Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 93 of 325
Found at i:29739106 original size:137 final size:137
Alignment explanation
Indices: 29738860--29739136 Score: 545
Period size: 137 Copynumber: 2.0 Consensus size: 137
29738850 AAAAATTTGA
29738860 AAGAAAAACTTTAAGGGCATTTTGGTCATTTGGTTAATAAAAGAATAAAAAGGGAAAAATCAAGA
1 AAGAAAAACTTTAAGGGCATTTTGGTCATTTGGTTAATAAAAGAATAAAAAGGGAAAAATCAAGA
29738925 AAAAATGATGTCCATCTTCTCTTTGGGTGCAAAAATTTGGGGAGTCTCTAGAGCTAGGGTTTTTA
66 AAAAATGATGTCCATCTTCTCTTTGGGTGCAAAAATTTGGGGAGTCTCTAGAGCTAGGGTTTTTA
29738990 ACTTTTC
131 ACTTTTC
29738997 AAGAAAAACTTTAAGGGCATTTTGGTCATTTGGTTAATAAAAGAATAAAAAGGGAAAAATCAAGA
1 AAGAAAAACTTTAAGGGCATTTTGGTCATTTGGTTAATAAAAGAATAAAAAGGGAAAAATCAAGA
*
29739062 AAAAATGATGTCCATCTTCTCTTTGGGTGCCAAAATTTGGGGAGTCTCTAGAGCTAGGGTTTTTA
66 AAAAATGATGTCCATCTTCTCTTTGGGTGCAAAAATTTGGGGAGTCTCTAGAGCTAGGGTTTTTA
29739127 ACTTTTC
131 ACTTTTC
29739134 AAG
1 AAG
29739137 CTTTATTGTA
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 139 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (137 bp):
AAGAAAAACTTTAAGGGCATTTTGGTCATTTGGTTAATAAAAGAATAAAAAGGGAAAAATCAAGA
AAAAATGATGTCCATCTTCTCTTTGGGTGCAAAAATTTGGGGAGTCTCTAGAGCTAGGGTTTTTA
ACTTTTC
Found at i:29746154 original size:29 final size:28
Alignment explanation
Indices: 29746118--29746195 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
29746108 TCATGAGATT
29746118 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
29746148 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
29746175 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
29746196 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:29746467 original size:172 final size:174
Alignment explanation
Indices: 29746148--29746473 Score: 566
Period size: 172 Copynumber: 1.9 Consensus size: 174
29746138 AAATTGTACA
* *
29746148 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
29746213 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
29746278 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
29746322 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
29746387 TGTGC-AACCC-ATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
29746450 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
29746474 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
172 75 0.52
173 5 0.03
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:29766277 original size:39 final size:40
Alignment explanation
Indices: 29766161--29766336 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
29766151 ACCCAAGTAT
29766161 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
29766200 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
29766240 CTTCGGGTCTTAGCCC-GATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * * *
29766279 CTTCGGGACATAGCCCGGATATAGCCACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
29766319 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
29766337 TTATCATCCG
Statistics
Matches: 116, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 43 0.37
40 72 0.62
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:29766293 original size:79 final size:79
Alignment explanation
Indices: 29766161--29766331 Score: 229
Period size: 79 Copynumber: 2.2 Consensus size: 79
29766151 ACCCAAGTAT
* * * *
29766161 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCCGATATAACAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGC
29766225 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
29766240 CTTCGGGTCTTAGCCCGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGATATAA-CAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGC
* *
29766304 CACTCGCACGAATGC
65 AACTCGCACAAATGC
*
29766319 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
29766332 TCCGGTTATC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 79 0.98
80 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCCGATATAACAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:29770081 original size:40 final size:40
Alignment explanation
Indices: 29769762--29770067 Score: 442
Period size: 40 Copynumber: 7.7 Consensus size: 40
29769752 TATTCGGATG
* * * *
29769762 ATAACCGGGCTAAGTCTCAAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
29769802 A-ATTCTGGGCTAAG-CCCGAAGGCATTTGTGCTAGTGACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29769841 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
29769880 ATATCCGGG-TAAGTACCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29769919 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29769959 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
29769999 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
29770039 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
29770068 AGCAAGTAGC
Statistics
Matches: 248, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
38 4 0.02
39 99 0.40
40 145 0.58
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:29775129 original size:47 final size:48
Alignment explanation
Indices: 29775060--29775176 Score: 132
Period size: 48 Copynumber: 2.5 Consensus size: 48
29775050 GTTGCTACAG
* **
29775060 TGTGCCTATGTAAGACCATGTCTAGGA-ATGGCATCGGGGATGATATT
1 TGTGCCTATGTAAGACCATGTCTAGGACATGCCATCGACGATGATATT
* *
29775107 TGTGCC-AGTGTAAGACCATGTCTGGGACATGCCATCGACGATGATATG
1 TGTGCCTA-TGTAAGACCATGTCTAGGACATGCCATCGACGATGATATT
**
29775155 TG-GATTCATGTAAGACCATGTC
1 TGTGCCT-ATGTAAGACCATGTC
29775177 GGGGAAATGG
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
46 1 0.02
47 25 0.42
48 32 0.54
49 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
TGTGCCTATGTAAGACCATGTCTAGGACATGCCATCGACGATGATATT
Found at i:29778319 original size:46 final size:44
Alignment explanation
Indices: 29778252--29778425 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 44
29778242 TGTAACCCGC
29778252 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TT-GCAT
* *
29778298 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CTTGCAT
* *** * *
29778344 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTGCAT
*
29778390 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
29778426 ATGCTCAACA
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.01
45 30 0.28
46 46 0.43
47 28 0.26
48 2 0.02
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTGCAT
Found at i:29778418 original size:92 final size:93
Alignment explanation
Indices: 29778260--29778429 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
29778250 GCCCATAAGT
* *
29778260 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29778325 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
29778353 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29778417 CGAGTTCGGATGC
66 CGAGCTCGGATGC
29778430 TCAACAATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 43 0.59
93 30 0.41
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:29780824 original size:15 final size:15
Alignment explanation
Indices: 29780800--29780862 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
29780790 AGAAAACCGA
29780800 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
29780815 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
29780829 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
29780845 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
29780860 ATA
1 ATA
29780863 CGATACTATG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 2 0.05
15 36 0.92
16 1 0.03
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:29780833 original size:30 final size:29
Alignment explanation
Indices: 29780789--29780853 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
29780779 CAAAGATAAC
29780789 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAAACCGAATAAAGAAATCCAAGATA
* * * *
29780818 GAGAAATCCAGAATAAAGAGATCCAGGATA
1 AAGAAAACC-GAATAAAGAAATCCAAGATA
29780848 AAGAAA
1 AAGAAA
29780854 CCCAAGATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.58, C:0.12, G:0.18, T:0.11
Consensus pattern (29 bp):
AAGAAAACCGAATAAAGAAATCCAAGATA
Found at i:29783945 original size:93 final size:93
Alignment explanation
Indices: 29783786--29783955 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
29783776 CCCATAAGTG
* * * *
29783786 AACTCGGACTCAACTCAACGAGCTCGGGCGTTTGTATCCACAAGTGAACTCGGGCTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCACAAGTGAACTCGGACTCAACTCAAC
29783851 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* *
29783879 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCACAAGTGAACTCGGACTCAACTCAAC
*
29783944 GAGTTCGGATGC
66 GAGCTCGGATGC
29783956 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCACAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:29783952 original size:46 final size:46
Alignment explanation
Indices: 29783777--29783952 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
29783767 TGTAACCCGC
* * *
29783777 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
29783823 CCACAAGTGAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
29783873 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
29783916 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
29783953 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 9 0.08
44 1 0.01
46 62 0.58
47 26 0.24
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:29791931 original size:53 final size:54
Alignment explanation
Indices: 29791752--29791975 Score: 206
Period size: 53 Copynumber: 4.2 Consensus size: 54
29791742 ATTAGGGTTT
* * * * *
29791752 AAAGGATACCAAGTAATACCATGGCAAGTCATGG-AATTGGTAAGTTCTACAAGG
1 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTCTATAAGG
* * * * * * * *
29791806 CAAGGAAATCATGTAAGAGCATGTCAAGACATGGCATTGATAAACTACTATAAGG
1 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCTATAAGG
* * * *
29791861 CAAA-GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGG
1 -AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGG
* * *
29791914 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATAGTAAGTT-AAAAAGG
1 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGG
29791967 AAAGG-TACC
1 AAAGGATACC
29791976 TGTGTATCCT
Statistics
Matches: 134, Mismatches: 31, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
52 7 0.05
53 53 0.40
54 32 0.24
55 40 0.30
56 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (54 bp):
AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGG
Found at i:29792192 original size:22 final size:22
Alignment explanation
Indices: 29792166--29792209 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
29792156 CTCTCTTTTT
*
29792166 TATAGTATCGCAAAGCAAACTA
1 TATAGTATCACAAAGCAAACTA
*
29792188 TATAGTATCACAAAGCGAACTA
1 TATAGTATCACAAAGCAAACTA
29792210 GGAAAATCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (22 bp):
TATAGTATCACAAAGCAAACTA
Found at i:29795860 original size:42 final size:42
Alignment explanation
Indices: 29795775--29795916 Score: 162
Period size: 44 Copynumber: 3.3 Consensus size: 42
29795765 AACATTTCAA
* * **
29795775 ACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAG
1 ACGTGGTCTTACAAGAAATCAAATA-CGATGCCAACGTCCCAG
*
29795818 ACAG-GGTCTTACAAGAAATCAAATACGATGCCAACATCCCAG
1 AC-GTGGTCTTACAAGAAATCAAATACGATGCCAACGTCCCAG
* *
29795860 ACGTTGTCTTACACATAAATCATAAGT-CGATGCCAACGTCCCAG
1 ACGTGGTCTTACA-AGAAATCA-AA-TACGATGCCAACGTCCCAG
29795904 ACGTGGTCTTACA
1 ACGTGGTCTTACA
29795917 CGATAACACA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 24 0.28
43 28 0.33
44 31 0.36
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ACGTGGTCTTACAAGAAATCAAATACGATGCCAACGTCCCAG
Found at i:29795880 original size:43 final size:43
Alignment explanation
Indices: 29795760--29795922 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
29795750 AGCTTGTACA
** * **
29795760 ATGCCAACATTTCAAACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACATAAATCAAATA-CG
*** *
29795803 ATGCCATTGTCCCAGACAG-GGTCTTACA-AGAAATCAAATACG
1 ATGCCAACATCCCAGAC-GTGGTCTTACACATAAATCAAATACG
*
29795845 ATGCCAACATCCCAGACGTTGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACATCCCAGACGTGGTCTTACACATAAATCA-AA-TACG
*
29795889 ATGCCAACGTCCCAGACGTGGTCTTACACGATAA
1 ATGCCAACATCCCAGACGTGGTCTTACAC-ATAA
29795923 CACATATCAG
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 24 0.24
43 36 0.37
44 32 0.33
45 5 0.05
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACACATAAATCAAATACG
Found at i:29811046 original size:42 final size:42
Alignment explanation
Indices: 29810962--29811046 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
29810952 CGTCGCTTAC
** * *
29810962 TTGATGCCATAGTCCAACTATGGTCTTACATGAAGTCTCATA
1 TTGATGCCATAGTCCAACTATGGTCTTACACAAAATCACATA
29811004 TTGATGCCAT-GTCCTAGAC-ATGGTCTTACACAAAATCACATA
1 TTGATGCCATAGTCC-A-ACTATGGTCTTACACAAAATCACATA
29811046 T
1 T
29811047 CAATGCCAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 4 0.11
42 31 0.84
43 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
TTGATGCCATAGTCCAACTATGGTCTTACACAAAATCACATA
Found at i:29811185 original size:37 final size:37
Alignment explanation
Indices: 29811101--29811203 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 37
29811091 ATATCGATGC
** *
29811101 CAATGCCATCCCCCAGAC-ATGGTCTTACATGGGATCA
1 CAATGCCATAGCCCA-ACTATGGTCTTACATGGCATCA
* *
29811138 CAATGCCATAGCCCAACTATGGTCTTACATGTCATTA
1 CAATGCCATAGCCCAACTATGGTCTTACATGGCATCA
* * * *
29811175 CGATGTCATAGCCTAGCTATGGTCTTACA
1 CAATGCCATAGCCCAACTATGGTCTTACA
29811204 CGTGCTCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 2 0.04
37 54 0.96
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (37 bp):
CAATGCCATAGCCCAACTATGGTCTTACATGGCATCA
Found at i:29816818 original size:30 final size:30
Alignment explanation
Indices: 29816784--29816844 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29816774 TCCTTAACTC
29816784 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
29816814 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
29816844 A
1 A
29816845 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:29821943 original size:20 final size:20
Alignment explanation
Indices: 29821918--29821958 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29821908 AAGTTTTGCA
29821918 ACTTATTCAATTTAGTCCCT
1 ACTTATTCAATTTAGTCCCT
29821938 ACTTATTCAATTTAGTCCCT
1 ACTTATTCAATTTAGTCCCT
29821958 A
1 A
29821959 ACTTCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (20 bp):
ACTTATTCAATTTAGTCCCT
Found at i:29827897 original size:27 final size:27
Alignment explanation
Indices: 29827859--29827941 Score: 166
Period size: 27 Copynumber: 3.1 Consensus size: 27
29827849 TCATAATTAC
29827859 ATAGTTCCTAGTGACATGTCACATTGT
1 ATAGTTCCTAGTGACATGTCACATTGT
29827886 ATAGTTCCTAGTGACATGTCACATTGT
1 ATAGTTCCTAGTGACATGTCACATTGT
29827913 ATAGTTCCTAGTGACATGTCACATTGT
1 ATAGTTCCTAGTGACATGTCACATTGT
29827940 AT
1 AT
29827942 CCTAAATTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
ATAGTTCCTAGTGACATGTCACATTGT
Found at i:29833144 original size:43 final size:43
Alignment explanation
Indices: 29833082--29833421 Score: 303
Period size: 43 Copynumber: 8.0 Consensus size: 43
29833072 TGTGATTCCA
* * *
29833082 ATATGTGATTACGTGTAAGATCACGTCTGAGATGTTGGCATTG
1 ATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCG
* *
29833125 ATATGTGATTACGTATAAGACCACGT-TTAGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGA-GACGTTGGCATCG
* * * * *
29833168 ATGTGTGATTAAGTGTAAGACCACGTTTGAGACATTGGCATTG
1 ATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCG
* ** *
29833211 ATATGTGATTACGCGTAAGACCTTGTCTGGGACAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGAGAC-GTTGGCATCG
* * * *
29833254 ATATGTGATTACGTGTAAGACCACATCTGGGACATTGGCATCA
1 ATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCG
* * * * * * *
29833297 ATATGTGATTACATGTAAGACTATGTCTGGGACATCGGTATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCG
* * *** *
29833340 -TATTTGATT-TGTGTAAGACCTTTTCTGGGACAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGAGAC-GTTGGCATCG
* * * *
29833381 ATATGTGATTACATGTAAGACTACGTCTGGGACATTGGCAT
1 ATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCAT
29833422 TGTACGATAT
Statistics
Matches: 239, Mismatches: 50, Indels: 16
0.78 0.16 0.05
Matches are distributed among these distances:
41 23 0.10
42 18 0.08
43 196 0.82
44 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCG
Found at i:29833314 original size:129 final size:129
Alignment explanation
Indices: 29833082--29833421 Score: 400
Period size: 129 Copynumber: 2.7 Consensus size: 129
29833072 TGTGATTCCA
* ** * * * *
29833082 ATATGTGATTACGTGTAAGATCACGTCTGAGA-TGTTGGCATTGATATGTGATTACGTATAAGAC
1 ATATGTGATTACGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATGTGATTACGTGTAAGAC
* * * * * * * *
29833146 CACGTTTAGGACGTTGGCATCGATGTGTGATTAAGTGTAAGACCACGTTTGAGACATTGGCATTG
65 CACGTCTGGGACATTGGCATCAATATGTGATTAAGTGTAAGACCACGTCTGAGACATCGGCATCG
*
29833211 ATATGTGATTACGCGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACC
1 ATATGTGATTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACC
* * * * *
29833276 ACATCTGGGACATTGGCATCAATATGTGATTACA-TGTAAGACTATGTCTGGGACATCGGTATCG
66 ACGTCTGGGACATTGGCATCAATATGTGATTA-AGTGTAAGACCACGTCTGAGACATCGGCATCG
* * * * *
29833340 -TATTTGATT-TGTGTAAGACCTTTTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACT
1 ATATGTGATTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACC
29833403 ACGTCTGGGACATTGGCAT
66 ACGTCTGGGACATTGGCAT
29833422 TGTACGATAT
Statistics
Matches: 181, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
127 67 0.37
128 8 0.04
129 104 0.57
130 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (129 bp):
ATATGTGATTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACC
ACGTCTGGGACATTGGCATCAATATGTGATTAAGTGTAAGACCACGTCTGAGACATCGGCATCG
Found at i:29833385 original size:84 final size:85
Alignment explanation
Indices: 29833082--29833421 Score: 344
Period size: 86 Copynumber: 4.0 Consensus size: 85
29833072 TGTGATTCCA
* * * ** * * * *
29833082 ATATGTGATTACGTGTAAGATCACGTCTGAGATGTTGGCATTGATATGTGATTACGTATAAGACC
1 ATATGTGATTACGTGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTACATGTAAGACT
* * * *
29833147 ACGTTTAGGACGTTGGCATCG
66 ATGTCTGGGAC-ATGGCATCG
* * * * * * **
29833168 ATGTGTGATTAAGTGTAAGACCACGTTTGAGACATTGGCATTGATATGTGATTACGCGTAAGACC
1 ATATGTGATTACGTGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTACATGTAAGA-C
29833233 T-TGTCTGGGACAGTGGCATCG
65 TATGTCTGGGACA-TGGCATCG
*
29833254 ATATGTGATTACGTGTAAGACCACATCTGGGACATTGGCATCAATATGTGATTACATGTAAGACT
1 ATATGTGATTACGTGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTACATGTAAGACT
*
29833319 ATGTCTGGGACATCGGTATCG
66 ATGTCTGGGACAT-GGCATCG
* * *** *
29833340 -TATTTGATT-TGTGTAAGACCTTTTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACT
1 ATATGTGATTACGTGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTACATGTAAGACT
*
29833403 ACGTCTGGGACATTGGCAT
66 ATGTCTGGGACA-TGGCAT
29833422 TGTACGATAT
Statistics
Matches: 217, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
84 63 0.29
85 12 0.06
86 141 0.65
87 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (85 bp):
ATATGTGATTACGTGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTACATGTAAGACT
ATGTCTGGGACATGGCATCG
Found at i:29836068 original size:23 final size:23
Alignment explanation
Indices: 29836038--29836084 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
29836028 GAAATAAAAA
29836038 GGTAGCTTTAGTAAAAGTTCTTT
1 GGTAGCTTTAGTAAAAGTTCTTT
29836061 GGTAGCTTTAGTAAAAGTTCTTT
1 GGTAGCTTTAGTAAAAGTTCTTT
29836084 G
1 G
29836085 CCAACGACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (23 bp):
GGTAGCTTTAGTAAAAGTTCTTT
Found at i:29841638 original size:35 final size:35
Alignment explanation
Indices: 29841592--29841663 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
29841582 GTATGTGTTC
*
29841592 TTTTACAAGCGAATTGGGGCAAACTGTGCCTAGGT
1 TTTTACAAGCGAATTGGGACAAACTGTGCCTAGGT
29841627 TTTTACAAGCGAATTGGGACAAACTGTGCCTAGGT
1 TTTTACAAGCGAATTGGGACAAACTGTGCCTAGGT
29841662 TT
1 TT
29841664 AGGGTAACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (35 bp):
TTTTACAAGCGAATTGGGACAAACTGTGCCTAGGT
Found at i:29842449 original size:47 final size:47
Alignment explanation
Indices: 29842395--29842488 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
29842385 GAATAGAGGA
29842395 AGTTGGACGCCATCTGCTTGACCGATGGTTTATCCATAACATATTTT
1 AGTTGGACGCCATCTGCTTGACCGATGGTTTATCCATAACATATTTT
*
29842442 AGTTGGACGCCATCTGCTTGATCGATGGTTTATCCATAACATATTTT
1 AGTTGGACGCCATCTGCTTGACCGATGGTTTATCCATAACATATTTT
29842489 TGTCAGCTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (47 bp):
AGTTGGACGCCATCTGCTTGACCGATGGTTTATCCATAACATATTTT
Found at i:29843506 original size:27 final size:27
Alignment explanation
Indices: 29843476--29843626 Score: 121
Period size: 27 Copynumber: 5.6 Consensus size: 27
29843466 TTAGTTTACC
*
29843476 AAATTGCCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCTCTGGTTTGTA
* *
29843503 AAATTACTAAAATACC-CTTGGTTTATA
1 AAATTACCAAAATACCTC-TGGTTTGTA
* *
29843530 AAATTACCCAAATATCCT-TGATTTGTA
1 AAATTACCAAAATA-CCTCTGGTTTGTA
* * *
29843557 AAATTACCGAAATACC-CTCAGTTTGCA
1 AAATTACCAAAATACCTCT-GGTTTGTA
** **
29843584 AAATTACTGAAATACCCTCT-ACTTGTA
1 AAATTACCAAAATA-CCTCTGGTTTGTA
*
29843611 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
29843627 CTCGATTTAT
Statistics
Matches: 99, Mismatches: 18, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
26 6 0.06
27 87 0.88
28 4 0.04
29 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCTCTGGTTTGTA
Found at i:29843543 original size:54 final size:55
Alignment explanation
Indices: 29843476--29843643 Score: 171
Period size: 54 Copynumber: 3.1 Consensus size: 55
29843466 TTAGTTTACC
* * * *
29843476 AAATTGCCAAAATA-CCTCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCTGATTTGTAAAATTACCAAAATACCCTCGGTTTATA
* * * * **
29843530 AAATTACCCAAATATCCT-TGATTTGTAAAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCAAAATACCCTCTGATTTGTAAAATTACCAAAATACCCTCGGTTTATA
** * * *
29843584 AAATTACTGAAATACCCTCT-ACTTGTAAAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCTGATTTGTAAAATTACCAAAATACCCTCGGTTTATA
*
29843638 GAATTA
1 AAATTA
29843644 TCGTTTTACC
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
54 88 0.96
55 4 0.04
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (55 bp):
AAATTACCAAAATACCCTCTGATTTGTAAAATTACCAAAATACCCTCGGTTTATA
Found at i:29843839 original size:27 final size:27
Alignment explanation
Indices: 29843623--29843897 Score: 345
Period size: 27 Copynumber: 10.2 Consensus size: 27
29843613 ATTACCAAAG
*
29843623 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
29843650 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
29843677 TACCCTCGATCTACAGAACTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
29843704 TACCCTCGATTTACAGAACTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
29843731 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
29843758 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
29843785 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
29843812 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
29843839 TACCCTTGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * **
29843866 TACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
29843893 TACCC
1 TACCC
29843898 CTAGGGTGTG
Statistics
Matches: 223, Mismatches: 24, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
27 222 1.00
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:29844249 original size:33 final size:32
Alignment explanation
Indices: 29844200--29844263 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
29844190 CTCACTGCAA
* *
29844200 TCTGGTGGCTTTGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
29844233 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
29844264 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:29844442 original size:6 final size:6
Alignment explanation
Indices: 29844404--29844524 Score: 77
Period size: 6 Copynumber: 19.7 Consensus size: 6
29844394 TGCACTCACC
* * * *
29844404 TTCTGA TTTTGA TTCTG- TTACCTGA TACTGA TTCTGA TTCTAA TTCAG-
1 TTCTGA TTCTGA TTCTGA TT--CTGA TTCTGA TTCTGA TTCTGA TTCTGA
* * * *
29844452 TCACCTAA TTTTGA TTCTGA TTCTGA TTCTGA TTCTG- TCACCTGA TTCTGA
1 T--TCTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA T--TCTGA TTCTGA
* *
29844503 TTCTGA TTCTCA TTTTGA TTCT
1 TTCTGA TTCTGA TTCTGA TTCT
29844525 AGTTTTGATA
Statistics
Matches: 86, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
5 4 0.05
6 72 0.84
7 7 0.08
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
TTCTGA
Found at i:29844442 original size:31 final size:31
Alignment explanation
Indices: 29844404--29844512 Score: 107
Period size: 31 Copynumber: 3.5 Consensus size: 31
29844394 TGCACTCACC
*
29844404 TTCTGATTTTGATTCTGTTACCTGATACTGA
1 TTCTGATTCTGATTCTGTTACCTGATACTGA
* * * * **
29844435 TTCTGATTCTAATTCAGTCACCTAATTTTGA
1 TTCTGATTCTGATTCTGTTACCTGATACTGA
29844466 TTCTGATTCTGATTCTGATT--CTG-TCACCTGA
1 TTCTGATTCTGATTCTG-TTACCTGAT-A-CTGA
29844497 TTCTGATTCTGATTCT
1 TTCTGATTCTGATTCT
29844513 CATTTTGATT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
29 1 0.02
30 2 0.03
31 58 0.94
32 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
TTCTGATTCTGATTCTGTTACCTGATACTGA
Found at i:29844522 original size:37 final size:37
Alignment explanation
Indices: 29844404--29844524 Score: 137
Period size: 37 Copynumber: 3.4 Consensus size: 37
29844394 TGCACTCACC
* *
29844404 TTCTGATTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGA
* * *
29844441 TTCT-A-----ATTCAGTCACCTAATTTTGATTCTGA
1 TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGA
*
29844472 TTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGA
1 TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGA
*
29844509 TTCTCATTTTGATTCT
1 TTCTGATTTTGATTCT
29844525 AGTTTTGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
31 25 0.37
32 1 0.01
36 1 0.01
37 41 0.60
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (37 bp):
TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGA
Found at i:29853486 original size:125 final size:126
Alignment explanation
Indices: 29853260--29853602 Score: 571
Period size: 125 Copynumber: 2.7 Consensus size: 126
29853250 TTATAGCCTC
* *
29853260 ATTTTTCTACGAACTACTGTATCAAAAGAGCATCCAAGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* * * *
29853325 ACAGTGCATCCTACTTGAAGCATTTTTGGCACTATTTGTTCAGAAACATCTACTCATAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACATCTACTCAGAATT
* * *
29853386 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGC-TTTTCTACAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* **
29853450 ATAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAATGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACATCTACTCAGAATT
29853511 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
29853576 ACAGTGCATCCTGCTTGAAGCGTTTTC
66 ACAGTGCATCCTGCTTGAAGCGTTTTC
29853603 TGAAACTATG
Statistics
Matches: 200, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 115 0.57
126 85 0.43
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACATCTACTCAGAATT
Found at i:29854603 original size:21 final size:21
Alignment explanation
Indices: 29854544--29854590 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
29854534 TTGAGAGAAA
* * *
29854544 ATAAAAATATATAAAATTATC
1 ATAAAAATAAACAATATTATC
29854565 ATAAAAATAAACAATATTATC
1 ATAAAAATAAACAATATTATC
29854586 ATAAA
1 ATAAA
29854591 TGTAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAAAAATAAACAATATTATC
Found at i:29860201 original size:43 final size:43
Alignment explanation
Indices: 29860138--29860219 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
29860128 CATGAATTGA
* * *
29860138 ATCCATTATGAACTCAGACCTCTCCACGAGCTCGGATGCTCGC
1 ATCCATAATGAACTCAGACCTCTCAACGAGATCGGATGCTCGC
*
29860181 ATCCATAATGAACTCGGACCTCTCAACGAGATCGGATGC
1 ATCCATAATGAACTCAGACCTCTCAACGAGATCGGATGC
29860220 CACATATCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.22
Consensus pattern (43 bp):
ATCCATAATGAACTCAGACCTCTCAACGAGATCGGATGCTCGC
Found at i:29865640 original size:235 final size:234
Alignment explanation
Indices: 29865229--29865700 Score: 935
Period size: 235 Copynumber: 2.0 Consensus size: 234
29865219 AAAGTTGGTA
29865229 AAATGACCGTTTTAATATCAAGGTAAGTTCATATGTATAATAAGCATTAATTTATGCATGTTTCA
1 AAATGACCGTTTTAATATCAAGGTAAGTTCATATGTATAATAAGCATTAATTTATGCATGTTTCA
29865294 ATGTAAAATTGATATATTTACTATGATCTCCGAGGTGTTGAAAGTATGTAAGTTGGTATGATAAT
66 ATGTAAAATTGATATATTTACTATGATCTCCGAGGTGTTGAAAGTATGTAAGTTGGTATGATAAT
29865359 AATACAACAATAATGCTGTAATTTATATTTGAAAGTTAAATTTAGTGAATTAATTGAATTATGTT
131 AATACAACAATAATGCTGTAATTTATATTTGAAAGTTAAATTTAGTGAATTAATTGAATTATGTT
29865424 AAATTAAATAATTATGGTGCCAAGTTTATGAATTGATATT
196 AAATTAAATAATTATGGTGCCAAGTTTATGAATTGAT-TT
29865464 AAATGACCGTTTTAATATCAAGGTAAGTTCATATGTATAATAAGCATTAATTTATGCATGTTTCA
1 AAATGACCGTTTTAATATCAAGGTAAGTTCATATGTATAATAAGCATTAATTTATGCATGTTTCA
29865529 ATGTAAAATTGATATATTTACTATGATCTCCGAGGTGTTGAAAGTATGTAAGTTGGTATGATAAT
66 ATGTAAAATTGATATATTTACTATGATCTCCGAGGTGTTGAAAGTATGTAAGTTGGTATGATAAT
29865594 AATACAACAATAATGCTGTAATTTATATTTGAAAGTTAAATTTAGTGAATTAATTGAATTATGTT
131 AATACAACAATAATGCTGTAATTTATATTTGAAAGTTAAATTTAGTGAATTAATTGAATTATGTT
29865659 AAATTAAATAATTATGGTGCCAAGTTTATGAATTGATTT
196 AAATTAAATAATTATGGTGCCAAGTTTATGAATTGATTT
29865698 AAA
1 AAA
29865701 AATATGTCTA
Statistics
Matches: 237, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
234 5 0.02
235 232 0.98
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (234 bp):
AAATGACCGTTTTAATATCAAGGTAAGTTCATATGTATAATAAGCATTAATTTATGCATGTTTCA
ATGTAAAATTGATATATTTACTATGATCTCCGAGGTGTTGAAAGTATGTAAGTTGGTATGATAAT
AATACAACAATAATGCTGTAATTTATATTTGAAAGTTAAATTTAGTGAATTAATTGAATTATGTT
AAATTAAATAATTATGGTGCCAAGTTTATGAATTGATTT
Found at i:29870464 original size:27 final size:27
Alignment explanation
Indices: 29870434--29870781 Score: 277
Period size: 27 Copynumber: 13.1 Consensus size: 27
29870424 AAGTACTCCC
29870434 GATTTATAGAATTACCGTTTTACCCTT
1 GATTTATAGAATTACCGTTTTACCCTT
* * *
29870461 GATTTACAGAATTATCGTTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTT
*
29870488 GATTTTTA-AATTACCGTTTTACCCTT
1 GATTTATAGAATTACCGTTTTACCCTT
* *
29870514 -A-TTACAGAATTACC-TCGTTTACCCTC
1 GATTTATAGAATTACCGT--TTTACCCTT
* *
29870540 AATTTACAGAA-TACC-TTTTACCC-T
1 GATTTATAGAATTACCGTTTTACCCTT
* * **
29870564 CAGTTTACAGAA-TATTG-TTTACCC-T
1 GA-TTTATAGAATTACCGTTTTACCCTT
* * *
29870589 CATTTATAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTT
* * * ** *
29870616 AATTTGTAAAATTACTATTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTT
*
29870643 GATTTATAGAATTACCGTTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTT
* *
29870670 GATTTGTAAAATTACCGTTTTACCCTT
1 GATTTATAGAATTACCGTTTTACCCTT
* * * *
29870697 GATTTACAAAATTACTGGTTTACCC-T
1 GATTTATAGAATTACCGTTTTACCCTT
* * * * *
29870723 CAGTTTACAAAATTATCGTTTTACCCTC
1 GA-TTTATAGAATTACCGTTTTACCCTT
*
29870751 GATTTATAGAATTATCGTTTTACCCTT
1 GATTTATAGAATTACCGTTTTACCCTT
29870778 GATT
1 GATT
29870782 GTGAAATTAC
Statistics
Matches: 265, Mismatches: 44, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
24 13 0.05
25 38 0.14
26 33 0.12
27 172 0.65
28 9 0.03
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
GATTTATAGAATTACCGTTTTACCCTT
Found at i:29870491 original size:54 final size:54
Alignment explanation
Indices: 29870433--29870781 Score: 344
Period size: 54 Copynumber: 6.6 Consensus size: 54
29870423 AAAGTACTCC
*
29870433 CGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTATCGTTTTACCCT
* *
29870487 CGATTTTTA-AATTACCGTTTTACCCTT-A-TTACAGAATTACCTCG-TTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTA--TCGTTTTACCCT
* * * * *
29870539 CAATTTACAGAA-TACC-TTTTACCC-TCAGTTTACAGAA-TATTG-TTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTTGA-TTTACAAAATTATCGTTTTACCCT
* ** ** *
29870589 C-ATTTATAGAATTACCATTTTACCCTCAATTTGTAAAATTA-CTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTATC-GTTTTACCCT
* ** *
29870642 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTATCGTTTTACCCT
* * * * * *
29870696 TGATTTACAAAATTACTGGTTTACCC-TCAGTTTACAAAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTTGA-TTTACAAAATTATCGTTTTACCCT
*
29870750 CGATTTATAGAATTATCGTTTTACCCTTGATT
1 CGATTTATAGAATTACCGTTTTACCCTTGATT
29870782 GTGAAATTAC
Statistics
Matches: 246, Mismatches: 33, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
49 9 0.04
50 16 0.07
51 34 0.14
52 24 0.10
53 41 0.17
54 119 0.48
55 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (54 bp):
CGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTATCGTTTTACCCT
Found at i:29870599 original size:24 final size:25
Alignment explanation
Indices: 29870505--29870616 Score: 115
Period size: 25 Copynumber: 4.4 Consensus size: 25
29870495 AAATTACCGT
*
29870505 TTTACCCTTA-TTACAGAATTACCTCG
1 TTTACCCTCATTTACAGAA-TACCT-G
29870531 TTTACCCTCAATTTACAGAATACCT-
1 TTTACCCTC-ATTTACAGAATACCTG
*
29870556 TTTACCCTCAGTTTACAGAATA-TTG
1 TTTACCCTCA-TTTACAGAATACCTG
*
29870581 TTTACCCTCATTTATAGAATTACCAT-
1 TTTACCCTCATTTACAGAA-TACC-TG
29870607 TTTACCCTCA
1 TTTACCCTCA
29870617 ATTTGTAAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
24 10 0.13
25 32 0.43
26 18 0.24
27 7 0.09
28 8 0.11
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (25 bp):
TTTACCCTCATTTACAGAATACCTG
Found at i:29870777 original size:81 final size:81
Alignment explanation
Indices: 29870433--29870781 Score: 344
Period size: 81 Copynumber: 4.4 Consensus size: 81
29870423 AAAGTACTCC
* **
29870433 CGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTA-TCGTTTTACCCTCGATTT-TTA
1 CGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTACT-GTTTTACCCTCGATTTACAA
29870496 AATTACCGTTTTACCCT
65 AATTACCGTTTTACCCT
* * ** * *
29870513 -TA-TTACAGAATTACC-TCGTTTACCCTCAATTTACAGAA-TAC-CTTTTACCCTC-AGTTTAC
1 CGATTTATAGAATTACCGT--TTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGA-TTTAC
* **
29870572 AGAA-TATTG-TTTACCCT
63 AAAATTACCGTTTTACCCT
* ** ** * * *
29870589 C-ATTTATAGAATTACCATTTTACCCTCAATTTGTAAAATTACTATTTTACCCTCGATTTATAGA
1 CGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAA
29870653 ATTACCGTTTTACCCT
66 ATTACCGTTTTACCCT
* * *
29870669 CGATTTGTAAAATTACCGTTTTACCCTTGATTTACAAAATTACTGGTTTACCCTC-AGTTTACAA
1 CGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGA-TTTACAA
*
29870733 AATTATCGTTTTACCCT
65 AATTACCGTTTTACCCT
*
29870750 CGATTTATAGAATTATCGTTTTACCCTTGATT
1 CGATTTATAGAATTACCGTTTTACCCTTGATT
29870782 GTGAAATTAC
Statistics
Matches: 221, Mismatches: 33, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
76 27 0.12
77 32 0.14
78 35 0.16
79 23 0.10
80 10 0.05
81 94 0.43
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (81 bp):
CGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAA
ATTACCGTTTTACCCT
Found at i:29870823 original size:27 final size:27
Alignment explanation
Indices: 29870786--29870954 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
29870776 TTGATTGTGA
* *
29870786 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
29870813 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
29870840 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
29870867 AATTATCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
29870894 AAACACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
29870921 AATTACC-AAGATACCCTTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
29870948 AATTACC
1 AATTACC
29870955 ATTTTGCCCC
Statistics
Matches: 119, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
26 2 0.02
27 117 0.98
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:29871193 original size:27 final size:26
Alignment explanation
Indices: 29871155--29871208 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
29871145 TGGAGGAAGC
29871155 GTTCTGGCGGCTATGCCACAAATATCT
1 GTTCTGGCGGCTATGCCAC-AATATCT
* *
29871182 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGCGGCTATGCCACAATATCT
29871208 G
1 G
29871209 GATTGTTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (26 bp):
GTTCTGGCGGCTATGCCACAATATCT
Found at i:29871358 original size:22 final size:22
Alignment explanation
Indices: 29871324--29871382 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
29871314 CTCGTTATTA
* *
29871324 ATGGCTCTATGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
29871346 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
29871368 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
29871383 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:29871576 original size:27 final size:25
Alignment explanation
Indices: 29871546--29871619 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
29871536 TAGGTGGGTT
*
29871546 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACA-TATCTG-TTCTGGTGACTC
29871573 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCAC-ATATCTGT-TCTGGTGACTC
*
29871600 TGTCACGATATCTGTTCTGG
1 TGCCAC-ATATCTGTTCTGG
29871620 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.14
27 35 0.83
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
TGCCACATATCTGTTCTGGTGACTC
Found at i:29871746 original size:6 final size:6
Alignment explanation
Indices: 29871737--29871892 Score: 137
Period size: 6 Copynumber: 25.8 Consensus size: 6
29871727 TTGCATTCAC
* *
29871737 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
29871786 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* *
29871834 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCT- ATTTCTG -TTACTG ATACTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG A-TTCTG ATT-CTG ATTCTG
29871882 ATTCTG ATTCT
1 ATTCTG ATTCT
29871893 CATTTTGGAT
Statistics
Matches: 123, Mismatches: 12, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
5 11 0.09
6 103 0.84
7 7 0.06
8 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:29871801 original size:30 final size:30
Alignment explanation
Indices: 29871737--29871892 Score: 209
Period size: 30 Copynumber: 5.4 Consensus size: 30
29871727 TTGCATTCAC
* *
29871737 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATACTG
29871768 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
29871798 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
29871822 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
29871852 ATTCTGATTCT-ATTTCTGTTACTGATACTG
1 ATTCTGATTCTGA-TTCTGTTACTAATACTG
29871882 ATTCTGATTCT
1 ATTCTGATTCT
29871893 CATTTTGGAT
Statistics
Matches: 113, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
24 23 0.20
26 1 0.01
28 1 0.01
29 1 0.01
30 66 0.58
31 21 0.19
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:29877214 original size:78 final size:81
Alignment explanation
Indices: 29877079--29877260 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
29877069 TCGAATGATG
* *
29877079 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
29877143 TGTGCGAG-TACTA-A
66 TGTGCGAGTTACTATA
* * * **
29877157 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
29877219 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
29877237 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
29877261 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 44 0.49
79 31 0.35
80 13 0.15
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:29877220 original size:40 final size:40
Alignment explanation
Indices: 29877079--29877262 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
29877069 TCGAATGATG
* * * *
29877079 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
29877119 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29877158 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29877197 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29877238 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29877263 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 18 0.14
39 29 0.23
40 68 0.54
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29877293 original size:79 final size:78
Alignment explanation
Indices: 29877131--29877295 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 78
29877121 CGGACTAAGA
* **
29877131 TCCGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
29877196 ATCCGGGTTAAGT
66 ATCCGGGTTAAAT
* * *
29877209 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAG-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-
*
29877272 CTATATCC-GGTTAAAT
62 CTAAATCCGGGTTAAAT
29877288 TCCGAAGG
1 TCCGAAGG
29877296 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 21 0.28
79 29 0.39
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAAT
Found at i:29885381 original size:79 final size:81
Alignment explanation
Indices: 29885245--29885427 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
29885235 TCGAATGATG
* *
29885245 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
29885309 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
29885324 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
29885386 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
29885404 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
29885428 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:29885443 original size:40 final size:40
Alignment explanation
Indices: 29885246--29885429 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
29885236 CGAATGATGT
* * * *
29885246 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
29885286 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
29885326 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29885364 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29885405 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29885430 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29885451 original size:79 final size:79
Alignment explanation
Indices: 29885298--29885462 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
29885288 GGACTAAGAT
* **
29885298 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
29885363 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
29885377 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
29885440 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29885456 CCGAAGG
1 CCGAAGG
29885463 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29902276 original size:39 final size:39
Alignment explanation
Indices: 29902222--29902347 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
29902212 TTCAGTGATG
*
29902222 TATATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
29902261 TATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
29902300 TATATCCGGACTTAAGGTCTGCAAGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
29902339 TATGTCCGG
1 TATATCCGG
29902348 GCTAAAGTCC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:29902363 original size:78 final size:78
Alignment explanation
Indices: 29902222--29902365 Score: 173
Period size: 78 Copynumber: 1.8 Consensus size: 78
29902212 TTCAGTGATG
* * * * * ** *
29902222 TATATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTTCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
29902287 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
29902300 TATATCCGGACTTAAGGTCTGCAAGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCTGCAGG
1 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCC-GCAGG
29902364 CT
65 CT
29902366 TCGAGTTGGT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
77 5 0.09
78 49 0.91
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:29904694 original size:16 final size:16
Alignment explanation
Indices: 29904670--29904703 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
29904660 ATCGGGTTAT
29904670 AACTATGCATTTCAAA
1 AACTATGCATTTCAAA
*
29904686 AACTGTGCATTTCAAA
1 AACTATGCATTTCAAA
29904702 AA
1 AA
29904704 TAACATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (16 bp):
AACTATGCATTTCAAA
Found at i:29908716 original size:17 final size:17
Alignment explanation
Indices: 29908691--29908738 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
29908681 CGAAAGGGGC
*
29908691 CATATGGGCCCAATGGG
1 CATACGGGCCCAATGGG
29908708 CATACGGGCCCAATGGG
1 CATACGGGCCCAATGGG
29908725 CATACGGGCCCAAT
1 CATACGGGCCCAAT
29908739 TGGATAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.15
Consensus pattern (17 bp):
CATACGGGCCCAATGGG
Found at i:29908940 original size:27 final size:26
Alignment explanation
Indices: 29908910--29909251 Score: 324
Period size: 27 Copynumber: 12.7 Consensus size: 26
29908900 TTAGTTTACC
29908910 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
* * *
29908937 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACC-CTGGTTTGTA
*
29908964 AAATAACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
**
29908991 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCC-TGGTTTGTA
* *
29909018 AAATTACTAAAATACCCCTGTTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* * * *
29909045 AAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACC-CTGGTTTGTA
29909072 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
29909099 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* * *
29909126 AAATTATCAAAATACCTTTAGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
** *
29909153 AAATTACCAAAATATCCCTAATTTGTG
1 AAATTACCAAAATA-CCCTGGTTTGTA
** ***
29909180 AAATTACTGAAATACCCTTGACCTGTA
1 AAATTACCAAAATACCC-TGGTTTGTA
*** **
29909207 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
29909234 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
29909252 TGATTTACAG
Statistics
Matches: 267, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.03
27 251 0.94
28 7 0.03
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGGTTTGTA
Found at i:29908975 original size:54 final size:54
Alignment explanation
Indices: 29908910--29909166 Score: 361
Period size: 54 Copynumber: 4.8 Consensus size: 54
29908900 TTAGTTTACC
*
29908910 AAATTACCAAAATACCACTGGTTTGTAAAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* * *
29908964 AAATAACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* * * * *
29909018 AAATTACTAAAATACCCCTGTTTTGTAAAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* ** *
29909072 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* ** *
29909126 AAATTATCAAAATACCTTTAGTTTGTAAAATTACCAAAATA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATA
29909167 TCCCTAATTT
Statistics
Matches: 180, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCATTGGTTTATA
Found at i:29909047 original size:81 final size:80
Alignment explanation
Indices: 29908910--29909251 Score: 371
Period size: 81 Copynumber: 4.2 Consensus size: 80
29908900 TTAGTTTACC
** * *
29908910 AAATTACCAAAATACCACTGGTTTGTAAAATTACTAAAATACCATTGGTTTATAAAATAACCAAA
1 AAATTACCAAAATACC-CTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAA
29908975 ATACCACTGGTTTGTA
65 ATACCACTGGTTTGTA
** * *
29908991 AAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAATACCCCTGTTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCC-TGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAA
* * *
29909056 ATACCATTTGTTTATA
65 ATACCACTGGTTTGTA
* *
29909072 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAA
** *
29909137 ATACCTTTAGTTTGTA
65 ATACCACTGGTTTGTA
** * * * *** ***
29909153 AAATTACCAAAATATCCCTAATTTGTGAAATTACTGAAATACCCTTGACCTGTAAAATTATTGAA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAA
**
29909218 ATACC-CTCGACTTGTA
65 ATACCACT-GGTTTGTA
29909234 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
29909252 TGATTTACAG
Statistics
Matches: 222, Mismatches: 36, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
80 6 0.03
81 213 0.96
82 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (80 bp):
AAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAA
TACCACTGGTTTGTA
Found at i:29909251 original size:54 final size:54
Alignment explanation
Indices: 29908910--29909299 Score: 297
Period size: 54 Copynumber: 7.2 Consensus size: 54
29908900 TTAGTTTACC
* * * * * *
29908910 AAATTACCAAAATACCAC-TGGTTTGTAAAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACC-CTTGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * * * **
29908964 AAATAACCAAAATACCAC-TGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACC-CTTGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * * * * * *
29909018 AAATTACTAAAATACCCCTGTTTTGTAAAATTACTAAAATACCATTTG-TTTATA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACC-CTCGATTTGTA
* * *
29909072 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTC-GATTTGTA
* * * *
29909126 AAATTATCAAAATA-CCTTTAGTTTGTAAAATTACCAAAATATCCCT-AATTTGTG
1 AAATTACCAAAATACCCTTGA-TTTGTAAAATTACCAAAATA-CCCTCGATTTGTA
** ** *** *
29909180 AAATTACTGAAATACCCTTGACCTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
** * **** **
29909234 AAATTACCAAAATACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
29909288 AAATTACCAAAA
1 AAATTACCAAAA
29909300 CAACCCAATA
Statistics
Matches: 277, Mismatches: 50, Indels: 18
0.80 0.14 0.05
Matches are distributed among these distances:
53 9 0.03
54 257 0.93
55 11 0.04
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
Found at i:29909265 original size:27 final size:26
Alignment explanation
Indices: 29908910--29909299 Score: 182
Period size: 27 Copynumber: 14.5 Consensus size: 26
29908900 TTAGTTTACC
* *
29908910 AAATTACCAAAATACCAC-TGGTTTGTA
1 AAATTACCAAAATACC-CTTGATTT-AA
* * *
29908937 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTA-A
* * *
29908964 AAATAACCAAAATACCAC-TGGTTTGTA
1 AAATTACCAAAATACC-CTTGATTT-AA
*
29908991 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGATTTA-A
* * * *
29909018 AAATTACTAAAATACCCCTGTTTTGTA
1 AAATTACCAAAATACCCTTGATTT-AA
* *
29909045 AAATTACTAAAATACCATTTG-TTTATA
1 AAATTACCAAAATACC-CTTGATTTA-A
* * *
29909072 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTT-AA
* * *
29909099 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTT-AA
* * *
29909126 AAATTATCAAAATA-CCTTTAGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTT-AA
* **
29909153 AAATTACCAAAATATCCC-TAATTTGTG
1 AAATTACCAAAATA-CCCTTGATTT-AA
** *
29909180 AAATTACTGAAATACCCTTGACCTGT-A
1 AAATTACCAAAATACCCTTGA--TTTAA
*** *
29909207 AAATTATTGAAATACCCTCGACTTGT-A
1 AAATTACCAAAATACCCTTGA-TT-TAA
29909234 AAATTACCAAAATACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGATTTA-A
* **** *
29909261 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTA-A
29909288 AAATTACCAAAA
1 AAATTACCAAAA
29909300 CAACCCAATA
Statistics
Matches: 293, Mismatches: 50, Indels: 40
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.00
26 13 0.04
27 271 0.92
28 4 0.01
29 4 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (26 bp):
AAATTACCAAAATACCCTTGATTTAA
Found at i:29909671 original size:27 final size:27
Alignment explanation
Indices: 29909308--29909660 Score: 492
Period size: 27 Copynumber: 13.1 Consensus size: 27
29909298 AACAACCCAA
**
29909308 TAGGGTAGAATTACTAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
29909335 TAGGGCAGAATTACCGAAATACCCTTA
1 TAGGGTAGAATTACCGAAATACCCCTG
29909362 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
29909389 TAGGTTAGAATTACCGCAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
29909416 TAGGGTAGAATTATCGCAATACCTCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
29909443 TAAGGTAGAATTACCGCAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
29909470 TAGGGTAGAATTACCAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
29909497 TAGGGTAGAATTACC-AGAATACCCCTG
1 TAGGGTAGAATTACCGA-AATACCCCTG
*
29909524 TAGGGTAGAATTACCGGAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
29909551 TAGGGTAGAATTACCGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
29909578 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * * *
29909605 TAGGGTAGAATTATCGCAATACCCATA
1 TAGGGTAGAATTACCGAAATACCCCTG
**
29909632 TAGGGTAGAATTACTAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
29909659 TA
1 TA
29909661 TGGCGGAATT
Statistics
Matches: 289, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 288 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCCTG
Found at i:29910095 original size:27 final size:27
Alignment explanation
Indices: 29910055--29910106 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
29910045 GCCATCTTGA
*
29910055 CTATGGCTTCGTGCCAAACGTATTTAC
1 CTATGGCTTCGTGCCAAACATATTTAC
*
29910082 CTATGGCTAT-GTGCCTAACATATTT
1 CTATGGCT-TCGTGCCAAACATATTT
29910107 TTTCATGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (27 bp):
CTATGGCTTCGTGCCAAACATATTTAC
Found at i:29910243 original size:25 final size:26
Alignment explanation
Indices: 29910211--29910278 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
29910201 GATGGCTTTG
*
29910211 TGCCACATATTCTGTT-AAGTGGCTT
1 TGCCACATATTCTGTTCAAGTGGCTA
* *
29910236 TGCCACATTTTCTGATTCTAGTGGCTA
1 TGCCACATATTCTG-TTCAAGTGGCTA
*
29910263 TGCCACAAATATCTGT
1 TGCCACATAT-TCTGT
29910279 ACTGGAGGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 13 0.37
26 2 0.06
27 16 0.46
28 4 0.11
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (26 bp):
TGCCACATATTCTGTTCAAGTGGCTA
Found at i:29910468 original size:6 final size:6
Alignment explanation
Indices: 29910437--29910524 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
29910427 TTGCATTCCC
* *
29910437 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
29910486 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
29910525 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:29910475 original size:31 final size:31
Alignment explanation
Indices: 29910437--29910515 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
29910427 TTGCATTCCC
* *
29910437 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
29910468 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
29910499 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
29910516 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:29914604 original size:15 final size:15
Alignment explanation
Indices: 29914556--29914605 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
29914546 ACAGGGGCTG
29914556 ACACCTAGAGGTTCAC
1 ACACCTAG-GGTTCAC
* * **
29914572 ATACCTAGTGTTTGC
1 ACACCTAGGGTTCAC
29914587 ACACCTAGGGTTCAC
1 ACACCTAGGGTTCAC
29914602 ACAC
1 ACAC
29914606 ATGTGATCAC
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (15 bp):
ACACCTAGGGTTCAC
Found at i:29917386 original size:13 final size:13
Alignment explanation
Indices: 29917365--29917398 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
29917355 TCTTTGATTT
29917365 ATTATTTTATTTTA
1 ATTA-TTTATTTTA
*
29917379 GTTATTTATTTTA
1 ATTATTTATTTTA
29917392 ATTATTT
1 ATTATTT
29917399 TATCTGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTATTTATTTTA
Found at i:29922481 original size:14 final size:14
Alignment explanation
Indices: 29922462--29922493 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
29922452 TAGCGTGTAT
29922462 TCATGCATTTACTC
1 TCATGCATTTACTC
29922476 TCATGCATTTACTC
1 TCATGCATTTACTC
29922490 TCAT
1 TCAT
29922494 CAACTTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (14 bp):
TCATGCATTTACTC
Found at i:29922924 original size:44 final size:44
Alignment explanation
Indices: 29922874--29922968 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
29922864 TCGTATATAC
* * * *
29922874 AAACATATATCTTCGCATATTCCAAAATATAGGCTCACGTAATT
1 AAACATATATCTTCACAAATTCCAAAATATAAGCTCACATAATT
* * * *
29922918 AAACATATATTTTCACAAATTCTAATATATAAGCTCGCATAATT
1 AAACATATATCTTCACAAATTCCAAAATATAAGCTCACATAATT
29922962 AAACATA
1 AAACATA
29922969 CTTGCTTGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (44 bp):
AAACATATATCTTCACAAATTCCAAAATATAAGCTCACATAATT
Found at i:29923064 original size:21 final size:22
Alignment explanation
Indices: 29923023--29923064 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
29923013 GTTTTAGGTT
*
29923023 TCACATGTGTTTTGTATAGGGA
1 TCACATGTGTTTTCTATAGGGA
29923045 TCACATG-GTTTTACTA-AGGG
1 TCACATGTGTTTT-CTATAGGG
29923065 TTCCCATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (22 bp):
TCACATGTGTTTTCTATAGGGA
Found at i:29926803 original size:40 final size:40
Alignment explanation
Indices: 29926719--29926811 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
29926709 TATTTGTTGA
* * *
29926719 ACTTAGTGTGCGATTTGATATAGCTTCAGCTATATATGGT
1 ACTTAGTGTGCGATTTGAGATAGCTTCAGCTATATACGGC
29926759 ACTTA-TGGTGCGATTTGAGATAGCTTCAGCTATGA-ACGGC
1 ACTTAGT-GTGCGATTTGAGATAGCTTCAGCTAT-ATACGGC
29926799 ACTTAGTGTGCGA
1 ACTTAGTGTGCGA
29926812 GGTATCAAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
39 1 0.02
40 44 0.94
41 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
ACTTAGTGTGCGATTTGAGATAGCTTCAGCTATATACGGC
Found at i:29926874 original size:28 final size:28
Alignment explanation
Indices: 29926796--29926879 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
29926786 AGCTATGAAC
** *
29926796 GGCACTTAGTGTGCGAGGTATCAAGTGT
1 GGCACTTAGTGTGCGAGGTATTGAGTAT
* *
29926824 GGCACTTAGTGTGCAAGATATTGAGTAT
1 GGCACTTAGTGTGCGAGGTATTGAGTAT
*
29926852 GGCACTTAGTGTGCGAGGCATTGAGTAT
1 GGCACTTAGTGTGCGAGGTATTGAGTAT
29926880 TCAACAACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGGTATTGAGTAT
Found at i:29930649 original size:55 final size:55
Alignment explanation
Indices: 29930565--29930674 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
29930555 ATTTCATGGT
29930565 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
1 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
29930620 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
1 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
29930675 GCCATTCCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (55 bp):
TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
Found at i:29931620 original size:40 final size:41
Alignment explanation
Indices: 29931531--29931675 Score: 204
Period size: 40 Copynumber: 3.6 Consensus size: 41
29931521 CGCTGACTCA
* *
29931531 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
29931572 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
29931612 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
29931653 AAAAG-CCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCG
29931676 ATTTAAACCC
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 50 0.56
41 39 0.44
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:29939930 original size:40 final size:41
Alignment explanation
Indices: 29939842--29939990 Score: 176
Period size: 41 Copynumber: 3.7 Consensus size: 41
29939832 CGCTGACTCA
* * *
29939842 AAAAG-CCTTCGAAACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAAACCAAGCTCAGATTATGACACTGGCTC
* * * * *
29939882 GAAGGCCCTTCGAAACTAGGTTCAG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAAACCAAGCTCAGATTATGACACTGGCTC
* *
29939922 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAAACCAAGCTCAGATTATGACACTGGCTC
* *
29939963 AAAAGCCCTTCGATACCATGCTCAGATT
1 AAAAGCCCTTCGAAACCAAGCTCAGATT
29939991 TAAACCCCAA
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 34 0.38
41 55 0.62
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
AAAAGCCCTTCGAAACCAAGCTCAGATTATGACACTGGCTC
Found at i:29946274 original size:28 final size:28
Alignment explanation
Indices: 29946193--29946263 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
29946183 CTATGAACGA
* *
29946193 CACTTAGTGTGCGAGATATTGACTGTGG
1 CACTTAGTGTGCGAGATATTGAGTATGG
* *
29946221 CACTTAGTGTACGAGATATCGAGTATGG
1 CACTTAGTGTGCGAGATATTGAGTATGG
29946249 CACTTAGTGTGCGAG
1 CACTTAGTGTGCGAG
29946264 GCATTAAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATTGAGTATGG
Found at i:29959151 original size:39 final size:39
Alignment explanation
Indices: 29959108--29959325 Score: 250
Period size: 39 Copynumber: 5.6 Consensus size: 39
29959098 TCCTCGTTCA
* *
29959108 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* *
29959147 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
*
29959186 AAATGCCTTCGGGACTTAGCCCGGA-ATTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCAC
* *
29959226 AAAGCCTTC-GGACTTAG-CCGGAT-TAGTATCTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* * *
29959262 AAATGCCTTC-GGATCTTAGTCCGGATAT-GTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCAC
*
29959302 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29959326 CATCATTCAA
Statistics
Matches: 156, Mismatches: 14, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
36 13 0.08
37 16 0.10
38 13 0.08
39 70 0.45
40 44 0.28
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
Found at i:29959280 original size:76 final size:76
Alignment explanation
Indices: 29959106--29959321 Score: 260
Period size: 76 Copynumber: 2.8 Consensus size: 76
29959096 GCTCCTCGTT
* * * *
29959106 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGT-ACTCGCACAAAGCCTTCGGGACTT-AGCCGGA
29959171 TTTAGTAACTCGCA
63 TTTAGTAACTCGCA
29959185 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAAGCCTTC-GGACTTAGCCGGA-
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTA-CTCGCACAAAGCCTTCGGGACTTAGCCGGAT
*
29959248 TTAGTATCTCGCA
64 TTAGTAACTCGCA
* *
29959261 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTA-GT-AC-TCGCACAAAGCCTTCGGGACTTAGCC
29959322 CGGACATCAT
Statistics
Matches: 123, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
74 2 0.02
75 7 0.06
76 47 0.38
77 16 0.13
78 7 0.06
79 43 0.35
80 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (76 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTACTCGCACAAAGCCTTCGGGACTTAGCCGGATTT
AGTAACTCGCA
Found at i:29966986 original size:40 final size:40
Alignment explanation
Indices: 29966942--29967164 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
29966932 GCTCCTCGTT
* *
29966942 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
29966982 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
29967022 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
29967061 CAAATGCCTTC-GGATCTTAG-TCGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
29967099 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
29967140 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29967165 CATCATTCAA
Statistics
Matches: 161, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
38 34 0.21
39 41 0.25
40 75 0.47
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:29967044 original size:79 final size:77
Alignment explanation
Indices: 29966942--29967164 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 77
29966932 GCTCCTCGTT
*
29966942 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
29967007 ATTTAGTAACTCGCA
64 A-TTAGTAACTCGCA
* * **
29967022 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTT-AGTCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
29967085 ATTAGTATCTCGCA
64 ATTAGTAACTCGCA
* * * * * *
29967099 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
29967163 GA
63 GA
29967165 CATCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
77 25 0.21
78 31 0.26
79 50 0.42
80 14 0.12
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TAGTAACTCGCA
Found at i:29976149 original size:26 final size:26
Alignment explanation
Indices: 29976109--29976167 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
29976099 AAATACATCG
29976109 AATTA-TTTTTATATTGGATAAATAT
1 AATTATTTTTTATATTGGATAAATAT
* *
29976134 AATTATTTTTTATATTGTATAGATAT
1 AATTATTTTTTATATTGGATAAATAT
29976160 AATTATTT
1 AATTATTT
29976168 CTATTTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (26 bp):
AATTATTTTTTATATTGGATAAATAT
Found at i:29977617 original size:11 final size:11
Alignment explanation
Indices: 29977596--29977652 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 11
29977586 CATGTTTTTT
29977596 AAATAATTATAA
1 AAAT-ATTATAA
29977608 AAATATTAT-A
1 AAATATTATAA
*
29977618 AAATATTATTTA
1 AAATATTA-TAA
*
29977630 AAAT-TTATTA
1 AAATATTATAA
29977640 AAA-ATTATAA
1 AAATATTATAA
29977650 AAA
1 AAA
29977653 ATAATATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
10 23 0.56
11 9 0.22
12 9 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATATTATAA
Found at i:29977654 original size:21 final size:21
Alignment explanation
Indices: 29977594--29977652 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
29977584 GACATGTTTT
29977594 TTAAATAATTATAAAAATATTA
1 TTAAA-AATTATAAAAATATTA
*
29977616 -TAAAATATTATTTAAAAT-TTA
1 TTAAAA-ATTA-TAAAAATATTA
29977637 TTAAAAATTATAAAAA
1 TTAAAAATTATAAAAA
29977653 ATAATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
20 6 0.19
21 15 0.47
22 11 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAATTATAAAAATATTA
Found at i:29977670 original size:36 final size:36
Alignment explanation
Indices: 29977619--29977692 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
29977609 AATATTATAA
29977619 AATATTATTTAAAATTTATTAAAAATTATAAAAAAT
1 AATATTATTTAAAATTTATTAAAAATTATAAAAAAT
* * **
29977655 AATATTTTTTTAAATTTATTAAAAATTATTTAAAAT
1 AATATTATTTAAAATTTATTAAAAATTATAAAAAAT
29977691 AA
1 AA
29977693 CTTCCAGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
AATATTATTTAAAATTTATTAAAAATTATAAAAAAT
Found at i:29992891 original size:37 final size:37
Alignment explanation
Indices: 29992832--29992977 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
29992822 AGCTCAGACG
* *
29992832 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
29992869 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
29992906 TACTCTCCATACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
29992943 TAATCTCCACACATAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
29992978 ATATATTTCC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:29993247 original size:47 final size:47
Alignment explanation
Indices: 29993186--29993473 Score: 423
Period size: 47 Copynumber: 6.1 Consensus size: 47
29993176 TATATATATT
* * * *
29993186 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
29993233 CCACCTTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
29993280 TCACATTGGTCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
29993327 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTGA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
29993374 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
29993421 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
29993468 TCACAT
1 TCACAT
29993474 AAAATCCTAA
Statistics
Matches: 214, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 214 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:29993359 original size:141 final size:141
Alignment explanation
Indices: 29993186--29993474 Score: 479
Period size: 141 Copynumber: 2.0 Consensus size: 141
29993176 TATATATATT
* * *
29993186 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACCTTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
* * * *
29993251 CTTATCACACATATGCATGTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATGCAT
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
29993316 GTTCACATTCA
131 ATTCACATTCA
* * *
29993327 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTGACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
29993392 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
29993457 ATTCACATTCA
131 ATTCACATTCA
29993468 TCACATA
1 TCACATA
29993475 AAATCCTAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 137 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (141 bp):
TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
ATTCACATTCA
Found at i:29998893 original size:39 final size:39
Alignment explanation
Indices: 29998808--29999062 Score: 377
Period size: 39 Copynumber: 6.5 Consensus size: 39
29998798 ACAAAGCATG
* * * *
29998808 CGGGACTGTAAGCCCGGATGTAATACCACCAC-AAAGCCTT
1 CGGGACT-T-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
29998848 CAGGACTTAGCCCGGATATAACATCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
29998887 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
29998926 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
29998965 CGGGACTTATCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
29999004 CGGGACTTATCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
29999043 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
29999063 TATCTCACAC
Statistics
Matches: 197, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
38 18 0.09
39 173 0.88
40 6 0.03
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:29998938 original size:78 final size:78
Alignment explanation
Indices: 29998808--29999095 Score: 386
Period size: 78 Copynumber: 3.7 Consensus size: 78
29998798 ACAAAGCATG
* * * * *
29998808 CGGGACTGTAAGCCCGGATGTAATACCACCAC-AAAGCCTTCAGGACTTAGCCCGGATATAACAT
1 CGGGACT-T-AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACAC
29998872 CAGCACGAATGCCTT
64 CAGCACGAATGCCTT
* *
29998887 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
29998952 GCACGAATGCCTT
66 GCACGAATGCCTT
* * *
29998965 CGGGACTTATCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTATCCCAGATATAACACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
29999030 GCACGAATGCCTT
66 GCACGAATGCCTT
* * * *
29999043 CGGGAATTAGCCCGGATAT-ATATCTCA-CAC-AAGGCCTGCGGGTCTTAGCCCGG
1 CGGGACTTAGCCCGGATATAATA-C-CAGCACGAATGCCTTCGGGACTTAGCCCGG
29999096 TTAAAATCCT
Statistics
Matches: 187, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
77 39 0.21
78 139 0.74
79 9 0.05
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.20
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
GCACGAATGCCTT
Found at i:30010688 original size:59 final size:61
Alignment explanation
Indices: 30010596--30010742 Score: 178
Period size: 60 Copynumber: 2.4 Consensus size: 61
30010586 TATTCAGAAA
* *
30010596 TCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCT-GGCCATAGCCC-CTTACAA-TT
1 TCAGAGTT-ACTGGGCC-TAGCCCATATCAATATCAATCTAGGCCATAGCCCTATTACAAGTT
*
30010656 TCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTAGGCCGTAGCCCTATTACAAGTT
1 TCAGAGT-TACTGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCCTATTACAAGTT
* *
30010718 T-AGA-TCTATTGGGCCTTGCCCATAT
1 TCAGAGT-TACTGGGCCTAGCCCATAT
30010743 TAACACAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
59 21 0.27
60 43 0.56
61 10 0.13
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (61 bp):
TCAGAGTTACTGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCCTATTACAAGTT
Found at i:30015227 original size:26 final size:26
Alignment explanation
Indices: 30015197--30015254 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
30015187 TAGATAGAAA
*
30015197 TTTTAAAAAGGAAATGATTTAAATAT
1 TTTTAAAAAGGAAATAATTTAAATAT
* * *
30015223 TTTTATATAGGGAATAATTTAAATAT
1 TTTTAAAAAGGAAATAATTTAAATAT
30015249 TATTTA
1 T-TTTA
30015255 TTATGTTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (26 bp):
TTTTAAAAAGGAAATAATTTAAATAT
Found at i:30016108 original size:14 final size:14
Alignment explanation
Indices: 30016091--30016122 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
30016081 AAGAAATATA
30016091 AAATCGATAATAAT
1 AAATCGATAATAAT
*
30016105 AAATCGATAATGAT
1 AAATCGATAATAAT
30016119 AAAT
1 AAAT
30016123 TGTATTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.28
Consensus pattern (14 bp):
AAATCGATAATAAT
Found at i:30018681 original size:30 final size:29
Alignment explanation
Indices: 30018626--30018687 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
30018616 GACACGGGCT
*
30018626 AGGACACGGGCATGTCATGGCCGTGTG-C
1 AGGACACGGGCATGACATGGCCGTGTGTC
*
30018654 AGGACACGGGCCATAGACATGGGCGTGTGTC
1 AGGACACGGG-CAT-GACATGGCCGTGTGTC
30018685 AGG
1 AGG
30018688 CCGTGTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.34
29 3 0.10
30 12 0.41
31 4 0.14
ACGTcount: A:0.21, C:0.23, G:0.40, T:0.16
Consensus pattern (29 bp):
AGGACACGGGCATGACATGGCCGTGTGTC
Found at i:30018838 original size:21 final size:21
Alignment explanation
Indices: 30018814--30018890 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
30018804 GTCATAATAG
*
30018814 CCACATGGGCGTGTTGTCCTT
1 CCACACGGGCGTGTTGTCCTT
30018835 CCACACGGGCGTGTTGTCCTT
1 CCACACGGGCGTGTTGTCCTT
30018856 CCACACGGGCGTGTTGTCCTT
1 CCACACGGGCGTGTTGTCCTT
30018877 CCACACGGGCGTGT
1 CCACACGGGCGTGT
30018891 GCCTTGTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.10, C:0.32, G:0.30, T:0.27
Consensus pattern (21 bp):
CCACACGGGCGTGTTGTCCTT
Found at i:30033041 original size:12 final size:12
Alignment explanation
Indices: 30033024--30033049 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30033014 TAGTGGCAGA
30033024 TGGTTACAACTT
1 TGGTTACAACTT
30033036 TGGTTACAACTT
1 TGGTTACAACTT
30033048 TG
1 TG
30033050 TGCAGATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (12 bp):
TGGTTACAACTT
Found at i:30036049 original size:40 final size:40
Alignment explanation
Indices: 30035992--30036248 Score: 342
Period size: 40 Copynumber: 6.4 Consensus size: 40
30035982 GATGATAACG
* * *
30035992 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
30036032 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
30036072 GGGCTAAGTCCCGAAGGCATTTGTTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATATCC
*
30036113 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
30036153 AGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
30036193 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* * *
30036232 TGGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
30036249 TACTTGGTTT
Statistics
Matches: 200, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
39 17 0.09
40 146 0.73
41 36 0.18
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:30036207 original size:121 final size:119
Alignment explanation
Indices: 30035993--30036248 Score: 347
Period size: 121 Copynumber: 2.1 Consensus size: 119
30035983 ATGATAACGG
* * *
30035993 GGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCAGGCTAAGTCCCGAAGGCATTTGTGC
** * *
30036058 GAGTTACTAATTCGGGGCTAAGTCCCGAAGGCATTTGTTGCGAGTTA-CTATATCCA
66 GAACTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG-AGCGAG-TAGCTATAT-CA
*
30036114 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCAGGCTAAGTCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCAGGCTAAGTCCCGAAGGCATTTGTG
*
30036178 CGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCT
65 CGAACTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCA
* *
30036233 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
30036249 TACTTGGTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
119 17 0.14
120 15 0.12
121 89 0.74
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (119 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCAGGCTAAGTCCCGAAGGCATTTGTGC
GAACTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCA
Found at i:30045863 original size:42 final size:42
Alignment explanation
Indices: 30045817--30045958 Score: 142
Period size: 42 Copynumber: 3.4 Consensus size: 42
30045807 AGACCATATT
* *
30045817 TGGGATATGGCGTTGATATGAGATTTCATGTAAGACCACGTC
1 TGGGACATGGCATTGATATGAGATTTCATGTAAGACCACGTC
* * * * **
30045859 TGGGACATGGCATTGAAATAAGATTTTCGTATAAGACCATATC
1 TGGGACATGGCATTGATATGAGA-TTTCATGTAAGACCACGTC
** * **
30045902 TGGG-CTATGGCATCAATGTGAGATCCCATGTAAGACCACGTC
1 TGGGAC-ATGGCATTGATATGAGATTTCATGTAAGACCACGTC
30045944 TGGGACATGGCATTG
1 TGGGACATGGCATTG
30045959 GCATCTTAAT
Statistics
Matches: 76, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
42 44 0.58
43 32 0.42
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
TGGGACATGGCATTGATATGAGATTTCATGTAAGACCACGTC
Found at i:30053335 original size:39 final size:41
Alignment explanation
Indices: 30053234--30053417 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
30053224 TTGAATGATG
* *
30053234 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
30053274 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
30053314 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
30053353 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
30053392 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30053418 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:30053370 original size:79 final size:80
Alignment explanation
Indices: 30053234--30053417 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
30053224 TTGAATGATG
*
30053234 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
30053298 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
30053313 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
30053375 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
30053392 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30053418 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:30053440 original size:78 final size:79
Alignment explanation
Indices: 30053287--30053450 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 79
30053277 GGACTAAGAT
* **
30053287 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
30053352 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
30053366 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
30053428 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
30053444 CCGAAGG
1 CCGAAGG
30053451 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.51
79 34 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:30061279 original size:39 final size:41
Alignment explanation
Indices: 30061178--30061361 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
30061168 TTGAATGATG
* *
30061178 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
30061218 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
30061258 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
30061297 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
30061336 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30061362 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:30061314 original size:79 final size:80
Alignment explanation
Indices: 30061178--30061361 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
30061168 TTGAATGATG
*
30061178 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
30061242 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
30061257 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
30061319 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
30061336 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30061362 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:30061384 original size:78 final size:79
Alignment explanation
Indices: 30061231--30061394 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 79
30061221 GGACTAAGAT
* **
30061231 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
30061296 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
30061310 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
30061372 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
30061388 CCGAAGG
1 CCGAAGG
30061395 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.51
79 34 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:30062785 original size:17 final size:17
Alignment explanation
Indices: 30062763--30062795 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30062753 TAATGATTGG
30062763 AAGAATG-TATACATTAA
1 AAGAATGAT-TACATTAA
30062780 AAGAATGATTACATTA
1 AAGAATGATTACATTA
30062796 TATATGCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (17 bp):
AAGAATGATTACATTAA
Found at i:30063250 original size:31 final size:31
Alignment explanation
Indices: 30063215--30063277 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
30063205 TCGTTGCCGG
* *
30063215 GCAACCCGGGGTGGCGGGTCATCGCTGTCGA
1 GCAACCCAGGGTGGCCGGTCATCGCTGTCGA
* *
30063246 GCAACCTAGGGTGGCCGGTCATCGTTGTCGA
1 GCAACCCAGGGTGGCCGGTCATCGCTGTCGA
30063277 G
1 G
30063278 TAGCTCAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.14, C:0.27, G:0.40, T:0.19
Consensus pattern (31 bp):
GCAACCCAGGGTGGCCGGTCATCGCTGTCGA
Found at i:30068004 original size:37 final size:37
Alignment explanation
Indices: 30067963--30068073 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
30067953 TAGCTAGGCT
****
30067963 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
30068000 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
30068037 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
30068074 GCTAAAACTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:30069511 original size:39 final size:39
Alignment explanation
Indices: 30069423--30069512 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
30069413 CTATTACATG
* *
30069423 GATATTTTTCCAGCATGTAGCCTGCGGACCTCAAGTCCA
1 GATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCA
* * * *
30069462 GATATATTTCTAGCATATAGCCTGCGGATCTCATGT-CT
1 GATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCA
30069500 GAATATTTTTCTA
1 G-ATATTTTTCTA
30069513 TCTCAAACAC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 2 0.05
39 41 0.95
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (39 bp):
GATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCA
Found at i:30080963 original size:43 final size:44
Alignment explanation
Indices: 30080843--30080987 Score: 172
Period size: 43 Copynumber: 3.4 Consensus size: 44
30080833 AGCTTGTGCA
* *
30080843 ATGCCAACGTCCTAGACGTGGTCTTACACGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
** * *
30080886 ATGCCATTGTCCCAGACAGGGTCCTACACG-AAATCAAATAT-G
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
30080928 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AATATCG
*
30080972 ATGCCAACATCCCAGA
1 ATGCCAACGTCCCAGA
30080988 TGTAGTCTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 27 0.32
43 41 0.48
44 17 0.20
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:30087342 original size:16 final size:16
Alignment explanation
Indices: 30087308--30087351 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
30087298 GACATCCCAA
30087308 TTTTTGGCTTTTCAAC
1 TTTTTGGCTTTTCAAC
* * **
30087324 TTTTCGACTTTTCGGC
1 TTTTTGGCTTTTCAAC
30087340 TTTTTGGCTTTT
1 TTTTTGGCTTTT
30087352 GCTATTACAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.07, C:0.18, G:0.16, T:0.59
Consensus pattern (16 bp):
TTTTTGGCTTTTCAAC
Found at i:30090395 original size:50 final size:49
Alignment explanation
Indices: 30090273--30090587 Score: 160
Period size: 46 Copynumber: 6.7 Consensus size: 49
30090263 CACAGGGTAG
30090273 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACT-A-TCATCCATCA
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCA
** *
30090320 AGT--TAATGCCATGTCCCAGATATGGTCTTACACTGACTC-TCACAT-A
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC-CATCA
* * **
30090366 TTAGTGCCGATGCCATGTCCTAGACATGGTCTTACATTGA--CA--CATTT
1 --AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCA
* * * * *
30090413 TGTAGCTGATG-CATGTCCCAGACA-CGTCTTACACTGGCTTACA-CC-TCG
1 AGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-T-CATCCATCA
* * *
30090461 AG-GTCGATG-CATTTCCAAGACAT-GTCTTACACT-AGCTC-TCGTC-TCA
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATC--CATCA
* * * *
30090507 A-TGCCAATGCCATGTTCCAGACATGGTTTTACACTGGCTC-T-CAT-A
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCA
* *
30090552 ATATGGCCGATG-CATGTCCCAAACAT-GTCTTACACT
1 A-GT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
30090588 AGCACACAAA
Statistics
Matches: 205, Mismatches: 35, Indels: 57
0.69 0.12 0.19
Matches are distributed among these distances:
44 12 0.06
45 46 0.22
46 59 0.29
47 32 0.16
48 27 0.13
49 1 0.00
50 28 0.14
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (49 bp):
AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCA
Found at i:30090436 original size:45 final size:47
Alignment explanation
Indices: 30090273--30090448 Score: 145
Period size: 45 Copynumber: 3.8 Consensus size: 47
30090263 CACAGGGTAG
*
30090273 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACT-ATCATCCATCA--
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACCA--CAT-ATT
** *
30090320 AGT--TAATGCCATGTCCCAGATATGGTCTTACACTGACTCTCACATATT
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA--C-CACATATT
* *
30090368 AGTGCCGATGCCATGTCCTAGACATGGTCTTACATTGA-CACAT-TT
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACCACATATT
* * *
30090413 TGTAGCTGATG-CATGTCCCAGACA-CGTCTTACACTG
1 AGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTG
30090449 GCTTACACCT
Statistics
Matches: 106, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
44 10 0.09
45 44 0.42
46 13 0.12
47 6 0.06
48 3 0.03
49 2 0.02
50 28 0.26
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (47 bp):
AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACCACATATT
Found at i:30092136 original size:56 final size:54
Alignment explanation
Indices: 30092041--30092196 Score: 147
Period size: 56 Copynumber: 2.8 Consensus size: 54
30092031 TTGATGACAA
* * * *
30092041 GATACATGCTAGGTCTG-GCAGCTTGTGTAGTCCTATTGAGAGGCAT-GTAATTATGT
1 GATACATGCTAGGTCCGAG-AGCTTATGTAGCCCTGTTGAGAGGCATGGT-A--ATGT
* * *
30092097 GGTACACGCTAGGTCCGAGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAATGT
1 GATACATGCTAGGTCCGAGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATGT
* *
30092151 GATGCATGCTAGGTCCGA-ATGCTCATATATAGCCCTGTTGAGAGGC
1 GATACATGCTAGGTCCGAGA-GCT--TATGTAGCCCTGTTGAGAGGC
30092197 GTGCTATGTC
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
53 1 0.01
54 22 0.26
56 58 0.69
57 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (54 bp):
GATACATGCTAGGTCCGAGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATGT
Found at i:30096081 original size:40 final size:40
Alignment explanation
Indices: 30096026--30096206 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
30096016 TATTCGGATG
*
30096026 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
30096066 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
30096106 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
** * * *
30096146 ATATTTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACT
* *
30096186 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
30096207 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 12 0.10
40 109 0.89
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:30096159 original size:80 final size:80
Alignment explanation
Indices: 30096026--30096177 Score: 268
Period size: 80 Copynumber: 1.9 Consensus size: 80
30096016 TATTCGGATG
*
30096026 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
30096091 TTTGTGCTAGCGACC
66 TTTGTGCTAGCGACC
* **
30096106 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATTTGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
30096171 TTTGTGC
66 TTTGTGC
30096178 GAGTTGCTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCTAGCGACC
Found at i:30098820 original size:29 final size:29
Alignment explanation
Indices: 30098710--30098822 Score: 165
Period size: 29 Copynumber: 3.9 Consensus size: 29
30098700 ACATACATGG
* * *
30098710 ATATAGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
30098738 ATATGGCCCATTAGGCCCAAATCATATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
30098767 GTATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
30098796 ATATGGCCCATTAAGCCCAAATCACAT
1 ATATGGCCCATTAGGCCCAAATCACAT
30098823 GCACATACAT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
28 16 0.21
29 60 0.79
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Done.