Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 69 of 131
Found at i:23028879 original size:50 final size:50
Alignment explanation
Indices: 23028822--23029029 Score: 202
Period size: 50 Copynumber: 4.2 Consensus size: 50
23028812 GAATCAAACC
* *
23028822 AAGCCTTTATGGAGAATTATAAGAAAAGCCTTTGTGGCTAGTTATCTGTA
1 AAGCCTTTATGGAGAATTATCAGAAAAGCCTTTGTGGCGAGTTATCTGTA
* * * * * *
23028872 AAGCCTTTATGGCA-TATTATCATAAAAGCCTTTATGACTAGTTATTTGTA
1 AAGCCTTTATGG-AGAATTATCAGAAAAGCCTTTGTGGCGAGTTATCTGTA
* * * * *
23028922 AAGCATTTGTGGCGAATTATCATAAAAGCTTTTGTGGCGAGTTATCTGTA
1 AAGCCTTTATGGAGAATTATCAGAAAAGCCTTTGTGGCGAGTTATCTGTA
* * * ** * * *
23028972 AAGCCTTTGTGGCGATTTATTTGTAAAGCCTTTGTGGCGAATTATCTGAA
1 AAGCCTTTATGGAGAATTATCAGAAAAGCCTTTGTGGCGAGTTATCTGTA
*
23029022 AAGTCTTT
1 AAGCCTTT
23029030 GTGGCTTGTT
Statistics
Matches: 131, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
50 130 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.38
Consensus pattern (50 bp):
AAGCCTTTATGGAGAATTATCAGAAAAGCCTTTGTGGCGAGTTATCTGTA
Found at i:23028916 original size:25 final size:25
Alignment explanation
Indices: 23028844--23029035 Score: 129
Period size: 25 Copynumber: 7.7 Consensus size: 25
23028834 AGAATTATAA
*
23028844 GAAAAGCCTTTGTGGCTAGTTATCT
1 GAAAAGCCTTTATGGCTAGTTATCT
*
23028869 GTAAAGCCTTTATGGCATA-TTATCAT
1 GAAAAGCCTTTATGGC-TAGTTATC-T
* *
23028895 -AAAAGCCTTTATGACTAGTTATTT
1 GAAAAGCCTTTATGGCTAGTTATCT
* * * * *
23028919 GTAAAGCATTTGTGGCGAATTATCAT
1 GAAAAGCCTTTATGGCTAGTTATC-T
* * *
23028945 -AAAAGCTTTTGTGGCGAGTTATCT
1 GAAAAGCCTTTATGGCTAGTTATCT
* * * * *
23028969 GTAAAGCCTTTGTGGCGATTTATTT
1 GAAAAGCCTTTATGGCTAGTTATCT
* * * *
23028994 GTAAAGCCTTTGTGGCGAATTATCT
1 GAAAAGCCTTTATGGCTAGTTATCT
* *
23029019 GAAAAGTCTTTGTGGCT
1 GAAAAGCCTTTATGGCT
23029036 TGTTGTATGG
Statistics
Matches: 137, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
24 4 0.03
25 129 0.94
26 4 0.03
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (25 bp):
GAAAAGCCTTTATGGCTAGTTATCT
Found at i:23028950 original size:75 final size:75
Alignment explanation
Indices: 23028846--23029034 Score: 204
Period size: 75 Copynumber: 2.5 Consensus size: 75
23028836 AATTATAAGA
* * * * *
23028846 AAAGCCTTTGTGGCTAGTTATCTGTAAAGCCTTTATGGC-ATATTATCAT-AAAAGCCTTTATGA
1 AAAGCATTTGTGGCGAATTATCTGAAAAGCCTTTGTGGCGA-ATTATC-TGAAAAGCCTTTATGA
*
23028909 CTAGTTATTTGT
64 CGAGTTATTTGT
* * * * *
23028921 AAAGCATTTGTGGCGAATTATCAT-AAAAGCTTTTGTGGCGAGTTATCTGTAAAGCCTTTGTGGC
1 AAAGCATTTGTGGCGAATTATC-TGAAAAGCCTTTGTGGCGAATTATCTGAAAAGCCTTTATGAC
*
23028985 GATTTATTTGT
65 GAGTTATTTGT
* *
23028996 AAAGCCTTTGTGGCGAATTATCTGAAAAGTCTTTGTGGC
1 AAAGCATTTGTGGCGAATTATCTGAAAAGCCTTTGTGGC
23029035 TTGTTGTATG
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
74 2 0.02
75 91 0.96
76 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (75 bp):
AAAGCATTTGTGGCGAATTATCTGAAAAGCCTTTGTGGCGAATTATCTGAAAAGCCTTTATGACG
AGTTATTTGT
Found at i:23031476 original size:27 final size:28
Alignment explanation
Indices: 23031430--23031492 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
23031420 AATACTCTTT
* ** *
23031430 TGGCAAACTCCCTAGTTCGTTGAAGCAC
1 TGGCGAACTCCCTAGTTCGTCAAAACAC
23031458 TGGCGAACT-CCTAGTTCGTCAAAACAC
1 TGGCGAACTCCCTAGTTCGTCAAAACAC
23031485 TGGCGAAC
1 TGGCGAAC
23031493 CCTTACTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (28 bp):
TGGCGAACTCCCTAGTTCGTCAAAACAC
Found at i:23032639 original size:268 final size:268
Alignment explanation
Indices: 23032147--23032685 Score: 844
Period size: 268 Copynumber: 2.0 Consensus size: 268
23032137 GTGTTTATTT
* * * * * * * *
23032147 GTAATGTAGGTTCTTGAGTTGAGCCAGTTCGCCAGAAGGGACCAAGTCAGGAATGCGCAAGGGTG
1 GTAATGCAGCTTCTTGAGTTAAACCAGTTCACCAGAAGGGACCAAGCCAAGAATGCGCAAAGGTG
* *
23032212 GTTGATTATAGTGCGATGTTATGCATAAATAGGGACACTTTGGGGAATATGTTTTCAAATGATGA
66 GTTGATCATAGTGCGATGTTATGCATAAAAAGGGACACTTTGGGGAATATGTTTTCAAATGATGA
* * **
23032277 ATAGTATAATACGCCATGAATATGCCTATCTTATCAAAGATTTAAGTTGTAATGCTTTATACTGC
131 ATAGTATAAGACGCAACAAATATGCCTATCTTATCAAAGATTTAAGTTGTAATGCTTTATACTGC
* * * *
23032342 TTTTAAGAGTCTGTTATAAATGATAAACGTTTCATTAAAATTTTTTGACTTAGAAAACATTTTAA
196 TTTTAAGAGTCTATTATAAATGATAAACGTTTCATTAAAATATTCTGACTCAGAAAACATTTTAA
23032407 ATAAATAA
261 ATAAATAA
*
23032415 GTAATGCAGCTTCTTGAGTTAAACCTGTTCACCAGAAGGGACCAAGCCAAGAATGCGCAAAGGTG
1 GTAATGCAGCTTCTTGAGTTAAACCAGTTCACCAGAAGGGACCAAGCCAAGAATGCGCAAAGGTG
23032480 GTTGATCATAGTGCGATGTTATGCATAAAAAGGGACACTTTGGGGAATATGTTTTCAAATGATGA
66 GTTGATCATAGTGCGATGTTATGCATAAAAAGGGACACTTTGGGGAATATGTTTTCAAATGATGA
* * * *
23032545 ATAGTATAAGACGCAACAAATTTGCCTATTTTATCAAAGATTTAAGTTTTAATGCTTTATATTGC
131 ATAGTATAAGACGCAACAAATATGCCTATCTTATCAAAGATTTAAGTTGTAATGCTTTATACTGC
* * *
23032610 TTTTAAGAGTCTATTATAAATGCTAAACGTTTCATTCAAATATTCTGACTCAGAAAAGATTTTAA
196 TTTTAAGAGTCTATTATAAATGATAAACGTTTCATTAAAATATTCTGACTCAGAAAACATTTTAA
23032675 ATAAATAA
261 ATAAATAA
23032683 GTA
1 GTA
23032686 CATCTTGTAT
Statistics
Matches: 245, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
268 245 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (268 bp):
GTAATGCAGCTTCTTGAGTTAAACCAGTTCACCAGAAGGGACCAAGCCAAGAATGCGCAAAGGTG
GTTGATCATAGTGCGATGTTATGCATAAAAAGGGACACTTTGGGGAATATGTTTTCAAATGATGA
ATAGTATAAGACGCAACAAATATGCCTATCTTATCAAAGATTTAAGTTGTAATGCTTTATACTGC
TTTTAAGAGTCTATTATAAATGATAAACGTTTCATTAAAATATTCTGACTCAGAAAACATTTTAA
ATAAATAA
Found at i:23033276 original size:19 final size:19
Alignment explanation
Indices: 23033253--23033304 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
23033243 AAAAAAATTC
23033253 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
* *
23033272 TAAAATTAAAAATATTTAT
1 AAAAATTCAAAATATTTAT
23033291 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
23033305 TTATATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 16 0.59
20 7 0.26
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:23033355 original size:18 final size:18
Alignment explanation
Indices: 23033316--23033356 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
23033306 TATATTTTAC
*
23033316 AAAAATATAAAAAATTCT
1 AAAAATATAAAAAATTCA
23033334 AAAAATATAAAAAAGTT-A
1 AAAAATATAAAAAA-TTCA
23033352 AAAAA
1 AAAAA
23033357 AGTTACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAATATAAAAAATTCA
Found at i:23034212 original size:11 final size:11
Alignment explanation
Indices: 23034198--23034257 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
23034188 AGATAAATAT
23034198 TATTTTATTAA
1 TATTTTATTAA
*
23034209 TATTTTACTAA
1 TATTTTATTAA
* *
23034220 TATTTAATGAGA
1 TATTTTATTA-A
*
23034232 TATTTTATTAT
1 TATTTTATTAA
*
23034243 TATTTT-TTAT
1 TATTTTATTAA
23034253 TATTT
1 TATTT
23034258 ATTTAGTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
10 9 0.22
11 23 0.56
12 9 0.22
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:23040495 original size:19 final size:20
Alignment explanation
Indices: 23040473--23040512 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
23040463 TATATATATA
*
23040473 TATAATTTTTGAA-TATTTT
1 TATAATTTTTAAAGTATTTT
23040492 TATAATTTTTAAAGTATTTT
1 TATAATTTTTAAAGTATTTT
23040512 T
1 T
23040513 TTGACATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TATAATTTTTAAAGTATTTT
Found at i:23040885 original size:13 final size:14
Alignment explanation
Indices: 23040859--23040898 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
23040849 AGGGAAAATC
*
23040859 AAGAAACAAAAAAAA
1 AAGAAA-AAGAAAAA
23040874 AAG-AAAAGAAAAA
1 AAGAAAAAGAAAAA
23040887 AAGAAAAAGAAA
1 AAGAAAAAGAAA
23040899 TGACTTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 10 0.43
15 3 0.13
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAAAA
Found at i:23040888 original size:19 final size:20
Alignment explanation
Indices: 23040859--23040898 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
23040849 AGGGAAAATC
23040859 AAGAAACAAAAAAAAAAGAA
1 AAGAAACAAAAAAAAAAGAA
*
23040879 AAGAAA-AAAAGAAAAAGAA
1 AAGAAACAAAAAAAAAAGAA
23040898 A
1 A
23040899 TGACTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (20 bp):
AAGAAACAAAAAAAAAAGAA
Found at i:23041537 original size:22 final size:22
Alignment explanation
Indices: 23041508--23041560 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
23041498 TCAAAACTCA
23041508 AAGTATCAAAACTAGAGGGTTT
1 AAGTATCAAAACTAGAGGGTTT
*
23041530 GAGTATCAAAACTAGAGGGTTT
1 AAGTATCAAAACTAGAGGGTTT
*
23041552 AATTATCAA
1 AAGTATCAA
23041561 TACTTAGATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (22 bp):
AAGTATCAAAACTAGAGGGTTT
Found at i:23044914 original size:43 final size:43
Alignment explanation
Indices: 23044821--23044907 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
23044811 TCAGAAAACA
23044821 AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
1 AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
23044864 AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
1 AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
23044907 A
1 A
23044908 AGTAAATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.56, C:0.07, G:0.16, T:0.21
Consensus pattern (43 bp):
AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
Found at i:23045082 original size:23 final size:24
Alignment explanation
Indices: 23045038--23045083 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
23045028 GATTTGTTAG
* **
23045038 AATATTTTAGTAATATTTTATTTT
1 AATATTTTAATAATATGATATTTT
23045062 AATATTTTAAT-ATATGATATTT
1 AATATTTTAATAATATGATATTT
23045084 GTATGGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AATATTTTAATAATATGATATTTT
Found at i:23045696 original size:34 final size:34
Alignment explanation
Indices: 23045658--23045728 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
23045648 ATAGTAATCA
23045658 AAAGTATAATTATTATATACATCCAATTGAAAGT
1 AAAGTATAATTATTATATACATCCAATTGAAAGT
23045692 AAAGTATAATTATTATATACATCCAATTGAAAGT
1 AAAGTATAATTATTATATACATCCAATTGAAAGT
23045726 AAA
1 AAA
23045729 TACAAAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (34 bp):
AAAGTATAATTATTATATACATCCAATTGAAAGT
Found at i:23050154 original size:15 final size:17
Alignment explanation
Indices: 23050123--23050154 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
23050113 AACATATTTT
23050123 ATAATGTTTACATTATA
1 ATAATGTTTACATTATA
23050140 ATAA-GTTTA-ATTATA
1 ATAATGTTTACATTATA
23050155 GTTTTTGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (17 bp):
ATAATGTTTACATTATA
Found at i:23057866 original size:17 final size:17
Alignment explanation
Indices: 23057844--23057902 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
23057834 TAATTATCTT
23057844 AATATTAAATTAAATTA
1 AATATTAAATTAAATTA
* *
23057861 AATATT-TATCAAGA-TA
1 AATATTAAATTAA-ATTA
* *
23057877 AATATTAAATTTAATTT
1 AATATTAAATTAAATTA
23057894 AATATTAAA
1 AATATTAAA
23057903 GTGATTAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:23071232 original size:17 final size:17
Alignment explanation
Indices: 23071210--23071242 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23071200 TATCAGATTT
23071210 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
23071227 TGATACCCATATCTTT
1 TGATACCCATATCTTT
23071243 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:23072414 original size:54 final size:54
Alignment explanation
Indices: 23072340--23072450 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
23072330 TAATTTAACA
23072340 TATTCAACTGCCATGAACCTTTTATTTTTATTTTATTTATGTCCTTACATAATT
1 TATTCAACTGCCATGAACCTTTTATTTTTATTTTATTTATGTCCTTACATAATT
23072394 TATTCAACTGCCATGAACCTTTTATTTTTATTTTATTTATGTCCTTACATAATT
1 TATTCAACTGCCATGAACCTTTTATTTTTATTTTATTTATGTCCTTACATAATT
23072448 TAT
1 TAT
23072451 GTCTTGTTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.52
Consensus pattern (54 bp):
TATTCAACTGCCATGAACCTTTTATTTTTATTTTATTTATGTCCTTACATAATT
Found at i:23076590 original size:19 final size:20
Alignment explanation
Indices: 23076568--23076605 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23076558 ATAATTTGAA
23076568 TATTTTATATTTAA-AAAAT
1 TATTTTATATTTAATAAAAT
*
23076587 TATTTTATTTTTAATAAAA
1 TATTTTATATTTAATAAAA
23076606 AAATCAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTATATTTAATAAAAT
Found at i:23077584 original size:29 final size:28
Alignment explanation
Indices: 23077544--23077617 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
23077534 TTTACCTCAG
* *
23077544 GTTACATTTTAGTCACTTATGTTTAAAAT
1 GTTACATTTTAGTCACTTACG-CTAAAAT
*
23077573 GTTACATTTTAGTCACTTACGCTAACAT
1 GTTACATTTTAGTCACTTACGCTAAAAT
*
23077601 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
23077618 AAGCTATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 21 0.51
29 20 0.49
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (28 bp):
GTTACATTTTAGTCACTTACGCTAAAAT
Found at i:23078761 original size:68 final size:68
Alignment explanation
Indices: 23078689--23078886 Score: 188
Period size: 68 Copynumber: 3.1 Consensus size: 68
23078679 ATAAAAATAT
23078689 AGGGACTAGTTTTAACAAATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAA
1 AGGGACTAGTTTTAACAAATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAA
23078754 CAG
66 CAG
** * * * * * * *
23078757 AGGGAGAAG---GAAGAAAT--AAAAGAAAAAAATTAAAT-TGTTCAAA-AAA--AAT--A--AA
1 AGGGACTAGTTTTAACAAATGGAAAATACAAAAA--AACTACGTTAAAAGAAATGAATGGAGGAA
* *
23078809 AATAT
64 AACAG
23078814 AGGGACTAGTTTTAACAAATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAA
1 AGGGACTAGTTTTAACAAATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAA
23078879 CAG
66 CAG
23078882 AGGGA
1 AGGGA
23078887 GAAGGAGAAG
Statistics
Matches: 93, Mismatches: 22, Indels: 30
0.64 0.15 0.21
Matches are distributed among these distances:
57 12 0.13
59 1 0.01
60 9 0.10
61 9 0.10
62 13 0.14
63 13 0.14
64 9 0.10
65 9 0.10
66 1 0.01
68 17 0.18
ACGTcount: A:0.56, C:0.07, G:0.20, T:0.17
Consensus pattern (68 bp):
AGGGACTAGTTTTAACAAATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAA
CAG
Found at i:23078850 original size:125 final size:126
Alignment explanation
Indices: 23078641--23078892 Score: 497
Period size: 125 Copynumber: 2.0 Consensus size: 126
23078631 AAGGAAAATA
23078641 AAGAAATAAAAAGAAAAAAATTAAATTGTTCAAAAAAAATAAAAATATAGGGACTAGTTTTAACA
1 AAGAAATAAAAAGAAAAAAATTAAATTGTTCAAAAAAAATAAAAATATAGGGACTAGTTTTAACA
23078706 AATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAACAGAGGGAGAAGG
66 AATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAACAGAGGGAGAAGG
23078767 AAGAAAT-AAAAGAAAAAAATTAAATTGTTCAAAAAAAATAAAAATATAGGGACTAGTTTTAACA
1 AAGAAATAAAAAGAAAAAAATTAAATTGTTCAAAAAAAATAAAAATATAGGGACTAGTTTTAACA
23078831 AATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAACAGAGGGAGAAGG
66 AATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAACAGAGGGAGAAGG
23078892 A
1 A
23078893 GAAGAGAATT
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 119 0.94
126 7 0.06
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.17
Consensus pattern (126 bp):
AAGAAATAAAAAGAAAAAAATTAAATTGTTCAAAAAAAATAAAAATATAGGGACTAGTTTTAACA
AATGGAAAATACAAAAAAACTACGTTAAAAGAAATGAATGGAGGAAAACAGAGGGAGAAGG
Found at i:23079669 original size:32 final size:33
Alignment explanation
Indices: 23079600--23079671 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
23079590 GAGCTTATTT
* *
23079600 TTTATTTTGATATTTATATTTTTGGTAATTAGG
1 TTTATTTTGATATTTATATTTTTGGTAATAAGA
23079633 TTTATTTTGATATTTATA-TTTTGGT-ATAAAGA
1 TTTATTTTGATATTTATATTTTTGGTAAT-AAGA
23079665 TTTATTT
1 TTTATTT
23079672 GACCTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 2 0.06
32 16 0.44
33 18 0.50
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.61
Consensus pattern (33 bp):
TTTATTTTGATATTTATATTTTTGGTAATAAGA
Found at i:23079902 original size:30 final size:29
Alignment explanation
Indices: 23079867--23079946 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 29
23079857 ATTTTTTAAA
23079867 ATTTTAAAAAATTAAAAAATATAAAAACTT
1 ATTTTAAAAAATTAAAAAATATAAAAAC-T
* * *
23079897 ATTTTAAATAATTAAAAATTATTAAAACT
1 ATTTTAAAAAATTAAAAAATATAAAAACT
*
23079926 A-ATT-AAAAATATAAAAAATAT
1 ATTTTAAAAAAT-TAAAAAATAT
23079947 TTTTTTTTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
27 5 0.12
28 11 0.26
29 2 0.05
30 25 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTTAAAAAATTAAAAAATATAAAAACT
Found at i:23079918 original size:20 final size:19
Alignment explanation
Indices: 23079878--23079935 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
23079868 TTTTAAAAAA
*
23079878 TTAAAAAATATAAAAACTTATT
1 TTAAATAAT-TAAAAA-TTA-T
23079900 TTAAATAATTAAAAATTAT
1 TTAAATAATTAAAAATTAT
*
23079919 TAAAACTAATTAAAAAT
1 TTAAA-TAATTAAAAAT
23079936 ATAAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.15
20 14 0.42
21 6 0.18
22 8 0.24
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAATAATTAAAAATTAT
Found at i:23079920 original size:10 final size:10
Alignment explanation
Indices: 23079864--23079944 Score: 55
Period size: 10 Copynumber: 8.5 Consensus size: 10
23079854 TTAATTTTTT
23079864 AAAATT-TTA
1 AAAATTATTA
23079873 AAAA--ATTA
1 AAAATTATTA
*
23079881 AAAAATA-TA
1 AAAATTATTA
*
23079890 AAAACTTATTT
1 AAAA-TTATTA
* *
23079901 TAAATAATTA
1 AAAATTATTA
23079911 AAAATTATTA
1 AAAATTATTA
* *
23079921 AAACTAATTA
1 AAAATTATTA
*
23079931 AAAA-TATAA
1 AAAATTATTA
23079940 AAAAT
1 AAAAT
23079945 ATTTTTTTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
8 7 0.13
9 17 0.31
10 26 0.48
11 4 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTATTA
Found at i:23081636 original size:112 final size:113
Alignment explanation
Indices: 23081505--23081738 Score: 452
Period size: 112 Copynumber: 2.1 Consensus size: 113
23081495 ATAATATATA
23081505 TAATATTTTTTAGATAAGTATTTGGTACGTGTACTTTTATTCTATTTTATAAGTATTCGTGAAAA
1 TAATATTTTTTAGATAAGTATTTGGTACGTGTACTTTTATTCTATTTTATAAGTATTCGTGAAAA
23081570 ATTGACAAGTGCCTCTTTTTAAAAAAAAATATATTTTAAATATTTTAC
66 ATTGACAAGTGCCTCTTTTTAAAAAAAAATATATTTTAAATATTTTAC
23081618 TAATATTTTTTA-ATAAGTATTTGGTACGTGTACTTTTATTCTATTTTATAAGTATTCGTGAAAA
1 TAATATTTTTTAGATAAGTATTTGGTACGTGTACTTTTATTCTATTTTATAAGTATTCGTGAAAA
23081682 ATTGACAAGTGCCTCTTTTTAAAAAAAAATATATTTTAAATATTTTAC
66 ATTGACAAGTGCCTCTTTTTAAAAAAAAATATATTTTAAATATTTTAC
23081730 TATATATTT
1 TA-ATATTT
23081739 ATAGGACTCT
Statistics
Matches: 120, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
112 102 0.85
113 18 0.15
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (113 bp):
TAATATTTTTTAGATAAGTATTTGGTACGTGTACTTTTATTCTATTTTATAAGTATTCGTGAAAA
ATTGACAAGTGCCTCTTTTTAAAAAAAAATATATTTTAAATATTTTAC
Found at i:23082202 original size:17 final size:17
Alignment explanation
Indices: 23082150--23082202 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
23082140 TATGGAAACA
* *
23082150 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
23082167 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
23082186 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
23082203 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:23082202 original size:22 final size:23
Alignment explanation
Indices: 23082174--23082218 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
23082164 ATGCAATCTT
23082174 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
23082196 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
23082219 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:23082228 original size:22 final size:23
Alignment explanation
Indices: 23082184--23082228 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23082174 AGATATGATA
*
23082184 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
23082207 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
23082229 GTAGATACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:23082437 original size:21 final size:22
Alignment explanation
Indices: 23082394--23082438 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
23082384 GCTTACTGTT
* * *
23082394 TTATTTTTTTTTTCTTTTTCGA
1 TTATTTTTTATTTCATTTACGA
23082416 TTATTTTTTATTT-ATTTACGA
1 TTATTTTTTATTTCATTTACGA
23082437 TT
1 TT
23082439 TTAAAAAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (22 bp):
TTATTTTTTATTTCATTTACGA
Found at i:23082669 original size:3 final size:3
Alignment explanation
Indices: 23082661--23082700 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
23082651 ATTAATTTTG
*
23082661 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
23082701 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23082669 original size:15 final size:15
Alignment explanation
Indices: 23082645--23082699 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
23082635 GTTTTTAGTC
23082645 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
23082659 TGTTATTATTATTTT
1 TATTATTATTAATTT
23082674 TATTATTA-T-ATTAT
1 TATTATTATTAATT-T
23082688 ATATTATTATTA
1 -TATTATTATTA
23082700 TACCTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 24 0.75
16 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:23082676 original size:12 final size:12
Alignment explanation
Indices: 23082647--23082698 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
23082637 TTTTAGTCTA
23082647 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
23082659 TGTTATTATTAT
1 TTTTATTATTAT
23082671 TTTTATTATTAT
1 TTTTATTATTAT
23082683 ATTATATATTATTAT
1 -TT-T-TATTATTAT
23082698 T
1 T
23082699 ATACCTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 18 0.53
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:23087061 original size:16 final size:15
Alignment explanation
Indices: 23087036--23087065 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23087026 ATTTTTTTTC
23087036 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
23087051 AAAAGAAAAAGAAAA
1 AAAA-AAAAAGAAAA
23087066 ATAAAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:23088410 original size:44 final size:44
Alignment explanation
Indices: 23088335--23088536 Score: 133
Period size: 44 Copynumber: 4.6 Consensus size: 44
23088325 CCAAGCCTTG
* * * * * *
23088335 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGAAGATCTTA
* ** *
23088379 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGAAGATCTTA
* * * * * *
23088423 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCAATCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATTGAAGATCTTA
* * * * * *
23088468 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGAAGATCTTA
23088512 TCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTCCCTAAGCAGTAGTGGAGCAGA
23088537 ACGAAGACGG
Statistics
Matches: 113, Mismatches: 36, Indels: 18
0.68 0.22 0.11
Matches are distributed among these distances:
42 4 0.04
43 7 0.06
44 75 0.66
45 19 0.17
46 6 0.05
47 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGAAGATCTTA
Found at i:23088564 original size:133 final size:133
Alignment explanation
Indices: 23088324--23088609 Score: 527
Period size: 133 Copynumber: 2.2 Consensus size: 133
23088314 CCTGTGAAAC
23088324 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * *
23088389 CAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGAACGAAGACGGAAAATCATATCTTTCCAAGATAGTGGGAACCAGATTTAAG
23088454 CCA
131 CCA
*
23088457 ATCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
*
23088522 CAGTAGTGGAGCAGAACGAAGACGGCAAATCATATCTTTCCAAGATAGTGGGAACCAGATTTAAG
66 CAGTAGTGGAGCAGAACGAAGACGGAAAATCATATCTTTCCAAGATAGTGGGAACCAGATTTAAG
23088587 CCA
131 CCA
23088590 ACCAAGCCTTGTCTCCCTGA
1 ACCAAGCCTTGTCTCCCTGA
23088610 AGTTGTAGTG
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 147 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (133 bp):
ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGAACGAAGACGGAAAATCATATCTTTCCAAGATAGTGGGAACCAGATTTAAG
CCA
Found at i:23088739 original size:44 final size:42
Alignment explanation
Indices: 23088678--23089367 Score: 307
Period size: 44 Copynumber: 15.9 Consensus size: 42
23088668 TATCACATCT
* *
23088678 AGTCTTATCTCTTTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
23088722 AGTCTTATCATCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATC-TCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * * **
23088767 AATCTTATCTCCTTGAGGTTGCAGTGGAGCAGATTAAAGTCGACA
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACT-AAGAAG-CA
* * * *
23088812 A-TCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAA-AATCA
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * *
23088853 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCA
1 -AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * *
23088895 AGTCTTATCCTCCTGAAGTTACAGT-AAGGCAGAATGAAGATGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * * * **
23088940 AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGCCGACA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-CA
* *** * * *
23088985 A-TCCTATCTCCCTGAAGTTGCAGTGGAATGGATTAA-AACCTT
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * *
23089027 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
23089068 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
23089112 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACGA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-C-A
* * *
23089158 A-TCTTATCTCCTTGAAGTTGCAGTGGAGCATACTAAATAAACA
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACT-AAGAAGCA
* * * * * *
23089201 AATCCTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * * * *
23089243 CAGATCATATCTCTCTGAAGTTGTAATAGAGTAGA-TCA-CATCG
1 -AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
23089286 AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACT-AAG-AAGCA
* * * * *
23089331 AGCCTTATCCCCCTGAAATTGCAGTGGGGCATACTAA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGAGCAGACTAA
23089368 ATAAATAAAT
Statistics
Matches: 498, Mismatches: 98, Indels: 100
0.72 0.14 0.14
Matches are distributed among these distances:
40 38 0.08
41 48 0.10
42 20 0.04
43 31 0.06
44 218 0.44
45 135 0.27
46 8 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (42 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:23088827 original size:173 final size:172
Alignment explanation
Indices: 23088601--23089092 Score: 510
Period size: 173 Copynumber: 2.8 Consensus size: 172
23088591 CCAAGCCTTG
* * * * **** *
23088601 TCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAG-AGA
1 TCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCTCTGAAGTTACAGTAGA
* * * * *
23088665 GC-ATATCACATC-TAG-TCTTATCTCTTTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCT
66 GCGAT-TAAAATCACAGATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T-AG-AAGCAAGTCT
* * *
23088727 TATCATCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTA
126 TATCATCCTGAAGTTACAGTAAGGCAGAATGAAGATGGCAAATCTTA
* * * *
23088774 TCTCCTTGAGGTTGCAGTGGAGCAGATTAAAGTCGACAATCCTATCTCTCTGAAGTTGCAGTGGA
1 TCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCTCTGAAGTTACAGTAGA
* * * *
23088839 GCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATC
66 GC-GATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATAGAAGCAAGTCTTATC
*
23088904 CTCCTGAAGTTACAGTAAGGCAGAATGAAGATGGCAAATCTTA
130 ATCCTGAAGTTACAGTAAGGCAGAATGAAGATGGCAAATCTTA
* * * *
23088947 TCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGA
1 TCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCTCTGAAGTTACAGTAG-
* ** * * * * *
23089012 ATG-GATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTAT
65 A-GCGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATAGAAGCAAGTCTTAT
*
23089076 C-TCCCTGAAGTTGCAGT
129 CAT-CCTGAAGTTACAGT
23089093 GGAGCAGACT
Statistics
Matches: 276, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
172 1 0.00
173 231 0.84
174 6 0.02
175 7 0.03
176 11 0.04
177 20 0.07
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (172 bp):
TCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCTCTGAAGTTACAGTAGA
GCGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATAGAAGCAAGTCTTATCA
TCCTGAAGTTACAGTAAGGCAGAATGAAGATGGCAAATCTTA
Found at i:23088995 original size:217 final size:215
Alignment explanation
Indices: 23088601--23089265 Score: 666
Period size: 217 Copynumber: 3.1 Consensus size: 215
23088591 CCAAGCCTTG
* * * * *
23088601 TCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
1 TCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATC-TAGATCTTATCTCTCTGAAGTTGCAGAGAG
* * * * * * *
23088666 CATATCACATCTAGTCTTAT-CTCTTTGAAGTTACAGTGGAGCAGACT-AAG-TAAGCAAGTCTT
65 CAGATCGCATCAAGTCTTATCCTC-CTGAAGTTACAGTAG-GCAGACTGAAGAT-GGCAAATCTT
* * * * * *
23088728 ATCAT-CCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAGGTTGCAG
127 ATC-TCCCTGAAGTTGCAGTGGA-GCAGACTAAAGAAGACAAATCCTATCTCCCTGAAGTTGCAG
* * * *
23088791 TGGAGCAGATTAAAGTCGACAATCCTA
190 TGGAGCGGATTAAA-ACCACAATCATA
*
23088818 TCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATC-TAGATCTTATCTCTCTGAAGTTGCAGAGAG
*
23088883 CAGATCGCATCAAGTCTTATCCTCCTGAAGTTACAGTAAGGCAGAATGAAGATGGCAAATCTTAT
65 CAGATCGCATCAAGTCTTATCCTCCTGAAGTTACAGT-AGGCAGACTGAAGATGGCAAATCTTAT
* * * **
23088948 CTCCCTGAGGTTGTAGTGGAGCAGATTAAAGCCGAC-AATCCTATCTCCCTGAAGTTGCAGTGGA
129 CTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAGACAAATCCTATCTCCCTGAAGTTGCAGTGGA
** ** *
23089012 ATGGATTAAAACCTTAGATCTTA
194 GCGGATTAAAACCACA-ATCATA
* * *** * *
23089035 TCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATCTAG-TCTTATCTCCCTGAAGTTGCAGTGGAG
1 TCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCTAGATCTTATCTCTCTGAAGTTGCAG-AGAG
* * * * *
23089097 CAGACTAAGTAATCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACGAATCT
65 CAGA-T-CG-CATCAAGTCTTATCCTCCTGAAGTTACAGT-AGGCAGACTGAAGATGGCAAATCT
* * * *
23089162 TATCTCCTTGAAGTTGCAGTGGAGCATACTAAATAA-ACAAATCCTGTCTCCCTGAAGTTGCAGT
126 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAGACAAATCCTATCTCCCTGAAGTTGCAGT
23089226 GGAGCGGATTAAAACCACAGATCATA
191 GGAGCGGATTAAAACCACA-ATCATA
23089252 TCTCTCTGAAGTTG
1 TCTCTCTGAAGTTG
23089266 TAATAGAGTA
Statistics
Matches: 374, Mismatches: 62, Indels: 24
0.81 0.13 0.05
Matches are distributed among these distances:
213 21 0.06
214 9 0.02
215 5 0.01
216 11 0.03
217 284 0.76
218 41 0.11
219 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (215 bp):
TCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCTAGATCTTATCTCTCTGAAGTTGCAGAGAGC
AGATCGCATCAAGTCTTATCCTCCTGAAGTTACAGTAGGCAGACTGAAGATGGCAAATCTTATCT
CCCTGAAGTTGCAGTGGAGCAGACTAAAGAAGACAAATCCTATCTCCCTGAAGTTGCAGTGGAGC
GGATTAAAACCACAATCATA
Found at i:23089077 original size:84 final size:82
Alignment explanation
Indices: 23088816--23089095 Score: 249
Period size: 84 Copynumber: 3.3 Consensus size: 82
23088806 TCGACAATCC
* *
23088816 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGA-AGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
23088881 AGCAGATCGCATCAAGTCT
65 AGCAGATCGCATC-AGTCT
* * * * * ** * * * *
23088900 TATC-CTCCTGAAGTTACAGTAAGGCAGAATGAAGATGGCAAATCTTATCTCCCTGAGGTTGTAG
1 TATCTC-CCTGAAGTTGCAGT--GGAAGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG
* * * *
23088964 TGGAGCAGATTAAAGCCGA-CAATCC
63 -AGAGCAGA-T--CG-C-ATCAGTCT
* **
23088989 TATCTCCCTGAAGTTGCAGTGGAATGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAA-GGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
23089054 AGCAGATCGCATCTAGTCT
65 AGCAGATCGCATC-AGTCT
23089073 TATCTCCCTGAAGTTGCAGTGGA
1 TATCTCCCTGAAGTTGCAGTGGA
23089096 GCAGACTAAG
Statistics
Matches: 149, Mismatches: 34, Indels: 26
0.71 0.16 0.12
Matches are distributed among these distances:
82 1 0.01
83 3 0.02
84 43 0.29
85 29 0.19
86 10 0.07
87 11 0.07
88 27 0.18
89 21 0.14
90 3 0.02
91 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (82 bp):
TATCTCCCTGAAGTTGCAGTGGAAGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCAGTCT
Found at i:23089168 original size:173 final size:170
Alignment explanation
Indices: 23088720--23089184 Score: 591
Period size: 173 Copynumber: 2.7 Consensus size: 170
23088710 ACTAAGTAAG
23088720 CAAGTCTTATCAT-CCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAG
1 CAAGTCTTATC-TCCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GCAAATCTTATCTCC-TGAG
* *
23088784 GTTGCAGTGGAGCAGATTAAAGTCGACAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAA
63 GTTGCAGTGGAGCAGATTAAAGT-GACAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAA
*
23088849 ATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
127 ACCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
* * *
23088893 CAAGTCTTATC-CTCCTGAAGTTACAGTAAGGCAGAATGAAGATGGCAAATCTTATCTCCCTGAG
1 CAAGTCTTATCTC-CCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GCAAATCTTATCT-CCTGAG
* * *
23088957 GTTGTAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAATGGATTAAA
63 GTTGCAGTGGAGCAGATTAAAG-TGACAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAA
**
23089022 ACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
127 ACCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
* *
23089066 CTAGTCTTATCTCCCTGAAGTTGCAGTG-GAGCAGACT-AAGTAAT-CAAGTCTTATCCTCCTGA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGAG-GCAGACTGAAG--ATGCAAATCTTAT-CTCCTGA
* * * * *
23089128 AGTTGCAGT-GAGGCAGACTGAAGATGACGAATCTTATCTCCTTGAAGTTGCAGTGGA
62 GGTTGCAGTGGA-GCAGATTAAAG-TGAC-AATCCTATCTCCCTGAAGTTGCAGTGGA
23089185 GCATACTAAA
Statistics
Matches: 257, Mismatches: 24, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
171 2 0.01
172 37 0.14
173 213 0.83
174 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (170 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGCAAATCTTATCTCCTGAGGTT
GCAGTGGAGCAGATTAAAGTGACAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCA
CAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
Found at i:23089402 original size:217 final size:217
Alignment explanation
Indices: 23088893--23089402 Score: 569
Period size: 217 Copynumber: 2.4 Consensus size: 217
23088883 CAGATCGCAT
* * * * * * ** * *
23088893 CAAGTCTTATCCTCCTGAAGTTACAGTAAGGCAGAATGAAGATGGCAAATCTTATCTCCCTGAGG
1 CAAGCCTTATCCCCCTGAAATTGCAGTGAGGCAGACTGAAGATAACAAATCCTATCTCCCTGAAG
* * * *** *
23088958 TTGTAGTGGAGCAGATTAAAGCCGAC-AATCCTATCTCCCTGAAGTTGCAGTGGAATGGATTAAA
66 TTGCAGTGGAGCATACTAAA-TAAACAAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAA
** * * * * *
23089022 ACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGT
130 ACCACAGATCATATCTCTCTGAAGTTGAAGAGAGCAGATCACATCGAGTCTTATCTCCCTAAAGT
* *
23089087 TGCAGTGGAGCAGACTAAGTAAT
195 TGCAGTGGAGCAGACTAAGAAAG
* * * * * * *
23089110 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACGAATCTTATCTCCTTGAAG
1 CAAGCCTTATCCCCCTGAAATTGCAGTGAGGCAGACTGAAGATAACAAATCCTATCTCCCTGAAG
* *
23089175 TTGCAGTGGAGCATACTAAATAAACAAATCCTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
66 TTGCAGTGGAGCATACTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAA
* *
23089240 CCACAGATCATATCTCTCTGAAGTTGTAATAGAGTAGATCACATCGAGTCTTATCTCCCTAAAGT
131 CCACAGATCATATCTCTCTGAAGTTG-AAGAGAGCAGATCACATCGAGTCTTATCTCCCTAAAGT
*
23089305 TGTAGTGGAGCAGACTCAAGAAAG
195 TGCAGTGGAGCAGACT-AAGAAAG
* * * *
23089329 CAAGCCTTATCCCCCTGAAATTGCAGTGGGGCATACT-AA-ATAAATAAATCCTGTCTCCCT-AA
1 CAAGCCTTATCCCCCTGAAATTGCAGTGAGGCAGACTGAAGAT-AACAAATCCTATCTCCCTGAA
*
23089391 GTTGTAGTGGAG
65 GTTGCAGTGGAG
23089403 TGGATTAGAG
Statistics
Matches: 249, Mismatches: 40, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
216 2 0.01
217 149 0.60
218 61 0.24
219 37 0.15
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
CAAGCCTTATCCCCCTGAAATTGCAGTGAGGCAGACTGAAGATAACAAATCCTATCTCCCTGAAG
TTGCAGTGGAGCATACTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAA
CCACAGATCATATCTCTCTGAAGTTGAAGAGAGCAGATCACATCGAGTCTTATCTCCCTAAAGTT
GCAGTGGAGCAGACTAAGAAAG
Found at i:23089428 original size:390 final size:390
Alignment explanation
Indices: 23088599--23089441 Score: 1093
Period size: 390 Copynumber: 2.2 Consensus size: 390
23088589 AACCAAGCCT
*
23088599 TGTCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAG
1 TGTCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAG
* **
23088664 AGCATATCACATCTAGTCTTATCTCTTTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTA
66 AGCAGATCACATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTA
* *
23088729 TCATCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAGGTTGCAGTGG
131 TCATCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGG
* ** * *
23088794 AGCAGATTAAAGTCGACAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
196 AGCAGACTAAAGTAAACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATC
* * * *
23088859 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATCCTCCTGAAGTTACAGTAAGG
261 ATATCTCTCTGAAGTTGAAGAGAGCAGATCACATCAAGTCTTATCCTCCTAAAGTTACAGTAAGG
* ** * * ** * * ** *
23088924 CAGAATGAAGATGGCAAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGCCGACAATCC
326 CAGAATCAAGAAAGCAAACCTTATCCCCCTGAAATTGCAGTGGAGCAGACTAAAGCAAAAAATCC
* * * * *
23088989 TATCTCCCTGAAGTTGCAGTGGAATGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAG
1 TGTCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAG
* * *
23089054 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTA
66 AGCAGATCACATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTA
* *
23089119 TCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACGAATCTTATCTCCTTGAAGTTGCAGTGG
131 TCATCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGG
* *
23089184 AGCATACTAAA-TAAACAAATCCTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGAT
196 AGCAGACTAAAGTAAAC-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGAT
* * * **
23089248 CATATCTCTCTGAAGTTGTAATAGAGTAGATCACATCGAGTCTTAT-CTCCCTAAAGTTGTAGT-
260 CATATCTCTCTGAAGTTG-AAGAGAGCAGATCACATCAAGTCTTATCCT-CCTAAAGTTACAGTA
* * * * * *
23089311 GGAGCAGACTCAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGGGGCATACTAAA-TAAATA
323 AG-GCAGAATCAAGAAAGCAAACCTTATCCCCCTGAAATTGCAGTGGAGCAGACTAAAGCAAA-A
23089375 AATCC
386 AATCC
* **** * *
23089380 TGTCTCCCT-AAGTTGTAGTGGAGTGGATTAGAGTGATGGATTTTATCTCTCTGAAATTACAG
1 TGTCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAG
23089442 TTAAGCAGAT
Statistics
Matches: 386, Mismatches: 62, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
389 3 0.01
390 295 0.76
391 88 0.23
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (390 bp):
TGTCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAG
AGCAGATCACATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGTCTTA
TCATCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGG
AGCAGACTAAAGTAAACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATC
ATATCTCTCTGAAGTTGAAGAGAGCAGATCACATCAAGTCTTATCCTCCTAAAGTTACAGTAAGG
CAGAATCAAGAAAGCAAACCTTATCCCCCTGAAATTGCAGTGGAGCAGACTAAAGCAAAAAATCC
Found at i:23089759 original size:21 final size:21
Alignment explanation
Indices: 23089713--23089774 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
23089703 ATCTTCGAGG
*
23089713 ATATGAAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
23089732 A-ATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
23089752 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
23089773 AT
1 AT
23089775 GTAATCTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
18 16 0.41
19 1 0.03
20 1 0.03
21 21 0.54
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:23089804 original size:23 final size:22
Alignment explanation
Indices: 23089725--23089808 Score: 72
Period size: 19 Copynumber: 4.0 Consensus size: 22
23089715 ATGAAATCTT
*
23089725 AGATATGA-ATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
23089745 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
23089764 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
23089786 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
23089809 GGTTTAATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
20 4 0.08
21 12 0.23
22 8 0.15
23 13 0.25
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:23090036 original size:23 final size:23
Alignment explanation
Indices: 23089992--23090036 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
23089982 TCTTATTTTG
* *
23089992 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
23090015 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
23090037 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:23093098 original size:28 final size:27
Alignment explanation
Indices: 23093058--23093112 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
23093048 ACATATTTAT
23093058 AATTATATTTTAATTAATAATTTTAAA
1 AATTATATTTTAATTAATAATTTTAAA
*
23093085 AATTATTATTTTAATTTATAATTTTAAA
1 AATTA-TATTTTAATTAATAATTTTAAA
23093113 TGAGTACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
AATTATATTTTAATTAATAATTTTAAA
Found at i:23095684 original size:21 final size:19
Alignment explanation
Indices: 23095646--23095697 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
23095636 AATACATAAG
*
23095646 TAGATACAATGAGTAAATA
1 TAGATACAATGAGGAAATA
23095665 TAGATACAACATGAGGAAAT-
1 TAGATAC-A-ATGAGGAAATA
*
23095685 TAAACTACAATGA
1 TAGA-TACAATGA
23095698 TATCCAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 11 0.39
20 5 0.18
21 12 0.43
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGATACAATGAGGAAATA
Found at i:23096731 original size:26 final size:26
Alignment explanation
Indices: 23096702--23096758 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
23096692 AAAGAAATTC
23096702 CTTTCATATTT-CCCCACAAAGGCTTT
1 CTTTCAT-TTTACCCCACAAAGGCTTT
**
23096728 CTTTCATTTTACGTCACAAAGGCTTT
1 CTTTCATTTTACCCCACAAAGGCTTT
23096754 CTTTC
1 CTTTC
23096759 CTGATCTGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (26 bp):
CTTTCATTTTACCCCACAAAGGCTTT
Found at i:23099340 original size:16 final size:15
Alignment explanation
Indices: 23099321--23099372 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
23099311 CAAAAATTAA
23099321 AAAAAAATGAAAAATG
1 AAAAAAAT-AAAAATG
*
23099337 AAAAATTATAAAAATG
1 AAAAA-AATAAAAATG
*
23099353 AAAACAAATTAAAAT-
1 AAAA-AAATAAAAATG
23099368 AAAAA
1 AAAAA
23099373 TCATTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 4 0.13
16 23 0.74
17 3 0.10
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAAAATAAAAATG
Found at i:23106647 original size:20 final size:20
Alignment explanation
Indices: 23106622--23106663 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
23106612 GAAGAAGTAT
*
23106622 GTTGGCTAGTTATACATTGA
1 GTTGGCCAGTTATACATTGA
23106642 GTTGGCCAGTTATACATTGA
1 GTTGGCCAGTTATACATTGA
23106662 GT
1 GT
23106664 GAAAGAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGGCCAGTTATACATTGA
Found at i:23113979 original size:16 final size:17
Alignment explanation
Indices: 23113950--23113983 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
23113940 CAACTCAGTC
23113950 CAAAATTCATACTTTTG
1 CAAAATTCATACTTTTG
23113967 CAAAATT-ATACTTTTG
1 CAAAATTCATACTTTTG
23113983 C
1 C
23113984 CCCTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
CAAAATTCATACTTTTG
Found at i:23118815 original size:16 final size:16
Alignment explanation
Indices: 23118790--23118825 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
23118780 GCGCATGAAT
23118790 ATAA-AAATAAAAATA
1 ATAATAAATAAAAATA
*
23118805 ATAATAAATAATAATA
1 ATAATAAATAAAAATA
23118821 ATAAT
1 ATAAT
23118826 GATACAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAATAAATAAAAATA
Found at i:23119326 original size:19 final size:19
Alignment explanation
Indices: 23119302--23119393 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
23119292 AATCATATCT
23119302 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
23119321 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
23119340 TCTAAGATTGCGTATCATA
1 TCTAAGATTGCATATCATA
* * *
23119359 TCCAAAATTACATATCATA
1 TCTAAGATTGCATATCATA
23119378 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
23119394 CTTGAAGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23119356 original size:38 final size:38
Alignment explanation
Indices: 23119279--23119393 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
23119269 AAATTAAATC
*
23119279 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
*
23119321 TCTAAGATTACATATCATATCTAAGATTGCGTATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
23119359 TCCAAAATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
23119394 CTTGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 50 0.74
41 7 0.10
42 11 0.16
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:23119358 original size:24 final size:19
Alignment explanation
Indices: 23119279--23119393 Score: 131
Period size: 19 Copynumber: 5.8 Consensus size: 19
23119269 AAATTAAATC
*
23119279 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
23119299 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
23119321 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
* *
23119340 TCTAAGATTGCGTATCATA
1 TCTAAGATTACATATCATA
* *
23119359 TCCAAAATTACATATCATA
1 TCTAAGATTACATATCATA
*
23119378 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
23119394 CTTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 63 0.79
22 7 0.09
23 10 0.12
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:23122194 original size:6 final size:6
Alignment explanation
Indices: 23122183--23122233 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
23122173 TTTCCCATTC
* *
23122183 TATTAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
23122227 TATTAG T
1 TATTAG T
23122234 TAGTCATCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
5 19 0.47
6 21 0.52
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (6 bp):
TATTAG
Found at i:23122200 original size:11 final size:12
Alignment explanation
Indices: 23122183--23122233 Score: 56
Period size: 11 Copynumber: 4.6 Consensus size: 12
23122173 TTTCCCATTC
23122183 TATTAGTATTAG
1 TATTAGTATTAG
*
23122195 -ATTAGTATT-C
1 TATTAGTATTAG
*
23122205 TATT-CTATTAG
1 TATTAGTATTAG
23122216 TATTAG-ATTAG
1 TATTAGTATTAG
23122227 TATTAGT
1 TATTAGT
23122234 TAGTCATCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
10 4 0.13
11 27 0.87
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (12 bp):
TATTAGTATTAG
Found at i:23122209 original size:27 final size:27
Alignment explanation
Indices: 23122179--23122230 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
23122169 TATTTTTCCC
23122179 ATTCTATTAGTATTAGATTAGTATTCT
1 ATTCTATTAGTATTAGATTAGTATTCT
23122206 ATTCTATTAGTATTAGATTAGTATT
1 ATTCTATTAGTATTAGATTAGTATT
23122231 AGTTAGTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (27 bp):
ATTCTATTAGTATTAGATTAGTATTCT
Found at i:23132907 original size:25 final size:25
Alignment explanation
Indices: 23132878--23132928 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
23132868 TTTCTTAACT
23132878 TAGAATTATTAAACTCATGTTTATG
1 TAGAATTATTAAACTCATGTTTATG
*
23132903 TAGAATTATTAAACTCGTGTTTATG
1 TAGAATTATTAAACTCATGTTTATG
23132928 T
1 T
23132929 TGTTACGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (25 bp):
TAGAATTATTAAACTCATGTTTATG
Found at i:23134342 original size:10 final size:10
Alignment explanation
Indices: 23134323--23134357 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
23134313 AAATCTATTG
23134323 AAAA-TAATC
1 AAAATTAATC
23134332 AAAATTAATC
1 AAAATTAATC
*
23134342 AAAATTAATT
1 AAAATTAATC
23134352 AAAATT
1 AAAATT
23134358 CAACATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:23136931 original size:182 final size:183
Alignment explanation
Indices: 23136616--23136980 Score: 723
Period size: 182 Copynumber: 2.0 Consensus size: 183
23136606 TTTTCTTATT
23136616 AATAATATTTTTTTTTACAATTTAAATTGAAGCAAAATAAAAGGACCAGGATTTGCTAGTAAGCA
1 AATAATATTTTTTTTTACAATTTAAATTGAAGCAAAATAAAAGGACCAGGATTTGCTAGTAAGCA
23136681 CTGAGCAATAATGTCATAGCATTAGAAGGGAGTATGATGCCACAACAAACTGGGTGATGAGGTGT
66 CTGAGCAATAATGTCATAGCATTAGAAGGGAGTATGATGCCACAACAAACTGGGTGATGAGGTGT
23136746 CAAGACTTGATCAATTGGAAAATTCCGAAAGAAAGATTTGTGGCACCTCTTTC
131 CAAGACTTGATCAATTGGAAAATTCCGAAAGAAAGATTTGTGGCACCTCTTTC
23136799 AATAATA-TTTTTTTTACAATTTAAATTGAAGCAAAATAAAAGGACCAGGATTTGCTAGTAAGCA
1 AATAATATTTTTTTTTACAATTTAAATTGAAGCAAAATAAAAGGACCAGGATTTGCTAGTAAGCA
23136863 CTGAGCAATAATGTCATAGCATTAGAAGGGAGTATGATGCCACAACAAACTGGGTGATGAGGTGT
66 CTGAGCAATAATGTCATAGCATTAGAAGGGAGTATGATGCCACAACAAACTGGGTGATGAGGTGT
23136928 CAAGACTTGATCAATTGGAAAATTCCGAAAGAAAGATTTGTGGCACCTCTTTC
131 CAAGACTTGATCAATTGGAAAATTCCGAAAGAAAGATTTGTGGCACCTCTTTC
23136981 GGGAAATTCA
Statistics
Matches: 182, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
182 175 0.96
183 7 0.04
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (183 bp):
AATAATATTTTTTTTTACAATTTAAATTGAAGCAAAATAAAAGGACCAGGATTTGCTAGTAAGCA
CTGAGCAATAATGTCATAGCATTAGAAGGGAGTATGATGCCACAACAAACTGGGTGATGAGGTGT
CAAGACTTGATCAATTGGAAAATTCCGAAAGAAAGATTTGTGGCACCTCTTTC
Found at i:23146683 original size:32 final size:33
Alignment explanation
Indices: 23146637--23146702 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
23146627 ATCTTTATGC
*
23146637 CTTAAATGGAAAATGATTTTTA-TATAGGGGAG
1 CTTAAATGGAAAATGACTTTTATTATAGGGGAG
* * *
23146669 CTTAAATTGCAAATGACTTTTATTATGGGGGAG
1 CTTAAATGGAAAATGACTTTTATTATAGGGGAG
23146702 C
1 C
23146703 AATCTATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (33 bp):
CTTAAATGGAAAATGACTTTTATTATAGGGGAG
Found at i:23151858 original size:51 final size:50
Alignment explanation
Indices: 23151728--23151860 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 50
23151718 AAAGTGATGG
* * *
23151728 TCACGTGTGCAGTACTATGTGCAGGCTACTACGTGTACCGGAATGACAGG
1 TCACGTGTGCAGTACTATGTGCAGGCTACTACGCGTACCAGAATGACAGA
* * * * **
23151778 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTTCCA-A
1 TCACGTGTGCAGTACTATGTGCAGGCTACTACGCGTACCAGA-A-TGACAGA
*
23151829 TCACGTGTGCAGTACTATGTGTAGGCTACTAC
1 TCACGTGTGCAGTACTATGTGCAGGCTACTAC
23151861 ATGTATCGGA
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
50 36 0.54
51 28 0.42
52 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (50 bp):
TCACGTGTGCAGTACTATGTGCAGGCTACTACGCGTACCAGAATGACAGA
Found at i:23151985 original size:45 final size:45
Alignment explanation
Indices: 23151921--23152009 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
23151911 TGTGAACCTA
* *
23151921 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
* *
23151966 ACATCGTTGATTAATAAGGTGGTTGCTATGTGTTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
23152010 AATATCTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:23165783 original size:17 final size:17
Alignment explanation
Indices: 23165757--23165789 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23165747 TCGTGTTCAC
*
23165757 TAGGCGATACTATCCGT
1 TAGGCAATACTATCCGT
23165774 TAGGCAATACTATCCG
1 TAGGCAATACTATCCG
23165790 CCAAACGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (17 bp):
TAGGCAATACTATCCGT
Found at i:23166919 original size:69 final size:69
Alignment explanation
Indices: 23166798--23166992 Score: 266
Period size: 69 Copynumber: 2.8 Consensus size: 69
23166788 ACTCTAACAT
* **
23166798 TAAGACCATAGTTGGGGCTATGGCAACATATGAAGTCTGCTAA-GACAATAAACATGGGATCATA
1 TAAGACCATAGCTGGGGCTATGGCAACATATGAAGTCCAC-AAGGACAATAAACATGGGATCATA
23166862 TTGTG
65 TTGTG
* * * * *
23166867 TAAGACCACAGCTGGGGTTATGGCAACATATAAAGTCCACAAGGACAGTAAACATGGGATCTTAT
1 TAAGACCATAGCTGGGGCTATGGCAACATATGAAGTCCACAAGGACAATAAACATGGGATCATAT
23166932 TGTG
66 TGTG
* * * *
23166936 TAAGACCATAGCTGGGGCTATGACAACATTTGAACTCCACCAGGACAATAAACATGG
1 TAAGACCATAGCTGGGGCTATGGCAACATATGAAGTCCACAAGGACAATAAACATGG
23166993 CAGCATATGG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
68 2 0.02
69 107 0.98
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (69 bp):
TAAGACCATAGCTGGGGCTATGGCAACATATGAAGTCCACAAGGACAATAAACATGGGATCATAT
TGTG
Found at i:23169571 original size:14 final size:15
Alignment explanation
Indices: 23169554--23169586 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23169544 TTCTCATTTG
23169554 CTTTTTCTCTC-TTT
1 CTTTTTCTCTCTTTT
*
23169568 CTTTTTCTTTCTTTT
1 CTTTTTCTCTCTTTT
23169583 CTTT
1 CTTT
23169587 GATAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTTTCTCTCTTTT
Found at i:23171823 original size:25 final size:25
Alignment explanation
Indices: 23171793--23171885 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 25
23171783 ATTCAGACCC
23171793 ACAGCTCGTGTGAGCATATCGATTT
1 ACAGCTCGTGTGAGCATATCGATTT
* * ** * *
23171818 ATAGCTTGTGAAAGCATACCGATCT
1 ACAGCTCGTGTGAGCATATCGATTT
** *
23171843 ACAGCTCAAGTGAGCATATCGATTC
1 ACAGCTCGTGTGAGCATATCGATTT
*
23171868 ACAGCTCGTATGAGCATA
1 ACAGCTCGTGTGAGCATA
23171886 CATGTATATG
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATATCGATTT
Found at i:23177187 original size:20 final size:18
Alignment explanation
Indices: 23177136--23177184 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
23177126 ATTTGGCATA
23177136 TAACAGAATAATTTTTTAT
1 TAACA-AATAATTTTTTAT
* *
23177155 AAACATATCAATTTTTTATT
1 TAACAAAT-AATTTTTTA-T
23177175 TAACAAATAA
1 TAACAAATAA
23177185 ATTATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (18 bp):
TAACAAATAATTTTTTAT
Found at i:23182369 original size:244 final size:244
Alignment explanation
Indices: 23181940--23182430 Score: 955
Period size: 244 Copynumber: 2.0 Consensus size: 244
23181930 CGTAAGAAAC
23181940 ACACTTAGAGGAGGTGTAGAAGCATGGTGCAATGGTGCATAGTGTGGTACTTGTGTAAAATACAT
1 ACACTTAGAGGAGGTGTAGAAGCATGGTGCAATGGTGCATAGTGTGGTACTTGTGTAAAATACAT
*
23182005 GGGGTTAGTGAAAGGAACAAGAAAATATGAAAGGAAATGGCTGGGATGTGGTGTAGGCATCAATG
66 GGGGTTAGTGAAAGGAACAAGAAAATATGAAAGGAAATGACTGGGATGTGGTGTAGGCATCAATG
23182070 TCCCTTGTTGGGTTGGAATTGATAATAAATTCATCATGCCACGTGCTTCGGACCTACGATTCTGG
131 TCCCTTGTTGGGTTGGAATTGATAATAAATTCATCATGCCACGTGCTTCGGACCTACGATTCTGG
*
23182135 GGCAGTCGTCGTGGCCTTAGACGAATTTGCCTACGCCTCGCCTCCATTG
196 GGCAGTCGTCGTGGCCTTAGACGAATTTGCCTACACCTCGCCTCCATTG
23182184 ACACTTAGAGGAGGTGTAGAAGCATGGTGCAATGGTGCATAGTGTGGTACTTGTGTAAAATACAT
1 ACACTTAGAGGAGGTGTAGAAGCATGGTGCAATGGTGCATAGTGTGGTACTTGTGTAAAATACAT
23182249 GGGGTTAGTGAAAGGAACAAGAAAATATGAAAGGAAATGACTGGGATGTGGTGTAGGCATCAATG
66 GGGGTTAGTGAAAGGAACAAGAAAATATGAAAGGAAATGACTGGGATGTGGTGTAGGCATCAATG
*
23182314 TCCCTTGTTGGGTTGGAATTGATAATAAATTCGTCATGCCACGTGCTTCGGACCTACGATTCTGG
131 TCCCTTGTTGGGTTGGAATTGATAATAAATTCATCATGCCACGTGCTTCGGACCTACGATTCTGG
23182379 GGCAGTCGTCGTGGCCTTAGACGAATTTGCCTACACCTCGCCTCCATTG
196 GGCAGTCGTCGTGGCCTTAGACGAATTTGCCTACACCTCGCCTCCATTG
23182428 ACA
1 ACA
23182431 GTAGGTATGG
Statistics
Matches: 244, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
244 244 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (244 bp):
ACACTTAGAGGAGGTGTAGAAGCATGGTGCAATGGTGCATAGTGTGGTACTTGTGTAAAATACAT
GGGGTTAGTGAAAGGAACAAGAAAATATGAAAGGAAATGACTGGGATGTGGTGTAGGCATCAATG
TCCCTTGTTGGGTTGGAATTGATAATAAATTCATCATGCCACGTGCTTCGGACCTACGATTCTGG
GGCAGTCGTCGTGGCCTTAGACGAATTTGCCTACACCTCGCCTCCATTG
Found at i:23185860 original size:18 final size:18
Alignment explanation
Indices: 23185824--23185865 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23185814 ACAAAAAAAT
23185824 AAAAAT-TTTAAAAAACA
1 AAAAATATTTAAAAAACA
**
23185841 AAAAATATTTAAAATTCA
1 AAAAATATTTAAAAAACA
23185859 AAAAATA
1 AAAAATA
23185866 AAGAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATATTTAAAAAACA
Found at i:23185861 original size:25 final size:26
Alignment explanation
Indices: 23185812--23185875 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 26
23185802 TTCATATTTT
* *
23185812 AAACAAAAAA-A-TAAAAATTTTAAA
1 AAACAAAAAATATTTAAAATTTCAAA
23185836 AAACAAAAAATATTTAAAA-TTCAAA
1 AAACAAAAAATATTTAAAATTTCAAA
* *
23185861 AAATAAAGAATATTT
1 AAACAAAAAATATTT
23185876 TTTAAACAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 10 0.29
25 19 0.56
26 5 0.15
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (26 bp):
AAACAAAAAATATTTAAAATTTCAAA
Found at i:23186576 original size:16 final size:15
Alignment explanation
Indices: 23186541--23186590 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
23186531 TGAATTTTAG
* *
23186541 AATTTTTTATATTATA
1 AATTTTTTAT-TTTTT
23186557 AATTTTTTAATTTTTT
1 AATTTTTT-ATTTTTT
23186573 AATTTTTTATTTTTT
1 AATTTTTTATTTTTT
23186588 AAT
1 AAT
23186591 AACTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 10 0.32
16 19 0.61
17 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
AATTTTTTATTTTTT
Found at i:23186587 original size:7 final size:8
Alignment explanation
Indices: 23186557--23186590 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
23186547 TTATATTATA
23186557 AATTTTTT
1 AATTTTTT
23186565 AATTTTTT
1 AATTTTTT
23186573 AATTTTTT
1 AATTTTTT
23186581 -ATTTTTT
1 AATTTTTT
23186588 AAT
1 AAT
23186591 AACTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
AATTTTTT
Found at i:23190054 original size:63 final size:63
Alignment explanation
Indices: 23189977--23190098 Score: 210
Period size: 63 Copynumber: 1.9 Consensus size: 63
23189967 AATTTATCGA
*
23189977 TAATTTTTATTGTATGAAATATTTTAATACATAAACTTAGAT-CTATAGTTAAAACCTTATTGC
1 TAATTTTTATTGTATGAAATACTTTAATACATAAACTTAGATCCT-TAGTTAAAACCTTATTGC
*
23190040 TAATTTTTATTGTATGAAATACTTTATTACATAAACTTAGATCCTTAGTTAAAACCTTA
1 TAATTTTTATTGTATGAAATACTTTAATACATAAACTTAGATCCTTAGTTAAAACCTTA
23190099 AAACATAGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
63 54 0.96
64 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (63 bp):
TAATTTTTATTGTATGAAATACTTTAATACATAAACTTAGATCCTTAGTTAAAACCTTATTGC
Found at i:23190837 original size:25 final size:26
Alignment explanation
Indices: 23190805--23190854 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
23190795 TAAATATATA
23190805 TTTTTA-TTTTTTAATTTTAAAATAC
1 TTTTTATTTTTTTAATTTTAAAATAC
*
23190830 TTTTTATTTTTTTATTTTTAAAATA
1 TTTTTATTTTTTTAATTTTAAAATA
23190855 AAATATTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTTATTTTTTTAATTTTAAAATAC
Found at i:23195569 original size:143 final size:145
Alignment explanation
Indices: 23195405--23195693 Score: 564
Period size: 143 Copynumber: 2.0 Consensus size: 145
23195395 TGGTCAAAAA
23195405 ATTATATTTCTTAAAATTAATTTATATTTTTAATAATATCTTTAATTTTTTTTAATTTATGCTCG
1 ATTATATTTCTTAAAATTAATTTATATTTTTAATAATATCTTTAATTTTTTTTAATTTATGCTCG
23195470 TCATATGTCATATTGAGAAATTGCCATATGTTACTATAGGATTGGTCATCAGTGCCACGACAGTA
66 TCATATGTCATATTGAGAAATTGCCATATGTTACTATAGGATTGGTCATCAGTGCCACGACAGTA
23195535 CAAAATAATGTTGTT
131 CAAAATAATGTTGTT
23195550 ATTATATTTC-T-AAATTAATTTATATTTTTAATAATATCTTTAATTTTTTTTAATTTATGCTCG
1 ATTATATTTCTTAAAATTAATTTATATTTTTAATAATATCTTTAATTTTTTTTAATTTATGCTCG
23195613 TCATATGTCATATTGAGAAATTGCCATATGTTACTATAGGATTGGTCATCAGTGCCACGACAGTA
66 TCATATGTCATATTGAGAAATTGCCATATGTTACTATAGGATTGGTCATCAGTGCCACGACAGTA
23195678 CAAAATAATGTTGTT
131 CAAAATAATGTTGTT
23195693 A
1 A
23195694 GTGTGGAGGT
Statistics
Matches: 144, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
143 133 0.92
144 1 0.01
145 10 0.07
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.45
Consensus pattern (145 bp):
ATTATATTTCTTAAAATTAATTTATATTTTTAATAATATCTTTAATTTTTTTTAATTTATGCTCG
TCATATGTCATATTGAGAAATTGCCATATGTTACTATAGGATTGGTCATCAGTGCCACGACAGTA
CAAAATAATGTTGTT
Found at i:23202122 original size:23 final size:23
Alignment explanation
Indices: 23202064--23202122 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
23202054 TGCTTTTGTA
* *
23202064 GCACTTCGATGCAATTAATATTG
1 GCACTTCGATGCAACTAATACTG
* *
23202087 GCACTAT-GGTGCAACTGATACTG
1 GCACT-TCGATGCAACTAATACTG
23202110 GCACTTCGATGCA
1 GCACTTCGATGCA
23202123 TTACTGTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (23 bp):
GCACTTCGATGCAACTAATACTG
Found at i:23205881 original size:23 final size:23
Alignment explanation
Indices: 23205855--23205900 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
23205845 GAATGAAATT
23205855 CTACAAGACGTGTTGAAGGAGAA
1 CTACAAGACGTGTTGAAGGAGAA
*
23205878 CTACATGACGTGTTGAAGGAGAA
1 CTACAAGACGTGTTGAAGGAGAA
23205901 AACCGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (23 bp):
CTACAAGACGTGTTGAAGGAGAA
Found at i:23211351 original size:13 final size:13
Alignment explanation
Indices: 23211333--23211357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23211323 TGTTTGGAAA
23211333 TATGTTTTTATGT
1 TATGTTTTTATGT
23211346 TATGTTTTTATG
1 TATGTTTTTATG
23211358 GTAATGCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
TATGTTTTTATGT
Found at i:23214186 original size:25 final size:25
Alignment explanation
Indices: 23214146--23214240 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
23214136 TCATGTACAT
* *
23214146 GTATGCTCATATGAGTTGTGAATCG
1 GTATGCTCACACGAGTTGTGAATCG
* *
23214171 ATATGCTCACTCGAGTTGT-AGATCG
1 GTATGCTCACACGAGTTGTGA-ATCG
* * * *
23214196 GTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCACACGAGTTGTGAATCG
*
23214221 GTATGCTCACACAAGTTGTG
1 GTATGCTCACACGAGTTGTG
23214241 GGTCAGAACA
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.96
26 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (25 bp):
GTATGCTCACACGAGTTGTGAATCG
Found at i:23221882 original size:49 final size:49
Alignment explanation
Indices: 23221785--23221899 Score: 126
Period size: 49 Copynumber: 2.3 Consensus size: 49
23221775 GCAGTGTGGT
* * * ** * *
23221785 AGGCTGTGTGGAGCACACGGTCGTTTGAAACATTGTAGATCGTGTGGCC
1 AGGCCGTGTGGAGCACACGATCGTGTGAAACATTACAGACCGTATGGCC
23221834 AGGCCGTGTGGAGCACACGATCGTGTGAAAC-TCTACAGACCGTATGGCC
1 AGGCCGTGTGGAGCACACGATCGTGTGAAACAT-TACAGACCGTATGGCC
*
23221883 AGACCGTGTAGG-GCACA
1 AGGCCGTGT-GGAGCACA
23221900 TGGCCATGTG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.02
49 53 0.95
50 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (49 bp):
AGGCCGTGTGGAGCACACGATCGTGTGAAACATTACAGACCGTATGGCC
Found at i:23222295 original size:26 final size:26
Alignment explanation
Indices: 23222246--23222300 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
23222236 ATTGCAGTTA
*
23222246 TGGCAGCTAGACTGCAAATTTATGTG
1 TGGCAGCTAGACTGCAAATTTATGAG
23222272 TGGCAGCTCAG-CTGC-AATTATATGAG
1 TGGCAGCT-AGACTGCAAATT-TATGAG
23222298 TGG
1 TGG
23222301 TACACCGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 4 0.15
26 20 0.77
27 2 0.08
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
TGGCAGCTAGACTGCAAATTTATGAG
Found at i:23245597 original size:53 final size:53
Alignment explanation
Indices: 23245517--23245624 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
23245507 ATTGACAAGG
*
23245517 CCGTGTGACAAAGCCCAGGCCATGTGGCATAGGGACATGGCCATGTGGCCAAA
1 CCGTGTGACAAAGCCCAGGCCACGTGGCATAGGGACATGGCCATGTGGCCAAA
* * * *
23245570 CCGTGTGATAAAGCCCAGGCCGCGTGGCATTGGGACATGGCCATGTGGCGAAA
1 CCGTGTGACAAAGCCCAGGCCACGTGGCATAGGGACATGGCCATGTGGCCAAA
23245623 CC
1 CC
23245625 ATGTAACTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.24, C:0.27, G:0.33, T:0.16
Consensus pattern (53 bp):
CCGTGTGACAAAGCCCAGGCCACGTGGCATAGGGACATGGCCATGTGGCCAAA
Found at i:23249415 original size:27 final size:27
Alignment explanation
Indices: 23249184--23249415 Score: 221
Period size: 27 Copynumber: 8.6 Consensus size: 27
23249174 GGGTATAATA
** * *
23249184 GTCATTTTACCCTATGAAGGTAATTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
23249211 GTCATTTTACCCTATAGGCGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
23249238 GTTATTCTACCATATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
23249265 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
23249292 ATCATTCTACCCTGTGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
23249319 ATCATTCTACCCTGTAGGGGTATTTAG
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** * **
23249346 GTCATTTTACCCTATAGATGAATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
23249373 GTCATTCTACCCTATGTGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
23249400 GTCATTTTACCCTATG
1 GTCATTTTACCCTATG
23249416 AAGTTATTTT
Statistics
Matches: 169, Mismatches: 36, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 169 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:23250064 original size:14 final size:14
Alignment explanation
Indices: 23250045--23250077 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23250035 ATCCCAATAT
23250045 TCTCTCCTCAAATC
1 TCTCTCCTCAAATC
*
23250059 TCTCTCCTCAATTC
1 TCTCTCCTCAAATC
23250073 TCTCT
1 TCTCT
23250078 ATGATCAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (14 bp):
TCTCTCCTCAAATC
Found at i:23257932 original size:36 final size:36
Alignment explanation
Indices: 23257882--23257959 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
23257872 TTTTGTTGTC
** *
23257882 ATAAAACTTTTGAATAACTTAGAATACTTAATAATT
1 ATAAAACTCATGAATAACTTAAAATACTTAATAATT
23257918 ATAAAACTCATGAATAACTTAAAATACTTAATAATT
1 ATAAAACTCATGAATAACTTAAAATACTTAATAATT
23257954 ATAAAA
1 ATAAAA
23257960 AATTCGGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (36 bp):
ATAAAACTCATGAATAACTTAAAATACTTAATAATT
Found at i:23265146 original size:25 final size:25
Alignment explanation
Indices: 23265118--23265259 Score: 119
Period size: 25 Copynumber: 5.7 Consensus size: 25
23265108 TCTGACCCAC
23265118 AGCTCGTGAGAGCATACTGATTTAA
1 AGCTCGTGAGAGCATACTGATTTAA
* * **
23265143 AGCTTGTGTGAGCATACCAATTTAGA
1 AGCTCGTGAGAGCATACTGATTTA-A
*
23265169 A-CTCGTGAGAGCATACTGATTTAC
1 AGCTCGTGAGAGCATACTGATTTAA
* * * *
23265193 AGCTTGTGTGCA-CATA-TCAATTTAC
1 AGCTCGTGAG-AGCATACT-GATTTAA
* *
23265218 AGCTCGTGAGAGCATATTGATTTAT
1 AGCTCGTGAGAGCATACTGATTTAA
* *
23265243 AGCTCGAGTGAGCATAC
1 AGCTCGTGAGAGCATAC
23265260 ATGTACATGA
Statistics
Matches: 92, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
24 3 0.03
25 85 0.92
26 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACTGATTTAA
Found at i:23265197 original size:50 final size:50
Alignment explanation
Indices: 23265120--23265259 Score: 192
Period size: 50 Copynumber: 2.8 Consensus size: 50
23265110 TGACCCACAG
*
23265120 CTCGTGAGAGCATACTGATTTAAAGCTTGTGTGAGCATACCAATTTAGAA
1 CTCGTGAGAGCATACTGATTTAAAGCTTGTGTGAGCATACCAATTTACAA
* * *
23265170 CTCGTGAGAGCATACTGATTTACAGCTTGTGTGCA-CATATCAATTTACAG
1 CTCGTGAGAGCATACTGATTTAAAGCTTGTGTG-AGCATACCAATTTACAA
* * * *
23265220 CTCGTGAGAGCATATTGATTTATAGCTCGAGTGAGCATAC
1 CTCGTGAGAGCATACTGATTTAAAGCTTGTGTGAGCATAC
23265260 ATGTACATGA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.01
50 77 0.97
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (50 bp):
CTCGTGAGAGCATACTGATTTAAAGCTTGTGTGAGCATACCAATTTACAA
Found at i:23293064 original size:11 final size:11
Alignment explanation
Indices: 23293042--23293071 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
23293032 TTTGAATGTT
23293042 CATTGTATGAAA
1 CATTG-ATGAAA
23293054 CATTGATGAAA
1 CATTGATGAAA
23293065 CATTGAT
1 CATTGAT
23293072 ATATTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (11 bp):
CATTGATGAAA
Found at i:23294196 original size:56 final size:50
Alignment explanation
Indices: 23294173--23294360 Score: 250
Period size: 50 Copynumber: 3.8 Consensus size: 50
23294163 TATTGAAATT
23294173 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * *
23294223 ATGAGAGGTTCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* ** * * * *
23294273 ATGAAAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * *
23294323 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
23294361 ANNNNNNNNN
Statistics
Matches: 118, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 118 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:23297727 original size:11 final size:11
Alignment explanation
Indices: 23297705--23297734 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
23297695 TTTGAATGTT
23297705 CATTGTATGAAA
1 CATTG-ATGAAA
23297717 CATTGATGAAA
1 CATTGATGAAA
23297728 CATTGAT
1 CATTGAT
23297735 ATATTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (11 bp):
CATTGATGAAA
Found at i:23301095 original size:456 final size:456
Alignment explanation
Indices: 23300242--23301128 Score: 1314
Period size: 456 Copynumber: 1.9 Consensus size: 456
23300232 GCCCACCCCG
* * *
23300242 GGAGAGGCTTAAGCTGCCATAGCCTCAAGTTTCAAAGTAGGATGAAGATAATAATGATCAAGAAA
1 GGAGAGGCTTAAGCTACCATAGCCGCAAGCTTCAAAGTAGGATGAAGATAATAATGATCAAGAAA
* * *
23300307 AAGACTACCTATTTTCTTGTCACGTTAACCTTTTATGCCCTCCTCCACAGTACAGGTGTCCTTTC
66 AAGACTACCTATTTTCTTCTCACATCAACCTTTTATGCCCTCCTCCACAGTACAGGTGTCCTTTC
* * * * ***
23300372 CACAGAATTATTTTGTCCTTGTACGTACAGGTTGGTTATACCAGACTGGACAGCTCATGTAATTT
131 CACAGAATTATTCTGACCTTGTACATACAAGTTGGTTATACCAGACTGGACAGCTCACACAATTT
* * * * *
23300437 TAGTTCTTATTCGAACAGCTGTCAGGTGCGGCGACAATTCTGGACGCAATTTGGAATTAATTCAT
196 TAGTTCTTATCCGAACAGCTGTCAGGTGCGACGACAATTCTAGACGCAATATGGAATTAACTCAT
* * *
23300502 GCAGCGACATTAATGCAAAAAGATAGTAAAATTAAGGATAAAATAGGCTAGGATTCACTGAGTTA
261 GCAACAACATTAATGCAAAAAGATAGAAAAATTAAGGATAAAATAGGCTAGGATTCACTGAGTTA
* * **
23300567 TAAAATGTAATTTAATAAACTAAAAATACTAAAATATATGCTAAGGATAACTAAATGGGAACAGT
326 TAAAATGCAATTTAATAAACTAAAAATACTAAAATATATACTAAGGATAACTAAATGGGAACAAA
23300632 TTAACCAATAAGAAAGGAGAAAAACCTATGTTATTTCTAGTGCTTAAGCTGGGAGAGGCTCACCT
391 TTAACCAATAAGAAAGGAGAAAAACCTATGTTATTTCTAGTGCTTAAGCTGGGAGAGGCTCACCT
23300697 A
456 A
*
23300698 GGAGAGGCTTAAGCTACCATAGCCGCAAGCTTC-AAGATAGGATGAAGA-AGATAATGATTAAGA
1 GGAGAGGCTTAAGCTACCATAGCCGCAAGCTTCAAAG-TAGGATGAAGATA-ATAATGATCAAGA
* * *
23300761 AAAAGACTCCCTCTTTTCTTCTCACATCAACCTTTTATGTCCTCCTCCACAGTACAGGTGTCCTT
64 AAAAGACTACCTATTTTCTTCTCACATCAACCTTTTATGCCCTCCTCCACAGTACAGGTGTCCTT
* *
23300826 TCCTCAGAATTATTCT-ACACTTGTACATACAAGTTGGTTATACCAGATTGGACAGCTCACACAA
129 TCCACAGAATTATTCTGAC-CTTGTACATACAAGTTGGTTATACCAGACTGGACAGCTCACACAA
* * * *
23300890 TTTTAGTTCTTATCCGGATAGTTGTCAGGTGCGACGACAATTTTAGACGCAATATGGAATTAACT
193 TTTTAGTTCTTATCCGAACAGCTGTCAGGTGCGACGACAATTCTAGACGCAATATGGAATTAACT
*
23300955 CATGCAATAACATTAATGCAAAAAGATAGAAAAATTAAGGATAAAATAGGCTAGGATTCACT-AG
258 CATGCAACAACATTAATGCAAAAAGATAGAAAAATTAAGGATAAAATAGGCTAGGATTCACTGA-
* * * *
23301019 GTTATAAAATGCAATTTACTAAACTGAAAATGCTAAAATATATACTATGGATAACTAAATGGGAA
322 GTTATAAAATGCAATTTAATAAACTAAAAATACTAAAATATATACTAAGGATAACTAAATGGGAA
* * * *
23301084 CAAATTAACCAATAAGTAATGAGGAAAACCTATGTTCTTTCTAGT
387 CAAATTAACCAATAAGAAAGGAGAAAAACCTATGTTATTTCTAGT
23301129 ATTATCAATA
Statistics
Matches: 383, Mismatches: 44, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
455 6 0.02
456 377 0.98
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (456 bp):
GGAGAGGCTTAAGCTACCATAGCCGCAAGCTTCAAAGTAGGATGAAGATAATAATGATCAAGAAA
AAGACTACCTATTTTCTTCTCACATCAACCTTTTATGCCCTCCTCCACAGTACAGGTGTCCTTTC
CACAGAATTATTCTGACCTTGTACATACAAGTTGGTTATACCAGACTGGACAGCTCACACAATTT
TAGTTCTTATCCGAACAGCTGTCAGGTGCGACGACAATTCTAGACGCAATATGGAATTAACTCAT
GCAACAACATTAATGCAAAAAGATAGAAAAATTAAGGATAAAATAGGCTAGGATTCACTGAGTTA
TAAAATGCAATTTAATAAACTAAAAATACTAAAATATATACTAAGGATAACTAAATGGGAACAAA
TTAACCAATAAGAAAGGAGAAAAACCTATGTTATTTCTAGTGCTTAAGCTGGGAGAGGCTCACCT
A
Found at i:23310481 original size:37 final size:37
Alignment explanation
Indices: 23310431--23310506 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
23310421 CGCCCCTTTC
23310431 CTCGGACTTGGAAGACCCAAGCTTGTATTTCCCTAGA
1 CTCGGACTTGGAAGACCCAAGCTTGTATTTCCCTAGA
23310468 CTCGGACTTGGAAGACCCAAGCTTGTATTTCCCTAGA
1 CTCGGACTTGGAAGACCCAAGCTTGTATTTCCCTAGA
23310505 CT
1 CT
23310507 AAGTTTGAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (37 bp):
CTCGGACTTGGAAGACCCAAGCTTGTATTTCCCTAGA
Found at i:23312292 original size:84 final size:87
Alignment explanation
Indices: 23312178--23312348 Score: 213
Period size: 84 Copynumber: 2.0 Consensus size: 87
23312168 TGCTTTTTTT
*
23312178 CTTTTTATGCACTCAATTGAGCACTCGAACTTTCAAAATGCAT-AAAAAAGCCCTCAAA-ATTCT
1 CTTTTTATGCACTCAATTGAGCACTCGAACTTTCAAAATGCATCAAAAAAACCCTCAAATATTCT
23312241 TCAAAAAA-AATTAAGCCCCTG
66 TCAAAAAACAATTAAGCCCCTG
* * * * * * * * *
23312262 CTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGTATCAAAAAAACCCTTAAATTTTTT
1 CTTTTTATGCACTCAATTGAGCACTCGAACTTTCAAAATGCATCAAAAAAACCCTCAAATATTCT
*
23312327 TCAAAAAAGCAATTAATCCCCT
66 TCAAAAAA-CAATTAAGCCCCT
23312349 ACTCTAATTA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
84 37 0.51
85 13 0.18
86 11 0.15
88 11 0.15
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (87 bp):
CTTTTTATGCACTCAATTGAGCACTCGAACTTTCAAAATGCATCAAAAAAACCCTCAAATATTCT
TCAAAAAACAATTAAGCCCCTG
Found at i:23312704 original size:9 final size:9
Alignment explanation
Indices: 23312686--23312763 Score: 61
Period size: 9 Copynumber: 8.4 Consensus size: 9
23312676 CTTGATAACA
23312686 TTTTATTATT
1 TTTTA-TATT
23312696 TTTTATATT
1 TTTTATATT
23312705 TTTTATGA-T
1 TTTTAT-ATT
**
23312714 TTTTATAAAA
1 TTTTAT-ATT
*
23312724 TTTTAAATTT
1 TTTTATA-TT
23312734 TTTTATATT
1 TTTTATATT
* *
23312743 TTTTACAAT
1 TTTTATATT
23312752 TTTTAT-TT
1 TTTTATATT
23312760 TTTT
1 TTTT
23312764 CTAATTTTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
8 5 0.09
9 33 0.60
10 17 0.31
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (9 bp):
TTTTATATT
Found at i:23312727 original size:28 final size:28
Alignment explanation
Indices: 23312696--23312789 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
23312686 TTTTATTATT
23312696 TTTTATA-TTTTTTATGATTTTTATAAAA
1 TTTTATATTTTTTTAT-ATTTTTATAAAA
* *
23312724 TTTTAAATTTTTTTATATTTTT-TACAA
1 TTTTATATTTTTTTATATTTTTATAAAA
* * *
23312751 TTTT-TATTTTTTTCTAATTTTAATAAAT
1 TTTTATATTTTTTTAT-ATTTTTATAAAA
23312779 TTTTAATATTT
1 TTTT-ATATTT
23312790 GAATTTTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
26 9 0.17
27 13 0.24
28 19 0.35
29 8 0.15
30 5 0.09
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTTATATTTTTTTATATTTTTATAAAA
Found at i:23312744 original size:27 final size:28
Alignment explanation
Indices: 23312703--23312789 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 28
23312693 ATTTTTTATA
*
23312703 TTTTTTATGATTTTTATAAAATTTTAAAT
1 TTTTTTAT-AATTTTATAAAATTTTAAAT
* * *
23312732 TTTTTTAT-ATTTTTTACAATTTT-TAT
1 TTTTTTATAATTTTATAAAATTTTAAAT
* *
23312758 TTTTTTCTAATTTTAATAAATTTTTAATAT
1 TTTTTTATAATTTT-ATAAAATTTTAA-AT
23312788 TT
1 TT
23312790 GAATTTTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
26 9 0.20
27 17 0.38
28 7 0.16
29 8 0.18
30 4 0.09
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTTTTATAATTTTATAAAATTTTAAAT
Found at i:23312754 original size:17 final size:18
Alignment explanation
Indices: 23312734--23312772 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
23312724 TTTTAAATTT
23312734 TTTTATATTTTTTAC-AA
1 TTTTATATTTTTTACTAA
*
23312751 TTTT-TATTTTTTTCTAA
1 TTTTATATTTTTTACTAA
23312768 TTTTA
1 TTTTA
23312773 ATAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATATTTTTTACTAA
Found at i:23312807 original size:54 final size:56
Alignment explanation
Indices: 23312695--23312807 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 56
23312685 ATTTTATTAT
* * * ** *
23312695 TTTTTATATTTTTTATGATTTTTATAAAATTTTAAATTTTTTTATATTTTTTACAA
1 TTTTTATATTTTTTATAATTTTAATAAAATTTTAAATATTTGAATATTTTTTAAAA
* *
23312751 TTTTTAT-TTTTTTCTAATTTTAAT-AAATTTTTAATATTTGAAT-TTTTATTAAAA
1 TTTTTATATTTTTTATAATTTTAATAAAATTTTAAATATTTGAATATTTT-TTAAAA
23312805 TTT
1 TTT
23312808 AATAATATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 4 0.08
54 23 0.48
55 14 0.29
56 7 0.15
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (56 bp):
TTTTTATATTTTTTATAATTTTAATAAAATTTTAAATATTTGAATATTTTTTAAAA
Found at i:23312857 original size:9 final size:9
Alignment explanation
Indices: 23312832--23312861 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
23312822 CTTTAATTGA
23312832 TTTTAATTT
1 TTTTAATTT
23312841 TTTATAATTT
1 TTT-TAATTT
23312851 TTTTAATTT
1 TTTTAATTT
23312860 TT
1 TT
23312862 AATAAAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTAATTT
Found at i:23312977 original size:88 final size:88
Alignment explanation
Indices: 23312874--23313185 Score: 313
Period size: 95 Copynumber: 3.5 Consensus size: 88
23312864 TAAAAGCATG
* * ** * *
23312874 GGCTTCATTGATTTTTTTGAAAAAGTTCAAGGGCCTTTTTGATGCATTTTGAAAGTTCAAATACT
1 GGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACC
*
23312939 CAATTGAGTGCAAAAAAAAAGTA
66 CAAATGAGTGCAAAAAAAAAGTA
* * * * * * *
23312962 GGTTTAGTTGTTTTTTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGAAGTATTTTGAAAGGTC
1 GGCTTAATTG-------CTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
* *
23313027 AAGTACCCAAATGAGTGCAAAAACAAAGCA
59 AAGTACCCAAATGAGTGCAAAAAAAAAGTA
* * * *
23313057 GGCTTAATTACTTTTTTTGAAAAGGTTTGAGGGCGTTTTTGATACATTTTGAAAGTTCAAGTACC
1 GGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACC
* *
23313122 CAAATGAGTG-TAAAAACAAGTA
66 CAAATGAGTGCAAAAAAAAAGTA
* *
23313144 GGGGCTTAATTGCTTTGTTTGAAAAAGTTTTAGGG-CTTTTTG
1 --GGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTG
23313186 CACCCTTAAG
Statistics
Matches: 182, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
87 8 0.04
88 72 0.40
89 29 0.16
95 73 0.40
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (88 bp):
GGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACC
CAAATGAGTGCAAAAAAAAAGTA
Found at i:23313072 original size:95 final size:88
Alignment explanation
Indices: 23312980--23313185 Score: 283
Period size: 88 Copynumber: 2.3 Consensus size: 88
23312970 TGTTTTTTTT
* *
23312980 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGAAGTATTTTGAAAGGTCAAGTACCCAAATGAGTGC
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGAAGCATTTTGAAAGTTCAAGTACCCAAATGAGTGC
23313045 AAAAACAAAGCAGGCTTAATTAC
66 AAAAACAAAGCAGGCTTAATTAC
*
23313068 TTTTTTTGAAAAGGTTTGAGGGCGTTTTTGATA-CATTTTGAAAGTTCAAGTACCCAAATGAGTG
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGA-AGCATTTTGAAAGTTCAAGTACCCAAATGAGTG
* * *
23313132 TAAAAACAAGTAG-GGGCTTAATTGC
65 CAAAAACAA--AGCAGGCTTAATTAC
* * *
23313157 TTTGTTTGAAAAAGTTTTAGGG-CTTTTTG
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTG
23313186 CACCCTTAAG
Statistics
Matches: 105, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
88 73 0.70
89 30 0.29
90 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (88 bp):
TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGAAGCATTTTGAAAGTTCAAGTACCCAAATGAGTGC
AAAAACAAAGCAGGCTTAATTAC
Found at i:23316371 original size:38 final size:38
Alignment explanation
Indices: 23316320--23316408 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 38
23316310 AAACTTACTA
* * *
23316320 TTATTTAGGCTTAGTGCCTAGCAGGCTTAGTGCTGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTCAGTGCCGGTG
*
23316358 TTATTCAGGCTTAGTGCCTAGTAGGCTCAGTGCCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTCAGTGCCGGTG
*
23316396 TTATTCAGACTTA
1 TTATTCAGGCTTA
23316409 TTGTCAGTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (38 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTCAGTGCCGGTG
Found at i:23334445 original size:449 final size:448
Alignment explanation
Indices: 23333598--23334445 Score: 1536
Period size: 449 Copynumber: 1.9 Consensus size: 448
23333588 TTACTGTTTC
* *
23333598 ATTAGGTTTATTTTTTTAAAGCTTTATTTGGGGTATTTTTCTGTAATAATGGCCGCTATGAGTTT
1 ATTAGGTTTATTTTTTTAAAGCTTTATTTGGGGTATTTTTCTGTAATAATGACCACTATGAGTTT
23333663 TTGCTTAAAATTTGGATTTTATACTGCTTTATGTTTTATATCTACTAGAGGTAGATAAAACACGG
66 TTGCTTAAAATTTGGATTTTATACTGCTTTATGTTTTATATCTACTAGAGGTAGATAAAACACGG
*
23333728 GTTTTAAAGGAAATGCATGTGTTTTAGCAAAATACCCACAAGAACACAAACTATTTTAAAAAGCT
131 GTTTTAAAAGAAATGCATGTGTTTTAGCAAAATACCCACAAGAACACAAACTATTTTAAAAAGCT
*
23333793 TCCGCAATGTATAACATTTTGCAAACTAACGACTGAATAAAAATCACTATTTTAGGATTAATAAA
196 TCCGCAACGTATAACATTTTGCAAACTAACGACTGAATAAAAATCACTATTTTAGGATTAATAAA
* *
23333858 AGATAATGACGAGATCTAAACGAAAAATGTTTTAAGCAAAGTTACGATTTTTCAACACGAGCATC
261 AGATAACGACGAGATCTAAACGAAAAATGTTTTAAGCAAAGTTACGATTTTTCAACAAGAGCATC
*
23333923 AGTTTTCAAACACACTATCATGTGACATCGCCAAATTCGGCCATAACGTCCAGGCCGGTTTTGCG
326 AGTTTTCAAACACACTATCATGTGACATCGCCAAATTCGGCCATAACGTCCAGGCCGGGTTTGCG
23333988 GTGTTACATGGAGGACTCAACTGTGGCCACACGACTCTTTTTTTCTGTTTCGTATTTA
391 GTGTTACATGGAGGACTCAACTGTGGCCACACGACTCTTTTTTTCTGTTTCGTATTTA
23334046 ATTAGGTTTA-TTTTTTAAAGCTTTATTTGGGGTATTTTTCTGTAATAATGACCACTATGAGTTT
1 ATTAGGTTTATTTTTTTAAAGCTTTATTTGGGGTATTTTTCTGTAATAATGACCACTATGAGTTT
* * *
23334110 TTGCTTAAAATTTTGATTTTATACTGCTTTATGTTTTATATCTGCTTGAGGTAGATAAAACACGA
66 TTGCTTAAAATTTGGATTTTATACTGCTTTATGTTTTATATCTACTAGAGGTAGATAAAACACG-
23334175 GGTTTGTAAAAGAAATGCATGTGTTTTAGCAAAATACCCACAAGAACACAAACTATTTTAAAAAG
130 GGTTT-TAAAAGAAATGCATGTGTTTTAGCAAAATACCCACAAGAACACAAACTATTTTAAAAAG
* *
23334240 CTTTCGCAACGTATAACATTTTGCAAACTAACTACTGAATAAAAATCACTATTTTAGGATTAATA
194 CTTCCGCAACGTATAACATTTTGCAAACTAACGACTGAATAAAAATCACTATTTTAGGATTAATA
*
23334305 AAAGATAACGACGAGATCTAAACGAAAAATGTTTTAAGCAAAGTTACGGTTTTTCAACAAGAGCA
259 AAAGATAACGACGAGATCTAAACGAAAAATGTTTTAAGCAAAGTTACGATTTTTCAACAAGAGCA
*
23334370 TCAGTTTTCAAACACACTATCATGTGACATCGTCAAATTCGGCCATAACGTCCAGGCCGGGTTTG
324 TCAGTTTTCAAACACACTATCATGTGACATCGCCAAATTCGGCCATAACGTCCAGGCCGGGTTTG
*
23334435 GGGTGTTACAT
389 CGGTGTTACAT
23334446 ATGGACTCAG
Statistics
Matches: 383, Mismatches: 15, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
447 113 0.30
448 15 0.04
449 255 0.67
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (448 bp):
ATTAGGTTTATTTTTTTAAAGCTTTATTTGGGGTATTTTTCTGTAATAATGACCACTATGAGTTT
TTGCTTAAAATTTGGATTTTATACTGCTTTATGTTTTATATCTACTAGAGGTAGATAAAACACGG
GTTTTAAAAGAAATGCATGTGTTTTAGCAAAATACCCACAAGAACACAAACTATTTTAAAAAGCT
TCCGCAACGTATAACATTTTGCAAACTAACGACTGAATAAAAATCACTATTTTAGGATTAATAAA
AGATAACGACGAGATCTAAACGAAAAATGTTTTAAGCAAAGTTACGATTTTTCAACAAGAGCATC
AGTTTTCAAACACACTATCATGTGACATCGCCAAATTCGGCCATAACGTCCAGGCCGGGTTTGCG
GTGTTACATGGAGGACTCAACTGTGGCCACACGACTCTTTTTTTCTGTTTCGTATTTA
Found at i:23345442 original size:16 final size:16
Alignment explanation
Indices: 23345421--23345452 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23345411 GTTTTGTTGC
*
23345421 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
23345437 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
23345453 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:23345797 original size:43 final size:43
Alignment explanation
Indices: 23345749--23345991 Score: 224
Period size: 43 Copynumber: 5.7 Consensus size: 43
23345739 GTTTTTAGAA
*
23345749 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCATTTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* *
23345792 ACAAACGCCGCTAAAG-ACTAAGACCTGTAGCGGCGCTTTTCCT
1 ACAAACGCCGCTAAAGAAC-AAGACCTTTAGCGGCGCTTTTCCC
* * * * * * *
23345835 ACAGATGCCGCTAAAGACCATGACCTATAGCGACGTTTTTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* * * **
23345878 ACAAACGCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTTGTC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGC-TTTTCCC
* ** * * * *
23345922 ACAAACGCCGCTATAGATTAA-ACCTTTTGCGGCACTTCTCAC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
*
23345964 AAAAACGCCGCTAAA-AACATA-ACCTTTA
1 ACAAACGCCGCTAAAGAACA-AGACCTTTA
23345992 AAAAAATTAT
Statistics
Matches: 162, Mismatches: 34, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
41 2 0.01
42 26 0.16
43 111 0.69
44 23 0.14
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
Found at i:23346976 original size:5 final size:5
Alignment explanation
Indices: 23346966--23346992 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23346956 CTTTCTTGCC
23346966 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
23346993 AACAAGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:23347576 original size:14 final size:14
Alignment explanation
Indices: 23347557--23347583 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23347547 ATCAAGAAAA
23347557 AAATTATGTATAAT
1 AAATTATGTATAAT
23347571 AAATTATGTATAA
1 AAATTATGTATAA
23347584 GACTTACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
AAATTATGTATAAT
Found at i:23350180 original size:27 final size:27
Alignment explanation
Indices: 23350123--23350180 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
23350113 ACCCTAACCC
* *
23350123 TTAAACCTTAAACTCCATATATATTAT
1 TTAAACCTTAAACTCCATATATATGAA
23350150 TTAAACCTTAAACTCCATAT-TAATGAA
1 TTAAACCTTAAACTCCATATAT-ATGAA
23350177 TTAA
1 TTAA
23350181 TTGATTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (27 bp):
TTAAACCTTAAACTCCATATATATGAA
Found at i:23351195 original size:26 final size:26
Alignment explanation
Indices: 23351116--23351197 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
23351106 AGCTATCCGG
*
23351116 TACACATAGTAGCTTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
* * ** *
23351142 CACACAT-G-CGACCT--ATCATTTTAG
1 TACACATAGTAG-CCTGCA-CATAGTAC
23351166 TACACATAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
23351192 TACACA
1 TACACA
23351198 CGTGACCATC
Statistics
Matches: 39, Mismatches: 11, Indels: 12
0.63 0.18 0.19
Matches are distributed among these distances:
23 1 0.03
24 12 0.31
25 7 0.18
26 18 0.46
27 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACATAGTAC
Found at i:23354259 original size:15 final size:15
Alignment explanation
Indices: 23354241--23354273 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23354231 TGCTTCCATA
23354241 ATTGATTACATCATC
1 ATTGATTACATCATC
*
23354256 ATTGCTTACATCATC
1 ATTGATTACATCATC
23354271 ATT
1 ATT
23354274 AGTCTGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTGATTACATCATC
Found at i:23356459 original size:17 final size:17
Alignment explanation
Indices: 23356427--23356458 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23356417 CAATTGGAGG
23356427 TTTTTGTTTCTCTTTTC
1 TTTTTGTTTCTCTTTTC
23356444 TTTTTGTTT-TCTTTT
1 TTTTTGTTTCTCTTTT
23356459 TGGGCCTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTTTGTTTCTCTTTTC
Found at i:23357078 original size:150 final size:148
Alignment explanation
Indices: 23356746--23357194 Score: 678
Period size: 150 Copynumber: 3.1 Consensus size: 148
23356736 AGGAAAATTT
*
23356746 TGATTTTTTTTAAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTT
1 TGATTTTTTTTAAAAAAAAGAGAGTTTAGATTTTTAAAAATAAAAATATG-TTTTTAGTCATTTT
* * *
23356811 AAAGGAAAATTTTAAAATTTTAAAGCAAAGTTTTGATCTTTTTGAACTATTTCGAAATAAAGGTT
65 AAAGGAAAATTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCTT
23356876 TGATTTTTAAGAAAAATA-
130 TGATTTTTAAGAAAAATAG
* *
23356894 -GA----TATTAAAAAAAA-AGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCCTTTTA
1 TGATTTTTTTTAAAAAAAAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTA
*
23356953 AAGGAAAATTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGCTTT
66 AAGGAAAATTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTT
23357018 GATTTTTAAGAAAAATAG
131 GATTTTTAAGAAAAATAG
23357036 TGATTTTTTTTAAAAAAAAAAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTT
1 TGATTTTTTTT--AAAAAAAAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTT
* * * * *
23357101 TAAAGGAAAAGTTTAAATTTTTAAAATAAAATTCTGATCTTTTTCAACTATTTCGAAATAAAGCT
64 TAAAGGAAAATTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCT
* * **
23357166 TTAAATTTTAAGAAATGTAG
129 TTGATTTTTAAGAAAAATAG
23357186 TGATTTTTT
1 TGATTTTTT
23357195 AAAAAGAAAA
Statistics
Matches: 273, Mismatches: 19, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
141 92 0.34
142 29 0.11
143 13 0.05
147 5 0.02
149 8 0.03
150 126 0.46
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (148 bp):
TGATTTTTTTTAAAAAAAAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTA
AAGGAAAATTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTT
GATTTTTAAGAAAAATAG
Found at i:23373250 original size:23 final size:23
Alignment explanation
Indices: 23373224--23373269 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
23373214 GACTTAATTG
*
23373224 CATAAAATGAAATGGTTTTACTA
1 CATAAAAGGAAATGGTTTTACTA
23373247 CATAAAAGGAAATGGTTTTACTA
1 CATAAAAGGAAATGGTTTTACTA
23373270 TCTTAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (23 bp):
CATAAAAGGAAATGGTTTTACTA
Found at i:23374524 original size:20 final size:20
Alignment explanation
Indices: 23374476--23374527 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
23374466 AAGCTTATGC
*
23374476 TAAGTAAAAGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
23374496 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
23374516 TAAGTAAATGGA
1 TAAGTAAATGGA
23374528 GTGATTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:23378997 original size:33 final size:33
Alignment explanation
Indices: 23378935--23378997 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
23378925 AAAAAATAAC
* * *
23378935 TTTCTTTTTCTCTTTTCTTCTTCTTCTTCTATA
1 TTTCTTTTTCCCTTTTCATCTTCTACTTCTATA
23378968 TTTCTTTTTCCCTTTTCAATC-TCTACTTCT
1 TTTCTTTTTCCCTTTTC-ATCTTCTACTTCT
23378998 TTTCCCTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (33 bp):
TTTCTTTTTCCCTTTTCATCTTCTACTTCTATA
Done.