Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold488
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: 2093548
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 9 of 14
Found at i:1249576 original size:1 final size:1
Alignment explanation
Indices: 1249572--1249696 Score: 79
Period size: 1 Copynumber: 125.0 Consensus size: 1
1249562 CCGGACCCCC
* * * * * ** * * **
1249572 TTTTTTTGTTTTTTTATTGTTTTTGTTGTTTTTTTTTTTCCTTTTGTTTTGTTTTTTTTTTTGGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** * ** *
1249637 TTTTCATTTTTTCGTTTTTTTTTTTTTTTGTTTTCATTTTTTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1249697 GGAGGACGCC
Statistics
Matches: 93, Mismatches: 31, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 93 1.00
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:1249608 original size:30 final size:27
Alignment explanation
Indices: 1249572--1249696 Score: 110
Period size: 28 Copynumber: 4.5 Consensus size: 27
1249562 CCGGACCCCC
* *
1249572 TTTTTTTGTTTTTTTATTGTTTTTGTTG
1 TTTTTTTTTTTTTTTATT-TTTTTGTTT
** *
1249600 TTTTTTTTTTTCCTT-TTGTTTTGTTT
1 TTTTTTTTTTTTTTTATTTTTTTGTTT
* * *
1249626 TTTTTTTTGGTTTTTCATTTTTTCGTTTT
1 TTTTTTTT-TTTTTTTATTTTTTTG-TTT
*
1249655 TTTTTTTTTTTGTTTTCATTTTTTT-TTG
1 TTTTTTTTTTT-TTTT-ATTTTTTTGTTT
1249683 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
1249697 GGAGGACGCC
Statistics
Matches: 77, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
26 15 0.19
27 8 0.10
28 33 0.43
29 14 0.18
30 7 0.09
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (27 bp):
TTTTTTTTTTTTTTTATTTTTTTGTTT
Found at i:1249624 original size:32 final size:29
Alignment explanation
Indices: 1249572--1249696 Score: 117
Period size: 30 Copynumber: 4.1 Consensus size: 29
1249562 CCGGACCCCC
**
1249572 TTTTTTTGTTTTTTTATTGTTTTTGTTGTTTT
1 TTTTTTTCCTTTTTT-TTGTTTTT-TT-TTTT
1249604 TTTTTTTCCTTTTGTTTTGTTTTTTTTTTT
1 TTTTTTTCCTTTT-TTTTGTTTTTTTTTTT
** *
1249634 GGTTTTTCATTTTTTCGTT-TTTTTTTTTTT
1 TTTTTTTCCTTTTTT--TTGTTTTTTTTTTT
* *
1249664 TTGTTTTCATTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTC-CTTTTTTTTGTTTTTTTTTTT
1249694 TTT
1 TTT
1249697 GGAGGACGCC
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
29 4 0.05
30 43 0.55
31 10 0.13
32 19 0.24
33 2 0.03
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (29 bp):
TTTTTTTCCTTTTTTTTGTTTTTTTTTTT
Found at i:1249658 original size:31 final size:31
Alignment explanation
Indices: 1249623--1249698 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 31
1249613 TTTTGTTTTG
1249623 TTTTTTTTTTTGGTTTTTCA-TTTTTTCGTTT
1 TTTTTTTTTTTGG-TTTTCATTTTTTTCGTTT
* *
1249654 TTTTTTTTTTTTGTTTTCATTTTTTTTTGTTT
1 TTTTTTTTTTTGGTTTTCA-TTTTTTTCGTTT
1249686 TTTTTTTTTTTGG
1 TTTTTTTTTTTGG
1249699 AGGACGCCGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 6 0.15
31 12 0.30
32 22 0.55
ACGTcount: A:0.03, C:0.04, G:0.09, T:0.84
Consensus pattern (31 bp):
TTTTTTTTTTTGGTTTTCATTTTTTTCGTTT
Found at i:1249678 original size:38 final size:37
Alignment explanation
Indices: 1249573--1249696 Score: 112
Period size: 38 Copynumber: 3.3 Consensus size: 37
1249563 CGGACCCCCT
*
1249573 TTTTTTGTTTTTTTATTGTTTTTGTTGTTTTTTTTTTTCC
1 TTTTTT-TTTTTTT-TTGTTTTTGTT-TTTTATTTTTTCC
* * *
1249613 TTTTGTTTTGTTTTTTT-TTTTGGTTTTTCATTTTTTCG
1 TTTT-TTTT-TTTTTTTGTTTTTGTTTTTTATTTTTTCC
** *
1249651 TTTTTTTTTTTTTTTGTTTTCATTTTTT-TTTGTT--
1 TTTTTTTTTTTTTTTGTTTTTGTTTTTTATTTTTTCC
1249685 TTTTTTTTTTTT
1 TTTTTTTTTTTT
1249697 GGAGGACGCC
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
34 12 0.16
36 12 0.16
37 13 0.18
38 14 0.19
39 7 0.10
40 8 0.11
41 7 0.10
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (37 bp):
TTTTTTTTTTTTTTTGTTTTTGTTTTTTATTTTTTCC
Found at i:1249687 original size:55 final size:55
Alignment explanation
Indices: 1249572--1249689 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 55
1249562 CCGGACCCCC
* * * *
1249572 TTTTTTTGTTTTTTTATTGTTTTTGTTGTTTTTTTTTTTCCTTTTGTTTTGTTTT
1 TTTTTTTGGTTTTTCATTGTTTTCGTTGTTTTTTTTTTTCCTTTTATTTTGTTTT
* ** *
1249627 TTTTTTTGGTTTTTCATT-TTTTCGTTTTTTTTTTTTTTTGTTTTCATTTTTTTTT
1 TTTTTTTGGTTTTTCATTGTTTTCGTTGTTTTTTTTTTTCCTTTT-ATTTTGTTTT
1249682 GTTTTTTT
1 -TTTTTTT
1249690 TTTTTTTGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 22 0.42
55 24 0.45
56 7 0.13
ACGTcount: A:0.03, C:0.04, G:0.09, T:0.84
Consensus pattern (55 bp):
TTTTTTTGGTTTTTCATTGTTTTCGTTGTTTTTTTTTTTCCTTTTATTTTGTTTT
Found at i:1259413 original size:10 final size:10
Alignment explanation
Indices: 1259398--1259424 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1259388 ATGTATCAAG
1259398 CAAAAACAAA
1 CAAAAACAAA
1259408 CAAAAACAAA
1 CAAAAACAAA
1259418 CAAAAAC
1 CAAAAAC
1259425 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:1263690 original size:67 final size:65
Alignment explanation
Indices: 1263600--1263741 Score: 214
Period size: 67 Copynumber: 2.2 Consensus size: 65
1263590 TGAATAGTGT
***
1263600 ATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTAT-AGTGTATCGATACATAT
1 ATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA-AT
1263664 GC
64 GC
1263666 ATCGATTACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACAATG
1 ATCGA-TACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACAATG
*
1263731 T
65 C
1263732 ATCGATACAT
1 ATCGATACAT
1263742 TTAAGTGATG
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
65 5 0.07
66 15 0.21
67 50 0.71
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (65 bp):
ATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACAATGC
Found at i:1263734 original size:13 final size:13
Alignment explanation
Indices: 1263716--1263740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1263706 CAAAGATCAG
1263716 TGTATCGATACAA
1 TGTATCGATACAA
1263729 TGTATCGATACA
1 TGTATCGATACA
1263741 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1263818 original size:33 final size:33
Alignment explanation
Indices: 1263781--1263847 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1263771 AGTAGCTTAA
1263781 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1263814 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1263847 A
1 A
1263848 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1263821 original size:13 final size:13
Alignment explanation
Indices: 1263803--1263827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1263793 CAAAAAAATA
1263803 TGTATCGATACAT
1 TGTATCGATACAT
1263816 TGTATCGATACA
1 TGTATCGATACA
1263828 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1264786 original size:52 final size:52
Alignment explanation
Indices: 1264654--1264865 Score: 208
Period size: 52 Copynumber: 4.2 Consensus size: 52
1264644 GAAAAGTGAT
* * * * * * * *
1264654 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-A
* * *
1264708 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
1264761 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
1264804 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1264856 AAAGGTGCCA
1 AAAGGTGCCA
1264866 CCGACTTGTG
Statistics
Matches: 130, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 38 0.29
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 42 0.32
53 6 0.05
54 5 0.04
55 35 0.27
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:1264822 original size:43 final size:43
Alignment explanation
Indices: 1264761--1264850 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
1264751 TAAAGATGGA
*
1264761 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1264804 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
1264847 AAAG
1 AAAG
1264851 ATGGAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:1264895 original size:30 final size:30
Alignment explanation
Indices: 1264855--1265062 Score: 253
Period size: 30 Copynumber: 7.0 Consensus size: 30
1264845 TTAAAGATGG
* * **
1264855 AAAAGGTGCCACCGACTTGTGGGCTTCGGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
* * *
1264885 AAAGGGTGCCACTGATTTGTGGGC-TTTG-
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
* *
1264913 -AAGGTTGCCACTGACTTGTGGGCTTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
*
1264942 AAAATATGCCACTGACTTGTGGGCTTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
*
1264972 AAAATATGCCACTGACTTGTGGGCTTTTGAA
1 AAAAGATGCCACTGACTTGTGGGCTTTTG-A
*
1265003 AAAAAATGCCACTGACTTGTGGGC-TTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
* *
1265032 AAAAAATGCCACTGACTTGTGGACTTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGA
1265062 A
1 A
1265063 GGGTGATGAA
Statistics
Matches: 161, Mismatches: 12, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
27 21 0.13
28 4 0.02
29 26 0.16
30 86 0.53
31 24 0.15
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (30 bp):
AAAAGATGCCACTGACTTGTGGGCTTTTGA
Found at i:1264952 original size:87 final size:88
Alignment explanation
Indices: 1264861--1265053 Score: 246
Period size: 87 Copynumber: 2.2 Consensus size: 88
1264851 ATGGAAAAGG
* * * * ***
1264861 TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGTTGCCAC
1 TGCCACTGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAATGCCAC
*
1264924 TGACTTGTGGGCTTTTGAAAAATA
66 TGACTTGTGGGC-TTTGAAAAAAA
** *
1264948 TGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAAAAATGCC
1 TGCCACTGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCTTTTG--AAAAAATGCC
1265013 ACTGACTTGTGGGCTTTGAAAAAAA
64 ACTGACTTGTGGGCTTTGAAAAAAA
1265038 TGCCACTGACTTGTGG
1 TGCCACTGACTTGTGG
1265054 ACTTTTGAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
87 41 0.45
88 4 0.04
90 26 0.29
91 20 0.22
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (88 bp):
TGCCACTGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAATGCCAC
TGACTTGTGGGCTTTGAAAAAAA
Found at i:1266504 original size:1 final size:1
Alignment explanation
Indices: 1266500--1266643 Score: 99
Period size: 1 Copynumber: 144.0 Consensus size: 1
1266490 CGGACCCCCC
* * * * * ** * *
1266500 TTTTTTTTGTTTTTTTTATTGTTTTTTGTTGTTTTTTTTTTTCCTTTTGTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** ** * ** ** *
1266565 TGGTTTTTCATTTTTTCGTTTTTTTTTTTTTTTTTTTTGTTTTGGTTTTTCATTTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1266630 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
1266644 GGAGGACGCC
Statistics
Matches: 110, Mismatches: 33, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 110 1.00
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:1266580 original size:42 final size:38
Alignment explanation
Indices: 1266500--1266643 Score: 150
Period size: 36 Copynumber: 3.7 Consensus size: 38
1266490 CGGACCCCCC
* * *
1266500 TTTTTTTTGTTTTTTTTATTGTTTTTTGTT-GTTTTT--
1 TTTTTTTT-TTTTTTTTTTTTTTTTTTTTTGGTTTTTCA
* * *
1266536 TTTTTTCCTTTTGTTTTGTTTTTTTTTTTTGGTTTTTCA
1 TTTTTT-TTTTTTTTTTTTTTTTTTTTTTTGGTTTTTCA
1266575 TTTTTTCGTTTTTTTTTTTTTTTTTTTTGTTTTGGTTTTTCA
1 -TTTTT--TTTTTTTTTTTTTTTTTTTT-TTTTGGTTTTTCA
*
1266617 TTTTTTTTTGTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1266644 GGAGGACGCC
Statistics
Matches: 91, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
36 23 0.25
37 7 0.08
38 2 0.02
39 19 0.21
40 5 0.05
41 21 0.23
42 14 0.15
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.85
Consensus pattern (38 bp):
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGTTTTTCA
Found at i:1266607 original size:73 final size:74
Alignment explanation
Indices: 1266501--1266638 Score: 206
Period size: 73 Copynumber: 1.9 Consensus size: 74
1266491 GGACCCCCCT
* ** *
1266501 TTTTTTTGTTTTTTTTATTGTTTTTTGTTGTTTTTTTTTTTCCTTTTGTTTTGTTTTTTTTTTTT
1 TTTTTTCGTTTTTTTTATTGTTTTTTGTTGTTTTGGTTTTTCATTTTGTTTTGTTTTTTTTTTTT
1266566 GGTTTTTCA
66 GGTTTTTCA
* * *
1266575 TTTTTTCGTTTTTTTT-TTTTTTTTTTTTGTTTTGGTTTTTCATTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTCGTTTTTTTTATTGTTTTTTGTTGTTTTGGTTTTTCATTTTGTTTTGTTTTTTTTTTTT
1266639 TTTTTGGAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
73 42 0.74
74 15 0.26
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (74 bp):
TTTTTTCGTTTTTTTTATTGTTTTTTGTTGTTTTGGTTTTTCATTTTGTTTTGTTTTTTTTTTTT
GGTTTTTCA
Found at i:1270224 original size:1 final size:1
Alignment explanation
Indices: 1270218--1270246 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
1270208 TGATAAAGGC
1270218 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1270247 GATAGAGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1276370 original size:10 final size:10
Alignment explanation
Indices: 1276355--1276381 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1276345 ATGTATCAAG
1276355 CAAAAACAAA
1 CAAAAACAAA
1276365 CAAAAACAAA
1 CAAAAACAAA
1276375 CAAAAAC
1 CAAAAAC
1276382 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:1286802 original size:705 final size:707
Alignment explanation
Indices: 1285402--1286803 Score: 1569
Period size: 702 Copynumber: 2.0 Consensus size: 707
1285392 TTAAGGATGG
** **
1285402 ATGAACCAAGAAGGGAGGTGAATTGGTTATTTTCAAATTTTGAGTGTTTTAAAAGGTTTGGTGCA
1 ATGAACCAAGAAGGGAGGTGAATTGGTTATTTTCAAATTTTGAGAATTTTAAAAGAATTGGTGCA
*
1285467 AAACAATTCAAAAGATAAAAGGATTGAGGAAGAAAAGCTCGACACAAATGTTTATAGAGGTCCAG
66 AAACAATTCAAAAGATAAAA-GA-TGAAGAAGAAAA-CTCGACACAAATGTTTATAGAGGTCCAG
* * *
1285532 TCCTAACATGGCACCAACGTCCTCTCTCCTTGACACTTCCTTGTCAAGTGTTACCATAATTCACT
128 TCCTAACATGACACCAACGTCCTCTCTCCTCGACACTTCCTTGTCAAGTGTTACCACAATTCACT
* * * * **
1285597 ACACTAATTGCTTGCCTTTCAGGAAAGGTATAACCTTACAACCCTTTATCTTTTCTAGGCTAAGA
193 ACACGAATTGATTACCTTTAAGGAAAGGTATAACCTTACAACCCTTTATCTTTTAAAGGCTAAGA
** * *
1285662 TAAAAACCTCACAATCTCTCCAAGAATTATACCTCAAATTCTTAAGAAATTGTAACCCAAGGTTG
258 TAAAAACCTCACAATCTCTCCAAGAACAATACCCCAAATTCCTAAGAAATTGTAACCCAAGGTTG
** * * *
1285727 AATGCAACTTACAAAATTCAAGGAAATTGTACAAACGAAAATTACCTCTAAATAGGCTGATGTTT
323 AACACAACTTACAAAA-TCAAAGAAATTGAACAAACGAAAAATACCTCTAAATAGGCTGATGTTT
* ** * *
1285792 GTGAAAGAATAAACACAAATTAAAAATAAAGAACTTTCAACGAATAACAACAATGAATGTAAAAG
387 GTGAAACAATAAACACAAAACAAAAAAAAAGAACTTTCAAC-AATAACAACAATGAAAGTAAAAG
* * *
1285857 ATCTTAAAATGAAAAAATAAGTAAAACTTTGAATGCTTTGATCTCTTGGTGTTTCTTGATTGATT
451 ATCTTAAAATGAAAAAATAAGTAAAACTTTGAAAGCTTTGAACTCTTGGTGTCTCTTGATTGATT
***
1285922 CTCTTCAAGTTCAACTATTGGAAACTCAAATTTATAGGCTTGAATGTTGACATACTCGTTGGAGA
516 CTCTTCAAGTTCAACTATTGGAAACTCAAATTTATAGGCTTGAACACTGACATACTCGTTGGAGA
* * ** * * ** * *
1285987 TTGAATGATTATGTTTCTGTCGTTCTTGACTTGTTTGGTGCTTGTTTCCATGCACTCTTGTTGCT
581 TTGAATGATTATGTTACTGCCGTTCAAGACTTGTTTGGAGCTTGTTTACATGCACTCCCGTAGCC
*
1286052 ATGTATCAATACAATTCATAATTTATCGATACATGCATTTGAAATTAAAAGCGTAAGGAATA
646 ATGTATCAATACAATTCATAATGTATCGATACATGCATTTGAAATTAAAAGCGTAAGGAATA
* *
1286114 ATGAACCAAG-AGGG-GGTGAATTGGTTCTTTTCAAATTTTGTGAATTTTAAAAGAATTGGTGCA
1 ATGAACCAAGAAGGGAGGTGAATTGGTTATTTTCAAATTTTGAGAATTTTAAAAGAATTGGTGCA
** * * * *
1286177 AAGTAATTCGAAAGATAAAA-A-GAAGAA-ATAA-TCGACACAAA-GATTTATAGAGGTTCGGTC
66 AAACAATTCAAAAGATAAAAGATGAAGAAGAAAACTCGACACAAATG-TTTATAGAGGTCCAGTC
*
1286237 C-AA-ATTGACACCTACGTCCTCTCTCCTCGACACTTCCTTGTCAAGTGGTTACC-CAATTCACT
130 CTAACA-TGACACCAACGTCCTCTCTCCTCGACACTTCCTTGTCAAGT-GTTACCACAATTCACT
*
1286299 ACTA-GAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCC-TTATCTTTTAAAGGCTAA
193 AC-ACGAATTGATTACCTTTAAGG-AAAGGTATAACCTTACAACCCTTTATCTTTTAAAGGCTAA
* ** * * * **
1286362 GATAACAACCTCTTAATCTCTTCAAGAACAATACCCCAAGTTCCTAAGAGA-T-TAACACTCTTC
256 GATAAAAACCTCACAATCTCTCCAAGAACAATACCCCAAATTCCTAAGAAATTGTAAC-C-C-AA
* * * * *
1286425 GGTTGAACACAACCTTAACTAGA-CAAAGAATTTGAACAAAC-AAGAAATGCCTCTAAGTAGGCT
318 GGTTGAACACAA-CTT-ACAAAATCAAAGAAATTGAACAAACGAA-AAATACCTCTAAATAGGCT
* * * *
1286488 GGTGTTTGTGAAACAATAAGCTCAAAACAAAAACAAAAGAGCTTTCGTAA-AATAACAACAATGA
380 GATGTTTGTGAAACAATAAACACAAAACAAAAA-AAAAGAACTTTC--AACAATAACAACAATGA
* * *
1286552 AAGCT-AAAGCTCTTGAAAATGAGAAAACTAA-TAAAACTTTGAAAGC-TTGAACTCTTTGTGTC
442 AAG-TAAAAGATCTT-AAAATGA-AAAAATAAGTAAAACTTTGAAAGCTTTGAACTCTTGGTGTC
* * * * ** * **
1286614 TCTTGGTTGATTCTCCTTC-ATTTCAGCTGTTGGAAGGTCATATTTATAGGCTTGAACACTGATG
504 TCTTGATTGATTCT-CTTCAAGTTCAACTATTGGAAACTCAAATTTATAGGCTTGAACACTGACA
*
1286678 TAGC-CGTTGGAGGTTGAATGATTGA-GTTACTTGCCGTTACAAG-CTTGTTTGGAGCTTGTTTT
568 TA-CTCGTTGGAGATTGAATGATT-ATGTTAC-TGCCGTT-CAAGACTTGTTTGGAGCTTG-TTT
** *
1286740 AC-TGCTTTCCCGTAGCCATGTATCGATACAATTCATAATGTATCGATACATTG-ATTTGAAATT
628 ACATGCACTCCCGTAGCCATGTATCAATACAATTCATAATGTATCGATACA-TGCATTTGAAATT
1286803 A
692 A
1286804 TAGCTGTTTA
Statistics
Matches: 578, Mismatches: 88, Indels: 55
0.80 0.12 0.08
Matches are distributed among these distances:
700 4 0.01
701 3 0.01
702 126 0.22
703 121 0.21
704 121 0.21
705 106 0.18
706 22 0.04
708 1 0.00
710 60 0.10
711 4 0.01
712 10 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (707 bp):
ATGAACCAAGAAGGGAGGTGAATTGGTTATTTTCAAATTTTGAGAATTTTAAAAGAATTGGTGCA
AAACAATTCAAAAGATAAAAGATGAAGAAGAAAACTCGACACAAATGTTTATAGAGGTCCAGTCC
TAACATGACACCAACGTCCTCTCTCCTCGACACTTCCTTGTCAAGTGTTACCACAATTCACTACA
CGAATTGATTACCTTTAAGGAAAGGTATAACCTTACAACCCTTTATCTTTTAAAGGCTAAGATAA
AAACCTCACAATCTCTCCAAGAACAATACCCCAAATTCCTAAGAAATTGTAACCCAAGGTTGAAC
ACAACTTACAAAATCAAAGAAATTGAACAAACGAAAAATACCTCTAAATAGGCTGATGTTTGTGA
AACAATAAACACAAAACAAAAAAAAAGAACTTTCAACAATAACAACAATGAAAGTAAAAGATCTT
AAAATGAAAAAATAAGTAAAACTTTGAAAGCTTTGAACTCTTGGTGTCTCTTGATTGATTCTCTT
CAAGTTCAACTATTGGAAACTCAAATTTATAGGCTTGAACACTGACATACTCGTTGGAGATTGAA
TGATTATGTTACTGCCGTTCAAGACTTGTTTGGAGCTTGTTTACATGCACTCCCGTAGCCATGTA
TCAATACAATTCATAATGTATCGATACATGCATTTGAAATTAAAAGCGTAAGGAATA
Found at i:1286868 original size:13 final size:13
Alignment explanation
Indices: 1286827--1286875 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
1286817 TTGTTACAAG
1286827 CAATGTATCGATA
1 CAATGTATCGATA
1286840 CAAT-T-TC-AT-
1 CAATGTATCGATA
1286849 C-ATGTATCGATA
1 CAATGTATCGATA
1286861 CAATGTATCGATA
1 CAATGTATCGATA
1286874 CA
1 CA
1286876 TTGTCCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1286868 original size:34 final size:33
Alignment explanation
Indices: 1286827--1286896 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
1286817 TTGTTACAAG
*
1286827 CAATGTATCGATACAATT-TCATCATGTATCGATA
1 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
*
1286861 CAATGTATCGATACATTGTCCCATGTATTGATA
1 CAATGTATCGATACATTGTCCCATGTATCGATA
1286894 CAA
1 CAA
1286897 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATTGTCCCATGTATCGATA
Found at i:1286969 original size:19 final size:20
Alignment explanation
Indices: 1286925--1286979 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1286915 CTGCCAATCT
* **
1286925 CATGTATCGAAACAATTGTC
1 CATGTATCGATACAATTGAA
1286945 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
1286964 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1286980 GTATCGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1286983 original size:13 final size:13
Alignment explanation
Indices: 1286965--1286991 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1286955 TACAATTAAC
1286965 ATGTATCGATACA
1 ATGTATCGATACA
1286978 ATGTATCGATACA
1 ATGTATCGATACA
1286991 A
1 A
1286992 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1287594 original size:20 final size:21
Alignment explanation
Indices: 1287571--1287610 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1287561 TTTAAGAATT
1287571 TCAAA-AATTCTCCCCCTTAA
1 TCAAACAATTCTCCCCCTTAA
*
1287591 TCAAAGCATTTCTCCCCCTT
1 TCAAA-CAATTCTCCCCCTT
1287611 TGTCAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.28, C:0.38, G:0.03, T:0.33
Consensus pattern (21 bp):
TCAAACAATTCTCCCCCTTAA
Found at i:1289464 original size:13 final size:13
Alignment explanation
Indices: 1289446--1289474 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1289436 AAATAGTACC
1289446 CAATGTATCGATA
1 CAATGTATCGATA
1289459 CAATGTATCGATA
1 CAATGTATCGATA
1289472 CAA
1 CAA
1289475 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1295610 original size:13 final size:13
Alignment explanation
Indices: 1295569--1295617 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1295559 CCGTTACAAG
*
1295569 CAATGGATCGATA
1 CAATGTATCGATA
1295582 CAAT-T-TC-AT-
1 CAATGTATCGATA
1295591 C-ATGTATCGATA
1 CAATGTATCGATA
1295603 CAATGTATCGATA
1 CAATGTATCGATA
1295616 CA
1 CA
1295618 TTGTCCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 4 0.13
12 1 0.03
13 17 0.57
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1295633 original size:33 final size:34
Alignment explanation
Indices: 1295569--1295638 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
1295559 CCGTTACAAG
*
1295569 CAATGGATCGATACAATTTCATCATGTATCGATA
1 CAATGGATCGATACAATTTCACCATGTATCGATA
*
1295603 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
1 CAATGGATCGATACAATT-TCACCATGTATCGATA
1295636 CAA
1 CAA
1295639 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (34 bp):
CAATGGATCGATACAATTTCACCATGTATCGATA
Found at i:1295711 original size:19 final size:20
Alignment explanation
Indices: 1295667--1295721 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1295657 CTGCCAATCT
* **
1295667 CATGTATCGATATAATTGTC
1 CATGTATCGATACAATTGAA
1295687 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
1295706 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1295722 GTATCGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1295725 original size:13 final size:13
Alignment explanation
Indices: 1295707--1295733 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1295697 TACAATTAAC
1295707 ATGTATCGATACA
1 ATGTATCGATACA
1295720 ATGTATCGATACA
1 ATGTATCGATACA
1295733 A
1 A
1295734 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1296102 original size:13 final size:13
Alignment explanation
Indices: 1296084--1296108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1296074 CAATTCTCCA
1296084 TGTATTGATACAT
1 TGTATTGATACAT
1296097 TGTATTGATACA
1 TGTATTGATACA
1296109 ATATGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TGTATTGATACAT
Found at i:1296107 original size:33 final size:33
Alignment explanation
Indices: 1296064--1296128 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1296054 TTTGAGGTAA
* *
1296064 TGTATCGATACAAT-TCTCCATGTATTGATACAT
1 TGTATCGATACAATAT-GCCATGTATCGATACAT
*
1296097 TGTATTGATACAATATGCCATGTATCGATACA
1 TGTATCGATACAATATGCCATGTATCGATACA
1296129 AACAGTAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATATGCCATGTATCGATACAT
Found at i:1296529 original size:491 final size:491
Alignment explanation
Indices: 1295570--1296531 Score: 1210
Period size: 491 Copynumber: 2.0 Consensus size: 491
1295560 CGTTACAAGC
* *
1295570 AATGGATCGATACAATTTCATCATGTATCGATACAATGTATCGATACATTGTCCCATGTATCGAT
1 AATGGATCGATACAATTTCA-CATGTATCGATACAATGTATCGATACAATATCCCATGTATCGAT
* * * *
1295635 ACAAACAGTGGTAGGGTAGCTACTGCCAATCTCATGTATCGATATAATTGTCCATGTATCGATAC
65 ACAAACAGTAGTAGGGTAGCTACTACCAATCTCATGTATCGATACAATTGTCCATGTATCGAAAC
* * * * * * *
1295700 AATTAACATGTATCGATACAATGTATCGATACAAAGCATAATGTATCGATACATTTGGGTGTGTA
130 AATTAACAGGTATCGAAACAATGTATCAATACAAAGCATAATGTATCGAAACATCTAGATGTGTA
*
1295765 TCAATACATTCAAGGGTTTTGACCTTTATAGCCTAAGTCAACCATAATGTATCGATACAAATACC
195 TCAATACATACAAGGGTTTTGACCTTTATAGCCTAAGTCAACCATAATGTATCGATACAAATACC
* * * * * * * *
1295830 TATGTATTGATACTTTGAAGTATTTTTGCCTTAAAAATATTTAAATTAAGGTTCAAAAACATTGT
260 TATGTATCGATACTTTGAAATATTTTTGACTCAAAAACATTCAAATTAAAGCTCAAAAACATTGT
* * * ** ** *
1295895 TTATAACTTTAAAAACTTCCATTGATAGAAAATTACTTAAAACATGTTTTTAGAGAGTTTTTGAG
325 TTATAACTCTAAAAACTTCCATTGATAAAAAATTACTTAAAACACGGATTTAGAGAGTTTTAAAA
*
1295960 TGAAAAACAACTTGTTTACAATTTTTCAAACATTTTCCGGTTTTATTTAATCTTTGTTATATCAA
390 TGAAAAACAACTTGTTTACAATTTTTCAAACATTTTCCGGTTTTATTCAATCTTTGTTATATCAA
*
1296025 AACCAATATCCTAACAGAAATTATAGCCGTTTGAGGT
455 AACCAAGATCCTAACAGAAATTATAGCCGTTTGAGGT
* * * * *
1296062 AATGTATCGATACAATTCTC-CATGTATTGATACATTGTATTGATACAATATGCCATGTATCGAT
1 AATGGATCGATACAATT-TCACATGTATCGATACAATGTATCGATACAATATCCCATGTATCGAT
* * * *
1296126 ACAAACAGTAGTAGGGTAGCTATTACCAGTTTCATGTATCGATACAATTGTGCATGTATCGAAAC
65 ACAAACAGTAGTAGGGTAGCTACTACCAATCTCATGTATCGATACAATTGTCCATGTATCGAAAC
* * *
1296191 AATGTATC-GGTA-C-AAAGTATTGTATCAATACAAAGCATAATGTATCGAAACATCTAGATGTG
130 AAT-TAACAGGTATCGAAA-CAATGTATCAATACAAAGCATAATGTATCGAAACATCTAGATGTG
* * *
1296253 TAT-AAGTACATACAAGGGTTTTGACCTTTGTAGCTTAAGTCAACCTTAATGTATCGATACAAAT
193 TATCAA-TACATACAAGGGTTTTGACCTTTATAGCCTAAGTCAACCATAATGTATCGATACAAAT
* *
1296317 ACCTATGTATCGATACTTTGAAATATTTTT-ACTCAAAAACATTCGATTTAAAGCTCAAAAACAT
257 ACCTATGTATCGATACTTTGAAATATTTTTGACTCAAAAACATTCAAATTAAAGCTCAAAAACAT
* *
1296381 T-TATTCATAACTCT-AAAGCATT-TATTGATATTAAAAATTACTTAAAACACGGATTTAGAGTA
322 TGT-TT-ATAACTCTAAAAAC-TTCCATTGATA--AAAAATTACTTAAAACACGGATTTAGAG-A
** * ** *
1296443 -TTTTAAAATGAGCAA-AGCTTGTTTACGGTTTTTCAAAGTATTTTTCC-GTTTTATTCAATCTT
381 GTTTTAAAATGAAAAACAACTTGTTTACAATTTTTCAAA-CA-TTTTCCGGTTTTATTCAATCTT
1296505 TGTTATATCAAAACCAAGATCCTAACA
444 TGTTATATCAAAACCAAGATCCTAACA
1296532 ATAATCATTG
Statistics
Matches: 401, Mismatches: 57, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
488 1 0.00
489 44 0.11
490 152 0.38
491 176 0.44
492 26 0.06
493 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (491 bp):
AATGGATCGATACAATTTCACATGTATCGATACAATGTATCGATACAATATCCCATGTATCGATA
CAAACAGTAGTAGGGTAGCTACTACCAATCTCATGTATCGATACAATTGTCCATGTATCGAAACA
ATTAACAGGTATCGAAACAATGTATCAATACAAAGCATAATGTATCGAAACATCTAGATGTGTAT
CAATACATACAAGGGTTTTGACCTTTATAGCCTAAGTCAACCATAATGTATCGATACAAATACCT
ATGTATCGATACTTTGAAATATTTTTGACTCAAAAACATTCAAATTAAAGCTCAAAAACATTGTT
TATAACTCTAAAAACTTCCATTGATAAAAAATTACTTAAAACACGGATTTAGAGAGTTTTAAAAT
GAAAAACAACTTGTTTACAATTTTTCAAACATTTTCCGGTTTTATTCAATCTTTGTTATATCAAA
ACCAAGATCCTAACAGAAATTATAGCCGTTTGAGGT
Found at i:1298716 original size:29 final size:28
Alignment explanation
Indices: 1298695--1298750 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
1298685 ATTTTTGAGA
*
1298695 TGGCCGAATGGTCTAAGGAATTTTTATG
1 TGGCCGAATGGTCGAAGGAATTTTTATG
*
1298723 TGGTCGAATGGTCGAAGGAATTTTTATG
1 TGGCCGAATGGTCGAAGGAATTTTTATG
1298751 AATTTTCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (28 bp):
TGGCCGAATGGTCGAAGGAATTTTTATG
Found at i:1300973 original size:21 final size:20
Alignment explanation
Indices: 1300944--1300987 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1300934 TTTTACAATT
*
1300944 TGTATTGATATAATAAGTGAA
1 TGTACTGATA-AATAAGTGAA
*
1300965 TGTACTGATACATAAGTGAA
1 TGTACTGATAAATAAGTGAA
1300985 TGT
1 TGT
1300988 TTCAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (20 bp):
TGTACTGATAAATAAGTGAA
Found at i:1301173 original size:52 final size:52
Alignment explanation
Indices: 1301053--1301191 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 52
1301043 GCTGGAATGA
* *
1301053 AAATGTATCGATACATT-TTTCATTGTATCGATACATTCTAAGTTTTGACCC
1 AAATGTATCGATATATTCTTTCATTGTATCGATACATTCTAAGTTTTAACCC
* **
1301104 AAATGTATCTATATATTCTTT-ATTGTAAT-GATACATTCTGGGTTTTTAACCC
1 AAATGTATCGATATATTCTTTCATTGT-ATCGATACATTCTAAG-TTTTAACCC
*
1301156 AAATGTATCGATATATTC-TTCAATGTATCGATACAT
1 AAATGTATCGATATATTCTTTCATTGTATCGATACAT
1301192 GCAGGCAAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
51 35 0.46
52 41 0.54
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (52 bp):
AAATGTATCGATATATTCTTTCATTGTATCGATACATTCTAAGTTTTAACCC
Found at i:1305655 original size:18 final size:18
Alignment explanation
Indices: 1305614--1305664 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
1305604 GGTATACTAG
* *
1305614 AGAAAATGAGGAAAAACAT
1 AGAAAATG-GGAAAAAAAA
*
1305633 GGAAAATGGGAAAAAAAA
1 AGAAAATGGGAAAAAAAA
1305651 AG-AAAT-GGAAAAAA
1 AGAAAATGGGAAAAAA
1305665 CACTAACACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 8 0.29
17 4 0.14
18 9 0.32
19 7 0.25
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.08
Consensus pattern (18 bp):
AGAAAATGGGAAAAAAAA
Found at i:1306138 original size:19 final size:19
Alignment explanation
Indices: 1306116--1306155 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1306106 TACATGAGGT
1306116 TTGGGTTATGACATCTAGG
1 TTGGGTTATGACATCTAGG
**
1306135 TTGGGTTATGATGTCTAGG
1 TTGGGTTATGACATCTAGG
1306154 TT
1 TT
1306156 CTCGAATGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.33, T:0.42
Consensus pattern (19 bp):
TTGGGTTATGACATCTAGG
Found at i:1308918 original size:15 final size:16
Alignment explanation
Indices: 1308894--1308935 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
1308884 AAATTGATGT
*
1308894 AAAAATATTTACCAAG
1 AAAAAAATTTACCAAG
**
1308910 -AAAAAATTTAGTAAG
1 AAAAAAATTTACCAAG
1308925 AAAAAAATTTA
1 AAAAAAATTTA
1308936 AGAAAATCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (16 bp):
AAAAAAATTTACCAAG
Found at i:1312763 original size:13 final size:13
Alignment explanation
Indices: 1312745--1312770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1312735 AATTTTTTTG
1312745 TGTATCGATACAT
1 TGTATCGATACAT
1312758 TGTATCGATACAT
1 TGTATCGATACAT
1312771 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1312865 original size:20 final size:21
Alignment explanation
Indices: 1312817--1312872 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
1312807 AAATCCCAAT
**
1312817 AACATGTATCGATACATCTTT
1 AACATGTATCGATACATCTGC
**
1312838 TTCATGTATCGATACAT-TGC
1 AACATGTATCGATACATCTGC
1312858 AACATGTATCGATAC
1 AACATGTATCGATAC
1312873 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (21 bp):
AACATGTATCGATACATCTGC
Found at i:1313816 original size:13 final size:13
Alignment explanation
Indices: 1313798--1313835 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1313788 ATAATCCCCC
*
1313798 TGTATCGATATAG
1 TGTATCGATACAG
*
1313811 TGTATCGATACAT
1 TGTATCGATACAG
1313824 TGTATCGATACA
1 TGTATCGATACA
1313836 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1313849 original size:20 final size:20
Alignment explanation
Indices: 1313824--1313900 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
1313814 ATCGATACAT
1313824 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
**
1313844 TGTATCGATACATTGAATTTCCAAA
1 TGTATCGATACAAAGAA-----AAA
*
1313869 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
1313889 TGTATCGATACA
1 TGTATCGATACA
1313901 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 29 0.63
25 17 0.37
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:1317779 original size:21 final size:21
Alignment explanation
Indices: 1317750--1317794 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1317740 AAGTTTTTAT
*
1317750 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1317770 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1317792 TTT
1 TTT
1317795 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1319070 original size:48 final size:48
Alignment explanation
Indices: 1318999--1319096 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
1318989 CCTCATAATC
1318999 GTTGGCTTGGATGAACAACCTCATCCTTGTCTTTCAATATGAGAAGTT
1 GTTGGCTTGGATGAACAACCTCATCCTTGTCTTTCAATATGAGAAGTT
1319047 GTTGGCTTGGATGAACAACCTCATCCTTGTCTTTCAATATGAGAAGTT
1 GTTGGCTTGGATGAACAACCTCATCCTTGTCTTTCAATATGAGAAGTT
1319095 GT
1 GT
1319097 CACCGTTGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (48 bp):
GTTGGCTTGGATGAACAACCTCATCCTTGTCTTTCAATATGAGAAGTT
Found at i:1320072 original size:13 final size:13
Alignment explanation
Indices: 1320054--1320079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1320044 AATTTTTTTG
1320054 TGTATCGATACAT
1 TGTATCGATACAT
1320067 TGTATCGATACAT
1 TGTATCGATACAT
1320080 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1325044 original size:9 final size:9
Alignment explanation
Indices: 1325022--1325069 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 9
1325012 ATTTTGATCT
1325022 AAATTATATAA
1 AAATTAT-T-A
1325033 AAATTATTA
1 AAATTATTA
1325042 AAATTATTA
1 AAATTATTA
1325051 GAAATGTTATTA
1 -AAA--TTATTA
1325063 AAATTAT
1 AAATTAT
1325070 ATAAGGTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 14 0.41
10 4 0.12
11 10 0.29
12 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (9 bp):
AAATTATTA
Found at i:1325562 original size:17 final size:16
Alignment explanation
Indices: 1325531--1325565 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1325521 TATGAAAAAA
1325531 ATAATTAAAACATAAT
1 ATAATTAAAACATAAT
*
1325547 ATAATATAAAATATAAT
1 ATAAT-TAAAACATAAT
1325564 AT
1 AT
1325566 TAGCATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATTAAAACATAAT
Found at i:1328362 original size:49 final size:52
Alignment explanation
Indices: 1328296--1328442 Score: 155
Period size: 49 Copynumber: 2.9 Consensus size: 52
1328286 TTCTTTATTA
* *
1328296 AAAAATATTTTAAATTAAAACT-TATATT-TCTATTT-AAAATAATAAAAAATT
1 AAAAATATTTTATATTAAAACTCTAAATTAT-TATTTAAAAATAAT-AAAAATT
*
1328347 -AAAA-ATTTTATATT-AAATTCTAAATTATTATTTAAAAATAATAAAAATT
1 AAAAATATTTTATATTAAAACTCTAAATTATTATTTAAAAATAATAAAAATT
** * *
1328396 AAAAATATTTTATATTAAATTTC-GAATTATTATATAAAAATTAATAA
1 AAAAATATTTTATATTAAAACTCTAAATTATTATTTAAAAA-TAATAA
1328443 CGATACACAA
Statistics
Matches: 83, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
48 4 0.05
49 26 0.31
50 17 0.20
51 25 0.30
52 11 0.13
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (52 bp):
AAAAATATTTTATATTAAAACTCTAAATTATTATTTAAAAATAATAAAAATT
Found at i:1328426 original size:51 final size:49
Alignment explanation
Indices: 1328326--1328442 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 49
1328316 CTTATATTTC
1328326 TATTT-AAAATAATAAAAAATTAAAAATTTTATATTAAATTCTAAATTAT
1 TATTTAAAAATAAT-AAAAATTAAAAATTTTATATTAAATTCTAAATTAT
*
1328375 TATTTAAAAATAATAAAAATTAAAAATATTTTATATTAAATT-TCGAATTAT
1 TATTTAAAAATAATAAAAATT-AAAA-ATTTTATATTAAATTCT-AAATTAT
*
1328426 TATATAAAAATTAATAA
1 TATTTAAAAA-TAATAA
1328443 CGATACACAA
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
49 12 0.20
50 13 0.21
51 30 0.49
52 6 0.10
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (49 bp):
TATTTAAAAATAATAAAAATTAAAAATTTTATATTAAATTCTAAATTAT
Found at i:1330300 original size:157 final size:155
Alignment explanation
Indices: 1330063--1330392 Score: 347
Period size: 157 Copynumber: 2.1 Consensus size: 155
1330053 TTTGATAATA
* * * * ** * *
1330063 CTAAATGACTAAAAAATTATCATAGAAAGATGAGCCTATCCTAAATGTATACTTTTGGCATAAAA
1 CTAAAAGACTCAAAAATAATCATAGAAAGATGAACCTATCCTAAATACACACTTTTGCCATAAAA
* * ** * * * * *
1330128 GTATCTCGGTAACTACATCAAACTCGGTTCTTAGAGGAAATTACTAAAACACCTTTAAAGATTAC
66 GCATCCCAATAACTACATCAAACTCGGTT-TGAAAAGAAATTACTAAAACACCCTTAAAGACTAC
** * *
1330193 TTTTGTCTTGAAAGCATGTCGGTGACT
130 TTTCATCTTAAAAGCATCTCGGTGA-T
**
1330220 CTAAAAGACTCAAAAATAATCATA-AAATGATGAACCTATCCTAGCTACACACTTTTGCCATAAA
1 CTAAAAGACTCAAAAATAATCATAGAAA-GATGAACCTATCCTAAATACACACTTTTGCCATAAA
* * * * * *
1330284 AGCATCCCAATGACTACCTTAAACTTGGTTTGAAAATAAATTACTAAAATACCCTTAAAGACTAC
65 AGCATCCCAATAACTACATCAAACTCGGTTTGAAAAGAAATTACTAAAACACCCTTAAAGACTAC
1330349 TTTCATCTTAAAAGCATCTCGGTGAT
130 TTTCATCTTAAAAGCATCTCGGTGAT
*
1330375 CTTAAGAGACTCAAAAAT
1 C-TAAAAGACTCAAAAAT
1330393 GACAAAAAAA
Statistics
Matches: 141, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
155 2 0.01
156 67 0.48
157 72 0.51
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.29
Consensus pattern (155 bp):
CTAAAAGACTCAAAAATAATCATAGAAAGATGAACCTATCCTAAATACACACTTTTGCCATAAAA
GCATCCCAATAACTACATCAAACTCGGTTTGAAAAGAAATTACTAAAACACCCTTAAAGACTACT
TTCATCTTAAAAGCATCTCGGTGAT
Found at i:1335496 original size:20 final size:21
Alignment explanation
Indices: 1335468--1335508 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1335458 TATTGAATTG
1335468 TTATATTATTT-TATACAAAA
1 TTATATTATTTATATACAAAA
* *
1335488 TTATCTTATTTATATAGAAAA
1 TTATATTATTTATATACAAAA
1335509 GTTTAACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
TTATATTATTTATATACAAAA
Found at i:1336480 original size:17 final size:15
Alignment explanation
Indices: 1336443--1336494 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
1336433 TCAAGATGAA
1336443 TTATTATT-ATT-TT
1 TTATTATTAATTCTT
*
1336456 TTAATATTAAACTTCTT
1 TTATTATT-AA-TTCTT
*
1336473 TTATTATTAATTTTT
1 TTATTATTAATTCTT
1336488 TTATTAT
1 TTATTAT
1336495 AATCAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 7 0.22
15 12 0.38
16 4 0.12
17 9 0.28
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATTAATTCTT
Found at i:1340516 original size:79 final size:81
Alignment explanation
Indices: 1340423--1340580 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 81
1340413 TATATTCTCA
* * * *
1340423 TTTGTAAAAATAAAAACTAAG-AAA-ACAAAAA-CGAAAATAAATTAGAGATACACAAATAGAGG
1 TTTGAAAAAATAAAAACTAAGAAAAGAAAAAAATAGAAAA-AAAATAGAGATACACAAATAGAGG
*
1340485 ATGTGTAAATTAATTAT
65 AGGTGTAAATTAATTAT
* *
1340502 TTTGAAAAAATAAAAATTAAGAAAAGAAAAAAATAGAAAAAAAATAGAGATACGCAAATAGAGGA
1 TTTGAAAAAATAAAAACTAAGAAAAGAAAAAAATAGAAAAAAAATAGAGATACACAAATAGAGGA
1340567 GGTGTAAATTAATT
66 GGTGTAAATTAATT
1340581 GTCGGCATCG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 19 0.28
80 3 0.04
81 42 0.61
82 5 0.07
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (81 bp):
TTTGAAAAAATAAAAACTAAGAAAAGAAAAAAATAGAAAAAAAATAGAGATACACAAATAGAGGA
GGTGTAAATTAATTAT
Found at i:1342857 original size:24 final size:24
Alignment explanation
Indices: 1342830--1342876 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1342820 TTTATATTAT
*
1342830 AATATAATATAACATAAATAAAAA
1 AATATAATAAAACATAAATAAAAA
**
1342854 AATATAATAAAATTTAAATAAAA
1 AATATAATAAAACATAAATAAAA
1342877 TAATTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AATATAATAAAACATAAATAAAAA
Found at i:1347252 original size:32 final size:32
Alignment explanation
Indices: 1347170--1347252 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
1347160 TTTGGAAAGA
* * *
1347170 AAATGTATCAATACACTCTGGGTTTTTGATCT
1 AAATGTATCAATACATTCTGGATTTTTGACCT
*
1347202 AAATGTATCGATACATTCTGGATTTTTGACCT
1 AAATGTATCAATACATTCTGGATTTTTGACCT
*
1347234 AAATGTATCAATATATTCT
1 AAATGTATCAATACATTCT
1347253 TCAATATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.41
Consensus pattern (32 bp):
AAATGTATCAATACATTCTGGATTTTTGACCT
Found at i:1349591 original size:2 final size:2
Alignment explanation
Indices: 1349584--1349609 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1349574 TTCTTTATCA
1349584 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
1349610 CAAAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1352844 original size:14 final size:15
Alignment explanation
Indices: 1352825--1352858 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
1352815 TATGTTGTAG
1352825 TAGTT-ATATGAGAA
1 TAGTTAATATGAGAA
1352839 TAGTTAGATATGAGAA
1 TAGTTA-ATATGAGAA
1352855 TAGT
1 TAGT
1352859 CAGACGAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
16 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (15 bp):
TAGTTAATATGAGAA
Found at i:1355615 original size:13 final size:13
Alignment explanation
Indices: 1355597--1355622 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1355587 TACACCAAGT
1355597 ATGTATCGATACA
1 ATGTATCGATACA
1355610 ATGTATCGATACA
1 ATGTATCGATACA
1355623 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1357249 original size:12 final size:12
Alignment explanation
Indices: 1357217--1357250 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1357207 AACCATCAAA
*
1357217 GATGAAGAAGAT
1 GATGAAGATGAT
*
1357229 GATGAAGATGTT
1 GATGAAGATGAT
1357241 GATGAAGATG
1 GATGAAGATG
1357251 GTGACTCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:1357860 original size:22 final size:22
Alignment explanation
Indices: 1357833--1357888 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
1357823 TTGCAAGTTG
1357833 AAATAAAGAACTTGGCTAATG-A
1 AAATAAAGAACTTGGCTAA-GAA
* *
1357855 AAATAATGAA-TTAGCTAAGAA
1 AAATAAAGAACTTGGCTAAGAA
1357876 AAATAAA-AACTTG
1 AAATAAAGAACTTG
1357889 CATGATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATAAAGAACTTGGCTAAGAA
Found at i:1361807 original size:13 final size:13
Alignment explanation
Indices: 1361789--1361821 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1361779 ACATTTTTCT
1361789 TTGTATCGATACA
1 TTGTATCGATACA
1361802 TTGTATCGATACA
1 TTGTATCGATACA
*
1361815 CTGTATC
1 TTGTATC
1361822 AATGCAGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1361991 original size:20 final size:20
Alignment explanation
Indices: 1361948--1361993 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1361938 AAATCTTTTG
1361948 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1361969 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1361989 CAAAA
1 CAAAA
1361994 CCAGCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1364311 original size:20 final size:19
Alignment explanation
Indices: 1364256--1364311 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1364246 AAAACCCTTA
*
1364256 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
1364276 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
1364296 AATGTATCGATACATG
1 AAAGTATCGATACATG
1364312 AAAAATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:1364399 original size:13 final size:13
Alignment explanation
Indices: 1364381--1364406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1364371 TACACCAAGT
1364381 ATGTATCGATACA
1 ATGTATCGATACA
1364394 ATGTATCGATACA
1 ATGTATCGATACA
1364407 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1364498 original size:20 final size:19
Alignment explanation
Indices: 1364460--1364499 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
1364450 GGCTATATTT
*
1364460 TCAAATATTTATCGATACA
1 TCAAAAATTTATCGATACA
*
1364479 TCAAAAATTGTATTGATACA
1 TCAAAAATT-TATCGATACA
1364499 T
1 T
1364500 TTACACGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (19 bp):
TCAAAAATTTATCGATACA
Found at i:1370773 original size:8 final size:8
Alignment explanation
Indices: 1370760--1370790 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
1370750 ATTTGATTAA
1370760 ATTTTGTG
1 ATTTTGTG
1370768 ATTTTGTG
1 ATTTTGTG
1370776 ATTTTGTG
1 ATTTTGTG
1370784 ATGTTTG
1 AT-TTTG
1370791 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1372906 original size:22 final size:22
Alignment explanation
Indices: 1372881--1372925 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1372871 AGTTATTATT
1372881 AAATTGCCTT-ATTAAGGGGGAG
1 AAATT-CCTTGATTAAGGGGGAG
**
1372903 AAATTTTTTGATTAAGGGGGAG
1 AAATTCCTTGATTAAGGGGGAG
1372925 A
1 A
1372926 GAAAAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.31
Consensus pattern (22 bp):
AAATTCCTTGATTAAGGGGGAG
Found at i:1373504 original size:20 final size:21
Alignment explanation
Indices: 1373456--1373532 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 21
1373446 GATACACCTT
*
1373456 CAAATGTATCGATACA-GACTG
1 CAAATGTATCGATACATGAC-A
*
1373477 CACA-GTATCGATACATGAC-
1 CAAATGTATCGATACATGACA
*
1373496 CAAATGTATCGATACTTG-CA
1 CAAATGTATCGATACATGACA
*
1373516 AAGAATGTATCGATACA
1 CA-AATGTATCGATACA
1373533 GGTGATTGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
19 4 0.09
20 24 0.51
21 19 0.40
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (21 bp):
CAAATGTATCGATACATGACA
Found at i:1373610 original size:13 final size:13
Alignment explanation
Indices: 1373592--1373617 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1373582 TACACACAAG
1373592 ATGTATCGATACA
1 ATGTATCGATACA
1373605 ATGTATCGATACA
1 ATGTATCGATACA
1373618 TCCCAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1377216 original size:13 final size:13
Alignment explanation
Indices: 1377198--1377223 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1377188 TACAGCAAGT
1377198 ATGTATCGATACA
1 ATGTATCGATACA
1377211 ATGTATCGATACA
1 ATGTATCGATACA
1377224 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1379473 original size:21 final size:21
Alignment explanation
Indices: 1379440--1379484 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1379430 TTGCAAGTTG
*
1379440 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1379462 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1379482 AAA
1 AAA
1379485 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1381308 original size:15 final size:15
Alignment explanation
Indices: 1381288--1381318 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1381278 TAAAAATGTC
*
1381288 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1381303 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1381318 C
1 C
1381319 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1383415 original size:13 final size:13
Alignment explanation
Indices: 1383397--1383422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1383387 ACATTTTTCT
1383397 TTGTATCGATACA
1 TTGTATCGATACA
1383410 TTGTATCGATACA
1 TTGTATCGATACA
1383423 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1383586 original size:20 final size:20
Alignment explanation
Indices: 1383543--1383588 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1383533 AAATCTTTTG
1383543 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1383564 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1383584 CAAAA
1 CAAAA
1383589 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1385267 original size:21 final size:21
Alignment explanation
Indices: 1385228--1385272 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
1385218 TTTTTGATAT
1385228 GAATAACTTGATTAAGGGGGA
1 GAATAACTTGATTAAGGGGGA
1385249 GAAT-ACTTGATTAAGGGGGA
1 GAATAACTTGATTAAGGGGGA
1385269 GAAT
1 GAAT
1385273 TATTAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.33, T:0.24
Consensus pattern (21 bp):
GAATAACTTGATTAAGGGGGA
Found at i:1386019 original size:13 final size:13
Alignment explanation
Indices: 1386001--1386026 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1385991 TACAGCAAGT
1386001 ATGTATCGATACA
1 ATGTATCGATACA
1386014 ATGTATCGATACA
1 ATGTATCGATACA
1386027 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1396328 original size:161 final size:161
Alignment explanation
Indices: 1395851--1396634 Score: 1043
Period size: 161 Copynumber: 4.8 Consensus size: 161
1395841 CTAGAAAGTA
* * * * ** * *
1395851 TTAATTTAATTTAATTTATTTTTGAAAATACCATTTTGTACCCTAATGGAATCCCAAAAGGATAG
1 TTAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATAT
* * * *
1395916 GAAAGGTTTTTGAAATCGTTTATATCCCTACGAACGCCCATAAGAATATAAAAGATTAGAAAAAG
66 GAAAGGTTTTTGAAATCTTTTATACCCCTACGAATGCCCATAGGAATATAAAAGATTAGAAAAA-
1395981 TAAATATTAGAATTTATCCCAAGAATACCAAT
130 TAAATATTAGAATTTATCCCAAGAATACCAAT
* * * * * *
1396013 TCAATTCAATTTTATTTATTTTCGAAAATACCATTTCATATCCTAATAGAAGCCTGAAAGAATAC
1 TTAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATAT
* *
1396078 GAAAGGTTTTTTAAAATCTTTTATACCCCTAC-AGATGCCCATAGGAATACAAAAGATTAGCAAA
66 GAAAGG-TTTTTGAAATCTTTTATACCCCTACGA-ATGCCCATAGGAATATAAAAGATTAG-AAA
1396142 AATAAATATTAGAATTTATCCCAAGAATACCAAT
128 AATAAATATTAGAATTTATCCCAAGAATACCAAT
** ** *
1396176 TTAATTTAATTTTATTTATTTTCGAAAATATTATTTCGTACCCTAATAAAAGCCTAAAAGAATAT
1 TTAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATAT
1396241 GAAA-GTTTTTGAAATCTTTTATACCCCTACGAATGCCCATAGGAATATAAAAGATTAGAGAAAA
66 GAAAGGTTTTTGAAATCTTTTATACCCCTACGAATGCCCATAGGAATATAAAAGATTAGA-AAAA
* *
1396305 TAAATATTAGAGTTTATCCCAAGAATACTAAT
130 TAAATATTAGAATTTATCCCAAGAATACCAAT
* * * * *
1396337 TTAATTTTATTTTATTTATTTTCGAAAATACTATTTTGTACCCTAATGGAAGCCCGAAATAATAT
1 TTAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATAT
* * * **
1396402 AAAAGGTTTTTGAAATCTTTTATATCCCTACGGATGCTTATAGGAATATAAAA-ATTAGAAAAAA
66 GAAAGGTTTTTGAAATCTTTTATACCCCTACGAATGCCCATAGGAATATAAAAGATTAG-AAAAA
*
1396466 TAAATATTAGAATTTATCCCAAGAATACTAAT
130 TAAATATTAGAATTTATCCCAAGAATACCAAT
* * * * *
1396498 TTAATTTTATTTTATTTATTTTCAAAAATACCATTTCATACCTTAATGGAAGCTTGAAAGAATAT
1 TTAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATAT
* * * * * *
1396563 GAAAAGTTTTTGAAATCTGTTATAACCCTGCGAATGTCTATAGGAATATAAAAGATTAGAAAAAA
66 GAAAGGTTTTTGAAATCTTTTATACCCCTACGAATGCCCATAGGAATATAAAAGATTAG-AAAAA
1396628 TAAATAT
130 TAAATAT
1396635 GGAAATATCT
Statistics
Matches: 552, Mismatches: 62, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
160 1 0.00
161 285 0.52
162 124 0.22
163 137 0.25
164 5 0.01
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (161 bp):
TTAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATAT
GAAAGGTTTTTGAAATCTTTTATACCCCTACGAATGCCCATAGGAATATAAAAGATTAGAAAAAT
AAATATTAGAATTTATCCCAAGAATACCAAT
Found at i:1397434 original size:11 final size:11
Alignment explanation
Indices: 1397420--1397466 Score: 67
Period size: 11 Copynumber: 4.0 Consensus size: 11
1397410 TTTCTACCTA
1397420 TTTTCTCTTTT
1 TTTTCTCTTTT
1397431 TTTTCTCTCTTT
1 TTTTCTCT-TTT
1397443 TCTTTCTCTTTTT
1 T-TTTCTC-TTTT
1397456 TTTTCTCTTTT
1 TTTTCTCTTTT
1397467 GATTATTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.36
12 10 0.30
13 10 0.30
14 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTCTTTT
Found at i:1397441 original size:13 final size:13
Alignment explanation
Indices: 1397423--1397463 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
1397413 CTACCTATTT
1397423 TCTCTTTTTTTTC
1 TCTCTTTTTTTTC
*
1397436 TCTCTTTTCTTTC
1 TCTCTTTTTTTTC
1397449 TCT-TTTTTTTTC
1 TCTCTTTTTTTTC
1397461 TCT
1 TCT
1397464 TTTGATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTCTTTTTTTTC
Found at i:1398333 original size:162 final size:161
Alignment explanation
Indices: 1397837--1398529 Score: 764
Period size: 165 Copynumber: 4.2 Consensus size: 161
1397827 GTTCAATGAC
* * ** ** * * *
1397837 AATATTAGATAAATTTTAAAAATTTTAAACTGAGAAAAATCCTCACAAAAAAATTTACGGAGAAG
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAAAAA-TTACGGAGTAG
* ** * * * * *
1397902 AAAACTCAGT-TTCTCCAAAAAAGAAGATTTTCAAAGAAAAATTCAAAACTCATGAAAATGAATT
65 AAAACTCCGTATT-TTGAAAAAAG-AGA-ATTC-AAGAAAAATTCAAAATTTATGGAAATGAATG
* * *
1397966 AATTTTTTAAAACTAATTTAATAG-GAAATAAATAAT
126 AATTTTTGAAAACTAAATTAAT-GTGAAACAAATAAT
* * * * * **
1398002 AACATTTGATGAATTGTAAAAATCAAAAACCAAGAAAAATCCCCCTGAAAAATATTATAGAGTAG
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCC-CAAAAAAATTACGGAGTAG
* * * *
1398067 AAAATTCCTTATTTCGAAAAAAAAGGAATTTCAAGAAAAAATTCAAAATTTATGGAAATGAATGA
65 AAAACTCCGTATTTTGAAAAAAGA-GAA-TTCAAG-AAAAATTCAAAATTTATGGAAATGAATGA
*
1398132 ATTTTTGAAAACTGAATTAATGTGAAACAAATAAT
127 ATTTTTGAAAACTAAATTAATGTGAAACAAATAAT
* *
1398167 AATATTAT-ATGAATTTTAAAAATTTAAAACCAAGAAAAATCCCCCCAAAAGAAATTATGGAGTA
1 AATATT-TGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAA-AAATTACGGAGTA
* *
1398231 GAAAACTCCGTATTTTGTAAAAAAGAGAATTCAAG-AAAATTAAAAATTTATGGAAATGAATAAA
64 GAAAACTCCGTATTTTG-AAAAAAGAGAATTCAAGAAAAATTCAAAATTTATGGAAATGAATGAA
* *
1398295 TTTTTGGAAACTAAATTAATGTGAAATAAATAAT
128 TTTTTGAAAACTAAATTAATGTGAAACAAATAAT
** *
1398329 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCGAAAAAGAAATTACGGAGTAA
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAA-AAATTACGGAGTAG
* * *
1398394 AAAACTCCGAATTTTGAAAAGAAGAAAATTCAAGATAAAAAATTCAAAATTAATGGAAATGAATG
65 AAAACTCCGTATTTTGAAAA-AAGAGAATTCAAG---AAAAATTCAAAATTTATGGAAATGAATG
* * *
1398459 AATTTTTGGAAATTGAATTAATGTGAAACAAATAAT
126 AATTTTTGAAAACTAAATTAATGTGAAACAAATAAT
*
1398495 AATATTTGATTAATTTTAAAAATTAAAAACCAAGA
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGA
1398530 TGAAAGCTCA
Statistics
Matches: 453, Mismatches: 60, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
161 5 0.01
162 143 0.32
164 15 0.03
165 183 0.40
166 107 0.24
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (161 bp):
AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAAAAATTACGGAGTAGA
AAACTCCGTATTTTGAAAAAAGAGAATTCAAGAAAAATTCAAAATTTATGGAAATGAATGAATTT
TTGAAAACTAAATTAATGTGAAACAAATAAT
Found at i:1399301 original size:13 final size:13
Alignment explanation
Indices: 1399261--1399312 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
1399251 CCGTTACAAG
1399261 CAATGTATCGATA
1 CAATGTATCGATA
1399274 CAA--T-TC-AT-
1 CAATGTATCGATA
1399282 C-ATGTATCGATA
1 CAATGTATCGATA
1399294 CAATGTATCGATA
1 CAATGTATCGATA
*
1399307 TAATGT
1 CAATGT
1399313 CCTATGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 19 0.59
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1399301 original size:33 final size:33
Alignment explanation
Indices: 1399261--1399329 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1399251 CCGTTACAAG
1399261 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGTCAT-ATGTATCGATA
* *
1399294 CAATGTATCGATATAATGTCCTATGTATCGATA
1 CAATGTATCGATACAATGTCATATGTATCGATA
1399327 CAA
1 CAA
1399330 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACAATGTCATATGTATCGATA
Found at i:1399390 original size:20 final size:20
Alignment explanation
Indices: 1399357--1399412 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
1399347 ACTGCCAGTT
*
1399357 TCATATATCGATACAATTG-
1 TCATGTATCGATACAATTGA
*
1399376 TCCATGTATCAATACAA-TGA
1 T-CATGTATCGATACAATTGA
1399396 TCATGTATCGATACAAT
1 TCATGTATCGATACAAT
1399413 GTATCGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:1401867 original size:21 final size:21
Alignment explanation
Indices: 1401832--1401889 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
1401822 TTTATTGATG
*
1401832 ATTTTGATG-GAAAATGAAGT
1 ATTTTGAAGTGAAAATGAAGT
1401852 ATTTTGAAGTGAAAATGAAGT
1 ATTTTGAAGTGAAAATGAAGT
*
1401873 ATTTTGAAGTAAAAATG
1 ATTTTGAAGTGAAAATG
1401890 CGAAAATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAATGAAGT
Found at i:1408209 original size:20 final size:20
Alignment explanation
Indices: 1408184--1408222 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1408174 CGTAACAAGC
1408184 TCATCATGTATCGATACAAT
1 TCATCATGTATCGATACAAT
1408204 TCATCATGTATCGATACAA
1 TCATCATGTATCGATACAA
1408223 ATAGTGGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
TCATCATGTATCGATACAAT
Found at i:1408295 original size:19 final size:19
Alignment explanation
Indices: 1408250--1408304 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
1408240 ACTGCCAGTT
1408250 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
1408269 TCCATGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
1408288 ATCATGTATCGATACAA
1 -TCATGTATCGATACAA
1408305 AGTATCGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:1408311 original size:13 final size:13
Alignment explanation
Indices: 1408293--1408319 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1408283 CAATGATCAT
1408293 GTATCGATACAAA
1 GTATCGATACAAA
1408306 GTATCGATACAAA
1 GTATCGATACAAA
1408319 G
1 G
1408320 CATAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (13 bp):
GTATCGATACAAA
Found at i:1408333 original size:33 final size:32
Alignment explanation
Indices: 1408274--1408336 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
1408264 AATTGTCCAT
* *
1408274 GTATCGATACAATGATCATGTATCGATACAAA
1 GTATCGATACAAAGATAATGTATCGATACAAA
1408306 GTATCGATACAAAGCATAATGTATCGATACA
1 GTATCGATACAAAG-ATAATGTATCGATACA
1408337 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (32 bp):
GTATCGATACAAAGATAATGTATCGATACAAA
Found at i:1410223 original size:20 final size:19
Alignment explanation
Indices: 1410197--1410270 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
1410187 ACTGCCAGTT
*
1410197 ACATGTATCGATACAATTGG
1 ACATGTATCGATACAATT-A
* *
1410217 GCATGTATTGATACAATTA
1 ACATGTATCGATACAATTA
1410236 ACATGTATCGATAC-ATCTA
1 ACATGTATCGATACAAT-TA
*
1410255 GATATGTATCGATACA
1 -ACATGTATCGATACA
1410271 TATAAGGGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.04
19 14 0.31
20 29 0.64
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (19 bp):
ACATGTATCGATACAATTA
Found at i:1412656 original size:13 final size:13
Alignment explanation
Indices: 1412638--1412664 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1412628 ATAGTAACCC
1412638 ATGTATCAATACA
1 ATGTATCAATACA
1412651 ATGTATCAATACA
1 ATGTATCAATACA
1412664 A
1 A
1412665 AGAACATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:1412682 original size:20 final size:20
Alignment explanation
Indices: 1412659--1412723 Score: 121
Period size: 20 Copynumber: 3.2 Consensus size: 20
1412649 CAATGTATCA
1412659 ATACAAAGAACATTGTATTG
1 ATACAAAGAACATTGTATTG
1412679 ATACAAAGAACATTGTATTG
1 ATACAAAGAACATTGTATTG
*
1412699 ATACAAAGAACATTGTATCG
1 ATACAAAGAACATTGTATTG
1412719 ATACA
1 ATACA
1412724 TCTGAGTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (20 bp):
ATACAAAGAACATTGTATTG
Found at i:1418859 original size:20 final size:20
Alignment explanation
Indices: 1418834--1418887 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
1418824 ATTTGAAGCA
1418834 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGC--C
1418854 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
1418874 ATGTATCGATACAA
1 ATGTATCGATACAA
1418888 ACAATGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:1420880 original size:56 final size:56
Alignment explanation
Indices: 1420794--1420907 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
1420784 GCCAGGGCCA
* * *
1420794 TTCTATCTTTTTTGTATCAAAAAGTCAAGTTCATAATGGTTGAGAGATTGGTGAGT
1 TTCTATCTTCTTTGCATCAAAAAGTCAAGTTCATAATGGATGAGAGATTGGTGAGT
1420850 TTCTATCTTCTTTGCATCAAAAAGTCAAGTTCATAATGGATGAGAGATTGGTGAGT
1 TTCTATCTTCTTTGCATCAAAAAGTCAAGTTCATAATGGATGAGAGATTGGTGAGT
1420906 TT
1 TT
1420908 GTTCGAGGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (56 bp):
TTCTATCTTCTTTGCATCAAAAAGTCAAGTTCATAATGGATGAGAGATTGGTGAGT
Found at i:1425550 original size:13 final size:13
Alignment explanation
Indices: 1425532--1425557 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1425522 TACAGCAAGT
1425532 ATGTATCGATACA
1 ATGTATCGATACA
1425545 ATGTATCGATACA
1 ATGTATCGATACA
1425558 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1427805 original size:21 final size:21
Alignment explanation
Indices: 1427772--1427816 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1427762 TTGCAAGTTG
*
1427772 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1427794 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1427814 AAA
1 AAA
1427817 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1431742 original size:20 final size:20
Alignment explanation
Indices: 1431663--1431742 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
1431653 AATGTCCAAA
*
1431663 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
1431683 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
1431708 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
1431728 TTGTATCGATACATT
1 ATGTATCGATACATT
1431743 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1431746 original size:13 final size:13
Alignment explanation
Indices: 1431728--1431766 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1431718 ACATTTTTCT
1431728 TTGTATCGATACA
1 TTGTATCGATACA
1431741 TTGTATCGATACA
1 TTGTATCGATACA
*
1431754 CTGTATCGATACA
1 TTGTATCGATACA
1431767 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1434320 original size:13 final size:13
Alignment explanation
Indices: 1434302--1434327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1434292 TACAGCAAGT
1434302 ATGTATCGATACA
1 ATGTATCGATACA
1434315 ATGTATCGATACA
1 ATGTATCGATACA
1434328 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1436868 original size:168 final size:167
Alignment explanation
Indices: 1436610--1437039 Score: 428
Period size: 167 Copynumber: 2.6 Consensus size: 167
1436600 GGTTTATAAA
* * * * * * * *
1436610 TTTTAAAATTCATCAAATATTATTATTTAACTCACAATAAATTATATTTTAAAAAATCCTTTTA-
1 TTTTAAAATTCATCAAATATCATCATTTAATTCATAGTAAATTAT-TTTTGAAAAATTCATTTAT
* * ** * * * *
1436674 GTTCATT-AATTTTTTGTTTCTTCCTTGAAATTTCATTAT-TTTC-AAAAAA-CTGATTTTTCTA
65 TTTC-TTGAGTTTTTCATTTTTTCCTTGAAATTT--TTATGTTTCTAAAAAATC-AAGTTCTCTA
* * * *
1436735 TTCCATAAAGGTTTTCGA-GGGTATTTTTCTCG-GA-TCGACAT
126 TTCCATAAAGATTTTCGAGGGGAATTTTT-T-GTGATTCAAAAT
*
1436776 TTTTGAAAAATTTATCAAATATCATCATTTAATTCATAGTAAATTATTTTTGAAAAATTCATTTA
1 TTTT--AAAATTCATCAAATATCATCATTTAATTCATAGTAAATTATTTTTGAAAAATTCATTTA
*
1436841 TTTTCTTGAGTTTTTCATTTTTTCCTTGAAATTTTTCTGTTTCTAAAAAATCAAGTTCTCTATTC
64 TTTTCTTGAGTTTTTCATTTTTTCCTTGAAATTTTTATGTTTCTAAAAAATCAAGTTCTCTATTC
*
1436906 CATAAAGATTTTTGAGGGGAATTTTTTGTGATTCAAAAT
129 CATAAAGATTTTCGAGGGGAATTTTTTGTGATTCAAAAT
* * * * ** *
1436945 TTTTAATATCCATCAAATATCATCATTTAATTCATAGTGAATCAGCTTTGAAAAGTTCATTTATT
1 TTTTAAAATTCATCAAATATCATCATTTAATTCATAGTAAATTATTTTTGAAAAATTCATTTATT
*
1437010 TTCATGAG-TTTTCATTTTTTTCCTTGAAAT
66 TTCTTGAGTTTTTCA-TTTTTTCCTTGAAAT
1437040 GCCTTTATTT
Statistics
Matches: 221, Mismatches: 32, Indels: 21
0.81 0.12 0.08
Matches are distributed among these distances:
166 13 0.06
167 97 0.44
168 92 0.42
169 19 0.09
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.48
Consensus pattern (167 bp):
TTTTAAAATTCATCAAATATCATCATTTAATTCATAGTAAATTATTTTTGAAAAATTCATTTATT
TTCTTGAGTTTTTCATTTTTTCCTTGAAATTTTTATGTTTCTAAAAAATCAAGTTCTCTATTCCA
TAAAGATTTTCGAGGGGAATTTTTTGTGATTCAAAAT
Found at i:1436875 original size:20 final size:21
Alignment explanation
Indices: 1436833--1436875 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
1436823 TTTTGAAAAA
* **
1436833 TTCATTTATTTTCTTGAGTTT
1 TTCATTTATTTCCTTGAAATT
1436854 TTCATTT-TTTCCTTGAAATT
1 TTCATTTATTTCCTTGAAATT
1436874 TT
1 TT
1436876 TCTGTTTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.16, C:0.12, G:0.07, T:0.65
Consensus pattern (21 bp):
TTCATTTATTTCCTTGAAATT
Found at i:1436875 original size:21 final size:21
Alignment explanation
Indices: 1436833--1436877 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1436823 TTTTGAAAAA
* *
1436833 TTCATTTATTTTCTTGAGTTT
1 TTCATTTATTTCCTTGAATTT
1436854 TTCATTT-TTTCCTTGAAATTT
1 TTCATTTATTTCCTTG-AATTT
1436875 TTC
1 TTC
1436878 TGTTTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.16, C:0.13, G:0.07, T:0.64
Consensus pattern (21 bp):
TTCATTTATTTCCTTGAATTT
Found at i:1438553 original size:16 final size:15
Alignment explanation
Indices: 1438517--1438546 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
1438507 GAAATTTTTG
1438517 AAAATAAAAAATAAC
1 AAAATAAAAAATAAC
1438532 AAAATAAAATAATAA
1 AAAATAAAA-AATAA
1438547 ATAAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAAAATAAC
Found at i:1440831 original size:166 final size:164
Alignment explanation
Indices: 1440474--1440975 Score: 560
Period size: 166 Copynumber: 3.0 Consensus size: 164
1440464 AAAATGATTA
** * * *
1440474 AATGGGAATTAAATAACAA-TATTAGATAAATTTTAAAAATTTTAAATC-AAGAAAAATCCATCT
1 AATGGGAATTCCATAA-AATTATTAGATAAATTTTAAAAATTTTAGACCAAAG-AAAATCC-TCC
** * * * * * *
1440537 AAAAATATTTACGGAGTAAAAAACTCAATTTTTC-AGAAAAATAGGCATTTTAAGGAAAAAAATT
63 CGAAATATTTATGGAATAGAAAACTCGATTTTTCGAGAAAAAAAGG-A-TTTAAAG-AAAAAATT
*
1440601 AAAAACTCATGAAAATGAATTAAATTTTCAAAACTAATTT
125 TAAAACTCATGAAAATGAATTAAATTTTCAAAACTAATTT
* * * *
1440641 AATGGAAATTCCATGACATTATTAGATACATTTTAAAAATTTTAGACCAAAGAAAATCCTCCCGA
1 AATGGGAATTCCATAAAATTATTAGATAAATTTTAAAAATTTTAGACCAAAGAAAATCCTCCCGA
* * *
1440706 TAATATTTATGGACTAGAAAACTTGATTTTTCGAGAAAAAAAAGATTTCAAAGAAAAAATTTAAA
66 -AATATTTATGGAATAGAAAACTCGATTTTTCGAGAAAAAAAGGATTT-AAAGAAAAAATTTAAA
* * * *
1440771 ACTCATGAATATGAAATAAATTTTTAAAACTCATTT
129 ACTCATGAAAATGAATTAAATTTTCAAAACTAATTT
* * *
1440807 AATGGGAATTCCATAAAATTATTAGATAAATTTTAAAAATTTTTGACTAAAGAAAATCCCCCCGG
1 AATGGGAATTCCATAAAATTATTAGATAAATTTTAAAAATTTTAGACCAAAGAAAATCCTCCC-G
* * * * *** * *
1440872 AAATATTTATAGAATAGAAAACCCGTTTTTTCGTGAAAATGGGGATTTAAAAAAAAAATCTAAAA
65 AAATATTTATGGAATAGAAAACTCGATTTTTCGAGAAAAAAAGGATTTAAAGAAAAAATTTAAAA
*
1440937 CTCATGAAAATGAATTAAATTTTCAAAACTGATTT
130 CTCATGAAAATGAATTAAATTTTCAAAACTAATTT
1440972 AATG
1 AATG
1440976 TAAATTAAAT
Statistics
Matches: 282, Mismatches: 47, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
165 50 0.18
166 143 0.51
167 77 0.27
168 12 0.04
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (164 bp):
AATGGGAATTCCATAAAATTATTAGATAAATTTTAAAAATTTTAGACCAAAGAAAATCCTCCCGA
AATATTTATGGAATAGAAAACTCGATTTTTCGAGAAAAAAAGGATTTAAAGAAAAAATTTAAAAC
TCATGAAAATGAATTAAATTTTCAAAACTAATTT
Found at i:1441057 original size:165 final size:163
Alignment explanation
Indices: 1440504--1441060 Score: 507
Period size: 166 Copynumber: 3.4 Consensus size: 163
1440494 ATTAGATAAA
* * * * *
1440504 TTTTAAAAATTTTAAA-TCAAGAAAAATCCAT-CTAAAAATATTTACGGAGTAAAAAACTCAATT
1 TTTTAAAAATTTTAAACTAAAG-AAAATCC-TCCCAAAAATATTTACGGAGTAGAAAACCCGATT
* * *
1440567 TTTCAGAAAAATAGGCATTTTAAGGAAAAAAATTAAAAACTCATGAAAATGAATTAAATTTTCAA
64 TTTC-GGAAAATAGGGA-TTTAA-AAAAAAAATT-AAAACTCATGAAAATGAATTAAATTTTCAA
*
1440632 AACTAATTTAATGGAAATTCCATGACATTATT-A-GATAC
125 AACTAATTTAATGGAAATTCCATGAAATTATTGATGA-AC
* * * * * * **
1440670 ATTTTAAAAATTTTAGACCAAAGAAAATCCTCCCGATAATATTTATGGACTAGAAAACTTGATTT
1 -TTTTAAAAATTTTAAACTAAAGAAAATCCTCCCAAAAATATTTACGGAGTAGAAAACCCGATTT
* ** * * * *
1440735 TTCGAGAAAAAAAAGATTTCAAAGAAAAAATTTAAAACTCATGAATATGAAATAAATTTTTAAAA
65 TTCG-GAAAATAGGGATTT-AAA-AAAAAAATTAAAACTCATGAAAATGAATTAAATTTTCAAAA
* * * *
1440800 CTCATTTAATGGGAATTCCATAAAATTATTAGAT-AAA
127 CTAATTTAATGGAAATTCCATGAAATTATT-GATGAAC
** * ** ** * *
1440837 TTTTAAAAATTTTTGACTAAAGAAAATCCCCCCGGAAATATTTATAGAATAGAAAACCCGTTTTT
1 TTTTAAAAATTTTAAACTAAAGAAAATCCTCCCAAAAATATTTACGGAGTAGAAAACCCGATTTT
*
1440902 TCGTGAAAATGGGGATTTAAAAAAAAAATCTAAAACTCATGAAAATGAATTAAATTTTCAAAACT
66 TCG-GAAAATAGGGATTTAAAAAAAAAAT-TAAAACTCATGAAAATGAATTAAATTTTCAAAACT
* * ** *
1440967 GATTTAATGTAAATTAAATGATGATT-TTGATGAAC
129 AATTTAATGGAAATTCCATGA-AATTATTGATGAAC
** *
1441002 TTTTAAAAATTAAAAACT-AAGAAAAATCCTCCCAAAAAAATTTACGGAGTAGAAAACCC
1 TTTTAAAAATTTTAAACTAAAG-AAAATCCTCCCAAAAATATTTACGGAGTAGAAAACCC
1441061 TATAATTTGA
Statistics
Matches: 314, Mismatches: 64, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
164 13 0.04
165 98 0.31
166 131 0.42
167 67 0.21
168 5 0.02
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (163 bp):
TTTTAAAAATTTTAAACTAAAGAAAATCCTCCCAAAAATATTTACGGAGTAGAAAACCCGATTTT
TCGGAAAATAGGGATTTAAAAAAAAAATTAAAACTCATGAAAATGAATTAAATTTTCAAAACTAA
TTTAATGGAAATTCCATGAAATTATTGATGAAC
Found at i:1442216 original size:44 final size:43
Alignment explanation
Indices: 1442151--1442301 Score: 117
Period size: 44 Copynumber: 3.4 Consensus size: 43
1442141 ATTGAATTGC
*
1442151 CAAGTCAACAAAAGATGGAAAAGGTTTACTCGGGATTGAGCCGA
1 CAAGTAAACAAAAGAT-GAAAAGGTTTACTCGGGATTGAGCCGA
* * * * ***
1442195 CAAGTAAACAGAGAA-ATGAAAAAGTTGA-TCTGGATTAAATTGA
1 CAAGTAAACA-A-AAGATGAAAAGGTTTACTCGGGATTGAGCCGA
* * * *
1442238 CAAGTCAATAAAAGATGAAAGGGGTTTACTTGGGATTGAGCCGA
1 CAAGTAAACAAAAGATGAAA-AGGTTTACTCGGGATTGAGCCGA
* *
1442282 CAGGTAAACAATGAGATGAA
1 CAAGTAAACAA-AAGATGAA
1442302 GGTTGTTTCC
Statistics
Matches: 78, Mismatches: 23, Indels: 11
0.70 0.21 0.10
Matches are distributed among these distances:
41 2 0.03
42 7 0.09
43 22 0.28
44 35 0.45
45 10 0.13
46 2 0.03
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (43 bp):
CAAGTAAACAAAAGATGAAAAGGTTTACTCGGGATTGAGCCGA
Found at i:1442301 original size:87 final size:87
Alignment explanation
Indices: 1442109--1442291 Score: 253
Period size: 87 Copynumber: 2.1 Consensus size: 87
1442099 ATTGCGTCGG
* * *
1442109 CAAGTAAACA-AAAAATGAAAAAGTTGACCAAGATTGAATTGCCAAGTCAACAAAAGATGGAAAA
1 CAAGTAAACAGAGAAATGAAAAAGTTGACCAAGATTAAATTGACAAGTCAACAAAAGATGGAAAA
1442173 GGTTTACTCGGGATTGAGCCGA
66 GGTTTACTCGGGATTGAGCCGA
* ** *
1442195 CAAGTAAACAGAGAAATGAAAAAGTTGATCTGGATTAAATTGACAAGTCAATAAAAGAT-GAAAG
1 CAAGTAAACAGAGAAATGAAAAAGTTGACCAAGATTAAATTGACAAGTCAACAAAAGATGGAAA-
* *
1442259 GGGTTTACTTGGGATTGAGCCGA
65 AGGTTTACTCGGGATTGAGCCGA
*
1442282 CAGGTAAACA
1 CAAGTAAACA
1442292 ATGAGATGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
86 14 0.16
87 71 0.84
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.20
Consensus pattern (87 bp):
CAAGTAAACAGAGAAATGAAAAAGTTGACCAAGATTAAATTGACAAGTCAACAAAAGATGGAAAA
GGTTTACTCGGGATTGAGCCGA
Found at i:1442414 original size:42 final size:42
Alignment explanation
Indices: 1442368--1442476 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
1442358 GCCTAAGCCA
* * * *
1442368 ACGGGCAAACAAAGGATAAAAAAGTCTTCC-GGGTCTAAGCTG
1 ACGGGCAGACAAAAGATAAAGAAGTC-TCCTAGGTCTAAGCTG
* *
1442410 ACGGGCAGACAAAAAATAAAGAAGTCTCCTAGGTCTAAGTTG
1 ACGGGCAGACAAAAGATAAAGAAGTCTCCTAGGTCTAAGCTG
*
1442452 ATGGGCAGACAAAAGATAAAGAAGT
1 ACGGGCAGACAAAAGATAAAGAAGT
1442477 TAGGCAGACA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 3 0.05
42 55 0.95
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.17
Consensus pattern (42 bp):
ACGGGCAGACAAAAGATAAAGAAGTCTCCTAGGTCTAAGCTG
Found at i:1442483 original size:24 final size:24
Alignment explanation
Indices: 1442455--1442500 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1442445 TAAGTTGATG
*
1442455 GGCAGACAAAAGATAAAGAAGTTA
1 GGCAGACAAAAGATAAAAAAGTTA
1442479 GGCAGACAAAAGATAAAAAAGT
1 GGCAGACAAAAGATAAAAAAGT
1442501 CTCTCGGGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.57, C:0.09, G:0.24, T:0.11
Consensus pattern (24 bp):
GGCAGACAAAAGATAAAAAAGTTA
Found at i:1442532 original size:66 final size:66
Alignment explanation
Indices: 1442413--1442540 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 66
1442403 TAAGCTGACG
* ** * *
1442413 GGCAGACAAAAAATAAAGAAGTCTCCTAGGTCTAAGTTGATGGGCAGACAAAAGATAAAGAAGTT
1 GGCAGACAAAAAATAAAAAAGTCTCCTAGGTCTAAGCCGACGGGCAAACAAAAGATAAAGAAGTT
1442478 A
66 A
* * * *
1442479 GGCAGACAAAAGATAAAAAAGTCT-CTCGGGTCTAAGCCGACGGGTAAATAAAAGATAAAGAA
1 GGCAGACAAAAAATAAAAAAGTCTCCT-AGGTCTAAGCCGACGGGCAAACAAAAGATAAAGAA
1442541 AGTCTCTCGA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 2 0.04
66 50 0.96
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.16
Consensus pattern (66 bp):
GGCAGACAAAAAATAAAAAAGTCTCCTAGGTCTAAGCCGACGGGCAAACAAAAGATAAAGAAGTT
A
Found at i:1442548 original size:43 final size:43
Alignment explanation
Indices: 1442482--1443065 Score: 295
Period size: 43 Copynumber: 13.8 Consensus size: 43
1442472 GAAGTTAGGC
1442482 AGACAAAAGATAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGT
1 AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGACGGGT
* * * * * *
1442524 AAATAAAAGATAAAGAAAGTCTCTCGAGTCTAAGCCAATGAGT
1 AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGACGGGT
* * * *
1442567 AGATAAAAGATAAAGAAGGTCTCTCGGGTCTGAGTCGACGGGT
1 AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGACGGGT
* * * * * * * *
1442610 AGACAAAGGGTAAAG-AAGTCTCCCGAGTCAAAGCTGATGGGA
1 AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGACGGGT
* * * * * * **
1442652 AGACAAAGGGTAAA-AAAGGTCTCCCGGGT-TAAAGTCTACAGCC
1 AGACAAAAGATAAAGAAA-GTCTCTCGGGTCT-AAGCCGACGGGT
* * * * * * *
1442695 AAACAAAGGATAAAG-AAGTCTC-CTGAGTCAAAGTCAATGGGT
1 AGACAAAAGATAAAGAAAGTCTCTC-GGGTCTAAGCCGACGGGT
* * * * * * * * *
1442737 AGATAAAGGGTGAAG-AAGTTTCTCGGGTCTGAGCTGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGACGGGT
* * * *
1442779 AGACAAAGAGACAAA-AAAGTCTC-CTGGGTCAAAGTCGACGGGC
1 AGACAAA-AGATAAAGAAAGTCTCTC-GGGTCTAAGCCGACGGGT
* * * * * * *
1442822 AGACAAAGGGT-GAGGAAGTCTTTCGGGTCAAAGCC-ATCGGGC
1 AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGA-CGGGT
* * * * *
1442864 AAACAAAAGATAAAG-AAGTCT-TCCAGGT-TAAAGCTGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCT-CGGGTCT-AAGCCGACGGGT
* * ** *
1442906 AGACAAAAGATAAAGAAAGTTTCTCGGGTTTACCCCAACGGGT
1 AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGACGGGT
* * * * *
1442949 AGACAAAGGATAAAG-AAGTCTCCCAGGTCTGAGCCAACGGGT
1 AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGACGGGT
* * *
1442991 --ATAAAAGATAAAGAAAGTCT-TCCGGGTCTAAGCTGAAGGGT
1 AGACAAAAGATAAAGAAAGTCTCT-CGGGTCTAAGCCGACGGGT
* * *
1443032 AGATAAAAGATAAAGAAAGTCTCTTGGGTTTAAG
1 AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAG
1443066 GTGATGGGCA
Statistics
Matches: 407, Mismatches: 109, Indels: 51
0.72 0.19 0.09
Matches are distributed among these distances:
40 11 0.03
41 24 0.06
42 178 0.44
43 191 0.47
44 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.19
Consensus pattern (43 bp):
AGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGACGGGT
Found at i:1442933 original size:85 final size:84
Alignment explanation
Indices: 1442479--1442977 Score: 275
Period size: 85 Copynumber: 5.9 Consensus size: 84
1442469 AAAGAAGTTA
* *
1442479 GGCAGACAAAAGATAAA-AAAGTCTCTCGGGTCTAAGCCGA-CGGGTAAATAAAAGATAAAGAAA
1 GGCAGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCC-ATCGGGCAAACAAAAGATAAAG-AA
* **
1442542 GTCTCTC-GAGTCTAAGCCAATG
64 GTCTC-CAG-GTCAAAGCTGATG
* * * * * * * * * *
1442564 AGTAGATAAAAGATAAAGAAGGTCTCTCGGGTCTGAGTCGA-CGGGTAGACAAAGGGTAAAGAAG
1 GGCAGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAG-CCATCGGGCAAACAAAAGATAAAGAAG
*
1442628 TCTCCCGAGTCAAAGCTGATG
65 TCTCCAG-GTCAAAGCTGATG
* * * * * * * *
1442649 GGAAGACAAAGGGTAAA-AAAGGTCTCCCGGGT-TAAAGTC-TACAGCCAAACAAAGGATAAAGA
1 GGCAGACAAAAGATAAAGAAA-GTCTCTCGGGTCT-AAGCCAT-CGGGCAAACAAAAGATAAAGA
* *
1442711 AGTCTCCTGAGTCAAAG-TCAATG
63 AGTCTCCAG-GTCAAAGCT-GATG
* * * * * * * * * * *
1442734 GGTAGATAAAGGGTGAAG-AAGTTTCTCGGGTCTGAGCTGAT-GGGCAGACAAAGAGACAAAAAA
1 GGCAGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGC-CATCGGGCAAACAAA-AGATAAAGAA
* *
1442797 GTCTCCTGGGTCAAAG-TCGACG
64 GTCTCC-AGGTCAAAGCT-GATG
* * * * * *
1442819 GGCAGACAAAGGGT-GAGGAAGTCTTTCGGGTCAAAGCCATCGGGCAAACAAAAGATAAAGAAGT
1 GGCAGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCATCGGGCAAACAAAAGATAAAGAAGT
*
1442883 CTTCCAGGTTAAAGCTGATG
66 C-TCCAGGTCAAAGCTGATG
* * ** * * * *
1442903 GGCAGACAAAAGATAAAGAAAGTTTCTCGGGTTTACCCCAACGGGTAGACAAAGGATAAAGAAGT
1 GGCAGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCATCGGGCAAACAAAAGATAAAGAAGT
1442968 CTCCCAGGTC
66 CT-CCAGGTC
1442978 TGAGCCAACG
Statistics
Matches: 318, Mismatches: 76, Indels: 40
0.73 0.18 0.09
Matches are distributed among these distances:
84 62 0.19
85 219 0.69
86 36 0.11
87 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (84 bp):
GGCAGACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCATCGGGCAAACAAAAGATAAAGAAGT
CTCCAGGTCAAAGCTGATG
Found at i:1443313 original size:44 final size:44
Alignment explanation
Indices: 1443161--1443319 Score: 153
Period size: 44 Copynumber: 3.6 Consensus size: 44
1443151 AATGGAAATT
* * * *
1443161 ATTTGAGC-AGGGTAGTAACCATAAATCAAATCAAAATTAAAAGA
1 ATTTGA-CTAGGGTGGTAACCATACATCAAATCAGAATGAAAAGA
* ** * * * *
1443205 ATCTGACTAGGGTGGTAACCATATGTCAGACCAGAAGGAAGCAG-
1 ATTTGACTAGGGTGGTAACCATACATCAAATCAGAATGAA-AAGA
* **
1443249 ATTTGACCA-GGTGGTAACCATACATCAAATTGGAATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAAATCAGAATGAAAAGA
1443292 ATTTGACTAGGGTGGTAACCATACATCA
1 ATTTGACTAGGGTGGTAACCATACATCA
1443320 GATCGAAATT
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
42 2 0.02
43 32 0.36
44 54 0.60
45 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (44 bp):
ATTTGACTAGGGTGGTAACCATACATCAAATCAGAATGAAAAGA
Found at i:1443321 original size:87 final size:88
Alignment explanation
Indices: 1443161--1443321 Score: 225
Period size: 87 Copynumber: 1.8 Consensus size: 88
1443151 AATGGAAATT
* *
1443161 ATTTGAGCAGGGTAGTAACCATAAATCAAATCAAAATTAAAAGAATCTGACTAGGGTGGTAACCA
1 ATTTGACCAGGGTAGTAACCATAAATCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCA
**
1443226 TATGTCAGACCAGAAGGAAGCAG
66 TACATCAGACCAGAAGGAAGCAG
* * *** *
1443249 ATTTGACCA-GGTGGTAACCATACATCAAATTGGAATGAAAAGAATTTGACTAGGGTGGTAACCA
1 ATTTGACCAGGGTAGTAACCATAAATCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCA
1443313 TACATCAGA
66 TACATCAGA
1443322 TCGAAATTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 55 0.87
88 8 0.13
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (88 bp):
ATTTGACCAGGGTAGTAACCATAAATCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCA
TACATCAGACCAGAAGGAAGCAG
Found at i:1443334 original size:44 final size:44
Alignment explanation
Indices: 1443161--1443344 Score: 151
Period size: 44 Copynumber: 4.2 Consensus size: 44
1443151 AATGGAAATT
* * * *
1443161 ATTTGAGC-AGGGTAGTAACCATAAATCAAATCAAAATTAAAAGA
1 ATTTGA-CTAGGGTGGTAACCATACATCAAATCGAAATGAAAAGA
* ** * * * *
1443205 ATCTGACTAGGGTGGTAACCATATGTCAGA-CCAGAAGGAAGCAG-
1 ATTTGACTAGGGTGGTAACCATACATCAAATCGA-AATGAA-AAGA
* * *
1443249 ATTTGACCA-GGTGGTAACCATACATCAAATTGGAATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAAATCGAAATGAAAAGA
* *
1443292 ATTTGACTAGGGTGGTAACCATACATCAGATCGAAATTAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAAATCGAAATGAAAAGA
* *
1443336 GTTTAACTA
1 ATTTGACTA
1443345 AGTCCTAACA
Statistics
Matches: 108, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
42 2 0.02
43 33 0.31
44 71 0.66
45 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.23
Consensus pattern (44 bp):
ATTTGACTAGGGTGGTAACCATACATCAAATCGAAATGAAAAGA
Found at i:1443401 original size:48 final size:48
Alignment explanation
Indices: 1443330--1443536 Score: 218
Period size: 48 Copynumber: 4.3 Consensus size: 48
1443320 GATCGAAATT
* * * *
1443330 AAAAGAGTTTAACTAAGTCCTAACACTAATATAGTCAAACAAGGGATG
1 AAAAGAGTTTGACTAAGCCCTAACACCAATACAGTCAAACAAGGGATG
* * * *
1443378 AAAAGAGTTTGATTAAGCCCTAACACCAATACAGTTAAATAAGGGAAG
1 AAAAGAGTTTGACTAAGCCCTAACACCAATACAGTCAAACAAGGGATG
** * * * * *
1443426 AATGGAGTTTGACCAAGCCCTAACACCAACATAGTTAAACGAGGGATG
1 AAAAGAGTTTGACTAAGCCCTAACACCAATACAGTCAAACAAGGGATG
* * * * *
1443474 AAAAGAGTTTGACTAGGTCCTAACGCCAATACAGTCAAACGAGGG-TA
1 AAAAGAGTTTGACTAAGCCCTAACACCAATACAGTCAAACAAGGGATG
1443521 AAAATGAGTTTGACTA
1 AAAA-GAGTTTGACTA
1443537 GTACAGTTAA
Statistics
Matches: 131, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
47 5 0.04
48 126 0.96
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.21
Consensus pattern (48 bp):
AAAAGAGTTTGACTAAGCCCTAACACCAATACAGTCAAACAAGGGATG
Found at i:1443451 original size:96 final size:96
Alignment explanation
Indices: 1443330--1443534 Score: 252
Period size: 96 Copynumber: 2.1 Consensus size: 96
1443320 GATCGAAATT
* * * * * *
1443330 AAAA-GAGTTTAACTAAGTCCTAACACTAATATAGTCAAACAAGGGATGAAAAGAGTTTGATTAA
1 AAAATGAGTTTGACCAAGCCCTAACACCAACATAGTCAAACAAGGGATGAAAAGAGTTTGACTAA
* *
1443394 GCCCTAACACCAATACAGTTAAATAAGGG-A
66 GCCCTAACACCAATACAGTCAAACAAGGGTA
* * *
1443424 AGAATGGAGTTTGACCAAGCCCTAACACCAACATAGTTAAACGAGGGATGAAAAGAGTTTGACTA
1 AAAAT-GAGTTTGACCAAGCCCTAACACCAACATAGTCAAACAAGGGATGAAAAGAGTTTGACTA
* * * *
1443489 GGTCCTAACGCCAATACAGTCAAACGAGGGTA
65 AGCCCTAACACCAATACAGTCAAACAAGGGTA
1443521 AAAATGAGTTTGAC
1 AAAATGAGTTTGAC
1443535 TAGTACAGTT
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 3 0.03
96 84 0.91
97 5 0.05
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (96 bp):
AAAATGAGTTTGACCAAGCCCTAACACCAACATAGTCAAACAAGGGATGAAAAGAGTTTGACTAA
GCCCTAACACCAATACAGTCAAACAAGGGTA
Found at i:1443988 original size:90 final size:88
Alignment explanation
Indices: 1443802--1444030 Score: 248
Period size: 90 Copynumber: 2.5 Consensus size: 88
1443792 AATGCATTAG
* * *
1443802 TACCATCTAGTGGTGGAGACAAAGGGATATGATTGGAAATAAGTGGTCGAGATATCCTTGCCCCA
1 TACCATCTAGTGGTGGAGAGAAAGGGATATGATTGGAAAT--GT-GT-GGGATAACCTTGCCCCA
* * * *
1443867 AGGATATCGGGCTTTGTGATGCATCAG
62 AGGAAATCAGGCTTTGTGATACATCAA
*
1443894 TACCAT-TGAGTGGTGGAGAGAAAGGGAATATGATTGGAAATGTGTGGGTTGAACCTTGCCCCAA
1 TACCATCT-AGTGGTGGAGAGAAAGGG-ATATGATTGGAAATGTGTGGGAT-AACCTTGCCCCAA
*
1443958 GGAAATTAGG-TTTGGTGATACATCAA
63 GGAAATCAGGCTTT-GTGATACATCAA
* * *
1443984 TACCATCTAGTGGTTTGA-TGAAAGGGATATGATTGGGAATGTGTGGG
1 TACCATCTAGTGG-TGGAGAGAAAGGGATATGATTGGAAATGTGTGGG
1444031 CTGCATGATT
Statistics
Matches: 119, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
89 26 0.22
90 49 0.41
91 7 0.06
92 23 0.19
93 14 0.12
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.28
Consensus pattern (88 bp):
TACCATCTAGTGGTGGAGAGAAAGGGATATGATTGGAAATGTGTGGGATAACCTTGCCCCAAGGA
AATCAGGCTTTGTGATACATCAA
Found at i:1444421 original size:20 final size:20
Alignment explanation
Indices: 1444398--1444512 Score: 70
Period size: 20 Copynumber: 5.4 Consensus size: 20
1444388 GCATTAGGTG
1444398 GCAAATGCATATGAAATGAT
1 GCAAATGCATATGAAATGAT
* *
1444418 GCAAATGCCA-ATGTTATTCGAAT
1 GCAAATG-CATATG-AAAT-G-AT
*
1444441 GCAAATGCATATAAAATGAT
1 GCAAATGCATATGAAATGAT
* * ** *
1444461 ACAAATGCAAGTATCAACAAAAAG
1 GCAAATGC-A-TAT-GA-AATGAT
*
1444485 GCAAATGCATATGCAATGAT
1 GCAAATGCATATGAAATGAT
1444505 GCAAATGC
1 GCAAATGC
1444513 CAATGTCATC
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
20 30 0.42
21 6 0.08
22 11 0.15
23 14 0.20
24 10 0.14
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (20 bp):
GCAAATGCATATGAAATGAT
Done.