Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 60 of 216
Found at i:17708450 original size:82 final size:81
Alignment explanation
Indices: 17708332--17708487 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17708322 TGCTATATAA
* *
17708332 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17708397 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17708414 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17708478 CACTTAGTGC
65 CACTTAGTGC
17708488 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17711470 original size:19 final size:20
Alignment explanation
Indices: 17711441--17711489 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
17711431 CACTTCGTGA
* *
17711441 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
17711460 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
17711480 AAATG-AATGC
1 AAATGTAATGC
17711490 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:17713117 original size:110 final size:108
Alignment explanation
Indices: 17712864--17713142 Score: 418
Period size: 110 Copynumber: 2.6 Consensus size: 108
17712854 ATATTTGGCA
* * * * *
17712864 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCTCGAATTTCCAAAAGC
* *
17712927 AAAACATTGCCTTATTTTGAAATTTTTGAAAGGATATTTAGCT
66 AAAACATTGCCATATTTTGAAATTTTTGAAAGGATATTAAGCT
* * *
17712970 ATTTGGCTGAGCGAGAAAAATCAACACCCAGCACCTTAGGGCATGATTTCTCGAATTTCCAAAAG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATG-TTTCTCGAATTTCCAAAAG
17713035 CAAAACATTGCCATATTTTGAAATTTTTGAAAAGGATATTAAGCT
65 CAAAACATTGCCATATTTTGAAATTTTTG-AAAGGATATTAAGCT
*
17713080 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAA
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATG-TTTCTCGAATTTCCAAA
17713143 TGCCAAATAT
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
106 12 0.08
108 25 0.16
109 45 0.29
110 72 0.47
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (108 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCTCGAATTTCCAAAAGC
AAAACATTGCCATATTTTGAAATTTTTGAAAGGATATTAAGCT
Found at i:17713245 original size:15 final size:15
Alignment explanation
Indices: 17713221--17713251 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17713211 AATAAATATT
*
17713221 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
17713236 ATAATATGAACAAAA
1 ATAATATGAACAAAA
17713251 A
1 A
17713252 CGAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:17713763 original size:3 final size:3
Alignment explanation
Indices: 17713755--17713791 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
17713745 AAAACCAATG
17713755 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17713792 AATTGCTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17714526 original size:5 final size:6
Alignment explanation
Indices: 17714498--17714533 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
17714488 GTAGAAGATA
17714498 AAAAAT AAACAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAA
17714534 GAGAAGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:17717643 original size:13 final size:13
Alignment explanation
Indices: 17717625--17717652 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17717615 TTTAACTATA
17717625 TAGAGTAAAAATT
1 TAGAGTAAAAATT
17717638 TAGAGTAAAAATT
1 TAGAGTAAAAATT
17717651 TA
1 TA
17717653 AAGATGATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (13 bp):
TAGAGTAAAAATT
Found at i:17720445 original size:16 final size:17
Alignment explanation
Indices: 17720421--17720453 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17720411 ATTGGGTTGG
*
17720421 GAAAGTTAA-TTAATAA
1 GAAAATTAATTTAATAA
17720437 GAAAATTAATTTAATAA
1 GAAAATTAATTTAATAA
17720454 ATAATCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (17 bp):
GAAAATTAATTTAATAA
Found at i:17721768 original size:27 final size:26
Alignment explanation
Indices: 17721738--17721941 Score: 228
Period size: 27 Copynumber: 7.6 Consensus size: 26
17721728 GGTTCACCAT
*
17721738 AAAGGCCTTCCTTTCATAATTTTCCAC
1 AAAGGCTTTCCTTTCAT-ATTTTCCAC
* * *
17721765 AAAGGCTTTCTTTTCATGATTCTCCAT
1 AAAGGCTTTCCTTTCAT-ATTTTCCAC
* *
17721792 AAAGGCTTTCCTTTCATATTTCACCAT
1 AAAGGCTTTCCTTTCATATTT-TCCAC
* * *
17721819 AAAGGATTTCCTTTCATATTTTTTCAA
1 AAAGGCTTTCCTTTCATA-TTTTCCAC
* *
17721846 AAAGGATTTCCTTTCATATTTCGCCAC
1 AAAGGCTTTCCTTTCATATTT-TCCAC
17721873 AAAGGCTTTCCTTTCATATTTTGCCAC
1 AAAGGCTTTCCTTTCATATTTT-CCAC
17721900 AAAGGCTTTCCTTTCATATTTTGCCAC
1 AAAGGCTTTCCTTTCATATTTT-CCAC
* *
17721927 AAAGGTTTTTCTTTC
1 AAAGGCTTTCCTTTC
17721942 TTAATGTGTT
Statistics
Matches: 154, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 6 0.04
27 145 0.94
28 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.42
Consensus pattern (26 bp):
AAAGGCTTTCCTTTCATATTTTCCAC
Found at i:17721816 original size:81 final size:81
Alignment explanation
Indices: 17721730--17721940 Score: 264
Period size: 81 Copynumber: 2.6 Consensus size: 81
17721720 CATTGCAGGG
* * * *
17721730 TTCACCATAAAGGCCTTCCTTTCATAATTTTCCACAAAGGCTTTCTTTTCATGA-TTCTCCATAA
1 TTCACCATAAAGGCTTTCCTTTCATAATTTTCCACAAAGGATTTCTTTTCAT-ATTTCGCCACAA
17721794 AGGCTTTCCTTTCATAT
65 AGGCTTTCCTTTCATAT
* * * * *
17721811 TTCACCATAAAGGATTTCCTTTCATATTTTTTCAAAAAGGATTTCCTTTCATATTTCGCCACAAA
1 TTCACCATAAAGGCTTTCCTTTCATAATTTTCCACAAAGGATTTCTTTTCATATTTCGCCACAAA
17721876 GGCTTTCCTTTCATAT
66 GGCTTTCCTTTCATAT
** * *
17721892 TTTGCCACAAAGGCTTTCCTTTCAT-ATTTTGCCACAAAGGTTTTTCTTT
1 TTCACCATAAAGGCTTTCCTTTCATAATTTT-CCACAAAGG-ATTTCTTT
17721941 CTTAATGTGT
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
80 5 0.05
81 98 0.90
82 6 0.06
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.42
Consensus pattern (81 bp):
TTCACCATAAAGGCTTTCCTTTCATAATTTTCCACAAAGGATTTCTTTTCATATTTCGCCACAAA
GGCTTTCCTTTCATAT
Found at i:17724394 original size:25 final size:25
Alignment explanation
Indices: 17724366--17724450 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
17724356 CAATTCTCAA
17724366 CTCGTATGAGCTTACCGTTATTTAG
1 CTCGTATGAGCTTACCGTTATTTAG
* * * *
17724391 CTCGCACGAGTTTACCGTTACTTAG
1 CTCGTATGAGCTTACCGTTATTTAG
* *
17724416 CTCGTATGAGCTTATCG--ATTACAG
1 CTCGTATGAGCTTACCGTTATT-TAG
17724440 CTCGTATGAGC
1 CTCGTATGAGC
17724451 ATACATGTAC
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 2 0.04
24 13 0.27
25 34 0.69
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (25 bp):
CTCGTATGAGCTTACCGTTATTTAG
Found at i:17736713 original size:29 final size:27
Alignment explanation
Indices: 17736681--17736735 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
17736671 AATATATAGA
17736681 TTAT-AAATAATATAATTATATATTAAAGT
1 TTATCAAATAAT-TAA-TA-ATATTAAAGT
*
17736710 TTATCAAATTATTAATAATATTAAAG
1 TTATCAAATAATTAATAATATTAAAG
17736736 ATATTTATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.38
28 2 0.08
29 7 0.29
30 6 0.25
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
TTATCAAATAATTAATAATATTAAAGT
Found at i:17745511 original size:24 final size:24
Alignment explanation
Indices: 17745434--17745511 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
17745424 ATTTAATTTC
17745434 ATAGCCATTTTGTACCTTTGACTT
1 ATAGCCATTTTGTACCTTTGACTT
** * *
17745458 ATAGAACC-CCTTG-ACCATTTAATTT
1 ATAG--CCATTTTGTACC-TTTGACTT
17745483 CATAGCCATTTTGTACCTTTGACTT
1 -ATAGCCATTTTGTACCTTTGACTT
17745508 ATAG
1 ATAG
17745512 AACTCTAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
24 13 0.32
25 18 0.45
26 9 0.22
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.41
Consensus pattern (24 bp):
ATAGCCATTTTGTACCTTTGACTT
Found at i:17754824 original size:42 final size:43
Alignment explanation
Indices: 17754777--17754862 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
17754767 TTTTTATGAT
*
17754777 TGTTACGATTT-GTGCTTGTACCTTAATTAGTCACTAATTCAG
1 TGTTACGATTTAGTCCTTGTACCTTAATTAGTCACTAATTCAG
17754819 TGTTACGATTTAGTCCTTGTACCTTAATTAGTCACTAATTCAG
1 TGTTACGATTTAGTCCTTGTACCTTAATTAGTCACTAATTCAG
17754862 T
1 T
17754863 AAAATTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 11 0.26
43 31 0.74
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (43 bp):
TGTTACGATTTAGTCCTTGTACCTTAATTAGTCACTAATTCAG
Found at i:17757466 original size:42 final size:42
Alignment explanation
Indices: 17757412--17757508 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
17757402 CTCGGTATCG
*
17757412 CACACTTAGTGCCCGTTATTCAACATCATCATTTTAATTTCA
1 CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCA
* * *
17757454 CACACTTAGTGCCCATTATTCAACATCGTCATTTTAGTTTCG
1 CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCA
17757496 CACACTTAGTGCC
1 CACACTTAGTGCC
17757509 ATTCATATAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (42 bp):
CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCA
Found at i:17759184 original size:9 final size:9
Alignment explanation
Indices: 17759165--17759216 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
17759155 TATAGATACA
17759165 ATTTT-TTT
1 ATTTTATTT
17759173 ATTTTATTT
1 ATTTTATTT
17759182 ATTTTATTT
1 ATTTTATTT
*
17759191 A-TTCATATT
1 ATTTTAT-TT
17759200 ATTTTTAATTT
1 A-TTTT-ATTT
17759211 ATTTTA
1 ATTTTA
17759217 ACTTCTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 9 0.24
9 17 0.46
10 4 0.11
11 5 0.14
12 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTTTATTT
Found at i:17764094 original size:11 final size:10
Alignment explanation
Indices: 17764065--17764107 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
17764055 TCTTTCAAAC
17764065 TTTTATGTTTT
1 TTTTA-GTTTT
*
17764076 TCTTAGTTTT
1 TTTTAGTTTT
17764086 TTTTCAGTTTT
1 TTTT-AGTTTT
*
17764097 TTTTTGTTTT
1 TTTTAGTTTT
17764107 T
1 T
17764108 ATGTTTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 14 0.50
11 14 0.50
ACGTcount: A:0.07, C:0.05, G:0.09, T:0.79
Consensus pattern (10 bp):
TTTTAGTTTT
Found at i:17764113 original size:18 final size:18
Alignment explanation
Indices: 17764065--17764124 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
17764055 TCTTTCAAAC
*
17764065 TTTTATGTTTTTCTTAGTTTT
1 TTTTATGTTTTT-TT--TTGT
17764086 TTTTCA-GTTTTTTTTTGT
1 TTTT-ATGTTTTTTTTTGT
**
17764104 TTTTATGTTTCATTTTGT
1 TTTTATGTTTTTTTTTGT
17764122 TTT
1 TTT
17764125 CACATGTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 1 0.03
18 20 0.59
20 2 0.06
21 10 0.29
22 1 0.03
ACGTcount: A:0.08, C:0.05, G:0.10, T:0.77
Consensus pattern (18 bp):
TTTTATGTTTTTTTTTGT
Found at i:17765308 original size:11 final size:11
Alignment explanation
Indices: 17765291--17765352 Score: 79
Period size: 11 Copynumber: 5.6 Consensus size: 11
17765281 AAATTTGAAA
17765291 CACCACCATAC
1 CACCACCATAC
* *
17765302 AACCACCATAT
1 CACCACCATAC
*
17765313 CACCACCACAC
1 CACCACCATAC
*
17765324 CACTACCATAC
1 CACCACCATAC
*
17765335 CACCACCATAT
1 CACCACCATAC
17765346 CACCACC
1 CACCACC
17765353 CTTGCACCAC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.37, C:0.52, G:0.00, T:0.11
Consensus pattern (11 bp):
CACCACCATAC
Found at i:17766238 original size:47 final size:47
Alignment explanation
Indices: 17766130--17766246 Score: 126
Period size: 47 Copynumber: 2.5 Consensus size: 47
17766120 AATTTAATAA
* * * *
17766130 TCTACAAATATTAGTGGTTTATCCACAACTATGTGTATTGGTAGTTTG
1 TCTACAAA-ATTGGTGGTTTGTCAACAACTATGTGTATTGGTAGCTTG
*** ** * *
17766178 TCTGTGATTTTGGTGGCTTGTCAACAACTATTTGTATTGGTAGCTTG
1 TCTACAAAATTGGTGGTTTGTCAACAACTATGTGTATTGGTAGCTTG
17766225 TCTACAAAATTGGTGGTTTGTC
1 TCTACAAAATTGGTGGTTTGTC
17766247 CACATATGTG
Statistics
Matches: 52, Mismatches: 17, Indels: 1
0.74 0.24 0.01
Matches are distributed among these distances:
47 48 0.92
48 4 0.08
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (47 bp):
TCTACAAAATTGGTGGTTTGTCAACAACTATGTGTATTGGTAGCTTG
Found at i:17774134 original size:17 final size:18
Alignment explanation
Indices: 17774108--17774143 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17774098 TGCAAGGACA
17774108 AGGGCAAAGG-AAAGCCT
1 AGGGCAAAGGCAAAGCCT
*
17774125 AGGGCTAAGGCAAAGCCT
1 AGGGCAAAGGCAAAGCCT
17774143 A
1 A
17774144 AGGAGAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.39, C:0.19, G:0.33, T:0.08
Consensus pattern (18 bp):
AGGGCAAAGGCAAAGCCT
Found at i:17779759 original size:19 final size:19
Alignment explanation
Indices: 17779735--17779777 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
17779725 CATGTTCAAA
* * *
17779735 ATTTTAATACAATTTAATT
1 ATTTTAATAAAAATTAAAT
17779754 ATTTT-ATAAAAATTAAAT
1 ATTTTAATAAAAATTAAAT
17779772 ATTTTA
1 ATTTTA
17779778 TGACAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTAATAAAAATTAAAT
Found at i:17781418 original size:26 final size:26
Alignment explanation
Indices: 17781382--17781433 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
17781372 TACCAAAATG
17781382 AAGATTTTTAAGTGCTGATTCAGATT
1 AAGATTTTTAAGTGCTGATTCAGATT
17781408 AAGATTTTTAAGTGCTGATTCAGATT
1 AAGATTTTTAAGTGCTGATTCAGATT
17781434 TCGTGACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (26 bp):
AAGATTTTTAAGTGCTGATTCAGATT
Found at i:17782649 original size:23 final size:22
Alignment explanation
Indices: 17782622--17782677 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
17782612 ATCTAAACAA
17782622 TTTGCCACAAAAAAAAATAAAAT
1 TTTGCCACAAAAAAAAA-AAAAT
** *
17782645 TTTGCACACATGATAAAAAAAAT
1 TTTGC-CACAAAAAAAAAAAAAT
17782668 TTTGCCACAA
1 TTTGCCACAA
17782678 TTTTTTTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.14
23 15 0.54
24 9 0.32
ACGTcount: A:0.52, C:0.16, G:0.07, T:0.25
Consensus pattern (22 bp):
TTTGCCACAAAAAAAAAAAAAT
Found at i:17784083 original size:11 final size:11
Alignment explanation
Indices: 17784067--17784101 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
17784057 GAACAATAAT
17784067 TTACCCATTCA
1 TTACCCATTCA
17784078 TTACCCATTCA
1 TTACCCATTCA
*
17784089 TTACCCATACA
1 TTACCCATTCA
17784100 TT
1 TT
17784102 TGGATGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (11 bp):
TTACCCATTCA
Found at i:17787216 original size:20 final size:19
Alignment explanation
Indices: 17787191--17787256 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
17787181 TTGTACGGGA
17787191 TTTGCACTTTGGTCCCCCTG
1 TTTGCACTTTGGT-CCCCTG
* * *
17787211 TTTGCACATTT-GTGCCTTA
1 TTTGCAC-TTTGGTCCCCTG
17787230 TTTGCACTTTGGTGCCCCTG
1 TTTGCACTTTGGT-CCCCTG
17787250 TTATGCA
1 TT-TGCA
17787257 TCTATGATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
18 3 0.08
19 12 0.33
20 14 0.39
21 7 0.19
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.42
Consensus pattern (19 bp):
TTTGCACTTTGGTCCCCTG
Found at i:17793712 original size:15 final size:16
Alignment explanation
Indices: 17793683--17793712 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17793673 CAAACATGTT
17793683 TTAACACATTATCAAA
1 TTAACACATTATCAAA
17793699 TTAACACA-TATCAA
1 TTAACACATTATCAA
17793713 TAAGACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:17796929 original size:26 final size:26
Alignment explanation
Indices: 17796899--17796977 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
17796889 ACCAACACAC
17796899 CAATATCGCAACAAAGCTGCCAGTAA
1 CAATATCGCAACAAAGCTGCCAGTAA
* * *
17796925 TAATAACACAACAAAGCTGCCAGTAA
1 CAATATCGCAACAAAGCTGCCAGTAA
* *
17796951 CAGTAAT-GCAGCAAAGCTGCCAGTAA
1 CAAT-ATCGCAACAAAGCTGCCAGTAA
17796977 C
1 C
17796978 GGTATATGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 43 0.98
27 1 0.02
ACGTcount: A:0.43, C:0.25, G:0.16, T:0.15
Consensus pattern (26 bp):
CAATATCGCAACAAAGCTGCCAGTAA
Found at i:17797188 original size:27 final size:26
Alignment explanation
Indices: 17797158--17797272 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
17797148 GGTTATAACA
* *
17797158 GTCATTTTACCGTATAGGGGTATTTCG
1 GTCATTTTACCCT-TAGGGGTAATTCG
*
17797185 GTCATTTTACCCTTCGGGGGTAATTCG
1 GTCATTTTACCCTT-AGGGGTAATTCG
* *
17797212 GTCATTTTATCCTTTGAGGGTAATTCG
1 GTCATTTTACCCTTAG-GGGTAATTCG
*
17797239 GTCATTTTACCCTTTAAGGGTAATTCG
1 GTCATTTTACCC-TTAGGGGTAATTCG
17797266 GTCATTT
1 GTCATTT
17797273 GTGGCCCATT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
26 2 0.03
27 73 0.95
28 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTTAGGGGTAATTCG
Found at i:17804317 original size:26 final size:26
Alignment explanation
Indices: 17804288--17804338 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
17804278 ACACCAATAT
17804288 CGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
17804314 CGCAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
17804339 TATGTGGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.27, G:0.24, T:0.12
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:17804357 original size:27 final size:27
Alignment explanation
Indices: 17804288--17804367 Score: 101
Period size: 26 Copynumber: 3.0 Consensus size: 27
17804278 ACACCAATAT
17804288 CGCAGCAAAGCTGCCAGTAACAGTA-A
1 CGCAGCAAAGCTGCCAGTAACAGTATA
17804314 CGCAGCAAAGCTGCCAGTAACAGTATA
1 CGCAGCAAAGCTGCCAGTAACAGTATA
* ** **
17804341 TGTGGCAAAGCCACCAGT-ACAGTATA
1 CGCAGCAAAGCTGCCAGTAACAGTATA
17804367 C
1 C
17804368 TTCCCCTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 33 0.70
27 14 0.30
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (27 bp):
CGCAGCAAAGCTGCCAGTAACAGTATA
Found at i:17805616 original size:25 final size:25
Alignment explanation
Indices: 17805577--17805658 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
17805567 GGTTGTTACA
* *
17805577 CTTTTCATAAGATTAGCCACAAAGG
1 CTTTTCACAATATTAGCCACAAAGG
17805602 CTTTTCACAATATTAGCCACAAAGG
1 CTTTTCACAATATTAGCCACAAAGG
*
17805627 C-TTTC-CAGATAATATGCCACAAAGG
1 CTTTTCACA-ATATTA-GCCACAAAGG
*
17805652 ATTTTCA
1 CTTTTCA
17805659 TAAGATTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.04
24 9 0.18
25 34 0.69
26 4 0.08
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (25 bp):
CTTTTCACAATATTAGCCACAAAGG
Found at i:17805676 original size:50 final size:51
Alignment explanation
Indices: 17805592--17805716 Score: 157
Period size: 50 Copynumber: 2.5 Consensus size: 51
17805582 CATAAGATTA
* * * *
17805592 GCCACAAAGGCTTTTCACAATATTAGCCACAAAGGCTTTCCAGATAATA-T
1 GCCACAAAGGCTTTTCATAAGATTAACCACAAAGGCTTTCCAAATAATACT
* * *
17805642 GCCACAAAGGATTTTCATAAGATTAATCATAAAGGCTTTCCAAATAATACT
1 GCCACAAAGGCTTTTCATAAGATTAACCACAAAGGCTTTCCAAATAATACT
17805693 -CCACCAAA-GCTTTTCATAAGATTA
1 GCCA-CAAAGGCTTTTCATAAGATTA
17805717 GGGTTCAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
50 60 0.92
51 5 0.08
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (51 bp):
GCCACAAAGGCTTTTCATAAGATTAACCACAAAGGCTTTCCAAATAATACT
Found at i:17805842 original size:5 final size:5
Alignment explanation
Indices: 17805832--17805858 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17805822 AGATACGAGT
17805832 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
17805859 CATATTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:17810254 original size:24 final size:25
Alignment explanation
Indices: 17810200--17810261 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
17810190 ATCCGAGAAA
* *
17810200 TATAATGGGAAGCTCACAAAGAGCC
1 TATAACGGGTAGCTCACAAAGAGCC
17810225 TATAACGGGTAGCTC-CAAAGAGCAC
1 TATAACGGGTAGCTCACAAAGAGC-C
17810250 T-TAACGGGTAGC
1 TATAACGGGTAGC
17810262 ACCGGATAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 19 0.56
25 15 0.44
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (25 bp):
TATAACGGGTAGCTCACAAAGAGCC
Found at i:17816293 original size:101 final size:102
Alignment explanation
Indices: 17816165--17816349 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
17816155 AAAGTGATGG
* * *
17816165 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGAT-A-GGTCGCACGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG-AATGATAATGGCCACACGTGTAGT
17816228 ACTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
* *
17816266 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGATAATGGCCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGCCACACGTGTAGTA
17816331 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
17816350 TGAATCGAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 6 0.08
101 39 0.51
102 32 0.42
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGCCACACGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
Found at i:17816326 original size:51 final size:51
Alignment explanation
Indices: 17816161--17816358 Score: 217
Period size: 51 Copynumber: 3.9 Consensus size: 51
17816151 AGTGAAAGTG
* *
17816161 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGAT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCG-AATGATA
* * * *
17816212 A-GGTCGCACGTGTAGTACTATGTGCAGGCTACTATGCGTA-C-CA-GATA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGAATGATA
* * * *
17816259 GTTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGATA
1 --AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGAATGATA
* *
17816313 ATGGCCACATGTGTAGTACTATGTGCAGGCTACTATGTGAATCGAA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGAA
17816359 CATCATTGAT
Statistics
Matches: 120, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
46 3 0.03
47 1 0.01
49 1 0.01
50 35 0.29
51 73 0.61
52 2 0.02
53 1 0.01
54 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGAATGATA
Found at i:17816351 original size:26 final size:26
Alignment explanation
Indices: 17816271--17816351 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
17816261 TTCGATCACG
17816271 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *
17816297 CGTGTA-T-CGAATGAT-AATGGCCAC-A
1 TGTGTAGTAC-TATG-TGCA-GGCTACTA
17816322 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
17816348 TGTG
1 TGTG
17816352 AATCGAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:17820738 original size:150 final size:150
Alignment explanation
Indices: 17820467--17820965 Score: 554
Period size: 150 Copynumber: 3.3 Consensus size: 150
17820457 GAAACAATTT
* * * *
17820467 GCTAACCTATGTTCACAACTGATATTTTTATGGT-TCGCTAATTTAAGATCGCGACCCTTAGTTT
1 GCTAACCTACGTTCACAACTGATATTTTTACGGTCT-GCTAATTTAAGATCGTGACCCTCAGTTT
* * * *
17820531 TCTATCATCTCACTTACCTACATTCATAGCTGATATTTTT-TCGG-TCTATTGATTTAAGATTGC
65 TCTAACATCTCGCTGACCTACATTCACAGCTGATATTTTTAT-GGTTC-ATTGATTTAAGATTGC
17820594 GACCCTCAATTTTCTAACAGCTC
128 GACCCTCAATTTTCTAACAGCTC
* * ** *
17820617 GCTAACCTATGTTCACAATTGATATTTTTACAATCTGCTAATTTAAGATCGTGACCCTCAATTTT
1 GCTAACCTACGTTCACAACTGATATTTTTACGGTCTGCTAATTTAAGATCGTGACCCTCAGTTTT
* ** * * * * *
17820682 CTAACATCTCGCTGACTTATGTTCACAACTAATATTTTTATGGTTCATTGATTTAAGATTTCAAT
66 CTAACATCTCGCTGACCTACATTCACAGCTGATATTTTTATGGTTCATTGATTTAAGATTGCGAC
**
17820747 CCTCAGCTTTCTAACAGCTC
131 CCTCAATTTTCTAACAGCTC
* * * * * * *
17820767 GCTGACCTACGTTCACCACTGATATTTTTATGGTCTACTGATTTAAGATCGTAACCCTCGGTTTT
1 GCTAACCTACGTTCACAACTGATATTTTTACGGTCTGCTAATTTAAGATCGTGACCCTCAGTTTT
* * * * * * ** *
17820832 CTAATAGCTCGCTGACCTACATTCACAGTTGACATTTTTAAGGTCCGCTGATTTAAGATTGTGAC
66 CTAACATCTCGCTGACCTACATTCACAGCTGATATTTTTATGGTTCATTGATTTAAGATTGCGAC
*
17820897 CCTCGATTTTCTAACAGCTC
131 CCTCAATTTTCTAACAGCTC
* * * *
17820917 GCTGACCTACGTTCACAACTAATATTTTTACGGTCCGCTAATTTCAGAT
1 GCTAACCTACGTTCACAACTGATATTTTTACGGTCTGCTAATTTAAGAT
17820966 TGCGACTGTA
Statistics
Matches: 286, Mismatches: 60, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
150 282 0.99
151 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.38
Consensus pattern (150 bp):
GCTAACCTACGTTCACAACTGATATTTTTACGGTCTGCTAATTTAAGATCGTGACCCTCAGTTTT
CTAACATCTCGCTGACCTACATTCACAGCTGATATTTTTATGGTTCATTGATTTAAGATTGCGAC
CCTCAATTTTCTAACAGCTC
Found at i:17820871 original size:225 final size:225
Alignment explanation
Indices: 17820471--17820965 Score: 582
Period size: 225 Copynumber: 2.2 Consensus size: 225
17820461 CAATTTGCTA
* * * * * *
17820471 ACCTATGTTCACAACTGATATTTTTATGGTTCGCTAATTTAAGATCGCGACCCTTAGTTTTCTAT
1 ACCTATGTTCACAACTAATATTTTTATGGTTCACTAATTTAAGATCGCAACCCTCAGCTTTCTAA
* * * * * *
17820536 CATCTCACTTACCTACATTCATAGCTGATATTTTTTCGGTCTATTGATTTAAGATTGCGACCCTC
66 CAGCTCACTGACCTACATTCACAGCTGATATTTTTTCGGTCTACTGATTTAAGATCGCAACCCTC
** * *
17820601 AATTTTCTAACAGCTCGCTAACCTATGTTCACAATTGATATTTTTACA-ATCTGCTAATTTAAGA
131 AATTTTCTAACAGCTCGCTAACCTACATTCACAATTGACATTTTTA-AGATCCGCTAATTTAAGA
*
17820665 TCGTGACCCTCAATTTTCTAACATCTCGCTG
195 TCGTGACCCTCAATTTTCTAACAGCTCGCTG
* * * ** *
17820696 ACTTATGTTCACAACTAATATTTTTATGGTTCATTGATTTAAGATTTCAATCCTCAGCTTTCTAA
1 ACCTATGTTCACAACTAATATTTTTATGGTTCACTAATTTAAGATCGCAACCCTCAGCTTTCTAA
* * *
17820761 CAGCTCGCTGACCTACGTTCACCA-CTGATATTTTTAT-GGTCTACTGATTTAAGATCGTAACCC
66 CAGCTCACTGACCTACATTCA-CAGCTGATATTTTT-TCGGTCTACTGATTTAAGATCGCAACCC
** * * * * *
17820824 TCGGTTTTCTAATAGCTCGCTGACCTACATTCACAGTTGACATTTTTAAGGTCCGCTGATTTAAG
129 TCAATTTTCTAACAGCTCGCTAACCTACATTCACAATTGACATTTTTAAGATCCGCTAATTTAAG
* *
17820889 ATTGTGACCCTCGATTTTCTAACAGCTCGCTG
194 ATCGTGACCCTCAATTTTCTAACAGCTCGCTG
* * * * *
17820921 ACCTACGTTCACAACTAATATTTTTACGGTCCGCTAATTTCAGAT
1 ACCTATGTTCACAACTAATATTTTTATGGTTCACTAATTTAAGAT
17820966 TGCGACTGTA
Statistics
Matches: 224, Mismatches: 43, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
224 1 0.00
225 221 0.99
226 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.38
Consensus pattern (225 bp):
ACCTATGTTCACAACTAATATTTTTATGGTTCACTAATTTAAGATCGCAACCCTCAGCTTTCTAA
CAGCTCACTGACCTACATTCACAGCTGATATTTTTTCGGTCTACTGATTTAAGATCGCAACCCTC
AATTTTCTAACAGCTCGCTAACCTACATTCACAATTGACATTTTTAAGATCCGCTAATTTAAGAT
CGTGACCCTCAATTTTCTAACAGCTCGCTG
Found at i:17820952 original size:75 final size:75
Alignment explanation
Indices: 17820471--17820967 Score: 456
Period size: 75 Copynumber: 6.6 Consensus size: 75
17820461 CAATTTGCTA
* * * * * * * * *
17820471 ACCTATGTTCACAACTGATATTTTTATGGTTCGCTAATTTAAGATCGCGACCCTTAGTTTTCTAT
1 ACCTACGTTCACAACTGATATTTTTACGGTCCGCTGATTTAAGATTGTGACCCTCAATTTTCTAA
* * *
17820536 CATCTCACTT
66 CAGCTCGCTG
* * * * *** *
17820546 ACCTACATTCATAGCTGATATTTTTTCGGTCTATTGATTTAAGATTGCGACCCTCAATTTTCTAA
1 ACCTACGTTCACAACTGATATTTTTACGGTCCGCTGATTTAAGATTGTGACCCTCAATTTTCTAA
*
17820611 CAGCTCGCTA
66 CAGCTCGCTG
* * ** * * *
17820621 ACCTATGTTCACAATTGATATTTTTACAATCTGCTAATTTAAGATCGTGACCCTCAATTTTCTAA
1 ACCTACGTTCACAACTGATATTTTTACGGTCCGCTGATTTAAGATTGTGACCCTCAATTTTCTAA
*
17820686 CATCTCGCTG
66 CAGCTCGCTG
* * * * * ** * * **
17820696 ACTTATGTTCACAACTAATATTTTTATGGTTCATTGATTTAAGATT-TCAATCCTCAGCTTTCTA
1 ACCTACGTTCACAACTGATATTTTTACGGTCCGCTGATTTAAGATTGT-GACCCTCAATTTTCTA
17820760 ACAGCTCGCTG
65 ACAGCTCGCTG
* * ** * * **
17820771 ACCTACGTTCACCACTGATATTTTTATGGTCTACTGATTTAAGATCGTAACCCTCGGTTTTCTAA
1 ACCTACGTTCACAACTGATATTTTTACGGTCCGCTGATTTAAGATTGTGACCCTCAATTTTCTAA
*
17820836 TAGCTCGCTG
66 CAGCTCGCTG
* ** * * *
17820846 ACCTACATTCACAGTTGACATTTTTAAGGTCCGCTGATTTAAGATTGTGACCCTCGATTTTCTAA
1 ACCTACGTTCACAACTGATATTTTTACGGTCCGCTGATTTAAGATTGTGACCCTCAATTTTCTAA
17820911 CAGCTCGCTG
66 CAGCTCGCTG
* * *
17820921 ACCTACGTTCACAACTAATATTTTTACGGTCCGCTAATTTCAGATTG
1 ACCTACGTTCACAACTGATATTTTTACGGTCCGCTGATTTAAGATTG
17820968 CGACTGTAAC
Statistics
Matches: 338, Mismatches: 82, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
74 1 0.00
75 336 0.99
76 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.38
Consensus pattern (75 bp):
ACCTACGTTCACAACTGATATTTTTACGGTCCGCTGATTTAAGATTGTGACCCTCAATTTTCTAA
CAGCTCGCTG
Found at i:17821780 original size:37 final size:36
Alignment explanation
Indices: 17821730--17821807 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
17821720 TTATTACGAA
* *
17821730 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CCACACGAAGTCATCGG
* *
17821767 GTCTTACCCGGACAAAATCCCATACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCACACGAAGTCATCGG
17821803 GTCTT
1 GTCTT
17821808 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 19 0.51
37 18 0.49
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCCCACACGAAGTCATCGG
Found at i:17822004 original size:47 final size:47
Alignment explanation
Indices: 17821926--17823022 Score: 1888
Period size: 47 Copynumber: 22.9 Consensus size: 47
17821916 CCCTTCGGGA
* * * * * *
17821926 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17821973 CCTGTCACAAATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822067 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17822116 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822165 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17822212 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17822261 CTTATCATCACATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCA-CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822309 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822356 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822405 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822454 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822503 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822550 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822597 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822644 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822691 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822740 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822789 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822838 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822885 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17822932 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17822979 CTTATCACATATATACACTTTTACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
17823023 CGTCATACTA
Statistics
Matches: 1019, Mismatches: 22, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
47 546 0.54
48 43 0.04
49 429 0.42
50 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17822792 original size:335 final size:335
Alignment explanation
Indices: 17821926--17823022 Score: 2018
Period size: 335 Copynumber: 3.3 Consensus size: 335
17821916 CCCTTCGGGA
* * * * * * * * *
17821926 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACAAATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17821991 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
17822054 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCT
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
17822119 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
196 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
17822184 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
261 TTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACAT
*
17822249 CGACCATTAGGC
324 CGGCCATTAGGC
* *
17822261 CTTATCATCACATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTATCA-CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
17822326 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
17822391 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
130 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
17822456 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
195 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17822521 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
260 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
17822586 GGCCATTAGGC
325 GGCCATTAGGC
17822597 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17822662 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
17822727 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
17822792 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
196 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
17822857 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
261 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
17822922 GCCATTAGGC
326 GCCATTAGGC
17822932 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
17822997 TTTTACATTCATCACATCGGTCATTA
66 TTTCACATTCATCACATCGGCCATTA
17823023 CGTCATACTA
Statistics
Matches: 742, Mismatches: 17, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
335 422 0.57
336 129 0.17
338 191 0.26
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (335 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:17826550 original size:119 final size:119
Alignment explanation
Indices: 17826358--17826737 Score: 568
Period size: 119 Copynumber: 3.2 Consensus size: 119
17826348 TGATTACTCT
* * * * * *
17826358 TCGGGACCTAGCCGCGGATATAACACCAGCATGAATGCTCTTCGAGG-TTTAGCACGGGATATAT
1 TCGGGACTTAGCC-CGGATAT-ATACTAGCACGAATGCTCTTCG-GGACTTAGC-CCGGATATAT
* * *
17826422 TACTAGCACGAATGCCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCT-C
62 CACTAGCACGAATG-CTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
17826480 TCGGGACTTAGCCCGGATATATACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
17826545 AGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTGC
66 AGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
17826599 TCGGGACTTAGCCCGGATAT-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC
1 TCGGGACTTAGCCCGGATATAT-ACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC
* *
17826663 TAGCACGAATGCTCCTCGGGACTTAGCCCGGATTATGTCGCTAGCACGAATGCTCC
65 TAGCACGAATGCTCCTCGGGACTTAGCCCGGA-TATATCACTAGCACGAATGCTCC
17826719 TCGGGACTTAGCCCGGATA
1 TCGGGACTTAGCCCGGATA
17826738 CATCACTCTC
Statistics
Matches: 242, Mismatches: 12, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
118 41 0.17
119 119 0.49
120 63 0.26
121 7 0.03
122 12 0.05
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (119 bp):
TCGGGACTTAGCCCGGATATATACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
AGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:17826557 original size:40 final size:40
Alignment explanation
Indices: 17826354--17826744 Score: 567
Period size: 40 Copynumber: 9.8 Consensus size: 40
17826344 AGCATGATTA
* * * *
17826354 CTCTTCGGGACCTAGCCGCGGATATAACACCAGCATGAATG
1 CTCTTCGGGACTTAGCC-CGGATATATCACTAGCACGAATG
* * *
17826395 CTCTTCGAGG-TTTAGCACGGGATATATTACTAGCACGAATG
1 CTCTTCG-GGACTTAGC-CCGGATATATCACTAGCACGAATG
*
17826436 CCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 -CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
17826477 CTC-TCGGGACTTAGCCCGGATATAT-ACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
17826515 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
17826555 CTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
17826595 CTGC-TCGGGACTTAGCCCGGATAT-TCACTAGCACGAATG
1 CT-CTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
17826634 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
17826674 CTCCTCGGGACTTAGCCCGGATTATGTCGCTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGA-TATATCACTAGCACGAATG
* *
17826715 CTCCTCGGGACTTAGCCCGGATACATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
17826745 CTCAATTCTC
Statistics
Matches: 321, Mismatches: 19, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
38 17 0.05
39 80 0.25
40 118 0.37
41 91 0.28
42 15 0.05
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:17826570 original size:79 final size:80
Alignment explanation
Indices: 17826354--17826744 Score: 567
Period size: 79 Copynumber: 4.9 Consensus size: 80
17826344 AGCATGATTA
* * * * * * *
17826354 CTCTTCGGGACCTAGCCGCGGATATAACACCAGCATGAATGCTCTTCGAGG-TTTAGCACGGGAT
1 CTCTTCGGGACTTAGCC-CGGATATATCACTAGCACGAATGCTCCTCG-GGACTTAGC-CCGGAT
*
17826418 ATATTACTAGCACGAATG
63 ATATCACTAGCACGAATG
*
17826436 CCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCT-CTCGGGACTTAGCCCGGATAT
1 -CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
17826500 AT-ACTAGCACGAATG
65 ATCACTAGCACGAATG
17826515 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
17826580 TCACTAGCACGAATG
66 TCACTAGCACGAATG
*
17826595 CTGC-TCGGGACTTAGCCCGGATAT-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 CT-CTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
17826658 ATCACTAGCACGAATG
65 ATCACTAGCACGAATG
* * * *
17826674 CTCCTCGGGACTTAGCCCGGATTATGTCGCTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAC
1 CTCTTCGGGACTTAGCCCGGA-TATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
17826739 ATCACT
65 ATCACT
17826745 CTCAATTCTC
Statistics
Matches: 288, Mismatches: 13, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
78 42 0.15
79 109 0.38
80 49 0.17
81 51 0.18
82 21 0.07
83 16 0.06
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
TCACTAGCACGAATG
Found at i:17828017 original size:36 final size:36
Alignment explanation
Indices: 17827945--17828021 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 36
17827935 TTATTACAAA
* *
17827945 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATC-G
*
17827982 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
17828017 GTCTT
1 GTCTT
17828022 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 6 0.16
36 13 0.35
37 18 0.49
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
Found at i:17828504 original size:93 final size:92
Alignment explanation
Indices: 17828137--17828554 Score: 660
Period size: 93 Copynumber: 4.5 Consensus size: 92
17828127 CCCTTCGGGA
* * * * * * *
17828137 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTGTCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCAC-ATCGCCATTAGGCCTATCACATATATACACT
*
17828202 TTCACATTCATCACATCAGCCATTAGGC
65 TTCACATTCATCACATCGGCCATTAGGC
17828230 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGCC-TATCACATATATACAC
17828295 TTTCACATTCATCACATCGGCCATTAGGC
64 TTTCACATTCATCACATCGGCCATTAGGC
17828324 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATC-GCCATTAGGCCTATCAC--ATATATA
17828389 CACTTTCACATTCATCACATCGGCCATTAGGC
61 CACTTTCACATTCATCACATCGGCCATTAGGC
17828421 CTTATCACATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGCCATTAGGCC-TATCACATATATACACT
17828486 TTCACATTCATCACATCGGCCATTAGGC
65 TTCACATTCATCACATCGGCCATTAGGC
*
17828514 CTTATCACATATATACAC-TTCACA-TCATCACATCGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGCCATTA
17828555 CGCCATACTA
Statistics
Matches: 309, Mismatches: 9, Indels: 16
0.93 0.03 0.05
Matches are distributed among these distances:
91 16 0.05
92 7 0.02
93 97 0.31
94 62 0.20
95 40 0.13
96 40 0.13
97 47 0.15
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (92 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGCCATTAGGCCTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGC
Found at i:17828567 original size:47 final size:47
Alignment explanation
Indices: 17828137--17828548 Score: 681
Period size: 47 Copynumber: 8.8 Consensus size: 47
17828127 CCCTTCGGGA
* * * * * *
17828137 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17828184 C-TGTCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17828230 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17828277 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17828324 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17828373 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17828421 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17828467 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17828514 CTTATCACATATATACAC-TTCACA-TCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
17828549 TCATTACGCC
Statistics
Matches: 350, Mismatches: 10, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
45 11 0.03
46 90 0.26
47 155 0.44
48 48 0.14
49 46 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17832761 original size:3 final size:3
Alignment explanation
Indices: 17832753--17832804 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
17832743 TTTCCCCCAC
17832753 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17832801 TAT T
1 TAT T
17832805 TCTATGTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17839280 original size:41 final size:41
Alignment explanation
Indices: 17839226--17839450 Score: 258
Period size: 41 Copynumber: 5.5 Consensus size: 41
17839216 ATTCAAAATT
* *
17839226 AGGGCACATATGTGCAACTCAAGGGTATCGAAGTACAAACA
1 AGGGCACGTATGTGCAATTCAAGGGTATCGAAGTACAAACA
* * *
17839267 AGAGCACGTATGTGCAATTCAAGGGTACCGAAGCACAAACA
1 AGGGCACGTATGTGCAATTCAAGGGTATCGAAGTACAAACA
* * *
17839308 GGGGCACGTATGTGTAATTC-AGGAGTATCGAAGCACAAACA
1 AGGGCACGTATGTGCAATTCAAGG-GTATCGAAGTACAAACA
* * * *
17839349 GGGGCACATATGTGCAATTTAGGGGTAGT-GAAGTACAAACA
1 AGGGCACGTATGTGCAATTCAAGGGTA-TCGAAGTACAAACA
* * *
17839390 AGGGCACGTATGTGCAATTCAGGGGTACCGAAGTATAAACA
1 AGGGCACGTATGTGCAATTCAAGGGTATCGAAGTACAAACA
* *
17839431 GGGGCACG-CTGTGCAATTCA
1 AGGGCACGTATGTGCAATTCA
17839451 TACTATAATT
Statistics
Matches: 159, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
40 14 0.09
41 142 0.89
42 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (41 bp):
AGGGCACGTATGTGCAATTCAAGGGTATCGAAGTACAAACA
Found at i:17840251 original size:16 final size:15
Alignment explanation
Indices: 17840208--17840251 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
17840198 AGATGATATA
*
17840208 TTTATTTTACTTATT
1 TTTAATTTACTTATT
*
17840223 TTTACTTTAACTTATT
1 TTTAATTT-ACTTATT
17840239 TATTAATTTACTT
1 T-TTAATTTACTT
17840252 TAATAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 12 0.48
17 6 0.24
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAATTTACTTATT
Found at i:17842564 original size:23 final size:23
Alignment explanation
Indices: 17842526--17842576 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
17842516 TTCCTAGCTA
* *
17842526 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
17842549 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
17842572 AGTAA
1 TGTAA
17842577 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:17863821 original size:30 final size:30
Alignment explanation
Indices: 17863787--17863873 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 30
17863777 AGAATCAGTC
* *
17863787 TGGGCCTGAGCCCCATACAG-AAGCA-ATGTG
1 TGGGCCTTAGCCCAATACAGTAA-CAGA-GTG
17863817 TGGGCCTTAGCCCAATACAGTAACAGAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGAGTG
*
17863847 TGGGCCTTAGCCCAATGCAGTAACAGA
1 TGGGCCTTAGCCCAATACAGTAACAGA
17863874 CAAATGCAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
30 49 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.18
Consensus pattern (30 bp):
TGGGCCTTAGCCCAATACAGTAACAGAGTG
Found at i:17864074 original size:26 final size:26
Alignment explanation
Indices: 17863980--17864081 Score: 141
Period size: 26 Copynumber: 3.9 Consensus size: 26
17863970 CACTAATATA
* * *
17863980 GCAGCAAAGTTGCCAGCAATAGTAAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
17864006 GCAGCAAAGCTGCCAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
* *
17864032 GCAGCAGAGCTGCCAGTATCAGTAAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
* *
17864058 GTAGCAAAGCTTCCAGTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
17864082 TTTGTGGCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAT
Found at i:17864107 original size:52 final size:52
Alignment explanation
Indices: 17864000--17864107 Score: 119
Period size: 52 Copynumber: 2.1 Consensus size: 52
17863990 TGCCAGCAAT
* **
17864000 AGTAATGCAGCAAAGCTGCCAGTAACAGTAATGCAGCAGAGCTGCCAGTATC
1 AGTAATGCAGCAAAGCTGCCAGTAACAGTAATGCAGCAAAGCCACCAGTATC
* * * ** *
17864052 AGTAATGTAGCAAAGCTTCCAGTAACAGTATTTGTGGCAAAGCCACTAGTA-C
1 AGTAATGCAGCAAAGCTGCCAGTAACAGTA-ATGCAGCAAAGCCACCAGTATC
17864104 AGTA
1 AGTA
17864108 TACTTCCCCT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
52 33 0.72
53 13 0.28
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (52 bp):
AGTAATGCAGCAAAGCTGCCAGTAACAGTAATGCAGCAAAGCCACCAGTATC
Found at i:17864304 original size:27 final size:27
Alignment explanation
Indices: 17864255--17864604 Score: 388
Period size: 27 Copynumber: 13.0 Consensus size: 27
17864245 AGGGTATAGT
* *
17864255 AGTCATTTTACCCTATGGA-GGTATTTA
1 AGTCATTTTACCCT-TCGAGGGTATTTC
* *
17864282 AGTCAATTTACCCTTCGGGGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTC
* * * *
17864309 -GATTATTTTTCCTTTCGGGGGTATTTC
1 AG-TCATTTTACCCTTCGAGGGTATTTC
* *
17864336 GGTCATTTTACCCATCGAGGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTC
* * *
17864363 GGTCATTTTACCCATCGAGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTC
**
17864390 AGTCATTTTACCCTTTAAGGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTC
* * *
17864417 AGTCATTTTACCCATCAAAGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTC
* * *
17864444 GGTCATTTTACCCATCGAAGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTC
17864471 -GATCATTTTA-CCTATCGAGGGTATTTC
1 AG-TCATTTTACCCT-TCGAGGGTATTTC
* *
17864498 GGTCATTTTA-CCTATCAAGGGTATTTC
1 AGTCATTTTACCCT-TCGAGGGTATTTC
17864525 AGTCATTTTACCCTTCGAGGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTC
*
17864552 GGTCATTTTACCCTTCGAGGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTC
17864579 -GATCATTTTACCCTTCGAGGGTATTT
1 AG-TCATTTTACCCTTCGAGGGTATTT
17864605 TGATCATTTT
Statistics
Matches: 285, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.02
27 273 0.96
28 5 0.02
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (27 bp):
AGTCATTTTACCCTTCGAGGGTATTTC
Found at i:17864385 original size:81 final size:81
Alignment explanation
Indices: 17864256--17864615 Score: 438
Period size: 81 Copynumber: 4.4 Consensus size: 81
17864246 GGGTATAGTA
* ** * * * * *
17864256 GTCATTTTACCCTATGGA-GGTATTTAAGTCAATTTACCCTTCGGGGGTATTTCGATTATTTTTC
1 GTCATTTTACCC-ATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGATCATTTTAC
*
17864320 CTTTCGGGGGTATTTCG
65 CTTTCGAGGGTATTTCG
*
17864337 GTCATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTT-TAGTCATTTTAC
1 GTCATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA-TCATTTTA-
* *
17864401 CCTTT-AAGGGTATTTCA
64 CCTTTCGAGGGTATTTCG
* * *
17864418 GTCATTTTACCCATCAAAGGTATTTCGGTCATTTTACCCATCGAAGGTATTTCGATCATTTTACC
1 GTCATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACC
*
17864483 TATCGAGGGTATTTCG
66 TTTCGAGGGTATTTCG
* * * * *
17864499 GTCATTTTACCTATCAAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACC
*
17864564 CTTCGAGGGTATTTCG
66 TTTCGAGGGTATTTCG
* * * *
17864580 ATCATTTTACCCTTCGAGGGTATTTTGATCATTTTA
1 GTCATTTTACCCATCGAGGGTATTTCGGTCATTTTA
17864616 GAGGCCCATT
Statistics
Matches: 240, Mismatches: 34, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
80 9 0.04
81 225 0.94
82 6 0.03
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (81 bp):
GTCATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACC
TTTCGAGGGTATTTCG
Found at i:17866226 original size:19 final size:19
Alignment explanation
Indices: 17866165--17866227 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
17866155 TATATGCATT
17866165 TAGGGGTACCAAAGTACAA
1 TAGGGGTACCAAAGTACAA
* * *
17866184 TA-GGGTA-CATATGTGCAT
1 TAGGGGTACCA-AAGTACAA
*
17866202 TCAGGGGTACCGAAGTACAA
1 T-AGGGGTACCAAAGTACAA
17866222 TAGGGG
1 TAGGGG
17866228 CACATTTGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
17 2 0.06
18 11 0.33
19 8 0.24
20 11 0.33
21 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (19 bp):
TAGGGGTACCAAAGTACAA
Found at i:17866249 original size:39 final size:39
Alignment explanation
Indices: 17866130--17866260 Score: 174
Period size: 39 Copynumber: 3.4 Consensus size: 39
17866120 GGGTGTTACA
* * * *
17866130 GTACCGAAGTAAAAACAGGGGCATATATATGCATTTAGGG
1 GTACCGAAGT-ACAATAGGGGCACATATGTGCATTTAGGG
* * *
17866170 GTACCAAAGTACAATA-GGGTACATATGTGCATTCAGGG
1 GTACCGAAGTACAATAGGGGCACATATGTGCATTTAGGG
*
17866208 GTACCGAAGTACAATAGGGGCACATTTGTGCATTTAGGG
1 GTACCGAAGTACAATAGGGGCACATATGTGCATTTAGGG
17866247 GTACCGAAGTACAA
1 GTACCGAAGTACAA
17866261 ACACGAGCAC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
38 33 0.42
39 37 0.47
40 9 0.11
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.23
Consensus pattern (39 bp):
GTACCGAAGTACAATAGGGGCACATATGTGCATTTAGGG
Found at i:17868454 original size:12 final size:12
Alignment explanation
Indices: 17868437--17868467 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17868427 GTTTAGGTTT
17868437 ATTTTCTCTTAG
1 ATTTTCTCTTAG
17868449 ATTTTCTCTTAG
1 ATTTTCTCTTAG
17868461 ATTTTCT
1 ATTTTCT
17868468 TTCCCTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.06, T:0.61
Consensus pattern (12 bp):
ATTTTCTCTTAG
Found at i:17870877 original size:21 final size:22
Alignment explanation
Indices: 17870836--17870877 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17870826 CCGATTTAGT
*
17870836 TTTAATATCTCTCAAATTAAAC
1 TTTAATATCTCACAAATTAAAC
*
17870858 TTTAATATCT-ACATATTAAA
1 TTTAATATCTCACAAATTAAA
17870878 TAATTTTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAATATCTCACAAATTAAAC
Found at i:17870921 original size:25 final size:26
Alignment explanation
Indices: 17870893--17870942 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
17870883 TTCTCACCCT
*
17870893 AATTTTA-CATTGATAAAATTTTGAC
1 AATTTTACCACTGATAAAATTTTGAC
*
17870918 AATTTTACCCCTGATAAAATTTTGA
1 AATTTTACCACTGATAAAATTTTGA
17870943 GAAAATTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (26 bp):
AATTTTACCACTGATAAAATTTTGAC
Found at i:17875991 original size:16 final size:16
Alignment explanation
Indices: 17875943--17875991 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
17875933 AAATGATATT
17875943 AATAATTGAGAAATTA
1 AATAATTGAGAAATTA
* *
17875959 AA-ACTTCA-AAA--A
1 AATAATTGAGAAATTA
17875971 AATAATTGAGAAATTA
1 AATAATTGAGAAATTA
17875987 AATAA
1 AATAA
17875992 AAGCAATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
12 3 0.12
13 4 0.16
14 6 0.24
15 4 0.16
16 8 0.32
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (16 bp):
AATAATTGAGAAATTA
Found at i:17878490 original size:7 final size:6
Alignment explanation
Indices: 17878473--17878502 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
17878463 GTCCAACAGG
17878473 CTTTTT CTTTTT CTTTTT CTTTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT C-TTTTT CTTTT
17878503 AGAAAAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:17878490 original size:12 final size:13
Alignment explanation
Indices: 17878473--17878502 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17878463 GTCCAACAGG
17878473 CTTTTTC-TTTTT
1 CTTTTTCTTTTTT
17878485 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
17878498 CTTTT
1 CTTTT
17878503 AGAAAAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:17879274 original size:10 final size:10
Alignment explanation
Indices: 17879259--17879305 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
17879249 TAACGTGTTG
17879259 AATTTTAATT
1 AATTTTAATT
*
17879269 AATTTTATAATA
1 AA-TTT-TAATT
*
17879281 AATTTTGATT
1 AATTTTAATT
17879291 AATTTTAA-T
1 AATTTTAATT
17879300 AATTTT
1 AATTTT
17879306 TAATAGATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 7 0.23
10 12 0.39
11 6 0.19
12 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
AATTTTAATT
Found at i:17879284 original size:22 final size:20
Alignment explanation
Indices: 17879259--17879309 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
17879249 TAACGTGTTG
17879259 AATTTTAATTAATTTTATAATA
1 AATTTTAATTAA-TTT-TAATA
*
17879281 AATTTTGATTAATTTTAATA
1 AATTTTAATTAATTTTAATA
*
17879301 ATTTTTAAT
1 AATTTTAAT
17879310 AGATTCGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 12 0.46
21 3 0.12
22 11 0.42
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
AATTTTAATTAATTTTAATA
Found at i:17883017 original size:50 final size:50
Alignment explanation
Indices: 17882960--17883084 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
17882950 TATCCCATAT
* ** * *
17882960 ATGGTCTTACATGAGAGTTCTCATATCGGTGCCCACGCCATGTCCCAGAC
1 ATGGTCTTACAGGAGACCTCTCATATCGGTACCAACGCCATGTCCCAGAC
* * *
17883010 ATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATGTCCCAGAC
1 ATGGTCTTACAGGAGACCTCTCATATCGGTACCAACGCCATGTCCCAGAC
* *
17883060 ATAGTCTTACTTGG-GACCTCTCATA
1 ATGGTCTTAC-AGGAGACCTCTCATA
17883085 ACCTCAATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 61 0.97
51 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACAGGAGACCTCTCATATCGGTACCAACGCCATGTCCCAGAC
Found at i:17883115 original size:56 final size:50
Alignment explanation
Indices: 17882994--17883124 Score: 154
Period size: 50 Copynumber: 2.5 Consensus size: 50
17882984 ATCGGTGCCC
**
17882994 ACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCA
1 ACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAATACCA
* **
17883044 ACGCCATGTCCCAGACATAGTCTTACTTGGGACCTCTCATAACCTCAATAATGCCA
1 ACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCAT---CTCAAT-A--CCA
*
17883100 ATGCCATGTCCCAGACATGGTCTTA
1 ACGCCATGTCCCAGACATGGTCTTA
17883125 TATGAGTTCT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
50 37 0.54
53 4 0.06
54 1 0.01
56 26 0.38
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (50 bp):
ACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAATACCA
Found at i:17886110 original size:41 final size:41
Alignment explanation
Indices: 17886034--17886192 Score: 158
Period size: 41 Copynumber: 3.9 Consensus size: 41
17886024 CTTACCTTTA
* * * * *
17886034 GGGGCTTTAGCGGCG-TTTTCAAGAAAGCGCTGCTAATGCTC
1 GGGGTTTTAGCGGTGTTTTTGAA-AAAGCACCGCTAATGCTC
* * *
17886075 GGGGCTTTAGCGGTGTTTTTGAAAATGTACCGCTAATGCTC
1 GGGGTTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTC
* ** * *
17886116 GGGGTTTTCGCGGCATTTTTGAAAAAGCGCCACTAATGCTC
1 GGGGTTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTC
* * *
17886157 GGTGTTTTAGCGTTGTTTTTTAAAAAGCACCGCTAA
1 GGGGTTTTAGCGGTGTTTTTGAAAAAGCACCGCTAA
17886193 ATTTTTTTTT
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 89 0.94
42 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (41 bp):
GGGGTTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTC
Found at i:17886559 original size:15 final size:15
Alignment explanation
Indices: 17886539--17886580 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
17886529 TATTTTAAGG
*
17886539 TTTAGGGAGTATGAA
1 TTTAGGGATTATGAA
*
17886554 TTTAGGGATTATGGA
1 TTTAGGGATTATGAA
17886569 -TTAGGGATTATG
1 TTTAGGGATTATG
17886581 GTTTAAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (15 bp):
TTTAGGGATTATGAA
Found at i:17886574 original size:14 final size:15
Alignment explanation
Indices: 17886539--17886585 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
17886529 TATTTTAAGG
* *
17886539 TTTAGGGAGTATGAA
1 TTTAGGGATTATGGA
17886554 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
17886569 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
17886582 TTTA
1 TTTA
17886586 AGGGTTGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:17886599 original size:14 final size:14
Alignment explanation
Indices: 17886580--17886635 Score: 69
Period size: 14 Copynumber: 4.0 Consensus size: 14
17886570 TAGGGATTAT
17886580 GGTTTAAGGGTT-G
1 GGTTTAAGGGTTAG
*
17886593 GGATTTAAGGTTTAG
1 GG-TTTAAGGGTTAG
*
17886608 GGGTTAAGGGTTAG
1 GGTTTAAGGGTTAG
*
17886622 GGTTTAGGGGTTAG
1 GGTTTAAGGGTTAG
17886636 ACATTAAGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
13 2 0.06
14 31 0.86
15 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.36
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:17886606 original size:21 final size:20
Alignment explanation
Indices: 17886572--17886661 Score: 56
Period size: 21 Copynumber: 4.3 Consensus size: 20
17886562 TTATGGATTA
*
17886572 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
17886592 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
* *
17886613 AAGGG-TTAGGGTTTAGGGGTT
1 --GGGATTAAGGTTTAAGGGTT
** * *
17886634 AGACATTAAGGGTTAAGAGTT
1 -GGGATTAAGGTTTAAGGGTT
17886655 AGGGATT
1 -GGGATT
17886662 TAGGGGTCGG
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
20 6 0.11
21 46 0.84
23 3 0.05
ACGTcount: A:0.24, C:0.01, G:0.40, T:0.34
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:17886868 original size:14 final size:15
Alignment explanation
Indices: 17886842--17886879 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
17886832 GTTTAGGGAG
17886842 TATGGATTTAGAGAT
1 TATGGATTTAGAGAT
17886857 TATGGA-TTAGAGAT
1 TATGGATTTAGAGAT
17886871 TATGG-TTTA
1 TATGGATTTA
17886880 AGGGTTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGAGAT
Found at i:17886900 original size:21 final size:21
Alignment explanation
Indices: 17886866--17886943 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
17886856 TTATGGATTA
*
17886866 GAGA-TTATGGTTTAAGGGTT
1 GAGATTTAAGGTTTAAGGGTT
*
17886886 GAGATTTAAGGTTTAGGGGTT
1 GAGATTTAAGGTTTAAGGGTT
* * * *
17886907 -AGAAGTTAGGGGTTAAGAGTT
1 GAG-ATTTAAGGTTTAAGGGTT
*
17886928 AGGGATTTAAGGTTTA
1 -GAGATTTAAGGTTTA
17886944 GGAATTCAGG
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
20 6 0.14
21 27 0.63
22 9 0.21
23 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (21 bp):
GAGATTTAAGGTTTAAGGGTT
Found at i:17886915 original size:14 final size:14
Alignment explanation
Indices: 17886898--17886931 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
17886888 GATTTAAGGT
17886898 TTAGGGGTT-AGAAG
1 TTAGGGGTTAAG-AG
17886912 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
17886926 TTAGGG
1 TTAGGG
17886932 ATTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.29
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:17887286 original size:160 final size:160
Alignment explanation
Indices: 17886919--17887404 Score: 965
Period size: 160 Copynumber: 3.0 Consensus size: 160
17886909 AAGTTAGGGG
17886919 TTAAGAGTTAGGGATTTAAGGTTTAGGAATTCAGGGCTCGGGTTAGGGTTTTGGGTTTAGATTAA
1 TTAAGAGTTAGGGATTTAAGGTTTAGGAATTCAGGGCTCGGGTTAGGGTTTTGGGTTTAGATTAA
17886984 TTTTTTAATTTATATTTTAAATATGTTCTTATATAATT-AAAAAGAGATAATAATAAATTAAATA
66 TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTAAAAAAGAGATAATAATAAATTAAATA
17887048 TATTGAAATTATGAGTATAGTTTAAATTAT
131 TATTGAAATTATGAGTATAGTTTAAATTAT
17887078 TTAAGAGTTAGGGATTTAAGGTTTAGGAATTCAGGGCTCGGGTTAGGGTTTTGGGTTTAGATTAA
1 TTAAGAGTTAGGGATTTAAGGTTTAGGAATTCAGGGCTCGGGTTAGGGTTTTGGGTTTAGATTAA
17887143 TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTAAAAAAGAGATAATAATAAATTAAATA
66 TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTAAAAAAGAGATAATAATAAATTAAATA
17887208 TATTGAAATTATGAGTATAGTTTAAATTAT
131 TATTGAAATTATGAGTATAGTTTAAATTAT
17887238 TTAAGAGTTAGGGATTTAAGGTTTAGGAATTCAGGGCTCGGGTTAGGGTTTTGGGTTTAGATTAA
1 TTAAGAGTTAGGGATTTAAGGTTTAGGAATTCAGGGCTCGGGTTAGGGTTTTGGGTTTAGATTAA
17887303 TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTAAAAAAGAGATAATAATAAATTAAATA
66 TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTAAAAAAGAGATAATAATAAATTAAATA
17887368 TATTGAAATTATGAGTATAGTTTAAATTAT
131 TATTGAAATTATGAGTATAGTTTAAATTAT
17887398 TTAAGAG
1 TTAAGAG
17887405 ATATATAATA
Statistics
Matches: 326, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
159 103 0.32
160 223 0.68
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.42
Consensus pattern (160 bp):
TTAAGAGTTAGGGATTTAAGGTTTAGGAATTCAGGGCTCGGGTTAGGGTTTTGGGTTTAGATTAA
TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTAAAAAAGAGATAATAATAAATTAAATA
TATTGAAATTATGAGTATAGTTTAAATTAT
Found at i:17889171 original size:20 final size:21
Alignment explanation
Indices: 17889143--17889181 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
17889133 ATTTTAGCAG
*
17889143 TTTAAATATTA-GCCTATGAT
1 TTTAAATATCATGCCTATGAT
*
17889163 TTTACATATCATGCCTATG
1 TTTAAATATCATGCCTATG
17889182 GGTGTCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (21 bp):
TTTAAATATCATGCCTATGAT
Found at i:17891678 original size:14 final size:13
Alignment explanation
Indices: 17891651--17891688 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
17891641 AGTTTCCAAA
17891651 TTTTCAAATTAAG
1 TTTTCAAATTAAG
17891664 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
17891678 TTTTCAAATTA
1 TTTTCAAATTA
17891689 CAAATATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:17894333 original size:15 final size:15
Alignment explanation
Indices: 17894313--17894343 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17894303 ACATTTATTG
17894313 AAATAGATGAATTAC
1 AAATAGATGAATTAC
17894328 AAATAGATGAATTAC
1 AAATAGATGAATTAC
17894343 A
1 A
17894344 TACAACATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (15 bp):
AAATAGATGAATTAC
Found at i:17898172 original size:34 final size:34
Alignment explanation
Indices: 17898129--17898339 Score: 244
Period size: 34 Copynumber: 6.1 Consensus size: 34
17898119 AAATAATACC
* * *
17898129 AGAAATGATGTATGAACAAGAGAGATTCCCTGCA
1 AGAAATGATGCATGAACAGGAAAGATTCCCTGCA
**
17898163 AGAAATGATGTGTGAACAGGAGAA-ATTCCCTGCA
1 AGAAATGATGCATGAACAGGA-AAGATTCCCTGCA
* * * *
17898197 ACAAAATAATGCGTGAACAGGAAAGATTCCTTGCA
1 A-GAAATGATGCATGAACAGGAAAGATTCCCTGCA
17898232 AGAAATGATGCATGAACAGGAAAGATTCCCTGCA
1 AGAAATGATGCATGAACAGGAAAGATTCCCTGCA
** *
17898266 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
1 AGAAATGATGCATGAACAGGAAAGATTCCCTGCA
* * * *
17898300 ACAAAATAATGCATGAACATGAAATATTCCCTGCA
1 A-GAAATGATGCATGAACAGGAAAGATTCCCTGCA
17898335 AGAAA
1 AGAAA
17898340 AGACAAGTGA
Statistics
Matches: 151, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
34 96 0.64
35 55 0.36
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (34 bp):
AGAAATGATGCATGAACAGGAAAGATTCCCTGCA
Found at i:17898232 original size:69 final size:68
Alignment explanation
Indices: 17898141--17898340 Score: 249
Period size: 69 Copynumber: 2.9 Consensus size: 68
17898131 AAATGATGTA
* **
17898141 TGAACAAGAGAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAA-ATTCCCTGCAACAAAATA
1 TGAACAGGAGAGATTCCCTGCAAGAAATGATGCATGAACAGGA-AAGATTCCCTGCAA-AAAATA
17898205 ATGCG
64 ATGCG
* * * *
17898210 TGAACAGGAAAGATTCCTTGCAAGAAATGATGCATGAACAGGAAAGATTCCCTGCAAGAAATGAT
1 TGAACAGGAGAGATTCCCTGCAAGAAATGATGCATGAACAGGAAAGATTCCCTGCAAAAAATAAT
*
17898275 GTG
66 GCG
* * * *
17898278 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCATGAACATGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAGAGATTCCCTGCAA-GAAATGATGCATGAACAGGAAAGATTCCCTGCAA-AAAA
17898341 GACAAGTGAA
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
68 31 0.27
69 79 0.70
70 3 0.03
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (68 bp):
TGAACAGGAGAGATTCCCTGCAAGAAATGATGCATGAACAGGAAAGATTCCCTGCAAAAAATAAT
GCG
Found at i:17898294 original size:103 final size:103
Alignment explanation
Indices: 17898129--17898339 Score: 350
Period size: 103 Copynumber: 2.0 Consensus size: 103
17898119 AAATAATACC
* *
17898129 AGAAATGATGTATGAACAAGAGAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAAATTCCCT
1 AGAAATGATGCATGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAAATTCCCT
* *
17898194 GCAACAAAATAATGCGTGAACAGGAAAGATTCCTTGCA
66 GCAACAAAATAATGCATGAACAGGAAAGATTCCCTGCA
* *
17898232 AGAAATGATGCATGAACAGGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAGATTCCCT
1 AGAAATGATGCATGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAAATTCCCT
* *
17898297 GCAACAAAATAATGCATGAACATGAAATATTCCCTGCA
66 GCAACAAAATAATGCATGAACAGGAAAGATTCCCTGCA
17898335 AGAAA
1 AGAAA
17898340 AGACAAGTGA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (103 bp):
AGAAATGATGCATGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAAATTCCCT
GCAACAAAATAATGCATGAACAGGAAAGATTCCCTGCA
Found at i:17898595 original size:13 final size:13
Alignment explanation
Indices: 17898577--17898614 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
17898567 AGTTTCCAAA
17898577 TTTTCAAATTAAG
1 TTTTCAAATTAAG
*
17898590 TTTTCAGACTTAAG
1 TTTTCA-AATTAAG
17898604 TTTTCAAATTA
1 TTTTCAAATTA
17898615 CATATATCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:17900807 original size:43 final size:43
Alignment explanation
Indices: 17900758--17900900 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 43
17900748 AAATGGTACT
**
17900758 TTTAGCGGCGTTTGTGATAAAAGCGTTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
*
17900801 TTTAGCGGCGTTTGTGGGT-AAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTC
* * * * *
17900844 TTTAGCGACATTTTTTTATAAAAGCGCCGCTAAAGGCCATGTTC
1 TTTAGCGGC-GTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
17900888 TATAGCAGCGTTT
1 TTTAGCGGCGTTT
17900901 TTTCAAATAA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
43 49 0.58
44 35 0.42
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:17900920 original size:44 final size:45
Alignment explanation
Indices: 17900819--17900921 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 45
17900809 CGTTTGTGGG
* * *
17900819 TAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACATTTTTTTATAA
1 TAAA-CGCCGCTAAAGGCCATGTTCTATAGCGACATTTTTTCATAA
* *
17900865 -AAGCGCCGCTAAAGGCCATGTTCTATAGC-AGCGTTTTTTCA-AA
1 TAAACGCCGCTAAAGGCCATGTTCTATAGCGA-CATTTTTTCATAA
*
17900908 TAAACGCTGCTAAA
1 TAAACGCCGCTAAA
17900922 TTTTGCAGCG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.06
44 43 0.90
45 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (45 bp):
TAAACGCCGCTAAAGGCCATGTTCTATAGCGACATTTTTTCATAA
Found at i:17905970 original size:50 final size:50
Alignment explanation
Indices: 17905911--17906056 Score: 139
Period size: 50 Copynumber: 2.8 Consensus size: 50
17905901 ATGAGAGTTT
* * * * *
17905911 TCATATCGGTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTC
1 TCATATCGGTACCAATGCCATGTCCCAAACATGGTCTTACGGGAGACCTC
* * *
17905961 TCATCTCGGTACCAATGCCATGTCCCAAACATGGTCTTATGTGAGACCTC
1 TCATATCGGTACCAATGCCATGTCCCAAACATGGTCTTACGGGAGACCTC
** *
17906011 TCATAACCTCAATAATGCCAATGCCATGTCCCATACATGGTCTTAC
1 TCAT-A--TCGGT-A--CCAATGCCATGTCCCAAACATGGTCTTAC
17906057 ATGGGGTCTC
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
50 46 0.60
53 3 0.04
54 1 0.01
56 27 0.35
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (50 bp):
TCATATCGGTACCAATGCCATGTCCCAAACATGGTCTTACGGGAGACCTC
Found at i:17924047 original size:26 final size:26
Alignment explanation
Indices: 17924018--17924072 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
17924008 AACACACCAA
17924018 TATCACAGCAAAGCTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
*
17924044 TATCACAGCAAAGCTGCTAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
17924070 TAT
1 TAT
17924073 ATATGGTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAATAG
Found at i:17924265 original size:27 final size:27
Alignment explanation
Indices: 17924235--17924443 Score: 212
Period size: 27 Copynumber: 7.7 Consensus size: 27
17924225 TAATCTCTTA
*
17924235 GGGGTATTTC-AGTCATTTTACTGTACT-
1 GGGGTATTTCGA-TCATTTTACTCTA-TG
* * *
17924262 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCGATCATTTTACTCTATG
17924289 GGGGTATTTCGATCATTTTAC-CTTATG
1 GGGGTATTTCGATCATTTTACTC-TATG
* * * **
17924316 GGGGAATTTCGGTTATTTTA-TCGTACA
1 GGGGTATTTCGATCATTTTACTC-TATG
* *
17924343 GGGGTATTTCGATCATTTTACCCTATA
1 GGGGTATTTCGATCATTTTACTCTATG
*
17924370 GGGGTATTTCGGTCATTTTAC-CTTATG
1 GGGGTATTTCGATCATTTTACTC-TATG
* *
17924397 AGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTCGATCATTTTACTCTATG
17924424 GGGGTATTTCGATCATTTTA
1 GGGGTATTTCGATCATTTTA
17924444 TTGACCTCAC
Statistics
Matches: 153, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.02
27 148 0.97
28 2 0.01
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCGATCATTTTACTCTATG
Found at i:17924293 original size:54 final size:54
Alignment explanation
Indices: 17924235--17924443 Score: 260
Period size: 54 Copynumber: 3.9 Consensus size: 54
17924225 TAATCTCTTA
** *
17924235 GGGGTATTTC-AGTCATTTTACTGTACT-GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCGA-TCATTTTACCCTA-TGGGGGTATTTCGGTCATTTTACCCTATG
* * * * * **
17924289 GGGGTATTTCGATCATTTTACCTTATGGGGGAATTTCGGTTATTTTATCGTACA
1 GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG
* *
17924343 GGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTATG
1 GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG
* *
17924397 AGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGATCATTTTA
1 GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
17924444 TTGACCTCAC
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 131 0.98
55 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (54 bp):
GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG
Found at i:17924359 original size:81 final size:80
Alignment explanation
Indices: 17924235--17924443 Score: 274
Period size: 81 Copynumber: 2.6 Consensus size: 80
17924225 TAATCTCTTA
* * * * *
17924235 GGGGTATTTCAGTCATTTTACTGTACTGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
1 GGGGTATTTCGGTCATTTTAC-GTACAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
17924300 ATCATTTTACCTTATG
65 ATCATTTTACCTTATG
* *
17924316 GGGGAATTTCGGTTATTTTATCGTACAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
1 GGGGTATTTCGGTCATTTTA-CGTACAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
*
17924381 GTCATTTTACCTTATG
65 ATCATTTTACCTTATG
* * * **
17924397 AGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGATCATTTTA
1 GGGGTATTTCGGTCATTTTA-CGTACAGGGGTATTTCGATCATTTTA
17924444 TTGACCTCAC
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 110 0.99
82 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (80 bp):
GGGGTATTTCGGTCATTTTACGTACAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGA
TCATTTTACCTTATG
Found at i:17944847 original size:37 final size:37
Alignment explanation
Indices: 17944806--17944929 Score: 133
Period size: 37 Copynumber: 3.4 Consensus size: 37
17944796 ATCAAATCAA
*
17944806 AACACGCCAAATGTTCATAAGAGTTAATCCAACCGAT
1 AACACGCCAAATGTTCATAAGAGCTAATCCAACCGAT
* *
17944843 AACACGCCAAACGCTCATAAGAGCTAATCCAACCGAT
1 AACACGCCAAATGTTCATAAGAGCTAATCCAACCGAT
** * * * *
17944880 AGGACTCCAAGTGCTCCA-AAGAGCTAATCCAACCGGT
1 AACACGCCAAATG-TTCATAAGAGCTAATCCAACCGAT
* *
17944917 TACACGCTAAATG
1 AACACGCCAAATG
17944930 CTCCGAAGAG
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
37 67 0.97
38 2 0.03
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (37 bp):
AACACGCCAAATGTTCATAAGAGCTAATCCAACCGAT
Found at i:17949773 original size:23 final size:23
Alignment explanation
Indices: 17949742--17949814 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
17949732 AGCCCTTGGG
*
17949742 ATAAT-CATGTGAGCCTAAATTA
1 ATAATACATGTGAACCTAAATTA
**
17949764 ATAATACATGCAAACCTAAACTT-
1 ATAATACATGTGAACCTAAA-TTA
* *
17949787 TTAATACATGTGGACCCTAAATTGA
1 ATAATACATGT-GAACCTAAATT-A
17949812 ATA
1 ATA
17949815 TTACCCGTGA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
22 5 0.13
23 22 0.58
24 9 0.24
25 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (23 bp):
ATAATACATGTGAACCTAAATTA
Found at i:17950015 original size:9 final size:9
Alignment explanation
Indices: 17950003--17950055 Score: 70
Period size: 9 Copynumber: 5.7 Consensus size: 9
17949993 GTTTAGGGGT
17950003 TTTTTTATA
1 TTTTTTATA
17950012 TTTTTTATA
1 TTTTTTATA
17950021 TTTTTTATA
1 TTTTTTATA
*
17950030 TATTCTTTAGA
1 T-TT-TTTATA
*
17950041 CTTTTTATA
1 TTTTTTATA
17950050 TTTTTT
1 TTTTTT
17950056 GAGTTGTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
9 29 0.76
10 4 0.11
11 5 0.13
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTTATA
Found at i:17950024 original size:18 final size:18
Alignment explanation
Indices: 17950003--17950055 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 18
17949993 GTTTAGGGGT
*
17950003 TTTTTTATATTTTTTATA
1 TTTTTTATATTTTTTAGA
17950021 TTTTTTATATATTCTTTAGA
1 TTTTTTATAT-TT-TTTAGA
*
17950041 CTTTTTATATTTTTT
1 TTTTTTATATTTTTT
17950056 GAGTTGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 13 0.42
19 4 0.13
20 14 0.45
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTATATTTTTTAGA
Found at i:17950999 original size:11 final size:11
Alignment explanation
Indices: 17950939--17951029 Score: 52
Period size: 11 Copynumber: 8.5 Consensus size: 11
17950929 GAGGAATAAA
*
17950939 AATTGAGTGAG
1 AATTGAGAGAG
*
17950950 AATTAAGAGCA-
1 AATTGAGAG-AG
17950961 AATTGAGAGA-
1 AATTGAGAGAG
* *
17950971 AATATAATAGAG
1 AAT-TGAGAGAG
*
17950983 ATTTGAGAGAG
1 AATTGAGAGAG
17950994 AATT----GAG
1 AATTGAGAGAG
17951001 AATGTGAGAGAG
1 AAT-TGAGAGAG
17951013 AATTGAGATGAG
1 AATTGAGA-GAG
17951025 -ATTGA
1 AATTGA
17951030 ATTGAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
7 6 0.10
8 1 0.02
10 4 0.06
11 39 0.63
12 12 0.19
ACGTcount: A:0.45, C:0.01, G:0.30, T:0.24
Consensus pattern (11 bp):
AATTGAGAGAG
Found at i:17960189 original size:24 final size:26
Alignment explanation
Indices: 17960138--17960190 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
17960128 GAAAAAAATC
* **
17960138 AAAATCAAAGTCAAAATGAAAATGAA
1 AAAATCAAAGTCAAAATCAAAAACAA
17960164 AAAATC-AA-TCAAAATCAAAAACAA
1 AAAATCAAAGTCAAAATCAAAAACAA
17960188 AAA
1 AAA
17960191 GAAGAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.67
25 2 0.08
26 6 0.25
ACGTcount: A:0.70, C:0.11, G:0.06, T:0.13
Consensus pattern (26 bp):
AAAATCAAAGTCAAAATCAAAAACAA
Found at i:17962485 original size:87 final size:87
Alignment explanation
Indices: 17962251--17962487 Score: 375
Period size: 87 Copynumber: 2.7 Consensus size: 87
17962241 AGATCAGTGA
* ** * *
17962251 AGATCGAAAACAAAGCCTTGCCTCTATCGGTTATAGTGGAGCTGCTTAAAGATAGCAGATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
17962316 CTTCCTGCAGTGACAACGAAGC
66 CTTCCTGCAGTGACAACGAAGC
17962338 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
17962403 CTTCCTGCATTGACAACGAAGC
66 CTTCCTGCAGTGACAACGAAGC
** * * *
17962425 AGATCGAAGGCAAAGCCTTTCCTCCATCGGTTGCAGTGGAGCTGGTTAAAAATTGCAGATCTT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
17962488 ATCTCCCTAA
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 139 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCAGTGACAACGAAGC
Found at i:17962838 original size:44 final size:44
Alignment explanation
Indices: 17962741--17962862 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
17962731 TGAAGAAGCA
* * * *
17962741 AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGATTGAATTCGAT
1 AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGTCAAT
* * *
17962785 AATCCTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGT-AAT
1 AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGTCAAT
** *
17962828 AGATCTTATCTCTCTGAAGTTCCAGTAGAGCAGAT
1 A-ATCTTATCTCTCTGAAGTTGTAGTGGAGCAGAT
17962863 CGCATCAAGA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.05
44 61 0.95
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGTCAAT
Found at i:17968736 original size:19 final size:19
Alignment explanation
Indices: 17968700--17968739 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17968690 TCCACCCCCA
* **
17968700 CCTCTTCTTTTCTTTTTCT
1 CCTCATCTTTTCAGTTTCT
17968719 CCTCATCTTTTCAGTTTCT
1 CCTCATCTTTTCAGTTTCT
17968738 CC
1 CC
17968740 CCTAGTCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.35, G:0.03, T:0.57
Consensus pattern (19 bp):
CCTCATCTTTTCAGTTTCT
Found at i:17969303 original size:27 final size:27
Alignment explanation
Indices: 17969246--17969648 Score: 425
Period size: 27 Copynumber: 15.0 Consensus size: 27
17969236 GCAAATGATA
*
17969246 GAAATACCCCCGATGGG-AAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
* *
17969272 AAAATACTCTCGATGGGTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
17969299 GAAATACCCTCGATGGGTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
* * * *
17969326 GAAGTACCATCAATGGGTAAAATGACT
1 GAAATACCCTCGATGGGTAAAATGACC
* *
17969353 GAAATACCCTCAATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
* *
17969380 GAAATACCCTTGATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
**
17969407 GAAATACCCTCGATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATGACC
* *
17969434 GAAATACCCCCGATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
* *
17969461 GAAATACCC-CTAATAGGTAAAATGACC
1 GAAATACCCTC-GATGGGTAAAATGACC
* *
17969488 AAAATACCCTCAATGGGTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
* * * *
17969515 GAAATACCCTCAATAGGTAAAATAATC
1 GAAATACCCTCGATGGGTAAAATGACC
* * * *
17969542 AAAATACCCCCGATGGGTAAAATAATC
1 GAAATACCCTCGATGGGTAAAATGACC
* * * * *
17969569 GAAATACCCCCGATGAGTTAAATAACT
1 GAAATACCCTCGATGGGTAAAATGACC
* * * *
17969596 AAAATACCCTTGAAGGGAAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
* *
17969623 AAAATACCC-CCATAGGGTAAAATGAC
1 GAAATACCCTCGAT-GGGTAAAATGAC
17969649 TGTTATACCC
Statistics
Matches: 323, Mismatches: 50, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
26 16 0.05
27 306 0.95
28 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAAATGACC
Found at i:17969840 original size:27 final size:26
Alignment explanation
Indices: 17969802--17969869 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
17969792 AAGTATACTA
*
17969802 TACTGGTGGCTTTGCCACATATACAGT
1 TACTGGTAGCTTTGCCACAT-TACAGT
* ** *
17969829 TAGTGGTAGCTTTGCTGCATTACTGT
1 TACTGGTAGCTTTGCCACATTACAGT
*
17969855 TACTGGCAGCTTTGC
1 TACTGGTAGCTTTGC
17969870 TGCGTCATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 18 0.53
27 16 0.47
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (26 bp):
TACTGGTAGCTTTGCCACATTACAGT
Found at i:17969865 original size:26 final size:26
Alignment explanation
Indices: 17969827--17969899 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
17969817 CACATATACA
* * *
17969827 GTTAGTGGTAGCTTTGCTGCATTACT
1 GTTACTGGCAGCTTTGCTGCATCACT
* *
17969853 GTTACTGGCAGCTTTGCTGCGTCATT
1 GTTACTGGCAGCTTTGCTGCATCACT
* *
17969879 ATTACTGGCATCTTTGCTGCA
1 GTTACTGGCAGCTTTGCTGCA
17969900 ATATTGGTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.40
Consensus pattern (26 bp):
GTTACTGGCAGCTTTGCTGCATCACT
Found at i:17970068 original size:27 final size:27
Alignment explanation
Indices: 17970012--17970069 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
17970002 TGTATTGATA
* *
17970012 ACTGTATTGCGCTAAGGCCATACTGTT
1 ACTGTAATGCGCTAAGGCCACACTGTT
*
17970039 ACTGTAATGGGCTAAGGCCCACACTG-T
1 ACTGTAATGCGCTAAGG-CCACACTGTT
17970066 ACTG
1 ACTG
17970070 ATACTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (27 bp):
ACTGTAATGCGCTAAGGCCACACTGTT
Found at i:17970561 original size:20 final size:20
Alignment explanation
Indices: 17970536--17970577 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
17970526 TCTAAACTTC
17970536 AGAAACGAGTTTTATCAACA
1 AGAAACGAGTTTTATCAACA
*
17970556 AGAAACGAGTTTTATTAACA
1 AGAAACGAGTTTTATCAACA
17970576 AG
1 AG
17970578 TTTAAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (20 bp):
AGAAACGAGTTTTATCAACA
Found at i:17975327 original size:18 final size:18
Alignment explanation
Indices: 17975293--17975327 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17975283 TAAGTCAGTT
17975293 TCATTTATGAAATCATTC
1 TCATTTATGAAATCATTC
17975311 TCATTGTATGAAA-CATT
1 TCATT-TATGAAATCATT
17975328 ATAAAAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (18 bp):
TCATTTATGAAATCATTC
Found at i:17978475 original size:298 final size:298
Alignment explanation
Indices: 17977938--17978527 Score: 991
Period size: 298 Copynumber: 2.0 Consensus size: 298
17977928 AAGCCTCCAT
*
17977938 TCATGGAGCAGTGTCAAGTGGTTCGACGCCCGTATATGAGGGCCGGAGAGGGGAAGATAAGGAAG
1 TCATGGAGCAGTGTCAAGTGGTTCGACGCCCGTATATGAGGGCCGAAGAGGGGAAGATAAGGAAG
*
17978003 CTTTCTTTCAAATGATAAGTGAGTGGTTTACAAAGTTCGTGCGAACGAACCCAGCGGCTCAACAA
66 CTTTCTTTCAAATGATAAGTGAGTGGTTTACAAAGTTCGTACGAACGAACCCAGCGGCTCAACAA
*
17978068 CCTCCATCCCCACTTGTTCCTCAACCGGTTCCCGTTGTCCACAAGGCGTGGAAATAGTGCGAGCT
131 CCTCCATCCCCACTTGTTCCTCAACCGGTTCCCGTTGTCCACAAGGCGTGGAAATAGTGAGAGCT
*
17978133 AATAAGCCACCAATCAACAGAATTCACAAATACGGGGTTGAAGAATTTTGAGCTACAGTCGATGA
196 AATAAGCCACCAATCAACAGAATTCACAAATACGGGGCTGAAGAATTTTGAGCTACAGTCGATGA
*
17978198 TGATCTTGAGAAAGCTAAATTTTGGTTAGAGAGCTAAA
261 TGATCCTGAGAAAGCTAAATTTTGGTTAGAGAGCTAAA
* * * * *
17978236 TCATGGAGTAGTGTCAAGTGGTTTGAGGCCCGTATCTGAGGGCTGAAGAGGGGAAGATAAGGAAG
1 TCATGGAGCAGTGTCAAGTGGTTCGACGCCCGTATATGAGGGCCGAAGAGGGGAAGATAAGGAAG
* * *
17978301 CTTTCTTTCAAATGATAAGTGAGTGGTTTACGAAGTTTGTACGAATGAACCCAGCGGCTCAACAA
66 CTTTCTTTCAAATGATAAGTGAGTGGTTTACAAAGTTCGTACGAACGAACCCAGCGGCTCAACAA
* *
17978366 CCTCCATCCCCACTTGTTCCTCAACCGGTTCTCGTTGTCCGCAAGGCGTGGAAATAGTGAGAGCT
131 CCTCCATCCCCACTTGTTCCTCAACCGGTTCCCGTTGTCCACAAGGCGTGGAAATAGTGAGAGCT
** * * *
17978431 AATAAGCTGCCAATCAACATAATTCGCAAATATGGGGCTGAAGAATTTTGAGCTACAGTCGATGA
196 AATAAGCCACCAATCAACAGAATTCACAAATACGGGGCTGAAGAATTTTGAGCTACAGTCGATGA
*
17978496 TGATCCTGAGAGAGCTAAATTTTGGTTAGAGA
261 TGATCCTGAGAAAGCTAAATTTTGGTTAGAGA
17978528 ATACTATTCG
Statistics
Matches: 271, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
298 271 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (298 bp):
TCATGGAGCAGTGTCAAGTGGTTCGACGCCCGTATATGAGGGCCGAAGAGGGGAAGATAAGGAAG
CTTTCTTTCAAATGATAAGTGAGTGGTTTACAAAGTTCGTACGAACGAACCCAGCGGCTCAACAA
CCTCCATCCCCACTTGTTCCTCAACCGGTTCCCGTTGTCCACAAGGCGTGGAAATAGTGAGAGCT
AATAAGCCACCAATCAACAGAATTCACAAATACGGGGCTGAAGAATTTTGAGCTACAGTCGATGA
TGATCCTGAGAAAGCTAAATTTTGGTTAGAGAGCTAAA
Found at i:17981827 original size:29 final size:29
Alignment explanation
Indices: 17981790--17981859 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
17981780 TCATCAACGA
*
17981790 ATGAAAAGGGATAGCTTTAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* * *
17981819 ATGGAAAGGGATAGCTTCAGTTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
17981848 ATGAAAAGGGAT
1 ATGAAAAGGGAT
17981860 GGTGACGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.27, T:0.27
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAAT
Found at i:17981880 original size:29 final size:30
Alignment explanation
Indices: 17981848--17982067 Score: 119
Period size: 30 Copynumber: 7.4 Consensus size: 30
17981838 GTTATCGATT
17981848 ATGAAAAGGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTGACGACCATCAAACA
* *
17981877 ATGAAAAGGCATGGTGACGACCATCAAACT
1 ATGAAAAGGGATGGTGACGACCATCAAACA
** * * * ***
17981907 ATG-AAAGGGATGGCT-TTGGCTATCGATTT
1 ATGAAAAGGGATGG-TGACGACCATCAAACA
** * * **
17981936 ATGAAAAGGGATAACT-TC-AGCTAAT-AAATT
1 ATGAAAAGGGAT-GGTGACGA-C-CATCAAACA
* *
17981966 ATGAAAAGGGATGATGACGACCATCGAACA
1 ATGAAAAGGGATGGTGACGACCATCAAACA
* * **
17981996 ATGAAAAGGGATGTTGACGACCAACAAATT
1 ATGAAAAGGGATGGTGACGACCATCAAACA
* * * **
17982026 ATGAAAAGGAATGCTGACGACTATCAAATT
1 ATGAAAAGGGATGGTGACGACCATCAAACA
17982056 ATGAAAAGGGAT
1 ATGAAAAGGGAT
17982068 AGTTTCAGCT
Statistics
Matches: 148, Mismatches: 34, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
29 46 0.31
30 99 0.67
31 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.21
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCAAACA
Found at i:17982000 original size:30 final size:30
Alignment explanation
Indices: 17981961--17982067 Score: 142
Period size: 30 Copynumber: 3.6 Consensus size: 30
17981951 TTCAGCTAAT
17981961 AAATTATGAAAAGGGATGATGACGACCATC
1 AAATTATGAAAAGGGATGATGACGACCATC
* ** * *
17981991 GAACAATGAAAAGGGATGTTGACGACCAAC
1 AAATTATGAAAAGGGATGATGACGACCATC
* * *
17982021 AAATTATGAAAAGGAATGCTGACGACTATC
1 AAATTATGAAAAGGGATGATGACGACCATC
17982051 AAATTATGAAAAGGGAT
1 AAATTATGAAAAGGGAT
17982068 AGTTTCAGCT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (30 bp):
AAATTATGAAAAGGGATGATGACGACCATC
Found at i:17982000 original size:60 final size:59
Alignment explanation
Indices: 17981936--17982077 Score: 142
Period size: 60 Copynumber: 2.4 Consensus size: 59
17981926 CTATCGATTT
* * *
17981936 ATGAAAAGGGATAACTTCAGCTAATAAATTATGAAAAGGGATGATGACGACCATCGAACA
1 ATGAAAAGGGAT-ACTTCAGCTAACAAATTATGAAAAGGAATGATGACGACCATCAAACA
* * * * * **
17981996 ATGAAAAGGGAT-GTTGACGACCAACAAATTATGAAAAGGAATGCTGACGACTATCAAATT
1 ATGAAAAGGGATACTTCA-G-CTAACAAATTATGAAAAGGAATGATGACGACCATCAAACA
*
17982056 ATGAAAAGGGATAGTTTCAGCT
1 ATGAAAAGGGATA-CTTCAGCT
17982078 GTCGAACTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
58 3 0.05
59 1 0.02
60 57 0.88
61 1 0.02
62 3 0.05
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.22
Consensus pattern (59 bp):
ATGAAAAGGGATACTTCAGCTAACAAATTATGAAAAGGAATGATGACGACCATCAAACA
Found at i:17985605 original size:17 final size:17
Alignment explanation
Indices: 17985583--17985615 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17985573 CACTAACACC
*
17985583 AAAATGTAATGATAATA
1 AAAATGCAATGATAATA
17985600 AAAATGCAATGATAAT
1 AAAATGCAATGATAAT
17985616 GTATACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAATGCAATGATAATA
Found at i:17986078 original size:21 final size:20
Alignment explanation
Indices: 17986052--17986112 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
17986042 TCAATTTCAG
* *
17986052 CAACTTCCTATTCTTTAGCAA
1 CAACTTCCT-TTCTTCAACAA
17986073 CAACTT-C-TTCTTCAACAA
1 CAACTTCCTTTCTTCAACAA
*
17986091 CAACTTCCTCTTCTGCAACAA
1 CAACTTCCT-TTCTTCAACAA
17986112 C
1 C
17986113 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 15 0.44
19 1 0.03
20 1 0.03
21 17 0.50
ACGTcount: A:0.30, C:0.34, G:0.03, T:0.33
Consensus pattern (20 bp):
CAACTTCCTTTCTTCAACAA
Found at i:17986083 original size:18 final size:18
Alignment explanation
Indices: 17986062--17986114 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
17986052 CAACTTCCTA
17986062 TTCTTTAGCAACAACTTC
1 TTCTTTAGCAACAACTTC
* *
17986080 TTCTTCAACAACAACTTC
1 TTCTTTAGCAACAACTTC
*
17986098 CTCTTCT-GCAACAACTT
1 TTCTT-TAGCAACAACTT
17986115 TTTTCTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.32, G:0.04, T:0.36
Consensus pattern (18 bp):
TTCTTTAGCAACAACTTC
Found at i:17990004 original size:51 final size:51
Alignment explanation
Indices: 17989928--17990123 Score: 175
Period size: 51 Copynumber: 3.9 Consensus size: 51
17989918 TATAAACACG
* * *
17989928 TGTGTAATACTAAGTGCAGGCTACTACGTGTATC-AATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA-AGATAATGGTCACA
* * * * *
17989979 TGTGTAGTACTATGTGCAGACTACTATGTGTACCGGAAGGCT-TTGGTCA-A
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAGATAATGGTCACA
* * * ** * *
17990029 GTGTGTAGTACTATGTGCAGGCTACTATGTGAACC-AAAAATTTTGATCACG
1 -TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAATGGTCACA
* * *
17990080 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAAT
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAAT
17990124 AATTACACGG
Statistics
Matches: 116, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
49 3 0.03
50 37 0.32
51 72 0.62
52 2 0.02
53 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAATGGTCACA
Found at i:17990111 original size:101 final size:102
Alignment explanation
Indices: 17989927--17990111 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 102
17989917 CTATAAACAC
* * * *
17989927 GTGTGTAATACTAAGTGCAGGCTACTACGTGTATCAATAGATAATGGTCACATGTGTAGTACTAT
1 GTGTGTAATACTAAGTGCAGGCTACTACGTGAACCAATAAATAATGATCACATGTGTAGTACTAT
* *
17989992 GTGCAGACTACTATGTGTACCGGAAGGCTTTGGTCAA
66 GTGAAGACTACTACGTGTACCGGAAGGCTTTGGTCAA
* * * ** *
17990029 GTGTGTAGTACTATGTGCAGGCTACTATGTGAACCAA-AAATTTTGATCACGTGTGTAGTACTAT
1 GTGTGTAATACTAAGTGCAGGCTACTACGTGAACCAATAAATAATGATCACATGTGTAGTACTAT
*
17990093 GTGAAGGCTACTACGTGTA
66 GTGAAGACTACTACGTGTA
17990112 TCGAATGATA
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
101 38 0.54
102 32 0.46
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (102 bp):
GTGTGTAATACTAAGTGCAGGCTACTACGTGAACCAATAAATAATGATCACATGTGTAGTACTAT
GTGAAGACTACTACGTGTACCGGAAGGCTTTGGTCAA
Found at i:17996118 original size:296 final size:296
Alignment explanation
Indices: 17995584--17996175 Score: 970
Period size: 296 Copynumber: 2.0 Consensus size: 296
17995574 GATGCCAAAA
* * * *
17995584 ACTTGATTGGTTGTTTAACGTCACAGCAATAATGTCCAAGCATACACTGTCAGTGCAAGTATAGT
1 ACTTGATCGGCTGTTTAACATCACAGCAAAAATGTCCAAGCATACACTGTCAGTGCAAGTATAGT
*
17995649 AGGCAGATGTGAGTTTGTCGGATATAGATCCCACAGAGATGGGAATCTTTTGTCTATTAATGTCG
66 AGGCAGATGTGAGTTTGTCGAATATAGATCCCACAGAGATGGGAATCTTTTGTCTATTAATGTCG
* *
17995714 ATGCAATAACTTGATAATAACGATATAAATTGCGAGGATAGTTGTCGATGCAATAACTTGAGAAC
131 ATGCAATAAATTGATAATAACGATATAAATTGCGAGGATAGTTATCGATGCAATAACTTGAGAAC
17995779 AATAAAATAAAATATGACAATGAGAAACTGGAATCCCCAACATGAATCTTCAGCAGAATACTAAG
196 AATAAAATAAAATATGACAATGAGAAACTGGAATCCCCAACATGAATCTTCAGCAGAATACTAAG
*
17995844 TGCTCATGAGGTATAAAAGTATAGGTGATTGTCGAT
261 TGCTCACGAGGTATAAAAGTATAGGTGATTGTCGAT
* * *
17995880 ACTTGATCGGCTGTTTAACATCACAGTAAAAATGTGCAAGCGTACACTGTCAGTGCAAGTATAGT
1 ACTTGATCGGCTGTTTAACATCACAGCAAAAATGTCCAAGCATACACTGTCAGTGCAAGTATAGT
* * * **
17995945 AGGTAGATGTGAGTTTGTCGAATA-ATGATCCCATAGGGATGGGTGTCTTTTGTCTATTAATGTC
66 AGGCAGATGTGAGTTTGTCGAATATA-GATCCCACAGAGATGGGAATCTTTTGTCTATTAATGTC
* *
17996009 GATGCAATAAATTGATAATAACGATATAAATTGTGAGGATAGTTATTGATGCAATAACTTGAGAA
130 GATGCAATAAATTGATAATAACGATATAAATTGCGAGGATAGTTATCGATGCAATAACTTGAGAA
* * * *
17996074 GAATAAAATAAAATATGATAATGATAAACTGGGATCCCCAACATGAATCTTCAGCAGAATACTAA
195 CAATAAAATAAAATATGACAATGAGAAACTGGAATCCCCAACATGAATCTTCAGCAGAATACTAA
17996139 GTGCTCACGAGGTATAAAAGTATAGGTGATTGTCGAT
260 GTGCTCACGAGGTATAAAAGTATAGGTGATTGTCGAT
17996176 GCAATAAAAT
Statistics
Matches: 273, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
295 1 0.00
296 272 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (296 bp):
ACTTGATCGGCTGTTTAACATCACAGCAAAAATGTCCAAGCATACACTGTCAGTGCAAGTATAGT
AGGCAGATGTGAGTTTGTCGAATATAGATCCCACAGAGATGGGAATCTTTTGTCTATTAATGTCG
ATGCAATAAATTGATAATAACGATATAAATTGCGAGGATAGTTATCGATGCAATAACTTGAGAAC
AATAAAATAAAATATGACAATGAGAAACTGGAATCCCCAACATGAATCTTCAGCAGAATACTAAG
TGCTCACGAGGTATAAAAGTATAGGTGATTGTCGAT
Done.