Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 20 of 126
Found at i:6505999 original size:27 final size:27
Alignment explanation
Indices: 6505969--6506021 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
6505959 CCACTTTTTG
6505969 GTTTCATTATTTTTATTGGTTTTATAA
1 GTTTCATTATTTTTATTGGTTTTATAA
6505996 GTTTCATTATTTTTATTGGTTTTATA
1 GTTTCATTATTTTTATTGGTTTTATA
6506022 GGTAAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.04, G:0.11, T:0.64
Consensus pattern (27 bp):
GTTTCATTATTTTTATTGGTTTTATAA
Found at i:6514490 original size:74 final size:74
Alignment explanation
Indices: 6514407--6514551 Score: 281
Period size: 74 Copynumber: 2.0 Consensus size: 74
6514397 AATCTATGAT
*
6514407 CCATAATCCAAAAAAGTCAACTTTTCAATCTCCAAATTTTGAACAAGCAATTTATAAACATCCCA
1 CCATAATCCAAAAAAGTCAACTTTTCAATCTCCAAATTTTGAACAAGCAATTTATAAAAATCCCA
6514472 GATCGAGTG
66 GATCGAGTG
6514481 CCATAATCCAAAAAAGTCAACTTTTCAATCTCCAAATTTTGAACAAGCAATTTATAAAAATCCCA
1 CCATAATCCAAAAAAGTCAACTTTTCAATCTCCAAATTTTGAACAAGCAATTTATAAAAATCCCA
6514546 GATCGA
66 GATCGA
6514552 ATTTCCACTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (74 bp):
CCATAATCCAAAAAAGTCAACTTTTCAATCTCCAAATTTTGAACAAGCAATTTATAAAAATCCCA
GATCGAGTG
Found at i:6515562 original size:69 final size:69
Alignment explanation
Indices: 6515447--6515580 Score: 155
Period size: 69 Copynumber: 1.9 Consensus size: 69
6515437 CATAAATAGT
** * * * * *
6515447 AAAATTATAAATTAATGCATGATGAAACTATACTTTGATCCTT-AAAAATTTCTTTTTAATCTTT
1 AAAATTATAAATTAATAAATAATAAAACTATACTTTGATCATTAAAAAATTTATATTTAAT-TTT
6515511 TTAAA
65 TTAAA
* *
6515516 AAAATTATAAATTAATAAATAATAAAATTATATTTTGA-CATCTAAAAAATTTATATTTAATTTT
1 AAAATTATAAATTAATAAATAATAAAACTATACTTTGATCAT-TAAAAAATTTATATTTAATTTT
6515580 T
65 T
6515581 AATTTCTCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
68 2 0.04
69 37 0.69
70 15 0.28
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (69 bp):
AAAATTATAAATTAATAAATAATAAAACTATACTTTGATCATTAAAAAATTTATATTTAATTTTT
TAAA
Found at i:6522685 original size:29 final size:28
Alignment explanation
Indices: 6522634--6522702 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
6522624 TGTGGCAATT
*
6522634 AAAATAAAAACATTAAATTTAAATTTTA
1 AAAATAAAAACATTAAATTTAAATATTA
*
6522662 AAAATAGAAA-ATTATAATATTAAATATTA
1 AAAATAAAAACATTA-AAT-TTAAATATTA
6522691 AAATATTAAAAA
1 AAA-A-TAAAAA
6522703 ATACCTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.12
28 12 0.35
29 12 0.35
30 1 0.03
31 5 0.15
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (28 bp):
AAAATAAAAACATTAAATTTAAATATTA
Found at i:6522695 original size:15 final size:15
Alignment explanation
Indices: 6522631--6522700 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
6522621 TCATGTGGCA
* *
6522631 ATTAAAATA-AAAAC
1 ATTAAAATATTAAAT
6522645 ATT-AAAT-TTAAAT
1 ATTAAAATATTAAAT
* *
6522658 TTTAAAA-A-TAGAAA
1 ATTAAAATATTA-AAT
*
6522672 ATTATAATATTAAAT
1 ATTAAAATATTAAAT
6522687 ATTAAAATATTAAA
1 ATTAAAATATTAAA
6522701 AAATACCTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
13 11 0.26
14 13 0.31
15 16 0.38
16 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (15 bp):
ATTAAAATATTAAAT
Found at i:6524282 original size:7 final size:7
Alignment explanation
Indices: 6524252--6524290 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
6524242 AGGGTTTAGA
6524252 GTTTAAG
1 GTTTAAG
*
6524259 ATTTAAG
1 GTTTAAG
*
6524266 ATTTAAG
1 GTTTAAG
*
6524273 GTTTAGG
1 GTTTAAG
6524280 GTTTAAG
1 GTTTAAG
6524287 GTTT
1 GTTT
6524291 CATTATATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (7 bp):
GTTTAAG
Found at i:6524284 original size:14 final size:14
Alignment explanation
Indices: 6524244--6524290 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
6524234 GAATTTGTAG
*
6524244 GGTTTAGAGTTTAA
1 GGTTTAGGGTTTAA
* * *
6524258 GATTTAAGATTTAA
1 GGTTTAGGGTTTAA
6524272 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
6524286 GGTTT
1 GGTTT
6524291 CATTATATGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:6531518 original size:57 final size:58
Alignment explanation
Indices: 6531451--6531559 Score: 175
Period size: 58 Copynumber: 1.9 Consensus size: 58
6531441 AAATTAAACC
* * *
6531451 CAAATATTTTTAAACCCAAATATAA-TTTATTCTTAAAAAATACTCATAAACTAGACT
1 CAAAAATTTTTAAACCAAAATATAATTTTATTCTTAAAAAACACTCATAAACTAGACT
*
6531508 CAAAAATTTTTAAACCAAAATATAATTTTATTCTTAAATAACACTCATAAAC
1 CAAAAATTTTTAAACCAAAATATAATTTTATTCTTAAAAAACACTCATAAAC
6531560 AACTGCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.35
Consensus pattern (58 bp):
CAAAAATTTTTAAACCAAAATATAATTTTATTCTTAAAAAACACTCATAAACTAGACT
Found at i:6535818 original size:24 final size:25
Alignment explanation
Indices: 6535791--6535849 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
6535781 AAATTAAACA
*
6535791 TATTTTTTTACTAAAGATT-ATATT
1 TATTTTTTTACTAAAGATTGAAATT
* * *
6535815 TATTTTTATAGTAAATATTGAAATT
1 TATTTTTTTACTAAAGATTGAAATT
*
6535840 TATTATTTTA
1 TATTTTTTTA
6535850 TAATTAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (25 bp):
TATTTTTTTACTAAAGATTGAAATT
Found at i:6540328 original size:14 final size:14
Alignment explanation
Indices: 6540311--6540337 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6540301 GAATTATCCC
6540311 GATGAAACTTACAT
1 GATGAAACTTACAT
6540325 GATGAAACTTACA
1 GATGAAACTTACA
6540338 AGGATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (14 bp):
GATGAAACTTACAT
Found at i:6546324 original size:52 final size:52
Alignment explanation
Indices: 6546251--6546443 Score: 278
Period size: 52 Copynumber: 3.7 Consensus size: 52
6546241 CGTAAAGGAA
* * * *
6546251 ATTCATGTACTCACGATGACACTTAGTCATCTGACCTCATAATCCGTAAAAG
1 ATTCATATACTCACGATGACACTTAGTCATCAGACCTCATAATCCATAAAGG
* * * * **
6546303 ATTCATTTACTCATGATGACACTTAGTCATCGGACCTTATAATTTATAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCAGACCTCATAATCCATAAAGG
* *
6546355 ATTCATATACTCAAGATGACATTTAGTCATCAGACCTCATAATCCATAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCAGACCTCATAATCCATAAAGG
6546407 ATTCATATACTCACGATGACACTTAGTCATCAGACCT
1 ATTCATATACTCACGATGACACTTAGTCATCAGACCT
6546444 TTTTTCATTT
Statistics
Matches: 124, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTTAGTCATCAGACCTCATAATCCATAAAGG
Found at i:6546381 original size:104 final size:104
Alignment explanation
Indices: 6546251--6546444 Score: 307
Period size: 104 Copynumber: 1.9 Consensus size: 104
6546241 CGTAAAGGAA
* * * * *
6546251 ATTCATGTACTCACGATGACACTTAGTCATCTGACCTCATAATCCGTAAAAGATTCATTTACTCA
1 ATTCATATACTCAAGATGACACTTAGTCATCAGACCTCATAATCCATAAAAGATTCATATACTCA
* *
6546316 TGATGACACTTAGTCATCGGACCTTATAATTTATAAAGG
66 CGATGACACTTAGTCATCAGACCTTATAATTTATAAAGG
* *
6546355 ATTCATATACTCAAGATGACATTTAGTCATCAGACCTCATAATCCATAAAGGATTCATATACTCA
1 ATTCATATACTCAAGATGACACTTAGTCATCAGACCTCATAATCCATAAAAGATTCATATACTCA
6546420 CGATGACACTTAGTCATCAGACCTT
66 CGATGACACTTAGTCATCAGACCTT
6546445 TTTTCATTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
104 81 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (104 bp):
ATTCATATACTCAAGATGACACTTAGTCATCAGACCTCATAATCCATAAAAGATTCATATACTCA
CGATGACACTTAGTCATCAGACCTTATAATTTATAAAGG
Found at i:6548777 original size:17 final size:18
Alignment explanation
Indices: 6548747--6548784 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6548737 CATCAACTCA
6548747 ATTAAAATATTATA-CAT
1 ATTAAAATATTATACCAT
6548764 ATTACAAATA-TATACCAT
1 ATTA-AAATATTATACCAT
6548782 ATT
1 ATT
6548785 TTATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTAAAATATTATACCAT
Found at i:6551810 original size:13 final size:13
Alignment explanation
Indices: 6551794--6551818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6551784 AAATAATGCA
6551794 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
6551807 AAAAAAAAAAAA
1 AAAAAAAAAAAA
6551819 AGAGAGTTAA
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:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:6551810 original size:14 final size:14
Alignment explanation
Indices: 6551793--6551821 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6551783 AAAATAATGC
6551793 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
6551807 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
6551821 A
1 A
6551822 GAGTTAAGAT
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:6552486 original size:31 final size:30
Alignment explanation
Indices: 6552449--6552549 Score: 112
Period size: 30 Copynumber: 3.3 Consensus size: 30
6552439 CCTCCCAAAG
* *
6552449 TTTTTAAAATTTTTAGTTATACCCTTAAAAT
1 TTTTTAAAATTTTTA-TTAAACCCTTAAAAA
*
6552480 TTTTTAAAAATTTTAATTAAACCCTTAAAAA
1 TTTTT-AAAATTTTTATTAAACCCTTAAAAA
* * * * *
6552511 TTTTAAAAATTATTATTAAACCTTTGAAAG
1 TTTTTAAAATTTTTATTAAACCCTTAAAAA
6552541 TTTTTAAAA
1 TTTTTAAAA
6552550 ATTTCAATCA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 28 0.47
31 22 0.37
32 9 0.15
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTTTAAAATTTTTATTAAACCCTTAAAAA
Found at i:6552517 original size:30 final size:30
Alignment explanation
Indices: 6552449--6552553 Score: 122
Period size: 31 Copynumber: 3.4 Consensus size: 30
6552439 CCTCCCAAAG
* * *
6552449 TTTTTAAAATTTTTAGTTATACCCTTAAAA
1 TTTTTAAAAATTTTAATTAAACCCTTAAAA
6552479 TTTTTTAAAAATTTTAATTAAACCCTTAAAA
1 -TTTTTAAAAATTTTAATTAAACCCTTAAAA
* * *
6552510 ATTTTAAAAATTATT-ATTAAACCTTTGAAAG
1 TTTTTAAAAATT-TTAATTAAACCCTT-AAAA
6552541 TTTTTAAAAATTT
1 TTTTTAAAAATTT
6552554 CAATCAGACT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
30 22 0.34
31 43 0.66
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTTTAAAAATTTTAATTAAACCCTTAAAA
Found at i:6553684 original size:2 final size:2
Alignment explanation
Indices: 6553679--6553714 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6553669 GACACTCATA
6553679 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6553715 TTCAATCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6558468 original size:28 final size:28
Alignment explanation
Indices: 6558435--6558498 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
6558425 TAAAAATTGG
6558435 TAAAAAAAATTTGA-G-CCCTTAAAAAA
1 TAAAAAAAATTTGAGGCCCCTTAAAAAA
* *
6558461 TAAAAAAAATTTTAGGCCCCTTAAAAAT
1 TAAAAAAAATTTGAGGCCCCTTAAAAAA
6558489 TAAAAAAAAT
1 TAAAAAAAAT
6558499 AAAAAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 13 0.38
27 1 0.03
28 20 0.59
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (28 bp):
TAAAAAAAATTTGAGGCCCCTTAAAAAA
Found at i:6561836 original size:29 final size:29
Alignment explanation
Indices: 6561794--6561853 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
6561784 AAATAATTGG
6561794 TAATGGAAACAGAGGGAAACATATATATA
1 TAATGGAAACAGAGGGAAACATATATATA
6561823 TAATGGAAACAGAGGGAAACATATATATA
1 TAATGGAAACAGAGGGAAACATATATATA
6561852 TA
1 TA
6561854 TATATACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.22
Consensus pattern (29 bp):
TAATGGAAACAGAGGGAAACATATATATA
Found at i:6561874 original size:20 final size:20
Alignment explanation
Indices: 6561849--6561887 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6561839 AAACATATAT
6561849 ATATATATATACACACACAC
1 ATATATATATACACACACAC
*
6561869 ATATATATATACACGCACA
1 ATATATATATACACACACA
6561888 GAGGGAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (20 bp):
ATATATATATACACACACAC
Found at i:6566111 original size:19 final size:18
Alignment explanation
Indices: 6566077--6566113 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6566067 ATTTTTTTAA
*
6566077 AAATTTAGGTTTAATGTT
1 AAATTTAGCTTTAATGTT
6566095 AAATTTAGCTCTTAATGTT
1 AAATTTAGCT-TTAATGTT
6566114 TACATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (18 bp):
AAATTTAGCTTTAATGTT
Found at i:6568867 original size:17 final size:17
Alignment explanation
Indices: 6568845--6568877 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6568835 TATATATATA
6568845 TTTTTAGAATTTTTTAG
1 TTTTTAGAATTTTTTAG
*
6568862 TTTTTATAATTTTTTA
1 TTTTTAGAATTTTTTA
6568878 AAATATAAAG
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:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTTAGAATTTTTTAG
Found at i:6574094 original size:587 final size:587
Alignment explanation
Indices: 6572981--6574157 Score: 2275
Period size: 587 Copynumber: 2.0 Consensus size: 587
6572971 TAATTGTTCT
6572981 TGAGGTCGTGTGTTCAAACCCTTACGTATGTGAAATGAGTATATATATTTTATGGGCCATTGAAA
1 TGAGGTCGTGTGTTCAAACCCTTACGTATGTGAAATGAGTATATATATTTTATGGGCCATTGAAA
6573046 ATTGGTTTTTTTTAGTTAATATTAATTATTTAGTTTGAAGGAAAAACCAACCAGAACGTTAAGTT
66 ATTGGTTTTTTTTAGTTAATATTAATTATTTAGTTTGAAGGAAAAACCAACCAGAACGTTAAGTT
6573111 TTTCTTCTTCTTTTTTATTATTTGCAAAGTAGAGAAGAGACTAAGGTTAGAGGAGAGTAACTCAA
131 TTTCTTCTTCTTTTTTATTATTTGCAAAGTAGAGAAGAGACTAAGGTTAGAGGAGAGTAACTCAA
6573176 TCATTTTCTTTTTGCTATTTACTGATGCGATTGTTGTACAGTTGCCGTGAGTATTGTGCGTGAGT
196 TCATTTTCTTTTTGCTATTTACTGATGCGATTGTTGTACAGTTGCCGTGAGTATTGTGCGTGAGT
6573241 CATAGCGTACTAGTGTGATAATCCTGGTAAGTGGGAGAATTGTTGAATGTTAATGGTGAATAACT
261 CA-AGCGTACTAGTGTGATAATCCTGGTAAGTGGGAGAATTGTTGAATGTTAATGGTGAATAACT
*
6573306 TGAATTATTTTACTGACGTTGTTAAACTTGTTGGATTCTTGTGAATTGATTGAATATTGTGTTCA
325 TGAATTATTTTACTGACGTTGTTAAACTTGTTGGATTCTTGTGAATTGACTGAATATTGTGTTCA
* *
6573371 CGTGTGTAGTTGTGGTACTTTAGGGGATCAAAAATAGTGGGTTACATGGTTTGGGGCTACGGGCG
390 CGTGTGTAGTTGTGGTACTTTAGAGGATCAAAAATAGCGGGTTACATGGTTTGGGGCTACGGGCG
6573436 TGTGCCAGACCGTGTAGATGATAAGACTGGCAAAATTGGAAACAATGAGTTACACGGTCTTGGGC
455 TGTGCCAGACCGTGTAGATGATAAGACTGGCAAAATTGGAAACAATGAGTTACACGGTCTTGGGC
*
6573501 CACGGACGTGTGGTAGATCTTGTGGACATTTTGAGGGACAATTTCGAAAACAGTGAGTTAAACGG
520 CACGGACGTGTGGTAGATCCTGTGGACATTTTGAGGGACAATTTCGAAAACAGTGAGTTAAACGG
6573566 GTG
585 GTG
6573569 TGAGGTCGTGTGTTCAAACCCTTACGTATGTGAAATGAGTATATATATTTTATGGGCCATTGAAA
1 TGAGGTCGTGTGTTCAAACCCTTACGTATGTGAAATGAGTATATATATTTTATGGGCCATTGAAA
*
6573634 ATTGGTTTTTTTTTAGTTAATATTAATTATTTAGTTTGAAGGAAAAACCAACCAGAATGTTAAGT
66 ATTGG-TTTTTTTTAGTTAATATTAATTATTTAGTTTGAAGGAAAAACCAACCAGAACGTTAAGT
6573699 TTTTCTTCTTCTTTTTTATTATTTGCAAAGTAGAGAAGAGACTAAGGTTAGAGGAGAGTAACTCA
130 TTTTCTTCTTCTTTTTTATTATTTGCAAAGTAGAGAAGAGACTAAGGTTAGAGGAGAGTAACTCA
6573764 ATCATTTTCTTTTTGCTATTTACTGATGCGATTGTTGTACAGTTGCCGTGAGTATTGTGCGTGAG
195 ATCATTTTCTTTTTGCTATTTACTGATGCGATTGTTGTACAGTTGCCGTGAGTATTGTGCGTGAG
6573829 TC-AGCGTACTAGTGTGATAATCCTGGTAAGTGGGAGAATTGTTGAATGTTAATGGTGAATAACT
260 TCAAGCGTACTAGTGTGATAATCCTGGTAAGTGGGAGAATTGTTGAATGTTAATGGTGAATAACT
6573893 TGAATTATTTTACTGACGTTGTTAAACTTGTTGGATTCTTGTGAATTGACTGAATATTGTGTTCA
325 TGAATTATTTTACTGACGTTGTTAAACTTGTTGGATTCTTGTGAATTGACTGAATATTGTGTTCA
6573958 CGTGTGTAGTTGTGGTACTTTAGAGGATCAAAAATAGCGGGTTACATGGTTTGGGGCTACGGGCG
390 CGTGTGTAGTTGTGGTACTTTAGAGGATCAAAAATAGCGGGTTACATGGTTTGGGGCTACGGGCG
*
6574023 TGTGCCAGACCGTGTAGATGATGAGACTGGCAAAATTGGAAACAATGAGTTACACGGTCTTGGGC
455 TGTGCCAGACCGTGTAGATGATAAGACTGGCAAAATTGGAAACAATGAGTTACACGGTCTTGGGC
6574088 CACGGACGTGTGGTAGATCCTGTGGACATTTTGAGGGACAATTTCGAAAACAGTGAGTTAAACGG
520 CACGGACGTGTGGTAGATCCTGTGGACATTTTGAGGGACAATTTCGAAAACAGTGAGTTAAACGG
6574153 GTG
585 GTG
6574156 TG
1 TG
6574158 GGCCAGACTG
Statistics
Matches: 582, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
587 322 0.55
588 70 0.12
589 190 0.33
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (587 bp):
TGAGGTCGTGTGTTCAAACCCTTACGTATGTGAAATGAGTATATATATTTTATGGGCCATTGAAA
ATTGGTTTTTTTTAGTTAATATTAATTATTTAGTTTGAAGGAAAAACCAACCAGAACGTTAAGTT
TTTCTTCTTCTTTTTTATTATTTGCAAAGTAGAGAAGAGACTAAGGTTAGAGGAGAGTAACTCAA
TCATTTTCTTTTTGCTATTTACTGATGCGATTGTTGTACAGTTGCCGTGAGTATTGTGCGTGAGT
CAAGCGTACTAGTGTGATAATCCTGGTAAGTGGGAGAATTGTTGAATGTTAATGGTGAATAACTT
GAATTATTTTACTGACGTTGTTAAACTTGTTGGATTCTTGTGAATTGACTGAATATTGTGTTCAC
GTGTGTAGTTGTGGTACTTTAGAGGATCAAAAATAGCGGGTTACATGGTTTGGGGCTACGGGCGT
GTGCCAGACCGTGTAGATGATAAGACTGGCAAAATTGGAAACAATGAGTTACACGGTCTTGGGCC
ACGGACGTGTGGTAGATCCTGTGGACATTTTGAGGGACAATTTCGAAAACAGTGAGTTAAACGGG
TG
Found at i:6576227 original size:24 final size:24
Alignment explanation
Indices: 6576186--6576398 Score: 264
Period size: 24 Copynumber: 8.9 Consensus size: 24
6576176 GCTCAGTACA
* * * * *
6576186 TTTACGCTTGTCATCTAAGATATG
1 TTTACGCTCGCCAGCTAATATACG
*
6576210 TTTACGCTCGCCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACG
*
6576234 TTTATGCTCGCCAGCTAATATACG
1 TTTACGCTCGCCAGCTAATATACG
* *
6576258 TTTACGCTCGCCAGCTGATATGCG
1 TTTACGCTCGCCAGCTAATATACG
* *
6576282 TTTGCGCTCGCCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACG
* *
6576306 TTTACGCTCGTCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACG
*
6576330 TTTATGCTCGCCAGCTAATATACG
1 TTTACGCTCGCCAGCTAATATACG
* *
6576354 TTTACGCTCGTCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACG
* *
6576378 TTTACGCTCACCAACTAATAT
1 TTTACGCTCGCCAGCTAATAT
6576399 GAGAAACATT
Statistics
Matches: 165, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 165 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (24 bp):
TTTACGCTCGCCAGCTAATATACG
Found at i:6576280 original size:48 final size:48
Alignment explanation
Indices: 6576186--6576398 Score: 300
Period size: 48 Copynumber: 4.4 Consensus size: 48
6576176 GCTCAGTACA
* * * * *
6576186 TTTACGCTTGTCATCTAAGATATGTTTACGCTCGCCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTAATATGCG
* *
6576234 TTTATGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTGATATGCG
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTAATATGCG
* * *
6576282 TTTGCGCTCGCCAGCTAATATGCGTTTACGCTCGTCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTAATATGCG
* *
6576330 TTTATGCTCGCCAGCTAATATACGTTTACGCTCGTCAGCTAATATGCG
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTAATATGCG
* *
6576378 TTTACGCTCACCAACTAATAT
1 TTTACGCTCGCCAGCTAATAT
6576399 GAGAAACATT
Statistics
Matches: 147, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 147 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (48 bp):
TTTACGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTAATATGCG
Found at i:6576399 original size:24 final size:24
Alignment explanation
Indices: 6576209--6576399 Score: 292
Period size: 24 Copynumber: 8.0 Consensus size: 24
6576199 TCTAAGATAT
6576209 GTTTACGCTCGCCAGCTAATATGC
1 GTTTACGCTCGCCAGCTAATATGC
* *
6576233 GTTTATGCTCGCCAGCTAATATAC
1 GTTTACGCTCGCCAGCTAATATGC
*
6576257 GTTTACGCTCGCCAGCTGATATGC
1 GTTTACGCTCGCCAGCTAATATGC
*
6576281 GTTTGCGCTCGCCAGCTAATATGC
1 GTTTACGCTCGCCAGCTAATATGC
*
6576305 GTTTACGCTCGTCAGCTAATATGC
1 GTTTACGCTCGCCAGCTAATATGC
* *
6576329 GTTTATGCTCGCCAGCTAATATAC
1 GTTTACGCTCGCCAGCTAATATGC
*
6576353 GTTTACGCTCGTCAGCTAATATGC
1 GTTTACGCTCGCCAGCTAATATGC
* *
6576377 GTTTACGCTCACCAACTAATATG
1 GTTTACGCTCGCCAGCTAATATG
6576400 AGAAACATTG
Statistics
Matches: 149, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 149 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (24 bp):
GTTTACGCTCGCCAGCTAATATGC
Found at i:6576399 original size:72 final size:72
Alignment explanation
Indices: 6576186--6576399 Score: 293
Period size: 72 Copynumber: 3.0 Consensus size: 72
6576176 GCTCAGTACA
* * * * * *
6576186 TTTACGCTTGTCATCTAAGATATGTTTACGCTCGCCAGCTAATATGCGTTTATGCTCGCCAGCTA
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTAATATGCGTTTACGCTCGCCAGCTA
*
6576251 ATATACG
66 ATATGCG
* * * *
6576258 TTTACGCTCGCCAGCTGATATGCGTTTGCGCTCGCCAGCTAATATGCGTTTACGCTCGTCAGCTA
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTAATATGCGTTTACGCTCGCCAGCTA
6576323 ATATGCG
66 ATATGCG
* * * *
6576330 TTTATGCTCGCCAGCTAATATACGTTTACGCTCGTCAGCTAATATGCGTTTACGCTCACCAACTA
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTAATATGCGTTTACGCTCGCCAGCTA
6576395 ATATG
66 ATATG
6576400 AGAAACATTG
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 123 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (72 bp):
TTTACGCTCGCCAGCTAATATACGTTTACGCTCGCCAGCTAATATGCGTTTACGCTCGCCAGCTA
ATATGCG
Found at i:6577423 original size:20 final size:21
Alignment explanation
Indices: 6577398--6577436 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6577388 TTTCATAGTT
*
6577398 TCAAAA-TCTAACAATTTCTA
1 TCAAAACTCAAACAATTTCTA
6577418 TCAAAACTCAAACAATTTC
1 TCAAAACTCAAACAATTTC
6577437 ACTCTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (21 bp):
TCAAAACTCAAACAATTTCTA
Found at i:6580556 original size:17 final size:18
Alignment explanation
Indices: 6580530--6580563 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6580520 TTAAAAAAAG
*
6580530 GGTTTCAATCT-TTTCTT
1 GGTTTAAATCTGTTTCTT
6580547 GGTTTAAATCTGTTTCT
1 GGTTTAAATCTGTTTCT
6580564 CCTTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (18 bp):
GGTTTAAATCTGTTTCTT
Found at i:6580979 original size:20 final size:20
Alignment explanation
Indices: 6580956--6580993 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6580946 TAAAGATAGT
6580956 TATTCAATACAGTAAGAAGC
1 TATTCAATACAGTAAGAAGC
6580976 TATTCAATACAGTAAGAA
1 TATTCAATACAGTAAGAA
6580994 AAAAAAAGTA
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:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
TATTCAATACAGTAAGAAGC
Found at i:6581657 original size:17 final size:16
Alignment explanation
Indices: 6581635--6581703 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
6581625 TATTTTTATT
6581635 ATTTAATTTAAAAATAA
1 ATTTAATTT-AAAATAA
*
6581652 ATTTAATTTTAAGATAA
1 ATTTAA-TTTAAAATAA
* * * *
6581669 ATCTAAACTCAAAATGA
1 AT-TTAATTTAAAATAA
6581686 ATTTGAATTTAAAATAA
1 ATTT-AATTTAAAATAA
6581703 A
1 A
6581704 CTCAAATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
16 1 0.03
17 32 0.82
18 6 0.15
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTTAATTTAAAATAA
Found at i:6585407 original size:24 final size:24
Alignment explanation
Indices: 6585380--6585558 Score: 205
Period size: 24 Copynumber: 7.5 Consensus size: 24
6585370 TTATGCTTGT
* *
6585380 CAGCTAAGATACGTTTACGCTCGC
1 CAGCTAATATGCGTTTACGCTCGC
* *
6585404 CAGCTAATATGCGTTTATGCTCAC
1 CAGCTAATATGCGTTTACGCTCGC
* *
6585428 CAGCTAATATACGTTTACGCTCGT
1 CAGCTAATATGCGTTTACGCTCGC
* *
6585452 AAGCTAATATGCATTTACGCTCGC
1 CAGCTAATATGCGTTTACGCTCGC
* * * **
6585476 CAACTAATATGTGTTTATGCTTAC
1 CAGCTAATATGCGTTTACGCTCGC
* * *
6585500 CAACTAATATACGTTTACGCTCGT
1 CAGCTAATATGCGTTTACGCTCGC
*
6585524 CAGCTAATATGCGTTTATGCTCGC
1 CAGCTAATATGCGTTTACGCTCGC
6585548 CAGCTAATATG
1 CAGCTAATATG
6585559 AGAAACATTA
Statistics
Matches: 126, Mismatches: 29, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 126 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (24 bp):
CAGCTAATATGCGTTTACGCTCGC
Found at i:6585507 original size:72 final size:72
Alignment explanation
Indices: 6585393--6585558 Score: 269
Period size: 72 Copynumber: 2.3 Consensus size: 72
6585383 CTAAGATACG
*
6585393 TTTACGCTCGCCAGCTAATATGCGTTTATGCTCACCAGCTAATATACGTTTACGCTCGTAAGCTA
1 TTTACGCTCGCCAGCTAATATGCGTTTATGCTCACCAACTAATATACGTTTACGCTCGTAAGCTA
6585458 ATATGCA
66 ATATGCA
* * * *
6585465 TTTACGCTCGCCAACTAATATGTGTTTATGCTTACCAACTAATATACGTTTACGCTCGTCAGCTA
1 TTTACGCTCGCCAGCTAATATGCGTTTATGCTCACCAACTAATATACGTTTACGCTCGTAAGCTA
*
6585530 ATATGCG
66 ATATGCA
*
6585537 TTTATGCTCGCCAGCTAATATG
1 TTTACGCTCGCCAGCTAATATG
6585559 AGAAACATTA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 86 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (72 bp):
TTTACGCTCGCCAGCTAATATGCGTTTATGCTCACCAACTAATATACGTTTACGCTCGTAAGCTA
ATATGCA
Found at i:6586553 original size:20 final size:21
Alignment explanation
Indices: 6586528--6586566 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6586518 TTTCATAGTT
*
6586528 TCAAAA-TCTAACAATTTCTA
1 TCAAAACTCAAACAATTTCTA
6586548 TCAAAACTCAAACAATTTC
1 TCAAAACTCAAACAATTTC
6586567 ACTCTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (21 bp):
TCAAAACTCAAACAATTTCTA
Found at i:6587363 original size:66 final size:65
Alignment explanation
Indices: 6587258--6587390 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 65
6587248 CAACATATAA
6587258 TTTATATAAAAAATACTAAGGGCCCATGGGCATGAAAGTTTATATAAATATACAATATCTAGAAC
1 TTTATATAAAAAATACTAAGGGCCCATGGGCATGAAAGTTTATATAAATATACAATATCTAGAAC
* *
6587323 TTTATATAAAAAAATACTAAGGGCCTATGGGCATGAAAGTTTATATAAATATACAATATTTAGAA
1 TTTATAT-AAAAAATACTAAGGGCCCATGGGCATGAAAGTTTATATAAATATACAATATCTAGAA
6587388 C
65 C
6587389 TT
1 TT
6587391 CATTATAAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 7 0.11
66 58 0.89
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (65 bp):
TTTATATAAAAAATACTAAGGGCCCATGGGCATGAAAGTTTATATAAATATACAATATCTAGAAC
Found at i:6600315 original size:31 final size:31
Alignment explanation
Indices: 6600279--6600343 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
6600269 CCGTTGTGTT
* * **
6600279 ATTCATCTTTTTCATTAAACCCGAACTTCTA
1 ATTCATATTTTTCAATAAACAAGAACTTCTA
*
6600310 ATTCATATTTTTCAATAAACAAGAACTTTTA
1 ATTCATATTTTTCAATAAACAAGAACTTCTA
6600341 ATT
1 ATT
6600344 TATTTCATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.43
Consensus pattern (31 bp):
ATTCATATTTTTCAATAAACAAGAACTTCTA
Found at i:6605224 original size:96 final size:96
Alignment explanation
Indices: 6605057--6605235 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
6605047 AACAACTTCA
* * *
6605057 GCTTCAGAGACAGCGGCCTTAGCAGAACCATTAACTAAACCATCTCCACTGCAATCACCATTAAC
1 GCTTCAGAGACAGCGGCCTTAGCACAACCATTAACTAAACCATCTCCACTGAAATCACCATCAAC
6605122 AACTACAGCCACTTCAGATTCCTCAACATTG
66 AACTACAGCCACTTCAGATTCCTCAACATTG
* * * ** ** *
6605153 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGTTGAAATCACCATCAGC
1 GCTTCAGAGACAGCGGCCTTAGCACAACCATTAACTAAACCATCTCCACTGAAATCACCATCAAC
* * *
6605218 AGCTACAGTCATTTCAGA
66 AACTACAGCCACTTCAGA
6605236 GCCCTCTTTC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (96 bp):
GCTTCAGAGACAGCGGCCTTAGCACAACCATTAACTAAACCATCTCCACTGAAATCACCATCAAC
AACTACAGCCACTTCAGATTCCTCAACATTG
Found at i:6605368 original size:120 final size:120
Alignment explanation
Indices: 6605146--6606096 Score: 1057
Period size: 120 Copynumber: 7.9 Consensus size: 120
6605136 CAGATTCCTC
* * * *
6605146 AACATTGGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGTTGAAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * *
6605211 CATCAGCAGCTACAGTCATTTCAGAGCCCTCTTTCTCTTTAGACCTGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * *
6605266 AAAATTAGTTTCAGAGACAGTGGCGTTTGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* ** * * * *
6605331 CATCAGCAGCTACAGAAACTCCAGAGCCCTCTTTCTCTTCTGACCTGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * * *
6605386 AACATTGGCTTCAGAGACAGTGGTCTCAGCACTATCATTAGATAAACCATTTGCATTACAATCGC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* *
6605451 CATCATCAGCTACAGCCATTTCAGAGCCCGCATTCTCTTTTGACCTGGAACCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
** * * ** *
6605506 AACGCTGGCTTCAGAGACTGTGGCCTTAGCACTATCATTAGCTAAACTGTCTCCTTTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * **
6605571 CATCATCAGCTACAACTATTTCACAGCGCTCATTCTCTTTTGACCTGGAATTGAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
** * ** *
6605626 AACGCTGGCTTCAGAGACAGTGGCCTTATTATTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * *
6605691 CATCATCAGCTACAGCCATTTCAAAGCCCTCATTATCTTTTGACTTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * * *
6605746 AACATTAGCTTCAGAAACAGTAGCCTCAACACTGTCATT-GACAAAACCATCTCCATTGAAATCT
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAG-CTAAACCATCTCCATTGCAATCA
* * *
6605810 CCATCACCAGCTACAGCCATTTCAGAGCCC-CGATTCTCTTTTGACCTGAAATCGAGT
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTC-ATTCTCTTTTGACCTGGAATC-AAT
** * * * * * *
6605867 -TTATTAGCTTCAGAAACAGGGGCCTCAACACTATCATTAACTAAACCATCTCCACTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * * *
6605931 CATCATCAGCTACTGTCATTTCGGAGCCCTCACTCTCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * *
6605986 AACATCAGCTTCAGAAACAG-GGGCTTCAACACTATCATTAACTAAACCATCTCCACTGCAATCA
1 AACATTAGCTTCAGAGACAGTGGCCTT-AGCACTATCATTAGCTAAACCATCTCCATTGCAATCA
*
6606050 CCATCATCAGCTACAGCTATTTCAGAGCCCTCATTCT-TTTCTGACCT
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTT-TGACCT
6606097 AAAATCAAGA
Statistics
Matches: 704, Mismatches: 119, Indels: 16
0.84 0.14 0.02
Matches are distributed among these distances:
119 10 0.01
120 692 0.98
121 2 0.00
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (120 bp):
AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
Found at i:6607881 original size:5 final size:5
Alignment explanation
Indices: 6607871--6607906 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
6607861 CGCATAGCTC
6607871 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
6607907 AAGTCCGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:6610036 original size:36 final size:37
Alignment explanation
Indices: 6609973--6610045 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
6609963 AATAACTGAC
* *
6609973 TTTTCAAATATTTGAAATTTAATATTTTTAT-TTTTA
1 TTTTCAAACATTTGAAATTTAATATTTTCATATTTTA
*
6610009 TTTTCAAACATTT-AAATTTCATAATTTTCATATTTTA
1 TTTTCAAACATTTGAAATTTAAT-ATTTTCATATTTTA
6610046 AAATCCAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 8 0.25
36 19 0.59
37 5 0.16
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (37 bp):
TTTTCAAACATTTGAAATTTAATATTTTCATATTTTA
Found at i:6613317 original size:19 final size:20
Alignment explanation
Indices: 6613293--6613344 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
6613283 ATTAGTTAAA
6613293 ATTATTAAAATAAAAT-GTT
1 ATTATTAAAATAAAATAGTT
*
6613312 ATTATTAAGAATTAAAATATTT
1 ATTATTAA-AA-TAAAATAGTT
*
6613334 ATTATAAAAAT
1 ATTATTAAAAT
6613345 TAATTAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 8 0.29
20 3 0.11
21 8 0.29
22 9 0.32
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
ATTATTAAAATAAAATAGTT
Found at i:6613329 original size:21 final size:21
Alignment explanation
Indices: 6613293--6613347 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
6613283 ATTAGTTAAA
6613293 ATTATTAAAA-TAAAAT-GTT
1 ATTATTAAAATTAAAATAGTT
*
6613312 ATTATTAAGAATTAAAATATTT
1 ATTATTAA-AATTAAAATAGTT
*
6613334 ATTATAAAAATTAA
1 ATTATTAAAATTAA
6613348 TTAATGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.26
20 2 0.06
21 12 0.39
22 9 0.29
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
ATTATTAAAATTAAAATAGTT
Found at i:6613349 original size:25 final size:23
Alignment explanation
Indices: 6613321--6613377 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
6613311 TATTATTAAG
6613321 AATTAAAATATTTATTATAAAAATT
1 AATTAAAATATTT-TTA-AAAAATT
*
6613346 AATTAATGAATATTTTTAAAAATTT
1 AATTAA--AATATTTTTAAAAAATT
*
6613371 AAATAAA
1 AATTAAA
6613378 TAATTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 1 0.04
25 17 0.61
26 3 0.11
27 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTAAAATATTTTTAAAAAATT
Found at i:6614797 original size:27 final size:28
Alignment explanation
Indices: 6614767--6614828 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
6614757 ATTAATAACG
*
6614767 ATAAAATTATATTTTAA-TTTAAAAATA
1 ATAAAATTATAATTTAATTTTAAAAATA
*
6614794 ATAAAATTTTAATTTAATTTTTTAAAAATA
1 ATAAAATTATAATTTAA--TTTTAAAAATA
6614824 ATAAA
1 ATAAA
6614829 CATATAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 15 0.50
30 15 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATAAAATTATAATTTAATTTTAAAAATA
Found at i:6615404 original size:37 final size:37
Alignment explanation
Indices: 6615355--6615428 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
6615345 AAACACTGAC
* *
6615355 ATAAATATAATAAATGTTTTATTATATTAAAAATAAA
1 ATAAATAAAATAAATATTTTATTATATTAAAAATAAA
* *
6615392 ATAAATAAAATAAATATTTTATTGTATTAAATATAAA
1 ATAAATAAAATAAATATTTTATTATATTAAAAATAAA
6615429 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (37 bp):
ATAAATAAAATAAATATTTTATTATATTAAAAATAAA
Found at i:6615583 original size:167 final size:170
Alignment explanation
Indices: 6615374--6615740 Score: 480
Period size: 170 Copynumber: 2.2 Consensus size: 170
6615364 ATAAATGTTT
* * *
6615374 TATTATATTAAAAATAAAATAAATAAAATAAATATTTTATTGTATTAAATATAAATTTTAAAATT
1 TATTATATTAAAAATATAATAAATATAATAAATAATTTATTGTATTAAATATAAATTTTAAAATT
* * * * *
6615439 TTATATTTTGGGTT-GGATTA-TTAGTTGGGT-AAGTT-TTTTGAGTCTTGAGGAAT-GAGTTTA
66 TTATATTTTGGATTAAG-TTATTTAGTTAGGTAAAGTTATTTTAAGTCTTGAGCAATGGA-TTTA
** *
6615499 ATTGTTATTGGTTTAATGATGTAATATAAATATAA-ATATATA
129 ATTGTTATTGAATTAATGATGTAACATAAATA-AATATATATA
6615541 -ATTATATTAAAAATATGAATAAATATAATAAATAATTTATTGTATTAAATATAAATTTTAAAAT
1 TATTATATTAAAAATAT-AATAAATATAATAAATAATTTATTGTATTAAATATAAATTTTAAAAT
* *
6615605 TTTATATTTTGGATTAAGTTATTTTGTTAGGTAAATTTATTTTAAGTCTTGAGCAATGGATTTAA
65 TTTATATTTTGGATTAAGTTATTTAGTTAGGTAAAGTTATTTTAAGTCTTGAGCAATGGATTTAA
* *
6615670 TTGTTATTGAATTAATGATTTAACATATATAAATATATATA
130 TTGTTATTGAATTAATGATGTAACATAAATAAATATATATA
* *
6615711 TATTAT-TTAACATATATAATTAATATAATA
1 TATTATATTAA-AAATATAATAAATATAATA
6615741 TTGATTTATA
Statistics
Matches: 174, Mismatches: 17, Indels: 15
0.84 0.08 0.07
Matches are distributed among these distances:
166 15 0.09
167 62 0.36
168 9 0.05
169 6 0.03
170 70 0.40
171 12 0.07
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (170 bp):
TATTATATTAAAAATATAATAAATATAATAAATAATTTATTGTATTAAATATAAATTTTAAAATT
TTATATTTTGGATTAAGTTATTTAGTTAGGTAAAGTTATTTTAAGTCTTGAGCAATGGATTTAAT
TGTTATTGAATTAATGATGTAACATAAATAAATATATATA
Found at i:6615727 original size:28 final size:29
Alignment explanation
Indices: 6615685--6615748 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
6615675 ATTGAATTAA
6615685 TGATTTAACATATATAAAT-ATATATATAT
1 TGATTTAACATATATAAATAATATA-ATAT
*
6615714 T-ATTTAACATATATAATTAATATAATAT
1 TGATTTAACATATATAAATAATATAATAT
6615742 TGATTTA
1 TGATTTA
6615749 TAACATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (29 bp):
TGATTTAACATATATAAATAATATAATAT
Found at i:6625884 original size:18 final size:18
Alignment explanation
Indices: 6625861--6625895 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6625851 TATTTTAAAA
*
6625861 ATTAAAAAAATATAAATT
1 ATTAAAAAAATAAAAATT
*
6625879 ATTAAAATAATAAAAAT
1 ATTAAAAAAATAAAAAT
6625896 AAAAATATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAAAAAAATAAAAATT
Found at i:6626929 original size:26 final size:24
Alignment explanation
Indices: 6626902--6626956 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 24
6626892 TTAATTTCTT
6626902 TTTTAATATTTATATTTTATTTTA
1 TTTTAATATTTATATTTTATTTTA
* *
6626926 TTTTAATATTTAATAATTTTATATAA
1 TTTTAATATTT-AT-ATTTTATTTTA
6626952 TTTTA
1 TTTTA
6626957 TTTATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 11 0.41
25 2 0.07
26 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAATATTTATATTTTATTTTA
Found at i:6626965 original size:13 final size:12
Alignment explanation
Indices: 6626908--6626972 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 12
6626898 TCTTTTTTAA
6626908 TATTTAT-ATTT
1 TATTTATAATTT
*
6626919 TATTT-TATTTT
1 TATTTATAATTT
6626930 AATATTTAATAATTT
1 --TATTT-ATAATTT
6626945 TA--TATAATTT
1 TATTTATAATTT
6626955 TATTTATTAATTT
1 TATTTA-TAATTT
6626968 T-TTTA
1 TATTTA
6626973 AATCATCATC
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
10 10 0.23
11 9 0.20
12 6 0.14
13 14 0.32
15 5 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTATAATTT
Found at i:6629309 original size:24 final size:24
Alignment explanation
Indices: 6629277--6629371 Score: 154
Period size: 24 Copynumber: 4.0 Consensus size: 24
6629267 CCGTACAACC
6629277 GCAAGGTAATCCGAAGGTTGAACT
1 GCAAGGTAATCCGAAGGTTGAACT
6629301 GCAAGGTAATCCGAAGGTTGAACT
1 GCAAGGTAATCCGAAGGTTGAACT
* *
6629325 GCAAGGTCATCCGGAGGTTGAACT
1 GCAAGGTAATCCGAAGGTTGAACT
* *
6629349 GCAAGGTCATCCGGAGGTTGAAC
1 GCAAGGTAATCCGAAGGTTGAAC
6629372 CAAAGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.29, C:0.19, G:0.32, T:0.20
Consensus pattern (24 bp):
GCAAGGTAATCCGAAGGTTGAACT
Found at i:6632020 original size:32 final size:34
Alignment explanation
Indices: 6631972--6632034 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
6631962 AGAGTGAATT
6631972 AAAACAAAAATGATAATTCA-AGTACTAAATTGAG
1 AAAACAAAAATGATAATTCAGAG-ACTAAATTGAG
*
6632006 AAAA-AAAAAT-ATAATTTAGAGACTAAATT
1 AAAACAAAAATGATAATTCAGAGACTAAATT
6632035 TTAATTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 15 0.56
33 8 0.30
34 4 0.15
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.25
Consensus pattern (34 bp):
AAAACAAAAATGATAATTCAGAGACTAAATTGAG
Found at i:6634359 original size:3 final size:3
Alignment explanation
Indices: 6634351--6634380 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6634341 TTGCAGACAG
6634351 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
6634381 GTACAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:6637760 original size:29 final size:30
Alignment explanation
Indices: 6637715--6637794 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
6637705 GAATTGAATC
* *
6637715 AAATTAAAATTTCATGTATATAATTACACA-
1 AAATCAAAATTT-ATGTATACAATTACACAT
*
6637745 AAATCAAAATTTATGTATACAATTGCACATT
1 AAATCAAAATTTATGTATACAATTACACA-T
* *
6637776 AAATCATAATTCATGTATA
1 AAATCAAAATTTATGTATA
6637795 GTTTTGATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 15 0.35
30 11 0.26
31 17 0.40
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.36
Consensus pattern (30 bp):
AAATCAAAATTTATGTATACAATTACACAT
Found at i:6637792 original size:31 final size:29
Alignment explanation
Indices: 6637715--6637794 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
6637705 GAATTGAATC
* *
6637715 AAATTAAAATTTCATGTATATAATTACACA
1 AAATCAAAA-TTCATGTATACAATTACACA
* *
6637745 AAATCAAAATTTATGTATACAATTGCACA
1 AAATCAAAATTCATGTATACAATTACACA
*
6637774 TTAAATCATAATTCATGTATA
1 --AAATCAAAATTCATGTATA
6637795 GTTTTGATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 17 0.40
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATCAAAATTCATGTATACAATTACACA
Found at i:6641229 original size:28 final size:29
Alignment explanation
Indices: 6641177--6641245 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
6641167 TTTTTAAATA
6641177 TTAAAAATTCAAAAATATATAAAAACTATT
1 TTAAAAATT-AAAAATATATAAAAACTATT
*
6641207 TTAAAAATTAAAAATCAT-T-AAAATTATT
1 TTAAAAATTAAAAAT-ATATAAAAACTATT
6641235 TTAAAAATTAA
1 TTAAAAATTAA
6641246 TTAAATATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 19 0.51
29 7 0.19
30 11 0.30
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (29 bp):
TTAAAAATTAAAAATATATAAAAACTATT
Found at i:6642967 original size:25 final size:25
Alignment explanation
Indices: 6642921--6642968 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
6642911 TTGAATTTTT
*
6642921 TTTTCAATTAAATTACTTTTTTATC
1 TTTTCAATTAAATTACTATTTTATC
*
6642946 TTTTC-ATTAAATCTTCTATTTTA
1 TTTTCAATTAAAT-TACTATTTTA
6642969 CAACGTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTCAATTAAATTACTATTTTATC
Found at i:6643854 original size:112 final size:112
Alignment explanation
Indices: 6643636--6643864 Score: 317
Period size: 112 Copynumber: 2.1 Consensus size: 112
6643626 CTTTTTCACT
*
6643636 TATTTTT-CTTTTTGGTTTGCATGTTGTTATTTCATTAAGCACGAAAAAGATTTAAAATAAAATT
1 TATTTTTACTTTTTGGTATGCATGTTGTTATTTCATTAAGCACGAAAAAGATTTAAAATAAAATT
** * *
6643700 TTTGAATTTTTTTTTCTGAAAATTAGAAACCAGAATTGAAAAAATTG
66 CCTGAATTTTTTGTTCTGAAAATTAGAAACCAGAATTAAAAAAATTG
*
6643747 TATCTTTTACTTTTTGGTATGCATGTTGTTATTT-ATTAAGCAGGAAAATA-ATTTAAAATAAAA
1 TAT-TTTTACTTTTTGGTATGCATGTTGTTATTTCATTAAGCACGAAAA-AGATTTAAAATAAAA
*
6643810 TTCCTG-ATTTTTTGTT-TG-AAATTCAGAAATCAGAATTAAAAAAAATTG
64 TTCCTGAATTTTTTGTTCTGAAAATT-AGAAACCAGAATT-AAAAAAATTG
6643858 TATTTTT
1 TATTTTT
6643865 CTCAAAACTC
Statistics
Matches: 106, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
109 5 0.05
110 18 0.17
111 24 0.23
112 34 0.32
113 25 0.24
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (112 bp):
TATTTTTACTTTTTGGTATGCATGTTGTTATTTCATTAAGCACGAAAAAGATTTAAAATAAAATT
CCTGAATTTTTTGTTCTGAAAATTAGAAACCAGAATTAAAAAAATTG
Found at i:6645124 original size:17 final size:15
Alignment explanation
Indices: 6645102--6645135 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
6645092 ATGTACGACT
6645102 ATAATTAATATATTAAA
1 ATAATT-ATA-ATTAAA
6645119 ATAATTATAATTAAA
1 ATAATTATAATTAAA
6645134 AT
1 AT
6645136 TAGCATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 3 0.18
17 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATTATAATTAAA
Found at i:6655480 original size:18 final size:18
Alignment explanation
Indices: 6655447--6655490 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6655437 TTTATAGGTT
*
6655447 CAATATATTAGATAAGTC
1 CAATATATTAGATAAGCC
6655465 CAATATATTATG-TAAGCC
1 CAATATATTA-GATAAGCC
*
6655483 CAAAATAT
1 CAATATAT
6655491 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (18 bp):
CAATATATTAGATAAGCC
Found at i:6656391 original size:22 final size:24
Alignment explanation
Indices: 6656349--6656393 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
6656339 ATGCAAATCA
6656349 ATTGAACTGAGCTAAAAACAAGTG
1 ATTGAACTGAGCTAAAAACAAGTG
*
6656373 ATTGAACT-AG-TTAAAACAAGT
1 ATTGAACTGAGCTAAAAACAAGT
6656394 TTTTCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (24 bp):
ATTGAACTGAGCTAAAAACAAGTG
Found at i:6661344 original size:34 final size:35
Alignment explanation
Indices: 6661306--6661372 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
6661296 AGAATATTAT
**
6661306 TTAAT-TGTATTCTAAAAAAATAGTATATAATAAA
1 TTAATATGTATTCTAAAAAAATAACATATAATAAA
*
6661340 TTAATATGTTTTCTAAAAAAATAACATATAATA
1 TTAATATGTATTCTAAAAAAATAACATATAATA
6661373 TATATTAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 5 0.17
35 24 0.83
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (35 bp):
TTAATATGTATTCTAAAAAAATAACATATAATAAA
Found at i:6664821 original size:21 final size:22
Alignment explanation
Indices: 6664779--6664828 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
6664769 TAATATCTTT
* **
6664779 TTATTTTTCTATTAAATTTAAC
1 TTATTTTTCTATGAAAAATAAC
6664801 TTATTTTTCTA-GAAAAATAAC
1 TTATTTTTCTATGAAAAATAAC
*
6664822 TTCTTTT
1 TTATTTT
6664829 CATTGAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTTTTCTATGAAAAATAAC
Found at i:6665621 original size:2 final size:2
Alignment explanation
Indices: 6665614--6665641 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6665604 TTCAAAACAA
6665614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6665642 GGTTTATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6669235 original size:22 final size:22
Alignment explanation
Indices: 6669210--6669304 Score: 63
Period size: 22 Copynumber: 4.3 Consensus size: 22
6669200 ATTATATTAT
6669210 TGTTTTGGTGCTGTTTTTTTTC
1 TGTTTTGGTGCTGTTTTTTTTC
* *
6669232 TGTTATTTTGGTTGCT-ATTTTTTGC
1 TG---TTTTGG-TGCTGTTTTTTTTC
* * * *
6669257 TGTTTTGATGTTGTGTTTTTAC
1 TGTTTTGGTGCTGTTTTTTTTC
*
6669279 TGTTTT-G-G-TATTTTTTTTC
1 TGTTTTGGTGCTGTTTTTTTTC
6669298 TGTTTTG
1 TGTTTTG
6669305 ATTGTTGTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
19 14 0.25
20 1 0.02
21 3 0.05
22 19 0.34
25 15 0.27
26 4 0.07
ACGTcount: A:0.05, C:0.06, G:0.21, T:0.67
Consensus pattern (22 bp):
TGTTTTGGTGCTGTTTTTTTTC
Found at i:6669369 original size:24 final size:22
Alignment explanation
Indices: 6669312--6669397 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 22
6669302 TTGATTGTTG
* **
6669312 TTTTGGTGCTATTTTTTACTA-
1 TTTTGTTGCTATTTTTTTTTAT
* *
6669333 TTTTGGTGTTATTTTTATTGTTAT
1 TTTTGTTGCTATTTTT-TT-TTAT
6669357 TTTTGTTGCTATTTTTTTTTAT
1 TTTTGTTGCTATTTTTTTTTAT
* * *
6669379 TTTTTTTGCTGTTGTTTTT
1 TTTTGTTGCTATTTTTTTT
6669398 GTTGTTATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
21 15 0.28
22 21 0.39
23 4 0.07
24 14 0.26
ACGTcount: A:0.09, C:0.05, G:0.14, T:0.72
Consensus pattern (22 bp):
TTTTGTTGCTATTTTTTTTTAT
Found at i:6669381 original size:21 final size:21
Alignment explanation
Indices: 6669312--6669381 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
6669302 TTGATTGTTG
**
6669312 TTTTGGTGCTATTTTTTACTA
1 TTTTGGTGCTATTTTTTTTTA
*
6669333 TTTTGGTGTTATTTTTATTGTTA
1 TTTTGGTGCTATTTTT-TT-TTA
*
6669356 TTTTTGTTGCTATTTTTTTTTA
1 -TTTTGGTGCTATTTTTTTTTA
6669378 TTTT
1 TTTT
6669382 TTTTGCTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 19 0.46
22 4 0.10
23 4 0.10
24 14 0.34
ACGTcount: A:0.11, C:0.04, G:0.13, T:0.71
Consensus pattern (21 bp):
TTTTGGTGCTATTTTTTTTTA
Found at i:6670365 original size:6 final size:6
Alignment explanation
Indices: 6670354--6670378 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6670344 AACAGAATTA
6670354 TAAAAT TAAAAT TAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT T
6670379 TCGTTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TAAAAT
Found at i:6680331 original size:14 final size:16
Alignment explanation
Indices: 6680301--6680348 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
6680291 TTGAAACGAG
6680301 AATAAATTTTAAATTA
1 AATAAATTTTAAATTA
6680317 AATAAA-TTT-AATTA
1 AATAAATTTTAAATTA
*
6680331 ATTAAAATTTTAAATTA
1 AAT-AAATTTTAAATTA
6680348 A
1 A
6680349 TTACACATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 7 0.25
15 6 0.21
16 9 0.32
17 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTTAAATTA
Found at i:6687216 original size:167 final size:169
Alignment explanation
Indices: 6686939--6687244 Score: 469
Period size: 168 Copynumber: 1.8 Consensus size: 169
6686929 CCGAGTAAAA
*
6686939 ACTCAGGCCATGACCTCTCTAAAATTGGTAAGTTTTTAATTTAAGTTTTTTATAATTTATAAAAT
1 ACTCAGGCCATAACCTCTCTAAAATTGGTAAGTTTTTAATTTAAGTTTTTTATAATTTATAAAAT
* * * *
6687004 TTTAAATTTATAATATTAAAATTACACTTTTTAATTTTTAAAAATGAT-AAAATTTAATATAATT
66 TTTAAATTTATAATATTAAAATTACACGTTTCAATCTTCAAAAATGATAAAAATTTAATATAATT
6687068 TTTTAAATTTTATAAAGATAAAAATTATTAAGATGAAAG
131 TTTTAAATTTTATAAAGATAAAAATTATTAAGATGAAAG
**
6687107 ACTCAGGCCATAACCTCTCTAAAATTGGTAAGTTTTTAA-TTGGGTTTTTTATAATTTATAAAAT
1 ACTCAGGCCATAACCTCTCTAAAATTGGTAAGTTTTTAATTTAAGTTTTTTATAATTTATAAAAT
* *
6687171 TTTAAA-TTAGTAA-ATTTAAAATTATA-GTTTCAACTCTTCAAAAATGATAAAAATTTAATTTA
66 TTTAAATTTA-TAATA-TTAAAATTACACGTTTCAA-TCTTCAAAAATGATAAAAATTTAATATA
6687233 ATTTTTTAAATT
128 ATTTTTTAAATT
6687245 AAATTTAATT
Statistics
Matches: 125, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
166 9 0.07
167 54 0.43
168 62 0.50
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (169 bp):
ACTCAGGCCATAACCTCTCTAAAATTGGTAAGTTTTTAATTTAAGTTTTTTATAATTTATAAAAT
TTTAAATTTATAATATTAAAATTACACGTTTCAATCTTCAAAAATGATAAAAATTTAATATAATT
TTTTAAATTTTATAAAGATAAAAATTATTAAGATGAAAG
Found at i:6687262 original size:6 final size:5
Alignment explanation
Indices: 6687222--6687271 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
6687212 AAATGATAAA
* *
6687222 AATTT AATTT AATTT --TTT AAATTA AATTT AATTT AATTTT AACTT AATTT
1 AATTT AATTT AATTT AATTT -AATTT AATTT AATTT AA-TTT AATTT AATTT
6687272 TTTTTTACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.08
5 27 0.73
6 7 0.19
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:6687524 original size:33 final size:32
Alignment explanation
Indices: 6687485--6687552 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
6687475 TCATATTATT
* * *
6687485 TTTTAATTTTTTAGAATTTTTTACATTGTTTTA
1 TTTTAATATTTAAGAATTTTATACATT-TTTTA
*
6687518 TTTTAATATTTAATAATTTTATACATTTTTTA
1 TTTTAATATTTAAGAATTTTATACATTTTTTA
6687550 TTT
1 TTT
6687553 ATTGAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 8 0.26
33 23 0.74
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (32 bp):
TTTTAATATTTAAGAATTTTATACATTTTTTA
Found at i:6690326 original size:36 final size:38
Alignment explanation
Indices: 6690269--6690343 Score: 93
Period size: 36 Copynumber: 2.0 Consensus size: 38
6690259 CGTCGGCCGA
*
6690269 GGTTTGGGGGTGGATTAGGAGGA-GG-AGGTGGTGGAG
1 GGTTTGGGGGTGGACTAGGAGGAGGGTAGGTGGTGGAG
*
6690305 GGTTTGGTGGTGGAGCT-GGAGGAGGGTTAGGTGGTGGAG
1 GGTTTGGGGGTGGA-CTAGGAGGAGGG-TAGGTGGTGGAG
6690344 CTGGATTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 19 0.58
37 3 0.09
39 11 0.33
ACGTcount: A:0.15, C:0.01, G:0.60, T:0.24
Consensus pattern (38 bp):
GGTTTGGGGGTGGACTAGGAGGAGGGTAGGTGGTGGAG
Found at i:6690328 original size:24 final size:24
Alignment explanation
Indices: 6690283--6690348 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
6690273 TGGGGGTGGA
* * * *
6690283 TTAGGAGGAGGAGGTGGTGGAGGG
1 TTAGGTGGTGGAGCTGGAGGAGGG
*
6690307 TTTGGTGGTGGAGCTGGAGGAGGG
1 TTAGGTGGTGGAGCTGGAGGAGGG
6690331 TTAGGTGGTGGAGCTGGA
1 TTAGGTGGTGGAGCTGGA
6690349 TTTGGTGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.17, C:0.03, G:0.58, T:0.23
Consensus pattern (24 bp):
TTAGGTGGTGGAGCTGGAGGAGGG
Found at i:6690355 original size:18 final size:18
Alignment explanation
Indices: 6690334--6690377 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6690324 AGGAGGGTTA
*
6690334 GGTGGTGGAGCTGGATT-T
1 GGTGGGGGAGCTGG-TTCT
*
6690352 GGTGGGGGCGCTGGTTCT
1 GGTGGGGGAGCTGGTTCT
6690370 GGTGGGGG
1 GGTGGGGG
6690378 CCTTGGTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.05, C:0.09, G:0.59, T:0.27
Consensus pattern (18 bp):
GGTGGGGGAGCTGGTTCT
Found at i:6690391 original size:18 final size:18
Alignment explanation
Indices: 6690370--6690410 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6690360 CGCTGGTTCT
* *
6690370 GGTGGGGGCCTTGGTGGA
1 GGTGGGGGACTTGGAGGA
*
6690388 GGTGGTGGACTTGGAGGA
1 GGTGGGGGACTTGGAGGA
6690406 GGTGG
1 GGTGG
6690411 TGGTGGAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.07, G:0.61, T:0.22
Consensus pattern (18 bp):
GGTGGGGGACTTGGAGGA
Found at i:6690411 original size:18 final size:18
Alignment explanation
Indices: 6690379--6690413 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6690369 TGGTGGGGGC
*
6690379 CTTGGTGGAGGTGGTGGA
1 CTTGGAGGAGGTGGTGGA
6690397 CTTGGAGGAGGTGGTGG
1 CTTGGAGGAGGTGGTGG
6690414 TGGAGGGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.06, G:0.57, T:0.26
Consensus pattern (18 bp):
CTTGGAGGAGGTGGTGGA
Found at i:6690415 original size:24 final size:24
Alignment explanation
Indices: 6690388--6690437 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
6690378 CCTTGGTGGA
6690388 GGTGGTGGA--CTT-GGAGGAGGT
1 GGTGGTGGAGGCTTCGGAGGAGGT
*
6690409 GGTGGTGGAGGGTTCGGAGGAGGT
1 GGTGGTGGAGGCTTCGGAGGAGGT
6690433 GGTGG
1 GGTGG
6690438 CGGGGGAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
23 2 0.08
24 14 0.56
ACGTcount: A:0.12, C:0.04, G:0.62, T:0.22
Consensus pattern (24 bp):
GGTGGTGGAGGCTTCGGAGGAGGT
Found at i:6690493 original size:30 final size:30
Alignment explanation
Indices: 6690454--6690608 Score: 89
Period size: 30 Copynumber: 5.0 Consensus size: 30
6690444 AGTAGGTGGC
*
6690454 GGTGCTGGTGGTGGGTTTGGAGGTGGACTA
1 GGTGCAGGTGGTGGGTTTGGAGGTGGACTA
** * * *
6690484 GGTGGTGGTGCTGGAG-CTGGAGGTGGAGGCGGCTTT
1 GGTGCAGGTGGTGG-GTTTGGAGGTGGA-----C-TA
* * * **
6690520 GGTGGAGGAGGTGGGTTTGGCGGTGGAGGA
1 GGTGCAGGTGGTGGGTTTGGAGGTGGACTA
* *
6690550 GGTGCAGGTGGAGGGTTTGGCGGTGGAGCT-
1 GGTGCAGGTGGTGGGTTTGGAGGTGGA-CTA
* *
6690580 GGTGCAGGTGGTGGGCTTGGAGGAGGACT
1 GGTGCAGGTGGTGGGTTTGGAGGTGGACT
6690609 GCCATAAACA
Statistics
Matches: 95, Mismatches: 21, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
29 2 0.02
30 69 0.73
31 1 0.01
35 2 0.02
36 21 0.22
ACGTcount: A:0.11, C:0.08, G:0.57, T:0.24
Consensus pattern (30 bp):
GGTGCAGGTGGTGGGTTTGGAGGTGGACTA
Found at i:6690574 original size:15 final size:15
Alignment explanation
Indices: 6690532--6690577 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
6690522 TGGAGGAGGT
6690532 GGGTTTGGCGGTGGA
1 GGGTTTGGCGGTGGA
*
6690547 GGAG-GT-GCAGGTGGA
1 GG-GTTTGGC-GGTGGA
6690562 GGGTTTGGCGGTGGA
1 GGGTTTGGCGGTGGA
6690577 G
1 G
6690578 CTGGTGCAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.11, C:0.07, G:0.61, T:0.22
Consensus pattern (15 bp):
GGGTTTGGCGGTGGA
Found at i:6691440 original size:120 final size:113
Alignment explanation
Indices: 6691220--6691441 Score: 275
Period size: 120 Copynumber: 1.9 Consensus size: 113
6691210 AAATGTTTAG
* *
6691220 TTGAAATATTTCACATATAAAAATAATTATATTTGAAATAATTATTTTTATAATGTTAGAATTTA
1 TTGAAATATTTCACATATAAAAATAATTATATTTGAAATAATTATTTTTATAATATTAGAATCTA
* * * * *
6691285 TCATACCCACAATGTAGGTGAAAATATAAAGATATTTGAAGTAATTAT
66 ACATACCCACAATATAGGTCAAAATAAAAAAATATTTGAAGTAATTAT
* *
6691333 TTGAAATATTTTACATATAAAAATAATAATGATATTTGAAATAATTATTTGATTTTATGATATTA
1 TTGAAATATTTCACATATAAAAATAAT--T-ATATTTGAAATAATTA--T--TTTTATAATATTA
*
6691398 GAATCTAACATACCCACTATATAGG-CAAAATAAAACAAATATTT
59 GAATCTAACATACCCACAATATAGGTCAAAATAAAA-AAATATTT
6691442 CACATATAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
113 26 0.29
115 1 0.01
116 16 0.18
118 1 0.01
119 8 0.09
120 39 0.43
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (113 bp):
TTGAAATATTTCACATATAAAAATAATTATATTTGAAATAATTATTTTTATAATATTAGAATCTA
ACATACCCACAATATAGGTCAAAATAAAAAAATATTTGAAGTAATTAT
Found at i:6708620 original size:89 final size:89
Alignment explanation
Indices: 6708464--6708644 Score: 326
Period size: 89 Copynumber: 2.0 Consensus size: 89
6708454 ATCCGAACTT
*
6708464 CGAATGTTACACGGTCAACTCCAAACTACTATCAATCAAACTAGATATTCACTCAATAACCCCTT
1 CGAAGGTTACACGGTCAACTCCAAACTACTATCAATCAAACTAGATATTCACTCAATAACCCCTT
6708529 TTTTCAGGCAATTTCAGTTTTCTA
66 TTTTCAGGCAATTTCAGTTTTCTA
* * *
6708553 CGAAGGTTACACGGTCAACTCCAAACTATTATCGATCAAACTAGATATTCACTCAATAACCCTTT
1 CGAAGGTTACACGGTCAACTCCAAACTACTATCAATCAAACTAGATATTCACTCAATAACCCCTT
6708618 TTTTCAGGCAATTTCAGTTTTCTA
66 TTTTCAGGCAATTTCAGTTTTCTA
6708642 CGA
1 CGA
6708645 TTCTAAAACC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (89 bp):
CGAAGGTTACACGGTCAACTCCAAACTACTATCAATCAAACTAGATATTCACTCAATAACCCCTT
TTTTCAGGCAATTTCAGTTTTCTA
Found at i:6709199 original size:18 final size:18
Alignment explanation
Indices: 6709176--6709215 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6709166 TACAATTAGT
*
6709176 ATAAAAATAACGATAATA
1 ATAAAAATAAAGATAATA
* *
6709194 ATAAAATTAAATATAATA
1 ATAAAAATAAAGATAATA
6709212 ATAA
1 ATAA
6709216 TATTATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
ATAAAAATAAAGATAATA
Found at i:6709220 original size:18 final size:19
Alignment explanation
Indices: 6709188--6709235 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
6709178 AAAAATAACG
6709188 ATAATAATAAAATTA-AAT
1 ATAATAATAAAATTATAAT
*
6709206 ATAATAATAATATTATAAT
1 ATAATAATAAAATTATAAT
6709225 ATAA-AATAAAA
1 ATAATAATAAAA
6709236 AGATATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATAATAAAATTATAAT
Found at i:6709233 original size:24 final size:23
Alignment explanation
Indices: 6709179--6709233 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
6709169 AATTAGTATA
*
6709179 AAAATAACGATAATAATAAAATT
1 AAAATAACAATAATAATAAAATT
* * *
6709202 AAATATAATAATAATATTATAATAT
1 AAA-ATAACAATAATAATAAAAT-T
6709227 AAAATAA
1 AAAATAA
6709234 AAAGATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.12
24 19 0.73
25 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAACAATAATAATAAAATT
Found at i:6714710 original size:26 final size:28
Alignment explanation
Indices: 6714647--6714710 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 28
6714637 GCGGTTAATG
*
6714647 AAATAATTATTTATGGATTTTTTTGTTATT
1 AAAT-ATT-TTTATCGATTTTTTTGTTATT
*
6714677 ACA-A-TTTTATCGA-TTTTTT-TTATT
1 AAATATTTTTATCGATTTTTTTGTTATT
6714701 AAATATTTTT
1 AAATATTTTT
6714711 GTCAGCAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
24 7 0.24
25 7 0.24
26 11 0.38
27 1 0.03
28 1 0.03
30 2 0.07
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (28 bp):
AAATATTTTTATCGATTTTTTTGTTATT
Found at i:6715902 original size:15 final size:16
Alignment explanation
Indices: 6715870--6715904 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6715860 AAATCGATAA
6715870 ATTAATTTTTTTATAT
1 ATTAATTTTTTTATAT
6715886 ATTAATTTTTTTA-AT
1 ATTAATTTTTTTATAT
6715901 ATTA
1 ATTA
6715905 TATATGAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTAATTTTTTTATAT
Found at i:6747334 original size:26 final size:26
Alignment explanation
Indices: 6747294--6747382 Score: 101
Period size: 26 Copynumber: 3.4 Consensus size: 26
6747284 GGGTCTCTCT
*
6747294 ACGAGCTCTCCTTGCGAG-CTATGCCC
1 ACGAGCTCTCCTTGCGAGCCT-TGCCA
* *
6747320 ACGAGCTCTCATTGCGAGCCTTGTCA
1 ACGAGCTCTCCTTGCGAGCCTTGCCA
* *
6747346 ACGAGCTCTCCTTGCGAACAC-TGTCA
1 ACGAGCTCTCCTTGCGAGC-CTTGCCA
6747372 ACGAGCTCTCC
1 ACGAGCTCTCC
6747383 CTGTTAGCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 53 0.95
27 3 0.05
ACGTcount: A:0.19, C:0.36, G:0.21, T:0.24
Consensus pattern (26 bp):
ACGAGCTCTCCTTGCGAGCCTTGCCA
Found at i:6749914 original size:15 final size:15
Alignment explanation
Indices: 6749885--6749927 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
6749875 ATAAATTGTC
6749885 ATATTT-TTTTT-AA
1 ATATTTATTTTTAAA
6749898 ATATTTATTTTTAAA
1 ATATTTATTTTTAAA
6749913 ATA-TTATTTTTAAA
1 ATATTTATTTTTAAA
6749927 A
1 A
6749928 CTTTACTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.21
14 17 0.61
15 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATTTATTTTTAAA
Found at i:6750291 original size:19 final size:20
Alignment explanation
Indices: 6750267--6750304 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6750257 GTCCTAATTC
*
6750267 TAAAAAAAATCA-AAATATA
1 TAAAAAAAAACATAAATATA
6750286 TAAAAAAAAACATAAATAT
1 TAAAAAAAAACATAAATAT
6750305 TCTGTGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAAAAAAACATAAATATA
Found at i:6751995 original size:71 final size:71
Alignment explanation
Indices: 6751879--6752018 Score: 244
Period size: 71 Copynumber: 2.0 Consensus size: 71
6751869 AACAAATATT
**
6751879 TTTTGGTTTTAACCCTACGACATAGAAGGAATAGAAAAGGACCACATAGAACTATTTTAAATTTA
1 TTTTGGTTTTAACCCTACGACATAGAAGGAATAGAAAAAAACCACATAGAACTATTTTAAATTTA
6751944 AAAAAA
66 AAAAAA
* *
6751950 TTTTGGTTTTAACCCTACGACATATAATGAATAGAAAAAAACCACATAGAACTATTTTAAATTTA
1 TTTTGGTTTTAACCCTACGACATAGAAGGAATAGAAAAAAACCACATAGAACTATTTTAAATTTA
6752015 AAAA
66 AAAA
6752019 CAAAGATATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (71 bp):
TTTTGGTTTTAACCCTACGACATAGAAGGAATAGAAAAAAACCACATAGAACTATTTTAAATTTA
AAAAAA
Found at i:6752033 original size:26 final size:26
Alignment explanation
Indices: 6752002--6752052 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
6751992 CACATAGAAC
6752002 TATTTTAAATTTAAAAACAAAGATAT
1 TATTTTAAATTTAAAAACAAAGATAT
6752028 TATTTTAAATTTAAAAACAAAGATA
1 TATTTTAAATTTAAAAACAAAGATA
6752053 CCCACAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (26 bp):
TATTTTAAATTTAAAAACAAAGATAT
Found at i:6753554 original size:452 final size:457
Alignment explanation
Indices: 6752699--6753616 Score: 1322
Period size: 452 Copynumber: 2.0 Consensus size: 457
6752689 AAATTTAGAG
* * * *
6752699 GATGAAATTAAATTGTAATTTTTACAATAGAAAAAAATGTAATTTCATCATTTTAATATACTATA
1 GATGAAACTAAATTATAATTTTTACAATA-AAAAAAATGTAATTTCACCATTTTAATAGACTATA
6752764 TCTTTATAATTTTTAAAAGATTAAATCAAATTTTTATATTTTTAAGGGCCAAAATATAAATTTAC
65 TCTTTATAATTTTTAAAAGATTAAATCAAATTTTTATATTTTTAAGGGCCAAAATATAAATTTAC
* *
6752829 TTTTACTAATTTTAAATTTTAAAAATTTTATTAAAAGAATCATATAAAAAAATTCATTTTAGGGT
130 TTTTACTAATATTAAATTTTAAAAATTTTA-TAAAAGAACCATATAAAAAAATTCATTTTAGGGT
* * *
6752894 GTGCGAAGGCCCTGCCAAGCCTAATCCTCTAGTTTCGCTTGATATTAACCATTCGAACTAATTAA
194 GTGCG-AGGCCCTGCCAAGCC--ATCCTCTAGTTTCGCCTAATATTAACCATTCCAACTAATTAA
* *
6752959 TAATATTATAAAAATTAAATTAGATTAAAAGTTAAAAGTATAGAGATTAAATATAAATTTTAGGT
256 TAATATTATAAAAATTAAATTAGATTAAAAGTTAAAAGTACAGAGATTAAATATAAAATTTAGGT
* *
6753024 ATATTAGAGAAATTAAAACTAATCAGAATTTGCATGTAAGTCTCATCATCAAACTCGATTTTAAA
321 ATATTAGAGAAATTAAAACTAATCAGAATTTGCATGCAAGTCTCACCATCAAACTCGATTTTAAA
* * *
6753089 AAGGCGTTTGACTCAGTTTGTTGAGATTTCTTAGATCACATCATGACTTCGATGGGATTTATCTC
386 AAGGCGTTTGACTCAGCTAGTTGAGATTTCTTAGATCACATCATG-CTTCGATGAGATTTATCTC
6753154 TAAACGGA
450 TAAACGGA
* * *
6753162 GATGAAACTAAATTATAATTTTTACGAT-AAAAAAATGTAATTTTACCATTTTAATAGATTATAT
1 GATGAAACTAAATTATAATTTTTACAATAAAAAAAATGTAATTTCACCATTTTAATAGACTATAT
* *
6753226 CTTTATAATTTTTAAAAGATTAAATCAAATTTTTATATTTTTAAGGGGATCAAAATATAATTTTA
66 CTTTATAATTTTTAAAAGATTAAATCAAATTTTTATATTTTTAA-GGG-CCAAAATATAAATTTA
* *
6753291 CTTTTACTAA-ATTAAATTTTTAAAAATTTTA-AAAAG-ACCGTAT-AAAAAATTTATTTTAGGG
129 CTTTTACTAATATTAAA-TTTTAAAAATTTTATAAAAGAACCATATAAAAAAATTCATTTTAGGG
* * *
6753352 -GATGACG-GGACCTTGCC-AG-C-TCC-CTAGTTTTGCCTAATATTAACCATTCCAGCTAATTA
193 TG-TG-CGAGG-CCCTGCCAAGCCATCCTCTAGTTTCGCCTAATATTAACCATTCCAACTAATTA
*
6753411 ATAATATTATAAAAATTAAATTA-AGTTAAAAGTT-AAAGTACAGATATTAAATATAAAATTTAG
255 ATAATATTATAAAAATTAAATTAGA-TTAAAAGTTAAAAGTACAGAGATTAAATATAAAATTTAG
* * * *
6753474 GTATATTAGAGAGATTAAAACTAGTCAGTATTTGCATGCAAGTCTCACCATCAAACTCGATTTTG
319 GTATATTAGAGAAATTAAAACTAATCAGAATTTGCATGCAAGTCTCACCATCAAACTCGATTTTA
* * *
6753539 AAAAGGCGTTTGACTCAGCTAGTTGGGATTTCTTATATCACATCATGCTTCGATGAGATTTGTCT
384 AAAAGGCGTTTGACTCAGCTAGTTGAGATTTCTTAGATCACATCATGCTTCGATGAGATTTATCT
6753604 CTAAACGGA
449 CTAAACGGA
6753613 GATG
1 GATG
6753617 TTGGATTAAA
Statistics
Matches: 414, Mismatches: 34, Indels: 26
0.87 0.07 0.05
Matches are distributed among these distances:
451 29 0.07
452 129 0.31
453 63 0.15
454 3 0.01
457 1 0.00
458 5 0.01
459 25 0.06
460 7 0.02
461 81 0.20
462 8 0.02
463 63 0.15
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (457 bp):
GATGAAACTAAATTATAATTTTTACAATAAAAAAAATGTAATTTCACCATTTTAATAGACTATAT
CTTTATAATTTTTAAAAGATTAAATCAAATTTTTATATTTTTAAGGGCCAAAATATAAATTTACT
TTTACTAATATTAAATTTTAAAAATTTTATAAAAGAACCATATAAAAAAATTCATTTTAGGGTGT
GCGAGGCCCTGCCAAGCCATCCTCTAGTTTCGCCTAATATTAACCATTCCAACTAATTAATAATA
TTATAAAAATTAAATTAGATTAAAAGTTAAAAGTACAGAGATTAAATATAAAATTTAGGTATATT
AGAGAAATTAAAACTAATCAGAATTTGCATGCAAGTCTCACCATCAAACTCGATTTTAAAAAGGC
GTTTGACTCAGCTAGTTGAGATTTCTTAGATCACATCATGCTTCGATGAGATTTATCTCTAAACG
GA
Found at i:6754055 original size:23 final size:23
Alignment explanation
Indices: 6754025--6754083 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
6754015 CTGACGTGGC
*
6754025 ATCCAGTCAGCAGC-TTCCAGAAG
1 ATCCAGTCAGCAACTTTCCA-AAG
6754048 ATCCAGTCAGCAACTTTCCAAAG
1 ATCCAGTCAGCAACTTTCCAAAG
* *
6754071 GTCTAGTCAGCAA
1 ATCCAGTCAGCAA
6754084 GGATGGACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 27 0.84
24 5 0.16
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (23 bp):
ATCCAGTCAGCAACTTTCCAAAG
Found at i:6763569 original size:6 final size:6
Alignment explanation
Indices: 6763558--6763591 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
6763548 GGGACATGGA
*
6763558 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGA GAGG
1 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGG
6763592 AAGCGGAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.68, T:0.12
Consensus pattern (6 bp):
GAGGGT
Found at i:6771075 original size:6 final size:6
Alignment explanation
Indices: 6771037--6771071 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6771027 AATTTCCATC
* *
6771037 GTCATC GTCATT GTCATT GTCATT GTCATG GTCAT
1 GTCATT GTCATT GTCATT GTCATT GTCATT GTCAT
6771072 GGTCTAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (6 bp):
GTCATT
Found at i:6773143 original size:18 final size:18
Alignment explanation
Indices: 6773122--6773165 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6773112 TTGAATTTTT
6773122 AAAATTTTAAATTTAGAA
1 AAAATTTTAAATTTAGAA
* * *
6773140 AAAAATTAAAATTTAGTA
1 AAAATTTTAAATTTAGAA
6773158 AAAATTTT
1 AAAATTTT
6773166 GTACAATATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
AAAATTTTAAATTTAGAA
Found at i:6773939 original size:34 final size:34
Alignment explanation
Indices: 6773897--6773961 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
6773887 AATTTAATTT
* *
6773897 TAAAATTTAGATGTATTTTGAA-TTTAAATTTGTA
1 TAAAATTTAAATGTATTAT-AATTTTAAATTTGTA
*
6773931 TAAAATTTAAATTTATTATAATTTTAAATTT
1 TAAAATTTAAATGTATTATAATTTTAAATTT
6773962 TAAATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 2 0.07
34 25 0.93
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (34 bp):
TAAAATTTAAATGTATTATAATTTTAAATTTGTA
Found at i:6773963 original size:18 final size:16
Alignment explanation
Indices: 6773917--6773963 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
6773907 ATGTATTTTG
6773917 AATTTAAATTTGTATAA
1 AATTTAAATTT-TATAA
6773934 AATTTAAA-TTTATTATA
1 AATTTAAATTTTA-TA-A
*
6773951 ATTTTAAATTTTA
1 AATTTAAATTTTA
6773964 AATTAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 4 0.15
17 16 0.62
18 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AATTTAAATTTTATAA
Found at i:6773992 original size:14 final size:15
Alignment explanation
Indices: 6773973--6774004 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6773963 AAATTAAATA
6773973 AAATGTCC-AATTAC
1 AAATGTCCAAATTAC
6773987 AAATGTCCAAATTAC
1 AAATGTCCAAATTAC
6774002 AAA
1 AAA
6774005 GGCCCAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (15 bp):
AAATGTCCAAATTAC
Found at i:6774748 original size:20 final size:21
Alignment explanation
Indices: 6774704--6774750 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6774694 TAAACATATA
6774704 TTAAATGTATTAACTAAAGTT
1 TTAAATGTATTAACTAAAGTT
*
6774725 TTAAATGGTATTAA-TTAA-TT
1 TTAAAT-GTATTAACTAAAGTT
6774745 TTAAAT
1 TTAAAT
6774751 AAAAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 9 0.38
22 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (21 bp):
TTAAATGTATTAACTAAAGTT
Found at i:6774767 original size:3 final size:3
Alignment explanation
Indices: 6774748--6774782 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6774738 ATTAATTTTA
* *
6774748 AAT AAA AAT ATT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6774783 AAGAAAATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6775578 original size:32 final size:33
Alignment explanation
Indices: 6775529--6775592 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
6775519 TGCGCGTTTG
*
6775529 GTCCTTTCTCATTTTTTAATT-GTTTTAATTTA
1 GTCCTTTCTCATCTTTTAATTAGTTTTAATTTA
*
6775561 GTCCTTT-TCATACTTTTAATTATTTTTAATTT
1 GTCCTTTCTCAT-CTTTTAATTAGTTTTAATTT
6775593 GACCCGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.14
32 15 0.54
33 9 0.32
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.62
Consensus pattern (33 bp):
GTCCTTTCTCATCTTTTAATTAGTTTTAATTTA
Found at i:6776014 original size:29 final size:28
Alignment explanation
Indices: 6775981--6776063 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
6775971 TTAAACCTCG
* *
6775981 ATTTCACCAAATTACCGTTTT-CCCTTGA
1 ATTTCACCAAATTACCATTTTACCCCT-A
*
6776009 ACTTTC-CAAAATT-CCATTTTAACCCCTA
1 A-TTTCACCAAATTACCATTTT-ACCCCTA
6776037 ATTTCACCAAATTACCATTTTACCCCT
1 ATTTCACCAAATTACCATTTTACCCCT
6776064 TACTTTTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
27 10 0.22
28 21 0.46
29 15 0.33
ACGTcount: A:0.29, C:0.31, G:0.02, T:0.37
Consensus pattern (28 bp):
ATTTCACCAAATTACCATTTTACCCCTA
Found at i:6776029 original size:56 final size:57
Alignment explanation
Indices: 6775871--6776061 Score: 196
Period size: 56 Copynumber: 3.3 Consensus size: 57
6775861 AAACTGTCCA
6775871 AAATTA-CATTTTGACCCTCGAACTTT-CAAAATTCCAGTTTTAACCCCGATTGTCACC
1 AAATTACCATTTT-ACCCTCGAACTTTCCAAAATTCCAGTTTTAACCCCGATT-TCACC
* * * *
6775928 AAAAATTTACCATTTTACCAC-CCAACCTTTCC-AAATCCCATTTTTAAACCTCGATTTCACC
1 --AAA-TTACCATTTTACC-CTCGAA-CTTTCCAAAATTCCAGTTTT-AACCCCGATTTCACC
* * *
6775989 AAATTACCGTTTT-CCCTTGAACTTTCCAAAATTCCA-TTTTAACCCCTAATTTCACC
1 AAATTACCATTTTACCCTCGAACTTTCCAAAATTCCAGTTTTAACCCC-GATTTCACC
6776045 AAATTACCATTTTACCC
1 AAATTACCATTTTACCC
6776062 CTTACTTTTC
Statistics
Matches: 111, Mismatches: 11, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
55 5 0.05
56 31 0.28
57 14 0.13
58 9 0.08
59 6 0.05
60 9 0.08
61 27 0.24
62 10 0.09
ACGTcount: A:0.31, C:0.30, G:0.04, T:0.35
Consensus pattern (57 bp):
AAATTACCATTTTACCCTCGAACTTTCCAAAATTCCAGTTTTAACCCCGATTTCACC
Found at i:6788513 original size:14 final size:14
Alignment explanation
Indices: 6788494--6788520 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6788484 TTAATTTTAA
6788494 ATAATAATAATAAT
1 ATAATAATAATAAT
6788508 ATAATAATAATAA
1 ATAATAATAATAA
6788521 GGGACAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:6789656 original size:30 final size:30
Alignment explanation
Indices: 6789612--6789774 Score: 128
Period size: 30 Copynumber: 5.5 Consensus size: 30
6789602 CGAACTTTTC
6789612 AAAATT-CCATTTTTAACCTCGATTTCACCA
1 AAAATTACCA-TTTTAACCTCGATTTCACCA
* *
6789642 AAAATTACCATTTTACCCTCAAGCTTT--CC-
1 AAAATTACCATTTTAACCTC--GATTTCACCA
* *
6789671 AAAA-TCCCATTTTTTAACCACGATTTCACCA
1 AAAATTACCA--TTTTAACCTCGATTTCACCA
* *
6789702 AAAATTACCATTTTACCCCCGAACTTT--CC-
1 AAAATTACCATTTTAACCTCG-A-TTTCACCA
*
6789731 AAAATT-CTATTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTAACCTCGATTTCACCA
*
6789760 ACAATTACCATTTTA
1 AAAATTACCATTTTA
6789775 CCTTAACTTT
Statistics
Matches: 104, Mismatches: 14, Indels: 30
0.70 0.09 0.20
Matches are distributed among these distances:
26 3 0.03
27 1 0.01
28 21 0.20
29 15 0.14
30 45 0.43
31 8 0.08
32 11 0.11
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTAACCTCGATTTCACCA
Found at i:6789772 original size:58 final size:58
Alignment explanation
Indices: 6789580--6789776 Score: 272
Period size: 60 Copynumber: 3.3 Consensus size: 58
6789570 CTTGAACTAT
* *
6789580 CCAAAAATTA-CATTTTGACCCCCGAACTTTTCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTT-ACCCCCGAACTTTCCAAAATTCTA-TTTTAACCTCGATTTCA
* * * *
6789639 CCAAAAATTACCATTTTACCCTC-AAGCTTTCCAAAATCCCATTTTTTAACCACGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAA-CTTTCCAAAAT-TC-TATTTTAACCTCGATTTCA
6789699 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTAACCTCGATTTCA
*
6789757 CCAACAATTACCATTTTACC
1 CCAAAAATTACCATTTTACC
6789777 TTAACTTTCC
Statistics
Matches: 122, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
58 38 0.31
59 26 0.21
60 56 0.46
61 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTAACCTCGATTTCA
Found at i:6789858 original size:29 final size:28
Alignment explanation
Indices: 6789816--6789910 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 28
6789806 CGTTTTTATT
** *
6789816 AAAATTACCGTTTTACCCTCAAACTTT-CT
1 AAAATTACATTTTTACCCTC-AA-TTTACA
*
6789845 AAAATTCCATTTTTGACCCT-AATTTCACA
1 AAAATTACATTTTT-ACCCTCAATTT-ACA
**
6789874 AAAATTACATTTTTACCCTCGAAAGT-CA
1 AAAATTACATTTTTACCCTC-AATTTACA
6789902 AAAATTACA
1 AAAATTACA
6789911 ATTTCGCCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
27 3 0.06
28 18 0.33
29 25 0.46
30 8 0.15
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (28 bp):
AAAATTACATTTTTACCCTCAATTTACA
Found at i:6789878 original size:58 final size:58
Alignment explanation
Indices: 6789580--6789893 Score: 279
Period size: 58 Copynumber: 5.4 Consensus size: 58
6789570 CTTGAACTAT
* * * *
6789580 CCAAAAATTA-CATTTTGACCCCCGAACTTTTCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTT-ACCCTCAAACTTTCCAAAATTCCATTTTTACCCT-GATTTCA
* *
6789639 CCAAAAATTACCATTTTACCCTCAAGCTTTCCAAAATCCCATTTTTTAACCAC-GATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCA-TTTTT-ACC-CTGATTTCA
* * * *
6789699 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTA-TTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTACCCT-GATTTCA
* * * * *
6789757 CCAACAATTACCATTTTA-CCT-TAACTTTCCAAAA--CCTTATTTTTAGCCCCGTTTTTA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCC--ATTTTTA-CCCTGATTTCA
** * * *
6789814 -TTAAAATTACCGTTTTACCCTCAAACTTTCTAAAATTCCATTTTTGACCCTAATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTT-ACCCTGATTTCA
6789872 -CAAAAATTA-CATTTTTACCCTC
1 CCAAAAATTACCA-TTTTACCCTC
6789894 GAAAGTCAAA
Statistics
Matches: 206, Mismatches: 33, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
54 1 0.00
56 27 0.13
57 18 0.09
58 71 0.34
59 30 0.15
60 56 0.27
61 2 0.01
62 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.37
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTACCCTGATTTCA
Found at i:6794579 original size:14 final size:14
Alignment explanation
Indices: 6794540--6794580 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
6794530 ATTATTATTT
6794540 AATTAAATAATTGA
1 AATTAAATAATTGA
6794554 AATTCAAA-AATTG-
1 AATT-AAATAATTGA
6794567 AATTAAATTAATTG
1 AATTAAA-TAATTG
6794581 GTCATCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.12
13 4 0.17
14 14 0.58
15 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (14 bp):
AATTAAATAATTGA
Found at i:6799778 original size:21 final size:21
Alignment explanation
Indices: 6799752--6799807 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
6799742 TTATAAATGT
6799752 TCTACCGATACAACCCTGCAA
1 TCTACCGATACAACCCTGCAA
6799773 TCTACCGATACAACCCTGCAA
1 TCTACCGATACAACCCTGCAA
*
6799794 TCTACCTATACAAC
1 TCTACCGATACAAC
6799808 ATATCCTACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.38, G:0.07, T:0.21
Consensus pattern (21 bp):
TCTACCGATACAACCCTGCAA
Found at i:6809781 original size:19 final size:19
Alignment explanation
Indices: 6809757--6809796 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6809747 GTATTATTAC
* * *
6809757 AAAAAAATTTAAAAATTGT
1 AAAAAAAATAAAAAAATGT
6809776 AAAAAAAATAAAAAAATGT
1 AAAAAAAATAAAAAAATGT
6809795 AA
1 AA
6809797 TTTTTTTAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAAAAAATAAAAAAATGT
Found at i:6813609 original size:15 final size:15
Alignment explanation
Indices: 6813589--6813621 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6813579 TGTTTCTGGT
6813589 TAACAGTATACCTAC
1 TAACAGTATACCTAC
6813604 TAACAGTATACCTAC
1 TAACAGTATACCTAC
6813619 TAA
1 TAA
6813622 ATACAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (15 bp):
TAACAGTATACCTAC
Found at i:6824985 original size:24 final size:24
Alignment explanation
Indices: 6824958--6825010 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
6824948 TGCACAGCCT
6824958 CCTCCACATCCAGTCCCACCACAC
1 CCTCCACATCCAGTCCCACCACAC
*
6824982 CCTCCCCATCCAGTCCCACCACAC
1 CCTCCACATCCAGTCCCACCACAC
6825006 CCTCC
1 CCTCC
6825011 TCACCCTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.62, G:0.04, T:0.13
Consensus pattern (24 bp):
CCTCCACATCCAGTCCCACCACAC
Found at i:6825012 original size:27 final size:26
Alignment explanation
Indices: 6824950--6825012 Score: 85
Period size: 24 Copynumber: 2.4 Consensus size: 26
6824940 TGTGGATATG
6824950 CACAGCCTCCTCCACATCCAGTCCCAC
1 CACA-CCTCCTCCACATCCAGTCCCAC
*
6824977 CACA-C-CCTCCCCATCCAGTCCCAC
1 CACACCTCCTCCACATCCAGTCCCAC
6825001 CACACCCTCCTC
1 CACA-CCTCCTC
6825013 ACCCTCCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 22 0.69
25 1 0.03
26 1 0.03
27 8 0.25
ACGTcount: A:0.21, C:0.60, G:0.05, T:0.14
Consensus pattern (26 bp):
CACACCTCCTCCACATCCAGTCCCAC
Found at i:6825016 original size:33 final size:33
Alignment explanation
Indices: 6824979--6825045 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6824969 AGTCCCACCA
6824979 CACCCTCCCCATCCAGTCCCACCACACCCTCCT
1 CACCCTCCCCATCCAGTCCCACCACACCCTCCT
* * * *
6825012 CACCCTCCTCATCCATTCCCTCCTCACCCTCCT
1 CACCCTCCCCATCCAGTCCCACCACACCCTCCT
6825045 C
1 C
6825046 CTCATCCTCA
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:0.15, C:0.63, G:0.01, T:0.21
Consensus pattern (33 bp):
CACCCTCCCCATCCAGTCCCACCACACCCTCCT
Found at i:6825054 original size:33 final size:33
Alignment explanation
Indices: 6824979--6825057 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
6824969 AGTCCCACCA
* *
6824979 CACCCTCCCCATCCAGTCCCACCACACCCTCCT
1 CACCATCCTCATCCAGTCCCACCACACCCTCCT
* * * *
6825012 CACCCTCCTCATCCATTCCCTCCTCACCCTCCT
1 CACCATCCTCATCCAGTCCCACCACACCCTCCT
6825045 C-CTCATCCTCATC
1 CAC-CATCCTCATC
6825058 GCCCTCAACC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 1 0.03
33 39 0.98
ACGTcount: A:0.15, C:0.61, G:0.01, T:0.23
Consensus pattern (33 bp):
CACCATCCTCATCCAGTCCCACCACACCCTCCT
Found at i:6830252 original size:28 final size:25
Alignment explanation
Indices: 6830183--6830306 Score: 71
Period size: 25 Copynumber: 4.8 Consensus size: 25
6830173 TAAGTGGCCC
6830183 AATTTTTTTTAACTTTT-AGGCCAA
1 AATTTTTTTTAACTTTTAAGGCCAA
6830207 AATTTTTTTTACCAACTTTTAAGGGGTCTC-A
1 AATTTTTTTT---AACTTTTAA--GG-C-CAA
* *
6830238 AATTTTTTTTAACTTTTAATAGCC-C
1 AATTTTTTTTAACTTTTAA-GGCCAA
*
6830263 AATTTTTTTTACCAACTTTTAA-G--AG
1 AATTTTTTTT---AACTTTTAAGGCCAA
*
6830288 ATTTTTTTTTAACTTTTAA
1 AATTTTTTTTAACTTTTAA
6830307 AAAATTTAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
22 9 0.11
24 10 0.12
25 20 0.24
26 2 0.02
27 8 0.10
28 19 0.23
30 2 0.02
31 12 0.14
32 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.07, T:0.52
Consensus pattern (25 bp):
AATTTTTTTTAACTTTTAAGGCCAA
Done.