Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 46 of 203
Found at i:15013646 original size:17 final size:17
Alignment explanation
Indices: 15013624--15013659 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15013614 GTATTCAAAT
15013624 AATTATAAAAATTATTA
1 AATTATAAAAATTATTA
*
15013641 AATTATTAAAATTATTA
1 AATTATAAAAATTATTA
15013658 AA
1 AA
15013660 AACAAATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTATAAAAATTATTA
Found at i:15013843 original size:21 final size:23
Alignment explanation
Indices: 15013803--15013844 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15013793 GAATTATAAG
15013803 ATATTATAAATAATTATTAAATA
1 ATATTATAAATAATTATTAAATA
*
15013826 ATATTTTAAA-AA-TATTAAA
1 ATATTATAAATAATTATTAAA
15013845 AACTATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTATAAATAATTATTAAATA
Found at i:15019158 original size:107 final size:107
Alignment explanation
Indices: 15018959--15019214 Score: 297
Period size: 107 Copynumber: 2.4 Consensus size: 107
15018949 TTTTAACCAC
15018959 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCACCAATTTAAGATCTT
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCACCAATTTAAGATCTT
* *
15019024 AGTCTTATACTTGAAAATTTTTTGAATCTCGCGGTTTGTCGA
66 AGACTTATACTTGAAAATTTTTCGAATCTCGCGGTTTGTCGA
* * * * * *
15019066 TTTAAGATTGCAATCTTATACTTTCAAGATATTT-C-AATCTTGGGGCTCGCCTATTTAAGAT-T
1 TTTAAGATCGCAACCTTATACTTACAAGAT-TTTCCAAATCTTGCGGCTCACCAATTTAAGATCT
* * *
15019128 GTA-ACATTATACTT-ACAGGATTTTTCGAATCTTGCGGTTTGTGGA
65 -TAGAC-TTATACTTGA-A-AATTTTTCGAATCTCGCGGTTTGTCGA
* * **
15019173 TTTAAGATCACAACCTTATACTTACATGATTTTTGAAATCTT
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTT
15019215 ATGGTTTTTC
Statistics
Matches: 125, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
105 3 0.02
106 37 0.30
107 76 0.61
108 9 0.07
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (107 bp):
TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCACCAATTTAAGATCTT
AGACTTATACTTGAAAATTTTTCGAATCTCGCGGTTTGTCGA
Found at i:15019192 original size:54 final size:54
Alignment explanation
Indices: 15018959--15019451 Score: 395
Period size: 54 Copynumber: 9.2 Consensus size: 54
15018949 TTTTAACCAC
* * *** *
15018959 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCACCAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
** ** * * *
15019013 TTTAAGATCTTAGTCTTATACTTGA-AA-ATTTTTTGAATCTCGCGGTTTGTCGA
1 TTTAAGATCGCAACCTTATACTT-ACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * * * * * * *
15019066 TTTAAGATTGCAATCTTATACTTTCAAGATATTTC-AATCTTGGGGCTCGCCTA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * * * * *
15019119 TTTAAGATTGTAACATTATACTTACAGGATTTTTCGAATCTTGCGGTTTGTGGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * ** * *
15019173 TTTAAGATCACAACCTTATACTTACATGATTTTT-GAAATCTTATGGTTTTTCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCG-AATCTTGCGGCTTGTCGA
* ** **
15019227 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATCTTGAAGCTTAACGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* *** *
15019281 TTTAAGATC-CTAACCTTATACTTACAAGATTTTTTGAATCTTTTAGTTTGTCGA
1 TTTAAGATCGC-AACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * * * * * **
15019335 TTTAAGATCACATCCTTATACTTTCGAGATTTTTTGAATCATGCGGCTTGTTAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * * * * * *
15019389 TTTAAGATCCCAGCCATATACTTACAAGATTTCTAGAATCTTGCAG-TTGCCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
15019442 TTTAAGATCG
1 TTTAAGATCG
15019452 TAAATTTCTC
Statistics
Matches: 345, Mismatches: 86, Indels: 17
0.77 0.19 0.04
Matches are distributed among these distances:
53 94 0.27
54 249 0.72
55 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (54 bp):
TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
Found at i:15019908 original size:15 final size:16
Alignment explanation
Indices: 15019889--15019926 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
15019879 GATGAAATTG
15019889 AAAAGATG-AAATAAT
1 AAAAGATGAAAATAAT
*
15019904 TAAAGATGATAAATAAT
1 AAAAGATGA-AAATAAT
15019921 AAAAGA
1 AAAAGA
15019927 AAAGAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 7 0.37
17 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (16 bp):
AAAAGATGAAAATAAT
Found at i:15020445 original size:5 final size:5
Alignment explanation
Indices: 15020435--15020468 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
15020425 GCCAAAGATG
*
15020435 TGAAT TGAAT TGAAT TGCAT TGAAT ATGAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT -TGAAT TGA
15020469 TTTTAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:15027654 original size:25 final size:25
Alignment explanation
Indices: 15027625--15027688 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
15027615 ATTGACTCTT
*
15027625 ATGAGCTTCCCGTTATACAGCTCAA
1 ATGAGCTTCCCGTTACACAGCTCAA
* ** *
15027650 ATGAGCTTCCCATTACATGGCTCAC
1 ATGAGCTTCCCGTTACACAGCTCAA
15027675 ATGAGCTTCCCGTT
1 ATGAGCTTCCCGTT
15027689 TATGTACTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACACAGCTCAA
Found at i:15039462 original size:31 final size:31
Alignment explanation
Indices: 15039408--15039475 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
15039398 TTAACAGCTT
* * *
15039408 GTGACTTTAATAAGAAATTTTGAATAGTTCA
1 GTGACTTAAATAAGAAATGTTGAATAATTCA
15039439 GTGACTTAAATGAA-AAATGTTGAATAATTCA
1 GTGACTTAAAT-AAGAAATGTTGAATAATTCA
*
15039470 ATGACT
1 GTGACT
15039476 GTAACTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.35
Consensus pattern (31 bp):
GTGACTTAAATAAGAAATGTTGAATAATTCA
Found at i:15040041 original size:21 final size:21
Alignment explanation
Indices: 15040012--15040055 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
15040002 CTTTGATTTT
* * *
15040012 ATTTTATTGTTACAGTATTCA
1 ATTTCATTGCTACAGTAATCA
*
15040033 ATTTCATTGCTATAGTAATCA
1 ATTTCATTGCTACAGTAATCA
15040054 AT
1 AT
15040056 GCTGTTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (21 bp):
ATTTCATTGCTACAGTAATCA
Found at i:15060958 original size:3 final size:3
Alignment explanation
Indices: 15060950--15060998 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
15060940 GAAGATGGCA
15060950 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
15060998 A
1 A
15060999 GGGTGAAGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15066801 original size:19 final size:17
Alignment explanation
Indices: 15066750--15066801 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
15066740 TTATATGTAA
*
15066750 TTTTTTATTTTTTTATT
1 TTTTTTATATTTTTATT
*
15066767 TATTATTATACTTTTTAGTT
1 T-TTTTTATA-TTTTTA-TT
15066787 TTTTTTATATATTTT
1 TTTTTTATAT-TTTT
15066802 CTATTTTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 7 0.25
19 17 0.61
20 3 0.11
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTTATATTTTTATT
Found at i:15067082 original size:24 final size:23
Alignment explanation
Indices: 15067049--15067111 Score: 99
Period size: 24 Copynumber: 2.7 Consensus size: 23
15067039 TTATTGATAT
15067049 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* *
15067073 TGTTCATGAACATGTTCATTTAA
1 TGTTCGTGAACATGTTCAATTAA
15067096 TGTTCGTGAACATGTT
1 TGTTCGTGAACATGTT
15067112 TGATTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 16 0.44
24 20 0.56
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:15067653 original size:18 final size:17
Alignment explanation
Indices: 15067630--15067694 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 17
15067620 ATCAGAATAT
15067630 CATTTAAAAATTATGAAA
1 CATTTAAAAATTAT-AAA
15067648 CATTTAAAAAATTA-AAA
1 CATTT-AAAAATTATAAA
*
15067665 -ATTTTAAAAATTTTAAA
1 CA-TTTAAAAATTATAAA
*
15067682 AATTTAGAAAATT
1 CATTTA-AAAATT
15067695 TTTGAAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 8 0.20
17 13 0.32
18 12 0.29
19 8 0.20
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
CATTTAAAAATTATAAA
Found at i:15067662 original size:26 final size:26
Alignment explanation
Indices: 15067633--15067695 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
15067623 AGAATATCAT
*
15067633 TTAAAAATTATGAAACA-TTTAAAAAA
1 TTAAAAATT-TGAAAAATTTTAAAAAA
* *
15067659 TTAAAAATTTTAAAAATTTTAAAAAT
1 TTAAAAATTTGAAAAATTTTAAAAAA
15067685 TTAGAAAATTT
1 TTA-AAAATTT
15067696 TTGAAAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 20 0.62
27 7 0.22
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (26 bp):
TTAAAAATTTGAAAAATTTTAAAAAA
Found at i:15067704 original size:10 final size:9
Alignment explanation
Indices: 15067632--15067696 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
15067622 CAGAATATCA
15067632 TTTAAAAAT
1 TTTAAAAAT
* *
15067641 TATGAAACA-
1 T-TTAAAAAT
15067650 TTTAAAAA-
1 TTTAAAAAT
*
15067658 ATTAAAAAT
1 TTTAAAAAT
15067667 TTTAAAAAT
1 TTTAAAAAT
15067676 TTTAAAAA-
1 TTTAAAAAT
15067684 TTTAGAAAAT
1 TTTA-AAAAT
15067694 TTT
1 TTT
15067697 TGAAAATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 16 0.35
9 22 0.48
10 8 0.17
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:15069412 original size:21 final size:21
Alignment explanation
Indices: 15069348--15069449 Score: 57
Period size: 21 Copynumber: 4.9 Consensus size: 21
15069338 TGGGTTTCCC
* *
15069348 TTCAGCTCTTTTGAGCTTAT-G
1 TTCAGCCCTTATGAGCTT-TCG
* * *
15069369 TTTAACCCTTATG-GGTTTCCG
1 TTCAGCCCTTATGAGCTTT-CG
*
15069390 TTCAGCTCTTATGAGCTTTCG
1 TTCAGCCCTTATGAGCTTTCG
* *
15069411 TTCAACCCTTACGAG-TTTCAG
1 TTCAGCCCTTATGAGCTTTC-G
* * *
15069432 TTTAGCACTTATGTGCTT
1 TTCAGCCCTTATGAGCTT
15069450 CTGTTTAGCC
Statistics
Matches: 59, Mismatches: 17, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.02
20 7 0.12
21 45 0.76
22 6 0.10
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (21 bp):
TTCAGCCCTTATGAGCTTTCG
Found at i:15069429 original size:42 final size:42
Alignment explanation
Indices: 15069316--15069449 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 42
15069306 TTTAACTCAC
* *
15069316 ATGAG-TTTCTGTTCAACCCTAATGGGTTTCCCTTCAGCTCTT
1 ATGAGCTTTC-GTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
* *
15069358 TTGAGCTTAT-GTTTAACCCTTATGGGTTTCCGTTCAGCTCTT
1 ATGAGCTT-TCGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
* * * * *
15069400 ATGAGCTTTCGTTCAACCCTTACGAGTTTCAGTTTAGCACTT
1 ATGAGCTTTCGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
*
15069442 ATGTGCTT
1 ATGAGCTT
15069450 CTGTTTAGCC
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 73 0.95
43 2 0.03
44 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (42 bp):
ATGAGCTTTCGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
Found at i:15072850 original size:20 final size:20
Alignment explanation
Indices: 15072804--15072850 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
15072794 TACGGACTAA
*
15072804 ATTGAAAAGATTTAAAATTT
1 ATTGAAAAAATTTAAAATTT
*
15072824 ATGGAAAAAATTCT-AAATTT
1 ATTGAAAAAATT-TAAAATTT
*
15072844 TTTGAAA
1 ATTGAAA
15072851 TACATGGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATTGAAAAAATTTAAAATTT
Found at i:15073495 original size:74 final size:74
Alignment explanation
Indices: 15073378--15073517 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 74
15073368 CTCATGAGCA
* * * * *
15073378 TCTCGATATTTGGCTCTTATGAGCTTCCTATTATATGATTCTTACGAGCTTCCCGTTTACGGCTC
1 TCTCGATAATTGGCTCTTATGAGCTTCCGATTAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
15073443 TTCAGAGTT
66 TTCAGAGTT
* * *
15073452 TCTCGATAATTGGCTCTTCA-GAGCTTCCCGA-TAAATGGCTCTTATGAGCTTCCCGTTAATGGC
1 TCTCGATAATTGGCTCTT-ATGAGCTT-CCGATTAAATGACTCTTACGAGCTTCCCGTTAACGGC
15073515 TCT
64 TCT
15073518 CTGGAGCTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
74 52 0.93
75 4 0.07
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (74 bp):
TCTCGATAATTGGCTCTTATGAGCTTCCGATTAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
TTCAGAGTT
Found at i:15073515 original size:49 final size:48
Alignment explanation
Indices: 15073388--15073553 Score: 113
Period size: 49 Copynumber: 3.4 Consensus size: 48
15073378 TCTCGATATT
** ** **
15073388 TGGCTCTTATGAGCTTCCTATTATATGATTCTT-ACGAGCTTCCCGTTTA
1 TGGCTCTTATGAGCTTCCCGTTA-ATGGCTCTTCA-GAGCTTCCCGTAAA
* * * *
15073437 CGGCTCTTCA-GAGTTTCTCGATAATTGGCTCTTCAGAGCTTCCCGATAAA
1 TGGCTCTT-ATGAGCTTCCCGTTAA-TGGCTCTTCAGAGCTTCCCG-TAAA
* * *
15073487 TGGCTCTTATGAGCTTCCCGTTAATGGCTC-TCTGGAGCTTCCTGTTACA
1 TGGCTCTTATGAGCTTCCCGTTAATGGCTCTTC-AGAGCTTCCCG-TAAA
**
15073536 TGGCTCACATGAGCTTCC
1 TGGCTCTTATGAGCTTCC
15073554 TGCTATATGG
Statistics
Matches: 91, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
48 3 0.03
49 66 0.73
50 22 0.24
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (48 bp):
TGGCTCTTATGAGCTTCCCGTTAATGGCTCTTCAGAGCTTCCCGTAAA
Found at i:15073549 original size:25 final size:24
Alignment explanation
Indices: 15073354--15073606 Score: 109
Period size: 25 Copynumber: 10.2 Consensus size: 24
15073344 CGAAAGACCA
* * *
15073354 TCCCGTTATTAGCTCTCATGAGCA
1 TCCCGTTAATGGCTCTCATGAGCT
* * * *
15073378 TCTCGATATTTGGCTCTTATGAGCT
1 TCCCGTTA-ATGGCTCTCATGAGCT
** ** * *
15073403 TCCTATTATATGATTCTTACGAGCT
1 TCCCGTTA-ATGGCTCTCATGAGCT
* * *
15073428 TCCCGTTTACGGCTCTTCA-GAGTT
1 TCCCGTTAATGGCTC-TCATGAGCT
* *
15073452 TCTCGATAATTGGCTCTTCA-GAGCT
1 TCCCGTTAA-TGGCTC-TCATGAGCT
* *
15073477 TCCCGATAAATGGCTCTTATGAGCT
1 TCCCG-TTAATGGCTCTCATGAGCT
15073502 TCCCGTTAATGGCTCTC-TGGAGCT
1 TCCCGTTAATGGCTCTCAT-GAGCT
* *
15073526 TCCTGTTACATGGCTCACATGAGCT
1 TCCCGTTA-ATGGCTCTCATGAGCT
* * * ** * *
15073551 TCCTGCTATATGGATCGAAAGAACT
1 TCCCGTTA-ATGGCTCTCATGAGCT
15073576 TCCCGTTAATGTGCTCAT-ATGAGCAT
1 TCCCGTTAATG-GCTC-TCATGAGC-T
15073602 TCCCG
1 TCCCG
15073607 AATATGAATT
Statistics
Matches: 171, Mismatches: 47, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
23 1 0.01
24 47 0.27
25 114 0.67
26 9 0.05
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
TCCCGTTAATGGCTCTCATGAGCT
Found at i:15077015 original size:63 final size:62
Alignment explanation
Indices: 15076928--15077066 Score: 156
Period size: 62 Copynumber: 2.2 Consensus size: 62
15076918 CGGTCTGGGT
* *
15076928 ACACGCCTGTGTCCCTGAACGTGTGGCTT-TTATACCACAAACAGTGAGTTACACGGCCTCAG-C
1 ACACGCCCGTGTCCCTGAACGTGTGG-TTCTT-TACCACAAACAGTGAATTACACGGCCT-AGAC
* * ** * * *
15076991 ACTCGCTCGTGTCCCTGGCCGTGTGGTTCTTTTCCTCAAACAGTGAATTGCACGGCCTAGAC
1 ACACGCCCGTGTCCCTGAACGTGTGGTTCTTTACCACAAACAGTGAATTACACGGCCTAGAC
15077053 ACACGCCCGTGTCC
1 ACACGCCCGTGTCC
15077067 GTTGCCTGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
61 2 0.03
62 38 0.60
63 23 0.37
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.25
Consensus pattern (62 bp):
ACACGCCCGTGTCCCTGAACGTGTGGTTCTTTACCACAAACAGTGAATTACACGGCCTAGAC
Found at i:15078008 original size:14 final size:13
Alignment explanation
Indices: 15077975--15078000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15077965 AGACTTTAAA
15077975 CACAAAACCAGAG
1 CACAAAACCAGAG
15077988 CACAAAACCAGAG
1 CACAAAACCAGAG
15078001 ATACAAAAAT
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:0.54, C:0.31, G:0.15, T:0.00
Consensus pattern (13 bp):
CACAAAACCAGAG
Found at i:15082326 original size:30 final size:30
Alignment explanation
Indices: 15082290--15082549 Score: 316
Period size: 30 Copynumber: 8.7 Consensus size: 30
15082280 GTATATGTTT
*
15082290 TATATATTGTCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
15082320 TATATATTGCCGAATTAATTT-T-TAT--A
1 TATATATTGCCGAATTGATTTGTATATGGA
*
15082346 TATATA--GCCGAATTGATTTGTATGTGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* **
15082374 TATACATTGTTGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
15082404 TATACATTGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
15082434 TATACATTGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
15082464 TATACATTACCGAATTGATTTGTATATGTA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
15082494 TATATATTGCCGAAATAATTTGTATATGTATACA
1 TATATATTGCCGAATTGATTTGTATATG----GA
15082528 TATATATTGCCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
15082550 AGCATTGGAT
Statistics
Matches: 201, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
24 12 0.06
25 1 0.00
26 9 0.04
28 9 0.04
29 1 0.00
30 148 0.74
34 21 0.10
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (30 bp):
TATATATTGCCGAATTGATTTGTATATGGA
Found at i:15082350 original size:24 final size:24
Alignment explanation
Indices: 15082319--15082364 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
15082309 TTGTATATGG
*
15082319 ATATATATTGCCGAATTAATTTTT
1 ATATATATAGCCGAATTAATTTTT
*
15082343 ATATATATAGCCGAATTGATTT
1 ATATATATAGCCGAATTAATTT
15082365 GTATGTGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (24 bp):
ATATATATAGCCGAATTAATTTTT
Found at i:15091246 original size:44 final size:40
Alignment explanation
Indices: 15091113--15091261 Score: 136
Period size: 42 Copynumber: 3.5 Consensus size: 40
15091103 ATACCAACGC
* * * *
15091113 CCCAGACGTGTTCTTACATGTAATCAATATCGATGCCACTGT
1 CCCAGACATGGTCTTACACGAAATCAA-ATCGATGCCAC-GT
* * *
15091155 CCCAGACAGGGTCTTACACGAAATCAAATATGATGCCGATGT
1 CCCAGACATGGTCTTACACGAAATCAAAT-CGATGCC-ACGT
* *
15091197 CCCAGACATGGTCTTATACATAAATCTCAAATCGATGCCAACGT
1 CCCAGACATGGTCTTACAC-GAAA--TCAAATCGATGCC-ACGT
*
15091241 CCCAGACGTGGTCTTACACGA
1 CCCAGACATGGTCTTACACGA
15091262 TAACACATAT
Statistics
Matches: 86, Mismatches: 16, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 47 0.55
43 5 0.06
44 26 0.30
45 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (40 bp):
CCCAGACATGGTCTTACACGAAATCAAATCGATGCCACGT
Found at i:15092429 original size:14 final size:15
Alignment explanation
Indices: 15092410--15092438 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15092400 TCACGAAACT
15092410 TTCACACAT-ATAAA
1 TTCACACATAATAAA
15092424 TTCACACATAATAAA
1 TTCACACATAATAAA
15092439 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:15093148 original size:30 final size:30
Alignment explanation
Indices: 15093123--15093415 Score: 316
Period size: 30 Copynumber: 9.4 Consensus size: 30
15093113 ATATATTTTT
* *
15093123 GAATTGATTTGTATATGGATATATATATTGTC
1 GAATTGATTTGTATATGG--ATATACATTGCC
* * *
15093155 GAATTAATTTGTATATAGATAAATATATATATAGCC
1 GAATTGATTTGTATAT-G---GATATACAT-T-GCC
* ***
15093191 GAATTGATTTGTATATGAATATACATTATT
1 GAATTGATTTGTATATGGATATACATTGCC
*
15093221 GAATTGATTTGTTTATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
15093251 GAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
*
15093281 AAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
* *
15093311 GAATTGATTTGTATATAGATATACATTACC
1 GAATTGATTTGTATATGGATATACATTGCC
* *
15093341 GAATTGATTTGTATATGTATATATATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
* * *
15093371 GAAATGATTTGTATATGTATACATATATATTGCC
1 GAATTGATTTGTATATG----GATATACATTGCC
15093405 GAATTGATTTG
1 GAATTGATTTG
15093416 AGCATTGGAT
Statistics
Matches: 226, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
30 152 0.67
31 1 0.00
32 23 0.10
33 1 0.00
34 30 0.13
35 2 0.01
36 17 0.08
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (30 bp):
GAATTGATTTGTATATGGATATACATTGCC
Found at i:15093637 original size:41 final size:40
Alignment explanation
Indices: 15093580--15093656 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
15093570 AGTGAAAAAA
**
15093580 CGTATAAGACCATGTCTGGGACATTGGCATCGTATATAATT
1 CGTATAAGACCATGTCTGGGACAGGGGCATCG-ATATAATT
15093621 CGTATAAGA-CACTGTCTGGGACAGGGGCATCGATAT
1 CGTATAAGACCA-TGTCTGGGACAGGGGCATCGATAT
15093657 GTGTTAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 6 0.18
41 27 0.82
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (40 bp):
CGTATAAGACCATGTCTGGGACAGGGGCATCGATATAATT
Found at i:15099313 original size:24 final size:24
Alignment explanation
Indices: 15099284--15099424 Score: 81
Period size: 24 Copynumber: 5.7 Consensus size: 24
15099274 TTATATAATA
*
15099284 GGAAGCTCATAAGAGCCATAATTG
1 GGAAGCTCATAAGAGCCATAATCG
**
15099308 GGAAGCTCATGCGAGCC-TATATCG
1 GGAAGCTCATAAGAGCCATA-ATCG
* *
15099332 GGAAGCTCCA-GAGAGCCATTAATCA
1 GGAAGCT-CATAAGAGCCA-TAATCG
* * **
15099357 GTAAGCTCATAAAAGAATCTTTAATCG
1 GGAAGCTCAT--AAG-AGCCATAATCG
* *
15099384 GGAAGCTC-TGGAGAGCCATATATTG
1 GGAAGCTCAT-AAGAGCCATA-ATCG
*
15099409 GGACGCTCATAAGAGC
1 GGAAGCTCATAAGAGC
15099425 TGCAGTGTGT
Statistics
Matches: 87, Mismatches: 20, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
23 2 0.02
24 37 0.43
25 28 0.32
26 4 0.05
27 14 0.16
28 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:15099504 original size:24 final size:24
Alignment explanation
Indices: 15099470--15099536 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
15099460 AAATTGGGAT
*
15099470 GCTCATAAGAGCTATTAAC-GAGAA
1 GCTCATGAGAGCTATTAACAG-GAA
* **
15099494 GCTCATGAGAGCTATATATCAGGGT
1 GCTCATGAGAGCTAT-TAACAGGAA
15099519 GCTCATGAGAGCTATTAA
1 GCTCATGAGAGCTATTAA
15099537 TGGGACGCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 16 0.44
25 19 0.53
26 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (24 bp):
GCTCATGAGAGCTATTAACAGGAA
Found at i:15104132 original size:126 final size:126
Alignment explanation
Indices: 15103907--15104145 Score: 442
Period size: 126 Copynumber: 1.9 Consensus size: 126
15103897 TTCACAATCT
*
15103907 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATTTTAATAA
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATATTAATAA
*
15103972 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATTAGTATCTTTTAAAAC
66 ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAGTATCTTTTAAAAC
* *
15104033 CAATATAAGATCCATTATAAATATCTTTTAAAACCAATGGATTAACCATTACAAGATATTAATAT
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATATTAATAA
15104098 ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAG
66 ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAG
15104146 AATATATTTG
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (126 bp):
CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATATTAATAA
ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAGTATCTTTTAAAAC
Found at i:15108227 original size:22 final size:22
Alignment explanation
Indices: 15108202--15108273 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
15108192 TAGTAATAAT
*
15108202 ATAATAACGAAATGACAACAAA
1 ATAAAAACGAAATGACAACAAA
*
15108224 ATAAAAAAAACGAGATGACAACAAA
1 AT---AAAAACGAAATGACAACAAA
* * * *
15108249 ACAACAATGAAATGTCAACAAA
1 ATAAAAACGAAATGACAACAAA
15108271 ATA
1 ATA
15108274 GAAAGTTTAG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 20 0.51
25 19 0.49
ACGTcount: A:0.64, C:0.14, G:0.10, T:0.12
Consensus pattern (22 bp):
ATAAAAACGAAATGACAACAAA
Found at i:15109346 original size:3 final size:3
Alignment explanation
Indices: 15109338--15109370 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15109328 AGTACAAATG
15109338 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15109371 GACAGGTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15111101 original size:42 final size:42
Alignment explanation
Indices: 15111053--15111138 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 42
15111043 AAGTTTAATG
*
15111053 TATATAC-CGTGGAAGAAGAGTAATACAAATTGTTTACAACTC
1 TATATACAC-TGGAAGAAGAGGAATACAAATTGTTTACAACTC
15111095 TATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
1 TATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
15111137 TA
1 TA
15111139 GGAAGTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (42 bp):
TATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
Found at i:15114738 original size:28 final size:28
Alignment explanation
Indices: 15114490--15114737 Score: 356
Period size: 28 Copynumber: 8.9 Consensus size: 28
15114480 GCTGTAACAA
* *
15114490 TGTGGGCCTGAGCCCAGTAACAGTA-CAG
1 TGTGGGCCTTAGCCCAAT-ACAGTATCAG
*
15114518 TGTGGGCCTTAGCCCAATACAGTAACAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
* *
15114546 TGTGTGCCTTAGCCCAATACAATATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
*
15114574 TGTGGGCCTTAGCCTAATACAGTATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
15114602 TGTGGGCCTTAGCCCAATACAGTATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
* *
15114630 TGTGGACTTTAGCCCAATACAGTATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
* * *
15114658 TGTGGGCTTTAGCCCAATACAATATTAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
15114686 TGTGGGCCTTAGCCCAATACAGTAAT-AG
1 TGTGGGCCTTAGCCCAATACAGT-ATCAG
*
15114714 TGTGGGCCTTAACCCAATACAGTA
1 TGTGGGCCTTAGCCCAATACAGTA
15114738 ACCAATACAG
Statistics
Matches: 201, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
27 7 0.03
28 192 0.96
29 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTATCAG
Found at i:15114744 original size:12 final size:12
Alignment explanation
Indices: 15114727--15114761 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
15114717 GGGCCTTAAC
15114727 CCAATACAGTAA
1 CCAATACAGTAA
15114739 CCAATACAGTAA
1 CCAATACAGTAA
15114751 CCAATACAGTA
1 CCAATACAGTA
15114762 CAATAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.26, G:0.09, T:0.17
Consensus pattern (12 bp):
CCAATACAGTAA
Found at i:15114888 original size:26 final size:26
Alignment explanation
Indices: 15114858--15114921 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
15114848 AACACACTAA
*
15114858 TATCGCAGCATAACTGTCAGTAATAG
1 TATCGCAGCAAAACTGTCAGTAATAG
* *
15114884 TATCGCAACAAAACTGTCGGTAATAG
1 TATCGCAGCAAAACTGTCAGTAATAG
15114910 TATCGCAGCAAA
1 TATCGCAGCAAA
15114922 GCTGCCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (26 bp):
TATCGCAGCAAAACTGTCAGTAATAG
Found at i:15115139 original size:26 final size:27
Alignment explanation
Indices: 15115077--15115279 Score: 220
Period size: 27 Copynumber: 7.6 Consensus size: 27
15115067 GGTATAACAA
* *
15115077 TCATTTTA-CCTGATGGGGGTATTTCGG
1 TCATTTTACCCT-TTGGGGGTATTTCAG
** *
15115104 TCATTTTACCCTTTGAAGGTATTT-TG
1 TCATTTTACCCTTTGGGGGTATTTCAG
* *
15115130 TCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTTTGGGGGTATTTCAG
15115157 TCATTTTA-CCTTATGGGGGTATTTCAG
1 TCATTTTACCCTT-TGGGGGTATTTCAG
* *
15115184 TCATTTTATCCTTTGGGGGTATTTCAA
1 TCATTTTACCCTTTGGGGGTATTTCAG
*
15115211 TCATTTTACCCTTTGGGGGTAGTTC-G
1 TCATTTTACCCTTTGGGGGTATTTCAG
* *
15115237 ATCATTTTACCATTT-GGGGAATTTCGAG
1 -TCATTTTACCCTTTGGGGGTATTTC-AG
15115265 -CATTTTACCCTTTGG
1 TCATTTTACCCTTTGG
15115280 CGACTTAGGT
Statistics
Matches: 151, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
26 46 0.30
27 97 0.64
28 8 0.05
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTTGGGGGTATTTCAG
Found at i:15115139 original size:53 final size:53
Alignment explanation
Indices: 15115077--15115279 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
15115067 GGTATAACAA
* ** *
15115077 TCATTTTA-CCTGATGGGGGTATTTCGGTCATTTTACCCTTTGAAGGTATTTTG
1 TCATTTTACCCT-ATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTAG
*
15115130 TCATTTTACCCTATGAGGGTATTTCAGTCATTTTA-CCTTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTT-TGGGGGTATTT-AG
* * * * *
15115184 TCATTTTATCCTTTGGGGGTATTTCAATCATTTTACCCTTTGGGGGTAGTTCG
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTAG
* * *
15115237 ATCATTTTACCAT-TTGGGGAATTTCGAG-CATTTTACCCTTTGG
1 -TCATTTTACCCTATGGGGGTATTTC-AGTCATTTTACCCTTTGG
15115280 CGACTTAGGT
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
52 4 0.03
53 64 0.50
54 56 0.44
55 4 0.03
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTAG
Found at i:15115187 original size:80 final size:81
Alignment explanation
Indices: 15115076--15115278 Score: 245
Period size: 80 Copynumber: 2.5 Consensus size: 81
15115066 GGGTATAACA
* * **
15115076 ATCATTTTACCTGATGGGGGTATTTCGGTCATTTTACCCTTTGAAGGTATTT-TGTCATTTTACC
1 ATCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTTTGAAGGTATTTCAATCATTTTACC
*
15115140 CTATGAGGGTATTTC-
66 CTATGAGGGTAGTTCG
* **
15115155 AGTCATTTTACCTTATGGGGGTATTTCAGTCATTTTATCCTTTGGGGGTATTTCAATCATTTTAC
1 A-TCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTTTGAAGGTATTTCAATCATTTTAC
* *
15115220 CCTTTGGGGGTAGTTCG
65 CCTATGAGGGTAGTTCG
*
15115237 ATCATTTTACCATT-T-GGGGAATTTCGAG-CATTTTACCCTTTG
1 ATCATTTTACC-TTATGGGGGTATTTC-AGTCATTTTACCCTTTG
15115279 GCGACTTAGG
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
79 1 0.01
80 68 0.64
81 35 0.33
82 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (81 bp):
ATCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTTTGAAGGTATTTCAATCATTTTACC
CTATGAGGGTAGTTCG
Found at i:15120989 original size:22 final size:22
Alignment explanation
Indices: 15120964--15121020 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
15120954 GATTTTTATG
*
15120964 TTTTAAATATATTAATATATTA
1 TTTTAATTATATTAATATATTA
*
15120986 TTTT-ATTATA-AAATATATTA
1 TTTTAATTATATTAATATATTA
*
15121006 TATTATATTATATTA
1 TTTTA-ATTATATTA
15121021 TTATGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 12 0.43
21 5 0.18
22 10 0.36
23 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAATTATATTAATATATTA
Found at i:15121002 original size:20 final size:22
Alignment explanation
Indices: 15120977--15121017 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
15120967 TAAATATATT
15120977 AATATATTAT-TT-TATTATAA
1 AATATATTATATTATATTATAA
15120997 AATATATTATATTATATTATA
1 AATATATTATATTATATTATA
15121018 TTATTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:15121013 original size:30 final size:28
Alignment explanation
Indices: 15120968--15121024 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
15120958 TTTATGTTTT
*
15120968 AAATATATTAATATATTATTTTATTATA
1 AAATATATTAATATATTATATTATTATA
15120996 AAATATATTATATTATATTATATTATTAT
1 AAATATATTA-A-TATATTATATTATTAT
15121025 GTAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 10 0.38
29 1 0.04
30 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AAATATATTAATATATTATATTATTATA
Found at i:15121264 original size:16 final size:17
Alignment explanation
Indices: 15121243--15121274 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15121233 CAGGGGAGAA
15121243 AGAAAGAAA-GAAAAAG
1 AGAAAGAAAGGAAAAAG
15121259 AGAAAGAAAGGAAAAA
1 AGAAAGAAAGGAAAAA
15121275 CTAGGGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGAAAAAG
Found at i:15122320 original size:45 final size:44
Alignment explanation
Indices: 15122247--15122396 Score: 171
Period size: 45 Copynumber: 3.4 Consensus size: 44
15122237 ATGTGCCGAC
* * *
15122247 TACTGTTACTGTTACCAATTTGTCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTAATTCGT-ACTTTGTGTGTCGAATATTGT
* *
15122292 TTCTGTTACTGTTACTGATTCGATACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACTAATTCG-TACTTTGTGTGTCGAATATTGT
*
15122337 TACTGTTACTGTTAAC-AATTCGGCAC--TGTGTGTCGAATATTGT
1 TACTGTTACTGTT-ACTAATTC-GTACTTTGTGTGTCGAATATTGT
*
15122380 TACCGTTACTGATTACT
1 TACTGTTACTG-TTACT
15122397 GTTTACTGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
43 29 0.32
44 2 0.02
45 56 0.62
46 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.44
Consensus pattern (44 bp):
TACTGTTACTGTTACTAATTCGTACTTTGTGTGTCGAATATTGT
Found at i:15128383 original size:22 final size:22
Alignment explanation
Indices: 15128358--15128414 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
15128348 GATTTTTATG
*
15128358 TTTTAAATATATTAATATATTA
1 TTTTAATTATATTAATATATTA
*
15128380 TTTT-ATTATA-AAATATATTA
1 TTTTAATTATATTAATATATTA
*
15128400 TATTATATTATATTA
1 TTTTA-ATTATATTA
15128415 TTATGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 12 0.43
21 5 0.18
22 10 0.36
23 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAATTATATTAATATATTA
Found at i:15128396 original size:20 final size:22
Alignment explanation
Indices: 15128371--15128411 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
15128361 TAAATATATT
15128371 AATATATTAT-TT-TATTATAA
1 AATATATTATATTATATTATAA
15128391 AATATATTATATTATATTATA
1 AATATATTATATTATATTATA
15128412 TTATTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:15128407 original size:30 final size:28
Alignment explanation
Indices: 15128362--15128418 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
15128352 TTTATGTTTT
*
15128362 AAATATATTAATATATTATTTTATTATA
1 AAATATATTAATATATTATATTATTATA
15128390 AAATATATTATATTATATTATATTATTAT
1 AAATATATTA-A-TATATTATATTATTAT
15128419 GTAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 10 0.38
29 1 0.04
30 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AAATATATTAATATATTATATTATTATA
Found at i:15128658 original size:16 final size:17
Alignment explanation
Indices: 15128637--15128668 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15128627 CAGGGGAGAA
15128637 AGAAAGAAA-GAAAAAG
1 AGAAAGAAAGGAAAAAG
15128653 AGAAAGAAAGGAAAAA
1 AGAAAGAAAGGAAAAA
15128669 CTAGGGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGAAAAAG
Found at i:15129713 original size:45 final size:45
Alignment explanation
Indices: 15129648--15129792 Score: 247
Period size: 45 Copynumber: 3.2 Consensus size: 45
15129638 ATGTGCCGAC
*
15129648 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
* *
15129693 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
15129738 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
15129783 TA-TCGTTACT
1 TACT-GTTACT
15129793 TATTACTGTT
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 1 0.01
45 93 0.99
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
Found at i:15138038 original size:11 final size:12
Alignment explanation
Indices: 15138014--15138039 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15138004 CCAAGCCCCG
15138014 TTTTTAATGTTT
1 TTTTTAATGTTT
15138026 TTTTTAATGTTT
1 TTTTTAATGTTT
15138038 TT
1 TT
15138040 AGAGTCCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTAATGTTT
Found at i:15138812 original size:56 final size:50
Alignment explanation
Indices: 15138746--15139030 Score: 230
Period size: 50 Copynumber: 5.6 Consensus size: 50
15138736 GGGAATGAGA
* * * *
15138746 TCCCATGTAAGACCATGTCTGGTACATGGCATTGGCATTATTGAGGTTATGAGAAG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGC---ATTGA-G--ATGAGAGG
* * *
15138802 TCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCGAGATGAGAGG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
* * *
15138852 TACCCTGTAAGACCATATCTGGGACATGGCATGGGCACTGAGATGAGAGG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
* * *** * **
15138902 TCCCCCGTAAGACCGTGTCTGGGACATGGCATGGGCACCAATATGAGAAC
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
** * * ** * * * * **
15138952 TCCTATGTAAGACCATATCTGGGATATGGCATTAGCAGT-ACAAGAAACT
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
*
15139001 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCCTGTAAGACCATGTCTGGGACATGGC
15139031 TTTCGCATGT
Statistics
Matches: 191, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
49 32 0.17
50 121 0.63
52 1 0.01
53 4 0.02
56 33 0.17
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
Found at i:15138914 original size:100 final size:99
Alignment explanation
Indices: 15138794--15139038 Score: 269
Period size: 100 Copynumber: 2.5 Consensus size: 99
15138784 TATTGAGGTT
* ** *
15138794 ATGAGAAGTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCGAGATGAGAGGTACC-CT
1 ATGAGAAGTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCAAGATGAGAACT-CCTAT
* *
15138858 GTAAGACCATATCTGGGACATGGCATGGGCACTGAG
65 GTAAGACCATATCTGGGACATGGCATGAGCACT-AC
* * * * * * *
15138894 ATGAGAGGTCCCCCGTAAGACCGTGTCTGGGACATGGCATGGGCACCAATATGAGAACTCCTATG
1 ATGAGAAGTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCAAGATGAGAACTCCTATG
* * *
15138959 TAAGACCATATCTGGGATATGGCATTAGCAGTAC
66 TAAGACCATATCTGGGACATGGCATGAGCACTAC
* * * *
15138993 AAGA-AACTTCCCATGTAAGACCATGTCTGGGACATGGCTTTCGCAT
1 ATGAGAA-GTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCAT
15139039 GTTATTATCA
Statistics
Matches: 117, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
98 1 0.01
99 37 0.32
100 79 0.68
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (99 bp):
ATGAGAAGTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCAAGATGAGAACTCCTATG
TAAGACCATATCTGGGACATGGCATGAGCACTAC
Found at i:15139247 original size:20 final size:20
Alignment explanation
Indices: 15139222--15139260 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15139212 TGAGTTATTT
15139222 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
15139242 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
15139261 GAACAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:15143486 original size:56 final size:57
Alignment explanation
Indices: 15143400--15143513 Score: 212
Period size: 56 Copynumber: 2.0 Consensus size: 57
15143390 ACCCGGGTAA
*
15143400 GGCAAACATTGTTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAA-TTT
1 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
15143456 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
1 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
15143513 G
1 G
15143514 AATACTAGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 52 0.93
57 4 0.07
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (57 bp):
GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
Found at i:15146269 original size:50 final size:50
Alignment explanation
Indices: 15146211--15146334 Score: 158
Period size: 50 Copynumber: 2.5 Consensus size: 50
15146201 AATTGAGGTT
* * * *
15146211 ATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* * *
15146261 ATGAGAGGTCCCCCGTAAGACTATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
** *
15146311 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCCTGTAAGACCAT
15146335 ATTTGGGATA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:15146959 original size:56 final size:57
Alignment explanation
Indices: 15146873--15146986 Score: 212
Period size: 56 Copynumber: 2.0 Consensus size: 57
15146863 ACCCGGGTAA
*
15146873 GGCAAACATTGTTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAA-TTT
1 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
15146929 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
1 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
15146986 G
1 G
15146987 AATACTAGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 52 0.93
57 4 0.07
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (57 bp):
GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
Found at i:15149742 original size:50 final size:50
Alignment explanation
Indices: 15149684--15149807 Score: 158
Period size: 50 Copynumber: 2.5 Consensus size: 50
15149674 AATTGAGGTT
* * * *
15149684 ATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* * *
15149734 ATGAGAGGTCCCCCGTAAGACTATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
** *
15149784 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCCTGTAAGACCAT
15149808 ATTTGGGATA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:15150094 original size:20 final size:20
Alignment explanation
Indices: 15150069--15150107 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15150059 TGATTTATTT
15150069 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
15150089 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
15150108 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:15160486 original size:26 final size:27
Alignment explanation
Indices: 15160420--15160487 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
15160410 AACTTATATG
**
15160420 AAATGACTGTTATGCCCCCATGTGGTA
1 AAATGACTGTTATGCCCCCATGTCATA
* *
15160447 AAATGATTGTTATGCCCCTATGTCATA
1 AAATGACTGTTATGCCCCCATGTCATA
15160474 AAATGACTG-TATGC
1 AAATGACTGTTATGC
15160488 TTTATGTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
AAATGACTGTTATGCCCCCATGTCATA
Found at i:15164836 original size:50 final size:50
Alignment explanation
Indices: 15164712--15164960 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
15164702 GATAATAACA
* * ** * *
15164712 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
15164763 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
15164813 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
15164863 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
15164918 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
15164961 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:15164890 original size:100 final size:104
Alignment explanation
Indices: 15164711--15164960 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
15164701 TGATAATAAC
**
15164711 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
15164776 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
15164813 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
15164876 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
15164918 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15164961 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:15165076 original size:13 final size:13
Alignment explanation
Indices: 15165055--15165086 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15165045 GCTTGGATCA
*
15165055 TCATCAAATAAAT
1 TCATAAAATAAAT
15165068 TCATAAAATAAAT
1 TCATAAAATAAAT
15165081 TCATAA
1 TCATAA
15165087 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:15165333 original size:30 final size:30
Alignment explanation
Indices: 15165298--15165355 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15165288 CCTCGACTCT
*
15165298 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
15165328 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
15165356 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:15170968 original size:282 final size:282
Alignment explanation
Indices: 15170464--15171002 Score: 1033
Period size: 282 Copynumber: 1.9 Consensus size: 282
15170454 CATTCTTCCG
*
15170464 GTGTACAAGATAATTCTTCAAAAACCCTGATGGTATTCTCAAGCCAGAATTCTGCTTTTTCTGCA
1 GTGTACAAGATAATTCTTCAAAAACCCTGATGGTATTCTCAAGCCAAAATTCTGCTTTTTCTGCA
15170529 TCGTCATCTTTGGTAGCCCGAAATTCTTCAGCCCCTTGCTTCCTAATCTTATCAACAGGTGGTCT
66 TCGTCATCTTTGGTAGCCCGAAATTCTTCAGCCCCTTGCTTCCTAATCTTATCAACAGGTGGTCT
15170594 CTCCCTGATAAATATACCTGCAGCTAGGGAAGCTACATGGGGAACCTGTGAATCTTGAGGGGGTG
131 CTCCCTGATAAATATACCTGCAGCTAGGGAAGCTACATGGGGAACCTGTGAATCTTGAGGGGGTG
*
15170659 GAGGTCTTACAGCGGGATTCATACGAACGAACTCGGCAAACCAATCAGTCATGGCTTGGAAGAAG
196 GAGGTCTTACAGCCGGATTCATACGAACGAACTCGGCAAACCAATCAGTCATGGCTTGGAAGAAG
15170724 GCTTCTCTAGCTCCTCCTCCCT
261 GCTTCTCTAGCTCCTCCTCCCT
15170746 GTGTACAAGATAATTCTTCAAAAACCCTGATGGTATTCTCAAGCCAAAATTCTGCTTTTTCTGCA
1 GTGTACAAGATAATTCTTCAAAAACCCTGATGGTATTCTCAAGCCAAAATTCTGCTTTTTCTGCA
*
15170811 TCGTTATCTTTGGTAGCCCGAAATTCTTCAGCCCCTTGCTTCCTAATCTTATCAACAGGTGGTCT
66 TCGTCATCTTTGGTAGCCCGAAATTCTTCAGCCCCTTGCTTCCTAATCTTATCAACAGGTGGTCT
*
15170876 CTCCCTGATAAATATACCTGCAGCTGGGGAAGCTACATGGGGAACCTGTGAATCTTGAGGGGGTG
131 CTCCCTGATAAATATACCTGCAGCTAGGGAAGCTACATGGGGAACCTGTGAATCTTGAGGGGGTG
*
15170941 GAGGTCTTACAGCCGGATTCGTACGAACGAACTCGGCAAACCAATCAGTCATGGCTTGGAAG
196 GAGGTCTTACAGCCGGATTCATACGAACGAACTCGGCAAACCAATCAGTCATGGCTTGGAAG
15171003 GACCTCTAGT
Statistics
Matches: 252, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
282 252 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (282 bp):
GTGTACAAGATAATTCTTCAAAAACCCTGATGGTATTCTCAAGCCAAAATTCTGCTTTTTCTGCA
TCGTCATCTTTGGTAGCCCGAAATTCTTCAGCCCCTTGCTTCCTAATCTTATCAACAGGTGGTCT
CTCCCTGATAAATATACCTGCAGCTAGGGAAGCTACATGGGGAACCTGTGAATCTTGAGGGGGTG
GAGGTCTTACAGCCGGATTCATACGAACGAACTCGGCAAACCAATCAGTCATGGCTTGGAAGAAG
GCTTCTCTAGCTCCTCCTCCCT
Found at i:15172053 original size:26 final size:26
Alignment explanation
Indices: 15172024--15172105 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
15172014 TGTCCCAGAC
15172024 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
* ** * **
15172050 ATGGTGC--CCATGCCATG-TCCCAGAC
1 ATGGT-CTTACATGGGATGTTCTC-GTG
15172075 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
15172101 ATGGT
1 ATGGT
15172106 GCCCATGCCA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 18 0.46
27 4 0.10
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGGTCTTACATGGGATGTTCTCGTG
Found at i:15172067 original size:25 final size:25
Alignment explanation
Indices: 15172039--15172118 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
15172029 CTTACATGGG
15172039 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
* ** * **
15172064 ATG-TCCCAGACATGGT-CTTACATGGG
1 ATGTTCTC-GTGATGGTGC--CCATGCC
15172090 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
15172115 ATGT
1 ATGT
15172119 CCCAGACATG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 4 0.11
25 17 0.45
26 13 0.34
27 4 0.11
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (25 bp):
ATGTTCTCGTGATGGTGCCCATGCC
Found at i:15172082 original size:51 final size:52
Alignment explanation
Indices: 15172010--15172249 Score: 310
Period size: 51 Copynumber: 4.6 Consensus size: 52
15172000 ACATGCCAAA
**
15172010 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATAGGTGCCCAT
**
15172061 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATAGGTGCCCAT
* *
15172112 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATAGGTGCCCAT
* * * *
15172162 GGCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGA---T-AGG-TGCCCAT
15172218 GCCATGTCCCAGACATGGTCTTACATGGGATC
1 GCCATGTCCCAGACATGGTCTTACATGGGATC
15172250 TCTTTACCCA
Statistics
Matches: 170, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
49 1 0.01
50 50 0.29
51 81 0.48
54 1 0.01
55 2 0.01
56 34 0.20
57 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.27
Consensus pattern (52 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATAGGTGCCCAT
Found at i:15172129 original size:25 final size:25
Alignment explanation
Indices: 15172050--15172130 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
15172040 TGTTCTCGTG
15172050 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
* ** * **
15172075 ATGGT-CTTACATGGGATGTTCTC-GTG
1 ATGGTGC--CCATGCCATG-TCCCAGAC
15172101 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
15172126 ATGGT
1 ATGGT
15172131 CTTACATGGG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 18 0.46
26 13 0.33
27 4 0.10
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGGTGCCCATGCCATGTCCCAGAC
Found at i:15172368 original size:13 final size:13
Alignment explanation
Indices: 15172347--15172378 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15172337 GCTTGGATCA
*
15172347 TCATCAAATAAAT
1 TCATAAAATAAAT
15172360 TCATAAAATAAAT
1 TCATAAAATAAAT
15172373 TCATAA
1 TCATAA
15172379 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:15172625 original size:30 final size:30
Alignment explanation
Indices: 15172590--15172647 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15172580 CTTCGACGCT
*
15172590 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
15172620 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
15172648 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:15173341 original size:13 final size:13
Alignment explanation
Indices: 15173323--15173348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15173313 GCCCAAACGT
15173323 CGAAATTTTCAAA
1 CGAAATTTTCAAA
15173336 CGAAATTTTCAAA
1 CGAAATTTTCAAA
15173349 AAAATCATTT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:15179498 original size:23 final size:23
Alignment explanation
Indices: 15179473--15179515 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
15179463 TTTTTTTTTA
15179473 AAAAAAAGAGAAATC-GAATAAG
1 AAAAAAAGAGAAATCGGAATAAG
*
15179495 AAAAAAAGGGAAATCGGAATA
1 AAAAAAAGAGAAATCGGAATA
15179516 CAAAATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (23 bp):
AAAAAAAGAGAAATCGGAATAAG
Found at i:15179520 original size:22 final size:22
Alignment explanation
Indices: 15179473--15179520 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15179463 TTTTTTTTTA
*
15179473 AAAAAAAGAGAAATCGAATAAG
1 AAAAAAAGAGAAATCGAATAAC
*
15179495 AAAAAAAGGGAAATCGGAAT-AC
1 AAAAAAAGAGAAATC-GAATAAC
15179517 AAAA
1 AAAA
15179521 TCGAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (22 bp):
AAAAAAAGAGAAATCGAATAAC
Found at i:15180453 original size:3 final size:3
Alignment explanation
Indices: 15180447--15180508 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
15180437 TTTGTTCTTC
* * * *
15180447 TTA TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A
15180494 TTA TTA TTTA TTA TT
1 TTA TTA -TTA TTA TT
15180509 TATTTTTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 40 0.83
4 8 0.17
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15180504 original size:24 final size:22
Alignment explanation
Indices: 15180447--15180515 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 22
15180437 TTTGTTCTTC
*
15180447 TTATTATTATTATTCTCATTATTA
1 TTATTATTATTATT-T-ATTTTTA
*
15180471 TTATTGTTATTATTTATTTTTCA
1 TTATTATTATTATTTATTTTT-A
15180494 TTATTATTTATTATTTATTTTT
1 TTATTA-TTATTATTTATTTTT
15180516 TAAAATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.12
23 7 0.17
24 28 0.70
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (22 bp):
TTATTATTATTATTTATTTTTA
Found at i:15180676 original size:15 final size:16
Alignment explanation
Indices: 15180658--15180687 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15180648 CGTACATCAT
15180658 CGTTTCA-TTTTTATA
1 CGTTTCACTTTTTATA
15180673 CGTTTCACTTTTTAT
1 CGTTTCACTTTTTAT
15180688 TTTATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.60
Consensus pattern (16 bp):
CGTTTCACTTTTTATA
Found at i:15182895 original size:19 final size:19
Alignment explanation
Indices: 15182871--15182908 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15182861 TTATTCTTAG
15182871 ATTCATTTGTTCTTTGGAT
1 ATTCATTTGTTCTTTGGAT
15182890 ATTCATTTGTTCTTTGGAT
1 ATTCATTTGTTCTTTGGAT
15182909 CTTCCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.58
Consensus pattern (19 bp):
ATTCATTTGTTCTTTGGAT
Found at i:15189929 original size:44 final size:44
Alignment explanation
Indices: 15189866--15189950 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
15189856 AAAACAAAAA
*
15189866 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCGAACTCAT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
* * *
15189910 TTGAATTCAATCATGAGATCATCTTTGATCTTTCTCCAACT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACT
15189951 TATCTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (44 bp):
TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
Found at i:15190096 original size:14 final size:14
Alignment explanation
Indices: 15190077--15190105 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15190067 TCTTCTTATG
15190077 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
15190091 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
15190105 T
1 T
15190106 ATCAATAGTT
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:0.07, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTTATGTTTGGAC
Found at i:15191223 original size:39 final size:39
Alignment explanation
Indices: 15191160--15191235 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
15191150 CATATCTATT
* ** *
15191160 ACTGCTACTGATACTGTGATGGGCTAAAGCCCAAACTGG
1 ACTGATACTGATACTGAAAAGGGCTAAAGCCCAAACTGG
*
15191199 ACTGATACTGATACTGAAAAGGGCTTAAGCCCAAACT
1 ACTGATACTGATACTGAAAAGGGCTAAAGCCCAAACT
15191236 ATGATTATCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (39 bp):
ACTGATACTGATACTGAAAAGGGCTAAAGCCCAAACTGG
Found at i:15192376 original size:4 final size:4
Alignment explanation
Indices: 15192367--15192403 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
15192357 TTTCATGAAA
* *
15192367 TTAT TTAT TTAT TTAT TTAT TTAT GTGT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
15192404 CATTGATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:15192489 original size:3 final size:3
Alignment explanation
Indices: 15192483--15192541 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
15192473 GTTCTTCTTC
* * * *
15192483 TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA
15192530 TTA TTTA TTA TT
1 TTA -TTA TTA TT
15192542 TATTTTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
3 37 0.82
4 8 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15207311 original size:45 final size:45
Alignment explanation
Indices: 15207232--15208184 Score: 985
Period size: 45 Copynumber: 21.2 Consensus size: 45
15207222 TAAAAAACAA
* ** *
15207232 CAGATCTTATCTTTTTGTATTGGCAGCGAGGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
15207277 CA-AGTCTTGTCTTCCTGTGTTGGCAGCAAAGTAGA-CTAAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * * * * *
15207322 CAGATATTGTCTTCTTGTATAGGCAGCGAAGTAGGTCAAAAACAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
15207367 CAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
15207412 CA-AGTCTTGTCTTCTTGTATTGGCAGTGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * *
15207457 CAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
15207502 CAGATCTTATCTTCCTATATTGGCAGTGAGGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
15207547 CA-AGTCTTGTCTTCATGTATTGGCAGCGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * *
15207592 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGGTC-AAAAGCAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-TAG
* * * *
15207637 CAGATCTTATCTTCCTATATTGGCAGCGAAATAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
15207682 CA-AGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * * * *
15207727 CAGATCTTGTCTTCCTATATGGGCAGCGAAATAGGTCAAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * ** *
15207772 CAGATCTTATCTTCCTGTATTGGCAACGAAATAGATAAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
15207817 CA-AGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * * *
15207862 CAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCGAAAACAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
15207907 CAGATCTTATCTTCCTGTATTAGTAGCGAAATAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* ** * *
15207952 CAGATCTTGTCTTCCTGTAGTGGCAGTAAAGTAAATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * * *
15207997 CAGGTCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAAAACAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * **
15208042 TAGATCTTATCTTCCTGTATTGGCAACGAAATAGATTAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
15208087 TAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAAATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
15208132 CAGGTCTTGTCTTCCTGTATTGGCAGCGAAGT-GCATCAAAGATTG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCGAAGATAG
15208177 CAGATCTT
1 CAGATCTT
15208185 ATCTCCCTAA
Statistics
Matches: 740, Mismatches: 145, Indels: 46
0.79 0.16 0.05
Matches are distributed among these distances:
44 12 0.02
45 715 0.97
46 13 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
Found at i:15208188 original size:135 final size:135
Alignment explanation
Indices: 15207224--15208163 Score: 1350
Period size: 135 Copynumber: 7.0 Consensus size: 135
15207214 CAGTAGACTA
* ** ** *
15207224 AAAAACAACAGATCTTATCTTTTTGTATTGGCAGCGAGGTAGATCGAAGATAGCAAGTCTTGTCT
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
* * * * *
15207289 TCCTGTGTTGGCAGCAAAGTAGACTAAAGATAGCAGATATTGTCTTCTTGTATAGGCAGCGAAGT
66 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
15207354 AGGTC
131 AGGTC
*
15207359 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGC-AAAGTAGATCGAAGATAGCAAGTCTTGTC
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAA-TAGATCAAAGATAGCAAGTCTTGTC
* **
15207423 TTCTTGTATTGGCAGTGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAG
65 TTCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAG
15207488 TAGGTC
130 TAGGTC
* * * ** *
15207494 AAAAATAGCAGATCTTATCTTCCTATATTGGCAGTGAGGTAGATCGAAGATAGCAAGTCTTGTCT
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
* * *
15207559 TCATGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
66 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
15207624 AGGTC
131 AGGTC
* *
15207629 AAAAGCAGCAGATCTTATCTTCCTATATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
* *
15207694 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTATATGGGCAGCGAAAT
66 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
15207759 AGGTC
131 AGGTC
* * * *
15207764 AAAAATAGCAGATCTTATCTTCCTGTATTGGCAACGAAATAGATAAAAGATAACAAGTCTTGTCT
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
15207829 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
66 TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
15207894 AGGTC
131 AGGTC
* * * *
15207899 GAAAACAACAGATCTTATCTTCCTGTATTAGTAGCGAAATAGATCAAAGATAGC-AGATCTTGTC
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAG-TCTTGTC
* * * * *
15207963 TTCCTGTAGTGGCAGTAAAGTA-AATCGAAGATAACAGGTCTTGTCTTCCTGTATGGGCAGCGAA
65 TTCCTGTATTGGCAGCAAAGTAGACT-GAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAA
15208027 GTAGGTC
129 GTAGGTC
* * * *
15208034 AAAAACAGTAGATCTTATCTTCCTGTATTGGCAACGAAATAGATTAAAGATAG-TAGATCTTGTC
1 AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAG-TCTTGTC
** * * *
15208098 TTCCTGTATTGGCAGTGAAGTA-AATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGCAGCGAA
65 TTCCTGTATTGGCAGCAAAGTAGACT-GAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAA
15208162 GT
129 GT
15208164 GCATCAAAGA
Statistics
Matches: 736, Mismatches: 64, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
134 5 0.01
135 730 0.99
136 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (135 bp):
AAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCT
TCCTGTATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGT
AGGTC
Found at i:15216872 original size:44 final size:44
Alignment explanation
Indices: 15216809--15216893 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
15216799 AAAACAAAAA
*
15216809 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCGAACTCAT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
* * *
15216853 TTGAATTCAATCATGAGATCATCTTTGATCTTTCTCCAACT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACT
15216894 TATCTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (44 bp):
TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
Found at i:15218866 original size:14 final size:14
Alignment explanation
Indices: 15218849--15218878 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15218839 TTATTTAAAT
15218849 ATAATTAAAAATAA
1 ATAATTAAAAATAA
*
15218863 ATAATTATAAATAA
1 ATAATTAAAAATAA
15218877 AT
1 AT
15218879 GTTAAAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTAAAAATAA
Found at i:15218951 original size:20 final size:20
Alignment explanation
Indices: 15218928--15218973 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15218918 TTATTTATAA
* *
15218928 TAATTATAATTAATTAATAT
1 TAATTATAATTAAATAAAAT
*
15218948 TAATTATATTTAAATAAAAT
1 TAATTATAATTAAATAAAAT
15218968 T-ATTAT
1 TAATTAT
15218974 TTATAGGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATAATTAAATAAAAT
Found at i:15219163 original size:18 final size:19
Alignment explanation
Indices: 15219140--15219178 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
15219130 TAAAATTGAA
15219140 ATAATTAATTAATA-AAAT
1 ATAATTAATTAATAGAAAT
* *
15219158 ATAATTATTTTATAGAAAT
1 ATAATTAATTAATAGAAAT
15219177 AT
1 AT
15219179 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATAATTAATTAATAGAAAT
Found at i:15220186 original size:15 final size:14
Alignment explanation
Indices: 15220168--15220197 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
15220158 ATTCTGGCCA
15220168 AAATAAAATAATAAT
1 AAATAAAATAA-AAT
15220183 AAATAAAATAAAAT
1 AAATAAAATAAAAT
15220197 A
1 A
15220198 TTAAAGTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:15221717 original size:16 final size:16
Alignment explanation
Indices: 15221696--15221733 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
15221686 ACCGGCATGT
15221696 AGCCTGCTAGGCTTGA
1 AGCCTGCTAGGCTTGA
15221712 AGCCTGCTAGGCTTGA
1 AGCCTGCTAGGCTTGA
15221728 AGCCTG
1 AGCCTG
15221734 ATTCAGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (16 bp):
AGCCTGCTAGGCTTGA
Found at i:15221793 original size:41 final size:41
Alignment explanation
Indices: 15221743--15221849 Score: 144
Period size: 41 Copynumber: 2.6 Consensus size: 41
15221733 GATTCAGTAC
*
15221743 ACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAA-ATTTTA
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATA-TTTA
* * *
15221784 ACCGACATTAAGCCTACTAGACATAAAGTCTGAAATATTTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTA
* *
15221825 ACTGGCATTAAGCTTGCTAGACATA
1 ACCGGCATTAAGCCTGCTAGACATA
15221850 GAGCCTGATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 56 0.98
42 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (41 bp):
ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTA
Found at i:15223613 original size:21 final size:22
Alignment explanation
Indices: 15223578--15223624 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15223568 TTTTTTTAAA
15223578 AAAAAAAGAGAAATCG-AATAC
1 AAAAAAAGAGAAATCGAAATAC
*
15223599 GAAAAAAAG-GCAATCGAAATAC
1 -AAAAAAAGAGAAATCGAAATAC
15223621 AAAA
1 AAAA
15223625 TCGAAAAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.66, C:0.11, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAGAAATCGAAATAC
Found at i:15224469 original size:4 final size:4
Alignment explanation
Indices: 15224460--15224497 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
15224450 CATGAAAGTT
*
15224460 TTTA TTTA TTTA TTTA TTTA TTTA TGTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
15224498 CATTGATTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:15224576 original size:3 final size:3
Alignment explanation
Indices: 15224570--15224627 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
15224560 ACATTTGTTG
* * * * *
15224570 TTA TTA TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA ATA TTTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
15224616 TTCA TTA TTA TT
1 TT-A TTA TTA TT
15224628 TATTTTTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
3 39 0.91
4 4 0.09
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:15229326 original size:18 final size:19
Alignment explanation
Indices: 15229298--15229336 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
15229288 AGTGAAATTT
15229298 ATTTGAAAATCCCTGAAGG
1 ATTTGAAAATCCCTGAAGG
15229317 ATTT-AAAATCCCTGAAGG
1 ATTTGAAAATCCCTGAAGG
15229335 AT
1 AT
15229337 ATAGAGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (19 bp):
ATTTGAAAATCCCTGAAGG
Found at i:15231224 original size:3 final size:3
Alignment explanation
Indices: 15231216--15231317 Score: 82
Period size: 3 Copynumber: 33.0 Consensus size: 3
15231206 TTTAGCAATC
* * * *
15231216 TTA TTA TTA TT- TTAA TTA TT- TTAA TGTA TTA TCA TTTA TCA TTT TTG
1 TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* * *
15231263 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA CTA ATA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
15231309 TTA TTA TTA
1 TTA TTA TTA
15231318 GTTTTATTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
2 4 0.05
3 65 0.81
4 10 0.12
5 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:15234831 original size:30 final size:31
Alignment explanation
Indices: 15234797--15234856 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
15234787 AAACCTTTTA
*
15234797 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
15234827 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
15234857 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:15244918 original size:20 final size:20
Alignment explanation
Indices: 15244895--15244940 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15244885 TTATTTATAA
* *
15244895 TAATTATAATTAATTAATAT
1 TAATTATAATTAAATAAAAT
*
15244915 TAATTATATTTAAATAAAAT
1 TAATTATAATTAAATAAAAT
15244935 T-ATTAT
1 TAATTAT
15244941 TTATGGGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATAATTAAATAAAAT
Found at i:15245737 original size:29 final size:29
Alignment explanation
Indices: 15245705--15245789 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
15245695 AAATAAAAAT
15245705 TTATTATTTTATTAATAAAATGTTTTAAA
1 TTATTATTTTATTAATAAAATGTTTTAAA
15245734 TTATTATTTTATTAATAAAAT-TTATTAAA
1 TTATTATTTTATTAATAAAATGTT-TTAAA
15245763 TTATTA--TT-TTAATAAAATG-TTTAAA
1 TTATTATTTTATTAATAAAATGTTTTAAA
15245788 TT
1 TT
15245790 TCAGATGAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
25 7 0.13
26 11 0.20
27 2 0.04
28 2 0.04
29 32 0.59
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TTATTATTTTATTAATAAAATGTTTTAAA
Found at i:15245781 original size:55 final size:51
Alignment explanation
Indices: 15245686--15245789 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 51
15245676 TTATTAATCA
15245686 TATTTTATTAAATAAAAATTTATTATTTTATTAATAAAATGTTTTAAATTAT
1 TATTTTATTAAATAAAAATTTATTATTTTATTAATAAAATG-TTTAAATTAT
15245738 TATTTTATT-AAT-AAAATTTATTAAATTATTATTTTAATAAAATGTTTAAATT
1 TATTTTATTAAATAAAAATTTATT--ATT-TTA--TTAATAAAATGTTTAAATT
15245790 TCAGATGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
50 10 0.21
51 3 0.06
52 12 0.26
53 3 0.06
54 8 0.17
55 11 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (51 bp):
TATTTTATTAAATAAAAATTTATTATTTTATTAATAAAATGTTTAAATTAT
Found at i:15246150 original size:25 final size:26
Alignment explanation
Indices: 15246122--15246173 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
15246112 TTATTTGATC
15246122 CTCACTTTCCTTTTTTAATA-AAATT
1 CTCACTTTCCTTTTTTAATATAAATT
* *
15246147 CTCACTTTCTTTTTTTGATATAAATT
1 CTCACTTTCCTTTTTTAATATAAATT
15246173 C
1 C
15246174 ATTATATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.25, C:0.19, G:0.02, T:0.54
Consensus pattern (26 bp):
CTCACTTTCCTTTTTTAATATAAATT
Found at i:15248440 original size:4 final size:4
Alignment explanation
Indices: 15248431--15248464 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
15248421 CATGAAAGTC
*
15248431 TTTA TTTA TTTA TTTA TTTA TGTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
15248465 CATTGATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:15248550 original size:3 final size:3
Alignment explanation
Indices: 15248544--15248595 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
15248534 GTTCTTCTTC
* * * *
15248544 TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA
15248591 TTA TT
1 TTA TT
15248596 TATTTTTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 34 0.87
4 5 0.13
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15252705 original size:15 final size:15
Alignment explanation
Indices: 15252693--15252747 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
15252683 GTTTTTCTTC
15252693 TTATTATTATTCTCA
1 TTATTATTATTCTCA
* *
15252708 TTATTATTATTGTTA
1 TTATTATTATTCTCA
15252723 TTATTTATT-TT-TCA
1 TTA-TTATTATTCTCA
*
15252737 CTATTATTATT
1 TTATTATTATT
15252748 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 18 0.53
16 5 0.15
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTATTATTCTCA
Found at i:15254886 original size:34 final size:35
Alignment explanation
Indices: 15254820--15254886 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
15254810 CAAACACCAG
* *
15254820 AAAATATTTTTCAGTAAACCATTTTATAGAAAAGT
1 AAAACATTTTTCAGTAAACCATTTTACAGAAAAGT
* *
15254855 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTTCAGTAAACCATTTTACAGAAAA
15254887 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTTCAGTAAACCATTTTACAGAAAAGT
Found at i:15256126 original size:6 final size:6
Alignment explanation
Indices: 15256115--15256141 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15256105 TAAAAAAATC
15256115 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
15256142 CCAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:15261093 original size:18 final size:18
Alignment explanation
Indices: 15261065--15261099 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15261055 AATCGTTTCG
15261065 TACCATATTTGTATACATA
1 TACCATATTTGTA-ACATA
15261084 TACC-TATTTGTAACAT
1 TACCATATTTGTAACAT
15261100 GTACTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (18 bp):
TACCATATTTGTAACATA
Found at i:15262627 original size:89 final size:89
Alignment explanation
Indices: 15262360--15262619 Score: 502
Period size: 89 Copynumber: 2.9 Consensus size: 89
15262350 TAAAACAGTT
* *
15262360 TTACAAATTAGTACATGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
1 TTACAACTTAGTACACGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
15262425 GAAAAAGACTAGGTGAGTCGAATA
66 GAAAAAGACTAGGTGAGTCGAATA
15262449 TTACAACTTAGTACACGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
1 TTACAACTTAGTACACGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
15262514 GAAAAAGACTAGGTGAGTCGAATA
66 GAAAAAGACTAGGTGAGTCGAATA
15262538 TTACAACTTAGTACACGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
1 TTACAACTTAGTACACGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
15262603 GAAAAAGACTAGGTGAG
66 GAAAAAGACTAGGTGAG
15262620 CCTAATATCA
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 169 1.00
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (89 bp):
TTACAACTTAGTACACGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
GAAAAAGACTAGGTGAGTCGAATA
Found at i:15268257 original size:15 final size:14
Alignment explanation
Indices: 15268227--15268254 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15268217 ATTACGTCAT
15268227 TTCTATTTTTTAAA
1 TTCTATTTTTTAAA
15268241 TTCTATTTTTTAAA
1 TTCTATTTTTTAAA
15268255 ATTTAGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (14 bp):
TTCTATTTTTTAAA
Found at i:15271122 original size:19 final size:20
Alignment explanation
Indices: 15271098--15271144 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
15271088 TTATATTTTG
15271098 TATATATAATGT-ACG-AATA
1 TATATATAATGTGA-GTAATA
*
15271117 TATATAT-GTGTGAGTAATA
1 TATATATAATGTGAGTAATA
15271136 TATATATAA
1 TATATATAA
15271145 ATTCTTGGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (20 bp):
TATATATAATGTGAGTAATA
Found at i:15271966 original size:41 final size:41
Alignment explanation
Indices: 15271921--15272042 Score: 219
Period size: 41 Copynumber: 3.0 Consensus size: 41
15271911 AGGCTTAGCA
15271921 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAG
15271962 CCTAGCAGGCTAAGTGCCGGT-AATCTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAA-CTGAATCAGGTTATAAG
*
15272003 CCTAGCAGGCTAAGTGTCGGTGAACTGAATCAGGTTATAA
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
15272043 ATGAAACACC
Statistics
Matches: 78, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
40 2 0.03
41 74 0.95
42 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAG
Found at i:15273485 original size:50 final size:50
Alignment explanation
Indices: 15273422--15273597 Score: 167
Period size: 50 Copynumber: 3.5 Consensus size: 50
15273412 TGCCATATCT
* * ** * *
15273422 CAGATATGGTCTTACATAGGAGTTCTCATATCAGTGCCCATACCATGTCC
1 CAGACATGGTCTTACAGAGGACCTCTCATATCAGTGCCAACACCATGTCC
* * * * * *
15273472 TAGACATGGTCTTACGGGGGACCTCTTATCTCAGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACAGAGGACCTCTCATATCAGTGCCAACACCATGTCC
* * ** *
15273522 CAGACATGGTCTTACACG-GGACCTCTTATCTTGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACA-GAGGACCTCTCATATCAGTGCCAACACCATGTCC
15273572 CAGACATGGTCTTACATG-GGACCTCT
1 CAGACATGGTCTTACA-GAGGACCTCT
15273598 TTACCCAAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 107 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
CAGACATGGTCTTACAGAGGACCTCTCATATCAGTGCCAACACCATGTCC
Found at i:15273598 original size:50 final size:50
Alignment explanation
Indices: 15273464--15273598 Score: 216
Period size: 50 Copynumber: 2.7 Consensus size: 50
15273454 AGTGCCCATA
* **
15273464 CCATGTCCTAGACATGGTCTTACGGGGGACCTCTTATCTCAGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACACGGGACCTCTTATCTCAGTGCCAACG
**
15273514 CCATGTCCCAGACATGGTCTTACACGGGACCTCTTATCTTGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACACGGGACCTCTTATCTCAGTGCCAACG
*
15273564 CCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 CCATGTCCCAGACATGGTCTTACACGGGACCTCTT
15273599 TACCCAAATG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACGGGACCTCTTATCTCAGTGCCAACG
Found at i:15276957 original size:2 final size:2
Alignment explanation
Indices: 15276950--15276980 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15276940 TTCAACTCAA
*
15276950 AC AC AC AC AC AC AC AC AC AC AC GC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
15276981 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.48, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15279017 original size:36 final size:36
Alignment explanation
Indices: 15278970--15279038 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
15278960 TCTAAGCGTC
15278970 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTTGTT
1 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTTGTT
15279006 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTT
1 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTT
15279039 TTCTTTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (36 bp):
GACTGAAGCTGAAAAGAAGGGATACTTTGTTTTGTT
Found at i:15279050 original size:14 final size:15
Alignment explanation
Indices: 15279031--15279060 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15279021 GAAGGGATAC
15279031 TTTGTTT-TTTCTTT
1 TTTGTTTGTTTCTTT
15279045 TTTGTTTGTTTCTTT
1 TTTGTTTGTTTCTTT
15279060 T
1 T
15279061 ATTAGATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTGTTTGTTTCTTT
Found at i:15283182 original size:25 final size:27
Alignment explanation
Indices: 15283141--15283192 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
15283131 AGTTTTAATC
*
15283141 AATAACTCTTTTATTTA-TAAA-ATAA
1 AATAACTATTTTATTTAGTAAATATAA
15283166 AATAACTATTATT-TTTAGTAAATATAA
1 AATAACTATT-TTATTTAGTAAATATAA
15283193 TTTTTATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 13 0.57
26 6 0.26
27 4 0.17
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (27 bp):
AATAACTATTTTATTTAGTAAATATAA
Found at i:15283403 original size:13 final size:13
Alignment explanation
Indices: 15283385--15283409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15283375 TAAAAGAGTT
15283385 ATTAATTAAAAAG
1 ATTAATTAAAAAG
15283398 ATTAATTAAAAA
1 ATTAATTAAAAA
15283410 TAAAAAAAAC
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Done.