Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 64 of 335
Found at i:22423076 original size:21 final size:21
Alignment explanation
Indices: 22423051--22423092 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22423041 TGGCAACTGT
22423051 TTTGTTTTGTTTTGTTTTTCG
1 TTTGTTTTGTTTTGTTTTTCG
22423072 TTTGTTTTGTTTTGTTTTTCG
1 TTTGTTTTGTTTTGTTTTTCG
22423093 ACTTGAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.00, C:0.05, G:0.19, T:0.76
Consensus pattern (21 bp):
TTTGTTTTGTTTTGTTTTTCG
Found at i:22434151 original size:1 final size:1
Alignment explanation
Indices: 22434145--22434169 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
22434135 TTAGGCTGTC
22434145 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
22434170 AAAAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22435141 original size:15 final size:15
Alignment explanation
Indices: 22435123--22435152 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22435113 AAACATTATT
22435123 TTTTAAATAATTTAA
1 TTTTAAATAATTTAA
*
22435138 TTTTAAATATTTTAA
1 TTTTAAATAATTTAA
22435153 ATATTACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAATAATTTAA
Found at i:22437876 original size:2 final size:2
Alignment explanation
Indices: 22437871--22437897 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22437861 ACACACAATC
22437871 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22437898 GACTAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22437945 original size:8 final size:8
Alignment explanation
Indices: 22437903--22437927 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22437893 ATATAGACTA
22437903 AATAAAAT
1 AATAAAAT
22437911 AATAAAAT
1 AATAAAAT
22437919 AATAAAAT
1 AATAAAAT
22437927 A
1 A
22437928 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:22437951 original size:29 final size:31
Alignment explanation
Indices: 22437900--22437972 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
22437890 TATATATAGA
*
22437900 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
22437929 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
22437960 CTAATT-AAATAAT
1 CTAATTAAAATAAT
22437973 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:22437977 original size:29 final size:30
Alignment explanation
Indices: 22437907--22437978 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
22437897 AGACTAAATA
*
22437907 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
22437935 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
22437966 AAATAATTATAAA
1 AAATAATTATAAA
22437979 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:22438237 original size:31 final size:31
Alignment explanation
Indices: 22438180--22438238 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
22438170 CACCCTAGAA
* * *
22438180 ATATTTGCACTATTAGTCCTTCAATTTTTTC
1 ATATTTACACTATTAATCCCTCAATTTTTTC
*
22438211 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAATTTTT
22438239 GAGTATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.27, C:0.20, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAATTTTTTC
Found at i:22439617 original size:3 final size:3
Alignment explanation
Indices: 22439609--22439646 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22439599 AAATAAACAC
22439609 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22439647 TGTGTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22441997 original size:16 final size:17
Alignment explanation
Indices: 22441966--22441998 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22441956 TTCATAAGTA
22441966 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
22441983 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
22441999 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:22442553 original size:46 final size:46
Alignment explanation
Indices: 22442284--22442557 Score: 370
Period size: 46 Copynumber: 6.0 Consensus size: 46
22442274 TTTAACATGA
* * * * *
22442284 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
22442330 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *** *
22442376 TGCCATGGTATCTTTCAACCATGGTCTTATTCATATCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
22442422 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
22442468 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
22442514 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
22442558 AGAGCACACT
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 205 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:22446583 original size:46 final size:44
Alignment explanation
Indices: 22446479--22446586 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22446469 TGTCTTTGAC
** * * *
22446479 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
22446523 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
22446569 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22446587 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:22453818 original size:44 final size:45
Alignment explanation
Indices: 22453765--22453867 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
22453755 TGTCTTTGAC
* ** *
22453765 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATATTATAAT
** *
22453809 ATGGACTTACATGGCTCAACCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATA-TTATAAT
22453855 ATGGACTTACATG
1 ATGGACTTACATG
22453868 GCTCGTTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATATTATAAT
Found at i:22453868 original size:46 final size:44
Alignment explanation
Indices: 22453785--22453871 Score: 138
Period size: 46 Copynumber: 1.9 Consensus size: 44
22453775 ATGAATTATT
*
22453785 CCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAAC
1 CCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAAC
*
22453829 CCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTC
1 CCTGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTC
22453872 GTTTCTGTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 17 0.44
46 22 0.56
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (44 bp):
CCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAAC
Found at i:22456517 original size:28 final size:28
Alignment explanation
Indices: 22456463--22456524 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
22456453 AACATGCCAA
*
22456463 ATACTTATAAAAAATTAATCATCATAAC
1 ATACTTATAAAAAACTAATCATCATAAC
*
22456491 -TACTTATAACTAAACTAATTCA-CATAAC
1 ATACTTATAA-AAAACTAA-TCATCATAAC
22456519 ATACTT
1 ATACTT
22456525 GAAGTATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 9 0.31
28 12 0.41
29 8 0.28
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (28 bp):
ATACTTATAAAAAACTAATCATCATAAC
Found at i:22457014 original size:39 final size:39
Alignment explanation
Indices: 22456928--22457082 Score: 179
Period size: 39 Copynumber: 3.9 Consensus size: 39
22456918 TTAAACCAGT
* * *
22456928 ACAATGCCTGTTAGGCACAAAGCCCGAAT-ATCACCGGC
1 ACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
*
22456966 ACAAAGCCTGCTAGGCACATAGCCCGAATAATTACCGGC
1 ACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* * *
22457005 ACACAGCCTGCTAGGCACATAGCCTGAATAATCACCGAC
1 ACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* **
22457044 ACATAA-CATGCTAGGCACACATAGCCTAAATAATCACCG
1 ACA-AAGCCTGCTAGG--CACATAGCCCGAATAATCACCG
22457083 ACACTTCTAA
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
38 26 0.25
39 54 0.53
40 1 0.01
41 21 0.21
ACGTcount: A:0.35, C:0.31, G:0.18, T:0.16
Consensus pattern (39 bp):
ACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
Found at i:22459956 original size:27 final size:27
Alignment explanation
Indices: 22459918--22459972 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
22459908 ATTCAGGCGA
22459918 GTAAGACCATAGCTGAAAGACGCTATG
1 GTAAGACCATAGCTGAAAGACGCTATG
22459945 GTAAGACCATAGCTGAAAGACGCTATG
1 GTAAGACCATAGCTGAAAGACGCTATG
22459972 G
1 G
22459973 CATTGCGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (27 bp):
GTAAGACCATAGCTGAAAGACGCTATG
Found at i:22459996 original size:72 final size:72
Alignment explanation
Indices: 22459873--22460009 Score: 166
Period size: 72 Copynumber: 1.9 Consensus size: 72
22459863 CCAGAAATGA
* * ** *
22459873 GTAAGACCATAGCTAAAAGACGTTATGGCATCATGATTCAGGCGAGTAAGACCATAGCTGAAAGA
1 GTAAGACCATAGCTAAAAGACGCTATGGCATCACGATTCAAACGAGAAAGACCATAGCTGAAAGA
22459938 CGCTATG
66 CGCTATG
* ** * * * *
22459945 GTAAGACCATAGCTGAAAGACGCTATGGCATTGCGATTCAAATGTGAAAGACCATGGTTGAAAGA
1 GTAAGACCATAGCTAAAAGACGCTATGGCATCACGATTCAAACGAGAAAGACCATAGCTGAAAGA
22460010 TACAATGACA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (72 bp):
GTAAGACCATAGCTAAAAGACGCTATGGCATCACGATTCAAACGAGAAAGACCATAGCTGAAAGA
CGCTATG
Found at i:22460081 original size:46 final size:46
Alignment explanation
Indices: 22459992--22460111 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 46
22459982 TCAAATGTGA
* * * *
22459992 AAGACCATGGTTGAAAGATACAATGACAATATGACAAGGAATGAAT
1 AAGACCATGGTTGAAAGATACAATGGCAACACGACAAGAAATGAAT
* * *
22460038 AAGACTATGGTTGAAAGATACCATGGCAACACGAC-AGAAAATGAGT
1 AAGACCATGGTTGAAAGATACAATGGCAACACGACAAG-AAATGAAT
* * *
22460084 AAGACCATAGTTGAAAGACACTATGGCA
1 AAGACCATGGTTGAAAGATACAATGGCA
22460112 TCATGTTGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
45 2 0.03
46 60 0.97
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACAATGGCAACACGACAAGAAATGAAT
Found at i:22460240 original size:13 final size:13
Alignment explanation
Indices: 22460199--22460241 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
22460189 ATCGATGATG
*
22460199 AATGGTTATATGA
1 AATGGTTGTATGA
* **
22460212 ATTGGTTGTACAA
1 AATGGTTGTATGA
22460225 AATGGTTGTATGA
1 AATGGTTGTATGA
22460238 AATG
1 AATG
22460242 TTTACAAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (13 bp):
AATGGTTGTATGA
Found at i:22460256 original size:26 final size:26
Alignment explanation
Indices: 22460199--22460280 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
22460189 ATCGATGATG
*
22460199 AATGGTTATATGAATTGGTTGTACAA
1 AATGGTTATATGAAATGGTTGTACAA
*
22460225 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTATATGAAATGGTTGTACAA
* *
22460249 GAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTATAT-GAAATGGT-TGTACAA
22460278 AAT
1 AAT
22460281 AGTTGCATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.11
25 5 0.11
26 21 0.46
27 7 0.15
28 3 0.07
29 5 0.11
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (26 bp):
AATGGTTATATGAAATGGTTGTACAA
Found at i:22467742 original size:47 final size:48
Alignment explanation
Indices: 22467673--22467941 Score: 240
Period size: 47 Copynumber: 5.7 Consensus size: 48
22467663 TTATTTGTGT
*
22467673 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGA
* *
22467720 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCGTCGTA-ATGTAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG-AGATG-AGA
* * *
22467767 TC-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAACGAGATG-TA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGA
* * * *
22467811 -TTAGTGTAAGACCATGTTTGGGACGTGACATCGGCA-CGGAGACGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-GAGA--TGAGA
* ** *
22467860 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-T-TA-ATGGATGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGAT-GA-GA
* *
22467907 GCCAATGTAAGACCATGTCTGGGACATGGCATCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
22467942 TATTACACCC
Statistics
Matches: 185, Mismatches: 23, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.05
45 15 0.08
46 63 0.34
47 65 0.35
48 3 0.02
49 1 0.01
50 28 0.15
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGA
Found at i:22467773 original size:46 final size:46
Alignment explanation
Indices: 22467673--22467892 Score: 216
Period size: 46 Copynumber: 4.7 Consensus size: 46
22467663 TTATTTGTGT
* *
22467673 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATCGAGATGAAA
*
22467720 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCGTCGTA-ATGTAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCG-AGATG-AAA
* * *
22467767 TC-AGTGTAAGACATGTCTGGGACATGCATCGGCAACGAGATG-TA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGAAA
* * * *
22467811 -TTAGTGTAAGACCATGTTTGGGACGTGACATCGGCA-CGGAGACGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCATC-GAGA--TGAAA
*
22467860 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
22467893 AACTTAATGG
Statistics
Matches: 146, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 61 0.42
47 30 0.21
48 2 0.01
49 1 0.01
50 26 0.18
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGAAA
Found at i:22470034 original size:18 final size:18
Alignment explanation
Indices: 22469994--22470034 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22469984 TCGGTAATTT
*
22469994 TAAATTTTACAAATTTAA
1 TAAATGTTACAAATTTAA
* *
22470012 GAAATGTTACAAATTTTA
1 TAAATGTTACAAATTTAA
22470030 TAAAT
1 TAAAT
22470035 CATCTTTGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
TAAATGTTACAAATTTAA
Found at i:22471070 original size:3 final size:3
Alignment explanation
Indices: 22471064--22471101 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22471054 AATAATAATA
22471064 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22471102 AGAGAACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:22473028 original size:22 final size:22
Alignment explanation
Indices: 22472989--22473034 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
22472979 TAATCATATA
*
22472989 ATAAATTATTAATATAATTAAT
1 ATAAATTATTAATATAATAAAT
* * *
22473011 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
22473033 AT
1 AT
22473035 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:22473069 original size:16 final size:16
Alignment explanation
Indices: 22473037--22473083 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
22473027 ATAAATATTT
**
22473037 TAATTTTATTTAATAA
1 TAATTTTAAATAATAA
22473053 TAAATTTTAAA-AATAA
1 T-AATTTTAAATAATAA
22473069 TAATTTTAAATAATA
1 TAATTTTAAATAATA
22473084 TTCATCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 9 0.33
16 11 0.41
17 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTTAAATAATAA
Found at i:22473659 original size:21 final size:20
Alignment explanation
Indices: 22473634--22473673 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
22473624 CATCTAAACA
22473634 TAAAAAA-AATATTAATTTTTT
1 TAAAAAATAA-ATT-ATTTTTT
22473655 TAAAAAATAAATTATTTTT
1 TAAAAAATAAATTATTTTT
22473674 CAAAAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 10 0.56
22 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAAAATAAATTATTTTTT
Found at i:22473672 original size:18 final size:18
Alignment explanation
Indices: 22473637--22473680 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
22473627 CTAAACATAA
22473637 AAAAAATATTAATTTTTTT
1 AAAAAATA-TAATTTTTTT
22473656 AAAAAATA-AATTATTTTT
1 AAAAAATATAATT-TTTTT
*
22473674 CAAAAAT
1 AAAAAAT
22473681 CATTTTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 11 0.48
19 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAAATATAATTTTTTT
Found at i:22476723 original size:48 final size:48
Alignment explanation
Indices: 22476668--22476760 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
22476658 AACTCTAGTG
22476668 TTTATGCATTTAGATATACATGTACACACACAAATATATATATATATT
1 TTTATGCATTTAGATATACATGTACACACACAAATATATATATATATT
*
22476716 TTTATGCATTTATATATACATGTACACACACAAATATATATATAT
1 TTTATGCATTTAGATATACATGTACACACACAAATATATATATAT
22476761 GTTTGATGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (48 bp):
TTTATGCATTTAGATATACATGTACACACACAAATATATATATATATT
Found at i:22477843 original size:5 final size:5
Alignment explanation
Indices: 22477834--22477868 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
22477824 CATCACCTGT
* *
22477834 TTTTT TTTTT TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
22477869 GCTTTCAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTTC
Found at i:22479720 original size:156 final size:156
Alignment explanation
Indices: 22479551--22479860 Score: 620
Period size: 156 Copynumber: 2.0 Consensus size: 156
22479541 TGAATAAATC
22479551 TAAGCATTGTATAAAAAAATATTTTAATTAATTATTTATTATACTATTCTATTTATTTTTGTTAG
1 TAAGCATTGTATAAAAAAATATTTTAATTAATTATTTATTATACTATTCTATTTATTTTTGTTAG
22479616 ATTCAATCTTTATAATTAATAATTTCAACTAAAAGTAATAAACATTTACTTTTTATCTTTTGTTT
66 ATTCAATCTTTATAATTAATAATTTCAACTAAAAGTAATAAACATTTACTTTTTATCTTTTGTTT
22479681 TGCTTAGCGGCGGTGTCAGTTTTCTT
131 TGCTTAGCGGCGGTGTCAGTTTTCTT
22479707 TAAGCATTGTATAAAAAAATATTTTAATTAATTATTTATTATACTATTCTATTTATTTTTGTTAG
1 TAAGCATTGTATAAAAAAATATTTTAATTAATTATTTATTATACTATTCTATTTATTTTTGTTAG
22479772 ATTCAATCTTTATAATTAATAATTTCAACTAAAAGTAATAAACATTTACTTTTTATCTTTTGTTT
66 ATTCAATCTTTATAATTAATAATTTCAACTAAAAGTAATAAACATTTACTTTTTATCTTTTGTTT
22479837 TGCTTAGCGGCGGTGTCAGTTTTC
131 TGCTTAGCGGCGGTGTCAGTTTTC
22479861 GAGTTGGCTA
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 154 1.00
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (156 bp):
TAAGCATTGTATAAAAAAATATTTTAATTAATTATTTATTATACTATTCTATTTATTTTTGTTAG
ATTCAATCTTTATAATTAATAATTTCAACTAAAAGTAATAAACATTTACTTTTTATCTTTTGTTT
TGCTTAGCGGCGGTGTCAGTTTTCTT
Found at i:22482460 original size:19 final size:19
Alignment explanation
Indices: 22482436--22482474 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22482426 AACAGGCAAA
22482436 GAAAGCCAAAGAGAGGGGG
1 GAAAGCCAAAGAGAGGGGG
22482455 GAAAGCCAAAGAGAGGGGG
1 GAAAGCCAAAGAGAGGGGG
22482474 G
1 G
22482475 TCAGTTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.49, T:0.00
Consensus pattern (19 bp):
GAAAGCCAAAGAGAGGGGG
Found at i:22484145 original size:17 final size:18
Alignment explanation
Indices: 22484123--22484160 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22484113 AAATATTAAA
22484123 AATAA-TGTGT-TAATTTT
1 AATAATTGTGTAT-ATTTT
22484140 AATAATTGTGTATATTTT
1 AATAATTGTGTATATTTT
22484158 AAT
1 AAT
22484161 TTTAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 13 0.68
19 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
AATAATTGTGTATATTTT
Found at i:22484156 original size:18 final size:17
Alignment explanation
Indices: 22484123--22484160 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22484113 AAATATTAAA
22484123 AATAATGTGTTAATTTT
1 AATAATGTGTTAATTTT
22484140 AATAAT-TGTGTATATTTT
1 AATAATGTGT-TA-ATTTT
22484158 AAT
1 AAT
22484161 TTTAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 8 0.42
18 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (17 bp):
AATAATGTGTTAATTTT
Found at i:22487442 original size:51 final size:51
Alignment explanation
Indices: 22487372--22487470 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
22487362 AAAAAAATTT
* *
22487372 ATGTGAATTCAAATATTAGAATGCATTCTAAAATATATGTAAATTTCAATC
1 ATGTGAATTCAAATATTAGAATGCATCCTAAAATATATATAAATTTCAATC
*
22487423 ATGTGAATTCAAATGTTAGAATGCATCCTAAAATATATATAAATTTCA
1 ATGTGAATTCAAATATTAGAATGCATCCTAAAATATATATAAATTTCA
22487471 GTCAGGAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (51 bp):
ATGTGAATTCAAATATTAGAATGCATCCTAAAATATATATAAATTTCAATC
Found at i:22488727 original size:21 final size:21
Alignment explanation
Indices: 22488686--22488727 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
22488676 GAAAGTGACT
**
22488686 TTATTTATTCTGTAAGTAATA
1 TTATTTATTCTGTAAAAAATA
22488707 TTATTTAATTC-GTAAAAAATA
1 TTATTT-ATTCTGTAAAAAATA
22488728 ATTTTAAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (21 bp):
TTATTTATTCTGTAAAAAATA
Found at i:22504463 original size:30 final size:30
Alignment explanation
Indices: 22504429--22504499 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
22504419 TCATGTGTTA
22504429 CCCGTGTGTCTCACACGGTCCAGTCACAAG
1 CCCGTGTGTCTCACACGGTCCAGTCACAAG
*
22504459 CCCGTGTGTCTCACACGGTCCAGTCACACG
1 CCCGTGTGTCTCACACGGTCCAGTCACAAG
*
22504489 CCTGTGTGTCT
1 CCCGTGTGTCT
22504500 GGCCATGTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.15, C:0.37, G:0.24, T:0.24
Consensus pattern (30 bp):
CCCGTGTGTCTCACACGGTCCAGTCACAAG
Found at i:22509397 original size:4 final size:4
Alignment explanation
Indices: 22509383--22509423 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
22509373 TTTTCTTTTG
*
22509383 TTTA TTTTA TTTA TTTA -TTA TTTA TTTA -TTA TTTA ATTA TT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
22509424 ATTGTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
3 6 0.19
4 22 0.69
5 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:22509405 original size:11 final size:11
Alignment explanation
Indices: 22509389--22509426 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
22509379 TTTGTTTATT
22509389 TTATTTATTTA
1 TTATTTATTTA
22509400 TTATTTATTTA
1 TTATTTATTTA
*
22509411 TTATTTAATTA
1 TTATTTATTTA
22509422 TTATT
1 TTATT
22509427 GTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:22509458 original size:21 final size:22
Alignment explanation
Indices: 22509434--22509486 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
22509424 ATTGTAATAA
*
22509434 TAAATTTTTA-TATT-ATATACT
1 TAAATTTTAAGTATTCATATA-T
*
22509455 TAAATATTAAGTATTCATATAT
1 TAAATTTTAAGTATTCATATAT
22509477 TAATATTTTA
1 TAA-ATTTTA
22509487 TGCATATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 8 0.31
22 8 0.31
23 10 0.38
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAATTTTAAGTATTCATATAT
Found at i:22515057 original size:21 final size:21
Alignment explanation
Indices: 22515018--22515057 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22515008 ATTATCTAAA
**
22515018 TTTAATTAATCATGTTTTAGT
1 TTTAATTAATCATAATTTAGT
*
22515039 TTTAATTAATCTTAATTTA
1 TTTAATTAATCATAATTTA
22515058 CTAAATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTAATTAATCATAATTTAGT
Found at i:22522297 original size:3 final size:3
Alignment explanation
Indices: 22522291--22522320 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22522281 GCTGCTAAGC
22522291 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22522321 ATGATAAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22522490 original size:11 final size:11
Alignment explanation
Indices: 22522474--22522498 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22522464 TTTACAATTT
22522474 TTTAAAATATA
1 TTTAAAATATA
22522485 TTTAAAATATA
1 TTTAAAATATA
22522496 TTT
1 TTT
22522499 TTTAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATATA
Found at i:22527235 original size:17 final size:17
Alignment explanation
Indices: 22527210--22527244 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22527200 AGCCACAAAT
22527210 AAAAAAAAAAGA-GAGC
1 AAAAAAAAAAGATGAGC
22527226 AAAAACAAAAAGATGAGC
1 AAAAA-AAAAAGATGAGC
22527244 A
1 A
22527245 TGAAAGAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 7 0.41
18 5 0.29
ACGTcount: A:0.71, C:0.09, G:0.17, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAGATGAGC
Found at i:22528866 original size:35 final size:35
Alignment explanation
Indices: 22528827--22528910 Score: 111
Period size: 32 Copynumber: 2.5 Consensus size: 35
22528817 ACTAAATAAT
22528827 TATTTTAAAAATTATTATTATTTTTATAGGTAAAA
1 TATTTTAAAAATTATTATTATTTTTATAGGTAAAA
* *
22528862 TATTTT--AAA-TATTATTATTTTTATATGTGAAA
1 TATTTTAAAAATTATTATTATTTTTATAGGTAAAA
*
22528894 TATTTTAATTAATTATT
1 TATTTTAA-AAATTATT
22528911 TCAAATACCA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 27 0.64
33 3 0.07
35 8 0.19
36 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (35 bp):
TATTTTAAAAATTATTATTATTTTTATAGGTAAAA
Found at i:22532154 original size:2 final size:2
Alignment explanation
Indices: 22532147--22532172 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22532137 AAGGTGTACA
22532147 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22532173 TTAGCTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22534763 original size:16 final size:17
Alignment explanation
Indices: 22534732--22534764 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22534722 TTCATAAGTA
22534732 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
22534749 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
22534765 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:22535106 original size:46 final size:46
Alignment explanation
Indices: 22535046--22535365 Score: 405
Period size: 46 Copynumber: 7.0 Consensus size: 46
22535036 TTTGACATGA
* * * *
22535046 TGCCATAGTGTCTTTCAACTATGGTCTTACTAATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTAA-TTTCATATCAGGT
* * * * *
22535092 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTAATTTCATATCAGGT
* * *** *
22535138 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTAATTTCATATCAGGT
* * *
22535184 TGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTAATTTCATATCAGGT
22535230 TGCCATGGTATCTTTCAACCATGGTCTTAC-ACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTA-ATTTCATATCAGGT
*
22535276 TGCCATGCTATCTTTCAACCATGGTCTTAC-ACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTA-ATTTCATATCAGGT
22535322 TGCCATGGTATCTTTCAACCATGGTCTTAC-ACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTA-ATTTCATATCAG
22535366 AGAGCACACT
Statistics
Matches: 250, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 246 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTAATTTCATATCAGGT
Found at i:22535208 original size:92 final size:92
Alignment explanation
Indices: 22535046--22535364 Score: 458
Period size: 92 Copynumber: 3.5 Consensus size: 92
22535036 TTTGACATGA
* * * * *
22535046 TGCCATAGTGTCTTTCAACTATGGTCTTACTAATTTTCTATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAAC
* * *
22535111 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATATCAGGT
* **
22535138 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAAC
*
22535203 AATGGTCTTATTCATTTCATATCAGGT
66 CATGGTCTTATTCATTTCATATCAGGT
* * * *
22535230 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGCTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAAC
**
22535295 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTATTCATTTCATATCAGGT
* *
22535322 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTATCA
22535365 GAGAGCACAC
Statistics
Matches: 205, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 205 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCAGGT
Found at i:22538788 original size:36 final size:35
Alignment explanation
Indices: 22538722--22538789 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
22538712 ATTAGGAAAA
* *
22538722 AAAATTGTAAATTTTTTATAAAAGTCATAAAATAT
1 AAAATTGTAAATTTTATATAAAAATCATAAAATAT
*
22538757 AAAATTGTAAAATTTTATA-AGAAAATTATAAAA
1 AAAATTGT-AAATTTTATATA-AAAATCATAAAA
22538790 AAATGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 9 0.32
36 19 0.68
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (35 bp):
AAAATTGTAAATTTTATATAAAAATCATAAAATAT
Found at i:22538829 original size:9 final size:9
Alignment explanation
Indices: 22538778--22538832 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22538768 ATTTTATAAG
22538778 AAAATTATAAA
1 AAAATTAT--A
22538789 AAAATGTA-A
1 AAAAT-TATA
*
22538798 AAAAATAT-
1 AAAATTATA
22538806 AAAATTCATA
1 AAAATT-ATA
22538816 AAAATTATA
1 AAAATTATA
22538825 AAAATTAT
1 AAAATTAT
22538833 CATACCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 7 0.18
9 18 0.47
10 6 0.16
11 5 0.13
12 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:22539034 original size:20 final size:19
Alignment explanation
Indices: 22539001--22539056 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
22538991 TTGAAAGGCC
22539001 TTTTTGATGCATTTTTATAAA
1 TTTTT-ATG-ATTTTTATAAA
22539022 TTTTTAATGATTTTTATAAA
1 TTTTT-ATGATTTTTATAAA
*
22539042 ATTTTATG-TTTTTAT
1 TTTTTATGATTTTTAT
22539057 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 7 0.21
19 3 0.09
20 15 0.45
21 8 0.24
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTATGATTTTTATAAA
Found at i:22539096 original size:29 final size:28
Alignment explanation
Indices: 22539056--22539118 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 28
22539046 TATGTTTTTA
22539056 TTTTTAA-TTTTTAATAAAATTTAAATAT
1 TTTTTAATTTTTTAATAAAATTT-AATAT
* *
22539084 TTTTTTATATTTTTATTAAAATTTAATAT
1 TTTTTAAT-TTTTTAATAAAATTTAATAT
22539113 TTTTTA
1 TTTTTA
22539119 TAACTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 6 0.20
29 10 0.33
30 14 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTTAATTTTTTAATAAAATTTAATAT
Found at i:22539098 original size:30 final size:28
Alignment explanation
Indices: 22539056--22539153 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 28
22539046 TATGTTTTTA
22539056 TTTTTAATTTTTAATAAAATTTAAATATT
1 TTTTTAATTTTTAATAAAATTT-AATATT
*
22539085 TTTTTATATTTTTATTAAAATTTAATATT
1 TTTTTA-ATTTTTAATAAAATTTAATATT
* * **
22539114 TTTTATAACTTTT-AT-TAATTTTTTATT
1 TTTT-TAATTTTTAATAAAATTTAATATT
22539141 TTTTATAATTTTT
1 TTTT-TAATTTTT
22539154 TGCCATATGT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 21 0.35
28 1 0.02
29 21 0.35
30 17 0.28
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTTTAATTTTTAATAAAATTTAATATT
Found at i:22539126 original size:29 final size:28
Alignment explanation
Indices: 22539056--22539153 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 28
22539046 TATGTTTTTA
*
22539056 TTTTTAATTTTTAATAAAATTTAAATATT
1 TTTTTAATTTTTATTAAAATTT-AATATT
22539085 TTTTTATATTTTTATTAAAATTTAATATT
1 TTTTTA-ATTTTTATTAAAATTTAATATT
* **
22539114 TTTTATAACTTTTATT--AATTTTTTATT
1 TTTT-TAATTTTTATTAAAATTTAATATT
22539141 TTTTATAATTTTT
1 TTTT-TAATTTTT
22539154 TGCCATATGT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
27 21 0.34
29 24 0.39
30 17 0.27
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTTTAATTTTTATTAAAATTTAATATT
Found at i:22539153 original size:9 final size:9
Alignment explanation
Indices: 22539085--22539153 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
22539075 TTTAAATATT
22539085 TTTTTAT-A
1 TTTTTATAA
22539093 TTTTTATTAAA
1 TTTTTA-T-AA
* * *
22539104 ATTTAATAT
1 TTTTTATAA
22539113 TTTTTATAA
1 TTTTTATAA
*
22539122 CTTTTATTAA
1 TTTTTA-TAA
*
22539132 TTTTT-TAT
1 TTTTTATAA
22539140 TTTTTATAA
1 TTTTTATAA
22539149 TTTTT
1 TTTTT
22539154 TGCCATATGT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
8 13 0.28
9 20 0.43
10 8 0.17
11 5 0.11
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:22540214 original size:3 final size:3
Alignment explanation
Indices: 22540206--22540278 Score: 73
Period size: 3 Copynumber: 25.7 Consensus size: 3
22540196 AAAATAGTAA
* * * *
22540206 AAG AAG AAG AAG AA- AAG AAG ATG AAA AAC AAG TAG AAG AAG AAG -AG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
22540252 AAG AAG AAG -AG AAA AAG AAG -AG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
22540279 ATGGAGATGC
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
2 8 0.14
3 49 0.86
ACGTcount: A:0.67, C:0.01, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:22540223 original size:14 final size:14
Alignment explanation
Indices: 22540204--22540272 Score: 77
Period size: 14 Copynumber: 4.9 Consensus size: 14
22540194 ACAAAATAGT
22540204 AAAAGAAGAAGAAG
1 AAAAGAAGAAGAAG
* *
22540218 AAAAGAAGATGAAA
1 AAAAGAAGAAGAAG
*
22540232 AACAAGTAGAAGAAG
1 AA-AAGAAGAAGAAG
*
22540247 AAGAGAAGAAGAAG
1 AAAAGAAGAAGAAG
22540261 AGAAA-AAGAAGA
1 A-AAAGAAGAAGA
22540273 GAAGAAATGG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 32 0.71
15 13 0.29
ACGTcount: A:0.68, C:0.01, G:0.28, T:0.03
Consensus pattern (14 bp):
AAAAGAAGAAGAAG
Found at i:22540225 original size:11 final size:11
Alignment explanation
Indices: 22540209--22540278 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
22540199 ATAGTAAAAG
22540209 AAGAAGAAGAA
1 AAGAAGAAGAA
*
22540220 AAGAAGATG-A
1 AAGAAGAAGAA
* *
22540230 AA-AACAAGTAG
1 AAGAAGAAG-AA
*
22540241 AAGAAGAAGAG
1 AAGAAGAAGAA
22540252 AAGAAGAAGAGA
1 AAGAAGAAGA-A
*
22540264 AA-AAGAAGAG
1 AAGAAGAAGAA
22540274 AAGAA
1 AAGAA
22540279 ATGGAGATGC
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 4 0.09
10 5 0.11
11 31 0.66
12 7 0.15
ACGTcount: A:0.67, C:0.01, G:0.29, T:0.03
Consensus pattern (11 bp):
AAGAAGAAGAA
Found at i:22540285 original size:22 final size:22
Alignment explanation
Indices: 22540206--22540278 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 22
22540196 AAAATAGTAA
22540206 AAGAAGAAGA-AGAAAAGAAGATG
1 AAGAAGAAGAGA-AAAAGAAGA-G
* * *
22540229 AAAAACAAGTAGAAGAAGAAGAG
1 AAGAAGAAG-AGAAAAAGAAGAG
22540252 AAGAAGAAGAGAAAAAGAAGAG
1 AAGAAGAAGAGAAAAAGAAGAG
22540274 AAGAA
1 AAGAA
22540279 ATGGAGATGC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
22 17 0.40
23 15 0.36
24 9 0.21
25 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.29, T:0.03
Consensus pattern (22 bp):
AAGAAGAAGAGAAAAAGAAGAG
Found at i:22541920 original size:20 final size:21
Alignment explanation
Indices: 22541886--22541929 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
22541876 AAACATAATA
22541886 ATAGTATTAAAAAATATATAC
1 ATAGTATTAAAAAATATATAC
22541907 ATAGTATT-AAAAATATATAC
1 ATAGTATTAAAAAATATATAC
22541927 ATA
1 ATA
22541930 ATATATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
ATAGTATTAAAAAATATATAC
Found at i:22541920 original size:47 final size:46
Alignment explanation
Indices: 22541869--22541965 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 46
22541859 TATATACATT
* *
22541869 AAAATATAAACATAATA-ATA-GTATTAAAAAATATATACATAGTATTA
1 AAAATATAAACATAATATATACATATT-AAAAATA-ATA-ATAATATTA
* *
22541916 AAAATATATACATAATATATACATATTAGAAATAATAATAATATTA
1 AAAATATAAACATAATATATACATATTAAAAATAATAATAATATTA
22541962 AAAA
1 AAAA
22541966 CAACTATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
46 12 0.27
47 19 0.43
48 9 0.20
49 4 0.09
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (46 bp):
AAAATATAAACATAATATATACATATTAAAAATAATAATAATATTA
Found at i:22541934 original size:11 final size:11
Alignment explanation
Indices: 22541898--22541940 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
22541888 AGTATTAAAA
22541898 AATATATACAT
1 AATATATACAT
* *
22541909 AGTAT-TA-AA
1 AATATATACAT
22541918 AATATATACAT
1 AATATATACAT
22541929 AATATATACAT
1 AATATATACAT
22541940 A
1 A
22541941 TTAGAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 17 0.65
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (11 bp):
AATATATACAT
Found at i:22541940 original size:58 final size:57
Alignment explanation
Indices: 22541871--22542053 Score: 147
Period size: 58 Copynumber: 3.1 Consensus size: 57
22541861 TATACATTAA
* * *
22541871 AATATAAACATAATA-ATAGTATTAAAAAATATATACATAGTATTAAAAATATATACAT
1 AATATATACATAATAGATA-TATTAAAAAATAAATACATAATATTAAAAATA-ATACAT
* * * * * * * *
22541929 AATATATACATATTAGAAATAATAATAATATTAAAAACA-ACTATTAATAATACTACAT
1 AATATATACATAATAGATATATTAA-AA-AATAAATACATAATATTAAAAATAATACAT
* * * *
22541987 AAATATACACATATATATATATATTAAAAAATACATA-ATAATATTAAAAATACGTACAT
1 -AATATATACATA-ATAGATATATTAAAAAATAAATACATAATATTAAAAATA-ATACAT
22542046 AATATATA
1 AATATATA
22542054 TACATATAAT
Statistics
Matches: 96, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
57 1 0.01
58 46 0.48
59 33 0.34
60 16 0.17
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (57 bp):
AATATATACATAATAGATATATTAAAAAATAAATACATAATATTAAAAATAATACAT
Found at i:22542048 original size:23 final size:21
Alignment explanation
Indices: 22542003--22542054 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
22541993 ACACATATAT
22542003 ATATATATTAAAAAATACATA
1 ATATATATTAAAAAATACATA
22542024 ATA-ATATTAAAAATACGTACATA
1 ATATATATTAAAAA-A--TACATA
22542047 ATATATAT
1 ATATATAT
22542055 ACATATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 10 0.37
21 4 0.15
23 9 0.33
24 4 0.15
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATATATTAAAAAATACATA
Found at i:22542109 original size:27 final size:27
Alignment explanation
Indices: 22542046--22542135 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 27
22542036 ATACGTACAT
*
22542046 AATATATATACATATAATATAGTTATTAAA
1 AATATACATACA-AT-ATATAG-TATTAAA
* *
22542076 AAAATACATACAATATATAGTATTAAG
1 AATATACATACAATATATAGTATTAAA
22542103 AATATAC--ACAATATATATGGTATTAAA
1 AATATACATACAATATATA--GTATTAAA
22542130 AATATA
1 AATATA
22542136 GTATTAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
25 10 0.19
27 25 0.47
28 6 0.11
29 2 0.04
30 10 0.19
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (27 bp):
AATATACATACAATATATAGTATTAAA
Found at i:22542139 original size:14 final size:15
Alignment explanation
Indices: 22542117--22542150 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22542107 TACACAATAT
*
22542117 ATATGGTATT-AAAA
1 ATATAGTATTAAAAA
22542131 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
22542146 ATATA
1 ATATA
22542151 CATATAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:22542184 original size:3 final size:3
Alignment explanation
Indices: 22542170--22542228 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
22542160 ATTGATTAAA
* * * *
22542170 AAT AAT ACT AAT AAT AGT AAT AGT AA- AAT ACT AAT AAAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT
22542216 -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
22542229 GAACGTATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 35 0.80
4 5 0.11
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22542693 original size:22 final size:22
Alignment explanation
Indices: 22542573--22542716 Score: 73
Period size: 22 Copynumber: 6.4 Consensus size: 22
22542563 TTAAAAGAAT
*
22542573 ATATACATAAT-ATAATATTAAGAA
1 ATATA-ATAATAATAA-A-TAATAA
* * *
22542597 AAATAATAATAACAAA-AAAAA
1 ATATAATAATAATAAATAATAA
* * *
22542618 ACTATTAATAATACTATATAATAT
1 A-TA-TAATAATAATAAATAATAA
*
22542642 ATATAAGTATTAAGTAAA-AAT-A
1 ATATAA-TAATAA-TAAATAATAA
**
22542664 ATACTAATGCTAATAAATAATAA
1 ATA-TAATAATAATAAATAATAA
*
22542687 ATATAATAATAAT-AGTAATAAA
1 ATATAATAATAATAAATAAT-AA
22542709 ATATAATA
1 ATATAATA
22542717 GTATACATAT
Statistics
Matches: 92, Mismatches: 18, Indels: 22
0.70 0.14 0.17
Matches are distributed among these distances:
21 14 0.15
22 32 0.35
23 32 0.35
24 14 0.15
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (22 bp):
ATATAATAATAATAAATAATAA
Found at i:22544624 original size:92 final size:90
Alignment explanation
Indices: 22544462--22544871 Score: 342
Period size: 92 Copynumber: 4.8 Consensus size: 90
22544452 TTGATTTTGA
* *
22544462 TGAAAAACAGAAATTAAAAATACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAG
1 TGAAAAACAGAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*** * *
22544527 TTGATTTTTTTTTTTTGAAACATAATT
65 TTGATTTTTTTTTGACG-AACAAAAAT
* *
22544554 TGAAGAACAGAAATTAAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TGAAAAACAGAAATTAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
22544619 TTGA-----TTTTGACGAACAAAAAT
65 TTGATTTTTTTTTGACGAACAAAAAT
* * *
22544640 TAAAAAACAGAAATTGAAAATACCTCACCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAAACAGAAATT-AAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATAT
*
22544704 GAGTTGA--TTTTTTT---GAACAGAAAT
62 GAGTTGATTTTTTTTTGACGAACAAAAAT
* * * *
22544728 T-----A-A-AAT------TACTTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAAACAGAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
22544780 TGA----TTTTTGA-AAACAAAAA-
66 TGATTTTTTTTTGACGAACAAAAAT
* * *
22544799 TAAAAAACAGAAATTGAAAATACCTCAGCATGTCC-GAGGTTCAACTCACCTCTCGCAATATGAG
1 TGAAAAACAGAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
22544863 TTGATTTTT
65 TTGATTTTT
22544872 GAAAAACAGA
Statistics
Matches: 261, Mismatches: 28, Indels: 62
0.74 0.08 0.18
Matches are distributed among these distances:
70 5 0.02
71 2 0.01
72 43 0.16
74 7 0.03
76 1 0.00
77 1 0.00
78 2 0.01
81 2 0.01
82 1 0.00
83 1 0.00
84 32 0.12
85 11 0.04
86 28 0.11
87 9 0.03
88 46 0.18
89 2 0.01
91 8 0.03
92 60 0.23
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (90 bp):
TGAAAAACAGAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTTTGACGAACAAAAAT
Found at i:22544761 original size:160 final size:157
Alignment explanation
Indices: 22544552--22544889 Score: 527
Period size: 160 Copynumber: 2.1 Consensus size: 157
22544542 TGAAACATAA
*
22544552 TTTGAAGAACAGAAATTAAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAGAACAGAAATTAAAATTACCTCAACGCGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
22544617 AGTTGA-TTTTGACGAACAAAAATTAAAAAACAGAAATTGAAAATACCTCACCATGTGAGCCGAG
66 AGTTGATTTTTGA-AAACAAAAA-TAAAAAACAGAAATTGAAAATACCTCACCATGT---CCGAG
22544681 GCTCAACTCACCTCTCGCAATATGAGTTGATT
126 GCTCAACTCACCTCTCGCAATATGAGTTGATT
** * * *
22544713 TTT-TTGAACAGAAATTAAAATTACTTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAGAACAGAAATTAAAATTACCTCAACGCGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* *
22544777 AGTTGATTTTTGAAAACAAAAATAAAAAACAGAAATTGAAAATACCTCAGCATGTCCGAGGTTCA
66 AGTTGATTTTTGAAAACAAAAATAAAAAACAGAAATTGAAAATACCTCACCATGTCCGAGGCTCA
22544842 ACTCACCTCTCGCAATATGAGTTGATT
131 ACTCACCTCTCGCAATATGAGTTGATT
*
22544869 TTTGAAAAACAGAAATTAAAA
1 TTTGAAGAACAGAAATTAAAA
22544890 CATCCGAGTA
Statistics
Matches: 163, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
156 39 0.24
157 14 0.09
159 32 0.20
160 69 0.42
161 9 0.06
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (157 bp):
TTTGAAGAACAGAAATTAAAATTACCTCAACGCGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGAAAACAAAAATAAAAAACAGAAATTGAAAATACCTCACCATGTCCGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATT
Found at i:22544891 original size:84 final size:85
Alignment explanation
Indices: 22544719--22544876 Score: 248
Period size: 84 Copynumber: 1.9 Consensus size: 85
22544709 GATTTTTTTG
* * *
22544719 AACAGAAATTAAAATTACTTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTAAAATTACCTCAACATGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
22544784 TTTTGAAAACAAAAATAAAA
66 TTTTGAAAACAAAAATAAAA
* *
22544804 AACAGAAATTGAAAA-TACCTCAGCATGTC-CGAGGTTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATT-AAAATTACCTCAACATGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
22544867 TTTTTGAAAA
65 TTTTTGAAAA
22544877 ACAGAAATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
84 42 0.63
85 21 0.31
86 4 0.06
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (85 bp):
AACAGAAATTAAAATTACCTCAACATGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAACAAAAATAAAA
Found at i:22546070 original size:55 final size:55
Alignment explanation
Indices: 22546000--22546110 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
22545990 CATCTGTCCA
*
22546000 TGACAGATTGTCTTCAAACATTTTTCTTCGATAAGGTTTAGCTGGTCATATCGAG
1 TGACAGATTGCCTTCAAACATTTTTCTTCGATAAGGTTTAGCTGGTCATATCGAG
*
22546055 TGACAGATTGCCTTCAAACGTTTTTCTTCGATAAGGTTTAGCTGGTCATATCGAG
1 TGACAGATTGCCTTCAAACATTTTTCTTCGATAAGGTTTAGCTGGTCATATCGAG
22546110 T
1 T
22546111 TTGAACCTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (55 bp):
TGACAGATTGCCTTCAAACATTTTTCTTCGATAAGGTTTAGCTGGTCATATCGAG
Found at i:22547405 original size:75 final size:75
Alignment explanation
Indices: 22547282--22547432 Score: 293
Period size: 75 Copynumber: 2.0 Consensus size: 75
22547272 CCCAATCTCC
22547282 ACGGATTTGGTATATCACCAAAGCTGAGTCCCCGTACACCTCTAAGATTTTGACGTTTTGTTCAA
1 ACGGATTTGGTATATCACCAAAGCTGAGTCCCCGTACACCTCTAAGATTTTGACGTTTTGTTCAA
22547347 TAGCAGCACG
66 TAGCAGCACG
*
22547357 ACGGATTTGGTATATCACCAACGCTGAGTCCCCGTACACCTCTAAGATTTTGACGTTTTGTTCAA
1 ACGGATTTGGTATATCACCAAAGCTGAGTCCCCGTACACCTCTAAGATTTTGACGTTTTGTTCAA
22547422 TAGCAGCACG
66 TAGCAGCACG
22547432 A
1 A
22547433 AGTCCTATGA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (75 bp):
ACGGATTTGGTATATCACCAAAGCTGAGTCCCCGTACACCTCTAAGATTTTGACGTTTTGTTCAA
TAGCAGCACG
Found at i:22549633 original size:46 final size:44
Alignment explanation
Indices: 22549529--22549636 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22549519 TGTCTTTGAC
** * * *
22549529 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
22549573 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
22549619 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22549637 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:22556997 original size:46 final size:44
Alignment explanation
Indices: 22556893--22557000 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22556883 TGTCTTTGAC
** * * *
22556893 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
22556937 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
22556983 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22557001 TTTTTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:22566947 original size:26 final size:26
Alignment explanation
Indices: 22566912--22567002 Score: 82
Period size: 26 Copynumber: 3.5 Consensus size: 26
22566902 TAATGTTATC
*
22566912 TATATACATACGTATATA-TATT-AAAA
1 TATATACATA-ATA-ATAGTATTAAAAA
*
22566938 TATAAACATAATAATAGTATTAAAAA
1 TATATACATAATAATAGTATTAAAAA
* *
22566964 TATATACATAATATATACATATTAGAAA
1 TATATACATAATA-ATA-GTATTAAAAA
22566992 TA-ATA-ATAATA
1 TATATACATAATA
22567003 TTAAAAACAA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.05
25 6 0.11
26 31 0.55
27 6 0.11
28 10 0.18
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.35
Consensus pattern (26 bp):
TATATACATAATAATAGTATTAAAAA
Found at i:22567062 original size:23 final size:22
Alignment explanation
Indices: 22567030--22567095 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 22
22567020 TAATACTACA
*
22567030 TAAATATACACATATATATATT
1 TAAAAATACACATATATATATT
*
22567052 TAAAAA-ATACATA-ATA-ATAT
1 TAAAAATACACATATATATAT-T
22567072 TAAAAATACGTACATAATATATAT
1 TAAAAATAC--ACAT-ATATATAT
22567096 ACATATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
19 2 0.06
20 10 0.29
21 7 0.21
22 5 0.15
23 4 0.12
24 1 0.03
25 3 0.09
26 2 0.06
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAAAATACACATATATATATT
Found at i:22567078 original size:19 final size:20
Alignment explanation
Indices: 22567054--22567091 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22567044 TATATATTTA
22567054 AAAAATACATA-ATAATATT
1 AAAAATACATACATAATATT
*
22567073 AAAAATACGTACATAATAT
1 AAAAATACATACATAATAT
22567092 ATATACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAATACATACATAATATT
Found at i:22567150 original size:27 final size:27
Alignment explanation
Indices: 22567087--22567176 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 27
22567077 ATACGTACAT
*
22567087 AATATATATACATATAATATAGTTATTAAA
1 AATATACATACA-AT-ATATAG-TATTAAA
* *
22567117 AAAATACATACAATATATAGTATTAAG
1 AATATACATACAATATATAGTATTAAA
22567144 AATATAC--ACAATATATATGGTATTAAA
1 AATATACATACAATATATA--GTATTAAA
22567171 AATATA
1 AATATA
22567177 GTATTAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
25 10 0.19
27 25 0.47
28 6 0.11
29 2 0.04
30 10 0.19
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (27 bp):
AATATACATACAATATATAGTATTAAA
Found at i:22567180 original size:14 final size:15
Alignment explanation
Indices: 22567158--22567191 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22567148 TACACAATAT
*
22567158 ATATGGTATT-AAAA
1 ATATAGTATTAAAAA
22567172 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
22567187 ATATA
1 ATATA
22567192 CATATAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:22567491 original size:2 final size:2
Alignment explanation
Indices: 22567484--22567528 Score: 56
Period size: 2 Copynumber: 22.5 Consensus size: 2
22567474 AACATTAGAC
* *
22567484 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT A- AT AT AA AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
22567526 AT A
1 AT A
22567529 ACTAATAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:22567636 original size:24 final size:25
Alignment explanation
Indices: 22567500--22567639 Score: 87
Period size: 24 Copynumber: 5.6 Consensus size: 25
22567490 ATATATATAT
* *
22567500 ATATATATATGATA-ATAT-AAA-A
1 ATATATACATAATATATATAAAAGA
**
22567522 ATATATA-ACTAATA-ATATTTAAGA
1 ATATATACA-TAATATATATAAAAGA
*
22567546 ATGTATACATAATATAGTATAAAA-A
1 ATATATACATAATATA-TATAAAAGA
* * *
22567571 ATGTATATATATAAGTAATATATAATATA
1 A--TATATACATAA-T-ATATATAAAAGA
* *
22567600 AAATATACCTAATATAT-TAAAAGA
1 ATATATACATAATATATATAAAAGA
22567624 ATATATACATAATATA
1 ATATATACATAATATA
22567640 ATATTAAGAA
Statistics
Matches: 92, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
21 1 0.01
22 15 0.16
23 2 0.02
24 31 0.34
25 8 0.09
26 6 0.07
27 17 0.18
28 7 0.08
29 5 0.05
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATATATAAAAGA
Found at i:22567643 original size:38 final size:38
Alignment explanation
Indices: 22567524--22567643 Score: 111
Period size: 38 Copynumber: 3.1 Consensus size: 38
22567514 ATATAAAAAT
*
22567524 ATATAACTAATAATATT-TAAGAATGTATACATAATATA
1 ATATAACTAAT-ATATTATAAGAATATATACATAATATA
* ** *
22567562 GTATAAAAAATGTATATATATAAGTAATATATA-AT-ATAAA
1 ATATAACTAA--TATAT-TATAAG-AATATATACATAATATA
* *
22567602 ATATACCTAATATATTAAAAGAATATATACATAATATA
1 ATATAACTAATATATTATAAGAATATATACATAATATA
22567640 ATAT
1 ATAT
22567644 TAAGAAAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
36 8 0.12
37 7 0.11
38 20 0.31
39 4 0.06
40 12 0.19
41 6 0.09
42 7 0.11
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (38 bp):
ATATAACTAATATATTATAAGAATATATACATAATATA
Found at i:22567659 original size:3 final size:3
Alignment explanation
Indices: 22567632--22567778 Score: 52
Period size: 3 Copynumber: 48.0 Consensus size: 3
22567622 GAATATATAC
* * * * * *
22567632 ATA AT- ATA ATA TTA AGA AAA ATA ATA ATA ACA A-A AAA AAA ACTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * *
22567676 TTA ATA ATA CTA TATA ATA TATA TATA AGTA TTA AGTA AAA ATA ATA
1 ATA ATA ATA ATA -ATA ATA -ATA -ATA A-TA ATA A-TA ATA ATA ATA
* * * * *
22567723 CTA ATA CTA ATG CTA ATAA ATA ATA A-A TATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA ATA
22567769 A-A AT- ATA ATA
1 ATA ATA ATA ATA
22567779 GTATACATAT
Statistics
Matches: 107, Mismatches: 25, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
2 9 0.08
3 79 0.74
4 19 0.18
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:22567747 original size:28 final size:26
Alignment explanation
Indices: 22567689--22567778 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 26
22567679 ATAATACTAT
*
22567689 ATAATAT-ATATATAAGTATTAAGTAAAA
1 ATAATATAATA-ATAA-TAGTAA-TAAAA
*
22567717 ATAATACTAATACTAAT-GCTAATAAATA
1 ATAATA-TAATAATAATAG-TAATAAA-A
22567745 ATAAATATAATAATAATAGTAATAAAA
1 AT-AATATAATAATAATAGTAATAAAA
22567772 TATAATA
1 -ATAATA
22567779 GTATACATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
27 9 0.17
28 31 0.60
29 9 0.17
30 3 0.06
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.33
Consensus pattern (26 bp):
ATAATATAATAATAATAGTAATAAAA
Found at i:22567755 original size:22 final size:22
Alignment explanation
Indices: 22567736--22567778 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22567726 ATACTAATGC
22567736 TAATAAATAATAAATATAATAA
1 TAATAAATAATAAATATAATAA
*
22567758 TAAT-AGTAATAAAATATAATA
1 TAATAAATAAT-AAATATAATA
22567779 GTATACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TAATAAATAATAAATATAATAA
Found at i:22568387 original size:2 final size:2
Alignment explanation
Indices: 22568375--22568409 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
22568365 TAGTTAAATA
22568375 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22568410 GCATATAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22571787 original size:43 final size:43
Alignment explanation
Indices: 22571739--22571824 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
22571729 ACTTTCCCAG
22571739 CAACATTCCACTCTTTTTTATATTTCATGAACAATTCTTTCGA
1 CAACATTCCACTCTTTTTTATATTTCATGAACAATTCTTTCGA
*
22571782 CAACATTCCATTCTTTTTTATATTTCATGAACAATTCTTTCGA
1 CAACATTCCACTCTTTTTTATATTTCATGAACAATTCTTTCGA
22571825 TCATACTTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.22, G:0.05, T:0.45
Consensus pattern (43 bp):
CAACATTCCACTCTTTTTTATATTTCATGAACAATTCTTTCGA
Found at i:22580296 original size:131 final size:131
Alignment explanation
Indices: 22580059--22580301 Score: 371
Period size: 131 Copynumber: 1.9 Consensus size: 131
22580049 TAGAAAACAC
* *
22580059 GAGTGAAATTTCAAAGGAATATTTGATTATTTTGAACAAACGGGAACTCGAAACCTAGCACGATA
1 GAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCTAGCACGATA
*
22580124 GGGCACTATTCCCCGAATTGCCAAACATCAAACATCACCTTCGTTTTGAAAAATCTTTAGAGACA
66 GGGCACGATTCCCCGAATTGCCAAACATCAAACATCACCTTCGTTTTGAAAAATCTTTAGAGACA
22580189 T
131 T
* * *
22580190 GAGTGAAATTTCGAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAA-CTCAGCACGAT
1 GAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCT-AGCACGAT
* * * **
22580254 AGGGTACGATTTCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT
65 AGGGCACGATTCCCCGAATTGCCAAACATCAAACATCACCTTCGTTTT
22580302 TAAAGAATTT
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
130 2 0.02
131 98 0.98
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (131 bp):
GAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCTAGCACGATA
GGGCACGATTCCCCGAATTGCCAAACATCAAACATCACCTTCGTTTTGAAAAATCTTTAGAGACA
T
Found at i:22584317 original size:17 final size:17
Alignment explanation
Indices: 22584297--22584332 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
22584287 TAATTAACTT
22584297 AATTAAATTAATT-TCTC
1 AATTAAATT-ATTGTCTC
22584314 AATTAAATTATTGTCTC
1 AATTAAATTATTGTCTC
22584331 AA
1 AA
22584333 CCCAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTAAATTATTGTCTC
Found at i:22584482 original size:14 final size:14
Alignment explanation
Indices: 22584465--22584513 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
22584455 TTTCAATTAT
22584465 TTAATTAATATCAA
1 TTAATTAATATCAA
* *
22584479 TT-A--AATATTAT
1 TTAATTAATATCAA
22584490 TTAATTAATATCAA
1 TTAATTAATATCAA
*
22584504 TTAAATAATA
1 TTAATTAATA
22584514 ATTCAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
11 8 0.30
12 1 0.04
13 1 0.04
14 17 0.63
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAATTAATATCAA
Found at i:22584488 original size:25 final size:25
Alignment explanation
Indices: 22584460--22584510 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
22584450 TCAAATTTCA
22584460 ATTATTTAATTAATATCAATTAAAT
1 ATTATTTAATTAATATCAATTAAAT
22584485 ATTATTTAATTAATATCAATTAAAT
1 ATTATTTAATTAATATCAATTAAAT
22584510 A
1 A
22584511 ATAATTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATTTAATTAATATCAATTAAAT
Found at i:22585835 original size:29 final size:30
Alignment explanation
Indices: 22585800--22585857 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
22585790 ATGGCACATG
*
22585800 GCACATGCATTAA-TTCCTAGGGACATATT
1 GCACATGCATTAATTTCCAAGGGACATATT
*
22585829 GCACATGCATTAATTTCGAAGGGACATAT
1 GCACATGCATTAATTTCCAAGGGACATAT
22585858 CTATTCATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (30 bp):
GCACATGCATTAATTTCCAAGGGACATATT
Found at i:22588072 original size:23 final size:23
Alignment explanation
Indices: 22588046--22588096 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
22588036 AAACATATAA
22588046 TTAATATAAATGTTTTTAATATT
1 TTAATATAAATGTTTTTAATATT
22588069 TTAATATAAATGTTTTTAATATT
1 TTAATATAAATGTTTTTAATATT
22588092 TTAAT
1 TTAAT
22588097 CAATAACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TTAATATAAATGTTTTTAATATT
Found at i:22596928 original size:48 final size:48
Alignment explanation
Indices: 22596774--22596921 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
22596764 ATATATACAC
* **
22596774 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
22596822 GGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
22596870 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
22596918 ATCT
1 ATCT
22596922 TGTACATCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:22598233 original size:26 final size:27
Alignment explanation
Indices: 22598188--22598240 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
22598178 TTAAATTCTG
* *
22598188 GCATGCATTCGGACACTTAAAAATTCA
1 GCATACATTCGAACACTTAAAAATTCA
*
22598215 GCATACATTCGAACA-TTAAAATTTCA
1 GCATACATTCGAACACTTAAAAATTCA
22598241 CTAGCTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
GCATACATTCGAACACTTAAAAATTCA
Found at i:22600588 original size:28 final size:28
Alignment explanation
Indices: 22600545--22600647 Score: 84
Period size: 28 Copynumber: 3.6 Consensus size: 28
22600535 CATGAATCTC
*
22600545 ATTTCACACACTTAGTGCCCATTGACCG
1 ATTTCACACACATAGTGCCCATTGACCG
** *
22600573 ATTTCACACACATAGTGCTCGGTTGA-AG
1 ATTTCACACACATAGTGC-CCATTGACCG
** * *
22600601 AACTCGCACACACAGTGCCTCAATT-ACCG
1 ATTTCACACACATAGTGCC-C-ATTGACCG
*
22600630 ATTTCGCACACATAGTGC
1 ATTTCACACACATAGTGC
22600648 TCGGTTAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
27 1 0.02
28 33 0.58
29 23 0.40
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (28 bp):
ATTTCACACACATAGTGCCCATTGACCG
Found at i:22600640 original size:57 final size:58
Alignment explanation
Indices: 22600569--22600679 Score: 179
Period size: 57 Copynumber: 1.9 Consensus size: 58
22600559 GTGCCCATTG
*
22600569 ACCGATTTCACACACATAGTGCTCGGTT-GAAGAACTCGCACACACAGTGCCTCAATT
1 ACCGATTTCACACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
* * *
22600626 ACCGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 ACCGATTTCACACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
22600680 TAATCATTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 27 0.55
58 22 0.45
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (58 bp):
ACCGATTTCACACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
Found at i:22600667 original size:29 final size:28
Alignment explanation
Indices: 22600579--22600676 Score: 81
Period size: 29 Copynumber: 3.4 Consensus size: 28
22600569 ACCGATTTCA
* * * *
22600579 CACACATAGTGCTCGGTTGAAGAACTCG
1 CACACACAGTGCTCGGTTAAAGAATTTG
** **
22600607 CACACACAGTGCCTCAATTACCG-ATTTCG
1 CACACACAGTG-CTCGGTTAAAGAATTT-G
*
22600636 CACACATAGTGCTCGGTTAAAAGAATTTG
1 CACACACAGTGCTCGGTT-AAAGAATTTG
22600665 CACACACAGTGC
1 CACACACAGTGC
22600677 CTCTAATCAT
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
28 17 0.33
29 31 0.60
30 4 0.08
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (28 bp):
CACACACAGTGCTCGGTTAAAGAATTTG
Found at i:22600669 original size:58 final size:57
Alignment explanation
Indices: 22600545--22600679 Score: 177
Period size: 58 Copynumber: 2.4 Consensus size: 57
22600535 CATGAATCTC
*
22600545 ATTT-CACACACTTAGTGCC-CATTGACCGATTTCACACACATAGTGCTCGGTTGAAGA
1 ATTTGCACACAC--AGTGCCTCATTGACCGATTTCACACACATAGTGCTCGGTTAAAGA
* * *
22600602 ACTCGCACACACAGTGCCTCAATT-ACCGATTTCGCACACATAGTGCTCGGTTAAAAGA
1 ATTTGCACACACAGTGCCTC-ATTGACCGATTTCACACACATAGTGCTCGGTT-AAAGA
22600660 ATTTGCACACACAGTGCCTC
1 ATTTGCACACACAGTGCCTC
22600680 TAATCATTCG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 6 0.09
57 30 0.44
58 32 0.47
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (57 bp):
ATTTGCACACACAGTGCCTCATTGACCGATTTCACACACATAGTGCTCGGTTAAAGA
Found at i:22601016 original size:40 final size:40
Alignment explanation
Indices: 22600959--22601091 Score: 223
Period size: 40 Copynumber: 3.4 Consensus size: 40
22600949 GGATTTTGTC
* *
22600959 CCAGCATGAATGC-CTTCGGGGCTTAGCCCGGATACATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCA
*
22600998 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCA
*
22601038 CCAGCACGAATGCTCTTTGGGACTTAGCCCGGATACATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCA
22601078 CCAGCACGAATGCT
1 CCAGCACGAATGCT
22601092 GTAACACCCC
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.14
40 76 0.86
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCA
Found at i:22602553 original size:28 final size:28
Alignment explanation
Indices: 22602513--22602571 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
22602503 CTACAGTAAC
22602513 TCAAATTTGTCAAGGCTAAATTACTCAT
1 TCAAATTTGTCAAGGCTAAATTACTCAT
22602541 TCAAATTTGTCAAGGCTAAATTACTCAT
1 TCAAATTTGTCAAGGCTAAATTACTCAT
22602569 TCA
1 TCA
22602572 TGATCATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (28 bp):
TCAAATTTGTCAAGGCTAAATTACTCAT
Found at i:22603045 original size:46 final size:46
Alignment explanation
Indices: 22602872--22603041 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
22602862 TGTAACCCGC
* * ** *
22602872 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCAT
* * * *
22602918 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GA--AC-A-TTCGCAT
* * * *
22602968 -C-TCA-CGAACTTAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCAT
22603011 CCATAAGTGAACTCAGACTCAACTCAACGAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAG
22603042 TTCGGATGCT
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.57
47 23 0.23
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCAT
Found at i:22603066 original size:46 final size:45
Alignment explanation
Indices: 22602973--22603058 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
22602963 TACATCTCAC
* * *
22602973 GAACTTAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCG-ACATGCGCAACCATAAGT
* *
22603019 GAACTCAGACTCAACTCAACGAGTTCG-GATGCTCAACCAT
1 GAACTCAGACTCAACTCAACGAGTTCGACATGCGCAACCAT
22603059 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGACATGCGCAACCATAAGT
Found at i:22604388 original size:40 final size:40
Alignment explanation
Indices: 22604333--22604481 Score: 280
Period size: 40 Copynumber: 3.7 Consensus size: 40
22604323 GGCTGTTACA
*
22604333 AATGCTCTTCGGGACTTAGCCCGAATATATCACCAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
*
22604373 AATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
22604413 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
22604453 AATGCTCTTCGGGACTTAGCCCGGATATA
1 AATGCTCTTCGGGACTTAGCCCGGATATA
22604482 ACATACTGAA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
Found at i:22609019 original size:48 final size:48
Alignment explanation
Indices: 22608865--22609012 Score: 206
Period size: 48 Copynumber: 3.1 Consensus size: 48
22608855 ATATATACAC
* * **
22608865 ATCTCATACATATTTCACATTAGCCATTTGGATTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
22608913 GGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
22608961 ATCTCATACATATTTTACATTAGTCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
22609009 ATCT
1 ATCT
22609013 TGTACATCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:22611827 original size:41 final size:42
Alignment explanation
Indices: 22611768--22611847 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
22611758 ATTTTGAGTC
*
22611768 CACACGGCCTGGCACACGGGCGTG-TGATTAGACCGTGTGAAA
1 CACACGGCCTGGCACACGGGCATGTTG-TTAGACCGTGTGAAA
* *
22611810 CACACGG-CTTGCACACGGGCATGTTGTTAGGCCGTGTG
1 CACACGGCCTGGCACACGGGCATGTTGTTAGACCGTGTG
22611848 TCCCCTGCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 25 0.74
42 9 0.26
ACGTcount: A:0.20, C:0.26, G:0.34, T:0.20
Consensus pattern (42 bp):
CACACGGCCTGGCACACGGGCATGTTGTTAGACCGTGTGAAA
Found at i:22614122 original size:10 final size:10
Alignment explanation
Indices: 22614107--22614138 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
22614097 TAAATACAAT
22614107 TAATTAAAGA
1 TAATTAAAGA
22614117 TAATTAAAGA
1 TAATTAAAGA
22614127 TAATTAAA-A
1 TAATTAAAGA
22614136 TAA
1 TAA
22614139 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:22615777 original size:15 final size:14
Alignment explanation
Indices: 22615756--22615806 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 14
22615746 ATTAATATCT
22615756 AAAAATAATAAATA
1 AAAAATAATAAATA
22615770 ATAAAATAATAAGATAA
1 A-AAAATAATAA-AT-A
22615787 AATAAATAA-AAATA
1 AA-AAATAATAAATA
22615801 AAAAAT
1 AAAAAT
22615807 GGGTTGCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.12
14 4 0.12
15 12 0.36
16 5 0.15
17 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAAATAATAAATA
Found at i:22619504 original size:10 final size:10
Alignment explanation
Indices: 22619489--22619520 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
22619479 TAAATACAAT
22619489 TAATTAAAGA
1 TAATTAAAGA
22619499 TAATTAAAGA
1 TAATTAAAGA
22619509 TAATTAAA-A
1 TAATTAAAGA
22619518 TAA
1 TAA
22619521 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:22619546 original size:27 final size:26
Alignment explanation
Indices: 22619516--22619576 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
22619506 AGATAATTAA
22619516 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
** * * *
22619543 AATATTATCTTAATATTAATTATCCT
1 AATAAAATCCTAAAATTAATAATCCT
22619569 AATAAAAT
1 AATAAAAT
22619577 GGAGTCTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:22625070 original size:30 final size:30
Alignment explanation
Indices: 22625034--22625091 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
22625024 TCACGTCTTG
*
22625034 TAATGAATGCT-ATATCATTTAGATATTATA
1 TAATGAATG-TAATAACATTTAGATATTATA
22625064 TAATGAATGTAATAACATTTAGATATTA
1 TAATGAATGTAATAACATTTAGATATTA
22625092 CATTAATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.41
Consensus pattern (30 bp):
TAATGAATGTAATAACATTTAGATATTATA
Found at i:22625175 original size:34 final size:34
Alignment explanation
Indices: 22625110--22625200 Score: 121
Period size: 34 Copynumber: 2.7 Consensus size: 34
22625100 TAGCAGTTTA
* * * *
22625110 TAAAATATTTGATATGTATT-TAATGGTTATTGT
1 TAAAATTTTTTATATGAATTATGATGGTTATTGT
22625143 TAAAATTTTTTATATGAATTATGATGGTTATTGT
1 TAAAATTTTTTATATGAATTATGATGGTTATTGT
* *
22625177 TAATACTTTTTATATGAATTATGA
1 TAAAATTTTTTATATGAATTATGA
22625201 AGTTTATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 17 0.33
34 34 0.67
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (34 bp):
TAAAATTTTTTATATGAATTATGATGGTTATTGT
Found at i:22627112 original size:75 final size:75
Alignment explanation
Indices: 22627017--22627166 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 75
22627007 CAATGGTAGT
* * *
22627017 TCTATAAAATATTGCTATCAGTAGGAGTTTTTTTTAAAACAATTACCTTTGAGAACATCACGTTG
1 TCTAAAAAATATTGCTATCAGTAGGAGTATTTTTTAAAACAACTACCTTTGAGAACATCACGTTG
*
22627082 GAAACAACTA
66 AAAACAACTA
*
22627092 TCTAAAAAATATTGCTATCAGTAGGAGTATTTTTTAAAACAACTACCTTTGAGAACATCATGTTG
1 TCTAAAAAATATTGCTATCAGTAGGAGTATTTTTTAAAACAACTACCTTTGAGAACATCACGTTG
22627157 AAAACAACTA
66 AAAACAACTA
22627167 CCTTAGGGAA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (75 bp):
TCTAAAAAATATTGCTATCAGTAGGAGTATTTTTTAAAACAACTACCTTTGAGAACATCACGTTG
AAAACAACTA
Found at i:22641046 original size:65 final size:65
Alignment explanation
Indices: 22640942--22641072 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
22640932 TACTCAGCAT
22640942 TTCTCTGAGTAATCTAAAACAAGGAACAAGGGAAGGGACTGACTTCAGAGAAATGGTAACAAAAA
1 TTCTCTGAGTAATCTAAAACAAGGAACAAGGGAAGGGACTGACTTCAGAGAAATGGTAACAAAAA
22641007 TTCTCTGAGTAATCTAAAACAAGGAACAAGGGAAGGGACTGACTTCAGAGAAATGGTAACAAAAA
1 TTCTCTGAGTAATCTAAAACAAGGAACAAGGGAAGGGACTGACTTCAGAGAAATGGTAACAAAAA
22641072 T
1 T
22641073 AGATTAGACT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (65 bp):
TTCTCTGAGTAATCTAAAACAAGGAACAAGGGAAGGGACTGACTTCAGAGAAATGGTAACAAAAA
Found at i:22642852 original size:62 final size:62
Alignment explanation
Indices: 22642755--22642877 Score: 246
Period size: 62 Copynumber: 2.0 Consensus size: 62
22642745 CATTTCTTCC
22642755 TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTGA
1 TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTGA
22642817 TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTG
1 TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTG
22642878 CCCTTATTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (62 bp):
TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTGA
Found at i:22645464 original size:22 final size:22
Alignment explanation
Indices: 22645446--22645491 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22645436 ACAAAAATAT
22645446 TTTTTTCCTTCGAAAAAAACAA
1 TTTTTTCCTTCGAAAAAAACAA
22645468 TTTTTTCCTTCGAAAAAAACAA
1 TTTTTTCCTTCGAAAAAAACAA
22645490 TT
1 TT
22645492 GCCTGATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.39
Consensus pattern (22 bp):
TTTTTTCCTTCGAAAAAAACAA
Found at i:22645662 original size:87 final size:88
Alignment explanation
Indices: 22645503--22645676 Score: 226
Period size: 87 Copynumber: 2.0 Consensus size: 88
22645493 CCTGATTTCA
* * * * * ** * *
22645503 TTGTGATCTTATTCTTCTATGATCTAACTATAATGATTCAACTATGCTAGATAAGCGGGGTGTAG
1 TTGTGATCTTATTCTTCTATGATCCAACTATAATAATTCAACCACGCTAGACAAGCAAGATGTAC
22645568 GTTCTTCATATTCATCCCATTCG
66 GTTCTTCATATTCATCCCATTCG
* *
22645591 TTGTGATCTTATTCTTCTAT-ATCCAACTATAGTAA-TCTAACCACGCTAGGCAAGCAAGATGTA
1 TTGTGATCTTATTCTTCTATGATCCAACTATAATAATTC-AACCACGCTAGACAAGCAAGATGTA
22645654 CGTTCTTCATATTCATCCCATTC
65 CGTTCTTCATATTCATCCCATTC
22645677 AATGGCTTGA
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
86 2 0.03
87 52 0.70
88 20 0.27
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (88 bp):
TTGTGATCTTATTCTTCTATGATCCAACTATAATAATTCAACCACGCTAGACAAGCAAGATGTAC
GTTCTTCATATTCATCCCATTCG
Done.