Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 62 of 163
Found at i:15741789 original size:29 final size:29
Alignment explanation
Indices: 15741756--15741872 Score: 112
Period size: 29 Copynumber: 3.9 Consensus size: 29
15741746 GTTCTAAGTT
* *
15741756 AAAATGTGATTTTTGGAACTTAGGGGCTA
1 AAAATGTGATTTTTAGAAGTTAGGGGCTA
*
15741785 AAAATGTGATTTTTAGAAGTTTGAGGGC-A
1 AAAATGTGATTTTTAGAAGTTAG-GGGCTA
* *
15741814 AAAATGTAATTTTAAAGAAGTTCAAAGGGG-TA
1 AAAATGTGATTTT-TAGAAGTT---AGGGGCTA
*
15741846 AAAATGTGATTTTTGGAAAGTTAGGGG
1 AAAATGTGATTTTTAG-AAGTTAGGGG
15741873 ACCTTTTGGC
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
29 38 0.53
30 11 0.15
31 1 0.01
32 21 0.29
33 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.32
Consensus pattern (29 bp):
AAAATGTGATTTTTAGAAGTTAGGGGCTA
Found at i:15743614 original size:6 final size:6
Alignment explanation
Indices: 15743603--15743664 Score: 51
Period size: 6 Copynumber: 11.0 Consensus size: 6
15743593 CATTATTTAT
* * *
15743603 TTTAAA TTTAAA --TAAA TTTAAA CTTAAA ATT-GA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
15743648 -ATAAA TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA
15743665 ATGGGTTTAG
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
4 4 0.09
5 7 0.16
6 33 0.75
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:15743632 original size:17 final size:17
Alignment explanation
Indices: 15743603--15743666 Score: 85
Period size: 17 Copynumber: 3.8 Consensus size: 17
15743593 CATTATTTAT
*
15743603 TTTAAA-TTTAAATAAA
1 TTTAAACTTAAAATAAA
**
15743619 TTTAAACTTAAAATTGA
1 TTTAAACTTAAAATAAA
*
15743636 TTTAAATTTAAAATAAA
1 TTTAAACTTAAAATAAA
15743653 TTTAAACTTAAAAT
1 TTTAAACTTAAAAT
15743667 GGGTTTAGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
16 6 0.15
17 34 0.85
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTAAACTTAAAATAAA
Found at i:15743655 original size:34 final size:33
Alignment explanation
Indices: 15743603--15743666 Score: 119
Period size: 34 Copynumber: 1.9 Consensus size: 33
15743593 CATTATTTAT
15743603 TTTAAATTTAAATAAATTTAAACTTAAAATTGA
1 TTTAAATTTAAATAAATTTAAACTTAAAATTGA
15743636 TTTAAATTTAAAATAAATTTAAACTTAAAAT
1 TTTAAATTT-AAATAAATTTAAACTTAAAAT
15743667 GGGTTTAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 9 0.30
34 21 0.70
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (33 bp):
TTTAAATTTAAATAAATTTAAACTTAAAATTGA
Found at i:15744136 original size:39 final size:39
Alignment explanation
Indices: 15744078--15744535 Score: 231
Period size: 39 Copynumber: 11.8 Consensus size: 39
15744068 AATGACTACC
* * *
15744078 ATCTACCCCATGATCGGGGTAAGAGATTGGTTGATGGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* *
15744117 ATCTACCCCAGGCTTGGGGTAAAAGA-T--C-GAATGGCTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTG-ATGG-TG
* * * * *
15744154 CAATCTGCCCCAAGCACGGGGTAAGAGATTGGCTAAAGGTG
1 --ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * ** *
15744195 ATCTGCCCTAGGCTCGAGGTAAGAGATCGAAT-A-GCTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
** ** * * **
15744232 CAATCTACCCCAGGCTTAGGGTAAGAGACCGGACGGCT-GCA
1 --ATCTACCCCAGGCTCGGGGTAAGAGATTGG-CTGATGGTG
* *
15744273 ATCTGCCCCAGGCTTGGGGTAAGAGATTGGCTGATGGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * *
15744312 ATCTGCCCCAAGCTCGGGGTACGAGATT-G--AATGGCTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGG-TG
* *
15744349 CAATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGAT-GTG
1 --ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * ** ***
15744389 ATCTACCCCAGGTTCGAGGTAAAAGATCGAATGACT-ACA
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGTG
* * *
15744428 ATCTGCCTCAGGCTTGGGGTAAGAGATTGGCTGATGGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * * *
15744467 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGTTGATTGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * *
15744506 ATCTACCTCATTG-TCAGGGTAAGAGATTGG
1 ATCTACCCCA-GGCTCGGGGTAAGAGATTGG
15744536 AATCTTCAAT
Statistics
Matches: 311, Mismatches: 85, Indels: 46
0.70 0.19 0.10
Matches are distributed among these distances:
35 1 0.00
36 8 0.03
37 7 0.02
38 33 0.11
39 248 0.80
40 5 0.02
41 3 0.01
42 6 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
Found at i:15744301 original size:117 final size:117
Alignment explanation
Indices: 15744117--15744376 Score: 349
Period size: 117 Copynumber: 2.2 Consensus size: 117
15744107 GTTGATGGTG
* * *
15744117 ATCTACCCCAGGCTTGGGGTAAAAGATCGAATGGCTGCAATCTGCCCCAAGCACGGGGTAAGAGA
1 ATCTACCCCAGGCTTGGGGTAAGAGACCGAACGGCTGCAATCTGCCCCAAGCACGGGGTAAGAGA
* *
15744182 TTGGCTAAAGGTGATCTGCCCTAGGCTCGAGGTAAGAGATCGAATAGCTGCA
66 TTGGCTAAAGGTGATCTGCCCCAAGCTCGAGGTAAGAGATCGAATAGCTGCA
* * * **
15744234 ATCTACCCCAGGCTTAGGGTAAGAGACCGGACGGCTGCAATCTGCCCCAGGCTTGGGGTAAGAGA
1 ATCTACCCCAGGCTTGGGGTAAGAGACCGAACGGCTGCAATCTGCCCCAAGCACGGGGTAAGAGA
* * * * * *
15744299 TTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTACGAGATTGAATGGCTGCA
66 TTGGCTAAAGGTGATCTGCCCCAAGCTCGAGGTAAGAGATCGAATAGCTGCA
* * *
15744351 ATTTACCCCAAGCTCGGGGTAAGAGA
1 ATCTACCCCAGGCTTGGGGTAAGAGA
15744377 TTGGCTGATG
Statistics
Matches: 123, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
117 123 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (117 bp):
ATCTACCCCAGGCTTGGGGTAAGAGACCGAACGGCTGCAATCTGCCCCAAGCACGGGGTAAGAGA
TTGGCTAAAGGTGATCTGCCCCAAGCTCGAGGTAAGAGATCGAATAGCTGCA
Found at i:15744321 original size:78 final size:78
Alignment explanation
Indices: 15744234--15744495 Score: 294
Period size: 78 Copynumber: 3.4 Consensus size: 78
15744224 AATAGCTGCA
* * *
15744234 ATCTACCCCAGGCTTAGGGTAAGAGACCGGACGGCTGCAATCTGCCCCAGGCTTGGGGTAAGAGA
1 ATCTACCCCAGGCTTAGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTTGGGGTAAGAGA
15744299 TTGGCTGATGGTG
66 TTGGCTGATGGTG
* * ** * * * * * *
15744312 ATCTGCCCCAAGCTCGGGGTACGAGATTGAATGGCTGCAATTTACCCCAAGCTCGGGGTAAGAGA
1 ATCTACCCCAGGCTTAGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTTGGGGTAAGAGA
15744377 TTGGCTGAT-GTG
66 TTGGCTGATGGTG
* * * * *
15744389 ATCTACCCCAGG-TTCGAGGTAAAAGATCGAATGACTACAATCTGCCTCAGGCTTGGGGTAAGAG
1 ATCTACCCCAGGCTTAG-GGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTTGGGGTAAGAG
15744453 ATTGGCTGATGGTG
65 ATTGGCTGATGGTG
* * ** *
15744467 ATCTGCCCCAAGCTCGGGGTAAAAGATCG
1 ATCTACCCCAGGCTTAGGGTAAGAGATCG
15744496 GTTGATTGTG
Statistics
Matches: 150, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
76 2 0.01
77 60 0.40
78 86 0.57
79 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (78 bp):
ATCTACCCCAGGCTTAGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTTGGGGTAAGAGA
TTGGCTGATGGTG
Found at i:15744526 original size:78 final size:78
Alignment explanation
Indices: 15744268--15744535 Score: 288
Period size: 78 Copynumber: 3.4 Consensus size: 78
15744258 GACCGGACGG
* * * *
15744268 CTGCAATCTGCCCCAGGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTA
1 CTGCAATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTA
** * *
15744333 CGAGATTGAATGG
66 AAAGATCGAATGA
* * * * * *
15744346 CTGCAATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGAT-GTGATCTACCCCAGGTTCGAGGTA
1 CTGCAATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTA
15744410 AAAGATCGAATGA
66 AAAGATCGAATGA
* * * *
15744423 CTACAATCTGCCTCAGGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTA
1 CTGCAATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTA
**
15744488 AAAGATCGGTTGA
66 AAAGATCGAATGA
* ** * *
15744501 TTGTGATCTACCTCATTG-TCAGGGTAAGAGATTGG
1 CTGCAATCTACCTCA-AGCTCGGGGTAAGAGATTGG
15744536 AATCTTCAAT
Statistics
Matches: 156, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
77 63 0.40
78 92 0.59
79 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (78 bp):
CTGCAATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTA
AAAGATCGAATGA
Found at i:15756708 original size:29 final size:29
Alignment explanation
Indices: 15756676--15756736 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
15756666 AAAAGAAAAA
*
15756676 CAAAACAAATGGGGTTGAAAATG-GAGTTT
1 CAAAA-AAATGGGCTTGAAAATGTGAGTTT
* * *
15756705 CAAAAAATTTGGCTTGAAAATGTGATTTT
1 CAAAAAAATGGGCTTGAAAATGTGAGTTT
15756734 CAA
1 CAA
15756737 GGAATTTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (29 bp):
CAAAAAAATGGGCTTGAAAATGTGAGTTT
Found at i:15756722 original size:28 final size:29
Alignment explanation
Indices: 15756690--15756745 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
15756680 ACAAATGGGG
15756690 TTGAAAATG-GAGTTTCAAAAAATTTGGC
1 TTGAAAATGTGAGTTTCAAAAAATTTGGC
* **
15756718 TTGAAAATGTGATTTTCAAGGAATTTGG
1 TTGAAAATGTGAGTTTCAAAAAATTTGG
15756746 GGATCAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (29 bp):
TTGAAAATGTGAGTTTCAAAAAATTTGGC
Found at i:15756779 original size:30 final size:30
Alignment explanation
Indices: 15756739--15756833 Score: 108
Period size: 30 Copynumber: 3.2 Consensus size: 30
15756729 ATTTTCAAGG
15756739 AATTTGGGGATCAAAATTGAACTTTTTGGAA
1 AATTT-GGGATCAAAATTGAACTTTTTGGAA
*
15756770 AATTTGGGATTAAAATTGAAC-TTTTGGAA
1 AATTTGGGATCAAAATTGAACTTTTTGGAA
* *
15756799 AATTTGAGGTTGAAAATGTG-A-TTTTTGG-A
1 AATTTG-GGATCAAAAT-TGAACTTTTTGGAA
15756828 AATTTG
1 AATTTG
15756834 AGGGCAAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
29 21 0.36
30 30 0.52
31 7 0.12
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (30 bp):
AATTTGGGATCAAAATTGAACTTTTTGGAA
Found at i:15756939 original size:30 final size:30
Alignment explanation
Indices: 15756741--15757091 Score: 177
Period size: 29 Copynumber: 11.9 Consensus size: 30
15756731 TTTCAAGGAA
15756741 TTTGGGGATCAAAAT-TGAACTTTTTGGAAAA-
1 TTTGGGG-TCAAAATGT-AA-TTTTTGGAAAAG
* * *
15756772 TTTGGGATTAAAAT-TGAACTTTTGGAAAA-
1 TTTGGGGTCAAAATGT-AATTTTTGGAAAAG
* * *
15756801 TTTGAGGTTGAAAATGTGATTTTTGG-AAA-
1 TTTG-GGGTCAAAATGTAATTTTTGGAAAAG
*
15756830 TTTGAGGG-CAAAATGGTAATTTTT-G-AATG
1 TTTG-GGGTCAAAAT-GTAATTTTTGGAAAAG
* * **
15756859 TTCGGGGGCAAAATGGTAATTTTT-G-AGTG
1 TTTGGGGTCAAAAT-GTAATTTTTGGAAAAG
* *
15756888 TTCGGGGGT-AAAATG-AATTTTTGGAAAAC
1 TT-TGGGGTCAAAATGTAATTTTTGGAAAAG
15756917 TTTGGGGTCAAAATGTAATTTTT--AAGAAG
1 TTTGGGGTCAAAATGTAATTTTTGGAA-AAG
* *
15756946 TTTGAGGGTAAAAATATAATTTTTGGAAAAG
1 TTTG-GGGTCAAAATGTAATTTTTGGAAAAG
* * *
15756977 TTTGGGGTTAAAATGTGATTTTT--AGAAG
1 TTTGGGGTCAAAATGTAATTTTTGGAAAAG
* * * *
15757005 TTAGGGGTAAAAATGTGATTTTTCG--AAG
1 TTTGGGGTCAAAATGTAATTTTTGGAAAAG
** *
15757033 TTTAGGGG-CAAAAATGTAA-TTTAAGAGAAG
1 TTT-GGGGTC-AAAATGTAATTTTTGGAAAAG
* * *
15757063 TTTGAGGGTAAAAATGTGATTTTTTGAAA
1 TTTG-GGGTCAAAATGTAATTTTTGGAAA
15757092 GTTCGAGGAC
Statistics
Matches: 259, Mismatches: 38, Indels: 46
0.76 0.11 0.13
Matches are distributed among these distances:
27 7 0.03
28 54 0.21
29 90 0.35
30 86 0.33
31 20 0.08
32 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (30 bp):
TTTGGGGTCAAAATGTAATTTTTGGAAAAG
Found at i:15757053 original size:87 final size:85
Alignment explanation
Indices: 15756721--15757091 Score: 247
Period size: 87 Copynumber: 4.2 Consensus size: 85
15756711 ATTTGGCTTG
* * * ***
15756721 AAAATGTGATTTTCAAGGAATTTGGGGATCAAAAT-TGAACTTTTTGGAAAATTTGGGATTAAAA
1 AAAATGTGATTTT-TAGAAATTTGGGG-TCAAAATGT-AA-TTTTT-G-AAGTTTGGGGCAAAAA
* *
15756785 T-TGAACTTTTGGAAAA-TTTGAGGTT
60 TGT-AATTTTTGGAAAAGTTTGGGGTT
* *
15756810 GAAAATGTGATTTTTGGAAATTTGAGGG-CAAAATGGTAATTTTTGAATGTTCGGGGGC-AAAAT
1 -AAAATGTGATTTTTAGAAATTTG-GGGTCAAAAT-GTAATTTTTGAA-GTT-TGGGGCAAAAAT
** * *
15756873 GGTAATTTTT-G-AGTGTTCGGGGGT
61 -GTAATTTTTGGAAAAGTTTGGGGTT
* * *
15756897 AAAATG-AATTTTTGGAAAACTTTGGGGTCAAAATGTAATTTTTAAGAAGTTTGAGGGTAAAAAT
1 AAAATGTGATTTTTAG-AAA-TTTGGGGTCAAAATGTAATTTTT--GAAGTTTG-GGGCAAAAAT
*
15756961 ATAATTTTTGGAAAAGTTTGGGGTT
61 GTAATTTTTGGAAAAGTTTGGGGTT
* * * *
15756986 AAAATGTGATTTTTAGAAGTTAGGGGTAAAAATGTGATTTTTCGAAGTTTAGGGGCAAAAATGTA
1 AAAATGTGATTTTTAGAAATTTGGGGTCAAAATGTAATTTTT-GAAGTTT-GGGGCAAAAATGTA
** * *
15757051 A-TTTAAGAGAAGTTTGAGGGTA
64 ATTTTTGGAAAAGTTTG-GGGTT
*
15757073 AAAATGTGATTTTTTGAAA
1 AAAATGTGATTTTTAGAAA
15757092 GTTCGAGGAC
Statistics
Matches: 225, Mismatches: 36, Indels: 43
0.74 0.12 0.14
Matches are distributed among these distances:
85 8 0.04
86 37 0.16
87 79 0.35
88 50 0.22
89 27 0.12
90 24 0.11
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (85 bp):
AAAATGTGATTTTTAGAAATTTGGGGTCAAAATGTAATTTTTGAAGTTTGGGGCAAAAATGTAAT
TTTTGGAAAAGTTTGGGGTT
Found at i:15758842 original size:6 final size:6
Alignment explanation
Indices: 15758831--15758915 Score: 90
Period size: 6 Copynumber: 15.0 Consensus size: 6
15758821 CATTATTTAT
* *
15758831 TTTAAA TTTAAA --TAAA TTTAAA TTTAAA -ATAAA TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
15758876 ATT-AA TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
15758916 ATGGGTTTAG
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
4 4 0.06
5 12 0.18
6 50 0.76
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:15758860 original size:17 final size:17
Alignment explanation
Indices: 15758831--15758892 Score: 99
Period size: 17 Copynumber: 3.7 Consensus size: 17
15758821 CATTATTTAT
15758831 TTTAAATTT-AAATAAA
1 TTTAAATTTAAAATAAA
15758847 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
15758864 TTTAAACTTAAAATTAA
1 TTTAAATTTAAAATAAA
15758881 TTTAAATTTAAA
1 TTTAAATTTAAA
15758893 TTTAAAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
16 9 0.21
17 33 0.79
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:15758865 original size:11 final size:11
Alignment explanation
Indices: 15758866--15758909 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
15758856 AAAATAAATT
*
15758866 TAAACTTAAAA
1 TAAATTTAAAA
* *
15758877 TTAATTTAAATT
1 TAAATTTAAA-A
15758889 TAAATTTAAAA
1 TAAATTTAAAA
15758900 TAAATTTAAA
1 TAAATTTAAA
15758910 CTTAAAATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:15758869 original size:23 final size:23
Alignment explanation
Indices: 15758864--15758915 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
15758854 TTAAAATAAA
*
15758864 TTTAAACTTAAAATTAATTTAAA
1 TTTAAACTTAAAATAAATTTAAA
*
15758887 TTTAAATTTAAAATAAATTTAAA
1 TTTAAACTTAAAATAAATTTAAA
*
15758910 CTTAAA
1 TTTAAA
15758916 ATGGGTTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAAACTTAAAATAAATTTAAA
Found at i:15758897 original size:17 final size:17
Alignment explanation
Indices: 15758831--15758914 Score: 98
Period size: 17 Copynumber: 5.0 Consensus size: 17
15758821 CATTATTTAT
*
15758831 TTTAAATTT-AAATAAA
1 TTTAAATTTAAAATTAA
*
15758847 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATTAA
*
15758864 TTTAAACTTAAAATTAA
1 TTTAAATTTAAAATTAA
*
15758881 TTTAAATTTAAATTTAA
1 TTTAAATTTAAAATTAA
** *
15758898 AATAAATTTAAACTTAA
1 TTTAAATTTAAAATTAA
15758915 AATGGGTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
16 9 0.15
17 51 0.85
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATTAA
Found at i:15759087 original size:41 final size:41
Alignment explanation
Indices: 15759039--15759445 Score: 462
Period size: 41 Copynumber: 9.9 Consensus size: 41
15759029 CCATAAACGT
* * *
15759039 TGCTAAAGGTCAAAGCATTAGCGGCGTTTAAGAGAAAGTGC
1 TGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
* * * * *
15759080 TGTTAAAGGTCAGAACATTAGCAGCATTTATGAGAAAGCAC
1 TGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
*
15759121 CGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
1 TGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
* * * **
15759162 CGCTAAAGGTCAGAGCATTAGTGACGTTTATGAGAAAATG-
1 TGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
* *
15759202 TCACTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCAC
1 T-GCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
* *
15759244 TGTTAAAGGTCAGAGAATTAGCGGCGTTTATGAGAAAGCG-
1 TGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
15759284 TCGCTAAAGGTCAGAGCATTAGCGAG-GTTTATGAGAAAGCGC
1 T-GCTAAAGGTCAGAGCATTAGCG-GCGTTTATGAGAAAGCGC
* * * * *
15759326 CGCTAAAAGGTAAGAGCATTAGCAGCGTTTATAAGAAAGC-A
1 TGCT-AAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
* * * * *
15759367 TAGCTAAAGGTCAGAGTAATAGCGGCATTTATGAAAAAACGC
1 T-GCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
* * *
15759409 CGCTAAAGGTCAGAGCATTAGCGGCATTTATGGGAAA
1 TGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAA
15759446 ATTGCCGCTA
Statistics
Matches: 306, Mismatches: 51, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
40 1 0.00
41 270 0.88
42 35 0.11
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (41 bp):
TGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGC
Found at i:15759197 original size:123 final size:123
Alignment explanation
Indices: 15759040--15759445 Score: 519
Period size: 123 Copynumber: 3.3 Consensus size: 123
15759030 CATAAACGTT
* * * *
15759040 GCTAAAGGTCAAAGCATTAGCGGCGTTTAAGAGAAAGTGCTGTTAAAGGTCAGAACATTAGCAGC
1 GCTAAAGGTCAGAGCATTAGCGACGTTTATGAGAAAGTGCTGTTAAAGGTCAGAGCATTAGCAGC
* * *
15759105 ATTTATGAGAAAGCACCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCC
66 GTTTATGAGAAAGCACAGCTAAAGGTCAGAGAATTAGCGGCGTTTATGAGAAAGCGCC
* * ** *
15759163 GCTAAAGGTCAGAGCATTAGTGACGTTTATGAGAAAATG-TCACTAAAGGTCAGAGCATTAGCGG
1 GCTAAAGGTCAGAGCATTAGCGACGTTTATGAGAAAGTGCT-GTTAAAGGTCAGAGCATTAGCAG
* * *
15759227 CGTTTATGAGAAAGCACTGTTAAAGGTCAGAGAATTAGCGGCGTTTATGAGAAAGCGTC
65 CGTTTATGAGAAAGCACAGCTAAAGGTCAGAGAATTAGCGGCGTTTATGAGAAAGCGCC
* * * * *
15759286 GCTAAAGGTCAGAGCATTAGCGAGGTTTATGAGAAAGCGCCGCTAAAAGGTAAGAGCATTAGCAG
1 GCTAAAGGTCAGAGCATTAGCGACGTTTATGAGAAAGTGCTG-TTAAAGGTCAGAGCATTAGCAG
* * * * *
15759351 CGTTTATAAGAAAGCATAGCTAAAGGTCAGAGTAA-TAGCGGCATTTATGAAAAAACGCC
65 CGTTTATGAGAAAGCACAGCTAAAGGTCAGAG-AATTAGCGGCGTTTATGAGAAAGCGCC
* * *
15759410 GCTAAAGGTCAGAGCATTAGCGGCATTTATGGGAAA
1 GCTAAAGGTCAGAGCATTAGCGACGTTTATGAGAAA
15759446 ATTGCCGCTA
Statistics
Matches: 243, Mismatches: 36, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
122 1 0.00
123 142 0.58
124 98 0.40
125 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (123 bp):
GCTAAAGGTCAGAGCATTAGCGACGTTTATGAGAAAGTGCTGTTAAAGGTCAGAGCATTAGCAGC
GTTTATGAGAAAGCACAGCTAAAGGTCAGAGAATTAGCGGCGTTTATGAGAAAGCGCC
Found at i:15761133 original size:30 final size:29
Alignment explanation
Indices: 15761099--15761242 Score: 128
Period size: 30 Copynumber: 4.8 Consensus size: 29
15761089 CATTAAAATC
*
15761099 GGGTCAAATTTGAATTTTT-GAAAACTTCAA
1 GGGTCAAATTGGAATTTTTAGAAAA-TT-AA
***
15761129 GGGTCAAATCAAAATTTTTAGAAAATTAGA
1 GGGTCAAATTGGAATTTTTAGAAAATTA-A
* *
15761159 GGGTTAAATTGGAATTTTTAGAAAATTTGA
1 GGGTCAAATTGGAATTTTTAGAAAA-TTAA
* * *
15761189 GGGTTAAATTGGAATTTTTGGAAAATTTAG
1 GGGTCAAATTGGAATTTTTAGAAAA-TTAA
* **
15761219 GGGTTAAATTCAAATTTTTAGAAA
1 GGGTCAAATTGGAATTTTTAGAAA
15761243 GTTTGAGGGG
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
29 1 0.01
30 89 0.92
31 7 0.07
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (29 bp):
GGGTCAAATTGGAATTTTTAGAAAATTAA
Found at i:15761175 original size:60 final size:60
Alignment explanation
Indices: 15761099--15761242 Score: 157
Period size: 60 Copynumber: 2.4 Consensus size: 60
15761089 CATTAAAATC
* *
15761099 GGGTCAAATTTGAATTTTT-GAAAACTTCAAGGGTCAAATCAAAATTTTTAGAAAA-TTAG
1 GGGTTAAATTCGAATTTTTAGAAAA-TTCAAGGGTCAAATCAAAATTTTTAGAAAATTTAG
* ** * *** *
15761158 AGGGTTAAATTGGAATTTTTAGAAAATTTGAGGGTTAAATTGGAATTTTTGGAAAATTTAG
1 -GGGTTAAATTCGAATTTTTAGAAAATTCAAGGGTCAAATCAAAATTTTTAGAAAATTTAG
*
15761219 GGGTTAAATTCAAATTTTTAGAAA
1 GGGTTAAATTCGAATTTTTAGAAA
15761243 GTTTGAGGGG
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
60 62 0.87
61 9 0.13
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (60 bp):
GGGTTAAATTCGAATTTTTAGAAAATTCAAGGGTCAAATCAAAATTTTTAGAAAATTTAG
Found at i:15761248 original size:60 final size:60
Alignment explanation
Indices: 15761141--15761256 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
15761131 GTCAAATCAA
** *
15761141 AATTTTTAGAAAATTAGAGGGTTAAATTGGAATTTTTAGAAAATTTGAGGGTTAAATTGG
1 AATTTTTAGAAAATTAGAGGGTTAAATTCAAATTTTTAGAAAATTTGAGGGGTAAATTGG
* *
15761201 AATTTTTGGAAAATTTAG-GGGTTAAATTCAAATTTTTAGAAAGTTTGAGGGGTAAA
1 AATTTTTAGAAAA-TTAGAGGGTTAAATTCAAATTTTTAGAAAATTTGAGGGGTAAA
15761257 AAACAATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 46 0.92
61 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (60 bp):
AATTTTTAGAAAATTAGAGGGTTAAATTCAAATTTTTAGAAAATTTGAGGGGTAAATTGG
Found at i:15761265 original size:30 final size:30
Alignment explanation
Indices: 15761141--15761266 Score: 110
Period size: 30 Copynumber: 4.2 Consensus size: 30
15761131 GTCAAATCAA
* * * **
15761141 AATTTTTAGAAAATTAGAGGGTTAAATTGG
1 AATTTTTAGAAAATTTGAGGGGTAAAATAC
* * **
15761171 AATTTTTAGAAAATTTGAGGGTTAAATTGG
1 AATTTTTAGAAAATTTGAGGGGTAAAATAC
* * *
15761201 AATTTTTGGAAAATTT-AGGGGTTAAATTC
1 AATTTTTAGAAAATTTGAGGGGTAAAATAC
* *
15761230 AAATTTTTAGAAAGTTTGAGGGGTAAAAAAC
1 -AATTTTTAGAAAATTTGAGGGGTAAAATAC
15761261 AATTTT
1 AATTTT
15761267 AAAATAAAGA
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 8 0.10
30 64 0.78
31 10 0.12
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (30 bp):
AATTTTTAGAAAATTTGAGGGGTAAAATAC
Found at i:15761265 original size:90 final size:90
Alignment explanation
Indices: 15761099--15761266 Score: 196
Period size: 90 Copynumber: 1.9 Consensus size: 90
15761089 CATTAAAATC
* *
15761099 GGGTCAAATTTGAATTTTTGAAAACTTCAAGGGTCAAATCAAAATTTTTAGAAAATTAGAGGGTT
1 GGGTCAAATTGGAATTTTTGAAAACTTCAAGGGTCAAATCAAAATTTTTAGAAAATTAGAGGGGT
****
15761164 AAATTGGAATTTTTAGAAAATTTGA
66 AAAAAACAATTTTTAGAAAATTTGA
* * * * * *
15761189 GGGTTAAATTGGAATTTTTGGAAAA-TTTAGGGGTTAAATTC-AAATTTTTAGAAAGTTTGAGGG
1 GGGTCAAATTGGAATTTTT-GAAAACTTCAAGGGTCAAA-TCAAAATTTTTAGAAAATTAGAGGG
15761252 GTAAAAAACAATTTT
64 GTAAAAAACAATTTT
15761267 AAAATAAAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
90 57 0.89
91 7 0.11
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (90 bp):
GGGTCAAATTGGAATTTTTGAAAACTTCAAGGGTCAAATCAAAATTTTTAGAAAATTAGAGGGGT
AAAAAACAATTTTTAGAAAATTTGA
Found at i:15762951 original size:40 final size:40
Alignment explanation
Indices: 15762869--15763041 Score: 197
Period size: 40 Copynumber: 4.4 Consensus size: 40
15762859 TATAGCTTTA
* * *
15762869 AGGGTAAAAGATTTGATTGT-TTCAATTTGCCCTATGGTT
1 AGGGTAAAAGATTTGATGGTCTTCAATCTGCCCTTTGGTT
** *
15762908 AGGGTAAGCGATTTGATGGTCTTCACTCTGCCCTTTGGTT
1 AGGGTAAAAGATTTGATGGTCTTCAATCTGCCCTTTGGTT
* *
15762948 AGGGTAAAAGATATGATGGTCTTCAATCTGCCTTTTGGTT
1 AGGGTAAAAGATTTGATGGTCTTCAATCTGCCCTTTGGTT
* * * **
15762988 AGGGTAAAAGATTAGATTG-CTTCAATTTGCCCCATGGTT
1 AGGGTAAAAGATTTGATGGTCTTCAATCTGCCCTTTGGTT
* *
15763027 GGGGTAAAATATTTG
1 AGGGTAAAAGATTTG
15763042 GGGTTGTAAC
Statistics
Matches: 112, Mismatches: 21, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 45 0.40
40 67 0.60
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.37
Consensus pattern (40 bp):
AGGGTAAAAGATTTGATGGTCTTCAATCTGCCCTTTGGTT
Found at i:15763134 original size:50 final size:50
Alignment explanation
Indices: 15763093--15763221 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 50
15763083 TTCATCCTTG
*
15763093 CGACTTCAATCTA-CCTCTCTATAGCTTTAGGTGAATGAGATTCGCCATTA
1 CGACTTCAATCTACCCT-TCTACAGCTTTAGGTGAATGAGATTCGCCATTA
* * * * *
15763143 CGGCTTCAATCTGCCCTTCTACAGCTTTAGGTGTATGAGATTTGCCATTG
1 CGACTTCAATCTACCCTTCTACAGCTTTAGGTGAATGAGATTCGCCATTA
* ****
15763193 CGGCTTCAATCCGTTCTTCTACAGCTTTA
1 CGACTTCAATCTACCCTTCTACAGCTTTA
15763222 AGGGTATAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 66 0.96
51 3 0.04
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (50 bp):
CGACTTCAATCTACCCTTCTACAGCTTTAGGTGAATGAGATTCGCCATTA
Found at i:15763236 original size:50 final size:50
Alignment explanation
Indices: 15763110--15763221 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 50
15763100 AATCTACCTC
* * * *
15763110 TCTATAGCTTTAGGTGAATGAGATTCGCCATTACGGCTTCAATCTGCCCT
1 TCTACAGCTTTAGGTGTATGAGATTTGCCATTACGGCTTCAATCCGCCCT
* **
15763160 TCTACAGCTTTAGGTGTATGAGATTTGCCATTGCGGCTTCAATCCGTTCT
1 TCTACAGCTTTAGGTGTATGAGATTTGCCATTACGGCTTCAATCCGCCCT
15763210 TCTACAGCTTTA
1 TCTACAGCTTTA
15763222 AGGGTATAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (50 bp):
TCTACAGCTTTAGGTGTATGAGATTTGCCATTACGGCTTCAATCCGCCCT
Found at i:15771563 original size:21 final size:22
Alignment explanation
Indices: 15771539--15771595 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
15771529 TACATGACTA
* *
15771539 GTATTGGTAGAAATCA-TACTT
1 GTATTGGTAGAAATCAGCACTG
* *
15771560 GTATCGGTAGAACT-AGCACTG
1 GTATTGGTAGAAATCAGCACTG
15771581 GTATTGGTAGAAATC
1 GTATTGGTAGAAATC
15771596 TGCATAGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (22 bp):
GTATTGGTAGAAATCAGCACTG
Found at i:15776890 original size:38 final size:38
Alignment explanation
Indices: 15776817--15776898 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
15776807 TCGCCGCAGG
* * *
15776817 AATATT-TTCAGAATGCACCCAAGACTGTCGCTGCATA
1 AATATTCTTCAGAATGCACCCAAAAATGTCACTGCATA
*
15776854 AATATTCTTCA-AATTGCATCCAAAAATGTCACTGCATA
1 AATATTCTTCAGAA-TGCACCCAAAAATGTCACTGCATA
*
15776892 AGTATTC
1 AATATTC
15776899 AATTGCACCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
37 8 0.21
38 30 0.79
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.30
Consensus pattern (38 bp):
AATATTCTTCAGAATGCACCCAAAAATGTCACTGCATA
Found at i:15787906 original size:30 final size:30
Alignment explanation
Indices: 15787831--15788017 Score: 173
Period size: 30 Copynumber: 6.3 Consensus size: 30
15787821 CATTAAAATC
** *
15787831 GGGTCAAATTTAAATTTTTGGAAACTTT-A
1 GGGTCAAATTGGAATTTTTGGAAAATTTAA
* ** *
15787860 GTGGTTAAATAAGAATTTTTGGAAAATTCAA
1 G-GGTCAAATTGGAATTTTTGGAAAATTTAA
* *
15787891 GAGTCAAATTGGAATTTTTGGAAAATTTAG
1 GGGTCAAATTGGAATTTTTGGAAAATTTAA
* *
15787921 GGGTCGAATTGGAATTTTTGGAAAATTTAG
1 GGGTCAAATTGGAATTTTTGGAAAATTTAA
** *
15787951 GGGTCAAATTCAAATTTTT-TAAAATTTAA
1 GGGTCAAATTGGAATTTTTGGAAAATTTAA
* * * *
15787980 GGGTTAAATTTGAATTTTTAGAAAGTTT-A
1 GGGTCAAATTGGAATTTTTGGAAAATTTAA
15788009 GAGGTCAAA
1 G-GGTCAAA
15788018 AAATAATTTT
Statistics
Matches: 129, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
29 27 0.21
30 100 0.78
31 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (30 bp):
GGGTCAAATTGGAATTTTTGGAAAATTTAA
Found at i:15788009 original size:59 final size:60
Alignment explanation
Indices: 15787831--15788017 Score: 198
Period size: 60 Copynumber: 3.1 Consensus size: 60
15787821 CATTAAAATC
* * * * *
15787831 GGGTCAAATTTAAATTTTTGGAAACTTT-AGTGGTTAAATAAGAATTTTTGGAAAATTCAA
1 GGGTCAAATTCAAATTTTTGGAAAATTTAAG-GGTTAAATTAGAATTTTTGGAAAATTTAG
* ** * ** *
15787891 GAGTCAAATTGGAATTTTTGGAAAATTTAGGGGTCGAATTGGAATTTTTGGAAAATTTAG
1 GGGTCAAATTCAAATTTTTGGAAAATTTAAGGGTTAAATTAGAATTTTTGGAAAATTTAG
* * * *
15787951 GGGTCAAATTCAAATTTTT-TAAAATTTAAGGGTTAAATTTGAATTTTTAGAAAGTTTAG
1 GGGTCAAATTCAAATTTTTGGAAAATTTAAGGGTTAAATTAGAATTTTTGGAAAATTTAG
*
15788010 AGGTCAAA
1 GGGTCAAA
15788018 AAATAATTTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
59 40 0.38
60 63 0.61
61 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (60 bp):
GGGTCAAATTCAAATTTTTGGAAAATTTAAGGGTTAAATTAGAATTTTTGGAAAATTTAG
Found at i:15789029 original size:16 final size:16
Alignment explanation
Indices: 15789002--15789042 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
15788992 TTGTATTTGT
*
15789002 AAAATAAATAAATAATA
1 AAAAT-AATAAATAAGA
*
15789019 ATAATAATAAATAAGA
1 AAAATAATAAATAAGA
15789035 AAAATAAT
1 AAAATAAT
15789043 GAACTAGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAATAATAAATAAGA
Found at i:15789397 original size:25 final size:25
Alignment explanation
Indices: 15789369--15789430 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
15789359 GTAATTCACT
* *
15789369 AAATCTATTAATGGAAAAAGATTTA
1 AAATCTATTAATAGAAAAAGAATTA
* *
15789394 AAATTTA-TAAGTAGAAAAAGAATTC
1 AAATCTATTAA-TAGAAAAAGAATTA
15789419 AAA-CTATTAATA
1 AAATCTATTAATA
15789431 AATAGATAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
24 7 0.23
25 23 0.77
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (25 bp):
AAATCTATTAATAGAAAAAGAATTA
Found at i:15798299 original size:66 final size:66
Alignment explanation
Indices: 15798193--15798322 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 66
15798183 TTAAGGATGA
* *
15798193 ACACATCATTGGTCATTCATCTAAAGGGGTAATCACTAGATCTTCAATTAGAAATACTTGTAATG
1 ACACATCATTGGTCATCCATCTAAAGGGGTAATCACTAGATCTTCAACTAGAAATACTTGTAATG
15798258 G
66 G
*
15798259 ACACATCATTGGTGATCCATCTAAAGGGGTAATCACTAGATCTTCAACTAGAAATACTTGTAAT
1 ACACATCATTGGTCATCCATCTAAAGGGGTAATCACTAGATCTTCAACTAGAAATACTTGTAAT
15798323 TATGTTGCTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (66 bp):
ACACATCATTGGTCATCCATCTAAAGGGGTAATCACTAGATCTTCAACTAGAAATACTTGTAATG
G
Found at i:15800558 original size:14 final size:15
Alignment explanation
Indices: 15800506--15800628 Score: 84
Period size: 14 Copynumber: 8.5 Consensus size: 15
15800496 TAGATTAGTA
15800506 ATTTTATACATATAT
1 ATTTTATACATATAT
* *
15800521 -TTTTAGATAAATTGTAT
1 ATTTT--ATACA-TATAT
15800538 ATTTTATACATATAT
1 ATTTTATACATATAT
15800553 -TTTTATACATATAT
1 ATTTTATACATATAT
15800567 ATTGTTAT--ATATAT
1 ATT-TTATACATATAT
15800581 A---TATACATATCA-
1 ATTTTATACATAT-AT
* *
15800593 A-TATATCCATATAT
1 ATTTTATACATATAT
*
15800607 TTTTTATACATATAT
1 ATTTTATACATATAT
*
15800622 ATATTAT
1 ATTTTAT
15800629 TTGTTTTACA
Statistics
Matches: 85, Mismatches: 10, Indels: 26
0.70 0.08 0.21
Matches are distributed among these distances:
10 3 0.04
12 5 0.06
13 2 0.02
14 33 0.39
15 22 0.26
16 12 0.14
17 4 0.05
18 4 0.05
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTTATACATATAT
Found at i:15800638 original size:22 final size:23
Alignment explanation
Indices: 15800604--15800651 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
15800594 TATATCCATA
15800604 TATTTTTTATACATATATA-TAT
1 TATTTTTTATACATATATACTAT
15800626 TATTTGTTT-TACATATATACTAT
1 TATTT-TTTATACATATATACTAT
15800649 TAT
1 TAT
15800652 ACATATCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTTTTTATACATATATACTAT
Found at i:15805449 original size:18 final size:17
Alignment explanation
Indices: 15805423--15805468 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
15805413 AAAATTATAT
*
15805423 TGTTATTTTTTTTTGGTG
1 TGTTTTTTTTTTTTGG-G
*
15805441 TGTTTTTTTCTTTTTTGG
1 TGTTTTTTT-TTTTTGGG
15805459 TGTTTTTTTT
1 TGTTTTTTTT
15805469 ACTGTTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 18 0.72
19 6 0.24
ACGTcount: A:0.02, C:0.02, G:0.17, T:0.78
Consensus pattern (17 bp):
TGTTTTTTTTTTTTGGG
Found at i:15805456 original size:20 final size:20
Alignment explanation
Indices: 15805431--15805480 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
15805421 ATTGTTATTT
15805431 TTTTTTGGTGTGTTTTTTT-C
1 TTTTTTGGTGT-TTTTTTTAC
15805451 TTTTTTGGTGTTTTTTTTAC
1 TTTTTTGGTGTTTTTTTTAC
*
15805471 TGTTTTGGTG
1 TTTTTTGGTG
15805481 CTTCTTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.02, C:0.04, G:0.22, T:0.72
Consensus pattern (20 bp):
TTTTTTGGTGTTTTTTTTAC
Found at i:15810492 original size:62 final size:63
Alignment explanation
Indices: 15810414--15810546 Score: 169
Period size: 62 Copynumber: 2.1 Consensus size: 63
15810404 CAGCAGCTTA
* * * * * * **
15810414 TACATGAACTACAGTTGTACGAGCTATATTTACAAG-ACTGTAGTCACATAAATTGTTGCATT
1 TACATGAACTACAGTTGCACAAGCTACATTTACAAGAACTGCAGCCACATAAACTACTGCATT
* *
15810476 TACATGAACTATAGTTGCACAAGCTGCATTTACAAGAACTGCAGCCACATAAACTACTGCATT
1 TACATGAACTACAGTTGCACAAGCTACATTTACAAGAACTGCAGCCACATAAACTACTGCATT
15810539 TACATGAA
1 TACATGAA
15810547 TTGTAGTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
62 31 0.52
63 29 0.48
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (63 bp):
TACATGAACTACAGTTGCACAAGCTACATTTACAAGAACTGCAGCCACATAAACTACTGCATT
Found at i:15810539 original size:33 final size:33
Alignment explanation
Indices: 15810499--15810564 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
15810489 GTTGCACAAG
15810499 CTGCATTTACAAGAACTGCAGCCACATAAACTA
1 CTGCATTTACAAGAACTGCAGCCACATAAACTA
* * * *
15810532 CTGCATTTACATGAATTGTAGTCACATAAACTA
1 CTGCATTTACAAGAACTGCAGCCACATAAACTA
15810565 TACATCCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (33 bp):
CTGCATTTACAAGAACTGCAGCCACATAAACTA
Found at i:15813077 original size:16 final size:18
Alignment explanation
Indices: 15813038--15813071 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15813028 TAAGTTTATA
15813038 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
15813055 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
15813072 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:15814692 original size:24 final size:21
Alignment explanation
Indices: 15814650--15814693 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15814640 ATGTAATGTT
*
15814650 TATAAAATTTTATATATAAAA
1 TATAAAATTTTATACATAAAA
15814671 TATAAAATCATTTATTACATAAA
1 TATAAAAT--TTTA-TACATAAA
15814694 TAATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAAAATTTTATACATAAAA
Found at i:15817763 original size:30 final size:30
Alignment explanation
Indices: 15817729--15817791 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
15817719 TGAATCTAAT
*
15817729 TTTATATATGGATTT-TTAAATTT-TTTTAAG
1 TTTATATAT--ATTTGTAAAATTTATTTTAAG
*
15817759 TTTATTTATATTTGTAAAATTTATTTTAAG
1 TTTATATATATTTGTAAAATTTATTTTAAG
15817789 TTT
1 TTT
15817792 GTCCCTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.14
29 7 0.24
30 18 0.62
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (30 bp):
TTTATATATATTTGTAAAATTTATTTTAAG
Found at i:15818094 original size:22 final size:22
Alignment explanation
Indices: 15818032--15818095 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
15818022 ATTTTTTTTA
15818032 AAAATTATAAAAATATAAGTTATT
1 AAAATTATAAAAATAT-A-TTATT
* * *
15818056 AAAATGATAAAATTATATTTTT
1 AAAATTATAAAAATATATTATT
**
15818078 ATTATTATAAAAATATAT
1 AAAATTATAAAAATATAT
15818096 AATTTAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 18 0.55
23 1 0.03
24 14 0.42
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (22 bp):
AAAATTATAAAAATATATTATT
Found at i:15819291 original size:3 final size:3
Alignment explanation
Indices: 15819285--15819311 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15819275 CATGGCCCCC
15819285 CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA
15819312 ACCCTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:15820797 original size:6 final size:6
Alignment explanation
Indices: 15820786--15820816 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
15820776 TTGGTATTAT
15820786 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG G
1 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG G
15820817 AGTAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGAAGG
Found at i:15823863 original size:18 final size:18
Alignment explanation
Indices: 15823840--15823876 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15823830 TAGATATTGA
*
15823840 TAGAAGTTTAAATACTAT
1 TAGAAGTTCAAATACTAT
*
15823858 TAGAAGTTCAAATAGTAT
1 TAGAAGTTCAAATACTAT
15823876 T
1 T
15823877 CTCAATCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (18 bp):
TAGAAGTTCAAATACTAT
Found at i:15824803 original size:99 final size:99
Alignment explanation
Indices: 15824677--15824880 Score: 336
Period size: 99 Copynumber: 2.1 Consensus size: 99
15824667 GTCCCATGCT
* * * *
15824677 CGTGTGTCTCTAATACATAAATAGTGAGTTACACGGCCTGGACACATGACTGTGTGACCCCTGCA
1 CGTGTGTCCCTAATACATAAACAGTGAGTTACACGGCCTGGACACACGACTGTGTGACCCCTACA
*
15824742 CCTTAATTTTCCCACATACGGTCTAACACACGCC
66 CCTTAATTTTCCCACACACGGTCTAACACACGCC
* *
15824776 CGTGTGTCCCTAATACATAAACAGTGAGTTACACGGCTTGGACACACGCCTGTGTGACCCCTACA
1 CGTGTGTCCCTAATACATAAACAGTGAGTTACACGGCCTGGACACACGACTGTGTGACCCCTACA
*
15824841 CCTTATTTTTCCCACACACGGTCTAACACACGCC
66 CCTTAATTTTCCCACACACGGTCTAACACACGCC
15824875 CGTGTG
1 CGTGTG
15824881 GCTTGCTCGT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (99 bp):
CGTGTGTCCCTAATACATAAACAGTGAGTTACACGGCCTGGACACACGACTGTGTGACCCCTACA
CCTTAATTTTCCCACACACGGTCTAACACACGCC
Found at i:15828473 original size:22 final size:22
Alignment explanation
Indices: 15828430--15828473 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
15828420 GTCCTCAAGC
**
15828430 AAACAAAACAAGAAAAGTAATA
1 AAACAAAACAAGAAAAAAAATA
15828452 AAACAAAGA-AAGAAAAAAAATA
1 AAACAAA-ACAAGAAAAAAAATA
15828474 GAAGAGCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (22 bp):
AAACAAAACAAGAAAAAAAATA
Found at i:15834247 original size:20 final size:20
Alignment explanation
Indices: 15834222--15834470 Score: 266
Period size: 20 Copynumber: 12.2 Consensus size: 20
15834212 ATATATATAT
*
15834222 TCAGGCTTTGTGCCGATGTA
1 TCAGGCTTTGTGCCGGTGTA
*
15834242 TCAGGCTTCGTGCCGGTGTA
1 TCAGGCTTTGTGCCGGTGTA
* *
15834262 TCAGGCTTCGTGCCGGTGAA
1 TCAGGCTTTGTGCCGGTGTA
*
15834282 TCAGGCTTTGTGCCGGTGAA
1 TCAGGCTTTGTGCCGGTGTA
*
15834302 TCAGGCTTTGTGCCAGTGTA
1 TCAGGCTTTGTGCCGGTGTA
* *
15834322 TTAGGCTTTGTGCTGGTGTA
1 TCAGGCTTTGTGCCGGTGTA
* *
15834342 TCAGAATCAAGCTTCGTGCCAGTGTA
1 TCAG------GCTTTGTGCCGGTGTA
*
15834368 TCAGGCTTTGTGTCGGTGTA
1 TCAGGCTTTGTGCCGGTGTA
*
15834388 TTAGGCTTTGTGCCGGTGTA
1 TCAGGCTTTGTGCCGGTGTA
** *
15834408 TCAATCTTTGTGTCGGTGTA
1 TCAGGCTTTGTGCCGGTGTA
*
15834428 TCACG-TCTTGTGCCGGTGTA
1 TCAGGCT-TTGTGCCGGTGTA
**
15834448 TCAGGCTTTGTGCTTGTGTA
1 TCAGGCTTTGTGCCGGTGTA
15834468 TCA
1 TCA
15834471 AAGAACAAGT
Statistics
Matches: 193, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.01
20 174 0.90
21 1 0.01
26 17 0.09
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.36
Consensus pattern (20 bp):
TCAGGCTTTGTGCCGGTGTA
Found at i:15834366 original size:46 final size:46
Alignment explanation
Indices: 15834299--15834388 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
15834289 TTGTGCCGGT
* * *
15834299 GAATCAGGCTTTGTGCCAGTGTATTAGGCTTTGTG-CTGGTGTATCA
1 GAATCAAGCTTCGTGCCAGTGTATCAGGCTTTGTGTC-GGTGTATCA
15834345 GAATCAAGCTTCGTGCCAGTGTATCAGGCTTTGTGTCGGTGTAT
1 GAATCAAGCTTCGTGCCAGTGTATCAGGCTTTGTGTCGGTGTAT
15834389 TAGGCTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 39 0.98
47 1 0.03
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.36
Consensus pattern (46 bp):
GAATCAAGCTTCGTGCCAGTGTATCAGGCTTTGTGTCGGTGTATCA
Found at i:15834387 original size:66 final size:66
Alignment explanation
Indices: 15834279--15834410 Score: 201
Period size: 66 Copynumber: 2.0 Consensus size: 66
15834269 TCGTGCCGGT
* * * *
15834279 GAATCAGGCTTTGTGCCGGTGAATCAGGCTTTGTGCCAGTGTATTAGGCTTTGTGCTGGTGTATC
1 GAATCAAGCTTCGTGCCAGTGAATCAGGCTTTGTGCCAGTGTATTAGGCTTTGTGCCGGTGTATC
15834344 A
66 A
* * *
15834345 GAATCAAGCTTCGTGCCAGTGTATCAGGCTTTGTGTCGGTGTATTAGGCTTTGTGCCGGTGTATC
1 GAATCAAGCTTCGTGCCAGTGAATCAGGCTTTGTGCCAGTGTATTAGGCTTTGTGCCGGTGTATC
15834410 A
66 A
15834411 ATCTTTGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (66 bp):
GAATCAAGCTTCGTGCCAGTGAATCAGGCTTTGTGCCAGTGTATTAGGCTTTGTGCCGGTGTATC
A
Found at i:15834395 original size:86 final size:86
Alignment explanation
Indices: 15834222--15834430 Score: 236
Period size: 86 Copynumber: 2.5 Consensus size: 86
15834212 ATATATATAT
* * * *
15834222 TCAGGCTTTGTGCC-GATGTATCAGGCTTCGTGCCGGTGTATCAG------GCTTCGTGCCGGTG
1 TCAGGCTTTGTGCCAG-TGTATCAAGCTTTGTGTCGGTGTATCAGAATCAAGCTTCGTGCCAGTG
15834280 AATCAGGCTTTGTGCCGGTGAA
65 AATCAGGCTTTGTGCCGGTGAA
* *
15834302 TCAGGCTTTGTGCCAGTGTATTAGGCTTTGTG-CTGGTGTATCAGAATCAAGCTTCGTGCCAGTG
1 TCAGGCTTTGTGCCAGTGTATCAAGCTTTGTGTC-GGTGTATCAGAATCAAGCTTCGTGCCAGTG
* * *
15834366 TATCAGGCTTTGTGTCGGTGTA
65 AATCAGGCTTTGTGCCGGTGAA
* * *
15834388 TTAGGCTTTGTGCCGGTGTATCAATCTTTGTGTCGGTGTATCA
1 TCAGGCTTTGTGCCAGTGTATCAAGCTTTGTGTCGGTGTATCA
15834431 CGTCTTGTGC
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
79 1 0.01
80 38 0.35
81 1 0.01
86 68 0.62
87 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (86 bp):
TCAGGCTTTGTGCCAGTGTATCAAGCTTTGTGTCGGTGTATCAGAATCAAGCTTCGTGCCAGTGA
ATCAGGCTTTGTGCCGGTGAA
Found at i:15834403 original size:106 final size:106
Alignment explanation
Indices: 15834241--15834451 Score: 280
Period size: 106 Copynumber: 2.0 Consensus size: 106
15834231 GTGCCGATGT
* * *
15834241 ATCAGGCTTCGTGCCGGTGTATCAGGCTTCGTGCCGGTGAATCAGGCTTTGTGCCGGTGAATCAG
1 ATCAAGCTTCGTGCCAGTGTATCAGGCTTCGTGCCGGTGAATCAGGCTTTGTGCCGGTGAATCAA
* * *
15834306 GCTTTGTGCCAGTGTATTA-GGCTTTGTGCTGGTGTATCAGA
66 GCTTTGTGCCAGTGTATCACGTC-TTGTGCCGGTGTATCAGA
* * * * *
15834347 ATCAAGCTTCGTGCCAGTGTATCAGGCTTTGTGTCGGTGTATTAGGCTTTGTGCCGGTGTATCAA
1 ATCAAGCTTCGTGCCAGTGTATCAGGCTTCGTGCCGGTGAATCAGGCTTTGTGCCGGTGAATCAA
* * *
15834412 TCTTTGTGTCGGTGTATCACGTCTTGTGCCGGTGTATCAG
66 GCTTTGTGCCAGTGTATCACGTCTTGTGCCGGTGTATCAG
15834452 GCTTTGTGCT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 88 0.98
107 2 0.02
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (106 bp):
ATCAAGCTTCGTGCCAGTGTATCAGGCTTCGTGCCGGTGAATCAGGCTTTGTGCCGGTGAATCAA
GCTTTGTGCCAGTGTATCACGTCTTGTGCCGGTGTATCAGA
Found at i:15840854 original size:20 final size:20
Alignment explanation
Indices: 15840826--15840888 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
15840816 ATATATATAT
*
15840826 TCAGGCTTTGTGCCGATGTA
1 TCAGGCTTTGTGCCGGTGTA
*
15840846 TCAGCCTTTGTGCCGGTGTA
1 TCAGGCTTTGTGCCGGTGTA
15840866 TCAGGCTTTGTGCCGGTGTA
1 TCAGGCTTTGTGCCGGTGTA
15840886 TCA
1 TCA
15840889 AAGAACAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.13, C:0.22, G:0.30, T:0.35
Consensus pattern (20 bp):
TCAGGCTTTGTGCCGGTGTA
Found at i:15848716 original size:24 final size:24
Alignment explanation
Indices: 15848697--15848808 Score: 110
Period size: 24 Copynumber: 4.8 Consensus size: 24
15848687 ATATAAGTTT
15848697 AAAATATAAAATAAAAATAAATAAC
1 AAAA-ATAAAATAAAAATAAATAAC
*
15848722 AAAAATAAAATAAAAATAAA-AAT
1 AAAAATAAAATAAAAATAAATAAC
* *
15848745 AAAAATAAAAACAAAAATAAA-AAT
1 AAAAAT-AAAATAAAAATAAATAAC
15848769 AAAAAT-AAATAAAACAT-AA-AAC
1 AAAAATAAAATAAAA-ATAAATAAC
* *
15848791 -TAAATAAAATATAAATAA
1 AAAAATAAAATAAAAATAA
15848809 TTCAAAAGAA
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.08
22 19 0.25
23 10 0.13
24 38 0.49
25 4 0.05
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.18
Consensus pattern (24 bp):
AAAAATAAAATAAAAATAAATAAC
Found at i:15848744 original size:17 final size:17
Alignment explanation
Indices: 15848696--15848805 Score: 109
Period size: 18 Copynumber: 6.2 Consensus size: 17
15848686 CATATAAGTT
15848696 TAAAATATAAAATAAAAA
1 TAAAA-ATAAAATAAAAA
*
15848714 TAAATAACAAAA-ATAAAA
1 TAAA-AATAAAATA-AAAA
15848732 TAAAAATAAAAATAAAAA
1 TAAAAAT-AAAATAAAAA
*
15848750 TAAAAACAAAAATAAAAA
1 TAAAAA-TAAAATAAAAA
15848768 TAAAAAT-AAATAAAACA
1 TAAAAATAAAATAAAA-A
*
15848785 TAAAACT-AAATAAAATA
1 TAAAAATAAAATAAAA-A
15848802 TAAA
1 TAAA
15848806 TAATTCAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.10
17 23 0.29
18 47 0.59
19 2 0.03
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAATAAAATAAAAA
Found at i:15848807 original size:6 final size:6
Alignment explanation
Indices: 15848697--15848794 Score: 121
Period size: 6 Copynumber: 16.3 Consensus size: 6
15848687 ATATAAGTTT
*
15848697 AAAATA TAAAATA AAAATA AATAACA AAAAT- AAAATA AAAATA AAAATA
1 AAAATA -AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA
* *
15848746 AAAATA AAAACA AAAATA AAAATA AAAAT- -AAATA AAACATA AAACTA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA
15848793 AA
1 AA
15848795 TAAAATATAA
Statistics
Matches: 81, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.05
5 5 0.06
6 55 0.68
7 17 0.21
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:15848862 original size:3 final size:3
Alignment explanation
Indices: 15848854--15848887 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15848844 ATAACTTAGT
15848854 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15848888 ACAAAAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15856297 original size:64 final size:64
Alignment explanation
Indices: 15856193--15856344 Score: 200
Period size: 64 Copynumber: 2.4 Consensus size: 64
15856183 ATAACACACC
* * * * * * *
15856193 ACGTTGCGGCCAAGCCATTCAATATCATAGTCAAACTGCATCGTTGTGGTCAAGCCATTCCATA
1 ACGTTGTGGCAAAGCCACTCAATATCACAGTCAAACTGCATCGTTGTGGTCAAACCACTCAATA
15856257 ACGTTGTGGCAAAGCCACTCAATATCACAGTCAAGA-TGCATCGTTGTGGTCAAACCACTCAATA
1 ACGTTGTGGCAAAGCCACTCAATATCACAGTCAA-ACTGCATCGTTGTGGTCAAACCACTCAATA
*
15856321 GCGTTGTGG-ACAAGCCACTCAATA
1 ACGTTGTGGCA-AAGCCACTCAATA
15856345 ACGTTGTGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 1 0.01
64 76 0.97
65 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (64 bp):
ACGTTGTGGCAAAGCCACTCAATATCACAGTCAAACTGCATCGTTGTGGTCAAACCACTCAATA
Found at i:15856338 original size:24 final size:24
Alignment explanation
Indices: 15856298--15856368 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
15856288 CAAGATGCAT
* *
15856298 CGTTGTGGTCAAACCACTCAATAG
1 CGTTGTGGTCAAGCCACTCAATAA
*
15856322 CGTTGTGGACAAGCCACTCAATAA
1 CGTTGTGGTCAAGCCACTCAATAA
*
15856346 CGTTGTGGTCAAGCCACTAAATA
1 CGTTGTGGTCAAGCCACTCAATA
15856369 TTGCAGTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (24 bp):
CGTTGTGGTCAAGCCACTCAATAA
Found at i:15856514 original size:42 final size:41
Alignment explanation
Indices: 15856454--15856641 Score: 205
Period size: 42 Copynumber: 4.5 Consensus size: 41
15856444 TTTCAGTGGA
*
15856454 CATGCTTAAAATGCGAATCAAATTTATAATCAACATAGTAAG
1 CATGCTTAACATGCGAATCAAATTTATAATCAACATAGT-AG
* * ** * *
15856496 GATGCTTAACATGTGAATCGGATTTATAATAAACATAGTTG
1 CATGCTTAACATGCGAATCAAATTTATAATCAACATAGTAG
* * * *
15856537 ACATGCTTAACATGAGATTTAAATTTATAATCAACATAGTCAC
1 -CATGCTTAACATGCGAATCAAATTTATAATCAACATAGT-AG
* * *
15856580 CATGCTTAACATGTGAATCAGATTTATAATCAACATAGTTGG
1 CATGCTTAACATGCGAATCAAATTTATAATCAACATAG-TAG
*
15856622 AATGCTTAACATGCGAATCA
1 CATGCTTAACATGCGAATCA
15856642 TATCTCAATT
Statistics
Matches: 119, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 117 0.98
43 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (41 bp):
CATGCTTAACATGCGAATCAAATTTATAATCAACATAGTAG
Found at i:15856593 original size:84 final size:85
Alignment explanation
Indices: 15856450--15856641 Score: 280
Period size: 84 Copynumber: 2.3 Consensus size: 85
15856440 ATATTTTCAG
* * **
15856450 TGGACATGCTTAAAATGCGAATCAAATTTATAATCAACATAGTAAGGATGCTTAACATGTGAATC
1 TGGACATGCTTAACATGAGAATCAAATTTATAATCAACATAGTAACCATGCTTAACATGTGAATC
*
15856515 GGATTTATAATAAACATAGT
66 AGATTTATAATAAACATAGT
* * *
15856535 T-GACATGCTTAACATGAGATTTAAATTTATAATCAACATAGTCACCATGCTTAACATGTGAATC
1 TGGACATGCTTAACATGAGAATCAAATTTATAATCAACATAGTAACCATGCTTAACATGTGAATC
*
15856599 AGATTTATAATCAACATAGT
66 AGATTTATAATAAACATAGT
*
15856619 TGGA-ATGCTTAACATGCGAATCA
1 TGGACATGCTTAACATGAGAATCA
15856642 TATCTCAATT
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
84 91 0.97
85 3 0.03
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (85 bp):
TGGACATGCTTAACATGAGAATCAAATTTATAATCAACATAGTAACCATGCTTAACATGTGAATC
AGATTTATAATAAACATAGT
Found at i:15856988 original size:24 final size:25
Alignment explanation
Indices: 15856961--15857026 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
15856951 ATTTTTTGGA
* *
15856961 ATAAGATTTAAAG-ATTTTTTTTAT
1 ATAACATTCAAAGAATTTTTTTTAT
* *
15856985 ATAACATTCAGAGAATTTTTTTTGAG
1 ATAACATTCAAAGAATTTTTTTT-AT
*
15857011 ATATATATTCAAAGAA
1 ATA-ACATTCAAAGAA
15857027 AATTCAAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 10 0.30
25 9 0.27
26 4 0.12
27 10 0.30
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.44
Consensus pattern (25 bp):
ATAACATTCAAAGAATTTTTTTTAT
Found at i:15857020 original size:27 final size:25
Alignment explanation
Indices: 15856952--15857026 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 25
15856942 ATAGGGAAAA
* * *
15856952 TTTTTTGGAATAAGATTTAAAG-ATT
1 TTTTTTAG-ATAACATTCAAAGAATT
* *
15856977 TTTTTTATATAACATTCAGAGAATT
1 TTTTTTAGATAACATTCAAAGAATT
*
15857002 TTTTTTGAGATATATATTCAAAGAA
1 TTTTTT-AGATA-ACATTCAAAGAA
15857027 AATTCAAAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 10 0.26
25 15 0.38
26 4 0.10
27 10 0.26
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (25 bp):
TTTTTTAGATAACATTCAAAGAATT
Found at i:15857271 original size:20 final size:19
Alignment explanation
Indices: 15857213--15857272 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 19
15857203 TTGTCTTATT
15857213 ATTTATTATTATTTATATTTA
1 ATTTATTATT-TTT-TATTTA
*
15857234 ATTGT-TTATTTTGATATTTA
1 ATT-TATTATTTT-TTATTTA
15857254 ATTTATTAATTTTTTATTT
1 ATTTATT-ATTTTTTATTT
15857273 GTCATTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 1 0.03
20 18 0.55
21 13 0.39
22 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTATTATTTTTTATTTA
Found at i:15857335 original size:20 final size:21
Alignment explanation
Indices: 15857303--15857367 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 21
15857293 ATCCCAATTA
*
15857303 TTTTTATTGTTTATATATATAT
1 TTTTTATT-TTTATATATTTAT
* *
15857325 TTTTTA-TTTTA-ACATTTAA
1 TTTTTATTTTTATATATTTAT
*
15857344 TTTTTATTTTTATTTATTTAT
1 TTTTTATTTTTATATATTTAT
15857365 TTT
1 TTT
15857368 GTTTATTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 11 0.31
20 9 0.26
21 9 0.26
22 6 0.17
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTATTTTTATATATTTAT
Found at i:15857372 original size:13 final size:13
Alignment explanation
Indices: 15857346--15857387 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
15857336 ACATTTAATT
*
15857346 TTTATTTTTATTTA
1 TTTA-TTTTGTTTA
15857360 TTTATTTTGTTTA
1 TTTATTTTGTTTA
*
15857373 TTTATCTTG-TTA
1 TTTATTTTGTTTA
15857385 TTT
1 TTT
15857388 TTCATGTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 6 0.23
13 16 0.62
14 4 0.15
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (13 bp):
TTTATTTTGTTTA
Found at i:15857508 original size:16 final size:16
Alignment explanation
Indices: 15857487--15857519 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15857477 ATGTTTTTTC
15857487 TTTTTATTTAATTACA
1 TTTTTATTTAATTACA
15857503 TTTTTATTTAATTACA
1 TTTTTATTTAATTACA
15857519 T
1 T
15857520 GTTGATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTATTTAATTACA
Found at i:15857605 original size:16 final size:16
Alignment explanation
Indices: 15857565--15857605 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
15857555 TTTATGATTG
15857565 CATTTATATATTTATT
1 CATTTATATATTTATT
* *
15857581 CATTGATATTTTTATT
1 CATTTATATATTTATT
*
15857597 TATTTATAT
1 CATTTATAT
15857606 GCAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (16 bp):
CATTTATATATTTATT
Found at i:15857719 original size:4 final size:4
Alignment explanation
Indices: 15857710--15857735 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
15857700 TGCTTATACT
15857710 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
15857736 ATTTATTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:15868432 original size:13 final size:13
Alignment explanation
Indices: 15868405--15868443 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
15868395 CAGTCGCCGT
* *
15868405 TGCCACGTCAACA
1 TGCCACATCAGCA
15868418 TGCCACATCAGCA
1 TGCCACATCAGCA
*
15868431 TGTCACATCAGCA
1 TGCCACATCAGCA
15868444 CCATGTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.36, G:0.15, T:0.18
Consensus pattern (13 bp):
TGCCACATCAGCA
Found at i:15868663 original size:21 final size:21
Alignment explanation
Indices: 15868639--15868693 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
15868629 ACCCTTGCCA
15868639 ATGCCCCTGCCACCCCTGCTG
1 ATGCCCCTGCCACCCCTGCTG
15868660 ATGCCCCTGCCACCCCTGCTG
1 ATGCCCCTGCCACCCCTGCTG
15868681 ATGCCCCTGCCAC
1 ATGCCCCTGCCAC
15868694 TAGCACAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.11, C:0.53, G:0.18, T:0.18
Consensus pattern (21 bp):
ATGCCCCTGCCACCCCTGCTG
Found at i:15868666 original size:12 final size:12
Alignment explanation
Indices: 15868651--15868690 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
15868641 GCCCCTGCCA
15868651 CCCCTGCTGATG
1 CCCCTGCTGATG
*
15868663 CCCCTGC-CA--
1 CCCCTGCTGATG
15868672 CCCCTGCTGATG
1 CCCCTGCTGATG
15868684 CCCCTGC
1 CCCCTGC
15868691 CACTAGCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 7 0.30
10 1 0.04
11 1 0.04
12 14 0.61
ACGTcount: A:0.07, C:0.53, G:0.20, T:0.20
Consensus pattern (12 bp):
CCCCTGCTGATG
Found at i:15882119 original size:49 final size:48
Alignment explanation
Indices: 15882066--15882230 Score: 172
Period size: 49 Copynumber: 3.4 Consensus size: 48
15882056 CACAAAGATT
* ***
15882066 TGAAGGGAAAGGTTTAAGTCACAACAACGAACCTTATACCTTGAAAGAA
1 TGAAGGGAAAGATTTAAGTCACAATGGCGAACCTTATACCTTG-AAGAA
* * *
15882115 TGAAGGGAAAGATTTAAGCCACAATGGCGAATC-TAGTACCATGAAGATA
1 TGAAGGGAAAGATTTAAGTCACAATGGCGAACCTTA-TACCTTGAAGA-A
* * *
15882164 TGGAA-GGAAAGGTTTAAGTCGCAATGGCGAACCTTGTACCTTGGAAGAA
1 T-GAAGGGAAAGATTTAAGTCACAATGGCGAACCTTATACCTT-GAAGAA
*
15882213 TGAAAGGAAAGATTTAAG
1 TGAAGGGAAAGATTTAAG
15882231 CCGTAACGGT
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
48 9 0.09
49 78 0.81
50 9 0.09
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.21
Consensus pattern (48 bp):
TGAAGGGAAAGATTTAAGTCACAATGGCGAACCTTATACCTTGAAGAA
Found at i:15882197 original size:98 final size:98
Alignment explanation
Indices: 15882028--15882254 Score: 285
Period size: 98 Copynumber: 2.3 Consensus size: 98
15882018 CAATGAAGAC
* *
15882028 ATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGATTTGAAGGGAAAGGTTTAAGTCACAACAA
1 ATTTAAGCCACAACGGCGAATCCAGTACCACAAAGATTGGAAGGGAAAGGTTTAAGTCACAACAA
*
15882093 CGAACCTTATACCTTGAAAGAATGAAGGGAAAG
66 CGAACCTTATACCTTGAAAGAATGAAAGGAAAG
* * ** * **
15882126 ATTTAAGCCACAATGGCGAATCTAGTACCATGAAGATATGGAA-GGAAAGGTTTAAGTCGCAATG
1 ATTTAAGCCACAACGGCGAATCCAGTACCACAAAGAT-TGGAAGGGAAAGGTTTAAGTCACAACA
* * *
15882190 GCGAACCTTGTACCTTGGAAGAATGAAAGGAAAG
65 ACGAACCTTATACCTTGAAAGAATGAAAGGAAAG
** * *
15882224 ATTTAAGCCGTAACGGTGAATCCAATACCAC
1 ATTTAAGCCACAACGGCGAATCCAGTACCAC
15882255 GAAGGAGGGA
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
98 104 0.96
99 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (98 bp):
ATTTAAGCCACAACGGCGAATCCAGTACCACAAAGATTGGAAGGGAAAGGTTTAAGTCACAACAA
CGAACCTTATACCTTGAAAGAATGAAAGGAAAG
Found at i:15882877 original size:11 final size:11
Alignment explanation
Indices: 15882861--15882886 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15882851 TGTCAGCATG
15882861 CCACGTTAGCA
1 CCACGTTAGCA
15882872 CCACGTTAGCA
1 CCACGTTAGCA
15882883 CCAC
1 CCAC
15882887 ATCATCGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.42, G:0.15, T:0.15
Consensus pattern (11 bp):
CCACGTTAGCA
Found at i:15888126 original size:21 final size:22
Alignment explanation
Indices: 15888088--15888132 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
15888078 TTTTTTTTTG
15888088 TATTTGTTTAAATTTA-TTATT
1 TATTTGTTTAAATTTATTTATT
*
15888109 TATTTGTTT-ATTTGTATTTATT
1 TATTTGTTTAAATT-TATTTATT
15888131 TA
1 TA
15888133 AATAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.52
22 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TATTTGTTTAAATTTATTTATT
Found at i:15888795 original size:40 final size:40
Alignment explanation
Indices: 15888743--15888996 Score: 279
Period size: 39 Copynumber: 6.4 Consensus size: 40
15888733 ATAACTTTAG
* *
15888743 GGGTAAAAGATTGGATGGTTTTCAATCTGCCCTCTGCTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTA
* * *
15888783 GGGTAAAAGATTGGAT--TACTTCAATCTGCCCTATGGTCA
1 GGGTAAAAGATTGGATGGT-CTTCAATCTGCCCTCTGATTA
* * *
15888822 GGGTAAAAGATTGAATGATCTT-AATCTTCCCTCTGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTA
* *
15888861 GGGTAAAAGATTGGATGGTCTTCAATCTTCACTCT-ATTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA-TTA
* * *
15888901 GGGTAAAAGATTGGATGATATTCAATCTGCCCT-TTAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA-TTA
* **
15888941 GGGTAAAAGATTGGATTG-CTTCAATCTG-CCTCATGATCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGATTA
15888980 GGGTAAAAGATTGGATG
1 GGGTAAAAGATTGGATG
15888997 TGGTGACTTC
Statistics
Matches: 182, Mismatches: 24, Indels: 17
0.82 0.11 0.08
Matches are distributed among these distances:
38 4 0.02
39 93 0.51
40 84 0.46
41 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTA
Found at i:15889219 original size:50 final size:50
Alignment explanation
Indices: 15889165--15889304 Score: 147
Period size: 50 Copynumber: 2.8 Consensus size: 50
15889155 TTCCCTTTTT
* * * * *
15889165 CAGCTTCAGGAGTATAAGATTGGCTC-TTGCTACTTCAATCTGCCCCTCTA
1 CAGCTTTAGGTGTATGAGATTCGC-CATTGCGACTTCAATCTGCCCCTCTA
* * * *
15889215 CAGCTTTAAGTGAATGAGATTCGCCATTGCGGCTTCAATCTGGCCCTCTA
1 CAGCTTTAGGTGTATGAGATTCGCCATTGCGACTTCAATCTGCCCCTCTA
*** *
15889265 CAGCTTTAGGTGTATGAGATTTATCATTGCGGCTTCAATC
1 CAGCTTTAGGTGTATGAGATTCGCCATTGCGACTTCAATC
15889305 CATTCCTCTA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 1 0.01
50 74 0.99
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (50 bp):
CAGCTTTAGGTGTATGAGATTCGCCATTGCGACTTCAATCTGCCCCTCTA
Found at i:15889313 original size:50 final size:50
Alignment explanation
Indices: 15889208--15889342 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
15889198 TTCAATCTGC
* * * * **
15889208 CCCTCTACAGCTTTAAGTGAATGAGATTCGCCATTGCGGCTTCAATCTGG
1 CCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGCGGCTTCAATCCAG
* *
15889258 CCCTCTACAGCTTTAGGTGTATGAGATTTATCATTGCGGCTTCAATCCAT
1 CCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGCGGCTTCAATCCAG
* * *
15889308 TCCTCTACAACTTTAGGGGTAT-AGGATTTGTCATT
1 CCCTCTACAGCTTTAGGTGTATGA-GATTTGTCATT
15889343 CTATCGCCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 1 0.01
50 71 0.99
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (50 bp):
CCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGCGGCTTCAATCCAG
Found at i:15898902 original size:15 final size:16
Alignment explanation
Indices: 15898880--15898919 Score: 73
Period size: 15 Copynumber: 2.6 Consensus size: 16
15898870 GGTAAAGACC
15898880 AAGAAGAAGGAAGAAA
1 AAGAAGAAGGAAGAAA
15898896 AAG-AGAAGGAAGAAA
1 AAGAAGAAGGAAGAAA
15898911 AAGAAGAAG
1 AAGAAGAAG
15898920 AGAATGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AAGAAGAAGGAAGAAA
Found at i:15900018 original size:12 final size:12
Alignment explanation
Indices: 15899993--15900032 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
15899983 TCAGTCATTT
15899993 AAAAAGAAATGAG
1 AAAAAGAAA-GAG
15900006 AAAAAGAAAGAG
1 AAAAAGAAAGAG
15900018 -AAAAGAAA-AG
1 AAAAAGAAAGAG
15900028 AAAAA
1 AAAAA
15900033 AAATTATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.08
11 12 0.46
12 3 0.12
13 9 0.35
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:15906555 original size:16 final size:16
Alignment explanation
Indices: 15906534--15906564 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15906524 ATAATGTGAA
15906534 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
15906550 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
15906565 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:15907402 original size:26 final size:26
Alignment explanation
Indices: 15907365--15907417 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
15907355 TTCTAGGTGT
*
15907365 AATTCTAGACATGTTCATGCAACGAC
1 AATTCTAAACATGTTCATGCAACGAC
*
15907391 AATTCTAAACATGTTCATGTAACGAC
1 AATTCTAAACATGTTCATGCAACGAC
15907417 A
1 A
15907418 TCCCTGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (26 bp):
AATTCTAAACATGTTCATGCAACGAC
Found at i:15909301 original size:21 final size:22
Alignment explanation
Indices: 15909263--15909339 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 22
15909253 CCTGCAACTT
*
15909263 CTACCAATACATGC-ATACAAA
1 CTACCGATACATGCAATACAAA
15909284 CTACCGATACAT-CAATACACATAA
1 CTACCGATACATGCAAT--ACA-AA
* * *
15909308 CTATCGATACTTGCAAT-CCAA
1 CTACCGATACATGCAATACAAA
15909329 CTACCGATACA
1 CTACCGATACA
15909340 ACTGAAGTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 24 0.53
22 1 0.02
23 3 0.07
24 12 0.27
25 4 0.09
ACGTcount: A:0.42, C:0.30, G:0.06, T:0.22
Consensus pattern (22 bp):
CTACCGATACATGCAATACAAA
Found at i:15910928 original size:27 final size:25
Alignment explanation
Indices: 15910884--15910936 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
15910874 TTCAATTATT
15910884 TTTACCTATTATCACTTAATTACTAAA
1 TTTACCTATTATCACTT-ATTAC-AAA
*
15910911 TTTACCTATT-TACCCTTATTACAAA
1 TTTACCTATTAT-CACTTATTACAAA
15910936 T
1 T
15910937 AATCAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 6 0.25
27 14 0.58
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTACCTATTATCACTTATTACAAA
Found at i:15915694 original size:21 final size:21
Alignment explanation
Indices: 15915647--15915706 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
15915637 AACTATGCAG
** *
15915647 ATTTCTACCGATACCTGTGCA
1 ATTTCTACCGATACAAGTACA
* *
15915668 AGTTCTACCGATACAAGTATA
1 ATTTCTACCGATACAAGTACA
* *
15915689 ATTTCTACTGATAGAAGT
1 ATTTCTACCGATACAAGT
15915707 CATGCAACTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (21 bp):
ATTTCTACCGATACAAGTACA
Found at i:15917435 original size:27 final size:25
Alignment explanation
Indices: 15917391--15917443 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
15917381 TTCAATTATT
15917391 TTTACCTATTATCACTTAATTACTAAA
1 TTTACCTATTATCACTT-ATTAC-AAA
*
15917418 TTTACCTATT-TACCCTTATTACAAA
1 TTTACCTATTAT-CACTTATTACAAA
15917443 T
1 T
15917444 CATCAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 6 0.25
27 14 0.58
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTACCTATTATCACTTATTACAAA
Found at i:15925998 original size:31 final size:31
Alignment explanation
Indices: 15925963--15926034 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
15925953 CCTAATGCCT
15925963 TAGGAAATATAACCAGTCCGTACAAACTTAG
1 TAGGAAATATAACCAGTCCGTACAAACTTAG
*
15925994 TAGGAAACATAACCAGTCCGTACAAACTTAG
1 TAGGAAATATAACCAGTCCGTACAAACTTAG
*
15926025 -AGAAAATATA
1 TAGGAAATATA
15926035 TCAACATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 8 0.21
31 30 0.79
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (31 bp):
TAGGAAATATAACCAGTCCGTACAAACTTAG
Found at i:15926625 original size:67 final size:67
Alignment explanation
Indices: 15926537--15926716 Score: 271
Period size: 63 Copynumber: 2.7 Consensus size: 67
15926527 TCTATTTTTC
15926537 TTATTTATTTATTATTTTATGAATATAAATAAATAAATAAATAATAATATTAATTTTATTTTATT
1 TTATTTATTTATTATTTTATGAATATAAATAAATAAATAAATAATAATATTAATTTTATTTTATT
15926602 AT
66 AT
* * *
15926604 TT-TATTATTTATTATTGTATGAATATAAATAAAT--GT-AA-AATAATATTAATTTTGTTTTAT
1 TTAT-TTATTTATTATTTTATGAATATAAATAAATAAATAAATAATAATATTAATTTTATTTTAT
15926664 TAT
65 TAT
*
15926667 TTATTTATTTATTATTTTATGAATATAGATAAATAAATAAATAAATAATA
1 TTATTTATTTATTATTTTATGAATATAAATAAATAAATAAAT-AATAATA
15926717 ATATATCCAA
Statistics
Matches: 100, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
63 54 0.54
64 3 0.03
65 2 0.02
66 3 0.03
67 31 0.31
68 7 0.07
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (67 bp):
TTATTTATTTATTATTTTATGAATATAAATAAATAAATAAATAATAATATTAATTTTATTTTATT
AT
Found at i:15926790 original size:9 final size:9
Alignment explanation
Indices: 15926778--15926803 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15926768 AAAATCCTAA
15926778 AGCCCAAAT
1 AGCCCAAAT
15926787 AGCCCAAAT
1 AGCCCAAAT
15926796 AGCCCAAA
1 AGCCCAAA
15926804 ACTTTACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.35, G:0.12, T:0.08
Consensus pattern (9 bp):
AGCCCAAAT
Found at i:15937276 original size:12 final size:12
Alignment explanation
Indices: 15937259--15937283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15937249 AGAGATATTG
15937259 CATCTTGGGCAT
1 CATCTTGGGCAT
15937271 CATCTTGGGCAT
1 CATCTTGGGCAT
15937283 C
1 C
15937284 GATAGAGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (12 bp):
CATCTTGGGCAT
Found at i:15938127 original size:50 final size:50
Alignment explanation
Indices: 15938019--15938150 Score: 131
Period size: 50 Copynumber: 2.6 Consensus size: 50
15938009 GCATTAAAAT
* *
15938019 GATGAATCTTATACCCCTAAAGCTATAAAGGGATAGATTAAAGTCGCAAT
1 GATGAATCTTATACACCTAAAGCTATAAAGGGATAGATTAAAGTCGCAAG
** * * * *
15938069 GACAAATCTCATACACCTAAAGCTGTAGAGGGATAGATTGAAG-CTGCAAG
1 GATGAATCTTATACACCTAAAGCTATAAAGGGATAGATTAAAGTC-GCAAG
* ** * *
15938119 GGTGAATCTTATACTTCTGAAGCTAAAAAGGG
1 GATGAATCTTATACACCTAAAGCTATAAAGGG
15938151 GTAAATTGAA
Statistics
Matches: 63, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
49 1 0.02
50 62 0.98
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (50 bp):
GATGAATCTTATACACCTAAAGCTATAAAGGGATAGATTAAAGTCGCAAG
Found at i:15938445 original size:79 final size:79
Alignment explanation
Indices: 15938312--15938868 Score: 577
Period size: 79 Copynumber: 7.0 Consensus size: 79
15938302 CAAAGTTATC
* * * * * * * * *
15938312 TTACCTCGATCATGGGGCAGATTGAAGACCATCTAATTTTTTACCGTAATCAGAGGGAAAATTCA
1 TTACCCCGACCATGGGGCAGATTGAAG-CAATCCAATCTTTTACCCTAATCAGAGGGCAGATTGA
*
15938377 ATACCATCCAATCTT
65 AGACCATCCAATCTT
* * * *
15938392 TTACCCCGACCATGGGGCAGATTGAAGCAATCTAATCTTTTACACTAATCAGAGGGTAGAATGAA
1 TTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAA
15938457 GACCATCCAATCTT
66 GACCATCCAATCTT
* * *
15938471 TTACCCCGACCATGGGGCACATGGAAGCAATCCAATCTTTTACCCTAATCATGGGGGCAGATTGA
1 TTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAATCA-GAGGGCAGATTGA
*
15938536 AG-CAATCCAATCTT
65 AGACCATCCAATCTT
** ** * * *
15938550 TTACCCTAATTA-GAGGGCAGATTGAAGACCATCCAATCTTTTACCCTAGTCAAAGGGCAGATTG
1 TTACCCCGACCATG-GGGCAGATTGAAG-CAATCCAATCTTTTACCCTAATCAGAGGGCAGATTG
**
15938614 AAGACCATTTAATCTT
64 AAGACCATCCAATCTT
* ** ** * ** * * *
15938630 TTACTCTAATTA-GAGGGCAGATTGGATA-CCATCCAATCTTTTACCCCGA-CATAAGGAAGATT
1 TTACCCCGACCATG-GGGCAGATT-GA-AGCAATCCAATCTTTTACCCTAATCAGAGGGCAGATT
*
15938692 GAAG-CAATCCAATCTT
63 GAAGACCATCCAATCTT
* * *
15938708 TTACCCTGACCATGGGGCAGATTGAAGCAATCTAATCTTTTACCATAATCAGAGGGCAGATTGAA
1 TTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAA
15938773 GACCATCCAATCTT
66 GACCATCCAATCTT
* * * * * *
15938787 TTACCCCGACTATAGGGCAAATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCTGATTAAA
1 TTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAA
15938852 GACCATCCAATCTT
66 GACCATCCAATCTT
15938866 TTA
1 TTA
15938869 TCCTTAAAAT
Statistics
Matches: 403, Mismatches: 64, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
76 1 0.00
77 18 0.04
78 41 0.10
79 232 0.58
80 108 0.27
81 2 0.00
82 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (79 bp):
TTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAA
GACCATCCAATCTT
Found at i:15938473 original size:40 final size:40
Alignment explanation
Indices: 15938326--15938868 Score: 505
Period size: 40 Copynumber: 13.7 Consensus size: 40
15938316 CTCGATCATG
* * *
15938326 GGGCAGATTGAAGACCATCTAATTTTTTACCGTAATCAGA
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA
* * * * ** *
15938366 GGGAAAATTCAATACCATCCAATCTTTTACCCCGACCATG-
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCA-GA
* * *
15938406 GGGCAGATTGAAG-CAATCTAATCTTTTACACTAATCAGA
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA
* * ** *
15938445 GGGTAGAATGAAGACCATCCAATCTTTTACCCCGACCATG-
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCA-GA
* * * *
15938485 GGGCACATGGAAG-CAATCCAATCTTTTACCCTAATCATGG
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCA-GA
* *
15938525 GGGCAGATTGAAG-CAATCCAATCTTTTACCCTAATTAGA
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA
* *
15938564 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAGTCAAA
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA
** * *
15938604 GGGCAGATTGAAGACCATTTAATCTTTTACTCTAATTAGA
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA
* * ** *
15938644 GGGCAGATTGGATACCATCCAATCTTTTACCCCGA-CATA
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA
* * * * *
15938683 AGGAAGATTGAAG-CAATCCAATCTTTTACCCTGACCATG-
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCA-GA
* * *
15938722 GGGCAGATTGAAG-CAATCTAATCTTTTACCATAATCAGA
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA
** *
15938761 GGGCAGATTGAAGACCATCCAATCTTTTACCCCGA-CTATA
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATC-AGA
* * *
15938801 GGGCAAATTGAAG-CAATCCAATCTTTTACCCTAACCAGA
1 GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA
* *
15938840 GGGCTGATTAAAGACCATCCAATCTTTTA
1 GGGCAGATTGAAGACCATCCAATCTTTTA
15938869 TCCTTAAAAT
Statistics
Matches: 403, Mismatches: 87, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
38 21 0.05
39 153 0.38
40 227 0.56
41 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (40 bp):
GGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA
Found at i:15939466 original size:16 final size:16
Alignment explanation
Indices: 15939440--15939478 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15939430 GGCAACTGTA
* *
15939440 CAAGCCCAATTTCGTC
1 CAAGCCTAATTTCATC
*
15939456 CGAGCCTAATTTCATC
1 CAAGCCTAATTTCATC
15939472 CAAGCCT
1 CAAGCCT
15939479 TGAAACCTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.26
Consensus pattern (16 bp):
CAAGCCTAATTTCATC
Found at i:15939684 original size:67 final size:63
Alignment explanation
Indices: 15939513--15939683 Score: 279
Period size: 63 Copynumber: 2.7 Consensus size: 63
15939503 TTTAATTAAA
* *
15939513 TATTTATTATTTTATGAATATAAATAAATAAATATAAAATAATTTTAATTTTGTTTTATTATT
1 TATTTATTATTTTATGAATATAAATAAATAAATATAAAATAATATTAATTTTGTTTTATTATG
* *
15939576 TATTTATTATTGTATGAATATAAATAAATAAATGTAAAATAATATTAATTTTGTTTTATTATG
1 TATTTATTATTTTATGAATATAAATAAATAAATATAAAATAATATTAATTTTGTTTTATTATG
* *
15939639 TATTTATTATTTTATGAATATAGATAAATAAATAAATAAATAATA
1 TATTTATTATTTTATGAATATAAATAAATAAATATA-AAATAATA
15939684 AATCCAAATA
Statistics
Matches: 99, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
63 91 0.92
64 8 0.08
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (63 bp):
TATTTATTATTTTATGAATATAAATAAATAAATATAAAATAATATTAATTTTGTTTTATTATG
Found at i:15939704 original size:13 final size:12
Alignment explanation
Indices: 15939664--15939705 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
15939654 GAATATAGAT
15939664 AAATAAATAAAT-
1 AAAT-AATAAATC
15939676 AAATAATAAATCC
1 AAATAATAAAT-C
15939689 AAATAATAAACTC
1 AAATAATAAA-TC
15939702 AAAT
1 AAAT
15939706 TACAAACCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.26
12 4 0.15
13 15 0.56
14 1 0.04
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAATAAATC
Found at i:15943473 original size:21 final size:22
Alignment explanation
Indices: 15943435--15943511 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 22
15943425 CCTGCAACTT
* *
15943435 CTACCGATATAAGC-ATACAAA
1 CTACCGATACATGCAATACAAA
15943456 CTACCGATACAT-CAATACTAAAAA
1 CTACCGATACATGCAATAC---AAA
* * *
15943480 CTACCGATACTTGTAATTC-AA
1 CTACCGATACATGCAATACAAA
15943501 CTACCGATACA
1 CTACCGATACA
15943512 ACTCAACTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 26 0.58
24 14 0.31
25 4 0.09
ACGTcount: A:0.43, C:0.26, G:0.08, T:0.23
Consensus pattern (22 bp):
CTACCGATACATGCAATACAAA
Found at i:15947280 original size:30 final size:30
Alignment explanation
Indices: 15947241--15947297 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
15947231 CATTAAAATC
15947241 GGGTCAAATTTGAATTTTTGGAAAGTTCAA
1 GGGTCAAATTTGAATTTTTGGAAAGTTCAA
*
15947271 GGGTTAAATTTGAATTTTTGGAAAGTT
1 GGGTCAAATTTGAATTTTTGGAAAGTT
15947298 TGGGGGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTGGAAAGTTCAA
Found at i:15948335 original size:21 final size:22
Alignment explanation
Indices: 15948297--15948341 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
15948287 TTCTTGTTTG
15948297 TATTTGTTTAAATTTA-TTATT
1 TATTTGTTTAAATTTATTTATT
*
15948318 TATTTGTTT-ATTTGTATTTATT
1 TATTTGTTTAAATT-TATTTATT
15948340 TA
1 TA
15948342 AATAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.52
22 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TATTTGTTTAAATTTATTTATT
Found at i:15948390 original size:18 final size:18
Alignment explanation
Indices: 15948340--15948384 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
15948330 TGTATTTATT
15948340 TAAATAATAAATAGAA-AAA
1 TAAATAA-AAATA-AAGAAA
15948359 TAAATAAAAATAAAGAAA
1 TAAATAAAAATAAAGAAA
15948377 TAAATAAA
1 TAAATAAA
15948385 GTTAAAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 7 0.28
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (18 bp):
TAAATAAAAATAAAGAAA
Found at i:15948860 original size:23 final size:23
Alignment explanation
Indices: 15948804--15948860 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
15948794 TCCTTCATGG
*
15948804 TTCTCATGGTTAAAAAAATTTTA
1 TTCTCATGGTTAAAAAAATTTGA
* * * *
15948827 ATCTAAGGGTTAAAACAATTTGA
1 TTCTCATGGTTAAAAAAATTTGA
15948850 TTCTCATGGTT
1 TTCTCATGGTT
15948861 CTCATTTTAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (23 bp):
TTCTCATGGTTAAAAAAATTTGA
Found at i:15949004 original size:4 final size:4
Alignment explanation
Indices: 15948981--15949014 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
15948971 GTGTATATAA
15948981 ATTT ATATT ATTT ATATT ATTT ATTT ATTT ATTT
1 ATTT AT-TT ATTT AT-TT ATTT ATTT ATTT ATTT
15949015 TTGGGTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:15949014 original size:8 final size:9
Alignment explanation
Indices: 15948981--15949012 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
15948971 GTGTATATAA
15948981 ATTTATATT
1 ATTTATATT
15948990 ATTTATATT
1 ATTTATATT
15948999 ATTTAT-TT
1 ATTTATATT
15949007 ATTTAT
1 ATTTAT
15949013 TTTTGGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTATATT
Found at i:15949799 original size:60 final size:59
Alignment explanation
Indices: 15949689--15949989 Score: 286
Period size: 60 Copynumber: 5.0 Consensus size: 59
15949679 GGTGGTGTCT
* * *
15949689 GTAGCCCCAAGTGATCAACAATAACATTTGAGGAGCTACCCTCCCCAAATGGAGGCCTTG
1 GTAG-CCCAAGTGATCAACAACAACATTTGAGGAGCTACCCTCACTAAATGGAGGCCTTG
* * * * * *
15949749 GCAGCCCAAAATGATTAACAACAACAGTTGAGGAG-TGACCTTCACTAAATGGAAGCCTTG
1 GTAGCCC-AAGTGATCAACAACAACATTTGAGGAGCT-ACCCTCACTAAATGGAGGCCTTG
* * * *
15949809 GTTGTCCCAAGTGATCAA-AACCAACATTTAAGGAGCTACCCTCACTAAATGAAGGCATTG
1 GTAG-CCCAAGTGATCAACAA-CAACATTTGAGGAGCTACCCTCACTAAATGGAGGCCTTG
* ** *
15949869 GTAGTCCTAAGTGATCAACAACAACATTTGAGGAGCTACCCTCACTAGCTAGAGGCCTTG
1 GTAG-CCCAAGTGATCAACAACAACATTTGAGGAGCTACCCTCACTAAATGGAGGCCTTG
** * * * *
15949929 GTAGTCCCAAGCCAT-AAGCAACAACATTTGAGGAGTTGTCCAT-ACCAAATGGAGGCCTTG
1 GTAG-CCCAAGTGATCAA-CAACAACATTTGAGGAGCT-ACCCTCACTAAATGGAGGCCTTG
15949989 G
1 G
15949990 CAACCCCAAG
Statistics
Matches: 196, Mismatches: 37, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
59 8 0.04
60 179 0.91
61 9 0.05
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (59 bp):
GTAGCCCAAGTGATCAACAACAACATTTGAGGAGCTACCCTCACTAAATGGAGGCCTTG
Found at i:15957335 original size:23 final size:23
Alignment explanation
Indices: 15957277--15957344 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
15957267 GAGCATTTTT
*
15957277 GCACTTTGGTGCAATATATTCTT
1 GCACTTTGGTGCAATATATTCTA
*** *
15957300 GCACTTCAATGCAGGT-TATTCTA
1 GCACTTTGGTGCA-ATATATTCTA
15957323 GCACTTTGGTGCATATTATATT
1 GCACTTTGGTGCA-A-TATATT
15957345 GTGGATTGTT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
23 26 0.81
24 2 0.06
25 4 0.12
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (23 bp):
GCACTTTGGTGCAATATATTCTA
Found at i:15960138 original size:26 final size:26
Alignment explanation
Indices: 15960102--15960152 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15960092 ACGAATTTTT
15960102 TCAAAATTTTA-CCAGGGATAAAATCG
1 TCAAAATTTTATCCAGGG-TAAAATCG
*
15960128 TCAAAATTTTATCGAGGGTAAAATC
1 TCAAAATTTTATCCAGGGTAAAATC
15960153 ATAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (26 bp):
TCAAAATTTTATCCAGGGTAAAATCG
Found at i:15960160 original size:27 final size:26
Alignment explanation
Indices: 15960104--15960159 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
15960094 GAATTTTTTC
* *
15960104 AAAATTTTACCAGGGATAAAATCGTC
1 AAAATTTTACCAGGGATAAAATCATA
*
15960130 AAAATTTTATCGAGGG-TAAAATCATA
1 AAAATTTTA-CCAGGGATAAAATCATA
15960156 AAAA
1 AAAA
15960160 AAATTTGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (26 bp):
AAAATTTTACCAGGGATAAAATCATA
Found at i:15965269 original size:79 final size:79
Alignment explanation
Indices: 15965095--15965261 Score: 228
Period size: 79 Copynumber: 2.1 Consensus size: 79
15965085 TGCCACTCAT
** *
15965095 TGCCTAGCAGATAAACCGCAAGTGTGAGGCTAGCTTTAGTTGGATTAACCAACAACGTCCATCAA
1 TGCCTAGCAGATAAACCGCAAAAGTGAGGCTAGCTCTAGTTGGATTAACCAACAACGTCCATCAA
*
15965160 ATCCTGGCACCCAG
66 ATCCTGGCACCCAA
* * * * *
15965174 TGCCTAGCGGATAAACCGCAAAAGTG-TGCTCAGCTCTAGTTGGATTAACTAACAATGTCCGTCA
1 TGCCTAGCAGATAAACCGCAAAAGTGAGGCT-AGCTCTAGTTGGATTAACCAACAACGTCCATCA
*
15965238 AATCTTGGCACCCAA
65 AATCCTGGCACCCAA
15965253 TGCCTAGCA
1 TGCCTAGCA
15965262 CTTAAACCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
78 3 0.04
79 73 0.96
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (79 bp):
TGCCTAGCAGATAAACCGCAAAAGTGAGGCTAGCTCTAGTTGGATTAACCAACAACGTCCATCAA
ATCCTGGCACCCAA
Found at i:15969453 original size:21 final size:22
Alignment explanation
Indices: 15969429--15969482 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
15969419 TTTGTGCTAG
15969429 TTCTACCGATACAAGT-ATG-A
1 TTCTACCGATACAAGTCATGCA
*
15969449 TTTCTACCAATACAAGTCATGCA
1 -TTCTACCGATACAAGTCATGCA
15969472 -TCTACCGATAC
1 TTCTACCGATAC
15969483 CAAAAACTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 25 0.86
22 3 0.10
23 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (22 bp):
TTCTACCGATACAAGTCATGCA
Found at i:16004728 original size:7 final size:7
Alignment explanation
Indices: 16004716--16004742 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16004706 TCTTGATGCT
16004716 TTCTTCA
1 TTCTTCA
16004723 TTCTTCA
1 TTCTTCA
16004730 TTCTTCA
1 TTCTTCA
16004737 TTCTTC
1 TTCTTC
16004743 TATTTATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (7 bp):
TTCTTCA
Found at i:16016628 original size:17 final size:18
Alignment explanation
Indices: 16016608--16016649 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
16016598 ATTACAATGC
16016608 AAATGCACTAACAAAT-A
1 AAATGCACTAACAAATAA
* *
16016625 AAATGCAGTGACAAATAA
1 AAATGCACTAACAAATAA
16016643 AAATGCA
1 AAATGCA
16016650 ATGACAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.17
Consensus pattern (18 bp):
AAATGCACTAACAAATAA
Found at i:16016647 original size:18 final size:18
Alignment explanation
Indices: 16016608--16016661 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
16016598 ATTACAATGC
* *
16016608 AAATGCACTAACAAAT-A
1 AAATGCAATGACAAATAA
*
16016625 AAATGCAGTGACAAATAA
1 AAATGCAATGACAAATAA
*
16016643 AAATGCAATGACAACTAA
1 AAATGCAATGACAAATAA
16016661 A
1 A
16016662 TAAAATGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 14 0.44
18 18 0.56
ACGTcount: A:0.57, C:0.15, G:0.11, T:0.17
Consensus pattern (18 bp):
AAATGCAATGACAAATAA
Found at i:16032754 original size:77 final size:77
Alignment explanation
Indices: 16032540--16032910 Score: 535
Period size: 77 Copynumber: 4.8 Consensus size: 77
16032530 GAGCAAAGCA
* *
16032540 AAGACAATCCAATCTCTTACCTCGATCATGGGGCAGATTGAAGCATCCAATCTCTTACCTTAATC
1 AAGAC-ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAATC
16032605 AGAAGGCAGATTG
65 AGAAGGCAGATTG
* * * * *
16032618 AAGATAATCCAATCTCTTACCCCGATCATGGGGCAGATCGAAGCATCCAATTTTTTACCTTAATC
1 AAGA-CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAATC
16032683 AGAAGGCAGATTG
65 AGAAGGCAGATTG
* * *
16032696 AAGACATGCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCCTACCTTAATTA
1 AAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAATCA
* *
16032761 AAAGACAGATTG
66 GAAGGCAGATTG
* *
16032773 AAGACATGCAATCTCTTACCCCGATCATGGGGCATATTGAAACATCCAATCTCTTACCTTAATCA
1 AAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAATCA
*
16032838 GAAGGCAAATTG
66 GAAGGCAGATTG
* * *
16032850 AAGACAATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACACACCAATTTCTTACC
1 AAGAC-ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACA-TCCAATCTCTTACC
16032911 CCGAACAAGT
Statistics
Matches: 264, Mismatches: 25, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
77 139 0.53
78 110 0.42
79 3 0.01
80 12 0.05
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (77 bp):
AAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAATCA
GAAGGCAGATTG
Found at i:16033087 original size:14 final size:15
Alignment explanation
Indices: 16033062--16033090 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16033052 TTTATTCGGC
16033062 CCAAATTAAATAAAA
1 CCAAATTAAATAAAA
16033077 CCAAA-TAAATAAAA
1 CCAAATTAAATAAAA
16033091 TTTATTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (15 bp):
CCAAATTAAATAAAA
Found at i:16034546 original size:30 final size:29
Alignment explanation
Indices: 16034512--16034682 Score: 145
Period size: 30 Copynumber: 5.7 Consensus size: 29
16034502 TTATTTTATC
*
16034512 AAAAATTATATTTTAACTCTAAACTTTCCT
1 AAAAATTATATTTTAACCCTAAACTTT-CT
*
16034542 AAAAATTTAAATTTT-ACCCTTAAACTTTCT
1 AAAAA-TTATATTTTAACCC-TAAACTTTCT
* *
16034572 AAAAATT-TATTTTTGACCCCTAAATTTTCT
1 AAAAATTATA-TTTT-AACCCTAAACTTTCT
*
16034602 AAAATTTCAT-TTTTAACCCTCAAACTTTCT
1 AAAAATT-ATATTTTAACCCT-AAACTTTCT
*
16034632 AAAAATTATATTTTAGCCCCTAAAACTTTC-
1 AAAAATTATATTTTA-ACCCT-AAACTTTCT
* *
16034662 CAAAATTTTGATTTT-ACCCTA
1 AAAAATTAT-ATTTTAACCCTA
16034683 TTTTTCCTTA
Statistics
Matches: 116, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
28 2 0.02
29 17 0.15
30 60 0.52
31 36 0.31
32 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.43
Consensus pattern (29 bp):
AAAAATTATATTTTAACCCTAAACTTTCT
Found at i:16034604 original size:60 final size:59
Alignment explanation
Indices: 16034512--16034681 Score: 182
Period size: 60 Copynumber: 2.8 Consensus size: 59
16034502 TTATTTTATC
* * * *
16034512 AAAAATTATATTTTA-ACTCTAAACTTTCCTAAAAATTTAAATTTTACCCTTAAACTTTCT
1 AAAAATTATATTTTAGCCCCTAAA-TTTTCT-AAAATTTAAATTTTACCCTCAAACTTTCT
* * *
16034572 AAAAATT-TATTTTTGACCCCTAAATTTTCTAAAATTTCATTTTTAACCCTCAAACTTTCT
1 AAAAATTATATTTTAG-CCCCTAAATTTTCTAAAATTTAAATTTT-ACCCTCAAACTTTCT
* * **
16034632 AAAAATTATATTTTAGCCCCTAAAACTTTCCAAAATTTTGATTTTACCCT
1 AAAAATTATATTTTAGCCCCT-AAATTTTCTAAAATTTAAATTTTACCCT
16034682 ATTTTTCCTT
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
59 18 0.20
60 43 0.47
61 31 0.34
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (59 bp):
AAAAATTATATTTTAGCCCCTAAATTTTCTAAAATTTAAATTTTACCCTCAAACTTTCT
Done.