Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 181 of 199
Found at i:57872708 original size:118 final size:119
Alignment explanation
Indices: 57872570--57872837 Score: 484
Period size: 118 Copynumber: 2.2 Consensus size: 119
57872560 TTAATCATAT
57872570 TTTAATATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAA-ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
57872635 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTAT-AAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
57872689 TTTAAATAATTTTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTA
1 TTTAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
*
57872754 AATATTCTTATATGAATTTGCTAAAATCATAATATATAATACTATAAAATATAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
57872808 TTTAAAATAATTATTATTAAATATAATTTA
1 TTT-AAATAATTATTATTAAATATAATTTA
57872838 CAATCTACTT
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
118 102 0.71
119 16 0.11
120 25 0.17
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (119 bp):
TTTAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:57872789 original size:61 final size:61
Alignment explanation
Indices: 57872605--57872793 Score: 210
Period size: 61 Copynumber: 3.2 Consensus size: 61
57872595 ATTTAATAAA
57872605 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * ** * *
57872666 AATATATAA--TACTATAAA-T-ATAAT-TTAAATAATTTTTAT-TAAATATAATTTAATAAA
1 AATATATAATTTAATA-AAATTCTTAATATTAAAT-ATTCTTATATGAATTTACTAAAATCAT
* *
57872723 AATATATAATTTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTGCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
57872784 AATATATAAT
1 AATATATAAT
57872794 ACTATAAAAT
Statistics
Matches: 98, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
57 26 0.27
58 14 0.14
59 10 0.10
60 13 0.13
61 35 0.36
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:57874313 original size:39 final size:39
Alignment explanation
Indices: 57874262--57874383 Score: 121
Period size: 39 Copynumber: 3.5 Consensus size: 39
57874252 AATTATAATT
*
57874262 TTTTTAATGTTAATTATAATTGTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAATTGTTGTAGCATTTGATTAA
57874301 TTTTTAGTGTTAATTATAATT-TT-TAG----TG-TTAA
1 TTTTTAGTGTTAATTATAATTGTTGTAGCATTTGATTAA
57874333 ---TTA-T---AATTATAA-TGTTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAATTG-TTGTAGCATTTGATTAA
57874365 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
57874384 ATTTTAGTGT
Statistics
Matches: 67, Mismatches: 1, Indels: 30
0.68 0.01 0.31
Matches are distributed among these distances:
24 1 0.01
25 8 0.12
26 2 0.03
27 3 0.04
28 1 0.01
29 3 0.04
31 2 0.03
32 8 0.12
33 2 0.03
35 3 0.04
36 1 0.01
37 3 0.04
38 2 0.03
39 28 0.42
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (39 bp):
TTTTTAGTGTTAATTATAATTGTTGTAGCATTTGATTAA
Found at i:57874322 original size:19 final size:19
Alignment explanation
Indices: 57874241--57874467 Score: 163
Period size: 19 Copynumber: 11.1 Consensus size: 19
57874231 TTACTTTCTT
*
57874241 TTTTTAGTGATAATTATAA
1 TTTTTAGTGTTAATTATAA
*
57874260 TTTTTTTAATGTTAATTATAA
1 --TTTTTAGTGTTAATTATAA
*
57874281 TTGTTGTAGCAT-TTGA-T-TAA
1 TT-TT-TAG--TGTTAATTATAA
57874301 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
57874320 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
* * *
57874339 TTATAATGTTTGTAGCATTTGATTAA
1 TTTTTA-GTGT-TA--A-TT-A-TAA
57874365 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
*
57874384 ATTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
* * *
57874403 TTATAATTGTTGTAGCATTTGATTAA
1 TTTTTAGTG-T-TA--A-TT-A-TAA
57874429 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
57874448 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
57874467 T
1 T
57874468 AATAATGTTT
Statistics
Matches: 166, Mismatches: 19, Indels: 44
0.72 0.08 0.19
Matches are distributed among these distances:
16 1 0.01
17 3 0.02
18 4 0.02
19 79 0.48
20 13 0.08
21 28 0.17
22 5 0.03
23 3 0.02
24 8 0.05
25 6 0.04
26 16 0.10
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (19 bp):
TTTTTAGTGTTAATTATAA
Found at i:57874355 original size:64 final size:64
Alignment explanation
Indices: 57874241--57874492 Score: 401
Period size: 64 Copynumber: 4.0 Consensus size: 64
57874231 TTACTTTCTT
*
57874241 TTTTTAGTGATAATTATAA-TTTT--T-TTAATGT-TAATTATAATTGTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAATTTTTAGTGTTAAT-TATAATTATAATTGTTGTAGCATTTGATTAA
57874301 TTTTTAGTGTTAATTATAATTTTTAGTGTTAATTATAATTATAA-TGTTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAATTTTTAGTGTTAATTATAATTATAATTG-TTGTAGCATTTGATTAA
*
57874365 TTTTTAGTGTTAATTATAAATTTTAGTGTTAATTATAATTATAATTGTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAATTTTTAGTGTTAATTATAATTATAATTGTTGTAGCATTTGATTAA
*
57874429 TTTTTAGTGTTAATTATAATTTTTAGTGTTAATTATAATAATAA-TGTTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAATTTTTAGTGTTAATTATAATTATAATTG-TTGTAGCATTTGATTAA
57874493 AAAATTTTTA
Statistics
Matches: 180, Mismatches: 4, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
60 18 0.10
61 4 0.02
63 6 0.03
64 150 0.83
65 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (64 bp):
TTTTTAGTGTTAATTATAATTTTTAGTGTTAATTATAATTATAATTGTTGTAGCATTTGATTAA
Found at i:57874596 original size:47 final size:47
Alignment explanation
Indices: 57874543--57874632 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
57874533 TAGTGTTAAT
* * *
57874543 TATAATTTTTTATCAAACAATATT-AGTAATAAAAAACATTGTTCAAA
1 TATAATTTTTAATCAAAAAAT-TTAAATAATAAAAAACATTGTTCAAA
*
57874590 TATAATTTTTAATCAAAAAATTTAAATAATATAAAACATTGTT
1 TATAATTTTTAATCAAAAAATTTAAATAATAAAAAACATTGTT
57874633 TGAAGACCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 2 0.05
47 36 0.95
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (47 bp):
TATAATTTTTAATCAAAAAATTTAAATAATAAAAAACATTGTTCAAA
Found at i:57874776 original size:16 final size:17
Alignment explanation
Indices: 57874724--57874776 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
57874714 GTTTTAAATG
**
57874724 AAACATATAAAAAATAA
1 AAACATATCGAAAATAA
57874741 AAACATATCGAAAATAA
1 AAACATATCGAAAATAA
* *
57874758 AAACATATTGAAACTAA
1 AAACATATCGAAAATAA
57874775 AA
1 AA
57874777 TATAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.68, C:0.09, G:0.04, T:0.19
Consensus pattern (17 bp):
AAACATATCGAAAATAA
Found at i:57875110 original size:27 final size:25
Alignment explanation
Indices: 57875040--57875147 Score: 128
Period size: 25 Copynumber: 4.2 Consensus size: 25
57875030 GATACCATCA
*
57875040 AGAAACATACAA-AATAGAAACATAC
1 AGAAACATA-AAGAATATAAACATAC
* *
57875065 AGAGACATACAGAATATAAACATAC
1 AGAAACATAAAGAATATAAACATAC
* *
57875090 CGAAACGTAAATTGAATATAAACATAC
1 AGAAACATAAA--GAATATAAACATAC
*
57875117 AGAAACATACAGAATATAAACATAC
1 AGAAACATAAAGAATATAAACATAC
57875142 AGAAAC
1 AGAAAC
57875148 CATTTCCACT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.01
25 47 0.67
27 22 0.31
ACGTcount: A:0.58, C:0.16, G:0.10, T:0.16
Consensus pattern (25 bp):
AGAAACATAAAGAATATAAACATAC
Found at i:57876752 original size:12 final size:12
Alignment explanation
Indices: 57876731--57876760 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57876721 CAAAATAATT
*
57876731 ACAAATATGCAA
1 ACAAAGATGCAA
57876743 ACAAAGATGCAA
1 ACAAAGATGCAA
57876755 ACAAAG
1 ACAAAG
57876761 CTGATGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.17, G:0.13, T:0.10
Consensus pattern (12 bp):
ACAAAGATGCAA
Found at i:57878240 original size:12 final size:12
Alignment explanation
Indices: 57878219--57878248 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57878209 CAAAATAATT
*
57878219 ACAAATATGCAA
1 ACAAAGATGCAA
57878231 ACAAAGATGCAA
1 ACAAAGATGCAA
57878243 ACAAAG
1 ACAAAG
57878249 CTGATGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.17, G:0.13, T:0.10
Consensus pattern (12 bp):
ACAAAGATGCAA
Found at i:57897691 original size:16 final size:16
Alignment explanation
Indices: 57897666--57897696 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57897656 TGCATTTGTT
*
57897666 AAATTTTAAAAAATAA
1 AAATTCTAAAAAATAA
57897682 AAATTCTAAAAAATA
1 AAATTCTAAAAAATA
57897697 TATATAAATA
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTCTAAAAAATAA
Found at i:57898583 original size:91 final size:90
Alignment explanation
Indices: 57898439--57898610 Score: 231
Period size: 91 Copynumber: 1.9 Consensus size: 90
57898429 GTTGTAGATG
* *
57898439 AACCACCAAATGTTGCAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAATTGCAGATA
1 AACCACCAAATGTTACAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAATTGAAGATA
57898504 AAAGCT-CTCAGATAATGGGTGGGCA
66 AAAGCTGC-CAGATAATGGGTGGGCA
* * * ** *
57898529 AACCACC-AATGGTTACAAGTTAATACGCTGCCAGATGGTTGTGAATATACAACATTTTTTAAGA
1 AACCACCAAAT-GTTACAAGTTAATA-GCTACCAGACGGTTGTGAATACACAACATAATTGAAGA
57898593 TAAAAGCTGCCAGATAAT
64 TAAAAGCTGCCAGATAAT
57898611 ATGTAGATGT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
89 3 0.04
90 20 0.28
91 47 0.66
92 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (90 bp):
AACCACCAAATGTTACAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAATTGAAGATA
AAAGCTGCCAGATAATGGGTGGGCA
Found at i:57898627 original size:91 final size:89
Alignment explanation
Indices: 57898431--57898627 Score: 209
Period size: 91 Copynumber: 2.2 Consensus size: 89
57898421 CACACTGGGT
*
57898431 TGTAGATGAACCACCAAATGTTGCAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAAT
1 TGTAGATGAACCACC-AATGTTACAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAAT
* *
57898496 TGCAGATAAAAGCTCTCAGATAATG
65 TGAAGATAAAAGCTCTCAGATAATA
* * *** * * * **
57898521 GGTGGGCAAACCACCAATGGTTACAAGTTAATACGCTGCCAGATGGTTGTGAATATACAACATTT
1 TGTAGATGAACCACCAAT-GTTACAAGTTAATA-GCTACCAGACGGTTGTGAATACACAACATAA
*
57898586 TTTAAGATAAAAGCTGC-CAGATAATA
64 TTGAAGATAAAAGCT-CTCAGATAATA
57898612 TGTAGATGTAA-CACCA
1 TGTAGATG-AACCACCA
57898628 GATTTGCAGA
Statistics
Matches: 84, Mismatches: 19, Indels: 7
0.76 0.17 0.06
Matches are distributed among these distances:
89 3 0.04
90 23 0.27
91 55 0.65
92 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (89 bp):
TGTAGATGAACCACCAATGTTACAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAATT
GAAGATAAAAGCTCTCAGATAATA
Found at i:57912388 original size:66 final size:66
Alignment explanation
Indices: 57912282--57912413 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
57912272 TTCTTTTGTC
*
57912282 GAACTGAAGACTTGTTGACGGCAGTTCTCTAGGTAAACAGATTCCAACAATGGAAATCCGTGAGA
1 GAACTGAAGACTTGTTGACGGCAGTTCTCTAGGTAAACAGATTCCAACAATGGAAATCCCTGAGA
57912347 T
66 T
*
57912348 GAACTGAAGACTTGTTGAGGGCAGTTCTCTAGGTAAACAGATTCCAACAATGGAAATCCCTGAGA
1 GAACTGAAGACTTGTTGACGGCAGTTCTCTAGGTAAACAGATTCCAACAATGGAAATCCCTGAGA
57912413 T
66 T
57912414 AAAGTGTTTG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (66 bp):
GAACTGAAGACTTGTTGACGGCAGTTCTCTAGGTAAACAGATTCCAACAATGGAAATCCCTGAGA
T
Found at i:57913246 original size:20 final size:21
Alignment explanation
Indices: 57913210--57913250 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
57913200 TTAATTTTTA
57913210 AGTTATTAACTTTTTATATTT
1 AGTTATTAACTTTTTATATTT
57913231 AGTTATTAAC-TTTTATATTT
1 AGTTATTAACTTTTTATATTT
57913251 TTAAATGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (21 bp):
AGTTATTAACTTTTTATATTT
Found at i:57916084 original size:28 final size:30
Alignment explanation
Indices: 57916047--57916103 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
57916037 ACTTCCTTAA
*
57916047 TTAATTTTTA-TTGAATAT-TATATATATT
1 TTAATATTTACTTGAATATATATATATATT
*
57916075 TTAATATTTACTTTAATATATATATATAT
1 TTAATATTTACTTGAATATATATATATAT
57916104 ATAACACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.36
29 7 0.28
30 9 0.36
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (30 bp):
TTAATATTTACTTGAATATATATATATATT
Found at i:57920143 original size:44 final size:44
Alignment explanation
Indices: 57920094--57920190 Score: 158
Period size: 44 Copynumber: 2.2 Consensus size: 44
57920084 ATGATCACAG
*
57920094 ACACAGATTTCAGAATATGGAAGCAAAAAAGGGAATGACCAGAA
1 ACACAGATTTCAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
* **
57920138 ACACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGATGAGAA
1 ACACAGATTTCAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
57920182 ACACAGATT
1 ACACAGATT
57920191 CGAGAATTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.15
Consensus pattern (44 bp):
ACACAGATTTCAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
Found at i:57920211 original size:44 final size:44
Alignment explanation
Indices: 57920094--57920211 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
57920084 ATGATCACAG
* *
57920094 ACACAGATTTC-AGAATATGGAAGCAAAAAAGGGAATGACCAGAA
1 ACACAGA-TTCGAGAATATGAAAGCAAAAAAGGAAATGACCAGAA
* * **
57920138 ACACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGATGAGAA
1 ACACAGATTCGAGAATATGAAAGCAAAAAAGGAAATGACCAGAA
*
57920182 ACACAGATTCGAGAAT-TAGAAAGCCAAAAA
1 ACACAGATTCGAGAATAT-GAAAGCAAAAAA
57920212 CAAAGAGTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.05
44 62 0.95
ACGTcount: A:0.52, C:0.12, G:0.22, T:0.14
Consensus pattern (44 bp):
ACACAGATTCGAGAATATGAAAGCAAAAAAGGAAATGACCAGAA
Found at i:57922307 original size:1 final size:1
Alignment explanation
Indices: 57921963--57922287 Score: 317
Period size: 1 Copynumber: 325.0 Consensus size: 1
57921953 TTACAAACAC
*
57921963 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * ** *
57922028 AAAAAAAACATAAAAAAAAAACAAAAAAAAAAAAAAACAAAAAAAACACAAAAACCAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** ** * * *
57922093 AAACAAAAGCAAAAAAAAAAAAAACCAAAAAAAAAAAACAAAAAAAAAATAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
57922158 AAAACACAAAAACAAAAAAAAAAACAAAACAAAAACAAAAAAGACAAAAACAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * * * * * * *
57922223 AACGAAAAAAACAAAAAAAAAAACAAAAAGAAAAAAACAACAACAAAGAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
57922288 CAGTTACCAA
Statistics
Matches: 256, Mismatches: 68, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 256 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:57922320 original size:128 final size:118
Alignment explanation
Indices: 57921955--57922325 Score: 392
Period size: 126 Copynumber: 3.0 Consensus size: 118
57921945 TATATAAATT
* *
57921955 ACAAACACAAAAAAAAAAAAAAAA-AAAAAAAAAAAAAAAAAA-AAAAAAAAAAAAAAAAAAAAA
1 ACAAAAACAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAACAAAAAAAAAAAACAAAAAAAA
*
57922018 AAAAAACAAAAAAAAAAACATA-AAAAAAAAACAAAAAAAAAAAAAAACAAAAAAAA
66 AAAAAAC--AAAAAAAAACATACAACAAAAAA-AAAAAAAAAAAAAAAC-AAAAAAA
*
57922074 CACAAAAACCAAAAGAAAAAAACAAAAGCAAAAAAAAAAAAAACCAAAA-AAAAAAAACAAAA-A
1 -ACAAAAA-CAAAA-AAAAAAA-AAAAACAAAAAAAAAAAAAA--AAAACAAAAAAAA-AAAACA
* * * * *
57922137 AAAAATAAAAAAAAGAAAAAAAAAACACAAAAACAAAAAAAAAAACAAAACAAAAACAAAAAAG
59 AAAAA-AAAAAAAA-CAAAAAAAAACA-TACAACAAAAAAAAAAA-AAAAAAAAAACAAAAAAA
57922201 ACAAAAACAAAAAAAAAAAAAAAACGAAAAAAACAAAAAAAAAAACAAAAAGAAAAAAACAACAA
1 ACAAAAACAAAAAAAAAAAAAAAAC-AAAAAAA-AAAAAAAAAAACAAAAA-AAAAAAACAA-AA
57922266 CAAAGAAAAAAACAAAAAAAAACAGTTACCAACCAAAAAAAAAAAAAAAAAAAAAGCAAA
62 -AAA-AAAAAAACAAAAAAAAACA--TA-CAA-CAAAAAAAAAAAAAAAAAAAAA-CAAA
57922326 GATACGCCCA
Statistics
Matches: 214, Mismatches: 13, Indels: 39
0.80 0.05 0.15
Matches are distributed among these distances:
120 6 0.03
121 5 0.02
122 7 0.03
123 13 0.06
124 37 0.17
125 17 0.08
126 50 0.23
127 34 0.16
128 29 0.14
129 16 0.07
ACGTcount: A:0.87, C:0.10, G:0.02, T:0.01
Consensus pattern (118 bp):
ACAAAAACAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAACAAAAAAAAAAAACAAAAAAAA
AAAAAACAAAAAAAAACATACAACAAAAAAAAAAAAAAAAAAAAACAAAAAAA
Found at i:57922338 original size:126 final size:113
Alignment explanation
Indices: 57921963--57922327 Score: 317
Period size: 113 Copynumber: 3.2 Consensus size: 113
57921953 TTACAAACAC
57921963 AAAAAAAAAAAAAAAAAA-AAA-AA--AAAAAAAAAAAAAAAA-AAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAACAAAGAACCAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAA
* * *
57922023 ACAAAAAAAAAAACATAAAAAAAAAACAAAAAAAAA-AA-AAAACAAA
66 AAAAAAAAAAAAAAACAAAAAAAAAACAAAAAAAAACAACAAAACAAA
* ** * * * ** *
57922069 AAAAACACAAAAACCAAAAGAAAAAAACAAAAGCAAAAAAAAAAAA-AACCAAAAAAAAAAAACA
1 AAAAA-AAAAAAAAAAAAACAAAGAACCAAAA--AAAAAAAAAAAAGAAAAAAAAAAAAAAAAAA
* * *
57922133 AAAAAAAAATAAAAAAAAGAAAAAAAAAAC--ACAAAAACAA-AAAA-AAA
63 AAAAAAAAAAAAAAAAAACAAAAAAAAAACAAAAAAAAACAACAAAACAAA
57922180 AACAAAACAAAAACAAAAAAGACAAA-AA-CAAAAAAAAAAAAAAAACGAAAAAAACAAAAAAAA
1 AA-AAAA-AAAAA-AAAAAA-ACAAAGAACCAAAAAAAAAAAAAAAA-GAAAAAAA-AAAAAAAA
* * * *
57922243 AAACAAAAAGAAAAAAACAACAACAAAGAAAAAAACAAAAAAAAACAGTTACCAACCAAA
60 AAA-AAAAA-AAAAAAAAAAAAACAAA-AAAAAAACAAAAAAAAACA---ACAAAACAAA
57922303 AAAAAAAAAAAAAAAAAAGCAAAGA
1 AAAAAAAAAAAAAAAAAA-CAAAGA
57922328 TACGCCCAAA
Statistics
Matches: 207, Mismatches: 25, Indels: 39
0.76 0.09 0.14
Matches are distributed among these distances:
106 5 0.02
107 10 0.05
108 3 0.01
109 2 0.01
110 12 0.06
111 16 0.08
112 23 0.11
113 69 0.33
114 9 0.04
115 13 0.06
116 8 0.04
118 8 0.04
119 1 0.00
120 10 0.05
121 7 0.03
122 6 0.03
123 5 0.02
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (113 bp):
AAAAAAAAAAAAAAAAAACAAAGAACCAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAACAAAAAAAAAACAAAAAAAAACAACAAAACAAA
Found at i:57924170 original size:16 final size:16
Alignment explanation
Indices: 57924149--57924183 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
57924139 TTCTTCAAAT
57924149 ACTGCTTCTGAGACAA
1 ACTGCTTCTGAGACAA
57924165 ACTGCTTCTGAGACAA
1 ACTGCTTCTGAGACAA
57924181 ACT
1 ACT
57924184 AACTCTGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (16 bp):
ACTGCTTCTGAGACAA
Found at i:57928239 original size:22 final size:23
Alignment explanation
Indices: 57928214--57928263 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
57928204 CGTGGAACTC
57928214 TCCACA-TTTTGAACAATTGTCT
1 TCCACAGTTTTGAACAATTGTCT
*
57928236 TCCATATGTTTTGAACAATTGTCT
1 TCCACA-GTTTTGAACAATTGTCT
57928260 TCCA
1 TCCA
57928264 TATTCTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.20
24 20 0.80
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (23 bp):
TCCACAGTTTTGAACAATTGTCT
Found at i:57928247 original size:24 final size:24
Alignment explanation
Indices: 57928220--57928266 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
57928210 ACTCTCCACA
57928220 TTTTGAACAATTGTCTTCCATATG
1 TTTTGAACAATTGTCTTCCATATG
57928244 TTTTGAACAATTGTCTTCCATAT
1 TTTTGAACAATTGTCTTCCATAT
57928267 TCTAACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (24 bp):
TTTTGAACAATTGTCTTCCATATG
Found at i:57932175 original size:23 final size:22
Alignment explanation
Indices: 57932140--57932182 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
57932130 TATTATTTCA
57932140 ATTTAAAAAAAATC-ATTTATT
1 ATTTAAAAAAAATCAATTTATT
57932161 ATTTCAAAAATAAATCAATTTA
1 ATTT-AAAAA-AAATCAATTTA
57932183 ATTTTTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 5 0.26
24 5 0.26
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTAAAAAAAATCAATTTATT
Found at i:57953036 original size:30 final size:30
Alignment explanation
Indices: 57952980--57953036 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
57952970 CTGGACATTT
*
57952980 CCACACGAGCTGGCCACACACTCATGTGAG
1 CCACACGAGCTGGCCACACACCCATGTGAG
* *
57953010 CCACATGAGCTGGCCACACGCCCATGT
1 CCACACGAGCTGGCCACACACCCATGT
57953037 ACCAGCTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.39, G:0.23, T:0.14
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACACCCATGTGAG
Found at i:57959400 original size:18 final size:18
Alignment explanation
Indices: 57959374--57959417 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
57959364 GACTCGAAAA
* * *
57959374 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
57959392 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
57959410 AGGATACA
1 AGGATACA
57959418 CACTTGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.27, T:0.18
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:57960074 original size:7 final size:7
Alignment explanation
Indices: 57960064--57960089 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57960054 TTATATACAT
57960064 AATACTA
1 AATACTA
57960071 AATACTA
1 AATACTA
57960078 AATACTA
1 AATACTA
57960085 AATAC
1 AATAC
57960090 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:57961282 original size:11 final size:11
Alignment explanation
Indices: 57961266--57961311 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
57961256 AAATAGGGAT
57961266 TTGAGAGAAAA
1 TTGAGAGAAAA
*
57961277 TTGAGAGGAAA
1 TTGAGAGAAAA
* *
57961288 TTGATAGCAAA
1 TTGAGAGAAAA
57961299 TTGAGAGAAAA
1 TTGAGAGAAAA
57961310 TT
1 TT
57961312 AGGGAAATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.26, T:0.24
Consensus pattern (11 bp):
TTGAGAGAAAA
Found at i:57962113 original size:18 final size:20
Alignment explanation
Indices: 57962073--57962115 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
57962063 AAAGAATTTC
**
57962073 AAAAATTCAGAAAAATCTTA
1 AAAAATTCAGAAAAATCAGA
57962093 AAAAATT-A-AAAAATCAGA
1 AAAAATTCAGAAAAATCAGA
57962111 AAAAA
1 AAAAA
57962116 CTTGCCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 1 0.05
20 7 0.33
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAAATTCAGAAAAATCAGA
Found at i:57964546 original size:41 final size:41
Alignment explanation
Indices: 57964463--57964547 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
57964453 TATAGCGGCA
* **
57964463 TTTATGAGAAAAATGATGCAAAAGATCAAGCAGTAGTGGCG
1 TTTATGAGAAAAACGATGCAAAAGATCAAGCAGTAGCAGCG
* *
57964504 TTTATGAGAAAAACGCTGCAAAA-AGTCAAGCATTAGCAGCG
1 TTTATGAGAAAAACGATGCAAAAGA-TCAAGCAGTAGCAGCG
57964545 TTT
1 TTT
57964548 TTGCAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.24
Consensus pattern (41 bp):
TTTATGAGAAAAACGATGCAAAAGATCAAGCAGTAGCAGCG
Found at i:57982997 original size:21 final size:21
Alignment explanation
Indices: 57982965--57983005 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
57982955 GAACATTTGG
57982965 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
57982986 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
57983006 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:57987304 original size:17 final size:19
Alignment explanation
Indices: 57987278--57987324 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
57987268 TTCTTTTATG
57987278 AAATTGAAAACTAAAA-GT
1 AAATTGAAAACTAAAATGT
*
57987296 AAA-TGAAAAC-AAAATTT
1 AAATTGAAAACTAAAATGT
57987313 AAATTGAAAACT
1 AAATTGAAAACT
57987325 CAAGTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.16
17 11 0.44
18 10 0.40
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (19 bp):
AAATTGAAAACTAAAATGT
Found at i:57988352 original size:27 final size:28
Alignment explanation
Indices: 57988301--57988361 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
57988291 AAATTTTATA
57988301 AAAACATATTAGAAATCTATAAAA-TCAT
1 AAAA-ATATTAGAAATCTATAAAATTCAT
*
57988329 AAAAATATTA-AAAT-TGATATAAATTTAT
1 AAAAATATTAGAAATCT-ATA-AAATTCAT
57988357 AAAAA
1 AAAAA
57988362 CTTGAACTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 1 0.03
26 7 0.24
27 9 0.31
28 12 0.41
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAAATATTAGAAATCTATAAAATTCAT
Found at i:57988824 original size:9 final size:9
Alignment explanation
Indices: 57988784--57988865 Score: 58
Period size: 10 Copynumber: 8.8 Consensus size: 9
57988774 TATTTTTCAA
57988784 TTTTATATAT
1 TTTTATA-AT
57988794 TTTTATAAT
1 TTTTATAAT
*
57988803 ATTTATAAGT
1 TTTTATAA-T
*
57988813 TTTTTTAAT
1 TTTTATAAT
* *
57988822 TTTTCTGAT
1 TTTTATAAT
57988831 ATTTTAT-AT
1 -TTTTATAAT
*
57988840 TTTTATTAT
1 TTTTATAAT
* *
57988849 CTTTAATTAT
1 -TTTTATAAT
57988859 TTTTATA
1 TTTTATA
57988866 GAAAAAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
8 6 0.10
9 26 0.44
10 27 0.46
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:57992490 original size:12 final size:12
Alignment explanation
Indices: 57992473--57992505 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
57992463 CGACCCATCC
57992473 ATATTAATTTTT
1 ATATTAATTTTT
57992485 ATATT-ATTTTT
1 ATATTAATTTTT
57992496 ATA-TAATTTT
1 ATATTAATTTT
57992506 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:57993656 original size:7 final size:7
Alignment explanation
Indices: 57993622--57993656 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
57993612 TAAAATTTCA
*
57993622 TAAAAAA
1 TAAAAAT
*
57993629 TAAAAAA
1 TAAAAAT
57993636 TAAAAAT
1 TAAAAAT
57993643 TAAAAAT
1 TAAAAAT
57993650 TAAAAAT
1 TAAAAAT
57993657 AGAGAGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAAAAT
Found at i:57994577 original size:19 final size:20
Alignment explanation
Indices: 57994536--57994580 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
57994526 AAAGAATTTC
*
57994536 AAAAATTCAAAAAATTCATA
1 AAAAATTCAAAAAATCCATA
57994556 AAAAATT-AAAAAATCCGA-A
1 AAAAATTCAAAAAATCC-ATA
57994575 AAAAAT
1 AAAAAT
57994581 ATGGAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.69, C:0.09, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAATTCAAAAAATCCATA
Found at i:57996860 original size:40 final size:41
Alignment explanation
Indices: 57996790--57996887 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
57996780 GGCGCTAATC
* * *
57996790 GAAAAACGCCACAAAAGGTCAAGCAGTAGCGGCGTTTATGA
1 GAAAAACGCCGCAAAAAGTCAAGCAGTAGCGGCATTTATGA
* * *
57996831 GAAAAATGCCGCAAAAAG-CAAGCATTAGCGGCATTTTTGA
1 GAAAAACGCCGCAAAAAGTCAAGCAGTAGCGGCATTTATGA
* *
57996871 TAAAAACGCTGCAAAAA
1 GAAAAACGCCGCAAAAA
57996888 AAACATTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
40 33 0.69
41 15 0.31
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.16
Consensus pattern (41 bp):
GAAAAACGCCGCAAAAAGTCAAGCAGTAGCGGCATTTATGA
Found at i:57997168 original size:15 final size:15
Alignment explanation
Indices: 57997148--57997185 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
57997138 TGAAAAAAAA
57997148 TTAAAATACTATGAT
1 TTAAAATACTATGAT
*
57997163 TTAAAATACTATTAT
1 TTAAAATACTATGAT
57997178 TTAAAATA
1 TTAAAATA
57997186 ATTTTATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (15 bp):
TTAAAATACTATGAT
Found at i:57997192 original size:15 final size:15
Alignment explanation
Indices: 57997148--57997192 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
57997138 TGAAAAAAAA
* *
57997148 TTAAAATACTATGAT
1 TTAAAATAATATTAT
*
57997163 TTAAAATACTATTAT
1 TTAAAATAATATTAT
*
57997178 TTAAAATAATTTTAT
1 TTAAAATAATATTAT
57997193 CTTCGATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
TTAAAATAATATTAT
Found at i:58003582 original size:26 final size:25
Alignment explanation
Indices: 58003526--58003588 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
58003516 ATAAAAATAT
* * *
58003526 TCAAAAAAGATAAAAAAATTGAAAT
1 TCAAAAAATATAAAAAAATTAAAAC
58003551 TCAAAAAATATAAAAAAATTATAAAAC
1 TCAAAAAATATAAAAAAA-T-TAAAAC
58003578 T-AAAAAATATA
1 TCAAAAAATATA
58003589 TATAGCATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.52
26 11 0.33
27 5 0.15
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (25 bp):
TCAAAAAATATAAAAAAATTAAAAC
Found at i:58011243 original size:44 final size:44
Alignment explanation
Indices: 58011180--58011269 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
58011170 GAGACAATAC
*
58011180 AAGGAAATGACCAGAAACACAGATGTGAGAA-TATGGAAGCAAAA
1 AAGGAAATGACCAGAAACACAGATGTGAGAATTA-GAAAGCAAAA
* *
58011224 AAGGAAATGACCAGAAACACAGGTTTGAGAATTAGAAAGCAAAA
1 AAGGAAATGACCAGAAACACAGATGTGAGAATTAGAAAGCAAAA
58011268 AA
1 AA
58011270 CAAAGAGTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.53, C:0.11, G:0.23, T:0.12
Consensus pattern (44 bp):
AAGGAAATGACCAGAAACACAGATGTGAGAATTAGAAAGCAAAA
Found at i:58011949 original size:44 final size:44
Alignment explanation
Indices: 58011886--58011975 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
58011876 GAGACAATAC
*
58011886 AAGGAAATGACCAGAAACACAGATGTGAGAA-TATGGAAGCAAAA
1 AAGGAAATGACCAGAAACACAGATGTGAGAATTA-GAAAGCAAAA
* *
58011930 AAGGAAATGACCAGAAACACAGGTTTGAGAATTAGAAAGCAAAA
1 AAGGAAATGACCAGAAACACAGATGTGAGAATTAGAAAGCAAAA
58011974 AA
1 AA
58011976 CAAAGAGTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.53, C:0.11, G:0.23, T:0.12
Consensus pattern (44 bp):
AAGGAAATGACCAGAAACACAGATGTGAGAATTAGAAAGCAAAA
Found at i:58012255 original size:706 final size:707
Alignment explanation
Indices: 58010860--58012274 Score: 2766
Period size: 706 Copynumber: 2.0 Consensus size: 707
58010850 TATATAAACT
58010860 CTTTAATTAAGACAGAAACTTGTATGAAACCTTTTTTTATGAAAAATAAAATCACAAGTGATTTA
1 CTTTAATTAAGACAGAAACTTGTATGAAACCTTTTTTTATGAAAAATAAAATCACAAGTGATTTA
58010925 AAATGACTCCAACCAAACTAATAGAAATTTGAGAAGGCCAATAAATAAAACGGAGATCCACTCAA
66 AAATGACTCCAACCAAACTAATAGAAATTTGAGAAGGCCAATAAATAAAACGGAGATCCACTCAA
58010990 CAAAAACATGAAAATATATAGCAAGGAAGATGAGGAGCAGTTCCATAAAACTTACCTTCACTGAA
131 CAAAAACATGAAAATATATAGCAAGGAAGATGAGGAGCAGTTCCATAAAACTTACCTTCACTGAA
58011055 CTATCCTCTGCGCTGTTTCTTTTGCCAAGTGGAAATCAAGGTATGAAGAAAGTTTGGTTTTCAGA
196 CTATCCTCTGCGC-GTTTCTTTTGCCAAGTGGAAATCAAGGTATGAAGAAAGTTTGGTTTTCAGA
58011120 AATAAAAGAAAGTTTGCAGATTTTTTTTTGTTGTTTTTTTCCCCTTAATTGAGACAATACAAGGA
260 AATAAAAGAAAGTTTGCAGATTTTTTTTTGTTGTTTTTTTCCCCTTAATTGAGACAATACAAGGA
58011185 AATGACCAGAAACACAGATGTGAGAATATGGAAGCAAAAAAGGAAATGACCAGAAACACAGGTTT
325 AATGACCAGAAACACAGATGTGAGAATATGGAAGCAAAAAAGGAAATGACCAGAAACACAGGTTT
58011250 GAGAATTAGAAAGCAAAAAACAAAGAGTGGAAATGATGAGAAACAGAGGTTTGAGAACTTGGAAG
390 GAGAATTAGAAAGCAAAAAACAAAGAGTGGAAATGATGAGAAACAGAGGTTTGAGAACTTGGAAG
58011315 CAAAAAAACACATTGGATGAGAAACAGGTTTTTTTCCCTTAAGTGTTTTTATGCACTTTTTAATA
455 CAAAAAAACACATTGGATGAGAAACAGGTTTTTTTCCCTTAAGTGTTTTTATGCACTTTTTAATA
58011380 TTTTGAAATCTCATAAGGCCAAATTGGACCTCGAGAGCGACTAATAGGCTATTTCAGTGTGTAGG
520 TTTTGAAATCTCATAAGGCCAAATTGGACCTCGAGAGCGACTAATAGGCTATTTCAGTGTGTAGG
58011445 GTGTCAATTCAAGCCCTAAATATAAAGGACAACAGACTTCATTAGGAAACTTTTGACTTAAATTC
585 GTGTCAATTCAAGCCCTAAATATAAAGGACAACAGACTTCATTAGGAAACTTTTGACTTAAATTC
58011510 CTAATTTTTATTATATAATTTGACTTAAATTCC-TTTTTTTCGTTGAAATAGACACAC
650 CTAATTTTTATTATATAATTTGACTTAAATTCCTTTTTTTTCGTTGAAATAGACACAC
58011567 CTTTAATTAAGACAGAAACTTGTATGAAACCTTTTTTTTATGAAAAATAAAATCACAAGTGATTT
1 CTTTAATTAAGACAGAAACTTGTATGAAACC-TTTTTTTATGAAAAATAAAATCACAAGTGATTT
58011632 AAAATGACTCCAACCAAACTAATAGAAATTTGAGAAGGCCAATAAATAAAACGGAGATCCACTCA
65 AAAATGACTCCAACCAAACTAATAGAAATTTGAGAAGGCCAATAAATAAAACGGAGATCCACTCA
58011697 ACAAAAACATGAAAATATATAGCAAGGAAGATGAGGAGCAGTTCCATAAAACTTACCTTCACTGA
130 ACAAAAACATGAAAATATATAGCAAGGAAGATGAGGAGCAGTTCCATAAAACTTACCTTCACTGA
58011762 ACTATCCTCTGCGC-TTTCTTTTGCCAAGTGGAAATCAAGGTATGAAGAAAGTTTGGTTTTCAGA
195 ACTATCCTCTGCGCGTTTCTTTTGCCAAGTGGAAATCAAGGTATGAAGAAAGTTTGGTTTTCAGA
58011826 AATAAAAGAAAGTTTGCAGATTTTTTTTTGTTGTTTTTTTCCCCTTAATTGAGACAATACAAGGA
260 AATAAAAGAAAGTTTGCAGATTTTTTTTTGTTGTTTTTTTCCCCTTAATTGAGACAATACAAGGA
58011891 AATGACCAGAAACACAGATGTGAGAATATGGAAGCAAAAAAGGAAATGACCAGAAACACAGGTTT
325 AATGACCAGAAACACAGATGTGAGAATATGGAAGCAAAAAAGGAAATGACCAGAAACACAGGTTT
58011956 GAGAATTAGAAAGCAAAAAACAAAGAGTGGAAATGATGAGAAACAGAGGTTTGAGAACTTGGAAG
390 GAGAATTAGAAAGCAAAAAACAAAGAGTGGAAATGATGAGAAACAGAGGTTTGAGAACTTGGAAG
58012021 C-AAAAAACACATTGGATGAGAAACAGG-TTTTTTCCCTTAAGTGTTTTTATGCACTTTTTAATA
455 CAAAAAAACACATTGGATGAGAAACAGGTTTTTTTCCCTTAAGTGTTTTTATGCACTTTTTAATA
58012084 TTTTGAAATCTCATAAGGCCAAATTGGACCTCGAGAGCGACTAATAGGCTATTTCAGTGTGTAGG
520 TTTTGAAATCTCATAAGGCCAAATTGGACCTCGAGAGCGACTAATAGGCTATTTCAGTGTGTAGG
58012149 GTGTCAATTCAAGCCCTAAAATATAAAGGACAACAGACTTCATTAGGAAACTTTTGACTTAAATT
585 GTGTCAATTCAAGCCCT-AAATATAAAGGACAACAGACTTCATTAGGAAACTTTTGACTTAAATT
58012214 CCTAATTTTTATTATATAATTTGACTTAAATTCCTTTTTTTTTCGTTGAAATAGACACAC
649 CCTAATTTTTATTATATAATTTGACTTAAATTCC-TTTTTTTTCGTTGAAATAGACACAC
58012274 C
1 C
58012275 CTAATTTTCC
Statistics
Matches: 704, Mismatches: 0, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
704 118 0.17
705 107 0.15
706 246 0.35
707 56 0.08
708 177 0.25
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (707 bp):
CTTTAATTAAGACAGAAACTTGTATGAAACCTTTTTTTATGAAAAATAAAATCACAAGTGATTTA
AAATGACTCCAACCAAACTAATAGAAATTTGAGAAGGCCAATAAATAAAACGGAGATCCACTCAA
CAAAAACATGAAAATATATAGCAAGGAAGATGAGGAGCAGTTCCATAAAACTTACCTTCACTGAA
CTATCCTCTGCGCGTTTCTTTTGCCAAGTGGAAATCAAGGTATGAAGAAAGTTTGGTTTTCAGAA
ATAAAAGAAAGTTTGCAGATTTTTTTTTGTTGTTTTTTTCCCCTTAATTGAGACAATACAAGGAA
ATGACCAGAAACACAGATGTGAGAATATGGAAGCAAAAAAGGAAATGACCAGAAACACAGGTTTG
AGAATTAGAAAGCAAAAAACAAAGAGTGGAAATGATGAGAAACAGAGGTTTGAGAACTTGGAAGC
AAAAAAACACATTGGATGAGAAACAGGTTTTTTTCCCTTAAGTGTTTTTATGCACTTTTTAATAT
TTTGAAATCTCATAAGGCCAAATTGGACCTCGAGAGCGACTAATAGGCTATTTCAGTGTGTAGGG
TGTCAATTCAAGCCCTAAATATAAAGGACAACAGACTTCATTAGGAAACTTTTGACTTAAATTCC
TAATTTTTATTATATAATTTGACTTAAATTCCTTTTTTTTCGTTGAAATAGACACAC
Found at i:58013221 original size:26 final size:28
Alignment explanation
Indices: 58013161--58013228 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 28
58013151 CAATGATTAG
58013161 AATTAAATAAACTAAAGCCAACCTTCATTT
1 AATTAAATAAACTAAAGCCAACCTTCA--T
*
58013191 CATTAAAATAAACTAAAGCCAA-CTT-A-
1 AATT-AAATAAACTAAAGCCAACCTTCAT
58013217 AATTAAATAAAC
1 AATTAAATAAAC
58013229 CGATGTCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 8 0.23
26 3 0.09
29 1 0.03
30 6 0.17
31 17 0.49
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.26
Consensus pattern (28 bp):
AATTAAATAAACTAAAGCCAACCTTCAT
Found at i:58015503 original size:55 final size:55
Alignment explanation
Indices: 58015396--58015504 Score: 123
Period size: 55 Copynumber: 2.0 Consensus size: 55
58015386 TAAAAAAAAG
* * * * *
58015396 AATTTAAGAAAATTTTGAAGTTGAATTCAATATATATATAAATATAAAAATAATT
1 AATTTAAGAAAATTTTAAAATTGAATTCAAAATAAAAATAAATATAAAAATAATT
* *
58015451 AATTTAATAAAATTTTAAAATT-AGATTCAAAATAAAAATACATA-AAATAATAAT
1 AATTTAAGAAAATTTTAAAATTGA-ATTCAAAATAAAAATAAATATAAA-AATAAT
58015505 AAAATTTATA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
54 4 0.09
55 41 0.91
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.36
Consensus pattern (55 bp):
AATTTAAGAAAATTTTAAAATTGAATTCAAAATAAAAATAAATATAAAAATAATT
Found at i:58017138 original size:9 final size:9
Alignment explanation
Indices: 58017124--58017155 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
58017114 AACTTTACTA
58017124 GAATAAATT
1 GAATAAATT
58017133 GAATAAATT
1 GAATAAATT
58017142 GAATTAAATT
1 GAA-TAAATT
58017152 GAAT
1 GAAT
58017156 CAGACCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (9 bp):
GAATAAATT
Found at i:58017151 original size:10 final size:10
Alignment explanation
Indices: 58017127--58017155 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58017117 TTTACTAGAA
58017127 TAAATTGAA-
1 TAAATTGAAT
58017136 TAAATTGAAT
1 TAAATTGAAT
58017146 TAAATTGAAT
1 TAAATTGAAT
58017156 CAGACCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
TAAATTGAAT
Found at i:58018215 original size:338 final size:337
Alignment explanation
Indices: 58017588--58018272 Score: 1309
Period size: 338 Copynumber: 2.0 Consensus size: 337
58017578 GAAAATTTCG
58017588 AAATAAAACTACCTTAATGTTTTAATGAAGCGTAATCTTCAAAACAAATGTAGTGCGATTGAATG
1 AAATAAAACTACCTTAATGTTTTAATGAAGCGTAATCTTCAAAACAAATGTAGTGCGATTGAATG
58017653 GTAACGCATAATACGAAAGGATAATTTGTAAATAAACATACACCAAGGAATGATGAATAAATAAT
66 GTAACGCATAATACGAAAGGATAATTTGTAAATAAACATACACCAAGGAATGATG---AAATAAT
58017718 AAAAAAATTCAAGAAGCTTAGCAATGATTATCTCATGCGAACACCAACATTAGCTAATAGAGGAA
128 AAAAAAATTCAAGAAGCTTAGCAATGATTATCTCATGCGAACACCAACATTAGCTAATAGAGGAA
58017783 ACTAATTTAAAATTGAGCAAATTTACATAAACACCAATAAAGTGTACAAGTTTAAACACCATTTA
193 ACTAATTTAAAATTGAGCAAATTTACATAAACACCAATAAAGTGTACAAGTTTAAACACCATTTA
58017848 AGAAACAAATGACATGAAAGAAGGTAAACTGAAATTCGAAATAGATTTTACATGAAATTGTAATA
258 AGAAACAAATGACATGAAAGAAGGTAAACTGAAATTCGAAATAGATTTTACATGAAATTGTAATA
58017913 CGCAAATGAATTCTA
323 CGCAAATGAATTCTA
58017928 AAATAAAACTACCTTAATGTTTTAATGAAGCGTAATCTTCAAAACAAATGTAGTGCGATTGAATG
1 AAATAAAACTACCTTAATGTTTTAATGAAGCGTAATCTTCAAAACAAATGTAGTGCGATTGAATG
58017993 GTAACGCATAATACGAAAGGATAATTTGTAAATAAAACATACACCAAGGAATGATG-AATAATAA
66 GTAACGCATAATACGAAAGGATAATTTGTAAAT-AAACATACACCAAGGAATGATGAAATAATAA
58018057 AAAAATTCAAGAAGCTTAGCAATGATTATCTCATGCGAACACCAACATTAGCTAATAGGAGGAAA
130 AAAAATTCAAGAAGCTTAGCAATGATTATCTCATGCGAACACCAACATTAGCTAATA-GAGGAAA
58018122 CTAATTTAAAATTGAGCAAATTTACATAAACACCAATAAAGTGTACAAGTTTAAACACCATTTAA
194 CTAATTTAAAATTGAGCAAATTTACATAAACACCAATAAAGTGTACAAGTTTAAACACCATTTAA
58018187 GAAACAAATGACATGAAAGAAGGTAAACTGAAATTCGAAATAGATTTTACATGAAATTGTAATAC
259 GAAACAAATGACATGAAAGAAGGTAAACTGAAATTCGAAATAGATTTTACATGAAATTGTAATAC
58018252 GCAAATGAATTCTA
324 GCAAATGAATTCTA
*
58018266 AAGTAAA
1 AAATAAA
58018273 TATGGTATAA
Statistics
Matches: 342, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
337 65 0.19
338 157 0.46
340 98 0.29
341 22 0.06
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (337 bp):
AAATAAAACTACCTTAATGTTTTAATGAAGCGTAATCTTCAAAACAAATGTAGTGCGATTGAATG
GTAACGCATAATACGAAAGGATAATTTGTAAATAAACATACACCAAGGAATGATGAAATAATAAA
AAAATTCAAGAAGCTTAGCAATGATTATCTCATGCGAACACCAACATTAGCTAATAGAGGAAACT
AATTTAAAATTGAGCAAATTTACATAAACACCAATAAAGTGTACAAGTTTAAACACCATTTAAGA
AACAAATGACATGAAAGAAGGTAAACTGAAATTCGAAATAGATTTTACATGAAATTGTAATACGC
AAATGAATTCTA
Found at i:58018636 original size:31 final size:29
Alignment explanation
Indices: 58018566--58018639 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
58018556 GGTTCAGGTT
* *
58018566 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
58018595 ACGTTTTAGTCACTTATGTTATCATGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
58018626 ACATTTTAGTCACT
1 ACATTTTAGTCACT
58018640 GAGCCGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:58020948 original size:54 final size:54
Alignment explanation
Indices: 58020845--58020948 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
58020835 TTTAAATTCT
* *
58020845 AAATTTCAATTTATTAATTTTTATATTTAGTTTTAAAGTTAAAATTTTAATAGA
1 AAATTTCAATTTATTAATTTTTATATTTAGTTATAAAGTTAAAAGTTTAATAGA
* * *
58020899 AAATTT-AATTTAATTAATATTTTTTATTTAG-TATATAGTTTAAAGTTTAA
1 AAATTTCAATTT-ATTAAT-TTTTATATTTAGTTATAAAGTTAAAAGTTTAA
58020949 ATTTTAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 5 0.12
54 27 0.63
55 11 0.26
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (54 bp):
AAATTTCAATTTATTAATTTTTATATTTAGTTATAAAGTTAAAAGTTTAATAGA
Found at i:58024124 original size:58 final size:58
Alignment explanation
Indices: 58024055--58024170 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
58024045 CCTTAGCCAC
*
58024055 TACTATACTTCCAATAAGTGGTATCCAACTTATATTGGTGTCCTCATCACAAGGAGAG
1 TACTATACTTCCAATAAGTGGTATCCAACTTACATTGGTGTCCTCATCACAAGGAGAG
58024113 TACTATACTTCCAATAAGTGGTATCCAACTTACATTGGTGTCCTCATCACAAGGAGAG
1 TACTATACTTCCAATAAGTGGTATCCAACTTACATTGGTGTCCTCATCACAAGGAGAG
58024171 GACAAACATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (58 bp):
TACTATACTTCCAATAAGTGGTATCCAACTTACATTGGTGTCCTCATCACAAGGAGAG
Found at i:58026556 original size:14 final size:14
Alignment explanation
Indices: 58026537--58026566 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
58026527 GCGAGCGTGT
58026537 GACGAGAAGAAAAG
1 GACGAGAAGAAAAG
58026551 GACGAGAAGAAAAG
1 GACGAGAAGAAAAG
58026565 GA
1 GA
58026567 AGAGTGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.37, T:0.00
Consensus pattern (14 bp):
GACGAGAAGAAAAG
Found at i:58031268 original size:3 final size:3
Alignment explanation
Indices: 58031260--58031304 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
58031250 TAAGTAGCTG
58031260 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
58031305 GATTGAGAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:58032578 original size:44 final size:44
Alignment explanation
Indices: 58032505--58032632 Score: 202
Period size: 44 Copynumber: 2.9 Consensus size: 44
58032495 TTTTTTGGTG
* *
58032505 ATGATCACAGACACAGATTTCAGAATATGGAAGCAAAAAAGGAA
1 ATGATCACAAACACAGATTTGAGAATATGGAAGCAAAAAAGGAA
*
58032549 ATGACCACAAACACAGATTTGAGAATATGGAAGCAAAAAAGGAA
1 ATGATCACAAACACAGATTTGAGAATATGGAAGCAAAAAAGGAA
* * *
58032593 ATGATCAGAAACACAGATTTGAGAATTTGAAAGCAAAAAA
1 ATGATCACAAACACAGATTTGAGAATATGGAAGCAAAAAA
58032633 CAAAGAGTGG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 77 1.00
ACGTcount: A:0.52, C:0.12, G:0.20, T:0.16
Consensus pattern (44 bp):
ATGATCACAAACACAGATTTGAGAATATGGAAGCAAAAAAGGAA
Found at i:58034700 original size:236 final size:239
Alignment explanation
Indices: 58034150--58034727 Score: 681
Period size: 236 Copynumber: 2.4 Consensus size: 239
58034140 TCCTAATGTT
* * * * * *
58034150 CAACCAGGACTCGATAATTGTCAATGCGTAGTGACATTGATATGTTTATATAAATATCAATCCAA
1 CAACCGGGACTCAATAATCGTCAATTCGTAGTGACATTGATACGTTTATAT--ATATCGATCCAA
* * * * *
58034215 TTTCATTAAAAGTAACTTAGCATGATCGTCAATTTGTAGTGACATTGATGCTGTTCACACGAGCT
64 TTTCATTAAAAGTAACTTAGCATGATCATCAATTCGTAGTGACATCGATGCTGCTCACACAAGCT
* * * * * * *
58034280 GTGAGTATCCGCAACAAATGTAGGACCTTAGTAATCAGTAGGACATTCAAGACTAGCACTCGAAA
129 GTGAGTATCCGCAACAAATGTAGGACCTCAGCAATCAGTACGAAATTCAAGACCAGCACCCAAAA
* * *
58034345 CATGAAAACCCTAATGCCATGTCATTTGTATCCTATGAATTCCTAAAGTT
194 CATAAAAACCCTAATGCCAAGTCATTTGTA--CTAT-AATTCC-AAAGTC
58034395 CAACCGGGACTCAATAATCGTCAATTCGTAGTGACATTGATACGTTTATATATATCGATCCAATT
1 CAACCGGGACTCAATAATCGTCAATTCGTAGTGACATTGATACGTTTATATATATCGATCCAATT
*
58034460 TCATTAAAAGTAACTTAGCATGA-CTATCAGTTCGTAGTGACATCGATGCTGCTCACACAAGCTG
66 TCATTAAAAGTAACTTAGCATGATC-ATCAATTCGTAGTGACATCGATGCTGCTCACACAAGCTG
* **
58034524 TGGAGTATTCGCAACAAAT-TCAGGACCTCAGCAATTGGTACGAAATTCAAGACCAGCACCCAAA
130 T-GAGTATCCGCAACAAATGT-AGGACCTCAGCAATCAGTACGAAATTCAAGACCAGCACCCAAA
** *
58034588 ACATAAAAACCCTAATGATTAAGTACATTTGTA-TAT-A-T-C-GA-TC
193 ACATAAAAACCCTAATG-CCAAGT-CATTTGTACTATAATTCCAAAGTC
* * * *
58034631 CAACTGGGACTCAATAA-CAGTCAATTCGTACTGACATTGATACATTTATATATATCGATCCAGT
1 CAACCGGGACTCAATAATC-GTCAATTCGTAGTGACATTGATACGTTTATATATATCGATCCAAT
58034695 TTCATTAAAAGTAACTTAGCATGAT-AGTCAATT
65 TTCATTAAAAGTAACTTAGCATGATCA-TCAATT
58034728 TAAATAACAA
Statistics
Matches: 292, Mismatches: 33, Indels: 25
0.83 0.09 0.07
Matches are distributed among these distances:
235 2 0.01
236 88 0.30
237 1 0.00
239 1 0.00
240 1 0.00
241 1 0.00
242 1 0.00
243 74 0.25
244 66 0.23
245 49 0.17
246 8 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (239 bp):
CAACCGGGACTCAATAATCGTCAATTCGTAGTGACATTGATACGTTTATATATATCGATCCAATT
TCATTAAAAGTAACTTAGCATGATCATCAATTCGTAGTGACATCGATGCTGCTCACACAAGCTGT
GAGTATCCGCAACAAATGTAGGACCTCAGCAATCAGTACGAAATTCAAGACCAGCACCCAAAACA
TAAAAACCCTAATGCCAAGTCATTTGTACTATAATTCCAAAGTC
Found at i:58039263 original size:13 final size:13
Alignment explanation
Indices: 58039247--58039276 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
58039237 ATTGTCATGT
58039247 AATTGTTTTTCTG
1 AATTGTTTTTCTG
58039260 AATTGTTTTTCTG
1 AATTGTTTTTCTG
58039273 AATT
1 AATT
58039277 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:58040244 original size:82 final size:81
Alignment explanation
Indices: 58040153--58040402 Score: 186
Period size: 82 Copynumber: 3.1 Consensus size: 81
58040143 CATATAAGAA
*
58040153 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
58040218 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * *
58040235 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A--TAACAATAA-TA-
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTTAATAATAATTAT
* *
58040291 ATTTACCAA-A--A-CAAAT
64 GTTTA--AATATGATTAAAT
* *
58040307 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAAT
*
58040371 TATGTTTAAATATGATTAAAA
61 TATGTTTAAATATGATTAAAT
58040392 TATTTATTATT
1 TATTTATTATT
58040403 GATAATAATA
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.07
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 5 0.04
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (81 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:58040322 original size:157 final size:157
Alignment explanation
Indices: 58040156--58040465 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
58040146 ATAAGAATAT
*
58040156 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* * *
58040221 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATATTATCAAAATTTAAATAACAATAACAA
58040286 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
58040313 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
58040378 AAATATGATTAAAATATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATATTATCAAAATTTAAATAACAATAACAA
* *
58040443 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
58040466 ATACTAAGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATATTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:58040616 original size:16 final size:16
Alignment explanation
Indices: 58040595--58040662 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
58040585 GATTTGCTAT
58040595 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58040611 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
58040627 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
* *
58040643 TACATCTCTAAGCCAA
1 TACACCTCTAATCCAA
58040659 TACA
1 TACA
58040663 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.38, C:0.34, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58042724 original size:7 final size:7
Alignment explanation
Indices: 58042714--58042749 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
58042704 GTTGGATGTT
58042714 GTTAGTG
1 GTTAGTG
58042721 GTTAGTG
1 GTTAGTG
*
58042728 GCTAGTG
1 GTTAGTG
58042735 GTTAGTG
1 GTTAGTG
*
58042742 GTTGGTG
1 GTTAGTG
58042749 G
1 G
58042750 GGGAGTGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.11, C:0.03, G:0.47, T:0.39
Consensus pattern (7 bp):
GTTAGTG
Found at i:58042726 original size:21 final size:21
Alignment explanation
Indices: 58042706--58042749 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58042696 CTGAGGTAGT
*
58042706 TGGAT-GTTGTTAGTGGTTAG
1 TGGATAGTGGTTAGTGGTTAG
* *
58042726 TGGCTAGTGGTTAGTGGTTGG
1 TGGATAGTGGTTAGTGGTTAG
58042747 TGG
1 TGG
58042750 GGGAGTGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.41
Consensus pattern (21 bp):
TGGATAGTGGTTAGTGGTTAG
Found at i:58049504 original size:21 final size:21
Alignment explanation
Indices: 58049478--58049518 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58049468 ATCTGCTCAA
* *
58049478 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
58049499 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
58049519 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:58058317 original size:17 final size:17
Alignment explanation
Indices: 58058295--58058329 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
58058285 AGTCTTAATT
58058295 ATAAAAAT-TATAAAAAA
1 ATAAAAATCT-TAAAAAA
58058312 ATAAAAATCTTAAAAAA
1 ATAAAAATCTTAAAAAA
58058329 A
1 A
58058330 ATTAAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
ATAAAAATCTTAAAAAA
Found at i:58074158 original size:16 final size:16
Alignment explanation
Indices: 58074128--58074161 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58074118 CTTTCTATTA
**
58074128 TTTGTTGATGGAACTT
1 TTTGTTGATCCAACTT
58074144 TTTGTTGATCCAACTT
1 TTTGTTGATCCAACTT
58074160 TT
1 TT
58074162 CATTGTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTGTTGATCCAACTT
Found at i:58088488 original size:13 final size:14
Alignment explanation
Indices: 58088456--58088503 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
58088446 GCAAAAGCTG
58088456 GAGAAATGAAAGAGA
1 GAGAAA-GAAAGAGA
*
58088471 GAGAAAGAAGGAGA
1 GAGAAAGAAAGAGA
*
58088485 -AGAAAGAAAAAGA
1 GAGAAAGAAAGAGA
*
58088498 AAGAAA
1 GAGAAA
58088504 ACGAAAGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 12 0.41
15 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (14 bp):
GAGAAAGAAAGAGA
Found at i:58088502 original size:10 final size:10
Alignment explanation
Indices: 58088474--58088582 Score: 107
Period size: 10 Copynumber: 11.0 Consensus size: 10
58088464 AAAGAGAGAG
58088474 AAAG-AAGGA
1 AAAGAAAGGA
* *
58088483 GAAGAAAGAA
1 AAAGAAAGGA
58088493 AAAGAAA-GA
1 AAAGAAAGGA
58088502 AAACGAAAGGA
1 AAA-GAAAGGA
*
58088513 AAGGAAAGGA
1 AAAGAAAGGA
*
58088523 AAGGAAAGGA
1 AAAGAAAGGA
* *
58088533 GAAGAAAGAA
1 AAAGAAAGGA
58088543 AAAGAAA-GA
1 AAAGAAAGGA
58088552 AAAGGAAAGGA
1 AAA-GAAAGGA
*
58088563 GAAGAAAGGA
1 AAAGAAAGGA
*
58088573 AAGGAAAGGA
1 AAAGAAAGGA
58088583 GGAGAAGAAG
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
9 11 0.13
10 63 0.77
11 8 0.10
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (10 bp):
AAAGAAAGGA
Found at i:58088516 original size:5 final size:5
Alignment explanation
Indices: 58088486--58088582 Score: 99
Period size: 5 Copynumber: 19.4 Consensus size: 5
58088476 AGAAGGAGAA
* * * *
58088486 GAAAG AAAAA GAAAG AAAAC GAAAG GAAAG GAAAG GAAAG GAAAG GAGAA-
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GA-AAG
* * *
58088536 GAAAG AAAAA GAAAG AAAAG GAAAG GAGAA- GAAAG GAAAG GAAAG GA
1 GAAAG GAAAG GAAAG GAAAG GAAAG GA-AAG GAAAG GAAAG GAAAG GA
58088583 GGAGAAGAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
4 4 0.05
5 66 0.89
6 4 0.05
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:58088520 original size:30 final size:30
Alignment explanation
Indices: 58088478--58088580 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
58088468 AGAGAGAAAG
* * * *
58088478 AAGGAGAA-GAAAGAAAAAGAAAGAAAACGA
1 AAGGA-AAGGAAAGAAAAGGAAAGGAGAAGA
*
58088508 AAGGAAAGGAAAGGAAAGGAAAGGAGAAGA
1 AAGGAAAGGAAAGAAAAGGAAAGGAGAAGA
* *
58088538 AAGAAAAAGAAAGAAAAGGAAAGGAGAAGA
1 AAGGAAAGGAAAGAAAAGGAAAGGAGAAGA
58088568 AAGGAAAGGAAAG
1 AAGGAAAGGAAAG
58088581 GAGGAGAAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (30 bp):
AAGGAAAGGAAAGAAAAGGAAAGGAGAAGA
Found at i:58088537 original size:50 final size:50
Alignment explanation
Indices: 58088478--58088588 Score: 188
Period size: 50 Copynumber: 2.2 Consensus size: 50
58088468 AGAGAGAAAG
58088478 AAGGAGAAGAAAGAAAAAGAAAGAAAACGAAAGGA-AAGGAAAGGAAAGGA
1 AAGGAGAAGAAAGAAAAAGAAAGAAAACGAAAGGAGAA-GAAAGGAAAGGA
*
58088528 AAGGAGAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGGAAAGGA
1 AAGGAGAAGAAAGAAAAAGAAAGAAAACGAAAGGAGAAGAAAGGAAAGGA
*
58088578 AAGGAGGAGAA
1 AAGGAGAAGAA
58088589 GAAGAGGGAG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 56 0.97
51 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.00
Consensus pattern (50 bp):
AAGGAGAAGAAAGAAAAAGAAAGAAAACGAAAGGAGAAGAAAGGAAAGGA
Found at i:58088605 original size:23 final size:23
Alignment explanation
Indices: 58088516--58088591 Score: 89
Period size: 25 Copynumber: 3.1 Consensus size: 23
58088506 GAAAGGAAAG
*
58088516 GAAAGGAAAGGAAAGGAGAAGAAA
1 GAAAGGAAAGGAAAGGAGGAG-AA
* *
58088540 GAAAAAGAAAGAAAAGGAAAGGAGAA
1 G-AAAGGAAAGGAAAGG--AGGAGAA
58088566 GAAAGGAAAGGAAAGGAGGAGAA
1 GAAAGGAAAGGAAAGGAGGAGAA
58088589 GAA
1 GAA
58088592 GAGGGAGGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 10 0.23
24 1 0.02
25 26 0.59
26 3 0.07
27 4 0.09
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (23 bp):
GAAAGGAAAGGAAAGGAGGAGAA
Found at i:58088961 original size:26 final size:26
Alignment explanation
Indices: 58088932--58088981 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
58088922 ATATTCACCG
*
58088932 AAAATAATAAAATCCGAAAATAATGT
1 AAAATAATAAAATACGAAAATAATGT
58088958 AAAATAATAAAATACGAAAATAAT
1 AAAATAATAAAATACGAAAATAAT
58088982 ATATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (26 bp):
AAAATAATAAAATACGAAAATAATGT
Found at i:58089547 original size:156 final size:155
Alignment explanation
Indices: 58088948--58089679 Score: 974
Period size: 156 Copynumber: 4.7 Consensus size: 155
58088938 ATAAAATCCG
*
58088948 AAAATAATGTAAAATAATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAG
1 AAAATAATGTAAAATAATAAAATTA-GAAAATAATAT-TTTTTATTGAAAGTAATAAAATTCGGG
* * * * *
58089012 AAAAAAAAAAGAACAAAGGGCCGAAGTAAAGGTTATTTTTTG-AAATTTATTTAAAAGATACTGT
64 AAAAAAATACGAACAAAGGGCCGAAGTAAGGGTT-TTTTTTGTAAATTTATTTAAAAAATACT-A
58089076 AAATTAATACATTTCAAACATAATGTACT
127 AAATTAATACATTTCAAACATAATGTACT
* * *
58089105 AAAATAATGTAAAATAATAAAATTAGAAAATAGTA-TATTT-TT-AAAGTAATAAAATCCGGAGA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATTTTTTATTGAAAGTAATAAAATTCGG-GA
* * ** *
58089167 AAAAAATACGAACAAAGGGCCGAAATAAGGG-CTTTTTACTAAA-TTATTTTAACAAAACAC-AA
65 AAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTGTAAATTTA-TTTAA-AAAATACTAA
58089229 TTAATTAATACATTTCAAACATAATGTACT
128 --AATTAATACATTTCAAACATAATGTACT
58089259 AAAATAATG-----TAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATAT-TTTTTATTGAAAGTAATAAAATTCGGGA
* *
58089319 AAAAAATACGAACAAAGGGCCGAAGTAA-GGTTTTTTTTGTAAATTTACTTAAAAAATACAATAA
65 AAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTGTAAATTTATTTAAAAAATACTA-AA
*
58089383 ATTAATACATTTCAAATATAATGTACT
129 ATTAATACATTTCAAACATAATGTACT
* *
58089410 AAACTAATGTAAAATAATAAAATTAGAAAATAATATTTTTTATTGAAAGTAATAAAATTCGGGGA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATTTTTTATTGAAAGTAATAAAATTCGGGAA
58089475 AAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTGTAAATTTATTTAAAAAAGATACTAAA
66 AAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTGTAAATTTATTT-AAAAA-ATACTAAA
* *
58089540 ATT-ATACATTTCAAATATAATGTAAT
129 ATTAATACATTTCAAACATAATGTACT
* ** * *
58089566 AAACTAATGTAAAATAATAAAATTAGAAAATAATATTTTTTATTGAAAGTAATAAAAACCAGTAA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATTTTTTATTGAAAGTAATAAAATTCGGGAA
* **
58089631 AAAAATACGAACAAAGGGCCGAAATAAGGG-TTTTTTACTAAATTTATTT
66 AAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTGTAAATTTATTT
58089680 TGAAGTTGCA
Statistics
Matches: 515, Mismatches: 37, Indels: 48
0.86 0.06 0.08
Matches are distributed among these distances:
149 20 0.04
151 47 0.09
152 54 0.10
153 43 0.08
154 73 0.14
155 76 0.15
156 154 0.30
157 41 0.08
158 7 0.01
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.31
Consensus pattern (155 bp):
AAAATAATGTAAAATAATAAAATTAGAAAATAATATTTTTTATTGAAAGTAATAAAATTCGGGAA
AAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTGTAAATTTATTTAAAAAATACTAAAAT
TAATACATTTCAAACATAATGTACT
Found at i:58093879 original size:43 final size:42
Alignment explanation
Indices: 58093817--58094123 Score: 305
Period size: 43 Copynumber: 7.2 Consensus size: 42
58093807 ATAAATAAAA
* * * * *
58093817 GCCGCTAAAAATCATGACCTTTAGCGGCGCATTTCTCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTC-CACAAAC
* * * *
58093860 GCCGCTAAAGACCAAGACCTTTAGTGGCACTTTAACCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTT-TCCACAAAC
* *
58093903 GCTGCTAAAGACCAAGACCTTTAGCGACGCTTTTCTCACAAAT
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTC-CACAAAC
*
58093946 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTT-CCACAAAC
* * * * *
58093989 GCCGCTATAGAACATGAGCTTTAGCGCCGCTTTTCCCACAAA-
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTT-CCACAAAC
* * *
58094031 --CGCTAAAGACCAAGACCTTTAACGAAGCTTTAACCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTT-TCCACAAAC
* * * * *
58094072 GCTGCTAAAGAACATGATCTTTAGCGACGCTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTT-CCACAAAC
58094115 GCCGCTAAA
1 GCCGCTAAA
58094124 AGTACAACTC
Statistics
Matches: 217, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
40 31 0.14
42 1 0.00
43 183 0.84
44 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (42 bp):
GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCACAAAC
Found at i:58093925 original size:86 final size:86
Alignment explanation
Indices: 58093820--58094123 Score: 393
Period size: 86 Copynumber: 3.6 Consensus size: 86
58093810 AATAAAAGCC
* *
58093820 GCTAAA-AATCATGACCTTTAGCGGCGCATTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
1 GCTAAAGAA-CATGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
*
58093884 TGGCACTTTAACCACAAACGCT
65 AGGCACTTTAACCACAAACGCT
* * * *
58093906 GCTAAAGACCAAGACCTTTAGCGACGCTTTTCTCACAAATGCCGCTAAAGACCAAGACCTTTAGC
1 GCTAAAGAACATGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGA
* * *
58093971 GGCGCTTTTACCACAAACGCC
66 GGCACTTTAACCACAAACGCT
* * * *
58093992 GCTATAGAACATGAGCTTTAGCGCCGCTTTTCCCACAAA---CGCTAAAGACCAAGACCTTTA-A
1 GCTAAAGAACATGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGA
* *
58094053 CGAAGCTTTAACCACAAACGCT
66 GGCA-CTTTAACCACAAACGCT
* *
58094075 GCTAAAGAACATGATCTTTAGCGACGCTTTTATCACAAACGCCGCTAAA
1 GCTAAAGAACATGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTAAA
58094124 AGTACAACTC
Statistics
Matches: 187, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
82 1 0.01
83 70 0.37
86 115 0.61
87 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (86 bp):
GCTAAAGAACATGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGA
GGCACTTTAACCACAAACGCT
Found at i:58095113 original size:40 final size:40
Alignment explanation
Indices: 58095050--58095133 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
58095040 TAGCTTGAAC
* * *
58095050 ATCAACACTTCAATATTTAATATGTAAGGAATTATCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
* *
58095090 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACACAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
58095130 ATCA
1 ATCA
58095134 TGTATAATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 34 0.89
41 4 0.11
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:58095298 original size:76 final size:77
Alignment explanation
Indices: 58095163--58095305 Score: 173
Period size: 76 Copynumber: 1.9 Consensus size: 77
58095153 CAAAAAATTA
* * * * ** *
58095163 GCAAAAATTAACAATTCATGTATAATGTATTTACCAAAAACTGGACCAACTTGTCAA-TTTTTAT
1 GCAAAAATTAACAATACAAGTATAATATATTCACCAAAAACCAGACCAAATTGTCAATTTTTTAT
58095227 AACATTTTAAAT
66 AACATTTTAAAT
* * *
58095239 GCAACAAATTAACAATACAAGT-TCATATATTCACCAAAAACCAGACTAAATTTTCAATTTTTTA
1 GCAA-AAATTAACAATACAAGTATAATATATTCACCAAAAACCAGACCAAATTGTCAATTTTTTA
58095303 TAA
65 TAA
58095306 AATAAGAGGA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
76 31 0.56
77 24 0.44
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (77 bp):
GCAAAAATTAACAATACAAGTATAATATATTCACCAAAAACCAGACCAAATTGTCAATTTTTTAT
AACATTTTAAAT
Found at i:58099726 original size:82 final size:82
Alignment explanation
Indices: 58099611--58099771 Score: 232
Period size: 82 Copynumber: 2.0 Consensus size: 82
58099601 CTAACTCTTA
* * * *
58099611 ACCCCAAACCCCAAACCTCTAATCCTTAATTAATATAGAAATTAAAAAATACTAATTAATCTAAA
1 ACCCCAAACCCCAAACCCCTAAACATTAATTAATATAGAAATTAAAAAACACTAATTAATCTAAA
58099676 TCATAAACCCTAACCCG
66 TCATAAACCCTAACCCG
* * * * *
58099693 ACCCCAAATCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAA
1 ACCCCAAACCCCAAACCCCTAAACATTAATTAATATAGAAATTAAAAAACACTAATTAATCTAAA
*
58099758 TCCTAAACCCTAAC
66 TCATAAACCCTAAC
58099772 TTGACACTGA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.25
Consensus pattern (82 bp):
ACCCCAAACCCCAAACCCCTAAACATTAATTAATATAGAAATTAAAAAACACTAATTAATCTAAA
TCATAAACCCTAACCCG
Found at i:58099795 original size:82 final size:82
Alignment explanation
Indices: 58099640--58099797 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 82
58099630 TAATCCTTAA
* * *
58099640 TTAATATAGAAATTAAAAAATACTAATTAATCTAAATCATAAACCCTAACCCGACCCCAAATCCC
1 TTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCGACACCAAATCCA
*
58099705 TAACCCCTAAACATTAT
66 TAAACCCTAAACATTAT
* * * ** ** *
58099722 TTAATATATAAATTAAAACACACTAATTAATCTAAATCCTAAACCCTAACTTGACACTGAATCTA
1 TTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCGACACCAAATCCA
58099787 TAAACCCTAAA
66 TAAACCCTAAA
58099798 TCCTCAACTC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (82 bp):
TTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCGACACCAAATCCA
TAAACCCTAAACATTAT
Found at i:58099860 original size:14 final size:14
Alignment explanation
Indices: 58099841--58099870 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58099831 AACCCGTAAA
58099841 CCTTAAATCACAAT
1 CCTTAAATCACAAT
*
58099855 CCTTAAATCAGAAT
1 CCTTAAATCACAAT
58099869 CC
1 CC
58099871 CTGATCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.30, G:0.03, T:0.27
Consensus pattern (14 bp):
CCTTAAATCACAAT
Found at i:58099987 original size:21 final size:22
Alignment explanation
Indices: 58099950--58099990 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
58099940 CTAAATTAAC
*
58099950 TATATATATATACCCTAAACCA
1 TATATATATAAACCCTAAACCA
58099972 TATATAT-TAAACCCTAAAC
1 TATATATATAAACCCTAAAC
58099991 TATAATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (22 bp):
TATATATATAAACCCTAAACCA
Found at i:58100410 original size:41 final size:41
Alignment explanation
Indices: 58100236--58100433 Score: 276
Period size: 41 Copynumber: 4.9 Consensus size: 41
58100226 AAATGTTTTT
* ** *
58100236 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAACATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* ** *
58100277 GTGGCG-TTTCTTGGAAAACGCCGCTAAAGATCTGAGCACTA
1 GCGGCGCTTT-TTTAAAAACGCCGCTAAAGATCTGAGCATTA
58100318 GCGGCGC-TTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
58100358 GCGGCGCTTTTTTAAAAACGCC-CTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
*
58100398 GCGGCGCTTTTTTTAAAAACGCCACTAAAGATCTGA
1 GCGGCGC-TTTTTTAAAAACGCCGCTAAAGATCTGA
58100434 AAGGTACAAA
Statistics
Matches: 141, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
40 63 0.45
41 66 0.47
42 12 0.09
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:58100514 original size:40 final size:41
Alignment explanation
Indices: 58100464--58100600 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 41
58100454 TCGGCTTAGG
* *
58100464 TTTTTTGCGGCGTTTTTCCAAAAAATGCCGCTAATGCT-AA
1 TTTTTAGCGGCGTTTTTCCAAAAAACGCCGCTAATGCTCAA
* * * * *
58100504 TTTTTAGCGGCG-CTTTCCTAGAAACGCCGTTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCCAAAAAACGCCGCTAATGCTCAA
* * ** * * *
58100544 TCTTTAGCGGCG-TTTTACGTAAAGCGCTGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCCAAAAAACGCCGCTAATGCTCAA
*
58100584 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
58100601 TGTCCAACCG
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
39 20 0.26
40 53 0.69
41 4 0.05
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTTCCAAAAAACGCCGCTAATGCTCAA
Found at i:58105248 original size:32 final size:32
Alignment explanation
Indices: 58105211--58105287 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
58105201 ATGCATGTGT
* * **
58105211 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
58105243 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
58105275 GTAACTTTTCATA
1 GTAACTTTTCATA
58105288 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:58109747 original size:32 final size:32
Alignment explanation
Indices: 58109710--58109786 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
58109700 ATGCATGTGT
* * **
58109710 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
58109742 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
58109774 GTAACTTTTCATA
1 GTAACTTTTCATA
58109787 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:58109829 original size:21 final size:20
Alignment explanation
Indices: 58109783--58109831 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
58109773 CGTAACTTTT
*
58109783 CATAATTTATTTTGTGCAAG
1 CATAATTTATTATGTGCAAG
*
58109803 -ATTAATTTAATTATGTGCCAG
1 CA-TAATTT-ATTATGTGCAAG
58109824 CATAATTT
1 CATAATTT
58109832 GCGATTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 6 0.25
21 16 0.67
22 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
CATAATTTATTATGTGCAAG
Found at i:58122665 original size:14 final size:15
Alignment explanation
Indices: 58122646--58122693 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
58122636 AAAAGCCATT
*
58122646 AGAAAACAAAT-GAA
1 AGAAAAAAAATAGAA
*
58122660 AGAAAAAAAATAAAA
1 AGAAAAAAAATAGAA
*
58122675 ATAAAAAAAATAGAA
1 AGAAAAAAAATAGAA
58122690 AGAA
1 AGAA
58122694 CAGTGCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (15 bp):
AGAAAAAAAATAGAA
Found at i:58123866 original size:44 final size:44
Alignment explanation
Indices: 58123778--58123919 Score: 230
Period size: 44 Copynumber: 3.2 Consensus size: 44
58123768 AAGACTTGTA
* * ***
58123778 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
58123823 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
58123867 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
58123911 TCTTCGATC
1 TCTTCGATC
58123920 GATTCCACTG
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 76 0.83
45 16 0.17
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:58138280 original size:35 final size:35
Alignment explanation
Indices: 58138241--58138307 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
58138231 TATCTCAAAA
58138241 TTTCTGGGTCTAAAACATAAGAAAATTTTCTGGGT
1 TTTCTGGGTCTAAAACATAAGAAAATTTTCTGGGT
58138276 TTTCTGGGTCTAAAACATAAGAAAATTTTCTG
1 TTTCTGGGTCTAAAACATAAGAAAATTTTCTG
58138308 TTTTTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (35 bp):
TTTCTGGGTCTAAAACATAAGAAAATTTTCTGGGT
Found at i:58142701 original size:44 final size:44
Alignment explanation
Indices: 58142638--58142754 Score: 175
Period size: 44 Copynumber: 2.7 Consensus size: 44
58142628 GATGATCCAG
58142638 CACAGATTTGAGAATATGGAAGCAAAAAAGG-AAATGACCAGAAA
1 CACAGATTTGAGAATATGGAAGCAAAAAAGGAAAATGACCA-AAA
**
58142682 CACAGATTTGAGAATATGGAAGCAAAAAAGGAAAATGATGAAAA
1 CACAGATTTGAGAATATGGAAGCAAAAAAGGAAAATGACCAAAA
*
58142726 CACAGGTTTGAGAACT-TGGAAGCAAAAAA
1 CACAGATTTGAGAA-TATGGAAGCAAAAAA
58142755 CACATTGGAT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
44 60 0.88
45 8 0.12
ACGTcount: A:0.51, C:0.10, G:0.23, T:0.15
Consensus pattern (44 bp):
CACAGATTTGAGAATATGGAAGCAAAAAAGGAAAATGACCAAAA
Found at i:58155705 original size:35 final size:35
Alignment explanation
Indices: 58155666--58155732 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
58155656 TATCTCAAAA
58155666 TTTCTGGGTCTAAAACATAAGAAAATTTTCTGGGT
1 TTTCTGGGTCTAAAACATAAGAAAATTTTCTGGGT
58155701 TTTCTGGGTCTAAAACATAAGAAAATTTTCTG
1 TTTCTGGGTCTAAAACATAAGAAAATTTTCTG
58155733 TTTTTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (35 bp):
TTTCTGGGTCTAAAACATAAGAAAATTTTCTGGGT
Found at i:58156248 original size:27 final size:25
Alignment explanation
Indices: 58156197--58156260 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
58156187 TTATAAAAAT
*
58156197 ATTCAAAAAA-AT-AAAAAATTGAA
1 ATTCAAAAAATATAAAAAAATTAAA
58156220 ATTCAAAAAATATAAAAAAATCATAAA
1 ATTCAAAAAATATAAAAAAAT--TAAA
58156247 ATT-AATAAAATATA
1 ATTCAA-AAAATATA
58156261 GCATGAAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 10 0.29
24 2 0.06
25 7 0.20
26 2 0.06
27 14 0.40
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (25 bp):
ATTCAAAAAATATAAAAAAATTAAA
Found at i:58160137 original size:44 final size:44
Alignment explanation
Indices: 58160074--58160191 Score: 193
Period size: 44 Copynumber: 2.7 Consensus size: 44
58160064 ATGATCACAG
58160074 ACACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
1 ACACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
**
58160118 ACACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGATGAGAA
1 ACACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
*
58160162 ACACAGGTTTGAGAACT-TGGAAGCAAAAAA
1 ACACAGATTTGAGAA-TATGGAAGCAAAAAA
58160192 CACATTGGAT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
44 69 0.99
45 1 0.01
ACGTcount: A:0.51, C:0.10, G:0.24, T:0.15
Consensus pattern (44 bp):
ACACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
Found at i:58169553 original size:5 final size:5
Alignment explanation
Indices: 58169537--58169565 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
58169527 TTTAATTAAA
58169537 ATATT A-ATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
58169566 CTTAAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:58182284 original size:49 final size:49
Alignment explanation
Indices: 58182190--58182284 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
58182180 TCTGAGCTTC
* * *
58182190 AATTTTTAAATGATTTTTATTAATTTTAATAATACTTTTATATATTTAT
1 AATTTTTAAATGATTTTTATTAATTTTAATAAGACATTTAAATATTTAT
*
58182239 AATTTTTAAAATTATTTTTATTTAATTTTAA-AAGA-ATTTAAATATT
1 AATTTTT-AAATGATTTTTA-TTAATTTTAATAAGACATTTAAATATT
58182285 AGATTGAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 16 0.40
50 14 0.35
51 10 0.25
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (49 bp):
AATTTTTAAATGATTTTTATTAATTTTAATAAGACATTTAAATATTTAT
Found at i:58184032 original size:16 final size:16
Alignment explanation
Indices: 58184002--58184035 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58183992 CTTTCTCTTA
**
58184002 TTTGTTGATGGAACTT
1 TTTGTTGATCCAACTT
58184018 TTTGTTGATCCAACTT
1 TTTGTTGATCCAACTT
58184034 TT
1 TT
58184036 CTCTGTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTGTTGATCCAACTT
Found at i:58190278 original size:21 final size:21
Alignment explanation
Indices: 58190253--58190308 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
58190243 AATAGTGGTG
*
58190253 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
58190274 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
58190295 GCGGTGAAATTAGA
1 GCGGTGAGATTAGA
58190309 AACAATGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:58191294 original size:25 final size:25
Alignment explanation
Indices: 58191260--58191309 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
58191250 CGGTTGATGT
*
58191260 TAGCCAATGAGCAAAATCTCGAACC
1 TAGCCAATGAGCAAAATCTCAAACC
58191285 TAGCCAATGAGCAAAATCTCAAACC
1 TAGCCAATGAGCAAAATCTCAAACC
58191310 ACATCATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.16
Consensus pattern (25 bp):
TAGCCAATGAGCAAAATCTCAAACC
Found at i:58198992 original size:18 final size:18
Alignment explanation
Indices: 58198969--58199006 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58198959 TTTAAAAAAT
58198969 AAATTTCGAGTTAATTCG
1 AAATTTCGAGTTAATTCG
**
58198987 AAATTTTTAGTTAATTCG
1 AAATTTCGAGTTAATTCG
58199005 AA
1 AA
58199007 TAAGTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (18 bp):
AAATTTCGAGTTAATTCG
Found at i:58199087 original size:18 final size:18
Alignment explanation
Indices: 58199050--58199089 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
58199040 TGAACTTTTG
**
58199050 TAATTTGAATAACTTGAA
1 TAATTTGAATAACTCAAA
58199068 TAATTTGAATAACTCAAA
1 TAATTTGAATAACTCAAA
58199086 TAAT
1 TAAT
58199090 GGACGGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (18 bp):
TAATTTGAATAACTCAAA
Found at i:58200077 original size:28 final size:28
Alignment explanation
Indices: 58200045--58200102 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
58200035 ACAAATTTAC
*
58200045 TTTTAGAGTTTTATTTCACTCAATCGAA
1 TTTTAGAGTTGTATTTCACTCAATCGAA
58200073 TTTTAGAGTTGTATTTCACTCAATCGAA
1 TTTTAGAGTTGTATTTCACTCAATCGAA
58200101 TT
1 TT
58200103 CTTGATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (28 bp):
TTTTAGAGTTGTATTTCACTCAATCGAA
Found at i:58200252 original size:34 final size:34
Alignment explanation
Indices: 58200214--58200291 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
58200204 CAAATACATG
* *
58200214 TTAAGCATGTTTATTGATACCGTATTAATCTGTT
1 TTAAGCATGTTTATTGATACCATATTAATCCGTT
* * *
58200248 TTAAGCATATTTATTGTTACCATATTGATCCGTT
1 TTAAGCATGTTTATTGATACCATATTAATCCGTT
*
58200282 ATAAGCATGT
1 TTAAGCATGT
58200292 CATATTGTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (34 bp):
TTAAGCATGTTTATTGATACCATATTAATCCGTT
Found at i:58204675 original size:16 final size:17
Alignment explanation
Indices: 58204633--58204679 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
58204623 ATAAAAAATA
*
58204633 AAAAAATAAAAATTTAT
1 AAAAAATAAAAATTAAT
* *
58204650 -ATAAATATAAATATAAT
1 AAAAAATAAAAAT-TAAT
58204667 AAAAAATAAAAAT
1 AAAAAATAAAAAT
58204680 ATCAACATGG
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
16 10 0.43
17 3 0.13
18 10 0.43
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATAAAAATTAAT
Found at i:58209029 original size:21 final size:21
Alignment explanation
Indices: 58209003--58209043 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58208993 AGACGAGCAA
* *
58209003 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
58209024 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
58209044 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:58210981 original size:16 final size:16
Alignment explanation
Indices: 58210948--58210981 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58210938 GGAGATTGTT
* *
58210948 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
58210964 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
58210980 AA
1 AA
58210982 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:58223870 original size:17 final size:18
Alignment explanation
Indices: 58223850--58223900 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
58223840 TTTATTGCAT
*
58223850 TTTATTTTTATTTT-TAG
1 TTTATTTTTATTTTCTAA
*
58223867 TTTAATTTTTGTTTTCTAA
1 TTT-ATTTTTATTTTCTAA
58223886 TTT-TTTTTATTTTCT
1 TTTATTTTTATTTTCT
58223901 TCTGGTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 14 0.48
18 10 0.34
19 5 0.17
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTATTTTTATTTTCTAA
Found at i:58227534 original size:22 final size:25
Alignment explanation
Indices: 58227490--58227536 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
58227480 TCTTCTCTCG
*
58227490 TCCTGTCTCCTCTCCCTCTCCCTTC
1 TCCTGTCTCCTCTCCCTCCCCCTTC
58227515 TCCT-TCTCCT-T-CCTCCCCCTTC
1 TCCTGTCTCCTCTCCCTCCCCCTTC
58227537 CTAACCCTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 1 0.05
24 6 0.29
25 4 0.19
ACGTcount: A:0.00, C:0.57, G:0.02, T:0.40
Consensus pattern (25 bp):
TCCTGTCTCCTCTCCCTCCCCCTTC
Found at i:58229496 original size:30 final size:30
Alignment explanation
Indices: 58229456--58229512 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
58229446 CAGCATTTTT
* *
58229456 CACACGGGCTGGGCACAAGCCCATGTGAGA
1 CACACAGGCTGGCCACAAGCCCATGTGAGA
*
58229486 CACACAGGCTGGCCACACGCCCATGTG
1 CACACAGGCTGGCCACAAGCCCATGTG
58229513 CCAGCCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.35, G:0.30, T:0.11
Consensus pattern (30 bp):
CACACAGGCTGGCCACAAGCCCATGTGAGA
Found at i:58243365 original size:21 final size:21
Alignment explanation
Indices: 58243340--58243385 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
58243330 TCTTCCTATC
*
58243340 TATTATTTCCACATTTTGTGT
1 TATTATTTCCACATTTTATGT
58243361 TATTATTTCCACATTTTATGT
1 TATTATTTCCACATTTTATGT
58243382 TATT
1 TATT
58243386 TTCAGAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.59
Consensus pattern (21 bp):
TATTATTTCCACATTTTATGT
Found at i:58244684 original size:30 final size:29
Alignment explanation
Indices: 58244626--58244689 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
58244616 TGTACAATTG
* *
58244626 AAATTTAGTCTTTAATTTTTAATTTTTAA
1 AAATTTAGTCTTCAATTTTTAATATTTAA
*
58244655 GAATTTAGTCCTTCAATTTTTCAA-ATTTAA
1 AAATTTAGT-CTTCAATTTTT-AATATTTAA
58244685 AAATT
1 AAATT
58244690 CAAATATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 8 0.28
30 19 0.66
31 2 0.07
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.52
Consensus pattern (29 bp):
AAATTTAGTCTTCAATTTTTAATATTTAA
Found at i:58250682 original size:21 final size:21
Alignment explanation
Indices: 58250656--58250696 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58250646 AGATGAGCAA
* *
58250656 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
58250677 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
58250697 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:58255089 original size:3 final size:3
Alignment explanation
Indices: 58255081--58255106 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58255071 TACCGTTACC
58255081 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
58255107 TGAGATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:58260598 original size:13 final size:13
Alignment explanation
Indices: 58260582--58260647 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
58260572 TTTAAACTAA
58260582 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
58260595 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * **
58260608 ACTTTTCCACATT
1 ACTTTTCAAAAGC
*
58260621 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
58260634 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
58260647 A
1 A
58260648 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:58261212 original size:21 final size:22
Alignment explanation
Indices: 58261179--58261219 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58261169 TTTAGTGGCA
**
58261179 CTAAAAAGTGCCGC-AAAAAGC
1 CTAAAAAACGCCGCTAAAAAGC
58261200 CTAAAAAACGCCGCTAAAAA
1 CTAAAAAACGCCGCTAAAAA
58261220 CCTGTTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.51, C:0.24, G:0.15, T:0.10
Consensus pattern (22 bp):
CTAAAAAACGCCGCTAAAAAGC
Found at i:58272534 original size:29 final size:29
Alignment explanation
Indices: 58272492--58272555 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
58272482 TTTAAATTTA
* *
58272492 TTTATTATTTTTATAAATTTTGATAATACT
1 TTTA-TATATTTATAAATTTTGAAAATACT
* * *
58272522 TTTATATATTTATAATTTTTTAAAATATT
1 TTTATATATTTATAAATTTTGAAAATACT
58272551 TTTAT
1 TTTAT
58272556 TTAATTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTATATATTTATAAATTTTGAAAATACT
Found at i:58272549 original size:19 final size:19
Alignment explanation
Indices: 58272478--58272551 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
58272468 AATTTTGAAT
* *
58272478 ATTTTTTAAATTTATTTATT
1 ATTTTTTAAA-ATATTTATA
58272498 A-TTTTTATAAAT-TTTGATA
1 ATTTTTTA-AAATATTT-ATA
* *
58272517 ATACTTTT-ATATATTTATA
1 AT-TTTTTAAAATATTTATA
58272536 ATTTTTTAAAATATTT
1 ATTTTTTAAAATATTT
58272552 TTATTTAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
18 7 0.17
19 25 0.60
20 6 0.14
21 4 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
ATTTTTTAAAATATTTATA
Found at i:58272549 original size:21 final size:22
Alignment explanation
Indices: 58272525--58272569 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
58272515 TAATACTTTT
*
58272525 ATATATTTA-TAATTTTTTAAA
1 ATATATTTATTAATTTTTAAAA
*
58272546 ATATTTTTATTTAATTTTTAAAA
1 ATATATTTA-TTAATTTTTAAAA
58272569 A
1 A
58272570 ATAAGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
23 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATATTTATTAATTTTTAAAA
Found at i:58274016 original size:16 final size:16
Alignment explanation
Indices: 58273986--58274019 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58273976 TTTTCTCTTA
**
58273986 TTTGTTGATGGAACTT
1 TTTGTTGATCCAACTT
58274002 TTTGTTGATCCAACTT
1 TTTGTTGATCCAACTT
58274018 TT
1 TT
58274020 CATTGTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTGTTGATCCAACTT
Found at i:58275588 original size:24 final size:24
Alignment explanation
Indices: 58275556--58275604 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
58275546 AGGTACATTT
58275556 TTGGGAAGTCATTAACTGAAACAA
1 TTGGGAAGTCATTAACTGAAACAA
58275580 TTGGGAAGTCATTAACTGAAACAA
1 TTGGGAAGTCATTAACTGAAACAA
58275604 T
1 T
58275605 GGAATGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (24 bp):
TTGGGAAGTCATTAACTGAAACAA
Done.