Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 37 of 56
Found at i:6392252 original size:33 final size:32
Alignment explanation
Indices: 6392215--6392279 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
6392205 TACCACTGTT
*
6392215 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCAATACATGAG-A-ATTGTATCGATACAA
6392248 TGTATCAATACATGAAGAATTGTATCGATACA
1 TGTATCAATACATG-AGAATTGTATCGATACA
6392280 TTGACTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (32 bp):
TGTATCAATACATGAGAATTGTATCGATACAA
Found at i:6397109 original size:20 final size:21
Alignment explanation
Indices: 6397071--6397110 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6397061 TTGCTAAGAT
*
6397071 AGCAATATATGATCTTAAAAG
1 AGCAAGATATGATCTTAAAAG
6397092 AGCAAGATATGA-CTTAAAA
1 AGCAAGATATGATCTTAAAA
6397111 TATATATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (21 bp):
AGCAAGATATGATCTTAAAAG
Found at i:6402736 original size:37 final size:40
Alignment explanation
Indices: 6402649--6402737 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 40
6402639 TATTAATAAA
*
6402649 AAATTGATTAAAATATAAAATAATGAAAAATAAAATATTTT
1 AAATTGATTAATATATAAAATAATGAAAAATAAAATA-TTT
* *
6402690 AAATT--TTAATATATAAAATAAT-ATAAA-CAAATA-TT
1 AAATTGATTAATATATAAAATAATGAAAAATAAAATATTT
*
6402725 AATTTGATTAATA
1 AAATTGATTAATA
6402738 AAATTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
35 6 0.14
37 11 0.26
38 4 0.10
39 16 0.38
41 5 0.12
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (40 bp):
AAATTGATTAATATATAAAATAATGAAAAATAAAATATTT
Found at i:6404637 original size:47 final size:47
Alignment explanation
Indices: 6404568--6404659 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
6404558 GGGGGGTTTG
6404568 CCAACAATTCCAGGGGCTTTTAAAGGTCCAAGCTGGAACATGGCCCC
1 CCAACAATTCCAGGGGCTTTTAAAGGTCCAAGCTGGAACATGGCCCC
6404615 CCAACAATTCCAGGGGCTTTTAAAGGTCCAAGCTGGAACATGGCC
1 CCAACAATTCCAGGGGCTTTTAAAGGTCCAAGCTGGAACATGGCC
6404660 TGTTTTATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (47 bp):
CCAACAATTCCAGGGGCTTTTAAAGGTCCAAGCTGGAACATGGCCCC
Found at i:6411476 original size:23 final size:23
Alignment explanation
Indices: 6411450--6411518 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
6411440 AAAAATTTAT
6411450 TTTAATATTAAATATAATAAATA
1 TTTAATATTAAATATAATAAATA
*
6411473 TTTAATAAT-AAT-T--T--AT-
1 TTTAATATTAAATATAATAAATA
6411489 TTTAATATTAAATATAATAAATA
1 TTTAATATTAAATATAATAAATA
6411512 TTTAATA
1 TTTAATA
6411519 ATAATTTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
16 8 0.22
17 5 0.14
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 5 0.14
23 15 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAATATTAAATATAATAAATA
Found at i:6411489 original size:39 final size:39
Alignment explanation
Indices: 6411435--6411526 Score: 175
Period size: 39 Copynumber: 2.4 Consensus size: 39
6411425 ATTTAATTAA
*
6411435 TTAATAAAAATTTATTTTAATATTAAATATAATAAATAT
1 TTAATAATAATTTATTTTAATATTAAATATAATAAATAT
6411474 TTAATAATAATTTATTTTAATATTAAATATAATAAATAT
1 TTAATAATAATTTATTTTAATATTAAATATAATAAATAT
6411513 TTAATAATAATTTA
1 TTAATAATAATTTA
6411527 CTTAATGAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (39 bp):
TTAATAATAATTTATTTTAATATTAAATATAATAAATAT
Found at i:6411542 original size:39 final size:39
Alignment explanation
Indices: 6411435--6411546 Score: 147
Period size: 39 Copynumber: 2.9 Consensus size: 39
6411425 ATTTAATTAA
* * *
6411435 TTAATAAAAATTTATTTTAATATTAAATATAATAAATAT
1 TTAATAATAATTTATCTTAATAATAAATATAATAAATAT
* *
6411474 TTAATAATAATTTATTTTAATATTAAATATAATAAATAT
1 TTAATAATAATTTATCTTAATAATAAATATAATAAATAT
6411513 TTAATAATAATTTA-CTTAATGAA-ATAATATAATA
1 TTAATAATAATTTATCTTAAT-AATA-AATATAATA
6411547 TTTAATATAA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 6 0.09
39 62 0.91
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (39 bp):
TTAATAATAATTTATCTTAATAATAAATATAATAAATAT
Found at i:6411551 original size:20 final size:18
Alignment explanation
Indices: 6411452--6411553 Score: 65
Period size: 16 Copynumber: 5.7 Consensus size: 18
6411442 AAATTTATTT
*
6411452 TAATATTAAAT-ATAATA
1 TAATATTTAATAATAATA
6411469 -AATATTTAATAATAATTTA
1 TAATATTTAATAATAA--TA
*
6411488 TTTTAATATTAAAT-ATAATA
1 ---TAATATTTAATAATAATA
6411508 -AATATTTAATAATAAT-
1 TAATATTTAATAATAATA
*
6411524 T--TACTTAATGAAATAATA
1 TAATATTTAAT--AATAATA
6411542 TAATATTTAATA
1 TAATATTTAATA
6411554 TAAATTTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 27
0.67 0.05 0.28
Matches are distributed among these distances:
15 7 0.11
16 18 0.27
17 15 0.23
18 2 0.03
19 2 0.03
20 9 0.14
22 4 0.06
23 9 0.14
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
TAATATTTAATAATAATA
Found at i:6411858 original size:16 final size:16
Alignment explanation
Indices: 6411839--6411876 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
6411829 GGTTCGAATC
*
6411839 ATTTCAGGTTCAGATT
1 ATTTCAGATTCAGATT
*
6411855 ATTTTAGATTCAGATT
1 ATTTCAGATTCAGATT
6411871 ATTTCA
1 ATTTCA
6411877 AAATTGGATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (16 bp):
ATTTCAGATTCAGATT
Found at i:6415915 original size:20 final size:20
Alignment explanation
Indices: 6415844--6415920 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 20
6415834 GTAAAAAGAC
*
6415844 AAAATGTATCGATACATTGA
1 AAAATATATCGATACATTGA
* ** *
6415864 AGAATATATTAATACATTCA
1 AAAATATATCGATACATTGA
* * *
6415884 AACATGTATCGATATATTGA
1 AAAATATATCGATACATTGA
6415904 AAAATATATCGATACAT
1 AAAATATATCGATACAT
6415921 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.32
Consensus pattern (20 bp):
AAAATATATCGATACATTGA
Found at i:6415919 original size:40 final size:39
Alignment explanation
Indices: 6415843--6415920 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
6415833 GGTAAAAAGA
* *
6415843 CAAAATGTATCGATACATTGAAGAATATATTAATACATT
1 CAAAATGTATCGATACATTGAAAAATATATCAATACATT
* *
6415882 CAAACATGTATCGATATATTGAAAAATATATCGATACAT
1 CAAA-ATGTATCGATACATTGAAAAATATATCAATACAT
6415921 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (39 bp):
CAAAATGTATCGATACATTGAAAAATATATCAATACATT
Found at i:6416265 original size:16 final size:16
Alignment explanation
Indices: 6416246--6416292 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
6416236 GGTTTAAATT
*
6416246 ATTTCGAATTCGAATA
1 ATTTCAAATTCGAATA
* *
6416262 ATTTCAAATTCGGATC
1 ATTTCAAATTCGAATA
6416278 ATTTCAAATTCGAAT
1 ATTTCAAATTCGAAT
6416293 CGATCGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (16 bp):
ATTTCAAATTCGAATA
Found at i:6416753 original size:16 final size:17
Alignment explanation
Indices: 6416725--6416772 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
6416715 TTAGATTAAA
6416725 TTTATATTATTTTAT-TT
1 TTTATA-TATTTTATATT
6416742 TATT-TATATTTTAATATT
1 T-TTATATATTTT-ATATT
6416760 TTTATATATTTTA
1 TTTATATATTTTA
6416773 ATTATGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 6 0.22
17 8 0.30
18 13 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATATTTTATATT
Found at i:6416759 original size:19 final size:19
Alignment explanation
Indices: 6416724--6416774 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
6416714 TTTAGATTAA
*
6416724 ATTTATATTATT-TTATTTT
1 ATTTATATT-TTAATATTTT
6416743 ATTTATATTTTAATATTTT
1 ATTTATATTTTAATATTTT
*
6416762 -TATATATTTTAAT
1 ATTTATATTTTAAT
6416775 TATGTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTATATTTTAATATTTT
Found at i:6416816 original size:33 final size:34
Alignment explanation
Indices: 6416769--6416833 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
6416759 TTTTATATAT
* * * *
6416769 TTTAATTATGTTTTTTTATTGTA-TTGTGTTATC
1 TTTAATAATATTTTTATATTATATTTGTGTTATC
6416802 TTTAATAATATTTTTATATTATATTTGTGTTA
1 TTTAATAATATTTTTATATTATATTTGTGTTA
6416834 AATAATCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 19 0.70
34 8 0.30
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.65
Consensus pattern (34 bp):
TTTAATAATATTTTTATATTATATTTGTGTTATC
Found at i:6421223 original size:18 final size:18
Alignment explanation
Indices: 6421200--6421237 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6421190 GATTTGATAG
6421200 AATTGTAAAGGAAAACCA
1 AATTGTAAAGGAAAACCA
6421218 AATTGTAAAGGAAAACCA
1 AATTGTAAAGGAAAACCA
6421236 AA
1 AA
6421238 GATGAAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.11, G:0.16, T:0.16
Consensus pattern (18 bp):
AATTGTAAAGGAAAACCA
Found at i:6421942 original size:20 final size:21
Alignment explanation
Indices: 6421902--6421947 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
6421892 TTCTACAATG
*
6421902 TGTATCGATACAATAAGTGAA
1 TGTATCAATACAATAAGTGAA
*
6421923 TGTATCAATAC-ATGAGTGAA
1 TGTATCAATACAATAAGTGAA
6421943 TGTAT
1 TGTAT
6421948 TGATACATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTATCAATACAATAAGTGAA
Found at i:6421953 original size:20 final size:20
Alignment explanation
Indices: 6421902--6421975 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
6421892 TTCTACAATG
*
6421902 TGTATCGATACAATAAGTGAA
1 TGTATCGATAC-ATGAGTGAA
*
6421923 TGTATCAATACATGAGTGAA
1 TGTATCGATACATGAGTGAA
* ** *
6421943 TGTATTGATACATGTTTAAAA
1 TGTATCGATACATGAGT-GAA
6421964 TGTATCGATACA
1 TGTATCGATACA
6421976 AGAGATACAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 21 0.48
21 23 0.52
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGAGTGAA
Found at i:6422123 original size:51 final size:52
Alignment explanation
Indices: 6422041--6422158 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 52
6422031 ATACACTTCT
* *
6422041 ATTGTATTGATACATTCTAGGTTTTTGACCCAAATGTATCGATACATTATTC
1 ATTGTATCGATACATTCTAGGTTTTTAACCCAAATGTATCGATACATTATTC
* * * *
6422093 ATTGTATCGATATATTTTAGG-TTTTAACCCAAATGTGTCGATACATTTTTC
1 ATTGTATCGATACATTCTAGGTTTTTAACCCAAATGTATCGATACATTATTC
*
6422144 AATGTATCGATACAT
1 ATTGTATCGATACAT
6422159 GCAAATCATT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 40 0.69
52 18 0.31
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (52 bp):
ATTGTATCGATACATTCTAGGTTTTTAACCCAAATGTATCGATACATTATTC
Found at i:6425942 original size:14 final size:14
Alignment explanation
Indices: 6425923--6425951 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6425913 GTTTTGAGGT
6425923 GTTTTTGTGGGAAG
1 GTTTTTGTGGGAAG
6425937 GTTTTTGTGGGAAG
1 GTTTTTGTGGGAAG
6425951 G
1 G
6425952 AAGGAGGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.41
Consensus pattern (14 bp):
GTTTTTGTGGGAAG
Found at i:6426517 original size:20 final size:20
Alignment explanation
Indices: 6426492--6426529 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6426482 ATATATCGAT
6426492 ATAATGTATCGATACATTGA
1 ATAATGTATCGATACATTGA
6426512 ATAATGTATCGATACATT
1 ATAATGTATCGATACATT
6426530 TTCTTGGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
ATAATGTATCGATACATTGA
Found at i:6427558 original size:53 final size:49
Alignment explanation
Indices: 6427405--6427619 Score: 234
Period size: 49 Copynumber: 4.2 Consensus size: 49
6427395 TGTGTTAAGA
* *
6427405 CAAGGCCAACGACATTGGGCTTAGAA-ATGTTAAAGATGCCAATATGCTGATT
1 CAAGGCCAACGACATCGGACTTA-AAGATG---AAGATGCCAATATGCTGATT
* * * *
6427457 CAAGACCAACAATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATT
1 CAAGGCCAACGACATCGGACTTAAAGATGAAGATGCCAATATGCTGATT
** * * *
6427506 CAAGGCTGACGACATTGGACTTAAAAGATGGTTAAGGTGCCAATGTGCTGATT
1 CAAGGCCAACGACATCGGACTT-AAAGAT-G--AAGATGCCAATATGCTGATT
* *
6427559 CAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
1 CAAGGCCAACGACATCGGACTTAAAGATGAAGATGCCAATATGCTGATT
6427608 CAAGGCCAACGA
1 CAAGGCCAACGA
6427620 TATTGGGCTT
Statistics
Matches: 140, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
49 66 0.47
50 6 0.04
51 4 0.03
52 27 0.19
53 37 0.26
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (49 bp):
CAAGGCCAACGACATCGGACTTAAAGATGAAGATGCCAATATGCTGATT
Found at i:6427625 original size:102 final size:101
Alignment explanation
Indices: 6427405--6427625 Score: 300
Period size: 102 Copynumber: 2.2 Consensus size: 101
6427395 TGTGTTAAGA
* * *
6427405 CAAGGCCAACGACATTGGGCTTAGAAATGTTAAAGATGCCAATATGCTGATTCAAGACCAACAAT
1 CAAGGCCAACGACATTGGACTTAAAAATGTTAAAGATGCCAATATGCTGATTCAAGACCAACAAC
*
6427470 ATCGGACTTAAAGATGAAGATGCCAATGTGCTGATT
66 ATCGGACTTAAAGATGAAGATGCCAATATGCTGATT
** * * * *
6427506 CAAGGCTGACGACATTGGACTTAAAAGATGGTT-AAGGTGCCAATGTGCTGATTCAAGGCCAACG
1 CAAGGCCAACGACATTGGACTTAAAA-AT-GTTAAAGATGCCAATATGCTGATTCAAGACCAACA
* *
6427570 ACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
64 ACATCGGACTTAAAGATGAAGATGCCAATATGCTGATT
*
6427608 CAAGGCCAACGATATTGG
1 CAAGGCCAACGACATTGG
6427626 GCTTGTGCCA
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
101 22 0.21
102 78 0.76
103 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (101 bp):
CAAGGCCAACGACATTGGACTTAAAAATGTTAAAGATGCCAATATGCTGATTCAAGACCAACAAC
ATCGGACTTAAAGATGAAGATGCCAATATGCTGATT
Found at i:6427712 original size:87 final size:85
Alignment explanation
Indices: 6427542--6427794 Score: 332
Period size: 87 Copynumber: 3.0 Consensus size: 85
6427532 GATGGTTAAG
* *
6427542 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA-A--AAGGTGCCAATATGCTGAT
* *
6427607 TCAAGGCCAACGATATTGGGCTT
63 TCAAGGCCAGCGATATTGGGCTC
* * *
6427630 GTGCCAATTTGCTGATTCAAGGCCAGCGACATTAGTCTTAGAAACAAGGTACCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAA-AAGGTGCCAATATGCTGATT
6427695 CAAGGCCAGCGATATTGGGCTC
64 CAAGGCCAGCGATATTGGGCTC
* * *
6427717 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT---AAAGGTGCCAATGTGCTGATTCA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAAAGGTGCCAATATGCTGATTCA
* *
6427779 AGGCTAGCGACATTGG
66 AGGCCAGCGATATTGG
6427795 TCTTAAAGAT
Statistics
Matches: 148, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
82 34 0.23
83 1 0.01
87 74 0.50
88 37 0.25
89 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (85 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAAAGGTGCCAATATGCTGATTCA
AGGCCAGCGATATTGGGCTC
Found at i:6427778 original size:43 final size:43
Alignment explanation
Indices: 6427539--6427802 Score: 229
Period size: 39 Copynumber: 6.1 Consensus size: 43
6427529 AAAGATGGTT
* *
6427539 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT----A
* * * *
6427586 TGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-
1 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
* *
6427630 ---GTGCCAATTTGCTGATTCAAGGCCAGCGACATTAGTCTTAGAAA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT----A
* * * *
6427674 CAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-
1 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
* * *
6427716 --CGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
*
6427757 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
6427800 AAG
1 AAG
6427803 ATAAATGTGC
Statistics
Matches: 180, Mismatches: 22, Indels: 32
0.77 0.09 0.14
Matches are distributed among these distances:
39 68 0.38
40 1 0.01
43 40 0.22
47 1 0.01
48 32 0.18
49 38 0.21
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (43 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
Found at i:6427843 original size:49 final size:49
Alignment explanation
Indices: 6427717--6427848 Score: 132
Period size: 49 Copynumber: 2.8 Consensus size: 49
6427707 TATTGGGCTC
* * *
6427717 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAG
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAAAG
* * *
6427760 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAT
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAAAG
* * * *
6427809 GTGCTAATATGCTGATTGAAGGCTAGTGATATTGGACTTA
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTA
6427849 GAAGTGCTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 34 0.47
44 1 0.01
49 38 0.52
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAAAG
Found at i:6427999 original size:33 final size:32
Alignment explanation
Indices: 6427935--6428184 Score: 264
Period size: 33 Copynumber: 7.8 Consensus size: 32
6427925 CATAGAGTCA
*
6427935 TGGACTTAAAAAG-AAAAGGTGCCACGAAGTTG
1 TGGACTTAAAAGGAAAAAGGTGCCACG-AGTTG
* *
6427967 TGGACTTAAAAGGAACAAGGTACCACAGAGTTG
1 TGGACTTAAAAGGAAAAAGGTGCCAC-GAGTTG
*
6428000 TGGACTT-AAAGGAAAAAGATGCCACAGAGTTG
1 TGGACTTAAAAGGAAAAAGGTGCCAC-GAGTTG
6428032 TGGACTTAAAA-G-----GGTGCCACGAAGTTG
1 TGGACTTAAAAGGAAAAAGGTGCCACG-AGTTG
*
6428059 TAGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
1 TGGACTTAAAAGGAAAAAG-GTGCCAC-GAGTTG
* **
6428093 TGGGCTTTAAAAATAAAAAGGTGCCACGAAGTTG
1 TGGAC-TTAAAAGGAAAAAGGTGCCACG-AGTTG
* *
6428127 TGGACTTAAAAGGAACAAGGTGCCAGGGAGTTG
1 TGGACTTAAAAGGAAAAAGGTGCCA-CGAGTTG
*
6428160 TGGACTTAAAAGGAAAAAGATGCCA
1 TGGACTTAAAAGGAAAAAGGTGCCA
6428185 TGGAGCCATG
Statistics
Matches: 184, Mismatches: 19, Indels: 29
0.79 0.08 0.12
Matches are distributed among these distances:
26 1 0.01
27 22 0.12
28 1 0.01
32 42 0.23
33 72 0.39
34 33 0.18
35 13 0.07
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.19
Consensus pattern (32 bp):
TGGACTTAAAAGGAAAAAGGTGCCACGAGTTG
Found at i:6428050 original size:27 final size:27
Alignment explanation
Indices: 6428019--6428071 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
6428009 AGGAAAAAGA
*
6428019 TGCCAC-AGAGTTGTGGACTTAAAAGGG
1 TGCCACGA-AGTTGTAGACTTAAAAGGG
6428046 TGCCACGAAGTTGTAGACTTAAAAGG
1 TGCCACGAAGTTGTAGACTTAAAAGG
6428072 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (27 bp):
TGCCACGAAGTTGTAGACTTAAAAGGG
Found at i:6428197 original size:33 final size:33
Alignment explanation
Indices: 6428127--6428199 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
6428117 CACGAAGTTG
* * ***
6428127 TGGACTTAAAAGGAACAAGGTGCCAGGGAGTTG
1 TGGACTTAAAAGGAAAAAGATGCCAGGGAGCCA
*
6428160 TGGACTTAAAAGGAAAAAGATGCCATGGAGCCA
1 TGGACTTAAAAGGAAAAAGATGCCAGGGAGCCA
6428193 TGGACTT
1 TGGACTT
6428200 TGGGAAGAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.19
Consensus pattern (33 bp):
TGGACTTAAAAGGAAAAAGATGCCAGGGAGCCA
Found at i:6428197 original size:66 final size:68
Alignment explanation
Indices: 6428061--6428199 Score: 165
Period size: 66 Copynumber: 2.1 Consensus size: 68
6428051 CGAAGTTGTA
* * * **
6428061 GACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAATAAAAAGGTGCCACGAAGTT
1 GACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGATGCCACGAAGCC
*
6428126 GTG
66 ATG
* * * * *
6428129 GACTTAAAAGGAACAAG-GTGCCAGGGAGTTGTGGAC-TTAAAAGGAAAAAGATGCCATGGAGCC
1 GACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGATGCCACGAAGCC
6428192 ATG
66 ATG
6428195 GACTT
1 GACTT
6428200 TGGGAAGAGA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 27 0.45
67 17 0.28
68 16 0.27
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.19
Consensus pattern (68 bp):
GACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGATGCCACGAAGCC
ATG
Found at i:6428230 original size:31 final size:30
Alignment explanation
Indices: 6428193--6428426 Score: 252
Period size: 31 Copynumber: 7.6 Consensus size: 30
6428183 CATGGAGCCA
* * *
6428193 TGGACTTTGGGAAGAGATAGCCATTGAGTTG
1 TGGACTTTGAGAAGAGAT-GCCACTGAGTCG
* * *
6428224 TAGACTTTGAAAAAAAGATGCCACTGAGTCG
1 TGGACTTTG-AGAAGAGATGCCACTGAGTCG
* * * * *
6428255 TGGATTTTAAGAAGAGATGCTACTAAGTTG
1 TGGACTTTGAGAAGAGATGCCACTGAGTCG
*
6428285 TGAACTTTGAGAAGAGATTGCCACTGAGTCG
1 TGGACTTTGAGAAGAGA-TGCCACTGAGTCG
* *
6428316 TGGACTTTGAATAAAAGATGCCACTGAGTCG
1 TGGACTTTG-AGAAGAGATGCCACTGAGTCG
*
6428347 TGGACTTTGGGAAGAGATGCCACTGAGTCG
1 TGGACTTTGAGAAGAGATGCCACTGAGTCG
* *
6428377 TGGACTTTGAGAAAAGAGATTGCTATTGAGTCG
1 TGGACTTTGAG--AAGAGA-TGCCACTGAGTCG
6428410 TGGACTTTGAGAAGAGA
1 TGGACTTTGAGAAGAGA
6428427 GATTTGAAGA
Statistics
Matches: 168, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
30 58 0.35
31 70 0.42
32 18 0.11
33 22 0.13
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (30 bp):
TGGACTTTGAGAAGAGATGCCACTGAGTCG
Found at i:6428273 original size:30 final size:30
Alignment explanation
Indices: 6428203--6428426 Score: 169
Period size: 30 Copynumber: 7.2 Consensus size: 30
6428193 TGGACTTTGG
* * * *
6428203 GAAGAGATAGCCATTGAGTTGTAGACTTTGAA
1 GAAGAGAT-GCCACTGAGTCGTGGA-TTTTAA
* *
6428235 AAAAAGATGCCACTGAGTCGTGGATTTTAA
1 GAAGAGATGCCACTGAGTCGTGGATTTTAA
* * * * * *
6428265 GAAGAGATGCTACTAAGTTGTGAACTTTGA
1 GAAGAGATGCCACTGAGTCGTGGATTTTAA
*
6428295 GAAGAGATTGCCACTGAGTCGTGGACTTTGAA
1 GAAGAGA-TGCCACTGAGTCGTGGA-TTTTAA
* * * **
6428327 TAAAAGATGCCACTGAGTCGTGGACTTTGG
1 GAAGAGATGCCACTGAGTCGTGGATTTTAA
*
6428357 GAAGAGATGCCACTGAGTCGTGGACTTTGAGA
1 GAAGAGATGCCACTGAGTCGTGGA-TTTTA-A
* * * * *
6428389 AAAGAGATTGCTATTGAGTCGTGGACTTTGA
1 GAAGAGA-TGCCACTGAGTCGTGGATTTTAA
6428420 GAAGAGA
1 GAAGAGA
6428427 GATTTGAAGA
Statistics
Matches: 147, Mismatches: 40, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
30 58 0.39
31 52 0.35
32 22 0.15
33 15 0.10
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (30 bp):
GAAGAGATGCCACTGAGTCGTGGATTTTAA
Found at i:6428299 original size:92 final size:92
Alignment explanation
Indices: 6428196--6428419 Score: 304
Period size: 92 Copynumber: 2.4 Consensus size: 92
6428186 GGAGCCATGG
* * * * *
6428196 ACTTTGGGAAGAGATAGCCATTGAGTTGTAGACTTTGAAAAAAAGATGCCACTGAGTCGTGGATT
1 ACTTTGAGAAGAGATTGCCATTGAGTCGTGGACTTTGAAAAAAAGATGCCACTGAGTCGTGGACT
* *
6428261 TTAAGAAGAGATGCTACTAAGTTGTGA
66 TTAAGAAGAGATGCCACTAAGTCGTGA
* *
6428288 ACTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTGAATAAAAGATGCCACTGAGTCGTGGACT
1 ACTTTGAGAAGAGATTGCCATTGAGTCGTGGACTTTGAAAAAAAGATGCCACTGAGTCGTGGACT
** * *
6428353 TTGGGAAGAGATGCCACTGAGTCGTGG
66 TTAAGAAGAGATGCCACTAAGTCGTGA
*
6428380 ACTTTGAGAAAAGAGATTGCTATTGAGTCGTGGACTTTGA
1 ACTTTGAG--AAGAGATTGCCATTGAGTCGTGGACTTTGA
6428420 GAAGAGAGAT
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 87 0.76
94 28 0.24
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (92 bp):
ACTTTGAGAAGAGATTGCCATTGAGTCGTGGACTTTGAAAAAAAGATGCCACTGAGTCGTGGACT
TTAAGAAGAGATGCCACTAAGTCGTGA
Found at i:6428308 original size:61 final size:61
Alignment explanation
Indices: 6428239--6428426 Score: 254
Period size: 61 Copynumber: 3.0 Consensus size: 61
6428229 TTTGAAAAAA
* * * * *
6428239 AGATGCCACTGAGTCGTGGA-TTTTAAGAAGAGATGCTACTAAGTTGTGAACTTTGAGAAG
1 AGATGCCACTGAGTCGTGGACTTTGAAAAAGAGATGCTACTGAGTCGTGGACTTTGAGAAG
* *
6428299 AGATTGCCACTGAGTCGTGGACTTTGAATAAA-AGATGCCACTGAGTCGTGGACTTTGGGAAG
1 AGA-TGCCACTGAGTCGTGGACTTTGAA-AAAGAGATGCTACTGAGTCGTGGACTTTGAGAAG
*
6428361 AGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGATTGCTATTGAGTCGTGGACTTTGAGAAG
1 AGATGCCACTGAGTCGTGGACTTTGA-AAAAGAGA-TGCTACTGAGTCGTGGACTTTGAGAAG
6428424 AGA
1 AGA
6428427 GATTTGAAGA
Statistics
Matches: 112, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
60 3 0.03
61 43 0.38
62 37 0.33
63 29 0.26
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (61 bp):
AGATGCCACTGAGTCGTGGACTTTGAAAAAGAGATGCTACTGAGTCGTGGACTTTGAGAAG
Found at i:6429719 original size:19 final size:20
Alignment explanation
Indices: 6429676--6429719 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
6429666 TTTGCACTCT
*
6429676 CTTTTTTTTGTGTGTTTTTT
1 CTTTTTTTTGTGTGTTTTTA
*
6429696 GTTTTTTTT-TGTGTTTTTA
1 CTTTTTTTTGTGTGTTTTTA
6429715 CTTTT
1 CTTTT
6429720 GACTTTTTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.02, C:0.05, G:0.14, T:0.80
Consensus pattern (20 bp):
CTTTTTTTTGTGTGTTTTTA
Found at i:6430350 original size:79 final size:77
Alignment explanation
Indices: 6430218--6430765 Score: 472
Period size: 79 Copynumber: 6.9 Consensus size: 77
6430208 AAATTTTTAA
* * *
6430218 ATTTTTACTTCCAAAATATTGAAATTTTCATC-TCGAGGATACTCCAACTCCATCATTTCCGAGG
1 ATTTTTACTTCCAAAATA-TCAAATTTTCACCATCG-GGATACTCCAAC-CCATCATTTTCGAGG
6430282 GGATACTCCAACCCC
63 GGATACTCCAACCCC
* * * * * *
6430297 GTTTTTACTTTCAAAATATCAAGTTTTCACCATCAGGGATAATCCAATCCCATCA-TTTCTAAAG
1 ATTTTTACTTCCAAAATATCAAATTTTCACCATC-GGGATACTCCAA-CCCATCATTTTC-GAGG
* * *
6430361 GGATACTTCAATCCT
63 GGATACTCCAACCCC
* ** *
6430376 ATTTTTCCCACCAAAATATCAAATTTTCACCATCGAGGATACTCCAACCCCATCATTTTTGAGGG
1 ATTTTTACTTCCAAAATATCAAATTTTCACCATCG-GGATACTCCAA-CCCATCATTTTCGAGGG
* * *
6430441 GATACTCTAATCTC
64 GATACTCCAACCCC
* * * * * *
6430455 GTTTTTCCCTCCAAAATATCAAATTTTCACCACCGGGATACTCTAATCCCATCATTTTCGAGGAG
1 ATTTTTACTTCCAAAATATCAAATTTTCACCATCGGGATACTCCAA-CCCATCATTTTCGAGGGG
6430520 ATACTCCAACCCC
65 ATACTCCAACCCC
* * * **
6430533 ATTTTTACTTCCAAAATATCAATTTTTCACCATTGAAGATACTCCAACCTCATCATTTTCGAGAT
1 ATTTTTACTTCCAAAATATCAAATTTTCACCATCG-GGATACTCCAACC-CATCATTTTCGAGGG
* * *
6430598 GATACTCTAACTCT
64 GATACTCCAACCCC
* * ** * * * * *
6430612 ATTTTTATTTCTAAAATATTGATTTTTCATCATCGGGGATACTCCAACTCCATTATTTTTGAAGG
1 ATTTTTACTTCCAAAATATCAAATTTTCACCATC-GGGATACTCCAAC-CCATCATTTTCGAGGG
*
6430677 GATGCTCCAACCCC
64 GATACTCCAACCCC
* * * * * * * *
6430691 GTTTTTACTTTCAAAATATTAAAATTTTCATC-TCGGGGATACTCTAACCTCATCATTTCCAAAG
1 ATTTTTACTTCCAAAATA-TCAAATTTTCACCATC-GGGATACTCCAACC-CATCATTTTCGAGG
6430755 GGATACTCCAA
63 GGATACTCCAA
6430766 TCCTGATTTT
Statistics
Matches: 378, Mismatches: 79, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
78 82 0.22
79 279 0.74
80 17 0.04
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.34
Consensus pattern (77 bp):
ATTTTTACTTCCAAAATATCAAATTTTCACCATCGGGATACTCCAACCCATCATTTTCGAGGGGA
TACTCCAACCCC
Found at i:6430654 original size:236 final size:234
Alignment explanation
Indices: 6430219--6430765 Score: 584
Period size: 236 Copynumber: 2.3 Consensus size: 234
6430209 AATTTTTAAA
* * * *
6430219 TTTTTACTTCCAAAATATTGAAATTTTCATCTCGAGGATACTCCAACTCCATCATTTCCGAGGGG
1 TTTTTACCTCCAAAATATTAAAATTTTCATCCCG-GGATACTCTAAC-CCATCATTTCCGA-GGG
* * *
6430284 ATACTCCAACCCCGTTTTTACTTTCAAAATATCAAGTTTTCACCATCAGGGATAATCCAATCCCA
63 ATACTCCAACCCCATTTTTACTTCCAAAATATCAAGTTTTCACCATCAGAGATAATCCAATCCCA
* *
6430349 TCATTTCTAAAGGGATACTTCAATCCTATTTTTCCCACCAAAATATCAAATTTTCACCATCGAGG
128 TCATTTCGAAAGGGATACTTCAATCCTATTTTTACCACCAAAATATCAAATTTTCACCATCGAGG
* * * *
6430414 ATACTCCAACCCCATCATTTTTGAGGGGATACTCTAATCTCG
193 ATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCG
* * * *
6430456 TTTTTCCCTCCAAAATA-TCAAATTTTCACCACCGGGATACTCTAATCCCATCATTTTCGAGGAG
1 TTTTTACCTCCAAAATATTAAAATTTTCATC-CCGGGATACTCTAA-CCCATCATTTCCGAGG-G
* * *
6430520 ATACTCCAACCCCATTTTTACTTCCAAAATATCAATTTTTCACCAT-TGAAGATACTCCAA-CCT
63 ATACTCCAACCCCATTTTTACTTCCAAAATATCAAGTTTTCACCATCAG-AGATAATCCAATCC-
* * *** * ** * *
6430583 CATCATTTTCGAGA-TGATAC-TCTAA-CTCTATTTTTATTTCTAAAATATTGATTTTTCATCAT
126 CATCA-TTTCGAAAGGGATACTTC-AATC-CTATTTTTACCACCAAAATATCAAATTTTCACCAT
* * * *
6430645 CGGGGATACTCCAACTCCATTATTTTTGAAGGGATGCTCCAACCCCG
188 CGAGGATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCG
* * * *
6430692 TTTTTACTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCTAACCTCATCATTTCCAAAGGG
1 TTTTTACCTCCAAAATATTAAAATTTTCATC-CCGGGATACTCTAACC-CATCATTTCC-GAGGG
6430757 ATACTCCAA
63 ATACTCCAA
6430766 TCCTGATTTT
Statistics
Matches: 257, Mismatches: 42, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
235 8 0.03
236 179 0.70
237 67 0.26
238 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (234 bp):
TTTTTACCTCCAAAATATTAAAATTTTCATCCCGGGATACTCTAACCCATCATTTCCGAGGGATA
CTCCAACCCCATTTTTACTTCCAAAATATCAAGTTTTCACCATCAGAGATAATCCAATCCCATCA
TTTCGAAAGGGATACTTCAATCCTATTTTTACCACCAAAATATCAAATTTTCACCATCGAGGATA
CTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCG
Found at i:6430740 original size:158 final size:157
Alignment explanation
Indices: 6430218--6430762 Score: 546
Period size: 158 Copynumber: 3.5 Consensus size: 157
6430208 AAATTTTTAA
* * *
6430218 ATTTTTACTTCCAAAATATTGAAATTTTCATC-TCGAGGATACTCCAA-CTCCATCATTTCCGAG
1 ATTTTTACTTCCAAAATA-TCAAATTTTCACCATCGAGGATACTCCAACCT-CATCATTTTCGAG
* * * * *
6430281 GGGATACTCCAACCCCGTTTTTACTTTCAAAATATCAAGTTTTCACCATCAGGGATAATCCAATC
64 GGGATACTCTAACTCTGTTTTTA-TTTCAAAATATCAAATTTTCACCATCAGGGATACTCCAATC
* * * * *
6430346 CCATCATTTCTAAAGGGATACTTCAATCCT
128 CCATCATTTTTGAAGGGATACTCCAACCCC
* ** * *
6430376 ATTTTTCCCACCAAAATATCAAATTTTCACCATCGAGGATACTCCAACCCCATCATTTTTGAGGG
1 ATTTTTACTTCCAAAATATCAAATTTTCACCATCGAGGATACTCCAACCTCATCATTTTCGAGGG
** * * *
6430441 GATACTCTAA-TCTCGTTTTTCCCTCCAAAATATCAAATTTTCACCA-CCGGGATACTCTAATCC
66 GATACTCTAACTCT-GTTTTT-ATTTCAAAATATCAAATTTTCACCATCAGGGATACTCCAATCC
*
6430504 CATCATTTTCG-AGGAGATACTCCAACCCC
129 CATCATTTTTGAAGG-GATACTCCAACCCC
* * * **
6430533 ATTTTTACTTCCAAAATATCAATTTTTCACCATTGAAGATACTCCAACCTCATCATTTTCGAGAT
1 ATTTTTACTTCCAAAATATCAAATTTTCACCATCGAGGATACTCCAACCTCATCATTTTCGAGGG
* ** * * *
6430598 GATACTCTAACTCTATTTTTATTTCTAAAATATTGATTTTTCATCATCGGGGATACTCCAA-CTC
66 GATACTCTAACTCTGTTTTTATTTC-AAAATATCAAATTTTCACCATCAGGGATACTCCAATC-C
* *
6430662 CATTATTTTTGAAGGGATGCTCCAACCCC
129 CATCATTTTTGAAGGGATACTCCAACCCC
* * * * * * * * *
6430691 GTTTTTACTTTCAAAATATTAAAATTTTCATC-TCGGGGATACTCTAACCTCATCATTTCCAAAG
1 ATTTTTACTTCCAAAATA-TCAAATTTTCACCATCGAGGATACTCCAACCTCATCATTTTCGAGG
6430755 GGATACTC
65 GGATACTC
6430763 CAATCCTGAT
Statistics
Matches: 315, Mismatches: 61, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
156 5 0.02
157 132 0.42
158 164 0.52
159 14 0.04
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (157 bp):
ATTTTTACTTCCAAAATATCAAATTTTCACCATCGAGGATACTCCAACCTCATCATTTTCGAGGG
GATACTCTAACTCTGTTTTTATTTCAAAATATCAAATTTTCACCATCAGGGATACTCCAATCCCA
TCATTTTTGAAGGGATACTCCAACCCC
Found at i:6443670 original size:49 final size:49
Alignment explanation
Indices: 6443597--6443725 Score: 179
Period size: 48 Copynumber: 2.7 Consensus size: 49
6443587 TGGTAGTCGT
* * *
6443597 ACTCTTATTTTCTTTAGCAACAGTAAAAACCCGAAACTTAATAGCTGCA
1 ACTCTTATTTTCCTTAGCATCAGTAAAAACCCGAAACCTAATAGCTGCA
* *
6443646 ACTCTTATTTTCCTTAGCATCAGTAAAAA-CCTAAACCTAATAGCTGTA
1 ACTCTTATTTTCCTTAGCATCAGTAAAAACCCGAAACCTAATAGCTGCA
* * *
6443694 ACTCTTATTTTCCTTAACATTATTAAAAACCC
1 ACTCTTATTTTCCTTAGCATCAGTAAAAACCC
6443726 AAATTTGCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 42 0.59
49 29 0.41
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (49 bp):
ACTCTTATTTTCCTTAGCATCAGTAAAAACCCGAAACCTAATAGCTGCA
Found at i:6445499 original size:90 final size:90
Alignment explanation
Indices: 6445346--6445510 Score: 276
Period size: 90 Copynumber: 1.8 Consensus size: 90
6445336 TCTAATGGAG
* * *
6445346 ATCTTTGTTTGATTGCTCATTATATTAATGCCGATTGGAAGTTGAATAGCAAAATTTTGAGCTTC
1 ATCTTTGTTTGACTACTCATTATATTAATACCGATTGGAAGTTGAATAGCAAAATTTTGAGCTTC
6445411 TGTCATGTTGTATCCCTACACTTTT
66 TGTCATGTTGTATCCCTACACTTTT
* **
6445436 ATCTTTGTTTGACTACTCATTATATTGATATTGATTGGAAGTTGAATAGCAAAATTTTGAGCTTC
1 ATCTTTGTTTGACTACTCATTATATTAATACCGATTGGAAGTTGAATAGCAAAATTTTGAGCTTC
6445501 TGTCATGTTG
66 TGTCATGTTG
6445511 CACCTCCACA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (90 bp):
ATCTTTGTTTGACTACTCATTATATTAATACCGATTGGAAGTTGAATAGCAAAATTTTGAGCTTC
TGTCATGTTGTATCCCTACACTTTT
Found at i:6447675 original size:25 final size:23
Alignment explanation
Indices: 6447647--6447702 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
6447637 AGTTTGCATA
*
6447647 AAATTTAAAAATTGAAAATATATAT
1 AAATTTAAAAAGTG-AAATAT-TAT
* *
6447672 AAATTTTAATAGTGAAATATTAT
1 AAATTTAAAAAGTGAAATATTAT
*
6447695 TAATTTAA
1 AAATTTAA
6447703 GTTAATTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 9 0.35
24 6 0.23
25 11 0.42
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (23 bp):
AAATTTAAAAAGTGAAATATTAT
Found at i:6449732 original size:3 final size:3
Alignment explanation
Indices: 6449724--6449758 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
6449714 ACAAAAAATC
*
6449724 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6449759 CTTTCTGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6450578 original size:2 final size:2
Alignment explanation
Indices: 6450573--6450611 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6450563 TGACAGATTC
6450573 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6450612 ATACCCATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6456394 original size:2 final size:2
Alignment explanation
Indices: 6456387--6456411 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6456377 TTCTTTCTTC
6456387 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6456412 CACACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6458484 original size:18 final size:19
Alignment explanation
Indices: 6458449--6458486 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6458439 CTTAGATTGA
**
6458449 TGAAAAATTTAGTAATTTT
1 TGAAAAATAAAGTAATTTT
6458468 TGAAAAATAAAGT-ATTTT
1 TGAAAAATAAAGTAATTTT
6458486 T
1 T
6458487 ATTAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
TGAAAAATAAAGTAATTTT
Found at i:6462444 original size:13 final size:13
Alignment explanation
Indices: 6462426--6462450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6462416 CATAAAGTGT
6462426 TGTATCGATACAA
1 TGTATCGATACAA
6462439 TGTATCGATACA
1 TGTATCGATACA
6462451 TATTTTTTTG
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:6462448 original size:33 final size:33
Alignment explanation
Indices: 6462406--6462472 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6462396 TTCAACGATT
6462406 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
6462439 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
6462472 T
1 T
6462473 TTAAGCTACT
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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:6462531 original size:13 final size:13
Alignment explanation
Indices: 6462513--6462537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6462503 ATCACTTAAA
6462513 TGTATCGATACAT
1 TGTATCGATACAT
6462526 TGTATCGATACA
1 TGTATCGATACA
6462538 CTGATCTTTG
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:6462602 original size:52 final size:52
Alignment explanation
Indices: 6462546--6462674 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
6462536 CACTGATCTT
*
6462546 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
6462598 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
6462650 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
6462675 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:6463856 original size:22 final size:22
Alignment explanation
Indices: 6463831--6463874 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6463821 TTGTATCAAA
6463831 TCATGAGTGGTATTGATCAACG
1 TCATGAGTGGTATTGATCAACG
6463853 TCATGAGTGGTATTGATCAACG
1 TCATGAGTGGTATTGATCAACG
6463875 GGCTGTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (22 bp):
TCATGAGTGGTATTGATCAACG
Found at i:6468447 original size:26 final size:27
Alignment explanation
Indices: 6468396--6468479 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 27
6468386 TTCATTGTGG
* *
6468396 GAAAAAGCAAAGAA-AAAGAACAAAAA
1 GAAAAAGGAAAGAATGAAGAACAAAAA
*
6468422 GAAAAAGGAAAGAATGAAGAAGAAAATA
1 GAAAAAGGAAAGAATGAAGAACAAAA-A
6468450 -AAAAA-GAAA-AATG-AGAA-AATAAA
1 GAAAAAGGAAAGAATGAAGAACAA-AAA
*
6468473 GAGAAAG
1 GAAAAAG
6468480 ATATGAAATG
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
23 3 0.06
24 10 0.20
25 4 0.08
26 17 0.35
27 14 0.29
28 1 0.02
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (27 bp):
GAAAAAGGAAAGAATGAAGAACAAAAA
Found at i:6468468 original size:15 final size:14
Alignment explanation
Indices: 6468406--6468468 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
6468396 GAAAAAGCAA
*
6468406 AGAAAAAGAACAAAA
1 AGAAAAAGAA-AAAT
6468421 AGAAAAAGGAAAGAAT
1 AGAAAAA-GAAA-AAT
*
6468437 -GAAGAAG-AAAAT
1 AGAAAAAGAAAAAT
6468449 A-AAAAAGAAAAAT
1 AGAAAAAGAAAAAT
6468462 GAGAAAA
1 -AGAAAA
6468469 TAAAGAGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
12 8 0.21
13 7 0.18
14 2 0.05
15 17 0.44
16 5 0.13
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.05
Consensus pattern (14 bp):
AGAAAAAGAAAAAT
Found at i:6469033 original size:39 final size:39
Alignment explanation
Indices: 6468949--6469225 Score: 170
Period size: 39 Copynumber: 6.9 Consensus size: 39
6468939 AACAACGTTT
*
6468949 GAGTGGCTTATTCTTTATTGAAAGATCTTTTTCTTTTTTA
1 GAGTGGCTTGTTC-TTATTGAAAGATCTTTTTCTTTTTTA
* * *
6468989 AAGTGGCTTGTGTCTTATCGAAAGAT-TTTTTCTTTTTTG
1 GAGTGGCTTGT-TCTTATTGAAAGATCTTTTTCTTTTTTA
* * * *
6469028 GAGTGGCTTGTCCCCTATTGAAAGATCTTTTTTTTTTTTT
1 GAGTGGCTTGT-TCTTATTGAAAGATCTTTTTCTTTTTTA
* * * * ***
6469068 GAGTAGCTTATTCTTTATTAAAAGTTCTTTTT-TTGAGT-
1 GAGTGGCTTGTTC-TTATTGAAAGATCTTTTTCTTTTTTA
* ** * *
6469106 GACTTATTCTTTGTTTCTTATTGAAGGATCTTTTTTCTTGTTT-
1 GA-GT-GGC-TTG-TTCTTATTGAAAGATC-TTTTTCTTTTTTA
* ** *
6469149 GAAT-GCTTGTGAATTATTAAAAGATCTTTTTCTTTTTTA
1 GAGTGGCTTGT-TCTTATTGAAAGATCTTTTTCTTTTTTA
* *
6469188 -AGTGGCTTGTTTTGTATTGAATGATCTTTTTACTTTTT
1 GAGTGGCTTGTTCT-TATTGAAAGATCTTTTT-CTTTTT
6469226 GAGTAACTAG
Statistics
Matches: 182, Mismatches: 41, Indels: 28
0.73 0.16 0.11
Matches are distributed among these distances:
38 17 0.09
39 73 0.40
40 63 0.35
41 14 0.08
42 9 0.05
43 6 0.03
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (39 bp):
GAGTGGCTTGTTCTTATTGAAAGATCTTTTTCTTTTTTA
Found at i:6469758 original size:93 final size:96
Alignment explanation
Indices: 6469596--6469769 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 96
6469586 TTCATAGGAA
6469596 GCATGCTTGAAAAAATGAAAAGATTTTTGGCTAGATTCTTTCTTTTTCAAAAAGTTTTTAAAAGC
1 GCATGCTTGAAAAAATGAAAAGATTTTTGGCTAGATTCTTTCTTTTTCAAAAAGTTTTTAAAAGC
6469661 AAAACATGAAAACATTTAGATATCATGAAAG
66 AAAACATGAAAACATTTAGATATCATGAAAG
*
6469692 GCATGCTTG-AAAAATGAAAAGATTTTT-GTTAGATTCTTTC-TTTTCAAAGAA-TTTTTAAAAG
1 GCATGCTTGAAAAAATGAAAAGATTTTTGGCTAGATTCTTTCTTTTTCAAA-AAGTTTTTAAAAG
*
6469753 TAAAACATGAAAACATT
65 CAAAACATGAAAACATT
6469770 CAAATTTGGA
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
93 34 0.45
94 14 0.19
95 18 0.24
96 9 0.12
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (96 bp):
GCATGCTTGAAAAAATGAAAAGATTTTTGGCTAGATTCTTTCTTTTTCAAAAAGTTTTTAAAAGC
AAAACATGAAAACATTTAGATATCATGAAAG
Found at i:6469953 original size:26 final size:26
Alignment explanation
Indices: 6469924--6469976 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6469914 CACCTCTATT
6469924 GTGTTGATGTCAAAAAGTTCTCCTTA
1 GTGTTGATGTCAAAAAGTTCTCCTTA
6469950 GTGTTGATGTCAAAAAGTTCTCCTTA
1 GTGTTGATGTCAAAAAGTTCTCCTTA
6469976 G
1 G
6469977 GACATTCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGTTGATGTCAAAAAGTTCTCCTTA
Found at i:6470563 original size:338 final size:336
Alignment explanation
Indices: 6469950--6470755 Score: 1288
Period size: 338 Copynumber: 2.4 Consensus size: 336
6469940 GTTCTCCTTA
6469950 GTGTTGATGTCAAAAAGTTCTCCTTAGGACATTCTACGA-AAAAA-AAAGAATGAGATAAGGATA
1 GTGTTGATGTCAAAAAGTTCTCCTTAGGACATTCTACGAGAAAAAGAAAGAATGAGATAAGGATA
* *
6470013 AAAAAAAACTTAGGTATGGATAAGTATCTAGAACATATCCTAAAAGTGATCTCAAGAATGAATAA
66 AAAAAAAACTTAAGTATGGATAAGTATCTAGAACCT-TCCTAAAAGTGATCTCAAGAATGAATAA
* * *
6470078 CTAATGATATTTTCTTTTCAAAGAATTTTTAAAATTAAAACATGAAAACTTTCTAATTTGAAATT
130 CTAATGATATTTTCTTTTCAAAGAATTTTTAAAAGTAAAACATGAAAACATTCAAATTTGAAATT
* *
6470143 ATATAAATTTGAGTTTTGATAAGAGTGACAGTTTTAAGAATGCTAAAAAGGTTTTTGGATTTTCA
195 ATATAAATTTGAGTTTTGATAAGAGTGACAGTTCTAAGAATGCTAAAAAGGCTTTTGGATTTTCA
** *
6470208 TTTTCAGTATGTAAATAGTGGGTTTTTGAGAAAGAGATGCATAGATTCAAAGAATGGCCAAATAA
260 TTTTCAGTATGTAAATAGTGAATTTTTGAGAAAGAGATGCATAGATTAAAAGAATGGCCAAATAA
6470273 GCGCCTCTTATT
325 GCGCCTCTTATT
** *
6470285 GTGTTGATGTCAAAAAGTTCTTTTTAGGACATTCTACGAGAAAAAGAAAGAATGAGGTAAGGATA
1 GTGTTGATGTCAAAAAGTTCTCCTTAGGACATTCTACGAGAAAAAGAAAGAATGAGATAAGGAT-
* * *
6470350 AAAAAAAAACTTAAGTATGGATAAATATCTAGAACCTGTCCTAAAAGGGATCTCAGGAATGAATA
65 AAAAAAAAACTTAAGTATGGATAAGTATCTAGAACCT-TCCTAAAAGTGATCTCAAGAATGAATA
*
6470415 ACTAATGCTATTTTCTTTTCAAAGAATTTTTAAAAGTAAAACATGAAAACATTCAAATTT-AGAA
129 ACTAATGATATTTTCTTTTCAAAGAATTTTTAAAAGTAAAACATGAAAACATTCAAATTTGA-AA
*
6470479 TTATATAAATTTGAGTTTTGATAAGAGTGGCAGTTCTAAGAATGCTAAAAAGGCTTTTGGATTTT
193 TTATATAAATTTGAGTTTTGATAAGAGTGACAGTTCTAAGAATGCTAAAAAGGCTTTTGGATTTT
*
6470544 TATTTTCAGTATGTAAATAGTGAATTTTTGAGAAAGAGATGCATAGATTAAAAGAATGGCCAAAT
258 CATTTTCAGTATGTAAATAGTGAATTTTTGAGAAAGAGATGCATAGATTAAAAGAATGGCCAAAT
6470609 AAGCGCCTCTTATT
323 AAGCGCCTCTTATT
* * *
6470623 GTATTGATGCCAAAAAGTTCTCCTTAGAACATTCTAC--GAAAAAGAAAGAATGAGATAAGGAT-
1 GTGTTGATGTCAAAAAGTTCTCCTTAGGACATTCTACGAGAAAAAGAAAGAATGAGATAAGGATA
* *
6470685 -AAAAAAA--TAAGTATGGATAAGTATCTAGAACCTTGCCTAAAAGTGATCTCAATAATAAATAA
66 AAAAAAAACTTAAGTATGGATAAGTATCTAGAACCTT-CCTAAAAGTGATCTCAAGAATGAATAA
6470747 CTAATGATA
130 CTAATGATA
6470756 AGATGAAATT
Statistics
Matches: 434, Mismatches: 32, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
330 1 0.00
331 56 0.13
333 7 0.02
335 37 0.09
336 29 0.07
337 18 0.04
338 286 0.66
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (336 bp):
GTGTTGATGTCAAAAAGTTCTCCTTAGGACATTCTACGAGAAAAAGAAAGAATGAGATAAGGATA
AAAAAAAACTTAAGTATGGATAAGTATCTAGAACCTTCCTAAAAGTGATCTCAAGAATGAATAAC
TAATGATATTTTCTTTTCAAAGAATTTTTAAAAGTAAAACATGAAAACATTCAAATTTGAAATTA
TATAAATTTGAGTTTTGATAAGAGTGACAGTTCTAAGAATGCTAAAAAGGCTTTTGGATTTTCAT
TTTCAGTATGTAAATAGTGAATTTTTGAGAAAGAGATGCATAGATTAAAAGAATGGCCAAATAAG
CGCCTCTTATT
Found at i:6471326 original size:35 final size:35
Alignment explanation
Indices: 6471216--6471334 Score: 134
Period size: 36 Copynumber: 3.4 Consensus size: 35
6471206 TTACAAATTT
* *
6471216 AGTTTTTCA-TTTAAAGTTAAAGCTTTGATGGAGG
1 AGTTTTTCATTTTAAAGTTAAAGCTTTGGTAGAGG
*
6471250 AGTTTTTCATTTTTAAAGTTAAAG-TTTCAGTAGAGG
1 AGTTTTTCA-TTTTAAAGTTAAAGCTTT-GGTAGAGG
* * *
6471286 AGTTTTCCATTTTAAAGTTAAAGCCTTGGTCGAGG
1 AGTTTTTCATTTTAAAGTTAAAGCTTTGGTAGAGG
*
6471321 GGTTTTTTCATTTT
1 AG-TTTTTCATTTT
6471335 TAATAGATTA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
34 9 0.13
35 24 0.34
36 38 0.54
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (35 bp):
AGTTTTTCATTTTAAAGTTAAAGCTTTGGTAGAGG
Found at i:6471703 original size:50 final size:50
Alignment explanation
Indices: 6471628--6471761 Score: 196
Period size: 50 Copynumber: 2.7 Consensus size: 50
6471618 GAACTGATGT
* * * * * *
6471628 AGTTTTTCATTTTAAAGTTAAAGCCTTAGTGGAAAAAGCCTCGATGGAGG
1 AGTTTTTCATTTTAAAGTTGAAGCCTTGGTGGAAAAAGCATCAATAGAGA
*
6471678 AGTTTTTCATCTTAAAGTTGAAGCCTTGGTGGAAAAAGCATCAATAGAGA
1 AGTTTTTCATTTTAAAGTTGAAGCCTTGGTGGAAAAAGCATCAATAGAGA
*
6471728 AGTTTTACATTTTAAAGTTGAAGCCTTGGTGGAA
1 AGTTTTTCATTTTAAAGTTGAAGCCTTGGTGGAA
6471762 GAATTTTTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (50 bp):
AGTTTTTCATTTTAAAGTTGAAGCCTTGGTGGAAAAAGCATCAATAGAGA
Found at i:6471902 original size:34 final size:34
Alignment explanation
Indices: 6471819--6471903 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
6471809 ATGGAGAAGT
* *
6471819 TTTTTATTTTAAAGTTAAAATCTCGATAGAGGAG
1 TTTTTATTTTAAAGTTAAAACCTCGATAGAAGAG
*
6471853 TTTTTCCTTTT-AAGTTAAAACCTC-AGT-GAAAGAG
1 TTTTT-ATTTTAAAGTTAAAACCTCGA-TAG-AAGAG
6471887 TTTTTATTTTAAAGTTA
1 TTTTTATTTTAAAGTTA
6471904 TTGCCTTGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 6 0.14
34 33 0.77
35 4 0.09
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (34 bp):
TTTTTATTTTAAAGTTAAAACCTCGATAGAAGAG
Found at i:6471931 original size:7 final size:7
Alignment explanation
Indices: 6471919--6471944 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6471909 TTGGTGGAGG
6471919 AGTTTGA
1 AGTTTGA
6471926 AGTTTGA
1 AGTTTGA
6471933 AGTTTGA
1 AGTTTGA
6471940 AGTTT
1 AGTTT
6471945 ATGCCTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (7 bp):
AGTTTGA
Found at i:6472214 original size:23 final size:22
Alignment explanation
Indices: 6472172--6472231 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
6472162 TTTTAATTTC
*
6472172 AAGAAAATCCAAAAAA-T-AAA
1 AAGAAAATACAAAAAAGTAAAA
6472192 AAGTAAACATACAAAAAAGTAAAA
1 AAG-AAA-ATACAAAAAAGTAAAA
6472216 AAGAAAATA-AAAAAAG
1 AAGAAAATACAAAAAAG
6472232 AATAGGTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 3 0.09
21 10 0.29
22 12 0.34
23 4 0.11
24 6 0.17
ACGTcount: A:0.75, C:0.07, G:0.08, T:0.10
Consensus pattern (22 bp):
AAGAAAATACAAAAAAGTAAAA
Found at i:6484289 original size:51 final size:51
Alignment explanation
Indices: 6484133--6484467 Score: 232
Period size: 51 Copynumber: 6.4 Consensus size: 51
6484123 GAAAAAATGA
* *
6484133 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * * * *
6484185 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAATCGG
** *
6484237 GGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
** **** * *
6484288 GGTTGGAGTATCCCC---TCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT-G-GTATTTTGGA-AATAAAATCGG
* * *
6484343 GGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATT-G-G-TATTTTGGAAATAAAATCGG
* * * *
6484398 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTGGTATTTTGGAAATAAAATCGG
* *
6484449 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
6484468 GTAGAGAATT
Statistics
Matches: 219, Mismatches: 46, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 75 0.34
52 52 0.24
53 17 0.08
54 14 0.06
55 39 0.18
56 6 0.03
57 2 0.01
58 6 0.03
59 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:6484348 original size:27 final size:28
Alignment explanation
Indices: 6484285--6484360 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
6484275 GAAATAAAGT
***
6484285 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
6484313 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
6484340 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
6484361 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:6486837 original size:13 final size:13
Alignment explanation
Indices: 6486819--6486844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6486809 ACAAAGATCC
6486819 ATGTATCGATACA
1 ATGTATCGATACA
6486832 ATGTATCGATACA
1 ATGTATCGATACA
6486845 CAGAAAAATG
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:6486840 original size:33 final size:33
Alignment explanation
Indices: 6486798--6486864 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6486788 AAAATTTCCA
***
6486798 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
6486831 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
6486864 A
1 A
6486865 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:6486908 original size:19 final size:18
Alignment explanation
Indices: 6486884--6486951 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
6486874 CAGTAGCTAA
6486884 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
6486903 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
6486918 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
6486935 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
6486952 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:6486924 original size:13 final size:13
Alignment explanation
Indices: 6486906--6486930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6486896 ACAATACTTA
6486906 TGTATCGATACAT
1 TGTATCGATACAT
6486919 TGTATCGATACA
1 TGTATCGATACA
6486931 AAACTTATGT
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:6486928 original size:32 final size:32
Alignment explanation
Indices: 6486887--6486949 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6486877 TAGCTAATTA
*
6486887 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
6486919 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
6486950 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:6487013 original size:21 final size:21
Alignment explanation
Indices: 6486987--6487064 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
6486977 GTTGGGACCC
* *
6486987 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
6487008 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
6487029 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
6487050 TGTATCGATACATTC
1 TGTATCGATACATTC
6487065 GAATTTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 3 0.06
21 49 0.94
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:6494576 original size:16 final size:17
Alignment explanation
Indices: 6494557--6494589 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6494547 TAAAATCAAG
*
6494557 TAAAACAAACAA-AAAA
1 TAAAAAAAACAACAAAA
6494573 TAAAAAAAACAACAAAA
1 TAAAAAAAACAACAAAA
6494590 AGGGTCCGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (17 bp):
TAAAAAAAACAACAAAA
Found at i:6496178 original size:114 final size:113
Alignment explanation
Indices: 6496022--6496321 Score: 417
Period size: 114 Copynumber: 2.7 Consensus size: 113
6496012 CATTCCTCAC
*
6496022 CTTTT-CAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAA
1 CTTTTCCAAAGCCCACAAGTCAGTAGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAA
* *
6496086 AAGCCCACAAGTCAGTGGCACCCCTTTCAAGCCCATAAGTTAGTGGCAT
66 AAGCCCACAAGTCAGTGGCACCCCTTTCAAG-CCACAAGTCAGTGGCAT
* *
6496135 CTTTTCCAAAGCCCACAAGTCTGTAGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTAA
1 CTTTTCCAAAGCCCACAAGTCAGTAGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAA
*
6496200 AAGCCCACAAGTCAGTGGCACCCCTTTCAAGCCACAAGTCAGTGGTAT
66 AAGCCCACAAGTCAGTGGCACCCCTTTCAAGCCACAAGTCAGTGGCAT
* * * * * * * **
6496248 CTTTTCAAAAGCCCACAAGTTAGTGGCAAC-CTTCAAAAGCACACAAGTTGGT-GCAACCCTTTC
1 CTTTTCCAAAGCCCACAAGTCAGTAGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAA-CC-TTC
6496311 AAAAGCCCACA
64 AAAAGCCCACA
6496322 CAAGTTGGTG
Statistics
Matches: 167, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
111 4 0.02
112 19 0.11
113 57 0.34
114 87 0.52
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (113 bp):
CTTTTCCAAAGCCCACAAGTCAGTAGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAA
AAGCCCACAAGTCAGTGGCACCCCTTTCAAGCCACAAGTCAGTGGCAT
Found at i:6496321 original size:29 final size:29
Alignment explanation
Indices: 6496024--6496321 Score: 301
Period size: 29 Copynumber: 10.5 Consensus size: 29
6496014 TTCCTCACCT
* *
6496024 TTTC-AAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
6496052 TTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
6496081 -TTCAAAAGCCCACAAGTCAGTGGCACCCC
1 TTTCAAAAGCCCACAAGTCAGTGGCA-ACC
* * * *
6496110 TTTC--AAGCCCATAAGTTAGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
* * * * *
6496137 TTTCCAAAGCCCACAAGTCTGTAGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
6496166 TTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
6496195 TTT-AAAAGCCCACAAGTCAGTGGCACCCC
1 TTTCAAAAGCCCACAAGTCAGTGGCA-ACC
* * *
6496224 TTTC--AAG-CCACAAGTCAGTGGTATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
6496250 TTTCAAAAGCCCACAAGTTAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
* **
6496279 -TTCAAAAGCACACAAGTTGGT-GCAACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAA-CC
6496307 TTTCAAAAGCCCACA
1 TTTCAAAAGCCCACA
6496322 CAAGTTGGTG
Statistics
Matches: 230, Mismatches: 28, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.02
27 24 0.10
28 94 0.41
29 104 0.45
30 3 0.01
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (29 bp):
TTTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:6496325 original size:31 final size:29
Alignment explanation
Indices: 6496250--6496331 Score: 107
Period size: 28 Copynumber: 2.8 Consensus size: 29
6496240 AGTGGTATCT
*
6496250 TTTCAAAAGCC-CACAAGTTAGTGGCAACC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACC
6496279 -TTCAAAAG-CACACAAGTTGGTGCAACCC
1 TTTCAAAAGCCACACAAGTTGGTGCAA-CC
6496307 TTTCAAAAGCCCACACAAGTTGGTG
1 TTTCAAAAG-CCACACAAGTTGGTG
6496332 GCATCTTCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
27 5 0.11
28 20 0.43
29 8 0.17
31 14 0.30
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (29 bp):
TTTCAAAAGCCACACAAGTTGGTGCAACC
Found at i:6496403 original size:43 final size:43
Alignment explanation
Indices: 6496343--6496571 Score: 169
Period size: 43 Copynumber: 5.1 Consensus size: 43
6496333 CATCTTCTTC
* *
6496343 TAAGTTCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
6496386 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCA-C--
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
6496426 -AAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATT---G-----G-CACCTT
* * *
6496477 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-T--T
* * * *
6496526 TAAGTCCGATATCGTTGGCCTTGAATCATCATATTGGCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
6496569 TAA
1 TAA
6496572 CATTCCTAAG
Statistics
Matches: 146, Mismatches: 21, Indels: 38
0.71 0.10 0.19
Matches are distributed among these distances:
39 30 0.21
42 2 0.01
43 40 0.27
44 1 0.01
45 1 0.01
46 2 0.01
47 2 0.01
48 2 0.01
49 36 0.25
52 30 0.21
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:6496444 original size:39 final size:41
Alignment explanation
Indices: 6496349--6496462 Score: 151
Period size: 39 Copynumber: 2.8 Consensus size: 41
6496339 CTTCTAAGTT
* *
6496349 CAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TAAATC
* * *
6496392 CAATGTCGCTGGCCTTGAATTAGCACATTGGCA-C-AAATC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTAAATC
6496431 CAATATCGCTGGCCTTGAATCAGCATATTGGC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGC
6496463 GCTTTCGTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.52
42 1 0.02
43 29 0.46
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (41 bp):
CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTAAATC
Found at i:6496545 original size:49 final size:50
Alignment explanation
Indices: 6496430--6496564 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 50
6496420 TGGCACAAAT
* *
6496430 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTCGTCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC--TCGTCATCCTTAAGA
* * * *
6496482 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTTCATCCTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTCGTCATCCTTAAGA
* * *
6496531 CCGATATCGTTGGCCTTGAATCATCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
6496565 TCTTTAACAT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 40 0.56
52 32 0.44
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (50 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTCGTCATCCTTAAGA
Found at i:6496686 original size:99 final size:99
Alignment explanation
Indices: 6496429--6496692 Score: 266
Period size: 101 Copynumber: 2.6 Consensus size: 99
6496419 TTGGCACAAA
* * *
6496429 TCCAATATCGCTGGCCTTGAATCAGCATATTGGC-GCTTTCGTCATCTTTAAGACCAATGTCGCT
1 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTCG-CATCTCTAAGCCCAATGTCGCT
6496493 GGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAG
64 GGCCTTGAATCAGCACATTGGCA-CTTCATCCTTAAG
* * * **
6496530 TCCGATATCGTTGGCCTTGAATCATCATATTGGCATCTTTAACAT-TCCTAAGCCCAATGTCGCT
1 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTCGCATCT-CTAAGCCCAATGTCGCT
* ** **
6496594 GGCTTTGTCTCAGCACATTGGCA-TTC-TTTTTCAAG
64 GGCCTTGAATCAGCACATTGGCACTTCATCCTT-AAG
* * * * * *
6496629 TCTAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTCTAAGCCCAATATCGCT
1 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCGCATCTCTAAGCCCAATGTCGCT
6496693 AGCTGCATAT
Statistics
Matches: 134, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
98 3 0.02
99 54 0.40
100 4 0.03
101 69 0.51
102 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.33
Consensus pattern (99 bp):
TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCGCATCTCTAAGCCCAATGTCGCTGG
CCTTGAATCAGCACATTGGCACTTCATCCTTAAG
Found at i:6497505 original size:13 final size:13
Alignment explanation
Indices: 6497487--6497513 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6497477 CATTATTCAA
6497487 TGTATCGATACAT
1 TGTATCGATACAT
6497500 TGTATCGATACAT
1 TGTATCGATACAT
6497513 T
1 T
6497514 CATCTTTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6497512 original size:33 final size:33
Alignment explanation
Indices: 6497467--6497532 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
6497457 GCCAAGGAAA
*
6497467 TGTATCGCTACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTCA-TCAATGTATCGATACAT
**
6497500 TGTATCGATACATTCATCTTTGTATCGATACAT
1 TGTATCGATACATTCATCAATGTATCGATACAT
6497533 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTCATCAATGTATCGATACAT
Found at i:6500958 original size:17 final size:17
Alignment explanation
Indices: 6500938--6500970 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6500928 CTTTTAAATT
6500938 CTTTTAAATTTTTTAAC
1 CTTTTAAATTTTTTAAC
*
6500955 CTTTTCAATTTTTTAA
1 CTTTTAAATTTTTTAA
6500971 TTCTTTTCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (17 bp):
CTTTTAAATTTTTTAAC
Found at i:6500978 original size:18 final size:18
Alignment explanation
Indices: 6500929--6500985 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
6500919 TATTTTGTAC
* *
6500929 TTTTAAATTCTTTTAAAT
1 TTTTTAATTCTTTTCAAT
*
6500947 TTTTTAA-CCTTTTCAAT
1 TTTTTAATTCTTTTCAAT
*
6500964 TTTTTAATTCTTTTCAGT
1 TTTTTAATTCTTTTCAAT
6500982 TTTT
1 TTTT
6500986 ATGAGAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
17 15 0.45
18 18 0.55
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTAATTCTTTTCAAT
Found at i:6503978 original size:28 final size:28
Alignment explanation
Indices: 6503946--6504010 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
6503936 AGTATCATTA
* * *
6503946 AATTAAAAAATTTATGTATAAAGAGTTT
1 AATTAAAAAAATCATGTATAAAGAGATT
* * *
6503974 AATTAAAAAAATCATGTGTAACGGGATT
1 AATTAAAAAAATCATGTATAAAGAGATT
6504002 AATTAAAAA
1 AATTAAAAA
6504011 TCATATATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.32
Consensus pattern (28 bp):
AATTAAAAAAATCATGTATAAAGAGATT
Found at i:6511954 original size:2 final size:2
Alignment explanation
Indices: 6511947--6511987 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6511937 CTCGCCCAAG
6511947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6511988 AAACATTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6513150 original size:2 final size:2
Alignment explanation
Indices: 6513143--6513171 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6513133 CTTTTGTGCG
6513143 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6513172 TCCTTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6513992 original size:22 final size:22
Alignment explanation
Indices: 6513967--6514013 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
6513957 AAATCACTTC
*
6513967 TAATTGAAGAGAGACACTAGTT
1 TAATAGAAGAGAGACACTAGTT
6513989 TAATAGAAGAGAGACACTAGTT
1 TAATAGAAGAGAGACACTAGTT
6514011 TAA
1 TAA
6514014 AAAAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (22 bp):
TAATAGAAGAGAGACACTAGTT
Found at i:6516889 original size:20 final size:20
Alignment explanation
Indices: 6516852--6516889 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6516842 AAATTAGTTA
*
6516852 AAAAAAAGAAAGAGAAAAGG
1 AAAAAAAGAAAAAGAAAAGG
*
6516872 AAAAAAAGAAAAATAAAA
1 AAAAAAAGAAAAAGAAAA
6516890 TTTTATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (20 bp):
AAAAAAAGAAAAAGAAAAGG
Found at i:6517280 original size:21 final size:21
Alignment explanation
Indices: 6517254--6517301 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
6517244 AATTATAATT
6517254 TAATTTGATAGTAATT-AAAAA
1 TAATTTGATA-TAATTAAAAAA
6517275 TAATTT--TATAATTAAAAAA
1 TAATTTGATATAATTAAAAAA
*
6517294 TATTTTGA
1 TAATTTGA
6517302 GTAAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.22
19 12 0.52
21 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (21 bp):
TAATTTGATATAATTAAAAAA
Found at i:6517294 original size:19 final size:17
Alignment explanation
Indices: 6517265--6517299 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
6517255 AATTTGATAG
6517265 TAATTAAAAATAATTTTA
1 TAATTAAAAAT-ATTTTA
6517283 TAATTAAAAAATATTTT
1 TAATT-AAAAATATTTT
6517300 GAGTAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTAAAAATATTTTA
Found at i:6517343 original size:14 final size:14
Alignment explanation
Indices: 6517326--6517364 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6517316 AGAATAACAA
6517326 AAATAAATAAAAAT
1 AAATAAATAAAAAT
* *
6517340 AAATAATTAATAAT
1 AAATAAATAAAAAT
*
6517354 AGATAAATAAA
1 AAATAAATAAA
6517365 CATATTTCTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:6521396 original size:167 final size:167
Alignment explanation
Indices: 6521120--6521449 Score: 615
Period size: 167 Copynumber: 2.0 Consensus size: 167
6521110 GTATTTTGAT
*
6521120 TATGGCTTATAAAGGAAGGAACACAGTTCCCCTTATTGAGGCGCATTTTCTCGAGAAAGATAAAA
1 TATGGCTTATAAAGGAAGGAACACAGTTCCCCTTAGTGAGGCGCATTTTCTCGAGAAAGATAAAA
6521185 CTTTAAGGAACGTCTTTAGATCTCTAAATGGACAACACTTCACAATAGGCACTGTAGACACCTTA
66 CTTTAAGGAACGTCTTTAGATCTCTAAATGGACAACACTTCACAATAGGCACTGTAGACACCTTA
*
6521250 TTTTGTCCGGGCCTATTTCTAATAACTTGAGGCTGCC
131 TTTTGTCCGGGCCTATTTCCAATAACTTGAGGCTGCC
* *
6521287 TATGGCTTATAAAGTAAGGAACATAGTTCCCCTTAGTGAGGCGCATTTTCTCGAGAAAGATAAAA
1 TATGGCTTATAAAGGAAGGAACACAGTTCCCCTTAGTGAGGCGCATTTTCTCGAGAAAGATAAAA
*
6521352 CTTTAAGGAATGTCTTTAGATCTCTAAATGGACAACACTTCACAATAGGCACTGTAGACACCTTA
66 CTTTAAGGAACGTCTTTAGATCTCTAAATGGACAACACTTCACAATAGGCACTGTAGACACCTTA
6521417 TTTTGTCCGGGCCTATTTCCAATAACTTGAGGC
131 TTTTGTCCGGGCCTATTTCCAATAACTTGAGGC
6521450 CTGTCTAGTA
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
167 158 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (167 bp):
TATGGCTTATAAAGGAAGGAACACAGTTCCCCTTAGTGAGGCGCATTTTCTCGAGAAAGATAAAA
CTTTAAGGAACGTCTTTAGATCTCTAAATGGACAACACTTCACAATAGGCACTGTAGACACCTTA
TTTTGTCCGGGCCTATTTCCAATAACTTGAGGCTGCC
Found at i:6521859 original size:20 final size:20
Alignment explanation
Indices: 6521814--6521870 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
6521804 CATAAATAAA
* **
6521814 TGTATTGATACATTTACTGTT
1 TGTATTGATACA-TTATTCAT
6521835 TGTATTGATACATTATTCAT
1 TGTATTGATACATTATTCAT
6521855 TGTATTGATACATTAT
1 TGTATTGATACATTAT
6521871 GGCTTTTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (20 bp):
TGTATTGATACATTATTCAT
Found at i:6524278 original size:97 final size:98
Alignment explanation
Indices: 6524109--6524330 Score: 301
Period size: 97 Copynumber: 2.3 Consensus size: 98
6524099 GGGGAATATT
* * * *
6524109 CTAACCCTATTCTTTCGAGGAGATACTCCAACCTTGTTTTTTAAAATTATCAATATTTAAACCTT
1 CTAACCCCATTC-TTCGAGGGGATACTCCAACCTCGTTTTTTAAAATTATCAAGATTTAAACCTT
6524174 AATTTTGCTTAAATCATCATCATT-GTGGATACTC
65 AATTTTGCTTAAATCATCATCATTAG-GGATACTC
*
6524208 C-AACCCCATTCTCTCAAGGGGATACTCCAA-CTCCG-TTTTTAAAATTATCAAGATTTAAACCT
1 CTAACCCCATTCT-TCGAGGGGATACTCCAACCT-CGTTTTTTAAAATTATCAAGATTTAAACCT
*
6524270 TAATTTTGCTTAAATTATCATCATTAGGGATACTC
64 TAATTTTGCTTAAATCATCATCATTAGGGATACTC
*
6524305 CTAA-CTCATTCTTCTGAGGGGATACT
1 CTAACCCCATTCTTC-GAGGGGATACT
6524331 TCAGCCTTGC
Statistics
Matches: 110, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
96 2 0.02
97 79 0.72
98 28 0.25
99 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (98 bp):
CTAACCCCATTCTTCGAGGGGATACTCCAACCTCGTTTTTTAAAATTATCAAGATTTAAACCTTA
ATTTTGCTTAAATCATCATCATTAGGGATACTC
Found at i:6528005 original size:20 final size:20
Alignment explanation
Indices: 6527976--6528022 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
6527966 TACCCAGACA
6527976 TATCGATACATTATACAATG
1 TATCGATACATTATACAATG
* *
6527996 TATCGGTACATTATTCAATG
1 TATCGATACATTATACAATG
6528016 TATCGAT
1 TATCGAT
6528023 GCATGCAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (20 bp):
TATCGATACATTATACAATG
Found at i:6531664 original size:18 final size:18
Alignment explanation
Indices: 6531650--6531686 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6531640 GACCAAGTAT
6531650 ATCTGAACTACCAAGCAC
1 ATCTGAACTACCAAGCAC
6531668 ATCTGAACTACCAAGCAC
1 ATCTGAACTACCAAGCAC
6531686 A
1 A
6531687 ACGTCAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (18 bp):
ATCTGAACTACCAAGCAC
Found at i:6536257 original size:78 final size:78
Alignment explanation
Indices: 6536160--6536360 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 78
6536150 AATAACAGGG
* * * *
6536160 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGATTGTGAGAAATCGATGA-TTA
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTA
*
6536223 GAAAAAAAATCGGGA
64 GAAAAAAAACCGGGA
* *
6536238 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTAG
* * * *
6536303 GAATAAAGCCGGGG
65 AAAAAAAACCGGGA
* * *
6536317 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
6536361 GAAATAACGA
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
77 7 0.07
78 46 0.44
79 52 0.50
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (78 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AAAAAAACCGGGA
Found at i:6536345 original size:79 final size:78
Alignment explanation
Indices: 6536157--6536357 Score: 233
Period size: 78 Copynumber: 2.6 Consensus size: 78
6536147 GATAATAACA
* * * * * * *
6536157 GGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGATTGTGAGAAATCGATGATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATT
*
6536222 AGAAAAAAAATCG
66 AGAAAAAAAACCG
* *
6536235 GGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA--
* * * *
6536299 TTGGGAATAAAGCCG
64 TTAGAAAAAAAACCG
* *
6536314 GGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
6536358 GATGAAATAA
Statistics
Matches: 103, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
77 1 0.01
78 52 0.50
79 50 0.49
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATT
AGAAAAAAAACCG
Found at i:6536368 original size:28 final size:28
Alignment explanation
Indices: 6536312--6536388 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
6536302 GGAATAAAGC
*** *
6536312 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
6536340 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
6536368 CGAGGTTGGAGCATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
6536389 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:6536441 original size:52 final size:52
Alignment explanation
Indices: 6536372--6536710 Score: 162
Period size: 52 Copynumber: 6.4 Consensus size: 52
6536362 AAATAACGAG
* *
6536372 GTTGGAGCATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * * *
6536424 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATGAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * * *
6536477 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGAA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
6536528 GTTGGAGTATCCCC--TCG-GAAATAACGGGATTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTG-AA-AA----ATTGGTA-T-TTTTGGA-AATAAAATCGGA
6536583 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTATTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTA-TTTTTGGAAATAAAATCGGA
* * * * *
6536639 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
* *
6536690 GTTGGAATATCCTCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
6536711 GAGAATTGAT
Statistics
Matches: 211, Mismatches: 49, Indels: 54
0.67 0.16 0.17
Matches are distributed among these distances:
48 1 0.00
49 2 0.01
50 4 0.02
51 36 0.17
52 74 0.35
53 21 0.10
54 9 0.04
55 29 0.14
56 26 0.12
57 8 0.04
58 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:6536569 original size:28 final size:27
Alignment explanation
Indices: 6536529--6536598 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
6536519 AAAACCGAAG
**
6536529 TTGGAGTATCCCCTCGGAAATAACGGGA
1 TTGGAGTATCCCCGAGG-AATAACGGGA
* * *
6536557 TTGGAGTATCCCCGATGATTAACGGGG
1 TTGGAGTATCCCCGAGGAATAACGGGA
6536584 TTGGAGTATCCCCGA
1 TTGGAGTATCCCCGA
6536599 TTGTGAAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (27 bp):
TTGGAGTATCCCCGAGGAATAACGGGA
Found at i:6536611 original size:107 final size:105
Alignment explanation
Indices: 6536233--6536652 Score: 332
Period size: 107 Copynumber: 3.9 Consensus size: 105
6536223 GAAAAAAAAT
* * * * * *
6536233 CGGGATTGGAGTATCCCTTCGA-AAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA
1 CGGGATTGGAGTATCCC--CGATGAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTA
* * *
6536297 TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
64 TTTT-GGAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
* * * * *
6536340 CGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGCATCCTCGATTGTGAAAAATTGGTAT
1 CGGGATTGGAGTATCCCCGATG-AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTA-
* *
6536405 TTTTGGAAATAAAATCGGAGTTGGAGTAT-CCC-C-G-ATTAA
64 TTTTGG-AATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
* * * * ***** * * *
6536444 AGGAAAATTGGCGTTTTGAAAATGAA-ACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGT
1 CGG--GATTGGAGTATCCCCGATGAATAACGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGT
* *
6536508 GTTTTAGCG-ATAAAACCGAAGTTGGAGTATCCCCTCGGAAATAA
63 ATTTT-G-GAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
* *
6536552 CGGGATTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGT
1 CGGGATTGGAGTATCCCCGATGAATAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATT--AGT
* *
6536617 ATTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCC
63 A--TTTTGG-AATAAAACCGGAGTTGGAGTATCCCC
6536653 GATTATAGAA
Statistics
Matches: 238, Mismatches: 54, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
104 49 0.21
105 20 0.08
106 28 0.12
107 82 0.34
108 29 0.12
109 3 0.01
110 1 0.00
111 26 0.11
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (105 bp):
CGGGATTGGAGTATCCCCGATGAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATT
TTGGAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
Found at i:6536654 original size:56 final size:51
Alignment explanation
Indices: 6536587--6536715 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 51
6536577 AACGGGGTTG
* *
6536587 GAGTATCCCCGATTGTGAAGAAATTGGTGTATTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTG-AGAAATTAGTG----TTTTGAAAATAAAATCGGAGTTA
* *
6536643 GAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCGGAGTTA
* *
6536694 GAATATCCTCGATTGTGGAGAA
1 GAGTATCCCCGATTGT-GAGAA
6536716 TTGATAAACT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
51 34 0.54
52 2 0.03
53 2 0.03
54 2 0.03
55 8 0.13
56 15 0.24
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
Found at i:6539072 original size:13 final size:13
Alignment explanation
Indices: 6539054--6539092 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
6539044 ACAAAGATCC
6539054 ATGTATCGATACA
1 ATGTATCGATACA
6539067 ATGTATCGATACA
1 ATGTATCGATACA
6539080 ATGTATCGATACA
1 ATGTATCGATACA
6539093 CAGAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6539156 original size:19 final size:18
Alignment explanation
Indices: 6539132--6539195 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
6539122 CAGTAGCTAA
6539132 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
6539151 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
6539166 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
6539183 TTATGTATCGATA
1 TTATGTATCGATA
6539196 GAAATCGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:6539172 original size:13 final size:13
Alignment explanation
Indices: 6539154--6539178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6539144 ACAATACTTA
6539154 TGTATCGATACAT
1 TGTATCGATACAT
6539167 TGTATCGATACA
1 TGTATCGATACA
6539179 AAACTTATGT
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:6539176 original size:32 final size:32
Alignment explanation
Indices: 6539135--6539195 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
6539125 TAGCTAATTA
*
6539135 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
6539167 TGTATCGATACAAAACTTATGTATCGATA
1 TGTATCGATACAAAACTTATGTATCGATA
6539196 GAAATCGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:6540089 original size:55 final size:55
Alignment explanation
Indices: 6539995--6541119 Score: 1557
Period size: 55 Copynumber: 20.4 Consensus size: 55
6539985 ATAAAGTGTA
* * * * ** *
6539995 TCCTGCTCATTGAGGAGT-AAAAATGCCACAAACACGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
6540049 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
6540104 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
6540159 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
6540214 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * ***
6540269 TCCTGCTTTTTGAGGACTAGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * *
6540324 TCCTACTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
6540379 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
6540434 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
6540489 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * * *
6540544 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTTTGTGGGCTTTTAAAAAAAAATGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGC-TTT-----GAAAGGTG
* **
6540605 TCCCGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
6540659 TCCTGCTCTCTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
**
6540714 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* ***
6540768 TCCTGCTCTCTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAACAG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
**
6540823 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
6540877 TCCTGCTCTCTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
6540932 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
6540987 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
6541042 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
6541097 TCCTGCTCTTTGGGGACT-GAAAA
1 TCCTGCTCTTTGAGGACTGGAAAA
6541120 GCAGACGGAG
Statistics
Matches: 980, Mismatches: 67, Indels: 48
0.89 0.06 0.04
Matches are distributed among these distances:
53 6 0.01
54 145 0.15
55 761 0.78
56 19 0.02
59 3 0.00
60 20 0.02
61 24 0.02
62 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:6540181 original size:27 final size:27
Alignment explanation
Indices: 6540097--6540181 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
6540087 GTGGGCTTTA
6540097 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
* ** * * * *
6540124 AAA-ATG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGTGTCCTGC-TCTT-TGAGGAC-TGG
6540152 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
6540179 AAA
1 AAA
6540182 ATGCCACCAA
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.13
27 13 0.33
28 10 0.26
29 5 0.13
30 3 0.08
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (27 bp):
AAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:6540348 original size:26 final size:26
Alignment explanation
Indices: 6540319--6540404 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
6540309 GGGCTTTAAG
6540319 AGGTGTCCTACTCTTTGGGGACTGAA
1 AGGTGTCCTACTCTTTGGGGACTGAA
* *
6540345 AGGTG-CC-ACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTA-C-TCTT-TG-GGGAC-TGAA
*
6540373 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTACTCTTTGGGGACTGAA
6540400 AGGTG
1 AGGTG
6540405 CCACCAACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
24 1 0.02
25 3 0.07
26 13 0.28
27 9 0.20
28 9 0.20
29 8 0.17
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTACTCTTTGGGGACTGAA
Found at i:6540509 original size:26 final size:26
Alignment explanation
Indices: 6540480--6540569 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
6540470 GGGTGGGCTT
6540480 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
6540506 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
6540533 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
6540561 TGAAAGGTG
1 TGAAAGGTG
6540570 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 8 0.17
28 9 0.19
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:6540954 original size:27 final size:27
Alignment explanation
Indices: 6540924--6541064 Score: 74
Period size: 27 Copynumber: 5.1 Consensus size: 27
6540914 TGTGGGCTTT
6540924 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
6540951 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
6540979 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
6541006 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
6541034 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
6541061 GAAA
1 GAAA
6541065 ATGCCACCAA
Statistics
Matches: 76, Mismatches: 28, Indels: 20
0.61 0.23 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.13
27 24 0.32
28 20 0.26
29 10 0.13
30 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:6548754 original size:7 final size:7
Alignment explanation
Indices: 6548742--6548786 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
6548732 GGCATCCTCT
6548742 ATAAAAA
1 ATAAAAA
6548749 AT-AAAA
1 ATAAAAA
6548755 ATAAAAA
1 ATAAAAA
*
6548762 A-CAAAA
1 ATAAAAA
*
6548768 ATAACAA
1 ATAAAAA
6548775 ATAAAAA
1 ATAAAAA
6548782 A-AAAA
1 ATAAAA
6548787 CAACAAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
6 15 0.47
7 17 0.53
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.11
Consensus pattern (7 bp):
ATAAAAA
Found at i:6548760 original size:5 final size:6
Alignment explanation
Indices: 6548745--6548786 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
6548735 ATCCTCTATA
*
6548745 AAAAAT AAAAAT AAAAAAC AAAAAT AACAAAT AAAAA- AAAAA
1 AAAAAT AAAAAT -AAAAAT AAAAAT AA-AAAT AAAAAT AAAAA
6548787 CAACAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 5 0.16
6 16 0.50
7 11 0.34
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.10
Consensus pattern (6 bp):
AAAAAT
Found at i:6548760 original size:13 final size:13
Alignment explanation
Indices: 6548742--6548786 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
6548732 GGCATCCTCT
6548742 ATAAAAAATAAAA
1 ATAAAAAATAAAA
*
6548755 ATAAAAAACAAAA
1 ATAAAAAATAAAA
*
6548768 ATAACAAATAAAA
1 ATAAAAAATAAAA
6548781 A-AAAAA
1 ATAAAAA
6548787 CAACAAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 4 0.14
13 24 0.86
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.11
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:6548769 original size:19 final size:19
Alignment explanation
Indices: 6548744--6548786 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
6548734 CATCCTCTAT
6548744 AAAAAATAA-AAATAAAAA
1 AAAAAATAACAAATAAAAA
6548762 ACAAAAATAACAAATAAAAA
1 A-AAAAATAACAAATAAAAA
6548782 AAAAA
1 AAAAA
6548787 CAACAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.09
Consensus pattern (19 bp):
AAAAAATAACAAATAAAAA
Found at i:6548771 original size:26 final size:27
Alignment explanation
Indices: 6548742--6548793 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
6548732 GGCATCCTCT
*
6548742 ATAAAAAATAAAAATAAAA-AACAAAA
1 ATAAAAAATAAAAAAAAAACAACAAAA
*
6548768 ATAACAAATAAAAAAAAAACAACAAA
1 ATAAAAAATAAAAAAAAAACAACAAA
6548794 CAAGAAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.10
Consensus pattern (27 bp):
ATAAAAAATAAAAAAAAAACAACAAAA
Found at i:6548801 original size:18 final size:18
Alignment explanation
Indices: 6548758--6548801 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
6548748 AATAAAAATA
* *
6548758 AAAAACAAAAATAACAAAT
1 AAAAA-AAAAACAACAAAC
6548777 AAAAAAAAAACAACAAAC
1 AAAAAAAAAACAACAAAC
6548795 AAGAAAA
1 AA-AAAA
6548802 GGAGGGTCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.82, C:0.11, G:0.02, T:0.05
Consensus pattern (18 bp):
AAAAAAAAAACAACAAAC
Found at i:6550174 original size:28 final size:28
Alignment explanation
Indices: 6550134--6550205 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
6550124 TTCTCAAAGC
*
6550134 CCACTAGTCAGTGGCACCTCTTT-GAAGT
1 CCACAAGTCAGTGGCACCT-TTTCGAAGT
**
6550162 CCACAAGTCAGTGGCGTCTTTTCGAAGT
1 CCACAAGTCAGTGGCACCTTTTCGAAGT
*
6550190 CCATAA-TCAGTGGCAC
1 CCACAAGTCAGTGGCAC
6550206 TTGCTGTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 11 0.30
28 26 0.70
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (28 bp):
CCACAAGTCAGTGGCACCTTTTCGAAGT
Found at i:6550449 original size:32 final size:31
Alignment explanation
Indices: 6550398--6550563 Score: 206
Period size: 32 Copynumber: 5.2 Consensus size: 31
6550388 CAAACAAGCT
*
6550398 GTGGCAACCTTCTTCAAAGCCCACACAAGTTG
1 GTGGCAACCCT-TTCAAAGCCCACACAAGTTG
* *
6550430 GTGGCGACCCTTTCTAAAGCCCACAAAAGTTG
1 GTGGCAACCCTTTC-AAAGCCCACACAAGTTG
*
6550462 GTGGCAACCCTTTCCAAAGCCCACACAAGCTG
1 GTGGCAACCCTTT-CAAAGCCCACACAAGTTG
* * *
6550494 GTGGCAACCTTCTTCAAAGCTCACACAAGTCG
1 GTGGCAACCCT-TTCAAAGCCCACACAAGTTG
* *
6550526 GTGGCAACCTTTTCAAAAGCCCACATAAGTTG
1 GTGGCAACCCTTTC-AAAGCCCACACAAGTTG
6550558 GTGGCA
1 GTGGCA
6550564 TCTCTTTCTA
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
31 6 0.05
32 108 0.92
33 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (31 bp):
GTGGCAACCCTTTCAAAGCCCACACAAGTTG
Found at i:6550571 original size:96 final size:95
Alignment explanation
Indices: 6550382--6550563 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 95
6550372 AACCTTCTCT
* * * *
6550382 AAAGGCCAAACAAGCTGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCGACCCTTTCTAA
1 AAAGCCCAAACAAGCTGTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAA
6550447 AGCCCACAAAAGTTGGTGGCAACCCTTTCC
66 AGCCCACAAAAGTTGGTGGCAACCCTTTCC
* * *
6550477 AAAGCCCACACAAGCTGGTGGCAACCTTCTTCAAAGCTCACACAAGTCGGTGGCAACCTTTTCAA
1 AAAGCCCAAACAAGCT-GTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCAA
*
6550542 AAGCCCACATAAGTTGGTGGCA
65 AAGCCCACAAAAGTTGGTGGCA
6550564 TCTCTTTCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 14 0.18
96 64 0.82
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (95 bp):
AAAGCCCAAACAAGCTGTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAA
AGCCCACAAAAGTTGGTGGCAACCCTTTCC
Found at i:6556785 original size:20 final size:21
Alignment explanation
Indices: 6556743--6556789 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
6556733 TTCTGTAATT
* *
6556743 TGTATCGATACAATAAGTTAA
1 TGTATCGATACAATAAATGAA
*
6556764 TGTATCGATGC-ATAAATGAA
1 TGTATCGATACAATAAATGAA
6556784 TGTATC
1 TGTATC
6556790 ATTACATGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAATAAATGAA
Done.