT-ACAGATTAC-CCTAAGGCTTTGAA-AACAT-CAAAAAGCTCCCGAAGGCTTT
1 CCCGAAGGTTTTGA-A-A--ACATCAAAAAC--TGAAGGGCTTAC-AGATG-ACCCGAAGGC--T
* * * * *
1942456 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCT
56 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
* *** *
1942519 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
* * * * * * *
1942584 ATCAAAAAGCTCCCGAA-GGCTTTTTGGAAACATCATG-CACTGAAGGATTT----AC-AGAT--
64 ATC---ATGC-ACTGAAGGGC---TT----ACA-GATGAC-CCGAAGGTTTTGAAAACAACATAA
*
1942640 -G-A
116 AGCT
* *** *
1942642 CCCTAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
* * * *** ** * * *** ** * * * *
1942707 CAAAAAGCTCCCGAA-GGCTTTTTGAAAACATC--ATGCACTGAAGGGCTTACA-GATG-A
66 C---ATGC-ACTGAAGGGCTTACAGATGAC-CCGAAGGTTTTGAA-AAC-AACATAAAGCT
*** *
1942763 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
*
1942828 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATAAAGCT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
1942882 CCCGAAGGCTTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1942947 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
1942993 TCATGCACTG
Statistics
Matches: 567, Mismatches: 94, Indels: 106
0.74 0.12 0.14
Matches are distributed among these distances:
112 3 0.01
113 1 0.00
114 3 0.01
115 3 0.01
116 1 0.00
117 19 0.03
118 26 0.05
119 37 0.07
120 24 0.04
121 377 0.66
122 13 0.02
123 22 0.04
124 14 0.02
125 1 0.00
126 5 0.01
127 1 0.00
128 2 0.00
130 4 0.01
131 8 0.01
132 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (119 bp):
CCCGAAGGTTTTGAAAACATCAAAAACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAACATAAAGCT
Found at i:1943184 original size:76 final size:76
Alignment explanation
Indices: 1942974--1943550 Score: 1025
Period size: 76 Copynumber: 7.6 Consensus size: 76
1942964 TTACAGATGA
*
1942974 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1943037 ATCAAAAAGCT
66 ATCAAAAAGCT
1943048 CCCGAAGGCTTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAA
1 CCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAA
1943112 CATCAAAAAGCT
65 CATCAAAAAGCT
*
1943124 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1943189 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1943200 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1943265 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1943276 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1943341 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1943352 TCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1943417 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1943428 TCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCCAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1943493 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1943504 TCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1943551 GGGAAATAGT
Statistics
Matches: 487, Mismatches: 12, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
74 8 0.02
75 45 0.09
76 390 0.80
77 44 0.09
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:1944236 original size:23 final size:22
Alignment explanation
Indices: 1944214--1944255 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1944204 AAATCCGATA
* *
1944214 AAGCTTTCATCTTTGAAAAGAT
1 AAGCTGTCATCTTTAAAAAGAT
*
1944236 AATCTGTCATCTTTAAAAAG
1 AAGCTGTCATCTTTAAAAAG
1944256 GGAATCTATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (22 bp):
AAGCTGTCATCTTTAAAAAGAT
Found at i:1944246 original size:22 final size:22
Alignment explanation
Indices: 1944220--1944274 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1944210 GATAAAGCTT
* *
1944220 TCATCTTTGAAAAGATAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
1944242 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1944264 TCATCTTTGAA
1 TCATCTTTGAA
1944275 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1945787 original size:35 final size:34
Alignment explanation
Indices: 1945743--1945808 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
1945733 TCTTGTTGAG
1945743 ATGAACCTTCAAAATGCCCAAATATTCATATTGTT
1 ATGAACCTTCAAAATGCCCAAATATTC-TATTGTT
* *
1945778 ATGAGCCTTCAAAATGCCCCAATATTCTATT
1 ATGAACCTTCAAAATGCCCAAATATTCTATT
1945809 TCTTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (34 bp):
ATGAACCTTCAAAATGCCCAAATATTCTATTGTT
Found at i:1949036 original size:1 final size:1
Alignment explanation
Indices: 1949025--1949078 Score: 72
Period size: 1 Copynumber: 54.0 Consensus size: 1
1949015 CTTGATTCAA
* * * *
1949025 TTTTTTCTTTTTTTTTTTTTTTTTTTTCTTTTTTTCTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1949079 CTTATTTCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:1949038 original size:8 final size:8
Alignment explanation
Indices: 1949025--1949089 Score: 75
Period size: 7 Copynumber: 8.2 Consensus size: 8
1949015 CTTGATTCAA
1949025 TTTTTTC-
1 TTTTTTCT
1949032 TTTTTT-T
1 TTTTTTCT
1949039 TTTTTT-T
1 TTTTTTCT
1949046 TTTTTTCT
1 TTTTTTCT
1949054 TTTTTTCTT
1 TTTTTTC-T
1949063 TTTTTTCT
1 TTTTTTCT
1949071 TTTTTT-T
1 TTTTTTCT
1949078 TCTTATTTCT
1 T-TT-TTTCT
1949088 TT
1 TT
1949090 GCTGGATGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
7 21 0.40
8 17 0.33
9 12 0.23
10 2 0.04
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTCT
Found at i:1949047 original size:17 final size:17
Alignment explanation
Indices: 1949025--1949089 Score: 87
Period size: 17 Copynumber: 3.9 Consensus size: 17
1949015 CTTGATTCAA
*
1949025 TTTTTTCTTTT-TTTTT
1 TTTTTTTTTTTCTTTTT
1949041 TTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTCTTTTT
*
1949058 TTCTTTTTTTTCTTTTT
1 TTTTTTTTTTTCTTTTT
* *
1949075 TTTTCTTATTTCTTT
1 TTTTTTTTTTTCTTT
1949090 GCTGGATGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
16 10 0.23
17 33 0.77
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTTTCTTTTT
Found at i:1949390 original size:2 final size:2
Alignment explanation
Indices: 1949383--1949423 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1949373 ACAACAAAGG
1949383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1949424 AAGGATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1950429 original size:12 final size:12
Alignment explanation
Indices: 1950399--1950436 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1950389 ATTACTTTTA
1950399 TATTTTAATTAT
1 TATTTTAATTAT
**
1950411 TGCTTTAATTAT
1 TATTTTAATTAT
1950423 TATTTT-ATTAT
1 TATTTTAATTAT
1950434 TAT
1 TAT
1950437 CTTAGTCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:1950457 original size:2 final size:2
Alignment explanation
Indices: 1950450--1950477 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1950440 AGTCACATAA
1950450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1950478 TTAAATAATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1950612 original size:31 final size:31
Alignment explanation
Indices: 1950571--1950631 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1950561 ATAATTAAAT
*
1950571 ATTATAAAAATTATAATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATAGTTTTATTTAA
* * *
1950602 ATTATTAAAATTTTAATATATTTTTATTTA
1 ATTATAAAAATTATAATATAGTTTTATTTA
1950632 TTAATATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTATAAAAATTATAATATAGTTTTATTTAA
Found at i:1954409 original size:29 final size:29
Alignment explanation
Indices: 1954367--1954425 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1954357 ATTTTCACCT
1954367 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1954396 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1954425 A
1 A
1954426 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:1959096 original size:29 final size:29
Alignment explanation
Indices: 1959054--1959112 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1959044 ATTTTTACCT
1959054 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1959083 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1959112 A
1 A
1959113 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:1959555 original size:18 final size:18
Alignment explanation
Indices: 1959532--1959571 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1959522 CAATATATAC
1959532 TAATAAATAAT-AATAAAA
1 TAATAAA-AATAAATAAAA
*
1959550 TAATAAAGATAAATAAAA
1 TAATAAAAATAAATAAAA
1959568 TAAT
1 TAAT
1959572 TTATTGTGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
TAATAAAAATAAATAAAA
Found at i:1968925 original size:23 final size:23
Alignment explanation
Indices: 1968895--1968940 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1968885 TCGGTTAGGA
*
1968895 AGTTCTAGAGTCTCAAAATGCTC
1 AGTTCTAGAGACTCAAAATGCTC
1968918 AGTTCTAGAGACTCAAAATGCTC
1 AGTTCTAGAGACTCAAAATGCTC
1968941 TATGTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (23 bp):
AGTTCTAGAGACTCAAAATGCTC
Found at i:1974695 original size:65 final size:66
Alignment explanation
Indices: 1974588--1974726 Score: 253
Period size: 65 Copynumber: 2.1 Consensus size: 66
1974578 ATTTTGGTTC
* *
1974588 ATATTTTGGGTTGACTACTTAAGTTGATTAACTATGGTCATTTAAACACGTGTTTACTGACTTTT
1 ATATTTTGGGTTAAATACTTAAGTTGATTAACTATGGTCATTTAAACACGTGTTTACTGACTTTT
1974653 G
66 G
1974654 AT-TTTTGGGTTAAATACTTAAGTTGATTAACTATGGTCATTTAAACACGTGTTTACTGACTTTT
1 ATATTTTGGGTTAAATACTTAAGTTGATTAACTATGGTCATTTAAACACGTGTTTACTGACTTTT
1974718 G
66 G
1974719 ATATTTTG
1 ATATTTTG
1974727 TTTCATACTT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
65 63 0.90
66 7 0.10
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (66 bp):
ATATTTTGGGTTAAATACTTAAGTTGATTAACTATGGTCATTTAAACACGTGTTTACTGACTTTT
G
Found at i:1977041 original size:89 final size:92
Alignment explanation
Indices: 1976887--1977066 Score: 276
Period size: 89 Copynumber: 2.0 Consensus size: 92
1976877 CAGAACTGCG
* * *
1976887 TCCGTAGGGCTTGCCCTTAGCACATAGCAAAAGGGAAACAAACCTAAGGATATGCCTTGGGGCCT
1 TCCGTAGGGCTTACCCTAAGCACACAGCAAAAGGGAAACAAACCTAAGGATATGCCTTGGGGCCT
*
1976952 ATAGGCCTACCCAAGGGTATCCTTAGA
66 ACAGGCCTACCCAAGGGTATCCTTAGA
* *
1976979 TCCGTAGGG-TTACCCTAAGCACACAG-TAAAGGG-AACCAACCTAAGGATATGCCTTGGGGCCT
1 TCCGTAGGGCTTACCCTAAGCACACAGCAAAAGGGAAACAAACCTAAGGATATGCCTTGGGGCCT
*
1977041 ACGGGCCTACCCAAGGGTATCCTTAG
66 ACAGGCCTACCCAAGGGTATCCTTAG
1977067 GTCCAAAAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
89 52 0.64
90 6 0.07
91 14 0.17
92 9 0.11
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (92 bp):
TCCGTAGGGCTTACCCTAAGCACACAGCAAAAGGGAAACAAACCTAAGGATATGCCTTGGGGCCT
ACAGGCCTACCCAAGGGTATCCTTAGA
Found at i:1979937 original size:12 final size:12
Alignment explanation
Indices: 1979920--1979944 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1979910 TTTTCGGAAA
1979920 TTACTGTAGCAG
1 TTACTGTAGCAG
1979932 TTACTGTAGCAG
1 TTACTGTAGCAG
1979944 T
1 T
1979945 GAACAGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TTACTGTAGCAG
Found at i:1981661 original size:178 final size:181
Alignment explanation
Indices: 1981362--1981722 Score: 667
Period size: 178 Copynumber: 2.0 Consensus size: 181
1981352 ATTAACACGT
1981362 TTAGATAATTTTGATCATGAATTGGCTGTCTCTGTATTAAGGTTGGGTTAATGGTCTCAAGAAGC
1 TTAGATAATTTTGATCATGAATTGGCTGTCTCTGTATTAAGGTTGGGTTAATGGTCTCAAGAAGC
1981427 GATTAATTTTGAAAAATGCGGAGAAGTTAATAATTTTAATGATTGATGAAAAAGTGAAATATCGC
66 GATTAATTTTGAAAAATGCGGAGAAGTTAATAATTTTAATGATTGATGAAAAAGTGAAATATCGC
1981492 TAACGTAATAT-CAA-GGTTTGCGATT-A-ATGATATAAAAAGGACGCATAG
131 TAACGTAATATACAATGG-TTGCGATTAAGATGATATAAAAAGGACGCATAG
1981540 TTAGATAATTTTGATCATGAATTGGCTGTCTCTGTATTAAGGTTGGGTTAATGGTCTCAAGAAGC
1 TTAGATAATTTTGATCATGAATTGGCTGTCTCTGTATTAAGGTTGGGTTAATGGTCTCAAGAAGC
1981605 GATTAATTTTGAAAAATGCGGAGAAGTTAATAATTTTAATGATTGATGAAAAAGTGAAATATCGC
66 GATTAATTTTGAAAAATGCGGAGAAGTTAATAATTTTAATGATTGATGAAAAAGTGAAATATCGC
1981670 TAACGTAATATCAGCAATGGTTGCGATTAAGATGATATAAAAAGGACGCATAG
131 TAACGTAATAT-A-CAATGGTTGCGATTAAGATGATATAAAAAGGACGCATAG
1981723 CTTTTCTAGC
Statistics
Matches: 177, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
178 141 0.80
181 11 0.06
182 3 0.02
183 22 0.12
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.33
Consensus pattern (181 bp):
TTAGATAATTTTGATCATGAATTGGCTGTCTCTGTATTAAGGTTGGGTTAATGGTCTCAAGAAGC
GATTAATTTTGAAAAATGCGGAGAAGTTAATAATTTTAATGATTGATGAAAAAGTGAAATATCGC
TAACGTAATATACAATGGTTGCGATTAAGATGATATAAAAAGGACGCATAG
Found at i:1984832 original size:24 final size:24
Alignment explanation
Indices: 1984799--1984855 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
1984789 TTTTCCAGCT
*
1984799 CACAACACCTCCATTAAGACAAAA
1 CACAAAACCTCCATTAAGACAAAA
1984823 CACAAAACCTCCATTAAGACAAAA
1 CACAAAACCTCCATTAAGACAAAA
1984847 CACAAAACC
1 CACAAAACC
1984856 CGATTGCGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.53, C:0.33, G:0.04, T:0.11
Consensus pattern (24 bp):
CACAAAACCTCCATTAAGACAAAA
Found at i:1990163 original size:2 final size:2
Alignment explanation
Indices: 1990156--1990190 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1990146 TTCCGAATTT
1990156 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1990191 CAATTAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1996327 original size:183 final size:182
Alignment explanation
Indices: 1996011--1996368 Score: 635
Period size: 183 Copynumber: 2.0 Consensus size: 182
1996001 ATCAGAGCTA
1996011 TACCTCCAATCTACCCATATAATATCCAGTAAAACAGTTCAAGTATAACCAGTGAAACATAAAAA
1 TACCTCCAATCTACCCATATAATATCCAGTAAAACAGTTCAAGTATAACCAGTGAAACATAAAAA
* *
1996076 CATGGTTCATAAACCAGTGGTTTCCATGGTTCCATAAATCAAAACCAATTCATATTTTTCGATAA
66 CATGGTTCATAAACCAGTAGTTTCCATGGTTCCATAAATAAAAACCAATTCATATTTTTCGATAA
1996141 AAACCATAATCGTAAATCACTTACCATGTCGCCATAGTTCATAAAATAGATG
131 AAACCATAATCGTAAATCACTTACCATGTCGCCATAGTTCATAAAATAGATG
* * *
1996193 TACCTTCAGTCTACCCATATAATATCCCAGTAAAACAGTTCGAGTATAACCAGTGAAACATAAAA
1 TACCTCCAATCTACCCATATAATAT-CCAGTAAAACAGTTCAAGTATAACCAGTGAAACATAAAA
*
1996258 CCATGGTTCATAAACCAGTAGTTTCCATGGTTCCATAAATAAAAACCAATTCATATTTTTCGATA
65 ACATGGTTCATAAACCAGTAGTTTCCATGGTTCCATAAATAAAAACCAATTCATATTTTTCGATA
* *
1996323 AAAACCATAATCGTAAATTACTTACCATGTCGCCATGGTTCATAAA
130 AAAACCATAATCGTAAATCACTTACCATGTCGCCATAGTTCATAAA
1996369 CCAGTAAATC
Statistics
Matches: 167, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
182 23 0.14
183 144 0.86
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (182 bp):
TACCTCCAATCTACCCATATAATATCCAGTAAAACAGTTCAAGTATAACCAGTGAAACATAAAAA
CATGGTTCATAAACCAGTAGTTTCCATGGTTCCATAAATAAAAACCAATTCATATTTTTCGATAA
AAACCATAATCGTAAATCACTTACCATGTCGCCATAGTTCATAAAATAGATG
Found at i:1999038 original size:25 final size:24
Alignment explanation
Indices: 1998987--1999038 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
1998977 ATCAAAGGTT
* *
1998987 AACGGGTCAGGTCAAACCCGGTTA
1 AACGGGTCAGGTCAAAACCGGTCA
* *
1999011 AACGGGTCGGGTCAAAACTGAGTCA
1 AACGGGTCAGGTCAAAACCG-GTCA
1999036 AAC
1 AAC
1999039 TACCCCAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.33, C:0.23, G:0.29, T:0.15
Consensus pattern (24 bp):
AACGGGTCAGGTCAAAACCGGTCA
Found at i:2002536 original size:13 final size:13
Alignment explanation
Indices: 2002485--2002536 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
2002475 GTCATAAATC
2002485 TATGACGCGCATT
1 TATGACGCGCATT
*
2002498 GATGA-GACGCATT
1 TATGACG-CGCATT
* *
2002511 TATGACTCACATT
1 TATGACGCGCATT
2002524 TATGACGCGCATT
1 TATGACGCGCATT
2002537 GAGCGTCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
12 1 0.03
13 30 0.97
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:2002649 original size:10 final size:10
Alignment explanation
Indices: 2002634--2002658 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2002624 ATTGAAAAAT
2002634 AATCAAACTA
1 AATCAAACTA
2002644 AATCAAACTA
1 AATCAAACTA
2002654 AATCA
1 AATCA
2002659 CATTTAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (10 bp):
AATCAAACTA
Found at i:2006809 original size:26 final size:26
Alignment explanation
Indices: 2006779--2006834 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
2006769 TTTGTGTTAC
* *
2006779 ATTTATTATTTTGAAGTATTTATGAT
1 ATTTAATATTTTGAAGTAATTATGAT
* * *
2006805 ATTTAATGTTTTGGAGTAATTCTGAT
1 ATTTAATATTTTGAAGTAATTATGAT
2006831 ATTT
1 ATTT
2006835 TATGTTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (26 bp):
ATTTAATATTTTGAAGTAATTATGAT
Found at i:2006839 original size:26 final size:26
Alignment explanation
Indices: 2006787--2006842 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
2006777 ACATTTATTA
*
2006787 TTTTGAAGTATTTATGATATTTAATG
1 TTTTGAAGTAATTATGATATTTAATG
* * *
2006813 TTTTGGAGTAATTCTGATATTTTATG
1 TTTTGAAGTAATTATGATATTTAATG
2006839 TTTT
1 TTTT
2006843 ATCTCACCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (26 bp):
TTTTGAAGTAATTATGATATTTAATG
Found at i:2017115 original size:29 final size:30
Alignment explanation
Indices: 2017031--2017123 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
2017021 AATGTGCCTG
* *
2017031 CATCAACAGTCCAATCTTCTAATGCACCTG
1 CATCAAAAGTCCAATCTTCTAATGCACCTT
* *
2017061 CATCAAAAGTCTAATCTTCTAATGCAACTT
1 CATCAAAAGTCCAATCTTCTAATGCACCTT
* *
2017091 CATC-AATGTCCAATCTTCTCATGCACCTT
1 CATCAAAAGTCCAATCTTCTAATGCACCTT
2017120 CATC
1 CATC
2017124 TGCATTCCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 25 0.45
30 30 0.55
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (30 bp):
CATCAAAAGTCCAATCTTCTAATGCACCTT
Found at i:2017169 original size:30 final size:30
Alignment explanation
Indices: 2017073--2017171 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 30
2017063 TCAAAAGTCT
* * *
2017073 AATCTTCTAATGCAACTTCA--TCAATGTCC
1 AATCTTCTCATGCACCTTCACCTCCAT-TCC
* *
2017102 AATCTTCTCATGCACCTTCATCTGCATTCC
1 AATCTTCTCATGCACCTTCACCTCCATTCC
* * *
2017132 AAACTTCTCATGTACCTTCACCTACCCTT-C
1 AATCTTCTCATGCACCTTCACCT-CCATTCC
2017162 AATCTTCTCA
1 AATCTTCTCA
2017172 ACCAGTTTTG
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
29 18 0.32
30 33 0.58
31 6 0.11
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.35
Consensus pattern (30 bp):
AATCTTCTCATGCACCTTCACCTCCATTCC
Found at i:2024052 original size:14 final size:14
Alignment explanation
Indices: 2024035--2024065 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2024025 TAAAAATTGA
2024035 AAATAAATTAAAAG
1 AAATAAATTAAAAG
*
2024049 AAATGAATTAAAAG
1 AAATAAATTAAAAG
2024063 AAA
1 AAA
2024066 ACAAAATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (14 bp):
AAATAAATTAAAAG
Found at i:2040655 original size:22 final size:22
Alignment explanation
Indices: 2040629--2040675 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
2040619 CCTTTTTTTT
2040629 TCATTAAGCACATTTTTACTTA
1 TCATTAAGCACATTTTTACTTA
2040651 TCATTAAGCACATTTTTACTTA
1 TCATTAAGCACATTTTTACTTA
2040673 TCA
1 TCA
2040676 CACCTACTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (22 bp):
TCATTAAGCACATTTTTACTTA
Found at i:2042796 original size:19 final size:20
Alignment explanation
Indices: 2042774--2042817 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2042764 GAGAAAAGGT
2042774 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
2042793 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
2042813 AAAAG
1 AAAAG
2042818 AAAAAGTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:2052434 original size:21 final size:21
Alignment explanation
Indices: 2052408--2052455 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2052398 CACCACAGCT
2052408 CACATAATTG-CACTGAAGTG-C
1 CACATAATTGTC-CTGAA-TGAC
*
2052429 CACATATTTGTCCTGAATGAC
1 CACATAATTGTCCTGAATGAC
2052450 CACATA
1 CACATA
2052456 GTTTTGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.08
21 21 0.88
22 1 0.04
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (21 bp):
CACATAATTGTCCTGAATGAC
Found at i:2052473 original size:23 final size:23
Alignment explanation
Indices: 2052420--2052502 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
2052410 CATAATTGCA
2052420 CTGAAGTG-CCACATA--TTTGTC
1 CTGAAG-GACCACATAGTTTTGTC
*
2052441 CTGAATGACCACATAGTTTTGT-
1 CTGAAGGACCACATAGTTTTGTC
*
2052463 TTCGAAGGACCACATAGTTTTGTC
1 CT-GAAGGACCACATAGTTTTGTC
2052487 CTGAAGGACCACATAG
1 CTGAAGGACCACATAG
2052503 AACCATCGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.02
21 12 0.23
22 1 0.02
23 38 0.72
24 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (23 bp):
CTGAAGGACCACATAGTTTTGTC
Found at i:2059367 original size:38 final size:38
Alignment explanation
Indices: 2059316--2059397 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
2059306 TGCATTTAGA
2059316 AGCATTTAGTTGCATGTGGTGGAATTCAGTATGCCGCG
1 AGCATTTAGTTGCATGTGGTGGAATTCAGTATGCCGCG
*
2059354 AGCATTTAGTTGCATGTGGTGGAATTCAGTATGCCGTG
1 AGCATTTAGTTGCATGTGGTGGAATTCAGTATGCCGCG
2059392 A-CATTT
1 AGCATTT
2059398 TATTTTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 5 0.12
38 38 0.88
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (38 bp):
AGCATTTAGTTGCATGTGGTGGAATTCAGTATGCCGCG
Found at i:2069740 original size:23 final size:23
Alignment explanation
Indices: 2069710--2069761 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
2069700 GCAGACAACT
*
2069710 ACATAGTTTTATCCTGAAGGACC
1 ACATAGTTTTATCCTAAAGGACC
2069733 ACATAGTTTTATCCTAAAGGACC
1 ACATAGTTTTATCCTAAAGGACC
2069756 ACATAG
1 ACATAG
2069762 AACCCTCGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (23 bp):
ACATAGTTTTATCCTAAAGGACC
Found at i:2071850 original size:49 final size:49
Alignment explanation
Indices: 2071793--2071889 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
2071783 ACACCACTAG
2071793 CTTTAGTGAACTATGTTGTTACTCAGTGTTAATTTACTTCTTAATACAA
1 CTTTAGTGAACTATGTTGTTACTCAGTGTTAATTTACTTCTTAATACAA
*
2071842 CTTTAGTGAACTATGTTGTTACTCGGTGTTAATTTACTTCTTAATACA
1 CTTTAGTGAACTATGTTGTTACTCAGTGTTAATTTACTTCTTAATACA
2071890 TCAGAGTTAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.45
Consensus pattern (49 bp):
CTTTAGTGAACTATGTTGTTACTCAGTGTTAATTTACTTCTTAATACAA
Found at i:2093931 original size:13 final size:13
Alignment explanation
Indices: 2093913--2093938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2093903 ATAGTTGAAT
2093913 AGTCTTCATATGC
1 AGTCTTCATATGC
2093926 AGTCTTCATATGC
1 AGTCTTCATATGC
2093939 GCGTCTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
AGTCTTCATATGC
Found at i:2096195 original size:17 final size:18
Alignment explanation
Indices: 2096159--2096196 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2096149 GTTGTTTTTA
*
2096159 AAATAAAATATAAGAATT
1 AAATAAAAGATAAGAATT
*
2096177 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
2096194 AAA
1 AAA
2096197 CAAATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:2098538 original size:2 final size:2
Alignment explanation
Indices: 2098533--2098644 Score: 224
Period size: 2 Copynumber: 56.0 Consensus size: 2
2098523 ATGATATATA
2098533 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2098575 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2098617 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2098645 ACTATAAGTT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 110 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2099181 original size:23 final size:23
Alignment explanation
Indices: 2099154--2099237 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
2099144 ACATTTTATA
** *
2099154 TGGCACTTTGGTGCATTTCTACG
1 TGGCACTTCAGTGCAATTCTACG
** *
2099177 TGGCACTTTGGTGCAATTCTATG
1 TGGCACTTCAGTGCAATTCTACG
*
2099200 TGGCACTTCAGTGCAATTCTATG
1 TGGCACTTCAGTGCAATTCTACG
2099223 TGGCACTTCAGTGCA
1 TGGCACTTCAGTGCA
2099238 TTTATACGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (23 bp):
TGGCACTTCAGTGCAATTCTACG
Found at i:2103468 original size:2 final size:2
Alignment explanation
Indices: 2103461--2103488 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2103451 AGGTAAAATG
2103461 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2103489 GACTATGAGT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2107815 original size:20 final size:20
Alignment explanation
Indices: 2107770--2107939 Score: 182
Period size: 20 Copynumber: 8.5 Consensus size: 20
2107760 GCGAATATGA
* *
2107770 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
2107790 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2107810 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2107830 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2107850 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2107870 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
2107890 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
* * *
2107910 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
2107930 AAATCACAAC
1 AAATCGCAAC
2107940 ACTGAAATTT
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
19 1 0.01
20 129 0.98
21 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2108640 original size:24 final size:24
Alignment explanation
Indices: 2108601--2108647 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2108591 AAATTTGGTC
2108601 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2108625 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2108648 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:2108839 original size:12 final size:12
Alignment explanation
Indices: 2108822--2108846 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2108812 ATATAATCCT
2108822 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2108834 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2108846 G
1 G
2108847 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2111222 original size:19 final size:19
Alignment explanation
Indices: 2111182--2111279 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
2111172 GATTCTCTCG
2111182 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
2111202 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2111221 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2111235 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2111254 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2111273 TTGCGAT
1 TTGCGAT
2111280 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2111276 original size:52 final size:53
Alignment explanation
Indices: 2111163--2111279 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
2111153 GAAATGAAAA
2111163 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
2111216 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
2111268 TCGCATTGCGAT
1 TCGCATTGCGAT
2111280 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:2111390 original size:33 final size:33
Alignment explanation
Indices: 2111338--2111499 Score: 150
Period size: 33 Copynumber: 4.7 Consensus size: 33
2111328 CCATTACATT
2111338 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
2111372 TCGCAATGCGAAATGAAAATCGCAATGCGA-AA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * *
2111404 T-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAGAA
*
2111443 TCGCAATACGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
2111476 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
2111500 TTGCGATTCT
Statistics
Matches: 104, Mismatches: 13, Indels: 23
0.74 0.09 0.16
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 53 0.51
34 10 0.10
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:2111394 original size:19 final size:19
Alignment explanation
Indices: 2111338--2111505 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
2111328 CCATTACATT
2111338 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
2111358 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
2111372 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
2111391 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
2111410 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
2111424 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
2111443 TCGCAATACGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
2111462 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
2111476 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
2111495 TCGCATTGCGA
1 TCGCAATGCGA
2111506 TTCTCCCATT
Statistics
Matches: 124, Mismatches: 9, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.24
15 3 0.02
16 6 0.05
17 5 0.04
18 4 0.03
19 70 0.56
20 6 0.05
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:2111417 original size:52 final size:52
Alignment explanation
Indices: 2111338--2111505 Score: 300
Period size: 52 Copynumber: 3.2 Consensus size: 52
2111328 CCATTACATT
2111338 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
2111391 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
* *
2111443 TCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
2111495 TCGCATTGCGA
1 TCGCAATGCGA
2111506 TTCTCCCATT
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 102 0.92
53 9 0.08
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:2111554 original size:19 final size:19
Alignment explanation
Indices: 2111512--2111611 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
2111502 GCGATTCTCC
*
2111512 CATTGTGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
2111532 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
2111551 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
2111567 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
2111584 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
2111603 CATTGCGAT
1 CATTGCGAT
2111612 AGTCAATTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.50
20 16 0.22
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:2111608 original size:52 final size:53
Alignment explanation
Indices: 2111495--2111611 Score: 200
Period size: 53 Copynumber: 2.2 Consensus size: 53
2111485 GAAATTAAAA
*
2111495 TCGCATTGCGATTCTCCCATTGTGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
2111548 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
2111600 TCGCATTGCGAT
1 TCGCATTGCGAT
2111612 AGTCAATTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
52 30 0.49
53 31 0.51
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:2111737 original size:14 final size:14
Alignment explanation
Indices: 2111718--2111754 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2111708 CATCAATTAC
2111718 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2111732 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2111746 ACAAATCAA
1 ACAAATCAA
2111755 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2113756 original size:14 final size:14
Alignment explanation
Indices: 2113737--2113793 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2113727 GCGAAATGAA
*
2113737 AATCGCAACGACAG
1 AATCGCAACGAAAG
2113751 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2113768 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2113784 AATCGCAACG
1 AATCGCAACG
2113794 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2113764 original size:33 final size:33
Alignment explanation
Indices: 2113718--2113810 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2113708 GCGAAACCAA
*
2113718 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2113751 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2113784 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2113811 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2113775 original size:19 final size:19
Alignment explanation
Indices: 2113681--2113815 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2113671 TAGTTTACTT
* *
2113681 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2113701 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2113720 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2113739 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2113753 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2113772 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2113786 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2113805 TCGCAATGCGA
1 TCGCAACGCGA
2113816 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2113833 original size:19 final size:19
Alignment explanation
Indices: 2113811--2113939 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2113801 AAAATCGCAA
2113811 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2113830 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2113844 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2113863 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2113877 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2113896 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2113915 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2113935 TGCGA
1 TGCGA
2113940 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2113853 original size:33 final size:33
Alignment explanation
Indices: 2113811--2113902 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2113801 AAAATCGCAA
2113811 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2113844 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2113877 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2113903 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2114142 original size:93 final size:93
Alignment explanation
Indices: 2113983--2114361 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
2113973 TTGAATGGAT
2113983 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2114048 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2114076 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2114141 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2114169 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2114232 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2114260 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2114325 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2114353 AAATTTACT
1 AAATTTACT
2114362 AAGCAATCTA
Statistics
Matches: 281, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 90 0.32
93 191 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2114294 original size:184 final size:185
Alignment explanation
Indices: 2113983--2114361 Score: 724
Period size: 184 Copynumber: 2.0 Consensus size: 185
2113973 TTGAATGGAT
2113983 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-ACAGTGTTAAAGAATACAC
2114048 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
2114113 TACTATTTCACAGTGTTATAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2114169 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-CAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
2114233 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
*
2114298 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2114353 AAATTTACT
1 AAATTTACT
2114362 AAGCAATCTA
Statistics
Matches: 191, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 146 0.76
186 45 0.24
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2116087 original size:14 final size:14
Alignment explanation
Indices: 2116068--2116157 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2116058 TTGAAATGAA
2116068 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2116082 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2116099 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2116115 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2116134 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2116148 AATCGCAACG
1 AATCGCAACG
2116158 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2116105 original size:33 final size:33
Alignment explanation
Indices: 2116060--2116174 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2116050 TCTTTTGGTT
2116060 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2116093 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2116126 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2116159 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2116175 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2116106 original size:19 final size:18
Alignment explanation
Indices: 2116067--2116179 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2116057 GTTGAAATGA
2116067 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2116082 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2116099 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2116115 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2116132 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2116148 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2116165 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2116180 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2116208 original size:19 final size:19
Alignment explanation
Indices: 2116175--2116219 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2116165 AAAATCGCAA
**
2116175 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
2116194 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
2116213 TGCGATT
1 TGCGATT
2116220 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:2116277 original size:41 final size:41
Alignment explanation
Indices: 2116217--2116294 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
2116207 TCGCGTTGCG
* *
2116217 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
2116258 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
2116295 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:2116293 original size:21 final size:21
Alignment explanation
Indices: 2116218--2116293 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2116208 CGCGTTGCGA
*
2116218 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
2116239 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
2116259 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
2116280 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
2116294 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:2116420 original size:33 final size:33
Alignment explanation
Indices: 2116373--2116443 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2116363 AATACTAACT
* *
2116373 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2116406 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2116439 TGAAA
1 TGAAA
2116444 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2116677 original size:22 final size:22
Alignment explanation
Indices: 2116625--2116679 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2116615 TGGTTGTGAG
**
2116625 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2116647 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2116669 GGATTTCTTCG
1 GGATTTCTTCG
2116680 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2116850 original size:20 final size:20
Alignment explanation
Indices: 2116825--2117018 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2116815 CTTTAAATAT
2116825 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2116845 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2116867 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2116886 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2116906 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2116926 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2116946 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2116966 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2116986 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2117006 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2117019 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2117012 original size:60 final size:60
Alignment explanation
Indices: 2116825--2117018 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2116815 CTTTAAATAT
**
2116825 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2116886 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2116946 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2117006 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2117019 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2117019 original size:20 final size:20
Alignment explanation
Indices: 2116966--2117060 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
2116956 TTTACGGATA
* *
2116966 CGCGTTGCGATTTAT-GTGTT
1 CGCGTTGCGATTT-TCATATT
2116986 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
* * *
2117006 CGCGTTGCGATTTTGGAAAAT
1 CGCGTTGCGATTTT-CATATT
**
2117027 CGCAATGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
2117047 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
2117061 GGAAAATCGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 45 0.74
21 15 0.25
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Done.