Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 65 of 113
Found at i:15357961 original size:82 final size:81
Alignment explanation
Indices: 15357795--15357955 Score: 252
Period size: 82 Copynumber: 1.9 Consensus size: 81
15357785 CATCCGTCGC
*
15357795 ACCTTTCACATGTGCTCGAGGGACCCATGCTTGAAACAATTATTAAATATCGATGTTTGCGTTTT
1 ACCTTTCACATGTGCTCGAGGGACCCATGCTTGAAACAATTATTAAATATCGATGTTGGCGTTTT
*
15357860 TTATGGCTCCAAAAACCA
66 TCATGGCTCC--AAACCA
15357878 ACCTTTCACATGTGCTCGA-GGACCCATGCTTGAAACAATTATTAAATATCGATGTTGGCGTCGT
1 ACCTTTCACATGTGCTCGAGGGACCCATGCTTGAAACAATTATTAAATATCGATGTTGGCGT--T
15357942 TTTCCATGGCTCCA
64 TTT-CATGGCTCCA
15357956 GCCAACTACA
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
82 41 0.56
83 20 0.27
84 4 0.05
85 8 0.11
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (81 bp):
ACCTTTCACATGTGCTCGAGGGACCCATGCTTGAAACAATTATTAAATATCGATGTTGGCGTTTT
TCATGGCTCCAAACCA
Found at i:15358771 original size:14 final size:15
Alignment explanation
Indices: 15358752--15358784 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15358742 AAGATAAAAA
15358752 ATATTAAAAATAT-T
1 ATATTAAAAATATAT
*
15358766 ATATTAAAATTATAT
1 ATATTAAAAATATAT
15358781 ATAT
1 ATAT
15358785 AGTAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTAAAAATATAT
Found at i:15358818 original size:19 final size:19
Alignment explanation
Indices: 15358794--15358840 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
15358784 TAGTAAATTT
15358794 AAATTATTTAACAATTATA
1 AAATTATTTAACAATTATA
* * * *
15358813 AAATTAATAAATAATTATT
1 AAATTATTTAACAATTATA
15358832 AAATTATTT
1 AAATTATTT
15358841 TAATATCAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTATTTAACAATTATA
Found at i:15363269 original size:29 final size:29
Alignment explanation
Indices: 15363237--15363296 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
15363227 GGTATGTTGT
* *
15363237 ATGTTGTATTTTAATCTAGCATCACTAAC
1 ATGTTGTATCTTAATCTAACATCACTAAC
15363266 ATGTTGTATCTTAATCTAACATCACTAAC
1 ATGTTGTATCTTAATCTAACATCACTAAC
15363295 AT
1 AT
15363297 ACGTATTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.40
Consensus pattern (29 bp):
ATGTTGTATCTTAATCTAACATCACTAAC
Found at i:15367183 original size:13 final size:13
Alignment explanation
Indices: 15367165--15367216 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
15367155 ATAATTAGAG
*
15367165 TTGCATTCATGCA
1 TTGCATTCATACA
15367178 TTGCATTCATAAACA
1 TTGCATTCAT--ACA
*
15367193 TTGCTTTCATACA
1 TTGCATTCATACA
*
15367206 TTGCATCCATA
1 TTGCATTCATA
15367217 AACATTACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 22 0.67
15 11 0.33
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (13 bp):
TTGCATTCATACA
Found at i:15367196 original size:15 final size:15
Alignment explanation
Indices: 15367176--15367222 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
15367166 TGCATTCATG
15367176 CATTGCATTCATAAA
1 CATTGCATTCATAAA
*
15367191 CATTGCTTTCAT--A
1 CATTGCATTCATAAA
*
15367204 CATTGCATCCATAAA
1 CATTGCATTCATAAA
15367219 CATT
1 CATT
15367223 ACACTAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 11 0.41
15 16 0.59
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (15 bp):
CATTGCATTCATAAA
Found at i:15367201 original size:28 final size:28
Alignment explanation
Indices: 15367165--15367222 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
15367155 ATAATTAGAG
* *
15367165 TTGCATTCATGCATTGCATTCATAAACA
1 TTGCATTCATACATTGCATCCATAAACA
*
15367193 TTGCTTTCATACATTGCATCCATAAACA
1 TTGCATTCATACATTGCATCCATAAACA
15367221 TT
1 TT
15367223 ACACTAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (28 bp):
TTGCATTCATACATTGCATCCATAAACA
Found at i:15367908 original size:43 final size:42
Alignment explanation
Indices: 15367841--15367930 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 42
15367831 TAAAAATCTT
*
15367841 TTTTTATATTTTAAAAATTGTTGAGCCTCTGATGAAAGGAGC
1 TTTTTATATTTTAAAAATTATTGAGCCTCTGATGAAAGGAGC
* * ** *
15367883 TTTTTATATTTTTAGAAGTTATTGAGTTTCTGATGAAGGGAGC
1 TTTTTATA-TTTTAAAAATTATTGAGCCTCTGATGAAAGGAGC
15367926 TTTTT
1 TTTTT
15367931 TTTTATATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 8 0.20
43 33 0.80
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (42 bp):
TTTTTATATTTTAAAAATTATTGAGCCTCTGATGAAAGGAGC
Found at i:15368271 original size:46 final size:45
Alignment explanation
Indices: 15368138--15368273 Score: 118
Period size: 44 Copynumber: 3.0 Consensus size: 45
15368128 CTAGAAGATT
* * * *
15368138 TGGATGTGAATTCCTAAGA-GTTTCAATTGTGAATCTTTGAAA-TG
1 TGGATGTGAATCCCTAA-ACTTTTCAAATGTAAATCTTTGAAATTG
* * * * *
15368182 TGGATGTGAATCTCTAAACTTTTCAAATG-ATGATATTTCAAATTT
1 TGGATGTGAATCCCTAAACTTTTCAAATGTA-AATCTTTGAAATTG
*
15368227 TAGG-TGTGAATCCCTAAAATTTTTCAAATGTAAATCTTTGAAATTG
1 T-GGATGTGAATCCCT-AAACTTTTCAAATGTAAATCTTTGAAATTG
15368273 T
1 T
15368274 TTGCGAATCT
Statistics
Matches: 71, Mismatches: 15, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 31 0.44
45 12 0.17
46 26 0.37
47 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.40
Consensus pattern (45 bp):
TGGATGTGAATCCCTAAACTTTTCAAATGTAAATCTTTGAAATTG
Found at i:15368305 original size:19 final size:19
Alignment explanation
Indices: 15368258--15368310 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
15368248 TTTCAAATGT
15368258 AAATCTTTGAAAT-TGTTTGC
1 AAATCTTTG-AATCT-TTTGC
*
15368278 GAATC-TTGAATCTTTTGC
1 AAATCTTTGAATCTTTTGC
15368296 AAATCTTTGAATCTT
1 AAATCTTTGAATCTT
15368311 AAATTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 12 0.41
19 13 0.45
20 4 0.14
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (19 bp):
AAATCTTTGAATCTTTTGC
Found at i:15368325 original size:17 final size:17
Alignment explanation
Indices: 15368303--15368352 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
15368293 TGCAAATCTT
15368303 TGAATCTTAAATTTTTG
1 TGAATCTTAAATTTTTG
* *
15368320 TGAATCTTGAATCTTTG
1 TGAATCTTAAATTTTTG
15368337 TGAATCTTAAATTTTT
1 TGAATCTTAAATTTTT
15368353 TACAAATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (17 bp):
TGAATCTTAAATTTTTG
Found at i:15368465 original size:19 final size:18
Alignment explanation
Indices: 15368443--15368797 Score: 97
Period size: 18 Copynumber: 19.8 Consensus size: 18
15368433 ATTTCCTATG
15368443 AATCTTTGAATTTTCTGCA
1 AATCTTTGAATTTT-TGCA
*
15368462 AATC-TTGAAATTCTTTACA
1 AATCTTTG-AATT-TTTGCA
**
15368481 AATC-TTGAATCTTTTGTG
1 AATCTTTGAAT-TTTTGCA
** *
15368499 AATCTTCAAATCTTTTGCG
1 AATCTTTGAAT-TTTTGCA
* **
15368518 AATCTTTGAAATTTTATA
1 AATCTTTGAATTTTTGCA
15368536 AATC-TTGAATATTTTGCGA
1 AATCTTTGAAT-TTTTGC-A
* *
15368555 AAT-TTTGAATCTTTGCG
1 AATCTTTGAATTTTTGCA
* **
15368572 AATC-TTAAATTTTTTGTG
1 AATCTTTGAA-TTTTTGCA
*
15368590 AATCTTTGAAATTTTT-TA
1 AATCTTTG-AATTTTTGCA
* *
15368608 TGAGTC-TTGAATAACTTTT-TA
1 --AATCTTTGAAT---TTTTGCA
* * **
15368629 GAATTTTTGAACTTTTGTG
1 -AATCTTTGAATTTTTGCA
15368648 AATCTTTGAATTTTTG-A
1 AATCTTTGAATTTTTGCA
* *
15368665 AATC-------TTTTACG
1 AATCTTTGAATTTTTGCA
**
15368676 AATCTTTGAATCTTTACCA
1 AATCTTTGAAT-TTTTGCA
* *
15368695 AATCTTTGAAATTTTGAA
1 AATCTTTGAATTTTTGCA
* *
15368713 AAT-TTGGAACTTTTGCA
1 AATCTTTGAATTTTTGCA
*
15368730 AATATTTGAACTTTTATG--
1 AATCTTTGAA-TTTT-TGCA
*
15368748 AATCTTTGAATTCTTGCA
1 AATCTTTGAATTTTTGCA
15368766 AAT-TTTGAACTTTTATG--
1 AATCTTTGAA-TTTT-TGCA
15368783 AATCTTTGAATTTTT
1 AATCTTTGAATTTTT
15368798 ATGAATCTTG
Statistics
Matches: 253, Mismatches: 48, Indels: 73
0.68 0.13 0.20
Matches are distributed among these distances:
10 4 0.02
11 4 0.02
16 3 0.01
17 46 0.18
18 95 0.38
19 78 0.31
20 12 0.05
21 11 0.04
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.48
Consensus pattern (18 bp):
AATCTTTGAATTTTTGCA
Found at i:15368504 original size:18 final size:18
Alignment explanation
Indices: 15368481--15368663 Score: 106
Period size: 18 Copynumber: 9.9 Consensus size: 18
15368471 ATTCTTTACA
15368481 AATCTTGAATCTTTTGTG
1 AATCTTGAATCTTTTGTG
* *
15368499 AATCTTCAAATCTTTTGCG
1 AATCTT-GAATCTTTTGTG
* * *
15368518 AATCTTTGAA-ATTTTATA
1 AATC-TTGAATCTTTTGTG
* *
15368536 AATCTTGAATATTTTGCG
1 AATCTTGAATCTTTTGTG
* *
15368554 AAATTTTGAATC-TTTGCG
1 -AATCTTGAATCTTTTGTG
* *
15368572 AATCTTAAATTTTTTGTG
1 AATCTTGAATCTTTTGTG
* *
15368590 AATCTTTGAAATTTTTTATG
1 AATC-TTG-AATCTTTTGTG
*
15368610 AGTCTTGAATAACTTTT-TAG
1 AATCTTGAAT--CTTTTGT-G
*
15368630 AATTTTTGAA-CTTTTGTG
1 AA-TCTTGAATCTTTTGTG
15368648 AATCTTTGAAT-TTTTG
1 AATC-TTGAATCTTTTG
15368664 AAATCTTTTA
Statistics
Matches: 128, Mismatches: 23, Indels: 28
0.72 0.13 0.16
Matches are distributed among these distances:
17 14 0.11
18 55 0.43
19 32 0.25
20 21 0.16
21 6 0.05
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (18 bp):
AATCTTGAATCTTTTGTG
Found at i:15368680 original size:28 final size:26
Alignment explanation
Indices: 15368629--15368686 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
15368619 TAACTTTTTA
**
15368629 GAATTTTTGAACTTTTGTGAATCTTT
1 GAATTTTTGAACTTTTACGAATCTTT
15368655 GAATTTTTGAAATCTTTTACGAATCTTT
1 GAATTTTTG-AA-CTTTTACGAATCTTT
15368683 GAAT
1 GAAT
15368687 CTTTACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 9 0.32
27 2 0.07
28 17 0.61
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.50
Consensus pattern (26 bp):
GAATTTTTGAACTTTTACGAATCTTT
Found at i:15368683 original size:20 final size:20
Alignment explanation
Indices: 15368655--15368706 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
15368645 GTGAATCTTT
*
15368655 GAATTTTTGAAATCTTTTA-C
1 GAATCTTTGAAATC-TTTACC
15368675 GAATCTTTG-AATCTTTACC
1 GAATCTTTGAAATCTTTACC
*
15368694 AAATCTTTGAAAT
1 GAATCTTTGAAAT
15368707 TTTGAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.14
19 13 0.46
20 11 0.39
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (20 bp):
GAATCTTTGAAATCTTTACC
Found at i:15368769 original size:53 final size:53
Alignment explanation
Indices: 15368695--15368816 Score: 149
Period size: 53 Copynumber: 2.3 Consensus size: 53
15368685 ATCTTTACCA
*
15368695 AATCTTTGAAATTTTGAAAATTTGGAACTTTTGCAAATATTTGAACTTTTATG
1 AATCTTTGAAATTTTGAAAATTTGGAACTTTTACAAATATTTGAACTTTTATG
* * ** * *
15368748 AATCTTTG-AATTCTTGCAAATTTTGAACTTTTATGAATCTTTGAATTTTTATG
1 AATCTTTGAAATT-TTGAAAATTTGGAACTTTTACAAATATTTGAACTTTTATG
*
15368801 AATC-TTGAACTTTTGA
1 AATCTTTGAAATTTTGA
15368817 GAATCTTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
52 10 0.17
53 48 0.83
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (53 bp):
AATCTTTGAAATTTTGAAAATTTGGAACTTTTACAAATATTTGAACTTTTATG
Found at i:15368773 original size:35 final size:36
Alignment explanation
Indices: 15368725--15368794 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 36
15368715 TTTGGAACTT
15368725 TTGCAAATATTTGAACTTTTATGAATCTTTGAATTC
1 TTGCAAATATTTGAACTTTTATGAATCTTTGAATTC
15368761 TTGCAAAT-TTTGAACTTTTATGAATCTTTGAATT
1 TTGCAAATATTTGAACTTTTATGAATCTTTGAATT
15368795 TTTATGAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 26 0.76
36 8 0.24
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (36 bp):
TTGCAAATATTTGAACTTTTATGAATCTTTGAATTC
Found at i:15368792 original size:18 final size:18
Alignment explanation
Indices: 15368734--15368823 Score: 100
Period size: 18 Copynumber: 5.1 Consensus size: 18
15368724 TTTGCAAATA
15368734 TTTGAACTTTTATGAATC
1 TTTGAACTTTTATGAATC
*
15368752 TTTGAA-TTCT-TGCAAAT-
1 TTTGAACTTTTATG--AATC
15368769 TTTGAACTTTTATGAATC
1 TTTGAACTTTTATGAATC
*
15368787 TTTGAATTTTTATGAATC
1 TTTGAACTTTTATGAATC
15368805 -TTGAACTTTTGA-GAATC
1 TTTGAACTTTT-ATGAATC
15368822 TT
1 TT
15368824 AAATTTTTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
16 2 0.03
17 26 0.43
18 31 0.51
19 2 0.03
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (18 bp):
TTTGAACTTTTATGAATC
Found at i:15368808 original size:17 final size:17
Alignment explanation
Indices: 15368735--15368849 Score: 90
Period size: 18 Copynumber: 6.6 Consensus size: 17
15368725 TTGCAAATAT
*
15368735 TTGAACTTTTATGAATC
1 TTGAATTTTTATGAATC
* *** *
15368752 TTTGAATTCTTGCAAATT
1 -TTGAATTTTTATGAATC
*
15368770 TTGAACTTTTATGAATC
1 TTGAATTTTTATGAATC
15368787 TTTGAATTTTTATGAATC
1 -TTGAATTTTTATGAATC
*
15368805 TTGAACTTTTGA-GAATC
1 TTGAA-TTTTTATGAATC
*
15368822 TTAAATTTTT-TAGAATC
1 TTGAATTTTTAT-GAATC
15368839 TTGAATCTTTT
1 TTGAAT-TTTT
15368850 GCAAACCTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
16 4 0.05
17 35 0.47
18 36 0.48
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.50
Consensus pattern (17 bp):
TTGAATTTTTATGAATC
Found at i:15368809 original size:35 final size:34
Alignment explanation
Indices: 15368735--15368849 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 34
15368725 TTGCAAATAT
* *
15368735 TTGAACTTTTATGAATCTTTGAA-TTCTTGCAAATT
1 TTGAACTTTTATGAATCTTTGAATTTTTTG--AATC
15368770 TTGAACTTTTATGAATCTTTGAATTTTTATGAATC
1 TTGAACTTTTATGAATCTTTGAATTTTT-TGAATC
*
15368805 TTGAACTTTTGA-GAATC-TTAAATTTTTTAGAATC
1 TTGAACTTTT-ATGAATCTTTGAATTTTTT-GAATC
15368839 TTGAATCTTTT
1 TTGAA-CTTTT
15368850 GCAAACCTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
33 1 0.01
34 19 0.26
35 46 0.64
36 4 0.06
37 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.50
Consensus pattern (34 bp):
TTGAACTTTTATGAATCTTTGAATTTTTTGAATC
Found at i:15373756 original size:9 final size:8
Alignment explanation
Indices: 15373733--15373762 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
15373723 AACTTACCTG
15373733 AAAAACTA
1 AAAAACTA
15373741 AAAAACTA
1 AAAAACTA
15373749 AAAGAACTA
1 AAA-AACTA
15373758 AAAAA
1 AAAAA
15373763 AAGAATAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAACTA
Found at i:15376864 original size:25 final size:22
Alignment explanation
Indices: 15376824--15376872 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
15376814 TTTAAGGAAG
15376824 AAAGAAAAAAGAAATATGAAAAAA
1 AAAGAAAAAAGAAATA--AAAAAA
15376848 AAAGAAAAAA-ACCAATAAAAAAA
1 AAAGAAAAAAGA--AATAAAAAAA
15376871 AA
1 AA
15376873 GCAATATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 9 0.39
24 10 0.43
25 4 0.17
ACGTcount: A:0.82, C:0.04, G:0.08, T:0.06
Consensus pattern (22 bp):
AAAGAAAAAAGAAATAAAAAAA
Found at i:15381402 original size:15 final size:15
Alignment explanation
Indices: 15381382--15381410 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15381372 AAGAATCATT
15381382 GGCTTAGCTCTTTCG
1 GGCTTAGCTCTTTCG
15381397 GGCTTAGCTCTTTC
1 GGCTTAGCTCTTTC
15381411 TCTCAAGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.28, G:0.24, T:0.41
Consensus pattern (15 bp):
GGCTTAGCTCTTTCG
Found at i:15383429 original size:6 final size:5
Alignment explanation
Indices: 15383389--15383453 Score: 58
Period size: 6 Copynumber: 11.4 Consensus size: 5
15383379 TAAACAAATG
15383389 AATAA AATAA AATAA AATAA AACTAA AATTAGAA AATGAA AATGAA AATGAA
1 AATAA AATAA AATAA AATAA AA-TAA AA-T--AA AAT-AA AAT-AA AAT-AA
15383441 AATAA AATGAA AA
1 AATAA AAT-AA AA
15383454 AAAGAAAAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
5 22 0.40
6 28 0.51
7 1 0.02
8 4 0.07
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:15383454 original size:12 final size:11
Alignment explanation
Indices: 15383392--15383453 Score: 65
Period size: 11 Copynumber: 5.4 Consensus size: 11
15383382 ACAAATGAAT
15383392 AAAATAAAAT-
1 AAAATAAAATG
15383402 AAAATAAAACT-
1 AAAATAAAA-TG
15383413 AAAATTAGAAAATG
1 AAAA-T--AAAATG
15383427 AAAATGAAAATG
1 AAAAT-AAAATG
15383439 AAAATAAAATG
1 AAAATAAAATG
15383450 AAAA
1 AAAA
15383454 AAAGAAAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.19
11 15 0.32
12 13 0.28
13 2 0.04
14 8 0.17
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (11 bp):
AAAATAAAATG
Found at i:15384756 original size:41 final size:39
Alignment explanation
Indices: 15384627--15384772 Score: 134
Period size: 41 Copynumber: 3.6 Consensus size: 39
15384617 ACTAGTGGCT
* *
15384627 GACCAGAGG-ATATGAAACTTTAAATTCAAAAGGCTCATC-
1 GACCAGAGGCA-ATGAAACTTTAAATTTAAAAGACTC-TCA
* * * *
15384666 GACTAGAGGCAATGAAACTTTAAAATTTAAAAGATTTTTA
1 GACCAGAGGCAATGAAACTTT-AAATTTAAAAGACTCTCA
*
15384706 TGACTAGAGGCAATGAAACTTTAGAATTTAAAAGACTACTCA
1 -GACCAGAGGCAATGAAACTTTA-AATTTAAAAGACT-CTCA
* * *
15384748 AACCAGAGGCAATAAAACGTTAAAT
1 GACCAGAGGCAATGAAACTTTAAAT
15384773 GGTTCTCTGA
Statistics
Matches: 88, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
39 19 0.22
40 16 0.18
41 51 0.58
42 2 0.02
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (39 bp):
GACCAGAGGCAATGAAACTTTAAATTTAAAAGACTCTCA
Found at i:15385054 original size:133 final size:131
Alignment explanation
Indices: 15384775--15385039 Score: 431
Period size: 133 Copynumber: 2.0 Consensus size: 131
15384765 CGTTAAATGG
* *
15384775 TTCTCTGACTAGAGGCAATAAAACTTTAAATTAAAACTCTAAGAGGACTTATCGATTATGCTCTT
1 TTCTCTGACTAGAGGCAATAAAACTTTAAATTAAAACTCTAAGAGGACTTATAGATTATGCTCAT
15384840 TAGTCTTACAAATCATGCCTAATTTTGATGGAGTCCTCTAACTAGAGGCTTTTAAAAATAAAAAG
66 TAGTCTTACAAATCATGCCTAATTTTGATGGAGTCCTCTAACTAGAGGCTTTTAAAAATAAAAAG
15384905 C
131 C
*
15384906 TTCTCTGACTAGAGGCAATGAAACTTTAGAATTTAAAACTCTAAGAGGACTTATAGATTATGCTC
1 TTCTCTGACTAGAGGCAATAAAACTTTA-AA-TTAAAACTCTAAGAGGACTTATAGATTATGCTC
* * * * * *
15384971 ATTGGTTTTACAAATCATGCCTAATTTTGATGGAGTCTTCTAATTTGAGGCTTTTAAAATTAAAA
64 ATTAGTCTTACAAATCATGCCTAATTTTGATGGAGTCCTCTAACTAGAGGCTTTTAAAAATAAAA
15385036 AGC
129 AGC
15385039 T
1 T
15385040 CTTTTGACCA
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 27 0.22
132 2 0.02
133 94 0.76
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (131 bp):
TTCTCTGACTAGAGGCAATAAAACTTTAAATTAAAACTCTAAGAGGACTTATAGATTATGCTCAT
TAGTCTTACAAATCATGCCTAATTTTGATGGAGTCCTCTAACTAGAGGCTTTTAAAAATAAAAAG
C
Found at i:15385123 original size:34 final size:34
Alignment explanation
Indices: 15385030--15385138 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
15385020 GCTTTTAAAA
* * * *
15385030 TTAAAAAGCTCTTTTGACCAGAGGCTATCATACT
1 TTAAAAAGCTCTTTTGACCAAAGGCAATAAAACT
*
15385064 TTAAAGAAAGCTTTTTTGACCAAAGGCAATAAAACT
1 TT-AA-AAAGCTCTTTTGACCAAAGGCAATAAAACT
* * * *
15385100 TTAAATAGCTCTTTTGACTAAAGGTAATGAAACT
1 TTAAAAAGCTCTTTTGACCAAAGGCAATAAAACT
*
15385134 ATAAA
1 TTAAA
15385139 TTTAAAAATC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
34 31 0.50
35 4 0.06
36 27 0.44
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (34 bp):
TTAAAAAGCTCTTTTGACCAAAGGCAATAAAACT
Found at i:15388383 original size:22 final size:22
Alignment explanation
Indices: 15388355--15388401 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
15388345 TAAGTTGAAA
15388355 AATGAAACGAGTAATATAATTC
1 AATGAAACGAGTAATATAATTC
15388377 AATGAAACGAGTAATATAATTC
1 AATGAAACGAGTAATATAATTC
15388399 AAT
1 AAT
15388402 CTCCCTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.28
Consensus pattern (22 bp):
AATGAAACGAGTAATATAATTC
Found at i:15392589 original size:142 final size:142
Alignment explanation
Indices: 15392332--15392618 Score: 502
Period size: 142 Copynumber: 2.0 Consensus size: 142
15392322 ATCCACAAAC
*
15392332 ATTACCCCATTTGATCTTTCCATTCTTAACGATATTTTCTAGTATCTCACACATAATCACCATAT
1 ATTACCCCATTTGATCTTTCCATTCTTAACGACATTTTCTAGTATCTCACACATAATCACCATAT
*
15392397 CAATAAAATTTTTCACGTCATGACCAATCAGCCTATCATAATACGAGGTTCAAAGGGTATTGATG
66 CAACAAAATTTTTCACGTCATGACCAATCAGCCTATCATAATACGAGGTTCAAAGGGTATTGATG
*
15392462 AACAAAATAGTT
131 AACAAAATACTT
* * *
15392474 ATTACCCCATTTGATCTTTCCATTCTTAACTACGTTTTCTAGTATCTCACCCATAATCACCATAT
1 ATTACCCCATTTGATCTTTCCATTCTTAACGACATTTTCTAGTATCTCACACATAATCACCATAT
**
15392539 CAACAAAATTTTTCACGTCATGACCAATCAGCCTATCATAATACTTGGTTCAAAGGGTATTGATG
66 CAACAAAATTTTTCACGTCATGACCAATCAGCCTATCATAATACGAGGTTCAAAGGGTATTGATG
15392604 AACAAAATACTT
131 AACAAAATACTT
15392616 ATT
1 ATT
15392619 TCTTTCTTAA
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 137 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (142 bp):
ATTACCCCATTTGATCTTTCCATTCTTAACGACATTTTCTAGTATCTCACACATAATCACCATAT
CAACAAAATTTTTCACGTCATGACCAATCAGCCTATCATAATACGAGGTTCAAAGGGTATTGATG
AACAAAATACTT
Found at i:15393513 original size:18 final size:18
Alignment explanation
Indices: 15393487--15393521 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15393477 TCTCTTCTTA
15393487 AGACATAATCATCTGTTG
1 AGACATAATCATCTGTTG
*
15393505 AGACTTAATCATCTGTT
1 AGACATAATCATCTGTT
15393522 CTTGTATTTC
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:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (18 bp):
AGACATAATCATCTGTTG
Found at i:15396680 original size:13 final size:14
Alignment explanation
Indices: 15396661--15396693 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15396651 ATAAAATTAT
*
15396661 AATTTTATCAACAG
1 AATTTTACCAACAG
15396675 -ATTTTACCAACAG
1 AATTTTACCAACAG
15396688 AATTTT
1 AATTTT
15396694 GTTATTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (14 bp):
AATTTTACCAACAG
Found at i:15399728 original size:22 final size:22
Alignment explanation
Indices: 15399700--15399742 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15399690 TTTTCTATCA
15399700 TTAATTCTAAGAA-TACAAATAC
1 TTAATTCT-AGAATTACAAATAC
15399722 TTAATTCTAGAATTACAAATA
1 TTAATTCTAGAATTACAAATA
15399743 TAAACATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGAATTACAAATAC
Found at i:15404554 original size:34 final size:34
Alignment explanation
Indices: 15404511--15404576 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
15404501 TTATATTTAT
*
15404511 TTATTTTAT-ATTTAATAAATAAAATATAAAATTA
1 TTATATTATAATTT-ATAAATAAAATATAAAATTA
* * *
15404545 TTATATTATAATTTATATATAATATATCAAAT
1 TTATATTATAATTTATAAATAAAATATAAAAT
15404577 AATCAAACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (34 bp):
TTATATTATAATTTATAAATAAAATATAAAATTA
Found at i:15405711 original size:16 final size:18
Alignment explanation
Indices: 15405692--15405733 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
15405682 ATCTAATAAA
15405692 TTTTTAATTTT-ATC-TT
1 TTTTTAATTTTAATCATT
*
15405708 TTTTTATTTTTAATCATT
1 TTTTTAATTTTAATCATT
15405726 TATTTTAA
1 T-TTTTAA
15405734 AAAAATCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 10 0.48
17 3 0.14
18 3 0.14
19 5 0.24
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTTAATCATT
Found at i:15410987 original size:13 final size:14
Alignment explanation
Indices: 15410968--15411000 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15410958 ATAAAATTAT
*
15410968 AATTTTATCAACAG
1 AATTTTACCAACAG
15410982 -ATTTTACCAACAG
1 AATTTTACCAACAG
15410995 AATTTT
1 AATTTT
15411001 GTTATTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (14 bp):
AATTTTACCAACAG
Found at i:15414033 original size:22 final size:22
Alignment explanation
Indices: 15414005--15414047 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15413995 TTTTCTATCA
15414005 TTAATTCTAAGAA-TACAAATAC
1 TTAATTCT-AGAATTACAAATAC
15414027 TTAATTCTAGAATTACAAATA
1 TTAATTCTAGAATTACAAATA
15414048 TAAACATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGAATTACAAATAC
Found at i:15418957 original size:21 final size:21
Alignment explanation
Indices: 15418907--15418958 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
15418897 AATATATTTT
*
15418907 TTATTTTATTAAATTTATATA
1 TTATTTTATTAAATTTATAAA
*
15418928 TAATTTTATTAATATTT-TAAA
1 TTATTTTATTAA-ATTTATAAA
*
15418949 TTATATTATT
1 TTATTTTATT
15418959 TTTATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTATTAAATTTATAAA
Found at i:15429831 original size:15 final size:16
Alignment explanation
Indices: 15429805--15429846 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
15429795 ATCTTATAAA
15429805 ATTTTAATTTTTT-CTC
1 ATTTT-ATTTTTTCCTC
15429821 ATTTTATTTTTTCCTC
1 ATTTTATTTTTTCCTC
15429837 A-TTTATTTTT
1 ATTTTATTTTT
15429847 AAAAACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTATTTTTTCCTC
Found at i:15435217 original size:20 final size:19
Alignment explanation
Indices: 15435192--15435246 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
15435182 ATTTTTTAAC
*
15435192 AAATTTCTAAAAATGTTTTA
1 AAATTTCTAAAAA-ATTTTA
15435212 AAATTTCTAAAAAATTTTA
1 AAATTTCTAAAAAATTTTA
15435231 AAACTTTCTAAAAAAT
1 AAA-TTTCTAAAAAAT
15435247 CCTTAATCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATTTCTAAAAAATTTTA
Found at i:15435357 original size:11 final size:11
Alignment explanation
Indices: 15435341--15435380 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
15435331 AATTGAAAAA
15435341 TTTTTAAGAAT
1 TTTTTAAGAAT
*
15435352 TTTTTAAGAAA
1 TTTTTAAGAAT
* *
15435363 CTTTTAACAAT
1 TTTTTAAGAAT
15435374 TTTTTAA
1 TTTTTAA
15435381 ATGTATAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (11 bp):
TTTTTAAGAAT
Found at i:15435488 original size:21 final size:20
Alignment explanation
Indices: 15435462--15435561 Score: 66
Period size: 21 Copynumber: 5.0 Consensus size: 20
15435452 TTTTAGAAGA
15435462 TCTAAAAATTTTCAAAAAGTT
1 TCTAAAAATTTTCAAAAA-TT
* *
15435483 TCTAAATAA-TTTGAAAAA-C
1 TCTAAA-AATTTTCAAAAATT
*
15435502 TCTAAAAA--TTCAAAACAAT
1 TCTAAAAATTTTCAAAA-ATT
15435521 TCTAAAAAATTTT-AAAAATTT
1 TCT-AAAAATTTTCAAAAA-TT
* *
15435542 TCAAAAAAATTTTAAAAAAT
1 TC-TAAAAATTTTCAAAAAT
15435562 AAAAAATATG
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.09
18 3 0.05
19 9 0.14
20 6 0.09
21 31 0.48
22 9 0.14
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (20 bp):
TCTAAAAATTTTCAAAAATT
Found at i:15435514 original size:38 final size:39
Alignment explanation
Indices: 15435462--15435538 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 39
15435452 TTTTAGAAGA
* *
15435462 TCTAAAAATTTTCAAAA-AGTTTCTAAATAATTTGAAAAAC
1 TCTAAAAA-TTTCAAAACA-ATTCTAAAAAATTTGAAAAAC
*
15435502 TCTAAAAA-TTCAAAACAATTCTAAAAAATTTTAAAAA
1 TCTAAAAATTTCAAAACAATTCTAAAAAATTTGAAAAA
15435539 TTTTCAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 24 0.73
39 1 0.03
40 8 0.24
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (39 bp):
TCTAAAAATTTCAAAACAATTCTAAAAAATTTGAAAAAC
Found at i:15435521 original size:10 final size:10
Alignment explanation
Indices: 15435482--15435561 Score: 58
Period size: 10 Copynumber: 8.1 Consensus size: 10
15435472 TTCAAAAAGT
*
15435482 TTCTAAATAA
1 TTCTAAAAAA
*
15435492 TT-TGAAAAA
1 TTCTAAAAAA
*
15435501 CTCT-AAAAA
1 TTCTAAAAAA
15435510 TTC-AAAACAA
1 TTCTAAAA-AA
15435520 TTCTAAAAAA
1 TTCTAAAAAA
* *
15435530 TTTTAAAAATT
1 TTCTAAAAA-A
*
15435541 TTCAAAAAAA
1 TTCTAAAAAA
*
15435551 TTTTAAAAAA
1 TTCTAAAAAA
15435561 T
1 T
15435562 AAAAAATATG
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
9 16 0.30
10 27 0.50
11 11 0.20
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.34
Consensus pattern (10 bp):
TTCTAAAAAA
Found at i:15435551 original size:12 final size:11
Alignment explanation
Indices: 15435524--15435560 Score: 51
Period size: 9 Copynumber: 3.5 Consensus size: 11
15435514 AAACAATTCT
15435524 AAAAAATTTT-
1 AAAAAATTTTA
15435534 -AAAAATTTTCA
1 AAAAAATTTT-A
15435545 AAAAAATTTTA
1 AAAAAATTTTA
15435556 AAAAA
1 AAAAA
15435561 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.38
11 6 0.25
12 9 0.38
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAAATTTTA
Found at i:15435621 original size:27 final size:26
Alignment explanation
Indices: 15435551--15435622 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
15435541 TTCAAAAAAA
*
15435551 TTTTAAAAAATAAAAAATATGAAATAT
1 TTTTAAAAATTAAAAAATATG-AATAT
* *
15435578 TTATAAGAATTATAAAAATTATG-ATAT
1 TTTTAAAAATTA-AAAAA-TATGAATAT
15435605 TTTTAAAAATTCAAAAAA
1 TTTTAAAAATT-AAAAAA
15435623 CTCTAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
27 27 0.73
28 6 0.16
29 4 0.11
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (26 bp):
TTTTAAAAATTAAAAAATATGAATAT
Found at i:15435799 original size:20 final size:19
Alignment explanation
Indices: 15435735--15435803 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
15435725 AATTTTTTGG
*
15435735 AAAATTTTGAAATAAAATATA
1 AAAATTTT-AAA-AAAATCTA
*
15435756 AAAATGTTCAAAAAAATCTGA
1 AAAAT-TTTAAAAAAATCT-A
15435777 AAAATTTTAAAAAAATTCTA
1 AAAATTTTAAAAAAA-TCTA
15435797 AAAATTT
1 AAAATTT
15435804 GTCAAAATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 23 0.55
21 17 0.40
22 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (19 bp):
AAAATTTTAAAAAAATCTA
Found at i:15435810 original size:21 final size:20
Alignment explanation
Indices: 15435735--15435810 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 20
15435725 AATTTTTTGG
* *
15435735 AAAATTTTGAAATAAAATATA
1 AAAATTTTCAAA-AAAATCTA
*
15435756 AAAATGTTCAAAAAAATCTGA
1 AAAATTTTCAAAAAAATCT-A
15435777 AAAATTTT-AAAAAAATTCTA
1 AAAATTTTCAAAAAAA-TCTA
15435797 AAAATTTGTCAAAA
1 AAAATTT-TCAAAA
15435811 TTCTTAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 21 0.45
21 22 0.47
22 4 0.09
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAATTTTCAAAAAAATCTA
Found at i:15436053 original size:18 final size:18
Alignment explanation
Indices: 15436022--15436056 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15436012 TTTTTACAAC
15436022 TTTTTAAAAATTTTTATG
1 TTTTTAAAAATTTTTATG
* *
15436040 TTTTTTAAATTTTTTAT
1 TTTTTAAAAATTTTTAT
15436057 TTTATTTTTT
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:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTAAAAATTTTTATG
Found at i:15436182 original size:18 final size:18
Alignment explanation
Indices: 15436161--15436196 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15436151 TTTTAAAAAT
15436161 TGTTAAAATTTTTTTTAA
1 TGTTAAAATTTTTTTTAA
* *
15436179 TGTTGAGATTTTTTTTAA
1 TGTTAAAATTTTTTTTAA
15436197 AATTTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (18 bp):
TGTTAAAATTTTTTTTAA
Found at i:15436220 original size:30 final size:30
Alignment explanation
Indices: 15436188--15436285 Score: 87
Period size: 32 Copynumber: 3.2 Consensus size: 30
15436178 ATGTTGAGAT
15436188 TTTTTTTAAAATTTATAAAATTTCTTT-AA
1 TTTTTTTAAAATTTATAAAATTTCTTTAAA
* *
15436217 -TTTTTTAAGAAGTTTTTAAATTTTCTTTAAAA
1 TTTTTTTAA-AA-TTTATAAAATTTCTTT-AAA
15436249 TTTTTTTAAAATGTT-TAAACACTTT-TTTACAA
1 TTTTTTTAAAAT-TTATAAA-A-TTTCTTTA-AA
15436281 TTTTT
1 TTTTT
15436286 AAAACTTTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
28 8 0.14
29 2 0.04
30 14 0.25
31 6 0.11
32 16 0.28
33 11 0.19
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTTTTTAAAATTTATAAAATTTCTTTAAA
Found at i:15436249 original size:12 final size:11
Alignment explanation
Indices: 15436188--15436311 Score: 56
Period size: 9 Copynumber: 12.0 Consensus size: 11
15436178 ATGTTGAGAT
15436188 TTTTTTTAAAA
1 TTTTTTTAAAA
*
15436199 --TTTATAAAA
1 TTTTTTTAAAA
*
15436208 TTTCTTT--AA
1 TTTTTTTAAAA
15436217 -TTTTTTAAGAA
1 TTTTTTTAA-AA
*
15436228 -GTTTTT-AAA
1 TTTTTTTAAAA
15436237 TTTTCTTTAAAA
1 TTTT-TTTAAAA
15436249 TTTTTTTAAAA
1 TTTTTTTAAAA
*
15436260 --TGTTTAAACA
1 TTTTTTTAAA-A
* *
15436270 CTTTTTTACAA
1 TTTTTTTAAAA
15436281 --TTTTTAAAA
1 TTTTTTTAAAA
* *
15436290 CTTTATTTATAA
1 -TTTTTTTAAAA
15436302 -TTTTTTAAAA
1 TTTTTTTAAAA
15436312 AAATTTAGAA
Statistics
Matches: 85, Mismatches: 14, Indels: 29
0.66 0.11 0.23
Matches are distributed among these distances:
8 5 0.06
9 27 0.32
10 12 0.14
11 21 0.25
12 20 0.24
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.56
Consensus pattern (11 bp):
TTTTTTTAAAA
Found at i:15436265 original size:20 final size:19
Alignment explanation
Indices: 15436147--15436305 Score: 79
Period size: 20 Copynumber: 7.9 Consensus size: 19
15436137 TCATTTTTTT
*
15436147 AATTTTTTAAAAATTGTTAA
1 AATTTTTTTAAAATT-TTAA
* * *
15436167 AATTTTTTT-TAATGTTGAG
1 AATTTTTTTAAAAT-TTTAA
*
15436186 ATTTTTTTTAAAATTTATAA
1 AATTTTTTTAAAATTT-TAA
* **
15436206 AATTTCTTTAATTTTTTAA
1 AATTTTTTTAAAATTTTAA
* *
15436225 GAA-GTTTTTAAATTTTCTTTAA
1 -AATTTTTTTAAA--AT-TTTAA
15436247 AATTTTTTTAAAATGTTTAA
1 AATTTTTTTAAAAT-TTTAA
* *
15436267 ACACTTTTTTACAATTTTTAA
1 A-ATTTTTTTA-AAATTTTAA
* *
15436288 AACTTTATTTATAATTTT
1 AA-TTTTTTTAAAATTTT
15436306 TTAAAAAAAT
Statistics
Matches: 104, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
19 24 0.23
20 40 0.38
21 24 0.23
22 16 0.15
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
AATTTTTTTAAAATTTTAA
Found at i:15436303 original size:21 final size:20
Alignment explanation
Indices: 15436189--15436311 Score: 90
Period size: 21 Copynumber: 6.0 Consensus size: 20
15436179 TGTTGAGATT
*
15436189 TTTTTTAAAATTTATAAAA-
1 TTTTTTAAAATTTTTAAAAC
*
15436208 TTTCTTT-AATTTTTTAAGAA-
1 TTT-TTTAAAATTTTTAA-AAC
* * *
15436228 GTTTTTAAATTTTCTTTAAAAT
1 TTTTTTAAA-ATT-TTTAAAAC
*
15436250 TTTTTTAAAATGTTTAAACAC
1 TTTTTTAAAATTTTTAAA-AC
*
15436271 TTTTTTACAATTTTTAAAAC
1 TTTTTTAAAATTTTTAAAAC
*
15436291 TTTATTTATAATTTTTTAAAA
1 TTT-TTTA-AAATTTTTAAAA
15436312 AAATTTAGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
19 14 0.17
20 20 0.24
21 27 0.32
22 23 0.27
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTTAAAATTTTTAAAAC
Found at i:15436360 original size:32 final size:29
Alignment explanation
Indices: 15436294--15436368 Score: 69
Period size: 31 Copynumber: 2.5 Consensus size: 29
15436284 TTAAAACTTT
* *
15436294 ATTTATAATTTTTTAAAAAAATTTAGAAA
1 ATTTTTAAATTTTTAAAAAAATTTAGAAA
* **
15436323 ATTTTTTGAATTTTTAAAAGAAATTTTAGATT
1 A-TTTTTAAATTTTTAAAA-AAA-TTTAGAAA
*
15436355 GTTTTTAAATTTTT
1 ATTTTTAAATTTTT
15436369 TAGATTTTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
29 1 0.03
30 14 0.39
31 15 0.42
32 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (29 bp):
ATTTTTAAATTTTTAAAAAAATTTAGAAA
Found at i:15436369 original size:32 final size:30
Alignment explanation
Indices: 15436295--15436370 Score: 75
Period size: 32 Copynumber: 2.4 Consensus size: 30
15436285 TAAAACTTTA
15436295 TTTATAATTTTTTAAAAAAATTTAGAAAATTT
1 TTTA-AATTTTTTAAAAAAATTTAG-AAATTT
* *
15436327 TTTGAA-TTTTTAAAAGAAATTTTAG-ATTGTT
1 TTTAAATTTTTTAAAA-AAA-TTTAGAAAT-TT
15436358 TTTAAATTTTTTA
1 TTTAAATTTTTTA
15436371 GATTTTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
30 11 0.30
31 12 0.32
32 14 0.38
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (30 bp):
TTTAAATTTTTTAAAAAAATTTAGAAATTT
Found at i:15436370 original size:9 final size:9
Alignment explanation
Indices: 15436356--15436507 Score: 62
Period size: 9 Copynumber: 16.4 Consensus size: 9
15436346 TTTTAGATTG
15436356 TTTTTAAAT
1 TTTTTAAAT
*
15436365 TTTTTAGA-
1 TTTTTAAAT
*
15436373 TTTTGAAAT
1 TTTTTAAAT
15436382 TCTTTT--AT
1 T-TTTTAAAT
* *
15436390 TTTCTAAAA
1 TTTTTAAAT
15436399 TTTTT-AAT
1 TTTTTAAAT
15436407 TTTTTACAA-
1 TTTTTA-AAT
*
15436416 TTGTTAGAATTT
1 TTTTTA-AA--T
*
15436428 TTTTTAAAA
1 TTTTTAAAT
*
15436437 TATTTAGAAT
1 TTTTTA-AAT
*
15436447 CTTTTAAAT
1 TTTTTAAAT
*
15436456 TTTTTAAAAA
1 TTTTT-AAAT
*
15436466 CTTTTATAAT
1 TTTTTA-AAT
**
15436476 TTTTTATTT
1 TTTTTAAAT
* *
15436485 TTTTTTATT
1 TTTTTAAAT
15436494 TATTTTAAAT
1 T-TTTTAAAT
15436504 TTTT
1 TTTT
15436508 AAAAATTTTC
Statistics
Matches: 103, Mismatches: 27, Indels: 26
0.66 0.17 0.17
Matches are distributed among these distances:
7 3 0.03
8 16 0.16
9 45 0.44
10 32 0.31
11 2 0.02
12 5 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:15436432 original size:21 final size:21
Alignment explanation
Indices: 15436406--15436451 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15436396 AAATTTTTAA
* *
15436406 TTTTTTACAAT-TGTTAGAATT
1 TTTTTTAAAATAT-TTAGAATC
15436427 TTTTTTAAAATATTTAGAATC
1 TTTTTTAAAATATTTAGAATC
15436448 TTTT
1 TTTT
15436452 AAATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTTTTAAAATATTTAGAATC
Found at i:15436458 original size:29 final size:29
Alignment explanation
Indices: 15436426--15436491 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
15436416 TTGTTAGAAT
15436426 TTTTTTTAAAA-TATTTAGAATCTTTTAAA
1 TTTTTTTAAAACT-TTTAGAATCTTTTAAA
* * * **
15436455 TTTTTTAAAAACTTTTATAATTTTTTATT
1 TTTTTTTAAAACTTTTAGAATCTTTTAAA
15436484 TTTTTTTA
1 TTTTTTTA
15436492 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTTTTTAAAACTTTTAGAATCTTTTAAA
Found at i:15441105 original size:37 final size:38
Alignment explanation
Indices: 15441051--15441123 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 38
15441041 GAATTATTTT
* *
15441051 ATTTATTTAAATATATATTTATAT-TGTAAAATTTATA
1 ATTTATTTAAATATATATCTAAATCTGTAAAATTTATA
* *
15441088 ATTTTTTTACAAT-TATATCTAAATCTTTAAAATTTA
1 ATTTATTTA-AATATATATCTAAATCTGTAAAATTTA
15441124 ATGATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (38 bp):
ATTTATTTAAATATATATCTAAATCTGTAAAATTTATA
Found at i:15442085 original size:143 final size:140
Alignment explanation
Indices: 15441881--15442252 Score: 381
Period size: 142 Copynumber: 2.6 Consensus size: 140
15441871 TATTTTTAAG
* * * * *
15441881 GGATATTTTCGTAATTTATCCTTTTTGAGCTTGGATTTTCATTAAACTTTACAGATTTTAATTTC
1 GGATATTTTCGTAATTTAACCTTTTTGAGCTCGGATTTTCATAAAACTTT-TAGATCTTAATTTC
* * *
15441946 ATAATATTTCAT-ATTTTTGGTGCATATGAAATCA-CATCAATTCCCT-GAAAGTGTGAAATTAC
65 ATAAT-TTTCATAATTTTTGGTGCATATG-AATCATAAT-AATACCCTAAAAAGTGTGAAATTA-
*
15442008 CAAAATACCCTTATAA
126 C-AAATACCCCTATAA
** ** *
15442024 GGATATTTTCGTAATTTGGCCTTTTCAAGCTCAGATTTTCATAAAACTCTTTAGATCTTAATTTC
1 GGATATTTTCGTAATTTAACCTTTTTGAGCTCGGATTTTCATAAAACT-TTTAGATCTTAATTTC
* * * **
15442089 ATAATTATTCATAATTTTTAGTGCATTTGAATCATAATAGTACCCTAAAAAGTGTGAAATTACTG
65 ATAATT-TTCATAATTTTTGGTGCATATGAATCATAATAATACCCTAAAAAGTGTGAAATTACAA
*
15442154 ATACCCCTATAG
129 ATACCCCTATAA
* * ** * * *
15442166 GGGTATTTTTGTAATTTAATTTTTTTGAGCTCGGATTTTCATGAAACTTTTTAGATCTCAATTTT
1 GGATATTTTCGTAATTTAACCTTTTTGAGCTCGGATTTTCATAAAAC-TTTTAGATCTTAATTTC
*
15442231 ATAATCTTTCATGATTTTTGGT
65 ATAAT-TTTCATAATTTTTGGT
15442253 ATTTTAAAAT
Statistics
Matches: 189, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
142 80 0.42
143 77 0.41
144 32 0.17
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (140 bp):
GGATATTTTCGTAATTTAACCTTTTTGAGCTCGGATTTTCATAAAACTTTTAGATCTTAATTTCA
TAATTTTCATAATTTTTGGTGCATATGAATCATAATAATACCCTAAAAAGTGTGAAATTACAAAT
ACCCCTATAA
Found at i:15445699 original size:21 final size:21
Alignment explanation
Indices: 15445660--15445703 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
15445650 ACTATTTGCT
*
15445660 TGTTATTTTAATTTAGTTTCA
1 TGTTATTTTAATATAGTTTCA
* *
15445681 TGTTATTTTACTATGGTTTCA
1 TGTTATTTTAATATAGTTTCA
15445702 TG
1 TG
15445704 ATAGTTTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.14, T:0.59
Consensus pattern (21 bp):
TGTTATTTTAATATAGTTTCA
Found at i:15448352 original size:13 final size:14
Alignment explanation
Indices: 15448321--15448354 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15448311 TTGTTTTACA
15448321 AAAAATGACTTTCG
1 AAAAATGACTTTCG
* *
15448335 AAAAATGATTTTTG
1 AAAAATGACTTTCG
15448349 AAAAAT
1 AAAAAT
15448355 ATTTACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (14 bp):
AAAAATGACTTTCG
Found at i:15448502 original size:24 final size:23
Alignment explanation
Indices: 15448474--15448542 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
15448464 TTAATATAAC
15448474 TATTAAAATATAAAAATTATTTAT
1 TATTAAAATATAAAAATTATTT-T
* *
15448498 TATTAAAATATATTGAAACTATTTT
1 TATTAAAATATA--AAAATTATTTT
*
15448523 TATTAAAATTATTAAAATTA
1 TATTAAAA-TATAAAAATTA
15448543 AAAAATAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
24 17 0.46
25 9 0.24
26 11 0.30
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (23 bp):
TATTAAAATATAAAAATTATTTT
Found at i:15448650 original size:15 final size:14
Alignment explanation
Indices: 15448632--15448787 Score: 95
Period size: 13 Copynumber: 11.6 Consensus size: 14
15448622 TATTATTCTT
15448632 TATACTATTTATT-A
1 TATA-TATTTATTAA
15448646 -ATATA-TTA-TAA
1 TATATATTTATTAA
*
15448657 TAT-TATTTGTTAA
1 TATATATTTATTAA
*
15448670 TATAT-TATATTAA
1 TATATATTTATTAA
* *
15448683 TATTTATTAATATAA
1 TATATATTTAT-TAA
15448698 TAT-TATTTA-TAA
1 TATATATTTATTAA
15448710 -ATATA-TTA-TAA
1 TATATATTTATTAA
15448721 TAT-TATTTATTAA
1 TATATATTTATTAA
* *
15448734 TAT-TAATATATTAG
1 TATAT-ATTTATTAA
*
15448748 TATATTATTTATTTA
1 TATA-TATTTATTAA
15448763 TAATAATATTTATTAA
1 T-AT-ATATTTATTAA
15448779 TATAATATT
1 TAT-ATATT
15448788 ATTTTTTACT
Statistics
Matches: 113, Mismatches: 13, Indels: 31
0.72 0.08 0.20
Matches are distributed among these distances:
10 1 0.01
11 16 0.14
12 16 0.14
13 26 0.23
14 19 0.17
15 21 0.19
16 13 0.12
17 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (14 bp):
TATATATTTATTAA
Found at i:15448663 original size:23 final size:23
Alignment explanation
Indices: 15448637--15448782 Score: 146
Period size: 23 Copynumber: 6.6 Consensus size: 23
15448627 TTCTTTATAC
15448637 TATTTATTAATATATTATAATAT
1 TATTTATTAATATATTATAATAT
* * *
15448660 TATTTGTTAATATATTATATTAA
1 TATTTATTAATATATTATAATAT
15448683 TATTTA-T--TA-A-TATAATAT
1 TATTTATTAATATATTATAATAT
*
15448701 TATTTATAAATATATTATAATAT
1 TATTTATTAATATATTATAATAT
*
15448724 TATTTATTAATAT-TAAT-ATAT
1 TATTTATTAATATATTATAATAT
* * *
15448745 TAGTATATT-ATTTATTTATAATAA
1 TA-TTTATTAATATA-TTATAATAT
15448769 TATTTATTAATATA
1 TATTTATTAATATA
15448783 ATATTATTTT
Statistics
Matches: 98, Mismatches: 15, Indels: 19
0.74 0.11 0.14
Matches are distributed among these distances:
18 12 0.12
19 1 0.01
20 2 0.02
21 11 0.11
22 10 0.10
23 53 0.54
24 9 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
TATTTATTAATATATTATAATAT
Found at i:15448701 original size:41 final size:41
Alignment explanation
Indices: 15448652--15448791 Score: 174
Period size: 41 Copynumber: 3.3 Consensus size: 41
15448642 ATTAATATAT
*
15448652 TATAATATTATTTGTTAATATATTATATTAATATTTATTAA
1 TATAATATTATTTGTTAATATATTATAATAATATTTATTAA
* * *
15448693 TATAATATTATTTATAAATATATTATAATATTATTTATTAA
1 TATAATATTATTTGTTAATATATTATAATAATATTTATTAA
* *
15448734 TATTAATA-TATTAGTATATTATTTATTTATAATAATATTTATTAA
1 TA-TAATATTATTTGT-TA--ATATA-TTATAATAATATTTATTAA
15448779 TATAATATTATTT
1 TATAATATTATTT
15448792 TTTACTACAC
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
41 44 0.53
42 6 0.07
44 9 0.11
45 24 0.29
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (41 bp):
TATAATATTATTTGTTAATATATTATAATAATATTTATTAA
Found at i:15448713 original size:64 final size:68
Alignment explanation
Indices: 15448637--15448782 Score: 210
Period size: 64 Copynumber: 2.2 Consensus size: 68
15448627 TTCTTTATAC
* *
15448637 TATTTATTAATATATTATAATATTATTTGTTAATA-TATTATATTAATAT-TTA-TTA-ATATAA
1 TATTTATTAATATATTATAATATTATTTATTAATATTAATATATTAATATATTATTTATATATAA
*
15448698 TAT
66 TAA
* * *
15448701 TATTTATAAATATATTATAATATTATTTATTAATATTAATATATTAGTATATTATTTATTTATAA
1 TATTTATTAATATATTATAATATTATTTATTAATATTAATATATTAATATATTATTTATATATAA
15448766 TAA
66 TAA
15448769 TATTTATTAATATA
1 TATTTATTAATATA
15448783 ATATTATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
64 33 0.46
65 12 0.17
66 3 0.04
67 3 0.04
68 20 0.28
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (68 bp):
TATTTATTAATATATTATAATATTATTTATTAATATTAATATATTAATATATTATTTATATATAA
TAA
Found at i:15448902 original size:3 final size:3
Alignment explanation
Indices: 15448894--15448943 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
15448884 TACGTTTTAC
15448894 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15448941 ATA
1 ATA
15448944 TTATTATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15448948 original size:3 final size:3
Alignment explanation
Indices: 15448942--15448987 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
15448932 AATATAATAA
15448942 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15448988 TAATTAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15454450 original size:14 final size:14
Alignment explanation
Indices: 15454413--15454455 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
15454403 GGTTTCGGGA
*
15454413 TTTAATTTTAAGG-
1 TTTAATTTTAGGGT
*
15454426 TTTCA-TTTAGGGT
1 TTTAATTTTAGGGT
15454439 TTTAATTTTAGGGT
1 TTTAATTTTAGGGT
15454453 TTT
1 TTT
15454456 GGGGTTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 6 0.24
13 8 0.32
14 11 0.44
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.58
Consensus pattern (14 bp):
TTTAATTTTAGGGT
Found at i:15454976 original size:3 final size:3
Alignment explanation
Indices: 15454968--15455048 Score: 51
Period size: 3 Copynumber: 25.3 Consensus size: 3
15454958 ACTAAGTTTT
* *
15454968 TTA TTA TTA TTA TTA TTA TCTGAA TTA TT- TAGA TTT TTA TGT- TTA
1 TTA TTA TTA TTA TTA TTA T-T--A TTA TTA T-TA TTA TTA T-TA TTA
15455013 TTTA TTTA TTTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 -TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15455049 ATATATATAC
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
2 4 0.06
3 44 0.68
4 14 0.22
5 1 0.02
6 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15456832 original size:14 final size:14
Alignment explanation
Indices: 15456813--15456845 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15456803 GATTAGGCCA
15456813 TATTTTGGG-TCTTT
1 TATTTTGGGCT-TTT
15456827 TATTTTGGGCTTTT
1 TATTTTGGGCTTTT
15456841 TATTT
1 TATTT
15456846 AACTATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.09, C:0.06, G:0.18, T:0.67
Consensus pattern (14 bp):
TATTTTGGGCTTTT
Found at i:15457573 original size:97 final size:96
Alignment explanation
Indices: 15457464--15457687 Score: 231
Period size: 97 Copynumber: 2.3 Consensus size: 96
15457454 AACTAAACTA
* * * *
15457464 AGCTTAAAATTTTATT-AGTTGCCAGTTAAACT-AAGCTTAAATTTTCATTACTGCTAGTTAAAC
1 AGCTT-AAATTTTATTAAG-TACCAATTAAACTGAA-CTTAAATTTTCATTACTGCCAGCTAAA-
*
15457527 TGTA-CTTAAATTTTTATTAGGTGCTA-GCTAAAATG
62 T-TAGCTTAAATTTTCATTAGGTG-TAGGCTAAAATG
**
15457562 AGCTTAAATTTTATTAAGTACCAATTAAACTGAACTTAAATTTTCATTGGTGCCAGCTAAATTAG
1 AGCTTAAATTTTATTAAGTACCAATTAAACTGAACTTAAATTTTCATTACTGCCAGCTAAATTA-
* * *
15457627 GCTTAAATTTTCATTAGGTGTAGGTTACACTG
65 GCTTAAATTTTCATTAGGTGTAGGCTAAAATG
* ** *
15457659 AGCTTAAATTTCATTGGGTACTAATTAAA
1 AGCTTAAATTTTATTAAGTACCAATTAAA
15457688 TTAGGCTTAA
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
95 2 0.02
96 3 0.03
97 93 0.87
98 9 0.08
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (96 bp):
AGCTTAAATTTTATTAAGTACCAATTAAACTGAACTTAAATTTTCATTACTGCCAGCTAAATTAG
CTTAAATTTTCATTAGGTGTAGGCTAAAATG
Found at i:15457666 original size:65 final size:65
Alignment explanation
Indices: 15457457--15457771 Score: 268
Period size: 65 Copynumber: 4.9 Consensus size: 65
15457447 TGATGCCAAC
* * * * *
15457457 TAAACTAAGCTTAAAATTTT-ATTAGTTGCCAGTTAAACTAAGCTTAAATTTTCATTA-CTGCTA
1 TAAACTGAGCTT-AAATTTTCATTAGGTGCCAGTTAAATTAGGCTTAAATTTTCATTAGGTG-TA
15457520 GT
64 GT
* * * * * **
15457522 TAAACTGTA-CTTAAATTTTTATTAGGTGCTAGCTAAAAT-GAGCTTAAATTTT-ATTAAGTACC
1 TAAACTG-AGCTTAAATTTTCATTAGGTGCCAGTTAAATTAG-GCTTAAATTTTCATTAGGT-GT
*
15457584 AAT
63 AGT
* *
15457587 TAAACTGAACTTAAATTTTCATT-GGTGCCAGCTAAATTAGGCTTAAATTTTCATTAGGTGTAGG
1 TAAACTGAGCTTAAATTTTCATTAGGTGCCAGTTAAATTAGGCTTAAATTTTCATTAGGTGTA-G
15457651 T
65 T
* * * * * * *
15457652 TACACTGAGCTTAAA-TTTCATTGGGTACTAATTAAATTAGGCTTAAATTTGCATTGGGTGTCAG
1 TAAACTGAGCTTAAATTTTCATTAGGTGCCAGTTAAATTAGGCTTAAATTTTCATTAGGTGT-AG
*
15457716 C
65 T
* * * *
15457717 TAAACTGGGCTTAAA-ATTCATTAGGTGCCAATTAAATTGGGCTTAAATTTTCATT
1 TAAACTGAGCTTAAATTTTCATTAGGTGCCAGTTAAATTAGGCTTAAATTTTCATT
15457772 CGATGCTAGC
Statistics
Matches: 205, Mismatches: 34, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
64 44 0.21
65 159 0.78
66 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (65 bp):
TAAACTGAGCTTAAATTTTCATTAGGTGCCAGTTAAATTAGGCTTAAATTTTCATTAGGTGTAGT
Found at i:15457697 original size:97 final size:98
Alignment explanation
Indices: 15457531--15457771 Score: 247
Period size: 97 Copynumber: 2.5 Consensus size: 98
15457521 TTAAACTGTA
* *
15457531 CTTAAATTTTTATTAGGTGCTAGCTAAAATGAGCTTAAATTTTATTAAGTACCAATTAAACTGAA
1 CTTAAATTTTCATTAGGTGCTAGCTAAAATGAGCTTAAATTTCATTAAGTACCAATTAAACTGAA
* *
15457596 CTTAAATTTTCATT-GGTGCCAGCTAAATTAGG
66 CTTAAATTTGCATTGGGTGCCAGCTAAACTAGG
* * * ** * *
15457628 CTTAAATTTTCATTAGGTG-TAGGTTACACTGAGCTTAAATTTCATTGGGTACTAATTAAA-TTA
1 CTTAAATTTTCATTAGGTGCTA-GCTAAAATGAGCTTAAATTTCATTAAGTACCAATTAAACTGA
* * *
15457691 GGCTTAAATTTGCATTGGGTGTCAGCTAAACTGGG
65 -ACTTAAATTTGCATTGGGTGCCAGCTAAACTAGG
* * ** * *
15457726 CTTAAA-ATTCATTAGGTGCCAATTAAATTGGGCTTAAATTTTCATT
1 CTTAAATTTTCATTAGGTGCTAGCTAAAATGAGCTTAAA-TTTCATT
15457772 CGATGCTAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
96 4 0.03
97 86 0.72
98 29 0.24
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (98 bp):
CTTAAATTTTCATTAGGTGCTAGCTAAAATGAGCTTAAATTTCATTAAGTACCAATTAAACTGAA
CTTAAATTTGCATTGGGTGCCAGCTAAACTAGG
Found at i:15457728 original size:33 final size:33
Alignment explanation
Indices: 15457465--15457771 Score: 223
Period size: 32 Copynumber: 9.5 Consensus size: 33
15457455 ACTAAACTAA
* **
15457465 GCTTAAAATTTT-ATTAGTTGCCAGTTAAACTAA
1 GCTT-AAATTTTCATTAGGTGCCAGTTAAACTGG
* * *
15457498 GCTTAAATTTTCATTA-CTGCTAGTTAAACTGT
1 GCTTAAATTTTCATTAGGTGCCAGTTAAACTGG
* * * * * *
15457530 ACTTAAATTTTTATTAGGTGCTAGCTAAAATGA
1 GCTTAAATTTTCATTAGGTGCCAGTTAAACTGG
* * * *
15457563 GCTTAAATTTT-ATTAAGTACCAATTAAACTGA
1 GCTTAAATTTTCATTAGGTGCCAGTTAAACTGG
* * * *
15457595 ACTTAAATTTTCATT-GGTGCCAGCTAAATTAG
1 GCTTAAATTTTCATTAGGTGCCAGTTAAACTGG
* * *
15457627 GCTTAAATTTTCATTAGGTG-TAGGTTACACTGA
1 GCTTAAATTTTCATTAGGTGCCA-GTTAAACTGG
* * * * * *
15457660 GCTTAAA-TTTCATTGGGTACTAATTAAATTAG
1 GCTTAAATTTTCATTAGGTGCCAGTTAAACTGG
* * * *
15457692 GCTTAAATTTGCATTGGGTGTCAGCTAAACTGG
1 GCTTAAATTTTCATTAGGTGCCAGTTAAACTGG
* * *
15457725 GCTTAAA-ATTCATTAGGTGCCAATTAAATTGG
1 GCTTAAATTTTCATTAGGTGCCAGTTAAACTGG
15457757 GCTTAAATTTTCATT
1 GCTTAAATTTTCATT
15457772 CGATGCTAGC
Statistics
Matches: 211, Mismatches: 55, Indels: 16
0.75 0.20 0.06
Matches are distributed among these distances:
32 130 0.62
33 81 0.38
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (33 bp):
GCTTAAATTTTCATTAGGTGCCAGTTAAACTGG
Found at i:15457786 original size:33 final size:33
Alignment explanation
Indices: 15457498--15457804 Score: 196
Period size: 32 Copynumber: 9.5 Consensus size: 33
15457488 GTTAAACTAA
* * * *
15457498 GCTTAAATTTTCATTA-CTGCTAGTTAAACTGT
1 GCTTAAATTTTCATTAGGTGCTAGCTAAATTGG
* * * *
15457530 ACTTAAATTTTTATTAGGTGCTAGCTAAAATGA
1 GCTTAAATTTTCATTAGGTGCTAGCTAAATTGG
* * * ** * *
15457563 GCTTAAATTTT-ATTAAGTACCAATTAAACTGA
1 GCTTAAATTTTCATTAGGTGCTAGCTAAATTGG
* * *
15457595 ACTTAAATTTTCATT-GGTGCCAGCTAAATTAG
1 GCTTAAATTTTCATTAGGTGCTAGCTAAATTGG
* * * *
15457627 GCTTAAATTTTCATTAGGTG-TAGGTTACACTGA
1 GCTTAAATTTTCATTAGGTGCTA-GCTAAATTGG
* * ** *
15457660 GCTTAAA-TTTCATTGGGTACTAATTAAATTAG
1 GCTTAAATTTTCATTAGGTGCTAGCTAAATTGG
* * *
15457692 GCTTAAATTTGCATTGGGTG-TCAGCTAAACTGG
1 GCTTAAATTTTCATTAGGTGCT-AGCTAAATTGG
* * **
15457725 GCTTAAA-ATTCATTAGGTGCCAATTAAATTGG
1 GCTTAAATTTTCATTAGGTGCTAGCTAAATTGG
* * *
15457757 GCTTAAATTTTCATTCGATGCTAGCTAAATTTG
1 GCTTAAATTTTCATTAGGTGCTAGCTAAATTGG
**
15457790 ATTTAAATTTTCATT
1 GCTTAAATTTTCATT
15457805 TGGTACACTT
Statistics
Matches: 209, Mismatches: 57, Indels: 17
0.74 0.20 0.06
Matches are distributed among these distances:
32 111 0.53
33 98 0.47
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (33 bp):
GCTTAAATTTTCATTAGGTGCTAGCTAAATTGG
Found at i:15458194 original size:18 final size:18
Alignment explanation
Indices: 15458173--15458221 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
15458163 AAATATGAAA
*
15458173 TTTTATTTTTTATATATT
1 TTTTATTTTTTATAAATT
*
15458191 TTTTATTTATTA-AAATT
1 TTTTATTTTTTATAAATT
*
15458208 TTATTATTATTTAT
1 TT-TTATTTTTTAT
15458222 TTGCTTGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTTTTTATAAATT
Found at i:15458218 original size:28 final size:28
Alignment explanation
Indices: 15458182--15458278 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
15458172 ATTTTATTTT
15458182 TTATATATTT-TTTATTTATTAAAATT-TTA
1 TTAT-TATTTATTTATTTATT--AATTATTA
** *
15458211 TTATTATTTATTTGCTTGTT-ATTATTA
1 TTATTATTTATTTATTTATTAATTATTA
15458238 TTATTTATTTATTTATTTATT-ATTATTA
1 TTA-TTATTTATTTATTTATTAATTATTA
15458266 TTATTA-TTATTTA
1 TTATTATTTATTTA
15458279 ATAATTCTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
26 10 0.17
27 9 0.15
28 29 0.49
29 11 0.19
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (28 bp):
TTATTATTTATTTATTTATTAATTATTA
Found at i:15458235 original size:3 final size:3
Alignment explanation
Indices: 15458229--15458276 Score: 60
Period size: 3 Copynumber: 14.7 Consensus size: 3
15458219 TATTTGCTTG
15458229 TTA TTA TTA TTA TTTA TTTA TTTA TTTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TT
15458277 TAATAATTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 29 0.66
4 15 0.34
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:15459783 original size:13 final size:13
Alignment explanation
Indices: 15459765--15459798 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
15459755 TCTTCTGCTG
15459765 CAGTTTTTCTGTT
1 CAGTTTTTCTGTT
15459778 CAG-TTTTCTGTT
1 CAGTTTTTCTGTT
15459790 CAGTGTTTT
1 CAGT-TTTT
15459799 TTCGCTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.63
13 3 0.16
14 4 0.21
ACGTcount: A:0.09, C:0.15, G:0.18, T:0.59
Consensus pattern (13 bp):
CAGTTTTTCTGTT
Found at i:15466902 original size:49 final size:49
Alignment explanation
Indices: 15466740--15467562 Score: 787
Period size: 49 Copynumber: 17.3 Consensus size: 49
15466730 ACAGATAAGA
* *
15466740 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGAAGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* * * *
15466789 AATTTTAAAATTATTGAGCCTCAGTTGAGAGGAG-CTTTTTCAAGA-GA-
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* *
15466836 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTCTCAAGATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* *
15466885 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATAATA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGA-G
* * *
15466934 ATTTTAAAGTTGTTGAG-CTCTGCTGAGAAGAGCCCTTTCCAAGATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
*
15466982 ATTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAG-CTTTTTC-A-A--A-
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* * **
15467025 ATTTTAAAGTTGTTAAAGCCTCTGTTGAGA-GAAACTTTTTCAA-ATGAG
1 ATTTTAAAGTTGTT-GAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* * **
15467073 ATTTTTAAAGCTGTTGAGCCTCTGCTGAGAAGAG-CTTTTTCAA-AAAAG
1 A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
** * * * * *
15467121 ATTTTAAAGTCATTAAGCCTCTACTGAGAGAAGCCTTTCT-AAGATAAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* * * *
15467169 AATTTTAAAATTGTTAAGCCTCTGCTGAGATGAGCCCTTTTCAAGATGAG
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* * * * * *
15467219 ATTTTAAAGTTGTTGAGCTTCTGTTGAGATGAG-CTTTTCCAAAATAAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
*
15467267 AATTTTAAAGTTGTTGAGCATCTGCTGAGAGGAG-CTTTTTC---A--AG
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* * * *
15467311 ATTTTAAAGTTGTTAAGCCTCTGTTGAGATGAG-CTTTTTTAA-ATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* * * * *
15467358 ATTTTTAAAGTTGTTGAGCTTCTACTGAGAGAAG-CTTTTCCAA-AAGAG
1 A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* ** * * *
15467406 ATTTT-TAGTCATTGAGCCTCTGTTAAGAGGAGCC-TTTCCAAGATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* * * *
15467453 AATTTTAAAGTTGTTAAGCCTCTGTTGAGAAGAGCCCTTTTCAAGATGAG
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
* *
15467503 ATTTTAAAGTT-TTGAGGCTCTGCTGAGAAGAG-CTTTTTCAAGA-GA-
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
15467548 ATTTTAAAGTT-TTGA
1 ATTTTAAAGTTGTTGA
15467563 TGAAAGGAGC
Statistics
Matches: 646, Mismatches: 98, Indels: 63
0.80 0.12 0.08
Matches are distributed among these distances:
43 51 0.08
44 22 0.03
45 18 0.03
46 59 0.09
47 60 0.09
48 159 0.25
49 229 0.35
50 48 0.07
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (49 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAG
Found at i:15467176 original size:285 final size:284
Alignment explanation
Indices: 15466739--15467562 Score: 1049
Period size: 285 Copynumber: 2.9 Consensus size: 284
15466729 AACAGATAAG
* * ** * * * * *
15466739 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGAAGAGAATTTTAAAATTATT
1 AATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAAACTTTTTCAA-ATGAGATTTTTAAAGTTGTT
* * * * **
15466804 GAGCCTCAGTTGAGAGGAGCTTTTTCAAGAGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA
65 GAGCCTCTGCTGAGAAGAGCTTTTTCAAAAGAGATTTTAAAGTCATTGAGCCTCTGCTGAGAGGA
* * * * *
15466868 GCCCTTCTCAAGATGAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATA
130 GCCTTTCT-AAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCCTTTTCAAGATG
* *
15466931 ATAATTTTAAAGTTGTTGAGCTCTGCTGAGAAGAGCCCTTTCCAAGATGAGATTTTAAAGTTGTT
194 A-GATTTTAAAGTTGTTGAGCTCTGCTGAGAAGAG-CTTTTCCAAGATGAGATTTTAAAGTTGTT
*
15466996 GAGCCTCTGCTGAAAGGAGCTTTTTCAA
257 GAGCATCTGCTGAAAGGAGCTTTTTCAA
*
15467024 AATTTTAAAGTTGTTAAAGCCTCTGTTGAGA-GAAACTTTTTCAAATGAGATTTTTAAAGCTGTT
1 AATTTTAAAGTTGTT-AAGCCTCTGTTGAGAGGAAACTTTTTCAAATGAGATTTTTAAAGTTGTT
* * * *
15467088 GAGCCTCTGCTGAGAAGAGCTTTTTCAAAAAAGATTTTAAAGTCATTAAGCCTCTACTGAGAGAA
65 GAGCCTCTGCTGAGAAGAGCTTTTTCAAAAGAGATTTTAAAGTCATTGAGCCTCTGCTGAGAGGA
* * *
15467153 GCCTTTCTAAGATAAGAATTTTAAAATTGTTAAGCCTCTGCTGAGATGAGCCCTTTTCAAGATGA
130 GCCTTTCTAAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCCTTTTCAAGATGA
* * * *
15467218 GATTTTAAAGTTGTTGAGCTTCTGTTGAGATGAGCTTTTCCAAAATAAGAATTTTAAAGTTGTTG
195 GATTTTAAAGTTGTTGAGC-TCTGCTGAGAAGAGCTTTTCCAAGATGAG-ATTTTAAAGTTGTTG
*
15467283 AGCATCTGCTGAGAGGAGCTTTTTCAA
258 AGCATCTGCTGAAAGGAGCTTTTTCAA
* * * *
15467310 GATTTTAAAGTTGTTAAGCCTCTGTTGAGATG-AGCTTTTTTAAATGAGATTTTTAAAGTTGTTG
1 AATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAAACTTTTTCAAATGAGATTTTTAAAGTTGTTG
* * * * * *
15467374 AGCTTCTACTGAG-AGAAGCTTTTCCAAAAGAGATTTT-TAGTCATTGAGCCTCTGTTAAGAGGA
66 AGCCTCTGCTGAGAAG-AGCTTTTTCAAAAGAGATTTTAAAGTCATTGAGCCTCTGCTGAGAGGA
* *
15467437 GCCTTTCCAAGATGAGAATTTTAAAGTTGTTAAGCCTCTGTTGAGAAGAGCCCTTTTCAAGATGA
130 GCCTTTCTAAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCCTTTTCAAGATGA
*
15467502 GATTTTAAAGTT-TTGAGGCTCTGCTGAGAAGAGCTTTTTCAAGA-GA-ATTTTAAAGTT-TTGA
195 GATTTTAAAGTTGTTGA-GCTCTGCTGAGAAGAGCTTTTCCAAGATGAGATTTTAAAGTTGTTGA
15467563 TGAAAGGAGC
Statistics
Matches: 471, Mismatches: 59, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
279 4 0.01
280 11 0.02
282 1 0.00
283 25 0.05
284 145 0.31
285 193 0.41
286 92 0.20
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (284 bp):
AATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAAACTTTTTCAAATGAGATTTTTAAAGTTGTTG
AGCCTCTGCTGAGAAGAGCTTTTTCAAAAGAGATTTTAAAGTCATTGAGCCTCTGCTGAGAGGAG
CCTTTCTAAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCCTTTTCAAGATGAG
ATTTTAAAGTTGTTGAGCTCTGCTGAGAAGAGCTTTTCCAAGATGAGATTTTAAAGTTGTTGAGC
ATCTGCTGAAAGGAGCTTTTTCAA
Found at i:15467215 original size:334 final size:332
Alignment explanation
Indices: 15466741--15467562 Score: 946
Period size: 334 Copynumber: 2.5 Consensus size: 332
15466731 CAGATAAGAA
* *
15466741 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGAAGAGAATTTTAAAATTATTGA
1 TTTTAAAG-TGTTGAGCCTCTGCTGAGAGGAG-CCTTTTCAAGAAGAGAATTTTAAAGTTATTAA
* * *
15466806 GCCTC-AGTTGAGAGGAGCTTTTTCAAG--AGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA
64 GCCTCTA-TTGAGAGAAGCCTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGA
* * * *
15466868 GCCCTTCTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAT
128 GCCCTTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATAAG
*
15466933 AATTTTAAAGTTGTTGAGC-TCTGCTGAGAAGAGCCCTTTCCAAGATGAGATTTTAAAGTTGTTG
193 AATTTTAAAGTTGTTGAGCATCTGCTGAGAAGAG-CCTTTCC---A--AGATTTTAAAGTTGTTA
* **
15466997 AGCCTCTGCTGAAAGGAGC-TTTTTCAA-A-A-TTTTAAAGTTGTTAAAGCCTCTGTTGAGAGAA
252 AGCCTCTGCTGAAAGGAGCTTTTTTAAAGAGATTTTTAAAGTTGTT-AAGCCTCTACTGAGAGAA
* *
15467058 ACTTTTTCAAATGAGAT
316 ACTTTTCCAAAAGAGAT
* * * *
15467075 TTTTAAAGCTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAA-AAAAG-ATTTTAAAGTCATTAAG
1 TTTTAAAG-TGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAAGAAGAGAATTTTAAAGTTATTAAG
* * * *
15467138 CCTCTACTGAGAGAAGCC-TTTCTAAGATAAGAATTTTAAAATTGTTAAGCCTCTGCTGAGATGA
65 CCTCTATTGAGAGAAGCCTTTTC-AAGAT-AGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGA
* * *
15467202 GCCCTTTTCAAGATGAGATTTTAAAGTTGTTGAGCTTCTGTTGAGATGAGCTTTTCCAAAATAAG
128 GCCCTTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATAAG
* * *
15467267 AATTTTAAAGTTGTTGAGCATCTGCTGAGAGGAGCTTTTTCAAGATTTTAAAGTTGTTAAGCCTC
193 AATTTTAAAGTTGTTGAGCATCTGCTGAGAAGAGCCTTTCCAAGATTTTAAAGTTGTTAAGCCTC
* * * * * *
15467332 TGTTGAGATGAGCTTTTTTAAATGAGATTTTTAAAGTTGTTGAGCTTCTACTGAGAGAAGCTTTT
258 TGCTGAAAGGAGCTTTTTTAAA-GAGATTTTTAAAGTTGTTAAGCCTCTACTGAGAGAAACTTTT
15467397 CCAAAAGAGAT
322 CCAAAAGAGAT
* * * * * *
15467408 TTTT--AGTCATTGAGCCTCTGTTAAGAGGAGCCTTTCCAAGATGAGAATTTTAAAGTTGTTAAG
1 TTTTAAAGT-GTTGAGCCTCTGCTGAGAGGAGCCTTTTCAAGAAGAGAATTTTAAAGTTATTAAG
* *
15467471 CCTCTGTTGAGA-AGAGCCCTTTTCAAGAT-GAGATTTTAAAGTT-TTGAGGCTCTGCTGAGAAG
65 CCTCTATTGAGAGA-AG-CCTTTTCAAGATAGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAAG
*
15467533 AG-CTTTTTCAAGA-GA-ATTTTAAAGTT-TTGA
127 AGCCCTTTTCAAGATGAGATTTTAAAGTTGTTGA
15467563 TGAAAGGAGC
Statistics
Matches: 418, Mismatches: 52, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
328 4 0.01
329 43 0.10
330 14 0.03
331 68 0.16
332 30 0.07
333 78 0.19
334 164 0.39
335 17 0.04
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (332 bp):
TTTTAAAGTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAAGAAGAGAATTTTAAAGTTATTAAGC
CTCTATTGAGAGAAGCCTTTTCAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCC
CTTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATAAGAAT
TTTAAAGTTGTTGAGCATCTGCTGAGAAGAGCCTTTCCAAGATTTTAAAGTTGTTAAGCCTCTGC
TGAAAGGAGCTTTTTTAAAGAGATTTTTAAAGTTGTTAAGCCTCTACTGAGAGAAACTTTTCCAA
AAGAGAT
Found at i:15467870 original size:3 final size:3
Alignment explanation
Indices: 15467862--15467909 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
15467852 TAAACACCAT
15467862 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
15467908 TT
1 TT
15467910 TATTTAATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15467951 original size:14 final size:13
Alignment explanation
Indices: 15467928--15467991 Score: 74
Period size: 13 Copynumber: 4.7 Consensus size: 13
15467918 TTTTTCTCAT
15467928 TTTCTATTTTTTTC
1 TTTCT-TTTTTTTC
*
15467942 TTTCTCTTTTTTC
1 TTTCTTTTTTTTC
15467955 TTTCTTGTTTCTTTC
1 TTTCTT-TTT-TTTC
*
15467970 TTCCTTTTTTTTC
1 TTTCTTTTTTTTC
*
15467983 CTTCTTTTT
1 TTTCTTTTT
15467992 CCTTATCCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
13 23 0.53
14 11 0.26
15 9 0.21
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:15467979 original size:28 final size:27
Alignment explanation
Indices: 15467929--15467992 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
15467919 TTTTCTCATT
* *
15467929 TTCTATTTT-TTTCTTTCTCTTTTTTCT
1 TTCT-TTTTCTTTCTTCCTCTTTTTTCC
*
15467956 TTCTTGTTTCTTTCTTCCTTTTTTTTCC
1 TTCTT-TTTCTTTCTTCCTCTTTTTTCC
15467984 TTCTTTTTC
1 TTCTTTTTC
15467993 CTTATCCGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 11 0.34
28 20 0.62
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (27 bp):
TTCTTTTTCTTTCTTCCTCTTTTTTCC
Found at i:15472833 original size:33 final size:33
Alignment explanation
Indices: 15472791--15472858 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
15472781 CGCTTAACCT
15472791 AGCTATTATTAAAAAGTAAAATAGGCAATTCTA
1 AGCTATTATTAAAAAGTAAAATAGGCAATTCTA
* *
15472824 AGCTATTATTAGAAAGTAAAATAGGCAATTGTA
1 AGCTATTATTAAAAAGTAAAATAGGCAATTCTA
15472857 AG
1 AG
15472859 AAATTAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.29
Consensus pattern (33 bp):
AGCTATTATTAAAAAGTAAAATAGGCAATTCTA
Found at i:15476764 original size:38 final size:40
Alignment explanation
Indices: 15476683--15476765 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 40
15476673 AATTCTATCA
* * **
15476683 AAATATCATGCAATCATGCAACTATAATAAATATCATGCT
1 AAATATCATGCAATAATGCAACTATAAAAAATATCATAAT
15476723 AAATATCATGCAATAAAT-C-A-TATAAAAAATATCATAAT
1 AAATATCATGCAAT-AATGCAACTATAAAAAATATCATAAT
15476761 AAATA
1 AAATA
15476766 AATAGAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 20 0.53
39 1 0.03
40 15 0.39
41 2 0.05
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (40 bp):
AAATATCATGCAATAATGCAACTATAAAAAATATCATAAT
Found at i:15476902 original size:20 final size:20
Alignment explanation
Indices: 15476846--15476918 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
15476836 GTAAATAATA
15476846 AATAATCATGCAAATATATT
1 AATAATCATGCAAATATATT
* ** *
15476866 AATAAACAAACAGATATATT
1 AATAATCATGCAAATATATT
15476886 AATAATCATGCAAATATA--
1 AATAATCATGCAAATATATT
15476904 AATAATCATGCAAAT
1 AATAATCATGCAAAT
15476919 CATAAAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
18 15 0.33
20 30 0.67
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (20 bp):
AATAATCATGCAAATATATT
Found at i:15476907 original size:18 final size:18
Alignment explanation
Indices: 15476838--15476924 Score: 84
Period size: 18 Copynumber: 4.5 Consensus size: 18
15476828 CAAATCACGT
15476838 AAATAATAAATAATCATGC
1 AAAT-ATAAATAATCATGC
* **
15476857 AAATATATTAATAAACAAAC
1 AAATATA--AATAATCATGC
*
15476877 AGATATATTAATAATCATGC
1 A-A-ATATAAATAATCATGC
15476897 AAATATAAATAATCATGC
1 AAATATAAATAATCATGC
15476915 AAATCATAAA
1 AAAT-ATAAA
15476925 AAATAAAACT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
18 22 0.40
19 10 0.18
20 18 0.33
21 1 0.02
22 4 0.07
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (18 bp):
AAATATAAATAATCATGC
Found at i:15477642 original size:15 final size:16
Alignment explanation
Indices: 15477622--15477651 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15477612 TTCCTTGAAC
15477622 AATCCTAGAA-AAAAA
1 AATCCTAGAATAAAAA
15477637 AATCCTAGAATAAAA
1 AATCCTAGAATAAAA
15477652 CTAAACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.13, G:0.07, T:0.17
Consensus pattern (16 bp):
AATCCTAGAATAAAAA
Found at i:15478564 original size:39 final size:39
Alignment explanation
Indices: 15478521--15478657 Score: 161
Period size: 39 Copynumber: 3.5 Consensus size: 39
15478511 GACTTTGAAT
15478521 TTTTGAAAAATAAAGTGCTCCTCCACTAGAGCTTCAAAC
1 TTTTGAAAAATAAAGTGCTCCTCCACTAGAGCTTCAAAC
* * * *
15478560 TTTTGAAAAATAAACTACTCCGCCATGTAG-GCTTCAAAC
1 TTTTGAAAAATAAAGTGCTCCTCCA-CTAGAGCTTCAAAC
* ** *
15478599 TTTTGAGAAATAAAGTGCTCCTTTACT-GAGGCTTCGAAC
1 TTTTGAAAAATAAAGTGCTCCTCCACTAGA-GCTTCAAAC
*
15478638 TTTTGAAAAATAAAATGCTC
1 TTTTGAAAAATAAAGTGCTC
15478658 TTTCATTGAT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 76 0.94
40 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (39 bp):
TTTTGAAAAATAAAGTGCTCCTCCACTAGAGCTTCAAAC
Found at i:15482122 original size:9 final size:9
Alignment explanation
Indices: 15482100--15482146 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
15482090 TTTTCAAACC
*
15482100 AAAAAAAAT
1 AAAAATAAT
*
15482109 TAAAATAAT
1 AAAAATAAT
15482118 AAAAATAAT
1 AAAAATAAT
*
15482127 AAAAA-CAT
1 AAAAATAAT
15482135 AAAAAT-AT
1 AAAAATAAT
15482143 AAAA
1 AAAA
15482147 TTTTTGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 13 0.39
9 20 0.61
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAATAAT
Found at i:15482129 original size:17 final size:17
Alignment explanation
Indices: 15482103--15482147 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
15482093 TCAAACCAAA
15482103 AAAAAT-TAAAATA-AT
1 AAAAATATAAAATACAT
15482118 AAAAATAATAAAA-ACAT
1 AAAAAT-ATAAAATACAT
15482135 AAAAATATAAAAT
1 AAAAATATAAAAT
15482148 TTTTGGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.23
16 7 0.27
17 13 0.50
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATATAAAATACAT
Found at i:15482257 original size:212 final size:211
Alignment explanation
Indices: 15481912--15482293 Score: 495
Period size: 212 Copynumber: 1.8 Consensus size: 211
15481902 ATATTAAATT
** * *
15481912 TAATAAAATAATAAAAAATAAAAATTTTGGGAATAAATATTAATCATCCAATGATGAAATTTATA
1 TAATAAAATAATAAAAAATAAAAATTTTGGGAATAAATACAAATCACCCAAGGATGAAATTTATA
** * ** * *
15481977 AAAATTTAAAATGGTAAATTTTTATGAAATTCCTAGGTGAGAAATTTTGTTTAAATTTATCCCAA
66 AAAATTTAAAATGGTAAATTCCTAAGAAATTCCTAGGTGAGAAATTTCCTCTAAATTTAGCCCAA
15482042 ATGGTGGAATAATTTAGATAAAATTTCAATAACAA-TAATTAATATTTATTTTCAAACCAAAAAA
131 ATGGTGGAATAATTTAGATAAAATTTCAAT-ACAAGTAATTAATATTTATTTTCAAACCAAAAAA
15482106 AATTAAAATAATAAAAA
195 AATTAAAATAATAAAAA
* * *
15482123 TAATAAAA-ACAT-AAAAATATAAAATTTTTGGAATTAAATACAAATTACCCAAGGATGAGATTC
1 TAATAAAATA-ATAAAAAATA-AAAATTTTGGGAA-TAAATACAAATCACCCAAGGATGAAATT-
* * * *
15482186 T-TAGAAATTTCAAGTGGTAAATTCCTAAGAAA-TCTCTAGGTGAGAAATTTCCTCTAAATTTGG
62 TATAAAAATTTAAAATGGTAAATTCCTAAGAAATTC-CTAGGTGAGAAATTTCCTCTAAATTTAG
* *
15482249 CCCAAATGGTGGAATGATTTAGATGAAATTTCAATACAAGTAATT
126 CCCAAATGGTGGAATAATTTAGATAAAATTTCAATACAAGTAATT
15482294 GTATTCTTTT
Statistics
Matches: 145, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
210 8 0.06
211 28 0.19
212 108 0.74
213 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.33
Consensus pattern (211 bp):
TAATAAAATAATAAAAAATAAAAATTTTGGGAATAAATACAAATCACCCAAGGATGAAATTTATA
AAAATTTAAAATGGTAAATTCCTAAGAAATTCCTAGGTGAGAAATTTCCTCTAAATTTAGCCCAA
ATGGTGGAATAATTTAGATAAAATTTCAATACAAGTAATTAATATTTATTTTCAAACCAAAAAAA
ATTAAAATAATAAAAA
Found at i:15489426 original size:20 final size:21
Alignment explanation
Indices: 15489401--15489439 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
15489391 ATGCCAAAAT
*
15489401 ATCATGCTAATAT-TTAATAA
1 ATCATGCAAATATATTAATAA
15489421 ATCATGCAAATATATTAAT
1 ATCATGCAAATATATTAAT
15489440 CATGTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (21 bp):
ATCATGCAAATATATTAATAA
Found at i:15489460 original size:19 final size:19
Alignment explanation
Indices: 15489420--15489538 Score: 109
Period size: 19 Copynumber: 6.3 Consensus size: 19
15489410 ATATTTAATA
*
15489420 AATCATGCAAAT-AT-ATT
1 AATCATGCAAATCATAAAT
*
15489437 AATCATGTAAATCATAAAT
1 AATCATGCAAATCATAAAT
* * *
15489456 AATCATGTAAATAATAAGT
1 AATCATGCAAATCATAAAT
* *
15489475 AATTATGCAAATATATATTAAT
1 AATCATGCAAAT-CATA--AAT
*
15489497 AATCATACAAAT-ATAAAT
1 AATCATGCAAATCATAAAT
*
15489515 AATCATACAAATCATAAAT
1 AATCATGCAAATCATAAAT
15489534 AATCA
1 AATCA
15489539 AACTTATACA
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
17 11 0.13
18 17 0.20
19 40 0.47
20 6 0.07
22 12 0.14
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (19 bp):
AATCATGCAAATCATAAAT
Found at i:15495267 original size:3 final size:3
Alignment explanation
Indices: 15495259--15495391 Score: 59
Period size: 3 Copynumber: 45.7 Consensus size: 3
15495249 AGAAAATCAA
* *
15495259 AAT AAT AAT AAT AA- AAT AA- AAT AAA AAT AAA AAT AA- AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * ** *
15495303 AA- AAC AA- AAC AA- AAG GAT ACT AAAT AAT TCT AAT -TT AAT CAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT
*
15495346 AAAT AAT AAAT AAT AAT AAT AAT AAT AA- AAGA AAT AAT AAT AAT AA
1 -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AA
15495392 ATAAGAAAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
2 17 0.17
3 70 0.70
4 13 0.13
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:15495278 original size:5 final size:5
Alignment explanation
Indices: 15495262--15495316 Score: 65
Period size: 5 Copynumber: 10.4 Consensus size: 5
15495252 AAATCAAAAT
*
15495262 AATAA TAATAA AATAA AATAAA AATAAA AATAA AATAA AATAA AACAA
1 AATAA -AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA
*
15495310 AACAA AA
1 AATAA AA
15495317 GGATACTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
5 31 0.66
6 16 0.34
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:15495293 original size:22 final size:22
Alignment explanation
Indices: 15495262--15495306 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15495252 AAATCAAAAT
*
15495262 AATAATAATAAAATAAAATAAA
1 AATAAAAATAAAATAAAATAAA
15495284 AATAAAAATAAAATAAAATAAA
1 AATAAAAATAAAATAAAATAAA
15495306 A
1 A
15495307 CAAAACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (22 bp):
AATAAAAATAAAATAAAATAAA
Found at i:15495381 original size:21 final size:20
Alignment explanation
Indices: 15495357--15495399 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
15495347 AATAATAAAT
15495357 AATAATAATAATAATAAAAGA
1 AATAATAATAATAA-AAAAGA
*
15495378 AATAATAATAATAAATAAGA
1 AATAATAATAATAAAAAAGA
15495398 AA
1 AA
15495400 AAAAAACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
AATAATAATAATAAAAAAGA
Found at i:15495701 original size:18 final size:20
Alignment explanation
Indices: 15495666--15495704 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15495656 GCTTCTTTCC
15495666 TTTTCTCTCTCCTCTCTCTT
1 TTTTCTCTCTCCTCTCTCTT
15495686 TTTTCT-TCTCCTTCTCTCT
1 TTTTCTCTCTCC-TCTCTCT
15495705 AAAGAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTCTCTCTCCTCTCTCTT
Found at i:15495945 original size:11 final size:11
Alignment explanation
Indices: 15495931--15495975 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
15495921 AATTTTCAGA
15495931 AAAAAATTCAT
1 AAAAAATTCAT
15495942 AAAAAATTC-T
1 AAAAAATTCAT
*
15495952 CAAAAATT-A-
1 AAAAAATTCAT
*
15495961 AAAAAAATCAT
1 AAAAAATTCAT
15495972 AAAA
1 AAAA
15495976 TTGCTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 6 0.21
10 9 0.32
11 13 0.46
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAATTCAT
Found at i:15496271 original size:8 final size:7
Alignment explanation
Indices: 15496218--15496338 Score: 63
Period size: 7 Copynumber: 16.9 Consensus size: 7
15496208 AACCGAAAAG
15496218 ATAA-AA
1 ATAATAA
*
15496224 ATAAAAA
1 ATAATAA
* *
15496231 AAAATAT
1 ATAATAA
*
15496238 ATTATAA
1 ATAATAA
15496245 ATAATAAA
1 ATAAT-AA
* *
15496253 ATATGTTA
1 ATA-ATAA
15496261 ATAGATAA
1 ATA-ATAA
*
15496269 ATAATTA
1 ATAATAA
15496276 ATATATATA
1 ATA-ATA-A
*
15496285 TTAATAA
1 ATAATAA
15496292 ATAAT-A
1 ATAATAA
15496298 ATAATAA
1 ATAATAA
15496305 ATAAATAA
1 AT-AATAA
15496313 ATAAATAA
1 AT-AATAA
15496321 A-ATATAA
1 ATA-ATAA
15496328 A-AATAA
1 ATAATAA
15496334 A-AATA
1 ATAATA
15496339 CGAATGAACT
Statistics
Matches: 91, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
6 20 0.22
7 34 0.37
8 33 0.36
9 4 0.04
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (7 bp):
ATAATAA
Found at i:15496294 original size:4 final size:4
Alignment explanation
Indices: 15496260--15496334 Score: 52
Period size: 4 Copynumber: 19.5 Consensus size: 4
15496250 AAAATATGTT
* * * * *
15496260 AATA GATA AAT- AATT AATA TATA TATT AATA AAT- AAT- AAT- AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
15496304 AATA AATA AATA AATAA AATA TAA-A AATA AA
1 AATA AATA AATA AAT-A AATA -AATA AATA AA
15496335 AATACGAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
3 14 0.24
4 39 0.66
5 6 0.10
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (4 bp):
AATA
Found at i:15496313 original size:44 final size:43
Alignment explanation
Indices: 15496222--15496326 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
15496212 GAAAAGATAA
* *
15496222 AAATAAA-AAAAAATATATTATAAATAATAAAATATGTTAATAGAT
1 AAATAAATAAAATATATATTATAAATAATAAAATA---TAATAAAT
* *
15496267 AAATAATTAATATATATATTAATAAATAATAATAATA-AATAAAT
1 AAATAAATAAAATATATATT-ATAAATAATAA-AATATAATAAAT
15496311 AAATAAATAAAATATA
1 AAATAAATAAAATATA
15496327 AAAATAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
44 20 0.39
45 6 0.12
46 10 0.20
47 11 0.22
48 4 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (43 bp):
AAATAAATAAAATATATATTATAAATAATAAAATATAATAAAT
Found at i:15496327 original size:29 final size:29
Alignment explanation
Indices: 15496268--15496334 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
15496258 TTAATAGATA
* * * *
15496268 AATAATTAATATATATATTAATAAATAAT
1 AATAATAAATAAATAAATAAATAAATAAT
15496297 AATAATAAATAAATAAATAAATAAA-ATAT
1 AATAATAAATAAATAAATAAATAAATA-AT
*
15496326 AAAAATAAA
1 AATAATAAA
15496335 AATACGAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 1 0.03
29 31 0.97
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (29 bp):
AATAATAAATAAATAAATAAATAAATAAT
Found at i:15501571 original size:30 final size:30
Alignment explanation
Indices: 15501535--15501592 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15501525 GCCACTGTTA
* * *
15501535 AGCACTGATCATAGGGAAAAACCAAGAACC
1 AGCACTGATAAGAGAGAAAAACCAAGAACC
*
15501565 AGCACTGATAAGAGAGAAAAATCAAGAA
1 AGCACTGATAAGAGAGAAAAACCAAGAA
15501593 AGAGTGTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.52, C:0.17, G:0.21, T:0.10
Consensus pattern (30 bp):
AGCACTGATAAGAGAGAAAAACCAAGAACC
Found at i:15505763 original size:19 final size:19
Alignment explanation
Indices: 15505741--15505778 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
15505731 AAATTAACAT
15505741 AGTAAAAATAT-ATTAAAAA
1 AGTAAAAAT-TCATTAAAAA
15505760 AGTAAAAATTCATTAAAAA
1 AGTAAAAATTCATTAAAAA
15505779 CAATATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (19 bp):
AGTAAAAATTCATTAAAAA
Found at i:15514020 original size:8 final size:8
Alignment explanation
Indices: 15514009--15514070 Score: 81
Period size: 8 Copynumber: 7.5 Consensus size: 8
15513999 TTTTTTGTCT
15514009 TTTTTATA
1 TTTTTATA
15514017 TTTTTATTA
1 TTTTTA-TA
*
15514026 TTTTTTTA
1 TTTTTATA
15514034 TATTTTATA
1 T-TTTTATA
15514043 TTTTTATA
1 TTTTTATA
15514051 TTTTTATTA
1 TTTTTA-TA
15514060 TTTTT-TA
1 TTTTTATA
15514067 TTTT
1 TTTT
15514071 CTATTAACAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
7 6 0.12
8 22 0.45
9 21 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:15514029 original size:17 final size:17
Alignment explanation
Indices: 15514009--15514076 Score: 95
Period size: 17 Copynumber: 4.0 Consensus size: 17
15513999 TTTTTTGTCT
15514009 TTTTTATATTTTTATTA
1 TTTTTATATTTTTATTA
*
15514026 TTTTTTTATATTTTA-TA
1 TTTTTATAT-TTTTATTA
15514043 TTTTTATATTTTTATTA
1 TTTTTATATTTTTATTA
15514060 TTTTT-TATTTTCTATTA
1 TTTTTATATTTT-TATTA
15514077 ACAAATCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
16 11 0.24
17 30 0.65
18 5 0.11
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATATTTTTATTA
Found at i:15514039 original size:26 final size:26
Alignment explanation
Indices: 15514009--15514076 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
15513999 TTTTTTGTCT
15514009 TTTTTATATTTTTATTATTTTT-TTA
1 TTTTTATATTTTTATTATTTTTATTA
15514034 TATTTTATATTTTTA-TATTTTTATTA
1 T-TTTTATATTTTTATTATTTTTATTA
15514060 TTTTT-TATTTTCTATTA
1 TTTTTATATTTT-TATTA
15514077 ACAAATCTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.15
25 14 0.36
26 19 0.49
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTTTATATTTTTATTATTTTTATTA
Found at i:15514318 original size:41 final size:41
Alignment explanation
Indices: 15514250--15514643 Score: 357
Period size: 41 Copynumber: 9.5 Consensus size: 41
15514240 AATAGAAGCT
*
15514250 CAACAACCTTGAAAAATAAAATTAGGCTCCTTTAAACAGAGGCA
1 CAACAACTTTGAAAAAT-AAA--AGGCTCCTTTAAACAGAGGCA
* * * * *
15514294 CAACAACTTGGAAAACTAAAAGGCT-CTTCTAAATAGAGTCT
1 CAACAACTTTGAAAAATAAAAGGCTCCTT-TAAACAGAGGCA
* * *
15514335 CAACAACTTTGAAAAGTAAAATGCTCCTCTAAACAGAGGCA
1 CAACAACTTTGAAAAATAAAAGGCTCCTTTAAACAGAGGCA
* * * * *
15514376 CAACAAGTTTTAAAAGTAAAAGGCTCCTCTAAACAAAGGCA
1 CAACAACTTTGAAAAATAAAAGGCTCCTTTAAACAGAGGCA
* *
15514417 CAACAACTTTGAAAAAATAAAAGGCTCATTTAATCAGAGGCA
1 CAACAACTTTG-AAAAATAAAAGGCTCCTTTAAACAGAGGCA
** * * *
15514459 CAACAACTTTGAAACAAATAAAAGGCTTATATAAACAAAGGTA
1 CAACAACTTTG-AA-AAATAAAAGGCTCCTTTAAACAGAGGCA
* * * *
15514502 TAACAATTTTGAAAAATAAAAAGCT-CTTCTAAACAAAGGCA
1 CAACAACTTTGAAAAATAAAAGGCTCCTT-TAAACAGAGGCA
* * *
15514543 CAACAACTTTGAAAATTAAAAGGCTCCTCTAAATAGAGG--
1 CAACAACTTTGAAAAATAAAAGGCTCCTTTAAACAGAGGCA
* * * * * * * *
15514582 -TATAACTTTAAAAAATAAAAGGCTCCTCTATACTGATGCT
1 CAACAACTTTGAAAAATAAAAGGCTCCTTTAAACAGAGGCA
15514622 CAACAACTTTGAAAAATAAAAG
1 CAACAACTTTGAAAAATAAAAG
15514644 ACTCTTTGAC
Statistics
Matches: 288, Mismatches: 53, Indels: 21
0.80 0.15 0.06
Matches are distributed among these distances:
38 30 0.10
40 4 0.01
41 160 0.56
42 45 0.16
43 35 0.12
44 14 0.05
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.23
Consensus pattern (41 bp):
CAACAACTTTGAAAAATAAAAGGCTCCTTTAAACAGAGGCA
Found at i:15514399 original size:82 final size:81
Alignment explanation
Indices: 15514236--15514649 Score: 393
Period size: 82 Copynumber: 5.0 Consensus size: 81
15514226 TCAGACTTCC
* *
15514236 TCTAAATAGAAGCTCAACAACCTTGAAAAATAAAATTAGGCTCCTTTAAACAGAGGCACAACAAC
1 TCTAAATAG-AGCTCAACAACTTTGAAAAAT-AAA--AGGCTCCTCTAAACAGAGGCACAACAAC
* *
15514301 TTGGAAAACTAAAAGGCTCT
62 TTTGAAAAATAAAAGGCTCT
* * *
15514321 TCTAAATAGAGTCTCAACAACTTTGAAAAGTAAAATGCTCCTCTAAACAGAGGCACAACAAGTTT
1 TCTAAATAGAG-CTCAACAACTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAACAACTTT
* * *
15514386 TAAAAGTAAAAGGCTCC
65 GAAAAATAAAAGGCTCT
* * * * * *
15514403 TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAAGGCTCATTTAATCAGAGGCACAACAACTT
1 TCTAAATAGA-GCTCAACAACTTTG-AAAAATAAAAGGCTCCTCTAAACAGAGGCACAACAACTT
15514468 TGAAACAAATAAAAGGCT-T
64 TG-AA-AAATAAAAGGCTCT
* * * * * * * * *
15514487 ATATAAACAAAGGTATAACAATTTTGAAAAATAAAAAGCTCTTCTAAACAAAGGCACAACAACTT
1 -TCTAAATAGAGCT-CAACAACTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAACAACTT
* *
15514552 TGAAAATTAAAAGGCTCC
64 TGAAAAATAAAAGGCTCT
* * * * * * *
15514570 TCTAAATAGAGGT--ATAACTTTAAAAAATAAAAGGCTCCTCTATACTGATGCTCAACAACTTTG
1 TCTAAATAGAGCTCAACAACTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAACAACTTTG
*
15514633 AAAAATAAAAGACTCT
66 AAAAATAAAAGGCTCT
15514649 T
1 T
15514650 TGACAATCAT
Statistics
Matches: 272, Mismatches: 49, Indels: 22
0.79 0.14 0.06
Matches are distributed among these distances:
79 54 0.20
82 82 0.30
83 37 0.14
84 44 0.16
85 55 0.20
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (81 bp):
TCTAAATAGAGCTCAACAACTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAACAACTTTG
AAAAATAAAAGGCTCT
Found at i:15514515 original size:167 final size:166
Alignment explanation
Indices: 15514233--15514575 Score: 417
Period size: 167 Copynumber: 2.1 Consensus size: 166
15514223 TACTCAGACT
* * *
15514233 TCCTCTAAATAGAAGCTCAACAACCTTGAAAAATAAAATTAGGCTCCTTTAAACAGAGGCACAAC
1 TCCTCTAAACAGAAGCACAACAACCTTGAAAAATAAAA-TAGGCTCATTTAAACAGAGGCACAAC
* * * * * * * *
15514298 AACTTGGAAAACTAAAAGGCTCTTCTAAATAGAGTCTCAACAACTTTGAAAAGTAAAATGCTCCT
65 AACTTGAAAAAATAAAAGGCTCTTATAAACAAAGTATCAACAACTTTGAAAAATAAAAAGCTCCT
* * *
15514363 CTAAACAGAGGCACAACAAGTTTTAAAAGTAAAAGGC
130 CTAAACAAAGGCACAACAACTTTGAAAAGTAAAAGGC
* *
15514400 TCCTCTAAACA-AAGGCACAACAACTTTGAAAAA-ATAAA-AGGCTCATTTAATCAGAGGCACAA
1 TCCTCTAAACAGAA-GCACAACAACCTTGAAAAATA-AAATAGGCTCATTTAAACAGAGGCACAA
*
15514462 CAACTTTGAAACAAATAAAAGGCT-TATATAAACAAAGGTAT-AACAATTTTGAAAAATAAAAAG
64 CAAC-TTGAAA-AAATAAAAGGCTCT-TATAAACAAA-GTATCAACAACTTTGAAAAATAAAAAG
* *
15514525 CTCTTCTAAACAAAGGCACAACAACTTTGAAAATTAAAAGGC
125 CTCCTCTAAACAAAGGCACAACAACTTTGAAAAGTAAAAGGC
15514567 TCCTCTAAA
1 TCCTCTAAA
15514576 TAGAGGTATA
Statistics
Matches: 151, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
165 26 0.17
166 9 0.06
167 113 0.75
168 3 0.02
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (166 bp):
TCCTCTAAACAGAAGCACAACAACCTTGAAAAATAAAATAGGCTCATTTAAACAGAGGCACAACA
ACTTGAAAAAATAAAAGGCTCTTATAAACAAAGTATCAACAACTTTGAAAAATAAAAAGCTCCTC
TAAACAAAGGCACAACAACTTTGAAAAGTAAAAGGC
Found at i:15514533 original size:126 final size:124
Alignment explanation
Indices: 15514258--15514606 Score: 372
Period size: 126 Copynumber: 2.8 Consensus size: 124
15514248 CTCAACAACC
* * *
15514258 TTGAAAAATAAAATTAGGCTCCTT-TAAACAGAGGCACAACAACTTGGAAAACTAAAAGGCTCTT
1 TTGAAAAATAAAA--A-GCT-CTTCTAAACAAAGGCACAACAACTTTGAAAAATAAAAGGCTCTT
* * * * * * *
15514322 CTAAATAGAGTCTCAACAACTTTGAAAAGTAAAATGCTCCTCTAAACAGAGGCACAACAAGTT
62 CTAAATAGAGGCACAACAACTTTGAAAAATAAAAGGCTCATATAAACAAAGGCACAACAAGTT
* * *
15514385 TT-AAAAGTAAAAGGCTCCTCTAAACAAAGGCACAACAACTTTGAAAAAATAAAAGGCTCATT-T
1 TTGAAAAATAAAAAGCTCTTCTAAACAAAGGCACAACAACTTTG-AAAAATAAAAGGCTC-TTCT
* * *
15514448 -AATCAGAGGCACAACAACTTTGAAACAAATAAAAGGCTTATATAAACAAAGGTATAACAA-TT
64 AAAT-AGAGGCACAACAACTTTG-AA-AAATAAAAGGCTCATATAAACAAAGGCACAACAAGTT
* *
15514510 TTGAAAAATAAAAAGCTCTTCTAAACAAAGGCACAACAACTTTGAAAATTAAAAGGCTCCTCTAA
1 TTGAAAAATAAAAAGCTCTTCTAAACAAAGGCACAACAACTTTGAAAAATAAAAGGCTCTTCTAA
* * *
15514575 ATAGAGG---TATAACTTTAAAAAATAAAAGGCTC
66 ATAGAGGCACAACAACTTTGAAAAATAAAAGGCTC
15514607 CTCTATACTG
Statistics
Matches: 188, Mismatches: 25, Indels: 25
0.79 0.11 0.11
Matches are distributed among these distances:
120 12 0.06
121 2 0.01
122 9 0.05
123 27 0.14
124 32 0.17
125 28 0.15
126 76 0.40
127 2 0.01
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (124 bp):
TTGAAAAATAAAAAGCTCTTCTAAACAAAGGCACAACAACTTTGAAAAATAAAAGGCTCTTCTAA
ATAGAGGCACAACAACTTTGAAAAATAAAAGGCTCATATAAACAAAGGCACAACAAGTT
Found at i:15514927 original size:20 final size:20
Alignment explanation
Indices: 15514889--15514928 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15514879 TCTCATCCAA
**
15514889 AAGTTCAAAGCTTTTCATTC
1 AAGTTCAAAGCTTCACATTC
*
15514909 AAGTTCAAAGGTTCACATTC
1 AAGTTCAAAGCTTCACATTC
15514929 GACAAATTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
AAGTTCAAAGCTTCACATTC
Found at i:15515137 original size:21 final size:21
Alignment explanation
Indices: 15515090--15515235 Score: 168
Period size: 21 Copynumber: 6.8 Consensus size: 21
15515080 AGTTCTTCTT
*
15515090 AAAGATTCTCATTTGAAAAACTC
1 AAAGATTCTCATTTG--AAATTC
15515113 AAAGATTCTCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
15515134 AAAGATTCTCATTTGAAAACTT-
1 AAAGATTCTCATTTG-AAA-TTC
* *
15515156 AAAGATTCTTACTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
* *
15515177 AAAAATTCTCATTTGATAACTC
1 AAAGATTCTCATTTGA-AATTC
* *
15515199 AAAGATTCTTACTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
*
15515220 AAAGATTCTTATTTGA
1 AAAGATTCTCATTTGA
15515236 GGCTTCACAA
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
20 2 0.02
21 55 0.51
22 33 0.31
23 17 0.16
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Done.