Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 40 of 93
Found at i:4834810 original size:31 final size:31
Alignment explanation
Indices: 4834775--4834874 Score: 114
Period size: 31 Copynumber: 3.2 Consensus size: 31
4834765 AAATCAACCA
* *
4834775 AAATGATAGAGATTCAATTGTAAGTCAGATG
1 AAATGATAGAGATTGAATTGCAAGTCAGATG
*
4834806 AAATGATCA-AGATTGAATTGCAAGTCAAATG
1 AAATGAT-AGAGATTGAATTGCAAGTCAGATG
* * *
4834837 AAGTGATTGAGATTGAATCGCAAGTC-GAATG
1 AAATGATAGAGATTGAATTGCAAGTCAG-ATG
4834868 AAATGAT
1 AAATGAT
4834875 CAAAATTGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (31 bp):
AAATGATAGAGATTGAATTGCAAGTCAGATG
Found at i:4834883 original size:31 final size:31
Alignment explanation
Indices: 4834796--4834884 Score: 115
Period size: 31 Copynumber: 2.9 Consensus size: 31
4834786 ATTCAATTGT
* *
4834796 AAGTCAGATGAAATGATCAAGATTGAATTGC
1 AAGTCAAATGAAATGATCAAGATTGAATCGC
* **
4834827 AAGTCAAATGAAGTGATTGAGATTGAATCGC
1 AAGTCAAATGAAATGATCAAGATTGAATCGC
* *
4834858 AAGTCGAATGAAATGATCAAAATTGAA
1 AAGTCAAATGAAATGATCAAGATTGAA
4834885 CCATAAGTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (31 bp):
AAGTCAAATGAAATGATCAAGATTGAATCGC
Found at i:4835880 original size:10 final size:10
Alignment explanation
Indices: 4835867--4835904 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
4835857 CCATTTTCCA
4835867 TCATTTTTAT
1 TCATTTTTAT
4835877 TCATTATTT-T
1 TCATT-TTTAT
4835887 TCATTTTTCAT
1 TCATTTTT-AT
4835898 TCATTTT
1 TCATTTT
4835905 CCCACATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 11 0.44
11 11 0.44
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.68
Consensus pattern (10 bp):
TCATTTTTAT
Found at i:4835958 original size:10 final size:10
Alignment explanation
Indices: 4835945--4835971 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4835935 CTTTTTTTTT
4835945 TTTTTTTACA
1 TTTTTTTACA
4835955 TTTTTTTACA
1 TTTTTTTACA
4835965 TTTTTTT
1 TTTTTTT
4835972 TAGGTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTTACA
Found at i:4835960 original size:21 final size:21
Alignment explanation
Indices: 4835936--4835993 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
4835926 CCTTTCTCTC
4835936 TTTTTT-TTTTTTTTTTACAT
1 TTTTTTATTTTTTTTTTACAT
** **
4835956 TTTTTTACATTTTTTTTAGGT
1 TTTTTTATTTTTTTTTTACAT
*
4835977 TTTTTTGTTTTTTTTTT
1 TTTTTTATTTTTTTTTT
4835994 CCTTTTGTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 6 0.20
21 24 0.80
ACGTcount: A:0.09, C:0.03, G:0.05, T:0.83
Consensus pattern (21 bp):
TTTTTTATTTTTTTTTTACAT
Found at i:4836224 original size:31 final size:31
Alignment explanation
Indices: 4836189--4836330 Score: 115
Period size: 31 Copynumber: 4.5 Consensus size: 31
4836179 TAGACTGGGG
* **
4836189 TTAATTGTCCTTAGTGCCAGCTAATCTTTGC
1 TTAATTCTCCTTAGTGCCAGCTAATCTAGGC
* * * * *
4836220 TTAATTTTTCTTGGTGCCAGCTATTATAGGC
1 TTAATTCTCCTTAGTGCCAGCTAATCTAGGC
* *
4836251 TTAATTCTCCTTAGTGCCAGCTAATCTAAGA
1 TTAATTCTCCTTAGTGCCAGCTAATCTAGGC
* * * * *
4836282 TTAAATCTCCATTGGTGCTAGTTAAACTTA-GC
1 TTAATTCTCC-TTAGTGCCAGCTAATC-TAGGC
*
4836314 TTAATTCTTCTTAGTGC
1 TTAATTCTCCTTAGTGC
4836331 TAGTCAAACT
Statistics
Matches: 86, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
31 63 0.73
32 21 0.24
33 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (31 bp):
TTAATTCTCCTTAGTGCCAGCTAATCTAGGC
Found at i:4836334 original size:31 final size:31
Alignment explanation
Indices: 4836249--4836340 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
4836239 GCTATTATAG
* * *
4836249 GCTTAATTCTCCTTAGTGCCAGCTAATCTAA
1 GCTTAATTCTCCTTAGTGCTAGTTAAACTAA
* * * *
4836280 GATTAAATCTCCATTGGTGCTAGTTAAACTTA
1 GCTTAATTCTCC-TTAGTGCTAGTTAAACTAA
* *
4836312 GCTTAATTCTTCTTAGTGCTAGTCAAACT
1 GCTTAATTCTCCTTAGTGCTAGTTAAACT
4836341 GGACTTAAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
31 25 0.52
32 23 0.48
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (31 bp):
GCTTAATTCTCCTTAGTGCTAGTTAAACTAA
Found at i:4836633 original size:11 final size:10
Alignment explanation
Indices: 4836612--4836672 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
4836602 GGCATTCTCC
4836612 TTTTTCTCTT
1 TTTTTCTCTT
*
4836622 TTTTTCTCCT
1 TTTTTCTCTT
4836632 TTTTT-TC--
1 TTTTTCTCTT
*
4836639 -TATTCTCTT
1 TTTTTCTCTT
*
4836648 TTTTTAT-TT
1 TTTTTCTCTT
4836657 TTTTCTCTCTT
1 TTTT-TCTCTT
4836668 TTTTT
1 TTTTT
4836673 TAGATTCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
6 3 0.08
7 2 0.05
9 8 0.20
10 21 0.52
11 6 0.15
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:4836649 original size:34 final size:36
Alignment explanation
Indices: 4836605--4836672 Score: 104
Period size: 34 Copynumber: 1.9 Consensus size: 36
4836595 TTCCTATGGC
*
4836605 ATTCTCCTTTTTCTCTTTTTTTCTC-CTTTTTTTCT
1 ATTCTCCTTTTTCTATTTTTTTCTCTCTTTTTTTCT
*
4836640 ATTCT-CTTTTTTTATTTTTTTCTCTCTTTTTTT
1 ATTCTCCTTTTTCTATTTTTTTCTCTCTTTTTTT
4836673 TAGATTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (36 bp):
ATTCTCCTTTTTCTATTTTTTTCTCTCTTTTTTTCT
Found at i:4836683 original size:22 final size:21
Alignment explanation
Indices: 4836642--4836688 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
4836632 TTTTTTCTAT
* *
4836642 TCTC-TTTTTTTATTTTTTTC
1 TCTCTTTTTTTTAATTCTTTC
4836662 TCTCTTTTTTTTAGATTCTTTC
1 TCTCTTTTTTTTA-ATTCTTTC
*
4836684 CCTCT
1 TCTCT
4836689 ATCATTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.70
Consensus pattern (21 bp):
TCTCTTTTTTTTAATTCTTTC
Found at i:4838210 original size:20 final size:20
Alignment explanation
Indices: 4838151--4838213 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
4838141 CACATTCACC
*
4838151 TTTCTTTCTTGTCTTTTTTTT
1 TTTCTTTC-TCTCTTTTTTTT
* *
4838172 TTTCTTT-TTTCCTTATTTTT
1 TTTCTTTCTCT-CTTTTTTTT
4838192 TTTCTTTCTCTCTTTTTTTT
1 TTTCTTTCTCTCTTTTTTTT
4838212 TT
1 TT
4838214 ATTATTATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.06
20 25 0.69
21 9 0.25
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTCTTTCTCTCTTTTTTTT
Found at i:4839120 original size:27 final size:27
Alignment explanation
Indices: 4839090--4839141 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
4839080 TGATGTCATA
4839090 ATCTAAATTTCTTTTTATTTCATTTTG
1 ATCTAAATTTCTTTTTATTTCATTTTG
*** *
4839117 ATCTTTTTTTCTTTTTATTTTATTT
1 ATCTAAATTTCTTTTTATTTCATTT
4839142 ATTTATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (27 bp):
ATCTAAATTTCTTTTTATTTCATTTTG
Found at i:4839820 original size:8 final size:9
Alignment explanation
Indices: 4839795--4839819 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4839785 ACAAAAAAAT
4839795 TTTTTTTTA
1 TTTTTTTTA
4839804 TTTTTTTTA
1 TTTTTTTTA
4839813 TTTTTTT
1 TTTTTTT
4839820 AAGGCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:4840569 original size:37 final size:37
Alignment explanation
Indices: 4840519--4840589 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
4840509 CATGAAATGC
*
4840519 AATGCATATACTATCTATTAAGATGTGTATGAGACAA
1 AATGCATATACTATCTATTAAAATGTGTATGAGACAA
* *
4840556 AATGCATGTACTATCTATTAAAATGTTTATGAGA
1 AATGCATATACTATCTATTAAAATGTGTATGAGA
4840590 TAGAATACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (37 bp):
AATGCATATACTATCTATTAAAATGTGTATGAGACAA
Found at i:4840601 original size:37 final size:37
Alignment explanation
Indices: 4840527--4840620 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
4840517 GCAATGCATA
* *
4840527 TACTATCTATTAAGATGTGTATGAGACAAAATGCATG
1 TACTATCTATTAAAATGTGTATGAGACAAAATACATG
* * *
4840564 TACTATCTATTAAAATGTTTATGAGATAGAATACATG
1 TACTATCTATTAAAATGTGTATGAGACAAAATACATG
* * *
4840601 TATTAGTTTATCAAAATGTG
1 TACTA-TCTATTAAAATGTG
4840621 CATGGGATGG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
37 36 0.77
38 11 0.23
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (37 bp):
TACTATCTATTAAAATGTGTATGAGACAAAATACATG
Found at i:4841860 original size:21 final size:20
Alignment explanation
Indices: 4841822--4841860 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4841812 AGAAATTAAG
* *
4841822 ATTAAACACAAATTAGGACA
1 ATTAAACAAAAATAAGGACA
4841842 ATTAAACAAAAAATAAGGA
1 ATTAAAC-AAAAATAAGGA
4841861 TAACATACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (20 bp):
ATTAAACAAAAATAAGGACA
Found at i:4842791 original size:21 final size:21
Alignment explanation
Indices: 4842741--4842793 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4842731 GTGGTTTAGG
*
4842741 ATTTAAGGTTTAAGGTTTCAA
1 ATTTAGGGTTTAAGGTTTCAA
* *
4842762 GTTTAGGGTTTATGGTTTCAA
1 ATTTAGGGTTTAAGGTTTCAA
*
4842783 ATTTGGGGTTT
1 ATTTAGGGTTT
4842794 CATAGGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.04, G:0.26, T:0.47
Consensus pattern (21 bp):
ATTTAGGGTTTAAGGTTTCAA
Found at i:4843343 original size:16 final size:17
Alignment explanation
Indices: 4843317--4843358 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
4843307 GCAGGCCCAA
*
4843317 TTGACTTTTATTTTTAT
1 TTGATTTTTATTTTTAT
*
4843334 TT-ATTTTTATTTTTCT
1 TTGATTTTTATTTTTAT
4843350 TTGATTTTT
1 TTGATTTTT
4843359 TTAGTTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (17 bp):
TTGATTTTTATTTTTAT
Found at i:4843783 original size:24 final size:24
Alignment explanation
Indices: 4843756--4843822 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
4843746 TGGTGCCATG
*
4843756 AGCACCCATGCCTTTGGTTCTATA
1 AGCACCCCTGCCTTTGGTTCTATA
* *
4843780 AGCACCCCTGCCTTTGGTGCTATG
1 AGCACCCCTGCCTTTGGTTCTATA
*
4843804 AGCACCCCTACCTTTGGTT
1 AGCACCCCTGCCTTTGGTT
4843823 TAACTGAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.16, C:0.33, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCACCCCTGCCTTTGGTTCTATA
Found at i:4845400 original size:16 final size:16
Alignment explanation
Indices: 4845379--4845415 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
4845369 AGTATCAATT
4845379 TTTCTTGAAAATAAGC
1 TTTCTTGAAAATAAGC
4845395 TTTCTTGAAAATAAGC
1 TTTCTTGAAAATAAGC
4845411 TTTCT
1 TTTCT
4845416 AAAAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTCTTGAAAATAAGC
Found at i:4845421 original size:16 final size:16
Alignment explanation
Indices: 4845386--4845423 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4845376 ATTTTTCTTG
**
4845386 AAAATAAGCTTTCTTG
1 AAAATAAGCTTTCTAA
4845402 AAAATAAGCTTTCTAA
1 AAAATAAGCTTTCTAA
4845418 AAAATA
1 AAAATA
4845424 TTTTTGAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (16 bp):
AAAATAAGCTTTCTAA
Found at i:4845443 original size:74 final size:76
Alignment explanation
Indices: 4845319--4845472 Score: 267
Period size: 74 Copynumber: 2.1 Consensus size: 76
4845309 AAGTATCAAG
* *
4845319 TTTCTTTGAAAATACGCTTTCTAAAAAATTATTTTTGAGGAAAAGCTGAAAGTATCAATTTTTCT
1 TTTCTTTGAAAATAAGCTTTCTAAAAAATTATTTTTGAGGAAAAGCTGAAAGTATCAATTTTCCT
4845384 TGAAAATAAGC
66 TGAAAATAAGC
*
4845395 TTTC-TTGAAAATAAGCTTTCTAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TTTCTTTGAAAATAAGCTTTCTAAAAAATTATTTTTGAGGAAAAGCTGAAAGTATCAATTTTCCT
4845458 TGAAAATAAGC
66 TGAAAATAAGC
4845469 TTTC
1 TTTC
4845473 CAAAAAAAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
74 49 0.65
75 22 0.29
76 4 0.05
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (76 bp):
TTTCTTTGAAAATAAGCTTTCTAAAAAATTATTTTTGAGGAAAAGCTGAAAGTATCAATTTTCCT
TGAAAATAAGC
Found at i:4845502 original size:60 final size:56
Alignment explanation
Indices: 4845395--4845632 Score: 273
Period size: 58 Copynumber: 4.1 Consensus size: 56
4845385 GAAAATAAGC
*
4845395 TTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATT
1 TTTCTTGAAAATAAG-TTTC-AAAAAAAATTTTTG-GGAAAAAGTTGAAAGTATCAATT
*
4845453 TTCCTTGAAAATAAGCTTTCCAAAAAAAATAGTTTTGGGAAAAAGTTGAAAGTATCAATT
1 TTTCTTGAAAATAAG-TTT-CAAAAAAAAT--TTTTGGGAAAAAGTTGAAAGTATCAATT
* ** *
4845513 TTTCTTAAAAATAAGTTTTCAAAAATGGATTTTTGAGAAAAAGTTGAAAGTATCAATT
1 TTTCTTGAAAATAAG-TTTCAAAAA-AAATTTTTGGGAAAAAGTTGAAAGTATCAATT
* * *
4845571 TTTCTCGAAATTAAAGTTTCAAAGAAACATTTTT-GGAGAAAAGTTGAAAGTATCAATT
1 TTTCTTGAAAAT-AAGTTTCAAA-AAAAATTTTTGGGA-AAAAGTTGAAAGTATCAATT
4845629 TTTC
1 TTTC
4845633 CTGCACAAAA
Statistics
Matches: 158, Mismatches: 14, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
57 2 0.01
58 99 0.63
59 14 0.09
60 43 0.27
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (56 bp):
TTTCTTGAAAATAAGTTTCAAAAAAAATTTTTGGGAAAAAGTTGAAAGTATCAATT
Found at i:4845545 original size:118 final size:116
Alignment explanation
Indices: 4845395--4845632 Score: 315
Period size: 118 Copynumber: 2.0 Consensus size: 116
4845385 GAAAATAAGC
* * *
4845395 TTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 TTTCTTAAAAATAAGCTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCG
4845460 AAAAT-AAGCTTTCCAAA-AAAAATAGTTTTGG-GAAAAAGTTGAAAGTATCAATT
66 AAAATAAAG-TTT-CAAAGAAAAAT--TTTTGGAG-AAAAGTTGAAAGTATCAATT
* *
4845513 TTTCTTAAAAATAAG-TTT-TCAAAAATGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCT
1 TTTCTTAAAAATAAGCTTTCTAAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
* *
4845576 CGAAATTAAAGTTTCAAAGAAACATTTTTGGAGAAAAGTTGAAAGTATCAATT
64 CGAAAATAAAGTTTCAAAGAAAAATTTTTGGAGAAAAGTTGAAAGTATCAATT
4845629 TTTC
1 TTTC
4845633 CTGCACAAAA
Statistics
Matches: 108, Mismatches: 7, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
116 37 0.34
117 8 0.07
118 60 0.56
119 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (116 bp):
TTTCTTAAAAATAAGCTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCG
AAAATAAAGTTTCAAAGAAAAATTTTTGGAGAAAAGTTGAAAGTATCAATT
Found at i:4845572 original size:27 final size:27
Alignment explanation
Indices: 4845541--4845631 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 27
4845531 TCAAAAATGG
4845541 ATTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTTGAGAAAAAGTTGAAAGTATCA
* * *
4845568 ATTTTTCTCGA-AATTAAAGTTTCAAAGAAAC-
1 A-TTTT-T-GAGAA--AAAG-TTGAAAGTATCA
4845599 ATTTTTG-GAGAAAAGTTGAAAGTATCA
1 ATTTTTGAGA-AAAAGTTGAAAGTATCA
4845626 ATTTTT
1 ATTTTT
4845632 CCTGCACAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
26 8 0.16
27 11 0.22
28 6 0.12
29 5 0.10
30 6 0.12
31 5 0.10
32 8 0.16
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTGAGAAAAAGTTGAAAGTATCA
Found at i:4849643 original size:22 final size:20
Alignment explanation
Indices: 4849593--4849677 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 20
4849583 ATAATGGATG
4849593 AAAAATGAG-AAAAAAAGAA
1 AAAAATGAGAAAAAAAAGAA
*
4849612 AAGAAGATGATGAAAAAAAATGCA
1 AA-AA-ATGA-GAAAAAAAA-GAA
*
4849636 AAAAATGA-AGAACAAAAGAA
1 AAAAATGAGA-AAAAAAAGAA
* *
4849656 AGAAA-G-G-AAAAAATGAA
1 AAAAATGAGAAAAAAAAGAA
4849673 AAAAA
1 AAAAA
4849678 AAATTCAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
17 12 0.23
19 3 0.06
20 9 0.17
21 10 0.19
22 5 0.10
23 9 0.17
24 4 0.08
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (20 bp):
AAAAATGAGAAAAAAAAGAA
Found at i:4851519 original size:41 final size:42
Alignment explanation
Indices: 4851444--4851525 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
4851434 TGTCAAAGAG
* *
4851444 CAATTTATTTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAA
1 CAATTTACTTTTTCAAAGTTTCGGTGCCTCTGTTTAGAGGAA
*
4851486 CAATTTACTTTTT-AAAGTTGT-GGTGCCTTTGTTTAGAGGA
1 CAATTTACTTTTTCAAAGTT-TCGGTGCCTCTGTTTAGAGGA
4851526 GAAAGTTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 23 0.64
42 13 0.36
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (42 bp):
CAATTTACTTTTTCAAAGTTTCGGTGCCTCTGTTTAGAGGAA
Found at i:4851531 original size:28 final size:28
Alignment explanation
Indices: 4851499--4851554 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
4851489 TTTACTTTTT
*
4851499 AAAGTTGTGGTGCCTTTGTTTAGAGGAG
1 AAAGTTGTGGTGCCTCTGTTTAGAGGAG
4851527 AAAGTTGTGGTGCCTCTGTTTAGAGGAG
1 AAAGTTGTGGTGCCTCTGTTTAGAGGAG
4851555 CTTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.09, G:0.36, T:0.34
Consensus pattern (28 bp):
AAAGTTGTGGTGCCTCTGTTTAGAGGAG
Found at i:4851629 original size:45 final size:44
Alignment explanation
Indices: 4851538--4851870 Score: 357
Period size: 45 Copynumber: 7.5 Consensus size: 44
4851528 AAGTTGTGGT
* * **
4851538 GCCTCTGTTTAGAGGAGCTTTTATTTATTTTTCCAAAG-TCGTGA
1 GCCTCTGTTTAGAGGAGC-TTTGTTTATTTTTTCAAAGTTATTGA
*
4851582 GCCTCTGCTTAGAGGAGCTTTTGTTTATTTTTTCAAAGTTATTGA
1 GCCTCTGTTTAGAGGAGC-TTTGTTTATTTTTTCAAAGTTATTGA
* * * *
4851627 GCCTTTATTTAGAGGAGCTTTATTTA-TTTTTCAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTCAAAGTTATTGA
* *
4851670 GCCTCTATTTAGAGGAGCTTTGTTTATTTTTTCAAAAGTTGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTC-AAAGTTATTGA
* *
4851715 GCCTCTGGTTAGAGGAGCTTTGTTTA-TTTTTCAAAAGTTGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTC-AAAGTTATTGA
* * * * * *
4851759 GCCTTTGATTAGAGGAGCTCTGTTTATATTTCTCAAAGTCATTAA
1 GCCTCTGTTTAGAGGAGCTTTGTTTAT-TTTTTCAAAGTTATTGA
* * * ** *
4851804 GCCTTTGATTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCGTTAA
1 GCCTCTGTTTAGAGGAGCTTTGTTTAT-TTTTTCAAAGTTATTGA
*
4851849 GCCTCTGCTTAGAGGAGCTTTG
1 GCCTCTGTTTAGAGGAGCTTTG
4851871 ATCAAAATTT
Statistics
Matches: 256, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
43 40 0.16
44 89 0.35
45 122 0.48
46 5 0.02
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (44 bp):
GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTCAAAGTTATTGA
Found at i:4851797 original size:89 final size:87
Alignment explanation
Indices: 4851538--4851870 Score: 409
Period size: 89 Copynumber: 3.7 Consensus size: 87
4851528 AAGTTGTGGT
*
4851538 GCCTCTGTTTAGAGGAGCTTTTATTTATTTTTCCAAAGTCG-TGAGCCTCTGCTTAGAGGAGCTT
1 GCCTCTGTTTAGAGGAGC-TTTATTTATTTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGC-T
4851602 TTGTTTATTTTTTCAAAGTTATTGA
63 TTGTTTATTTTTTCAAAGTTATTGA
* * *
4851627 GCCTTTATTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCT-ATTTAGAGGAGCTTT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCTTT
*
4851691 GTTTATTTTTTCAAAAGTTGTTGA
65 GTTTATTTTTTC-AAAGTTATTGA
* * * * *
4851715 GCCTCTGGTTAGAGGAGCTTTGTTTATTTTTCAAAAGTTGTTGAGCCTTTGATTAGAGGAGCTCT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * *
4851780 GTTTATATTTCTCAAAGTCATTAA
65 GTTTAT-TTTTTCAAAGTTATTGA
* * * * *
4851804 GCCTTTGATTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCGTTAAGCCTCTGCTTAGAGGAGCTT
1 GCCTCTGTTTAGAGGAGCTTTATTTAT-TTT-TCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTT
4851869 TG
64 TG
4851871 ATCAAAATTT
Statistics
Matches: 212, Mismatches: 24, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
87 22 0.10
88 70 0.33
89 81 0.38
90 37 0.17
91 2 0.01
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (87 bp):
GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
TTTATTTTTTCAAAGTTATTGA
Found at i:4852134 original size:16 final size:17
Alignment explanation
Indices: 4852108--4852149 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
4852098 GCAGGCCCAA
* *
4852108 TTGACTTTTATTTTTGT
1 TTGATTTTTATTTTTAT
4852125 TT-ATTTTTATTTTTAT
1 TTGATTTTTATTTTTAT
4852141 TTGATTTTT
1 TTGATTTTT
4852150 TTAGTTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.76
Consensus pattern (17 bp):
TTGATTTTTATTTTTAT
Found at i:4852573 original size:24 final size:24
Alignment explanation
Indices: 4852546--4852613 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
4852536 TGGTGCTATG
* *
4852546 AGCACCCATGCCTTTGGTTCCATA
1 AGCACCCCTACCTTTGGTTCCATA
* * *
4852570 AGCACCCCTACCTTTGGTGCTATG
1 AGCACCCCTACCTTTGGTTCCATA
4852594 AGCACCCCTACCTTTGGTTC
1 AGCACCCCTACCTTTGGTTC
4852614 AACTGGAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.18, C:0.35, G:0.18, T:0.29
Consensus pattern (24 bp):
AGCACCCCTACCTTTGGTTCCATA
Found at i:4852732 original size:24 final size:24
Alignment explanation
Indices: 4852705--4852754 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
4852695 TGGAGCATCA
*
4852705 AGCACACCTGTTTTTAGCACTTCT
1 AGCACACCTATTTTTAGCACTTCT
* **
4852729 AGCACTCCTATTTTTAGTTCTTCT
1 AGCACACCTATTTTTAGCACTTCT
4852753 AG
1 AG
4852755 TTCTGCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (24 bp):
AGCACACCTATTTTTAGCACTTCT
Found at i:4854227 original size:58 final size:58
Alignment explanation
Indices: 4854099--4854347 Score: 322
Period size: 58 Copynumber: 4.3 Consensus size: 58
4854089 TACCTGCATG
* * * *
4854099 AAGTAACAATTTTCTTTGAAAATACGCTTTCTAAAAAAATATTTTTGAGGAAAAGCTGA
1 AAGTATCAATTTTCCTTGAAAATAAGCTTTCT-AAAAAATATTTTTGAGGAAAAGTTGA
* * * *
4854158 AAATATCAATTTTTCTTGAAAATAAGCTTTCTAAAATATATTTTTGAGGGAAAGTTGA
1 AAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGGAAAAGTTGA
* * *
4854216 AAGTATCAATTTTCCTTGAAAATAAGCTTTCCAAAAAAAATATTTTGGGGAAAAGTTGA
1 AAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATAT-TTTTGAGGAAAAGTTGA
* * *
4854275 AAGTATCAATTTTCCTTAAAAATAAG-TTT-TCAAAAATGGATTTTTGAGGAAAAATTGA
1 AAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAT--ATTTTTGAGGAAAAGTTGA
4854333 AAGTATCAATTTTCC
1 AAGTATCAATTTTCC
4854348 CTGCACAAAA
Statistics
Matches: 166, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
57 5 0.03
58 92 0.55
59 69 0.42
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (58 bp):
AAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGGAAAAGTTGA
Found at i:4854311 original size:117 final size:117
Alignment explanation
Indices: 4854099--4854347 Score: 347
Period size: 117 Copynumber: 2.1 Consensus size: 117
4854089 TACCTGCATG
* * * *
4854099 AAGTAACAATTTTCTTTGAAAATACGCTTTCTAAAAAAATATTTTTGAGGAAAAGCTGAAAATAT
1 AAGTATCAATTTTCCTTGAAAATAAGCTTTCAAAAAAAATATTTTTGAGGAAAAGCTGAAAATAT
* * * * * *
4854164 CAATTTTTCTTGAAAATAAGCTTTCTAAAATATATTTTTGAGGGAAAGTTGA
66 CAATTTTCCTTAAAAATAAGCTTTCAAAAATAGATTTTTGAGGAAAAATTGA
* * *
4854216 AAGTATCAATTTTCCTTGAAAATAAGCTTTCCAAAAAAAATA-TTTTGGGGAAAAGTTGAAAGTA
1 AAGTATCAATTTTCCTTGAAAATAAGCTTT-CAAAAAAAATATTTTTGAGGAAAAGCTGAAAATA
* *
4854280 TCAATTTTCCTTAAAAATAAGTTTTCAAAAATGGATTTTTGAGGAAAAATTGA
65 TCAATTTTCCTTAAAAATAAGCTTTCAAAAATAGATTTTTGAGGAAAAATTGA
4854333 AAGTATCAATTTTCC
1 AAGTATCAATTTTCC
4854348 CTGCACAAAA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
117 106 0.91
118 10 0.09
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (117 bp):
AAGTATCAATTTTCCTTGAAAATAAGCTTTCAAAAAAAATATTTTTGAGGAAAAGCTGAAAATAT
CAATTTTCCTTAAAAATAAGCTTTCAAAAATAGATTTTTGAGGAAAAATTGA
Found at i:4856529 original size:29 final size:29
Alignment explanation
Indices: 4856494--4856578 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
4856484 TTGGATTTTT
4856494 GGAATTTAGTCCCTATAATATTATTTAAA
1 GGAATTTAGTCCCTATAATATTATTTAAA
* * * * *
4856523 GGAATTTAGTACTTTTGATATTATTTTTAA
1 GGAATTTAGTCCCTATAATATTA-TTTAAA
* *
4856553 GAAATTTAATCCCTATAATATTATTT
1 GGAATTTAGTCCCTATAATATTATTT
4856579 TTTAAAGAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 22 0.50
30 22 0.50
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.47
Consensus pattern (29 bp):
GGAATTTAGTCCCTATAATATTATTTAAA
Found at i:4856574 original size:30 final size:30
Alignment explanation
Indices: 4856496--4856599 Score: 104
Period size: 30 Copynumber: 3.5 Consensus size: 30
4856486 GGATTTTTGG
* *
4856496 AATTTAGTCCCTATAATATTA-TTTAAAGG
1 AATTTAGTCCCTATAATATTATTTTTAAGA
* * * *
4856525 AATTTAGTACTTTTGATATTATTTTTAAGA
1 AATTTAGTCCCTATAATATTATTTTTAAGA
*
4856555 AATTTAATCCCTATAATATTATTTTTTAA-A
1 AATTTAGTCCCTATAATATTA-TTTTTAAGA
*
4856585 GAATTTAGTTCCTAT
1 -AATTTAGTCCCTAT
4856600 GCATTGTTAA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
29 17 0.29
30 23 0.39
31 19 0.32
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.48
Consensus pattern (30 bp):
AATTTAGTCCCTATAATATTATTTTTAAGA
Found at i:4856599 original size:31 final size:30
Alignment explanation
Indices: 4856495--4856599 Score: 108
Period size: 31 Copynumber: 3.5 Consensus size: 30
4856485 TGGATTTTTG
4856495 GAATTTAGTCCCTATAATATTA--TTTAAA
1 GAATTTAGTCCCTATAATATTATTTTTAAA
* * * *
4856523 GGAATTTAGTACTTTTGATATTATTTTT-AA
1 -GAATTTAGTCCCTATAATATTATTTTTAAA
*
4856553 GAAATTTAATCCCTATAATATTATTTTTTAAA
1 G-AATTTAGTCCCTATAATATTA-TTTTTAAA
*
4856585 GAATTTAGTTCCTAT
1 GAATTTAGTCCCTAT
4856600 GCATTGTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
29 19 0.32
30 18 0.30
31 20 0.33
32 3 0.05
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (30 bp):
GAATTTAGTCCCTATAATATTATTTTTAAA
Found at i:4856692 original size:29 final size:29
Alignment explanation
Indices: 4856617--4856708 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
4856607 TAACAATTAA
* * * *
4856617 ACTAAAATCCTTAAAAAAAATACTATAAGG
1 ACTAAATTCC-TAAAAATAATAGTAAAAGG
* * **
4856647 ATTAAATTCTTTTAAATAATAGTAAAAGG
1 ACTAAATTCCTAAAAATAATAGTAAAAGG
*
4856676 ACTAAATTCCTAAAAATCAAATAGTAAATGG
1 ACTAAATTCCTAAAAAT--AATAGTAAAAGG
4856707 AC
1 AC
4856709 CTATGGCACA
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
29 27 0.57
30 7 0.15
31 13 0.28
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (29 bp):
ACTAAATTCCTAAAAATAATAGTAAAAGG
Found at i:4861500 original size:19 final size:20
Alignment explanation
Indices: 4861478--4861524 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4861468 TATTACGTTT
4861478 AAGAAACAAAAA-GAA-AAAA
1 AAGAAA-AAAAATGAATAAAA
*
4861497 AAGAAAAAAAATGAATGAAA
1 AAGAAAAAAAATGAATAAAA
4861517 AAGAAAAA
1 AAGAAAAA
4861525 GAAAAACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 9 0.36
20 11 0.44
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (20 bp):
AAGAAAAAAAATGAATAAAA
Found at i:4861503 original size:8 final size:9
Alignment explanation
Indices: 4861478--4861524 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
4861468 TATTACGTTT
4861478 AAGAAACAAA
1 AAGAAA-AAA
4861488 AAGAAAAAA
1 AAGAAAAAA
4861497 AAGAAAAAA
1 AAGAAAAAA
*
4861506 AATGAATGAAA
1 AA-GAA-AAAA
4861517 AAGAAAAA
1 AAGAAAAA
4861525 GAAAAACTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 16 0.48
10 12 0.36
11 5 0.15
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:4863746 original size:22 final size:21
Alignment explanation
Indices: 4863718--4863771 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
4863708 ACGAAGCTGC
* *
4863718 TTTATTTTGTTTATTTTTTTGT
1 TTTATTTT-TTTAGTTTTATGT
4863740 TTTATTTATTTTAGTTTTATGT
1 TTTATTT-TTTTAGTTTTATGT
4863762 TATTATTTTT
1 T-TTATTTTT
4863772 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTATTTTTTTAGTTTTATGT
Found at i:4866774 original size:4 final size:4
Alignment explanation
Indices: 4866767--4866801 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
4866757 CTATATATTT
* *
4866767 ATCA ATCA ATCA ATCA ATCA ATTA ATTA ATCA ATC
1 ATCA ATCA ATCA ATCA ATCA ATCA ATCA ATCA ATC
4866802 TATTTATCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (4 bp):
ATCA
Found at i:4868407 original size:15 final size:16
Alignment explanation
Indices: 4868377--4868409 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4868367 ATATTTTTTA
*
4868377 AATTTTAATTAATAAT
1 AATTTTAATAAATAAT
4868393 AATTTT-ATAAATAAT
1 AATTTTAATAAATAAT
4868408 AA
1 AA
4868410 AGATCAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTTAATAAATAAT
Found at i:4869065 original size:16 final size:17
Alignment explanation
Indices: 4869025--4869057 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4869015 ATTTTGATAT
*
4869025 TATTTTAATATGATTTG
1 TATTTAAATATGATTTG
4869042 TATTTAAATA-GATTTG
1 TATTTAAATATGATTTG
4869058 ATTATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
TATTTAAATATGATTTG
Found at i:4869467 original size:19 final size:20
Alignment explanation
Indices: 4869443--4869481 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4869433 ATTGACCAAT
4869443 AACAATAC-ATTTTAAGAAA
1 AACAATACTATTTTAAGAAA
4869462 AACAATACTATTTTAAGAAA
1 AACAATACTATTTTAAGAAA
4869482 TGATTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.28
Consensus pattern (20 bp):
AACAATACTATTTTAAGAAA
Found at i:4877063 original size:2 final size:2
Alignment explanation
Indices: 4877056--4877085 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4877046 CTAATTACTT
4877056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4877086 CTGCAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4878276 original size:42 final size:42
Alignment explanation
Indices: 4878217--4878303 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
4878207 TAGCCACCGT
4878217 CAATTGCCATCATAGCAACCAAGATGCAAAGTATGTACATGG
1 CAATTGCCATCATAGCAACCAAGATGCAAAGTATGTACATGG
4878259 CAATTGCCATCATAGCAACCAAGATGCAAAGTATGTACATGG
1 CAATTGCCATCATAGCAACCAAGATGCAAAGTATGTACATGG
4878301 CAA
1 CAA
4878304 AAAAAATCCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (42 bp):
CAATTGCCATCATAGCAACCAAGATGCAAAGTATGTACATGG
Found at i:4883746 original size:12 final size:11
Alignment explanation
Indices: 4883691--4883747 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 11
4883681 ATGCCATTGC
*
4883691 CCTTGCCTTTG
1 CCTTGCCCTTG
4883702 CCCTTGCCCTTG
1 -CCTTGCCCTTG
4883714 CCTTTGCCCTTG
1 CC-TTGCCCTTG
4883726 CCCTTGCCCTTG
1 -CCTTGCCCTTG
4883738 CCTTAGCCCT
1 CCTT-GCCCT
4883748 AGCCATTGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
11 6 0.15
12 33 0.80
13 2 0.05
ACGTcount: A:0.02, C:0.46, G:0.16, T:0.37
Consensus pattern (11 bp):
CCTTGCCCTTG
Found at i:4883747 original size:18 final size:18
Alignment explanation
Indices: 4883682--4883739 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
4883672 TGCTCCGGCA
*
4883682 TGCCATTGCCCTTGCCTT
1 TGCCCTTGCCCTTGCCTT
4883700 TGCCCTTGCCCTTGCCTT
1 TGCCCTTGCCCTTGCCTT
*
4883718 TGCCCTTGCCCTTGCCCT
1 TGCCCTTGCCCTTGCCTT
4883736 TGCC
1 TGCC
4883740 TTAGCCCTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.02, C:0.45, G:0.17, T:0.36
Consensus pattern (18 bp):
TGCCCTTGCCCTTGCCTT
Found at i:4883751 original size:6 final size:6
Alignment explanation
Indices: 4883682--4883739 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
4883672 TGCTCCGGCA
* * *
4883682 TGCCAT TGCCCT TGCCTT TGCCCT TGCCCT TGCCTT TGCCCT TGCCCT
1 TGCCCT TGCCCT TGCCCT TGCCCT TGCCCT TGCCCT TGCCCT TGCCCT
4883730 TGCCCT TGCC
1 TGCCCT TGCC
4883740 TTAGCCCTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.02, C:0.45, G:0.17, T:0.36
Consensus pattern (6 bp):
TGCCCT
Found at i:4885893 original size:23 final size:24
Alignment explanation
Indices: 4885866--4885913 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
4885856 AAATAAACAC
*
4885866 ATAACATAAGAAATA-TTTGGAAT
1 ATAACACAAGAAATAGTTTGGAAT
*
4885889 ATAACACATGAAATAGTTTGGAAT
1 ATAACACAAGAAATAGTTTGGAAT
4885913 A
1 A
4885914 GGAGAAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (24 bp):
ATAACACAAGAAATAGTTTGGAAT
Found at i:4894478 original size:16 final size:18
Alignment explanation
Indices: 4894446--4894478 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4894436 AATCGCTAAA
4894446 TAAAATGGAATAATCATG
1 TAAAATGGAATAATCATG
4894464 TAAAA-GGAA-AATCAT
1 TAAAATGGAATAATCAT
4894479 AGCAAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.24
Consensus pattern (18 bp):
TAAAATGGAATAATCATG
Found at i:4900770 original size:4 final size:4
Alignment explanation
Indices: 4900755--4900819 Score: 85
Period size: 4 Copynumber: 16.2 Consensus size: 4
4900745 ACTTATATGT
* * * * *
4900755 TCTA TTTA TCTA TCTA TCTA TCAA TTTA TCCA TCTA TCTA TCTA TTTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
4900803 TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA T
4900820 AACAATATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (4 bp):
TCTA
Found at i:4900817 original size:20 final size:20
Alignment explanation
Indices: 4900755--4900819 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
4900745 ACTTATATGT
4900755 TCTATTTATCTATCTATCTA
1 TCTATTTATCTATCTATCTA
* *
4900775 TCAATTTATCCATCTATCTA
1 TCTATTTATCTATCTATCTA
4900795 TCTATTTATCTATCTATCTA
1 TCTATTTATCTATCTATCTA
4900815 TCTAT
1 TCTAT
4900820 AACAATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (20 bp):
TCTATTTATCTATCTATCTA
Found at i:4907749 original size:16 final size:16
Alignment explanation
Indices: 4907725--4907755 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4907715 TCTATATATA
*
4907725 TTCATAAAAATTTAAT
1 TTCAGAAAAATTTAAT
4907741 TTCAGAAAAATTTAA
1 TTCAGAAAAATTTAA
4907756 AGTCAATCTA
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:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
TTCAGAAAAATTTAAT
Found at i:4910475 original size:25 final size:24
Alignment explanation
Indices: 4910441--4910488 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
4910431 TTACTTTAAT
*
4910441 TTTTTTTTTTTGTTATGTTTTGATG
1 TTTTTTTTTTAGTT-TGTTTTGATG
4910466 TTTTTTTTTTAGTTTGTTTTGAT
1 TTTTTTTTTTAGTTTGTTTTGAT
4910489 AAGGATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (24 bp):
TTTTTTTTTTAGTTTGTTTTGATG
Found at i:4914906 original size:99 final size:99
Alignment explanation
Indices: 4914786--4914987 Score: 386
Period size: 99 Copynumber: 2.0 Consensus size: 99
4914776 TATAAATGGC
4914786 AACTTTTTCACACATATCAATCATAGAAACTAAGTTTAATCATTCAAACAAATTTGATATCATGT
1 AACTTTTTCACACATATCAATCATAGAAACTAAGTTTAATCATTCAAACAAATTTGATATCATGT
*
4914851 ATTAAAGCTATCTAAATTGTGAAAATAGAAATAT
66 ATTAAAGCTATCTAAACTGTGAAAATAGAAATAT
*
4914885 AACTTTTTCACACATATCAATCATAGAAACTAAGTTTAATCATTCAAACAAGTTTGATATCATGT
1 AACTTTTTCACACATATCAATCATAGAAACTAAGTTTAATCATTCAAACAAATTTGATATCATGT
4914950 ATTAAAGCTATCTAAACTGTGAAAATAGAAATAT
66 ATTAAAGCTATCTAAACTGTGAAAATAGAAATAT
4914984 AACT
1 AACT
4914988 GCAAAATTAT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (99 bp):
AACTTTTTCACACATATCAATCATAGAAACTAAGTTTAATCATTCAAACAAATTTGATATCATGT
ATTAAAGCTATCTAAACTGTGAAAATAGAAATAT
Found at i:4915532 original size:321 final size:319
Alignment explanation
Indices: 4914941--4915812 Score: 715
Period size: 321 Copynumber: 2.7 Consensus size: 319
4914931 AACAAGTTTG
* * *
4914941 ATATCATGTATTAAAGCTATCTAAACTGTGAAAATAGAAATATAACTGCAAAATTATATTTTTCC
1 ATATCATGTATTAAAGCTATCTAAACTGTGAAAACAGAAATATAACTGCAAAATTATAATTCTCC
* * * *
4915006 CCTTTATTGGCACAAAAAGTCATAAACAGACATAAATAGCAATTTTTTCACACATAGCAACTGTG
66 CCTTTAATGGCACAAAAAGTCATAAACAAACATAAATAGCAACTTTTTCAAACATAGCAACTGTG
** *
4915071 GGACAAGTTCAATCATTCAGACAAGTTTAATATCATACATTAAAGCTATTTAAACTGTTAAAACA
131 AAACAAGTTCAATCATTCAGACAAGTTTAATATCATACATTAAAGCTATCTAAACTGTTAAAACA
* ** *
4915136 GAACAATAATTACAATTTTACATTTTTGCCTTTTATTGACACAAAAAATCCTAAACAAATAGAAA
196 GAACAATAACTACAAACTTACAATTTTGCCTTTTA-T-ACACAAAAAATCCTAAACAAATAGAAA
*
4915201 ACGCAATTTTTTCAAAAATACCAAAAGTGGAAACTAGGTTAAACTATTCAAAAAAATATTA
259 ACACAATTTTTTCAAAAATACCAAAAGTGGAAACTAGGTTAAACTATTCAAAAAAATATTA
* * * * *
4915262 ATATCATGTATTTAGGCTATCTAAACTGTTAAAACA-AAATGGTAA-TGACATAATTATAATTCT
1 ATATCATGTATTAAAGCTATCTAAACTGTGAAAACAGAAAT-ATAACTG-CAAAATTATAATTCT
** * * * *
4915325 GTCCTTTAATGGCATAAAAAGTCCTAAACAAACATAAATCA-TAACTTTTTCAAACATATCAA-T
64 CCCCTTTAATGGCACAAAAAGTCATAAACAAACATAAAT-AGCAACTTTTTCAAACATAGCAACT
* * * ** * *
4915388 GTAGAAACCAAGTTCAATTATTCGGATAAGTTTAATATCATGTATTGAAGCTATCT-AATTGTTA
128 GT-GAAA-CAAGTTCAATCATTCAGACAAGTTTAATATCATACATTAAAGCTATCTAAACTGTTA
* * * * *
4915452 AAATAGAACAATAACTGCAAACTTGCAATTTTGCCTTTTA-ACAGCAAAAAATTTCTTAAACACA
191 AAACAGAACAATAACTACAAACTTACAATTTTGCCTTTTATACA-CAAAAAA--TCCTAAACAAA
* * * *** * ** * * * *** * *
4915516 TATAAACCATAATTTTTTCATGCATATCAACCGTGAAAACCAAGTT-AA-TAATTGGGACAAGT-
253 TAGAAAACACAATTTTTTCAAAAATACCAAAAGTGGAAACTAGGTTAAACT-ATTCAAAAAAATA
4915578 TTA
317 TTA
* * * * * * * ** * * *
4915581 ATATCATATACTGAAGCTATTTAAACTGTTAAAATAGAACA-ATAACTGCAAATTTGCATTTTTT
1 ATATCATGTATTAAAGCTATCTAAACTGTGAAAACAGAA-ATATAACTGCAAAATTATAATTCTC
* * * * * * * *
4915645 TCTTTTAATGGCACAAAAAGTCCTAAATAGACATAAACTA-TAACTTTTTCACACATATCAATCA
65 CCCTTTAATGGCACAAAAAGTCATAAACAAACATAAA-TAGCAACTTTTTCAAACATAGCAA-C-
** * ** * ** * *
4915709 TGAAAAACATGTTCAATCATTTGGACAAGTTTAGTATCATTTATTTAGGCTATCTAAACTGTTAA
127 TGTGAAACAAGTTCAATCATTCAGACAAGTTTAATATCATACATTAAAGCTATCTAAACTGTTAA
* * * *
4915774 AACAAAACAATAACTGCATAA-TTATAATTTTGCCCTTTA
192 AACAGAACAATAACTACA-AACTTACAATTTTGCCTTTTA
4915813 ACGGCACAAA
Statistics
Matches: 443, Mismatches: 90, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
318 3 0.01
319 107 0.24
320 63 0.14
321 224 0.51
322 46 0.10
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (319 bp):
ATATCATGTATTAAAGCTATCTAAACTGTGAAAACAGAAATATAACTGCAAAATTATAATTCTCC
CCTTTAATGGCACAAAAAGTCATAAACAAACATAAATAGCAACTTTTTCAAACATAGCAACTGTG
AAACAAGTTCAATCATTCAGACAAGTTTAATATCATACATTAAAGCTATCTAAACTGTTAAAACA
GAACAATAACTACAAACTTACAATTTTGCCTTTTATACACAAAAAATCCTAAACAAATAGAAAAC
ACAATTTTTTCAAAAATACCAAAAGTGGAAACTAGGTTAAACTATTCAAAAAAATATTA
Found at i:4915695 original size:160 final size:159
Alignment explanation
Indices: 4914882--4915831 Score: 620
Period size: 159 Copynumber: 5.9 Consensus size: 159
4914872 AAAATAGAAA
* * * * * ** *
4914882 TATAACTTTTTCACACATATCAATCAT-AGAAACTAAGTTTAATCATTCAAACAAGTTTGATATC
1 TATAACTTTTTCAAACATATCAA-CGTGA-AAACCAAGTTCAATAATTCGGACAAGTTTAATATC
* * * * ** * * *
4914946 ATGTATTAAAGCTATCTAAACTGTGAAAATAGAA-ATATAACTGCAAAATTATATTTTTCCCCTT
64 ATATATTGAAGCTATCTAAACTGTTAAAATAGAACA-ATAACTGCAAATTTGCAATTTTGCCTTT
* * *
4915010 TATTGGCACAAAAAGTCATAAACAGACATAAA-
128 TAATGGCA-AAAAAGTCCTAAACAAACATAAAC
* * * * ** * *
4915042 TAGCAATTTTTTCACACATAGCAACTGTG-GGA-CAAGTTCAATCATTCAGACAAGTTTAATATC
1 TA-TAACTTTTTCAAACATATCAAC-GTGAAAACCAAGTTCAATAATTCGGACAAGTTTAATATC
* * * * * * * * *
4915105 ATACATTAAAGCTATTTAAACTGTTAAAACAGAACAATAATTACAATTTTACATTTTTGCCTTTT
64 ATATATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTGCAATTTTGCCTTTT
* * * * *
4915170 ATTGACACAAAAAATCCTAAACAAATAGAAAAC
129 AATGGCA-AAAAAGTCCTAAACAAACA-TAAAC
** * * * * * * * * ** * *
4915203 -GCAATTTTTTCAAAAATACCAAAAGTGGAAACTAGGTTAAACT-ATTCAAAAAAATATTAATAT
1 TATAACTTTTTCAAACATATC-AACGTGAAAACCAAGTTCAA-TAATTCGGACAAGT-TTAATAT
* * * * * *** *
4915266 CATGTATTTAGGCTATCTAAACTGTTAAAACAAAATGGTAA-TGACATAATTAT--AATTCTGTC
63 CATATATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTG-CA-AATT-TGCAATTTTG-C
4915328 C-TTTAATGGCATAAAAAGTCCTAAACAAACATAAA-
124 CTTTTAATGGCA-AAAAAGTCCTAAACAAACATAAAC
* * *
4915363 TCATAACTTTTTCAAACATATCAATGT-AGAAACCAAGTTCAATTATTCGGATAAGTTTAATATC
1 T-ATAACTTTTTCAAACATATCAACGTGA-AAACCAAGTTCAATAATTCGGACAAGTTTAATATC
* * *
4915427 ATGTATTGAAGCTATCT-AATTGTTAAAATAGAACAATAACTGCAAACTTGCAATTTTGCCTTTT
64 ATATATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTGCAATTTTGCCTTTT
** * * * *
4915491 AACAGCAAAAAATTTCTTAAACACATATAAAC
129 AATGGCAAAAAA-GTCCTAAACAAACATAAAC
* * ** *
4915523 CATAATTTTTTCATGCATATCAACCGTGAAAACCAAGTT-AATAATTGGGACAAGTTTAATATCA
1 TATAACTTTTTCAAACATATCAA-CGTGAAAACCAAGTTCAATAATTCGGACAAGTTTAATATCA
* * * **
4915587 TATACTGAAGCTATTTAAACTGTTAAAATAGAACAATAACTGCAAATTTGCATTTTTTTCTTTTA
65 TATATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTGCAATTTTGCCTTTTA
* *
4915652 ATGGCACAAAAAGTCCTAAATAGACATAAAC
130 ATGGCA-AAAAAGTCCTAAACAAACATAAAC
* * * * * * *
4915683 TATAACTTTTTCACACATATCAATCATGAAAAACATGTTCAATCATTTGGACAAGTTTAGTATCA
1 TATAACTTTTTCAAACATATCAA-CGTGAAAACCAAGTTCAATAATTCGGACAAGTTTAATATCA
* * * * * *
4915748 TTTATTTAGGCTATCTAAACTGTTAAAACAAAACAATAACTGCATAATTAT--AATTTTGCCCTT
65 TATATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCA-AATT-TGCAATTTTGCCTTT
* *
4915811 TAACGGCACAAAAAGTTCTAA
128 TAATGGCA-AAAAAGTCCTAA
4915832 TACTGCACAC
Statistics
Matches: 621, Mismatches: 137, Indels: 63
0.76 0.17 0.08
Matches are distributed among these distances:
157 1 0.00
158 10 0.02
159 219 0.35
160 141 0.23
161 152 0.24
162 91 0.15
163 6 0.01
164 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (159 bp):
TATAACTTTTTCAAACATATCAACGTGAAAACCAAGTTCAATAATTCGGACAAGTTTAATATCAT
ATATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTGCAATTTTGCCTTTTAA
TGGCAAAAAAGTCCTAAACAAACATAAAC
Found at i:4919462 original size:37 final size:37
Alignment explanation
Indices: 4919412--4919485 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
4919402 GATAATGTAT
*
4919412 CATATACTAAATTTTTTACCATTATGTAACCACTTTG
1 CATATACTAAATTTTCTACCATTATGTAACCACTTTG
*
4919449 CATATACTAAATTTTCTACCATTATGTAACCATTTTG
1 CATATACTAAATTTTCTACCATTATGTAACCACTTTG
4919486 AACATATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (37 bp):
CATATACTAAATTTTCTACCATTATGTAACCACTTTG
Found at i:4923544 original size:29 final size:30
Alignment explanation
Indices: 4923491--4923560 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
4923481 ATGCCCCAAA
* *
4923491 GTCAACTATAGTCAAATCTGTTCAA-ACTTT
1 GTCAAC-ATAGTCAAATCTGGTCAATACTTG
4923521 GTCAACATAGTCAAAAT-TGGTCAATACTTG
1 GTCAACATAGTC-AAATCTGGTCAATACTTG
*
4923551 GTCAAAATAG
1 GTCAACATAG
4923561 ATAAAAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.34
30 23 0.66
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (30 bp):
GTCAACATAGTCAAATCTGGTCAATACTTG
Found at i:4925645 original size:7 final size:7
Alignment explanation
Indices: 4925622--4925741 Score: 64
Period size: 7 Copynumber: 18.4 Consensus size: 7
4925612 AATTCCAATA
4925622 AAACCCT
1 AAACCCT
**
4925629 AAACATT
1 AAACCCT
4925636 AAACCCT
1 AAACCCT
*
4925643 AAAACCT
1 AAACCCT
*
4925650 AAACCTT
1 AAACCCT
4925657 AAA-CC-
1 AAACCCT
4925662 AGAA-CCT
1 A-AACCCT
4925669 AAA-CC-
1 AAACCCT
4925674 AAACCCT
1 AAACCCT
4925681 AAAACCC-
1 -AAACCCT
*
4925688 ATA-CC-
1 AAACCCT
4925693 AAACCCT
1 AAACCCT
4925700 AAA-CCT
1 AAACCCT
*
4925706 AACCCCT
1 AAACCCT
* *
4925713 AAATCTT
1 AAACCCT
*
4925720 AAA--TT
1 AAACCCT
4925725 AAACCCT
1 AAACCCT
4925732 AAACCCT
1 AAACCCT
4925739 AAA
1 AAA
4925742 TTCCAAAATC
Statistics
Matches: 88, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
5 13 0.15
6 20 0.23
7 49 0.56
8 6 0.07
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:4925645 original size:32 final size:32
Alignment explanation
Indices: 4925582--4925645 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
4925572 CGATGTCCAT
*
4925582 TTCCATAAAACCCCAAAATTTGAAACTCTAAA
1 TTCCATAAAACCCCAAAATTTGAAACCCTAAA
*
4925614 TTCCAATAAAACCCTAAACA-TT-AAACCCTAAA
1 TTCC-ATAAAACCCCAAA-ATTTGAAACCCTAAA
4925646 ACCTAAACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 13 0.46
33 14 0.50
34 1 0.04
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (32 bp):
TTCCATAAAACCCCAAAATTTGAAACCCTAAA
Found at i:4925652 original size:14 final size:12
Alignment explanation
Indices: 4925622--4925715 Score: 56
Period size: 12 Copynumber: 7.8 Consensus size: 12
4925612 AATTCCAATA
*
4925622 AAACCCTAAACATT
1 AAACCCTAAAC--C
4925636 AAACCCTAAAACC
1 AAACCCT-AAACC
*
4925649 TAAACCTTAAACC
1 -AAACCCTAAACC
4925662 AGAA-CCTAAACC
1 A-AACCCTAAACC
4925674 AAACCCT--A--
1 AAACCCTAAACC
*
4925682 AAACCC-ATACC
1 AAACCCTAAACC
4925693 AAACCCTAAACC
1 AAACCCTAAACC
*
4925705 TAACCCCTAAA
1 -AAACCCTAAA
4925716 TCTTAAATTA
Statistics
Matches: 65, Mismatches: 5, Indels: 21
0.71 0.05 0.23
Matches are distributed among these distances:
8 6 0.09
9 1 0.02
10 1 0.02
11 8 0.12
12 16 0.25
13 16 0.25
14 13 0.20
15 4 0.06
ACGTcount: A:0.49, C:0.36, G:0.01, T:0.14
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:4925683 original size:31 final size:32
Alignment explanation
Indices: 4925635--4925741 Score: 94
Period size: 32 Copynumber: 3.3 Consensus size: 32
4925625 CCCTAAACAT
*
4925635 TAAACCCTAAAACCTAAACCTTAAACCAGAA-CC
1 TAAA-CCTAAACCCTAAACCTTAAACCA-AACCC
* *
4925668 TAAACC-AAACCCTAAAACC-CATACCAAACCC
1 TAAACCTAAACCCT-AAACCTTAAACCAAACCC
* * **
4925699 TAAACCTAACCCCTAAATCTTAAATTAAACCC
1 TAAACCTAAACCCTAAACCTTAAACCAAACCC
4925731 TAAACCCTAAA
1 TAAA-CCTAAA
4925742 TTCCAAAATC
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
30 2 0.03
31 23 0.39
32 25 0.42
33 9 0.15
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.17
Consensus pattern (32 bp):
TAAACCTAAACCCTAAACCTTAAACCAAACCC
Found at i:4925685 original size:13 final size:13
Alignment explanation
Indices: 4925622--4925686 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
4925612 AATTCCAATA
**
4925622 AAACCCTAAACATT
1 AAACCCTAAA-ACC
4925636 AAACCCTAAAACC
1 AAACCCTAAAACC
*
4925649 TAAA-CCTTAAACC
1 -AAACCCTAAAACC
4925662 AGAA-CCT-AAACC
1 A-AACCCTAAAACC
4925674 AAACCCTAAAACC
1 AAACCCTAAAACC
4925687 CATACCAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
11 2 0.05
12 10 0.23
13 19 0.43
14 13 0.30
ACGTcount: A:0.51, C:0.34, G:0.02, T:0.14
Consensus pattern (13 bp):
AAACCCTAAAACC
Found at i:4925686 original size:19 final size:19
Alignment explanation
Indices: 4925636--4925707 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
4925626 CCTAAACATT
4925636 AAACCCTAAAACCTAAACC
1 AAACCCTAAAACCTAAACC
*
4925655 TTAAA-CC-AGAACCTAAACC
1 --AAACCCTAAAACCTAAACC
* *
4925674 AAACCCTAAAACCCATACC
1 AAACCCTAAAACCTAAACC
4925693 AAACCCT-AAACCTAA
1 AAACCCTAAAACCTAA
4925708 CCCCTAAATC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
17 3 0.07
18 8 0.19
19 27 0.63
20 2 0.05
21 3 0.07
ACGTcount: A:0.50, C:0.36, G:0.01, T:0.12
Consensus pattern (19 bp):
AAACCCTAAAACCTAAACC
Found at i:4925741 original size:19 final size:19
Alignment explanation
Indices: 4925693--4925743 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4925683 AACCCATACC
* *
4925693 AAACCCTAAACCTAACCCCT
1 AAACCCTAAA-TTAAACCCT
* *
4925713 AAATCTTAAATTAAACCCT
1 AAACCCTAAATTAAACCCT
4925732 AAACCCTAAATT
1 AAACCCTAAATT
4925744 CCAAAATCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (19 bp):
AAACCCTAAATTAAACCCT
Found at i:4932062 original size:11 final size:11
Alignment explanation
Indices: 4932046--4932076 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
4932036 CGATTTAGGT
4932046 TTAACGATGTG
1 TTAACGATGTG
4932057 TTAACGATGTG
1 TTAACGATGTG
4932068 TTAACGATG
1 TTAACGATG
4932077 ACTATCAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (11 bp):
TTAACGATGTG
Found at i:4944942 original size:16 final size:16
Alignment explanation
Indices: 4944921--4944960 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
4944911 ACATAGTCAT
4944921 TATCCCAAAAATCAAA
1 TATCCCAAAAATCAAA
4944937 TATCCCAAAAATCAAA
1 TATCCCAAAAATCAAA
*
4944953 TATTCCAA
1 TATCCCAA
4944961 GTCTAACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (16 bp):
TATCCCAAAAATCAAA
Found at i:4951112 original size:16 final size:15
Alignment explanation
Indices: 4951086--4951115 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4951076 CACTGGCAGA
4951086 ATTGGAAAAAAATGT
1 ATTGGAAAAAAATGT
4951101 ATTGGTAAAAAAATG
1 ATTGG-AAAAAAATG
4951116 ATAGTGGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (15 bp):
ATTGGAAAAAAATGT
Found at i:4951123 original size:17 final size:16
Alignment explanation
Indices: 4951091--4951124 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4951081 GCAGAATTGG
*
4951091 AAAAAAATGTATTGGT
1 AAAAAAATGTAGTGGT
4951107 AAAAAAATGATAGTGGT
1 AAAAAAATG-TAGTGGT
4951124 A
1 A
4951125 TGGAGTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAAAAATGTAGTGGT
Found at i:4952331 original size:22 final size:23
Alignment explanation
Indices: 4952290--4952339 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
4952280 AAATAACAAA
4952290 AAAATTATTAAATTTCAAAT-AC
1 AAAATTATTAAATTTCAAATAAC
4952312 AAAATTA-TAAATTAAT-AAATAAC
1 AAAATTATTAAATT--TCAAATAAC
4952335 AAAAT
1 AAAAT
4952340 CAAATTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.24
22 11 0.44
23 8 0.32
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATTATTAAATTTCAAATAAC
Found at i:4956871 original size:15 final size:16
Alignment explanation
Indices: 4956847--4956885 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4956837 AAGGACTGTG
*
4956847 TTTTTCTTGTT-TGGT
1 TTTTTTTTGTTGTGGT
*
4956862 TTTTTTTTGTTGTTGT
1 TTTTTTTTGTTGTGGT
4956878 TTTTTTTT
1 TTTTTTTT
4956886 TAGGCTTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (16 bp):
TTTTTTTTGTTGTGGT
Found at i:4958766 original size:37 final size:37
Alignment explanation
Indices: 4958703--4958776 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
4958693 TTTGAACTTG
* ** * *
4958703 TTTGAAAATTACTTCCCCAAATCAGAGGTTTTGAAAC
1 TTTGAAAATGACCCCCCCAAATCAGAGGCTTTAAAAC
4958740 TTTGAAAATGACCCCCCCTAAA-CAGAGGCTTTAAAAC
1 TTTGAAAATGACCCCCCC-AAATCAGAGGCTTTAAAAC
4958777 CCTTAAATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (37 bp):
TTTGAAAATGACCCCCCCAAATCAGAGGCTTTAAAAC
Found at i:4958783 original size:22 final size:22
Alignment explanation
Indices: 4958757--4958820 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
4958747 ATGACCCCCC
* *
4958757 CTAAACAGAGGCTTTAAAACC-
1 CTAAATAGAGGCTTTGAAACCA
4958778 CTTAAATAGAGGCTTTGAAACCA
1 C-TAAATAGAGGCTTTGAAACCA
4958801 CTAAATAGAGGCTTTGAAAC
1 CTAAATAGAGGCTTTGAAAC
4958821 TTAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 1 0.03
22 37 0.95
23 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (22 bp):
CTAAATAGAGGCTTTGAAACCA
Found at i:4958884 original size:37 final size:37
Alignment explanation
Indices: 4958828--4958907 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
4958818 AACTTAAAAA
4958828 AAAAATGGCACTCCCTAAACAAAGGCTTTGAAACTTT
1 AAAAATGGCACTCCCTAAACAAAGGCTTTGAAACTTT
* * * *
4958865 GAAAATGGCTCTCCTTAAACATAGGCTTTGAAACTTT
1 AAAAATGGCACTCCCTAAACAAAGGCTTTGAAACTTT
4958902 AAAAAT
1 AAAAAT
4958908 TAAAAATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (37 bp):
AAAAATGGCACTCCCTAAACAAAGGCTTTGAAACTTT
Found at i:4959624 original size:73 final size:72
Alignment explanation
Indices: 4959546--4959709 Score: 188
Period size: 73 Copynumber: 2.2 Consensus size: 72
4959536 AGTGATGTAG
* *
4959546 ATGCAAATGTCTTTTTTAT-ACTGTAGATGTGAATGCAAATATCTTTATAATGATGCAAATGCAA
1 ATGCAAATGTCTTTTTT-TGA-TGGAGATATGAATGCAAATATCTTTATAATGATGCAAATGCAA
4959610 -GAGATACAA
64 CGA-ATACAA
* * * * *
4959619 ATGCAAATGTCTTTTTGTTGATGGAGATATGAATGCCAATGTCTTTCTCATGATGCACATGCAAC
1 ATGCAAATGTCTTTTT-TTGATGGAGATATGAATGCAAATATCTTTATAATGATGCAAATGCAAC
*
4959684 TAATACAA
65 GAATACAA
* *
4959692 ATGCGAATGCCTTTTTTT
1 ATGCAAATGTCTTTTTTT
4959710 TTTACAGTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
72 2 0.03
73 73 0.94
74 3 0.04
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (72 bp):
ATGCAAATGTCTTTTTTTGATGGAGATATGAATGCAAATATCTTTATAATGATGCAAATGCAACG
AATACAA
Found at i:4960998 original size:124 final size:123
Alignment explanation
Indices: 4960752--4960975 Score: 279
Period size: 124 Copynumber: 1.8 Consensus size: 123
4960742 TTTATTTTTA
* * **
4960752 TTTTTTGTGAAAACATTAGCTTCAATTTTAACAATCAACTTCTTAAATTCTATTTTCCTGAGGCT
1 TTTTTTGTGAAAACATTAACTTCAATTTTAACAATCAACTTCTTAAATTCTATTTTCCTAAAACT
**
4960817 TCATTCACTTTTTGCCTCAAACTTTAATCTCTGAGATATATGCCTTTCTTTTTTTCTT
66 TCATTCACTTTTTGCCTCAAACTTTAATCTCCAAGATATATGCCTTTCTTTTTTTCTT
* * * * * *
4960875 TTTTTTG-GGAAACATTAAACTTCAATTTTAGCACTCTACTTTCTTTAATTCTATTTTTCTAAAA
1 TTTTTTGTGAAAACATT-AACTTCAATTTTAACAATCAAC-TTCTTAAATTCTATTTTCCTAAAA
* * *
4960939 CTTCATTCACTTTTTGCCTTAGACTTTTCATCTCCAA
64 CTTCATTCACTTTTTGCCTCAAAC-TTTAATCTCCAA
4960976 TGTGTATTTC
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
122 8 0.10
123 25 0.30
124 41 0.49
125 9 0.11
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (123 bp):
TTTTTTGTGAAAACATTAACTTCAATTTTAACAATCAACTTCTTAAATTCTATTTTCCTAAAACT
TCATTCACTTTTTGCCTCAAACTTTAATCTCCAAGATATATGCCTTTCTTTTTTTCTT
Found at i:4966433 original size:21 final size:21
Alignment explanation
Indices: 4966404--4966444 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4966394 GATCAGATGG
4966404 GATGCATATACTATCTATTAA
1 GATGCATATACTATCTATTAA
*
4966425 GATGTATATACTATCTATTA
1 GATGCATATACTATCTATTA
4966445 GTATGCTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
GATGCATATACTATCTATTAA
Found at i:4969400 original size:16 final size:16
Alignment explanation
Indices: 4969381--4969411 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4969371 CTTTTTTTTT
4969381 TTCACCTAATCTCTTC
1 TTCACCTAATCTCTTC
*
4969397 TTCATCTAATCTCTT
1 TTCACCTAATCTCTT
4969412 TTTTTTTTCC
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:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (16 bp):
TTCACCTAATCTCTTC
Found at i:4971016 original size:3 final size:3
Alignment explanation
Indices: 4971010--4971041 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4971000 TGCTTAATTG
4971010 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4971042 TATTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4972163 original size:2 final size:2
Alignment explanation
Indices: 4972145--4972198 Score: 74
Period size: 2 Copynumber: 27.0 Consensus size: 2
4972135 AGTATATCAA
* *
4972145 AT AT AA AT AT TT AT AT AT AT AT AT AT -T CAT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
4972187 AT AT AT AT AT AT
1 AT AT AT AT AT AT
4972199 GAGTAGGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
1 1 0.02
2 44 0.96
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4979521 original size:18 final size:18
Alignment explanation
Indices: 4979495--4979787 Score: 126
Period size: 18 Copynumber: 16.1 Consensus size: 18
4979485 TTTATTTATA
*
4979495 AATAATATATTAATAAAT
1 AATATTATATTAATAAAT
*
4979513 AATATTATACATACA-AAA-
1 AATATTATA-TTA-ATAAAT
4979531 AATA-TACTATTAAT--AT
1 AATATTA-TATTAATAAAT
*
4979547 -A-A-TATATTAATATAT
1 AATATTATATTAATAAAT
*
4979562 ACTATTATATTAATAAAT
1 AATATTATATTAATAAAT
*
4979580 CATATATTA-ATAAATAATAT
1 -A-ATATTATATTAATAA-AT
* *
4979600 TATAATATATTAATAAAT
1 AATATTATATTAATAAAT
4979618 AATATTATATTAATAAAT
1 AATATTATATTAATAAAT
* *
4979636 AACAATATTATATGAAAAAAT
1 ---AATATTATATTAATAAAT
*
4979657 AATATTGAT-TTAATTAAT
1 AATATT-ATATTAATAAAT
* * *
4979675 AAATATTATAATAACAATT
1 -AATATTATATTAATAAAT
* *
4979694 AATA-AATAATATACTATTAAT
1 AATATTAT-AT-TA--ATAAAT
* **
4979715 -ATAATATAGGAATAAAT
1 AATATTATATTAATAAAT
* *
4979732 ATTATTA-ATAAATAATAT
1 AATATTATATTAATAA-AT
* *
4979750 ATTAATATATTAATAAAT
1 AATATTATATTAATAAAT
* *
4979768 AATATAAATAATAATAAAT
1 AATAT-TATATTAATAAAT
4979787 A
1 A
4979788 GTTTTATTTT
Statistics
Matches: 206, Mismatches: 40, Indels: 57
0.68 0.13 0.19
Matches are distributed among these distances:
13 7 0.03
14 3 0.01
15 4 0.02
16 1 0.00
17 18 0.09
18 85 0.41
19 55 0.27
20 12 0.06
21 21 0.10
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (18 bp):
AATATTATATTAATAAAT
Found at i:4979559 original size:8 final size:8
Alignment explanation
Indices: 4979546--4979614 Score: 54
Period size: 8 Copynumber: 8.6 Consensus size: 8
4979536 ACTATTAATA
4979546 TAATATAT
1 TAATATAT
4979554 TAATATAT
1 TAATATAT
*
4979562 ACTATTATAT
1 --TAATATAT
*
4979572 TAATA-AA
1 TAATATAT
*
4979579 TCATATAT
1 TAATATAT
*
4979587 TAATA-AA
1 TAATATAT
4979594 TAATAT-T
1 TAATATAT
4979601 ATAATATAT
1 -TAATATAT
4979610 TAATA
1 TAATA
4979615 AATAATATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
7 11 0.23
8 28 0.60
9 1 0.02
10 7 0.15
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (8 bp):
TAATATAT
Found at i:4979659 original size:39 final size:38
Alignment explanation
Indices: 4979582--4979684 Score: 111
Period size: 39 Copynumber: 2.6 Consensus size: 38
4979572 TAATAAATCA
* * *
4979582 TATATTAATAAATAATATTATAATATATTAATAAATAATAT
1 TATATTAATAAATAA-A--ATATTATATGAAAAAATAATAT
4979623 TATATTAATAAATAACAATATTATATGAAAAAATAATAT
1 TATATTAATAAATAA-AATATTATATGAAAAAATAATAT
*
4979662 TGAT-TTAATTAAT-AAATATTATA
1 T-ATATTAATAAATAAAATATTATA
4979685 ATAACAATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
37 9 0.16
38 1 0.02
39 28 0.50
40 2 0.04
41 16 0.29
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (38 bp):
TATATTAATAAATAAAATATTATATGAAAAAATAATAT
Found at i:4979770 original size:15 final size:15
Alignment explanation
Indices: 4979487--4979780 Score: 144
Period size: 15 Copynumber: 19.0 Consensus size: 15
4979477 AGTATAATTT
*
4979487 TATTTATAAATAATA
1 TATTAATAAATAATA
4979502 TATTAATAAATAATA
1 TATTAATAAATAATA
*
4979517 T-TATACATACAAAAAATA
1 TAT-TA-AT--AAATAATA
* *
4979535 TACTATTAATATAATA
1 TATTAATAA-ATAATA
*
4979551 TATTAATATATACTATTA
1 TATTAATA-A-A-TAATA
*
4979569 TATTAATAAATCATA
1 TATTAATAAATAATA
4979584 TATTAATAAAT-A-A
1 TATTAATAAATAATA
*
4979597 TATT-ATAATATATTA
1 TATTAATAA-ATAATA
* *
4979612 -ATAAAT-AATATTA
1 TATTAATAAATAATA
4979625 TATTAATAAATAACAATA
1 TATTAATAAAT---AATA
*
4979643 TTATATGAAAAAATAATA
1 -TAT-T-AATAAATAATA
*
4979661 TTGATTTAATTAATAA-A
1 -T-A-TTAATAAATAATA
*
4979678 TATT-AT-AATAACA
1 TATTAATAAATAATA
4979691 -ATTAATAAATAATA
1 TATTAATAAATAATA
* *
4979705 TACTATTAATATAATA
1 TATTAATAA-ATAATA
**
4979721 TAGGAATAAAT-AT-
1 TATTAATAAATAATA
4979734 TATTAATAAATAATA
1 TATTAATAAATAATA
*
4979749 TATTAATATATTAATA
1 TATTAATA-AATAATA
* *
4979765 AATAATATAAATAATA
1 TATTA-ATAAATAATA
4979781 ATAAATAGTT
Statistics
Matches: 219, Mismatches: 29, Indels: 61
0.71 0.09 0.20
Matches are distributed among these distances:
12 12 0.05
13 27 0.12
14 22 0.10
15 56 0.26
16 42 0.19
17 9 0.04
18 38 0.17
19 5 0.02
20 2 0.01
21 6 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (15 bp):
TATTAATAAATAATA
Found at i:4979782 original size:19 final size:22
Alignment explanation
Indices: 4979531--4979787 Score: 153
Period size: 22 Copynumber: 11.7 Consensus size: 22
4979521 ACATACAAAA
* *
4979531 AATATACTATTAATATAATATATT
1 AATATATTAATAA-ATAATATA-T
* * *
4979555 AATATATACTATTATATTAATAAAT
1 AATATAT--TAATA-AATAATATAT
*
4979580 CATATATTAATAAATAATATTAT
1 AATATATTAATAAATAATA-TAT
4979603 AATATATTAATAAAT-A-ATAT
1 AATATATTAATAAATAATATAT
*
4979623 --TATATTAATAAATAACA-AT
1 AATATATTAATAAATAATATAT
* * *
4979642 ATTATATGAAAAAATAATAT-T
1 AATATATTAATAAATAATATAT
* * *
4979663 GATTTAATTAATAAATATTATAAT
1 AATAT-ATTAATAAATAATAT-AT
*
4979687 AACA-ATTAATAAATAATATACT
1 AATATATTAATAAATAATATA-T
* * **
4979709 ATTA-ATATAATATAGGA-ATA-
1 AATATAT-TAATAAATAATATAT
4979729 AATATTATTAATAAATAATATATT
1 AATA-TATTAATAAATAATATA-T
4979753 AATATATTAATAAATAATATA-
1 AATATATTAATAAATAATATAT
4979774 AATA-A-TAATAAATA
1 AATATATTAATAAATA
4979788 GTTTTATTTT
Statistics
Matches: 184, Mismatches: 30, Indels: 43
0.72 0.12 0.17
Matches are distributed among these distances:
18 13 0.07
19 12 0.07
20 8 0.04
21 30 0.16
22 46 0.25
23 44 0.24
24 12 0.07
25 7 0.04
26 11 0.06
27 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AATATATTAATAAATAATATAT
Found at i:4979787 original size:23 final size:23
Alignment explanation
Indices: 4979545--4979787 Score: 97
Period size: 23 Copynumber: 11.0 Consensus size: 23
4979535 TACTATTAAT
* *
4979545 ATAATATATTAATATATACTATTATA
1 ATAATATAATAATATATA--AATA-A
* * *
4979571 TTAATA-AATCATATATTAATAA
1 ATAATATAATAATATATAAATAA
* *
4979593 ATAATATTATAATATATTAATAA
1 ATAATATAATAATATATAAATAA
4979616 ATAATAT--T-ATAT-T-AATAA
1 ATAATATAATAATATATAAATAA
* *
4979634 AT-A-ACAATATTATATGAAA-AA
1 ATAATATAATAATATAT-AAATAA
* * *
4979655 ATAATAT--TGATTTAATTAATAA
1 ATAATATAATAATAT-ATAAATAA
* * *
4979677 ATATTATAATAACA-ATTAATAA
1 ATAATATAATAATATATAAATAA
* *
4979699 ATAATATACTATTA-ATATAATATA
1 ATAATATAATAATATATA-AATA-A
** *
4979723 GGAATA-AAT-AT-TATTAATAA
1 ATAATATAATAATATATAAATAA
* *
4979743 ATAATATATTAATATATTAATAA
1 ATAATATAATAATATATAAATAA
4979766 ATAATATAAATAATA-ATAAATA
1 ATAATAT-AATAATATATAAATA
4979788 GTTTTATTTT
Statistics
Matches: 163, Mismatches: 34, Indels: 43
0.68 0.14 0.18
Matches are distributed among these distances:
16 1 0.01
17 1 0.01
18 8 0.05
19 4 0.02
20 10 0.06
21 16 0.10
22 44 0.27
23 53 0.33
24 13 0.08
25 8 0.05
26 5 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAATATAATAATATATAAATAA
Found at i:4979830 original size:19 final size:17
Alignment explanation
Indices: 4979803--4979897 Score: 81
Period size: 19 Copynumber: 5.5 Consensus size: 17
4979793 ATTTTAAGTT
*
4979803 TTTTTATATTAACATAATA
1 TTTTAATATTAA-AT-ATA
4979822 TTTTAATATTAAATATA
1 TTTTAATATTAAATATA
* *
4979839 TTATTAA-AATATAATCATT
1 TT-TTAATATTA-AAT-ATA
4979858 TTTTAATATT-AATA-A
1 TTTTAATATTAAATATA
*
4979873 TTTTAATAATAAATA-A
1 TTTTAATATTAAATATA
4979889 TTTTAATAT
1 TTTTAATAT
4979898 ATTTTAATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
15 9 0.14
16 14 0.22
17 11 0.17
18 13 0.20
19 17 0.27
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAATATTAAATATA
Found at i:4979853 original size:33 final size:32
Alignment explanation
Indices: 4979816--4979923 Score: 90
Period size: 26 Copynumber: 3.5 Consensus size: 32
4979806 TTATATTAAC
4979816 ATAAT-ATTTTAATATTAAATATATTATTAA-AAT
1 ATAATAATTTTAATATT-AATA-ATT-TTAATAAT
*
4979849 ATAATCATTTTTTAATATTAATAATTTTAATAAT
1 ATAAT-A-ATTTTAATATTAATAATTTTAATAAT
4979883 A-AATAATTTT-A-A-T-AT-ATTTTAATAAT
1 ATAATAATTTTAATATTAATAATTTTAATAAT
4979909 A-AATAAATTTTAATA
1 ATAAT-AATTTTAATA
4979924 ATTATATTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
26 15 0.23
27 8 0.12
28 2 0.03
29 2 0.03
30 1 0.02
31 4 0.06
32 1 0.02
33 12 0.18
34 7 0.11
35 4 0.06
36 10 0.15
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAATAATTTTAATATTAATAATTTTAATAAT
Found at i:4979862 original size:36 final size:33
Alignment explanation
Indices: 4979816--4979892 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 33
4979806 TTATATTAAC
*
4979816 ATAATATTTTAATATTAAATATATTATTAA-AATATA
1 ATAATTTTTTAATATT-AATA-ATT-TTAATAATA-A
*
4979852 ATCATTTTTTAATATTAATAATTTTAATAATAA
1 ATAATTTTTTAATATTAATAATTTTAATAATAA
4979885 ATAATTTT
1 ATAATTTT
4979893 AATATATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 12 0.32
34 7 0.19
35 4 0.11
36 14 0.38
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (33 bp):
ATAATTTTTTAATATTAATAATTTTAATAATAA
Found at i:4979875 original size:17 final size:17
Alignment explanation
Indices: 4979801--4979876 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 17
4979791 TTATTTTAAG
*
4979801 TTTTTTTATATTAACATAA
1 TTTTTTAATATT-A-ATAA
*
4979820 TATTTTAATATTAA-ATA
1 TTTTTTAATATTAATA-A
* * *
4979837 TATTATTAAAATATAATCA
1 T-TTTTTAATAT-TAATAA
4979856 TTTTTTAATATTAATAA
1 TTTTTTAATATTAATAA
4979873 TTTT
1 TTTT
4979877 AATAATAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
16 1 0.02
17 12 0.27
18 16 0.36
19 15 0.34
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTTAATATTAATAA
Found at i:4979901 original size:26 final size:25
Alignment explanation
Indices: 4979861--4979935 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 25
4979851 AATCATTTTT
*
4979861 TAATATTAATAATTTTAATAATAAA
1 TAATTTTAATAATTTTAATAATAAA
4979886 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAATA-ATTTTAATAATAAA
* *
4979912 TAAATTTTAATAATTATATTAATA
1 T-AATTTTAATAATTTTAATAATA
4979936 TTATTTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.22
26 25 0.56
27 10 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAATTTTAATAATTTTAATAATAAA
Found at i:4980049 original size:13 final size:14
Alignment explanation
Indices: 4980033--4980062 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4980023 TATAAATATA
4980033 TTTT-AAAAATTAT
1 TTTTCAAAAATTAT
4980046 TTTTCAAAAATTAT
1 TTTTCAAAAATTAT
4980060 TTT
1 TTT
4980063 GTACGAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTCAAAAATTAT
Found at i:4985575 original size:26 final size:27
Alignment explanation
Indices: 4985545--4985595 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4985535 TTCAGTTTCA
*
4985545 CATTTTG-TTTCTGCTTACTCTTTCCT
1 CATTTTGTTTTCTCCTTACTCTTTCCT
*
4985571 CATTTTGTTTTCTCCTTTCTCTTTC
1 CATTTTGTTTTCTCCTTACTCTTTC
4985596 TTGACTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.06, C:0.27, G:0.06, T:0.61
Consensus pattern (27 bp):
CATTTTGTTTTCTCCTTACTCTTTCCT
Found at i:4987386 original size:2 final size:2
Alignment explanation
Indices: 4987379--4987407 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4987369 CTGTTCCTTT
4987379 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4987408 TAAGTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4988291 original size:3 final size:3
Alignment explanation
Indices: 4988283--4988419 Score: 158
Period size: 3 Copynumber: 47.3 Consensus size: 3
4988273 TATATATCAG
* * * * *
4988283 TAT TAT TAT TAT TAT TA- TAT TGT TAC TCT TAT T-G TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4988329 TAT TAT TA- TAT TA- TAC TAC TAT TA- TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4988374 TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4988420 TTCTTCTTTC
Statistics
Matches: 114, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
2 9 0.08
3 105 0.92
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4993027 original size:58 final size:55
Alignment explanation
Indices: 4992951--4993119 Score: 200
Period size: 53 Copynumber: 3.1 Consensus size: 55
4992941 TACTTTGCTT
* * *
4992951 AAAAAAAAGTTTAAGTTGAAAACATGAAAGGATGGCTTGAACCAAAAAGAAAAAGAAG
1 AAAAAAAA-TTCAAGTTGAAAACATGAAAGGGTAGCTTGAACCAAAAA-AAAAAG-AG
* *
4993009 AGAAAAAAATTCAAGTTGAAAACCTGAAAGGGTAACTTGAACC-AAAAAAAAAGAG
1 A-AAAAAAATTCAAGTTGAAAACATGAAAGGGTAGCTTGAACCAAAAAAAAAAGAG
* * * *
4993064 AAAAAAAA-TCAAGTTGAAAACTTGGAAGGGCAGCTTGAA-CAAAAAAAAAAGGG
1 AAAAAAAATTCAAGTTGAAAACATGAAAGGGTAGCTTGAACCAAAAAAAAAAGAG
4993117 AAA
1 AAA
4993120 TTCGAGTTGA
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
52 1 0.01
53 41 0.41
54 7 0.07
55 3 0.03
56 6 0.06
57 4 0.04
58 30 0.30
59 7 0.07
ACGTcount: A:0.57, C:0.09, G:0.20, T:0.14
Consensus pattern (55 bp):
AAAAAAAATTCAAGTTGAAAACATGAAAGGGTAGCTTGAACCAAAAAAAAAAGAG
Found at i:4994009 original size:122 final size:121
Alignment explanation
Indices: 4993792--4994022 Score: 349
Period size: 122 Copynumber: 1.9 Consensus size: 121
4993782 ATCATTCATT
* * * **
4993792 CGATTTTAGCTCAGTCTAGATCATTCCTTATGACTTATGGTTTCATTCTGGTCATTTATTTTTTA
1 CGATTTTAGCTCAGTCCAGATCATTCCTTATGACTCATGATTTCATTCTGGTCATTTATTTTCGA
*
4993857 CCTCGACTCGATCTTGGTCACTTCATTTTTTTGACTCGTGGTTTCGTCTCGATCACC
66 CCTCGACTCGATCATGGTCACTTCA-TTTTTTGACTCGTGGTTTCGTCTCGATCACC
4993914 CGATTTT-GACTCAGTCCAGATCATTCCTTATGACTCATGATTTCA-TCTCGGTCATTTATTTTC
1 CGATTTTAG-CTCAGTCCAGATCATTCCTTATGACTCATGATTTCATTCT-GGTCATTTATTTTC
* *
4993977 GACTTCGATTCGATCATGGTCACTTCATTTTTTGACTCGTGGTTTC
64 GACCTCGACTCGATCATGGTCACTTCATTTTTTGACTCGTGGTTTC
4994023 ATCCCAGTCA
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
121 23 0.23
122 76 0.77
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (121 bp):
CGATTTTAGCTCAGTCCAGATCATTCCTTATGACTCATGATTTCATTCTGGTCATTTATTTTCGA
CCTCGACTCGATCATGGTCACTTCATTTTTTGACTCGTGGTTTCGTCTCGATCACC
Found at i:4994024 original size:65 final size:67
Alignment explanation
Indices: 4993944--4994099 Score: 210
Period size: 65 Copynumber: 2.4 Consensus size: 67
4993934 TCATTCCTTA
* * *
4993944 TGACTCATGATTTCATCTCGGTCATTTATTTTCGA-CTTCGATTCGATCATGGTCACTTCA-TTT
1 TGACTCGTGGTTTCATCTCGGTCATTTATTTTCGATC-TCGACTCGATCATGGTCACTTCATTTT
4994007 -TT
65 GTT
* * * *
4994009 TGACTCGTGGTTTCATCCCAGTCATTTATTTTCGATCTCGACTCGATCTTGGTTACTTCATTTTG
1 TGACTCGTGGTTTCATCTCGGTCATTTATTTTCGATCTCGACTCGATCATGGTCACTTCATTTTG
4994074 TT
66 TT
*
4994076 TGACTCGTGGTTTCATCTTGGTCA
1 TGACTCGTGGTTTCATCTCGGTCA
4994100 CCTGATCTTG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 51 0.65
66 4 0.05
67 23 0.29
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.46
Consensus pattern (67 bp):
TGACTCGTGGTTTCATCTCGGTCATTTATTTTCGATCTCGACTCGATCATGGTCACTTCATTTTG
TT
Found at i:4994196 original size:187 final size:187
Alignment explanation
Indices: 4993842--4994212 Score: 428
Period size: 188 Copynumber: 2.0 Consensus size: 187
4993832 TTTCATTCTG
** *
4993842 GTCATTTATTTTTTACCTCGACTCGATCTTGGTCACTTCATTTTTTTGACTCGTGGTTTCGTCTC
1 GTCATTTATTTTCGACCTCGACTCGATCTTGGTCACTTCATTTTTTTGACTCGTGGTTTCATCTC
* * **
4993907 GATCACCCGATTTTGACTCAGTCCAGATCATTCCTTATGACTCATGATTTCATCTCGGTCATTTA
66 GATCACCCGATCTTGACTCAATCCAGATCATTCCTTATGACTCATGATTTCATCTCAATCATTTA
* * * * *
4993972 TTTTCGACTTCGATTCGATCATGGTCACTTCATTTTTTGACTCGTGGTTTCATCCCA
131 TTTTCAACTTCAATTCGATCACGGTCACTTCATTTTTTGACTCATGATTTCATCCCA
* *
4994029 GTCATTTATTTTCGATCTCGACTCGATCTTGGTTACTTCATTTTGTTTGACTCGTGGTTTCATCT
1 GTCATTTATTTTCGACCTCGACTCGATCTTGGTCACTTCATTTT-TTTGACTCGTGGTTTCATCT
* * * * * ** * **
4994094 TGGTCACCTGATCTTGGCTCAATCTAGATCATTTTTTATGACTCGTGATTTTGTCTCAATCATTT
65 CGATCACCCGATCTTGACTCAATCCAGATCATTCCTTATGACTCATGATTTCATCTCAATCATTT
* *
4994159 ATTGTT-AA-TCTCAACTT-GATC-CGAGTC-TTTTATTTTTTGACTCATGATTTCATC
130 ATT-TTCAACT-TCAA-TTCGATCACG-GTCACTTCATTTTTTGACTCATGATTTCATC
4994213 TAGATCATCC
Statistics
Matches: 153, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
187 65 0.42
188 84 0.55
189 4 0.03
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (187 bp):
GTCATTTATTTTCGACCTCGACTCGATCTTGGTCACTTCATTTTTTTGACTCGTGGTTTCATCTC
GATCACCCGATCTTGACTCAATCCAGATCATTCCTTATGACTCATGATTTCATCTCAATCATTTA
TTTTCAACTTCAATTCGATCACGGTCACTTCATTTTTTGACTCATGATTTCATCCCA
Found at i:4994543 original size:3 final size:3
Alignment explanation
Indices: 4994535--4994633 Score: 64
Period size: 3 Copynumber: 33.3 Consensus size: 3
4994525 TATTTATCAG
* *
4994535 TAT TAT TAT TAT TAT TAT TACT T-T TAT TAT TAT TA- AAT TGAT ACACT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT -TA-T
* * * * *
4994582 TAT T-G TAT TAT TAT TAC TAT TAT T-G TAC TAC TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4994627 TAT TAT T
1 TAT TAT T
4994634 TTTCTTTCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
2 7 0.09
3 62 0.82
4 6 0.08
5 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:4994596 original size:31 final size:31
Alignment explanation
Indices: 4994558--4994632 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
4994548 ATTATTACTT
*
4994558 TTATTATTATTA-AATTGATAC-ACTTATTGTA
1 TTATTATTATTATAATTG-TACTAC-TATTATA
* *
4994589 TTATTATTACTATTATTGTACTACTATTATA
1 TTATTATTATTATAATTGTACTACTATTATA
4994620 TTATTATTATTAT
1 TTATTATTATTAT
4994633 TTTTCTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 32 0.84
32 6 0.16
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (31 bp):
TTATTATTATTATAATTGTACTACTATTATA
Found at i:4999188 original size:8 final size:8
Alignment explanation
Indices: 4999175--4999206 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
4999165 ATCGATGGGG
4999175 TTTTTTTA
1 TTTTTTTA
4999183 TTTTTTTA
1 TTTTTTTA
4999191 TTTTTTTTA
1 -TTTTTTTA
4999200 TTTTTTT
1 TTTTTTT
4999207 TTTATGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTTTTA
Found at i:4999189 original size:9 final size:9
Alignment explanation
Indices: 4999175--4999207 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
4999165 ATCGATGGGG
4999175 TTTTTTTA-
1 TTTTTTTAT
4999183 TTTTTTTAT
1 TTTTTTTAT
4999192 TTTTTTTAT
1 TTTTTTTAT
4999201 TTTTTTT
1 TTTTTTT
4999208 TTATGGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:5006541 original size:18 final size:16
Alignment explanation
Indices: 5006510--5006543 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
5006500 TTCCTTTAAA
5006510 TTTTTTTTTGTGCTTT
1 TTTTTTTTTGTGCTTT
5006526 TTTTTTTTGTGTTGCTTT
1 TTTTTTTT-TG-TGCTTT
5006544 GATGATGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.00, C:0.06, G:0.15, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTGTGCTTT
Found at i:5017253 original size:3 final size:3
Alignment explanation
Indices: 5017245--5017273 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5017235 TACGTACACA
5017245 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5017274 AACACACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5023043 original size:31 final size:33
Alignment explanation
Indices: 5023008--5023081 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 33
5022998 TGAAGTGGAT
*
5023008 GATATATTTGAAAATAATATATTT-TGTTA-AG
1 GATATATTTGAAAATAATATATTTATGGTACAG
* * *
5023039 GATATATTTGAGAATGATATATTTATGGTACGG
1 GATATATTTGAAAATAATATATTTATGGTACAG
5023072 GATATATTTG
1 GATATATTTG
5023082 TGGTAAATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 22 0.59
32 4 0.11
33 11 0.30
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.43
Consensus pattern (33 bp):
GATATATTTGAAAATAATATATTTATGGTACAG
Found at i:5023093 original size:18 final size:18
Alignment explanation
Indices: 5023051--5023121 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
5023041 TATATTTGAG
*
5023051 AATGATATATTTATGGTA
1 AATGATACATTTATGGTA
*** * *
5023069 CGGGATATATTTGTGGTA
1 AATGATACATTTATGGTA
*
5023087 AATGATACATTTGA-GGTC
1 AATGATACATTT-ATGGTA
5023105 AATGATACATTTATGGT
1 AATGATACATTTATGGT
5023122 GGGTAATAAC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 1 0.02
18 40 0.98
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (18 bp):
AATGATACATTTATGGTA
Found at i:5027570 original size:81 final size:80
Alignment explanation
Indices: 5027420--5027584 Score: 303
Period size: 81 Copynumber: 2.0 Consensus size: 80
5027410 TTAATAATAA
*
5027420 TATTTTCAAAAGAATTATAAAAATATAATATACCAATAACGTTGGGCCATGGTGCAACATTGCCA
1 TATTTTCAAAAGAATTATAAAAATATAACATACCAATAACGTTGGGCCATGGTGCAACATTGCCA
5027485 GTTTTATAAGCAATG
66 GTTTTATAAGCAATG
*
5027500 TATTTTCAAAAGAATTATAAAAATATAACATACCAAATAACGTTGGGCCATGGTGCAACATTGCT
1 TATTTTCAAAAGAATTATAAAAATATAACATACC-AATAACGTTGGGCCATGGTGCAACATTGCC
5027565 AGTTTTATAAGCAATG
65 AGTTTTATAAGCAATG
5027581 TATT
1 TATT
5027585 CCTTGAAATG
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
80 33 0.40
81 49 0.60
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (80 bp):
TATTTTCAAAAGAATTATAAAAATATAACATACCAATAACGTTGGGCCATGGTGCAACATTGCCA
GTTTTATAAGCAATG
Found at i:5029385 original size:30 final size:30
Alignment explanation
Indices: 5029351--5029408 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
5029341 TTTTTTTAGA
5029351 CTGATTTTGAAAGTTAAAACTAAGAATAGT
1 CTGATTTTGAAAGTTAAAACTAAGAATAGT
5029381 CTGATTTTGAAAGTTAAAACTAAGAATA
1 CTGATTTTGAAAGTTAAAACTAAGAATA
5029409 TGACTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (30 bp):
CTGATTTTGAAAGTTAAAACTAAGAATAGT
Found at i:5030153 original size:16 final size:15
Alignment explanation
Indices: 5030124--5030169 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
5030114 ATTTTACCTG
*
5030124 AAATTATTTAAATTT
1 AAATTATCTAAATTT
*
5030139 AAATTAATCTAAATTA
1 AAATT-ATCTAAATTT
5030155 AAATTATCTAAATTT
1 AAATTATCTAAATTT
5030170 GAGCTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATTATCTAAATTT
Found at i:5030748 original size:17 final size:19
Alignment explanation
Indices: 5030728--5030770 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
5030718 TAAAATTAAG
*
5030728 TTAAAATTTAA-AT-TTTT
1 TTAAAATTCAATATATTTT
5030745 TTAAAAATTCAATATATTTT
1 TT-AAAATTCAATATATTTT
5030765 TTAAAA
1 TTAAAA
5030771 AATTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 8 0.36
19 6 0.27
20 6 0.27
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAATTCAATATATTTT
Found at i:5030899 original size:14 final size:13
Alignment explanation
Indices: 5030878--5030911 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
5030868 TTATTTTTCC
5030878 TTTAAAATATATT
1 TTTAAAATATATT
*
5030891 TTATAAAATATGTT
1 TT-TAAAATATATT
5030905 TTTAAAA
1 TTTAAAA
5030912 AGAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TTTAAAATATATT
Found at i:5031421 original size:19 final size:19
Alignment explanation
Indices: 5031390--5031444 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 19
5031380 TAATATTCTA
*
5031390 AAAATATATATTTTTGATAG
1 AAAATA-ATATTTTTAATAG
5031410 AAAATAATATTTTTAATAG
1 AAAATAATATTTTTAATAG
5031429 AAAATAATATTTTTAA
1 AAAATAATATTTTTAA
5031445 AATTTTATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 28 0.82
20 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
AAAATAATATTTTTAATAG
Found at i:5031646 original size:31 final size:30
Alignment explanation
Indices: 5031611--5031669 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
5031601 AAAATATATA
* * *
5031611 AAATTTTGAAATAGTTTTATCTTTTATCTTT
1 AAATTTTGAAAGAATTTTAT-TTTAATCTTT
5031642 AAATTTTGAAAGAATTTTATTTTAATCT
1 AAATTTTGAAAGAATTTTATTTTAATCT
5031670 CTCATTTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (30 bp):
AAATTTTGAAAGAATTTTATTTTAATCTTT
Found at i:5033277 original size:3 final size:3
Alignment explanation
Indices: 5033269--5033295 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5033259 CTAATCGAAG
5033269 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
5033296 AAATTAAGAA
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:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:5040153 original size:40 final size:42
Alignment explanation
Indices: 5040077--5040158 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 42
5040067 AAATTTATTT
* *
5040077 TTTTTAAAATGATAAAATTCTTCAATAGTTTTATAAGATTTTA
1 TTTTTAAAA-GATAAAATTCTTCAATAATTTAATAAGATTTTA
5040120 TTTTTAAAA-AT-AAATTCTTCAATAATTTAATAAGATTTT
1 TTTTTAAAAGATAAAATTCTTCAATAATTTAATAAGATTTT
5040159 TTAAATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 26 0.70
41 2 0.05
43 9 0.24
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (42 bp):
TTTTTAAAAGATAAAATTCTTCAATAATTTAATAAGATTTTA
Done.