Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007760.1 Hibiscus syriacus cultivar Beakdansim tig00110029_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2010226
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 8
Found at i:1710893 original size:20 final size:21
Alignment explanation
Indices: 1710871--1710957 Score: 99
Period size: 20 Copynumber: 4.1 Consensus size: 21
1710861 AAGAAATGGT
1710871 TTAATATATTTTTAATAT-TT-
1 TTAATA-ATTTTTAATATATTA
1710891 TTAATAATTTTTTAATATATTA
1 TTAATAA-TTTTTAATATATTA
* *
1710913 TTAAGGAATTATTTAATATGTTA
1 TTAA-TAATT-TTTAATATATTA
1710936 TTAAT-ATTTTTAATATATTA
1 TTAATAATTTTTAATATATTA
1710956 TT
1 TT
1710958 TTTTAGTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.02
20 29 0.50
21 5 0.09
22 6 0.10
23 17 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
TTAATAATTTTTAATATATTA
Found at i:1717843 original size:13 final size:14
Alignment explanation
Indices: 1717825--1717853 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1717815 TTAAAGAATT
1717825 ATGTTTGAAAA-CA
1 ATGTTTGAAAATCA
1717838 ATGTTTGAAAATCA
1 ATGTTTGAAAATCA
1717852 AT
1 AT
1717854 ATATAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
ATGTTTGAAAATCA
Found at i:1718373 original size:23 final size:23
Alignment explanation
Indices: 1718347--1718392 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1718337 TATCAGTATT
*
1718347 CATTCAAAGAGGGTATTGGTACC
1 CATTCAAAGAGGGTATTGATACC
*
1718370 CATTCAAAGGGGGTATTGATACC
1 CATTCAAAGAGGGTATTGATACC
1718393 TAGTGCACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (23 bp):
CATTCAAAGAGGGTATTGATACC
Found at i:1722414 original size:22 final size:21
Alignment explanation
Indices: 1722372--1722411 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1722362 AAGACTATTT
1722372 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
1722393 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
1722412 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:1724255 original size:21 final size:21
Alignment explanation
Indices: 1724231--1724284 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1724221 TGGGAGCGTG
1724231 GGGTATCGGTACCCCTCCATA
1 GGGTATCGGTACCCCTCCATA
*
1724252 GGGTATCGATACCCCTCCATA
1 GGGTATCGGTACCCCTCCATA
1724273 GGGTATCGGTAC
1 GGGTATCGGTAC
1724285 ATGTAGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.24
Consensus pattern (21 bp):
GGGTATCGGTACCCCTCCATA
Found at i:1724424 original size:20 final size:19
Alignment explanation
Indices: 1724399--1724453 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
1724389 AAATTGGCAT
1724399 AGGGGTATCGGTACCGTATG
1 AGGGGTATCGGTACC-TATG
*
1724419 AGGGGTATCGATACTCTATG
1 AGGGGTATCGGTAC-CTATG
*
1724439 AGGGGTATCAGTACC
1 AGGGGTATCGGTACC
1724454 CTCTGGGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25
Consensus pattern (19 bp):
AGGGGTATCGGTACCTATG
Found at i:1725161 original size:9 final size:9
Alignment explanation
Indices: 1725147--1725205 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
1725137 ATAAGAATAT
1725147 TTTATATTA
1 TTTATATTA
1725156 TTTATATTA
1 TTTATATTA
*
1725165 ATTATA-TA
1 TTTATATTA
*
1725173 --TATAATA
1 TTTATATTA
*
1725180 TTTTATATTT
1 -TTTATATTA
1725190 TTTATATTA
1 TTTATATTA
*
1725199 ATTATAT
1 TTTATAT
1725206 ATATAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 2 0.05
9 28 0.68
10 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTATATTA
Found at i:1725185 original size:34 final size:34
Alignment explanation
Indices: 1725132--1725217 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 34
1725122 GCCTCGATTA
*
1725132 TATATATAAGAATATTTTATATTATTTATATTAAT
1 TATATAT-ATAATATTTTATATTATTTATATTAAT
*
1725167 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTATTTATATTAAT
1725201 TATATATATAATATTTT
1 TATATATATAATATTTT
1725218 TGGGTTCGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 42 0.86
35 7 0.14
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (34 bp):
TATATATATAATATTTTATATTATTTATATTAAT
Found at i:1729455 original size:16 final size:15
Alignment explanation
Indices: 1729430--1729464 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
1729420 TATATTACAA
*
1729430 ATATATATTTATTTT
1 ATATATATTTAATTT
1729445 ATATAATATTTAATTT
1 ATAT-ATATTTAATTT
1729461 ATAT
1 ATAT
1729465 TTTAGTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATATATTTAATTT
Found at i:1729664 original size:17 final size:19
Alignment explanation
Indices: 1729633--1729671 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
1729623 ATTCGAATAC
*
1729633 ATTTATTTTAGTTAATTTG
1 ATTTATTTTAGTTAAATTG
1729652 ATTT-TTTTA-TTAAATTG
1 ATTTATTTTAGTTAAATTG
1729669 ATT
1 ATT
1729672 AAAATCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 5 0.26
19 4 0.21
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (19 bp):
ATTTATTTTAGTTAAATTG
Found at i:1731085 original size:17 final size:20
Alignment explanation
Indices: 1731049--1731088 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
1731039 TGATATCGAT
1731049 AGAGTTATAGATAGAGAAAG
1 AGAGTTATAGATAGAGAAAG
1731069 AGAGTT-TAGA-A-AGAAAG
1 AGAGTTATAGATAGAGAAAG
1731086 AGA
1 AGA
1731089 TGGAGAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 1 0.05
19 4 0.20
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (20 bp):
AGAGTTATAGATAGAGAAAG
Found at i:1733582 original size:42 final size:42
Alignment explanation
Indices: 1733521--1733605 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
1733511 TTAACTGATC
*
1733521 TTATTCATAATCCTAGTTTCATGTTTTATTCTGGGAAGATTA
1 TTATTCATAATCCTAGTTTCATGTTTTATGCTGGGAAGATTA
* * *
1733563 TTATTCTTAATTCTGGTTTCATGTTTTATGCTGGGAAGATTA
1 TTATTCATAATCCTAGTTTCATGTTTTATGCTGGGAAGATTA
1733605 T
1 T
1733606 CTTGCACCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (42 bp):
TTATTCATAATCCTAGTTTCATGTTTTATGCTGGGAAGATTA
Found at i:1737133 original size:19 final size:19
Alignment explanation
Indices: 1737109--1737146 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1737099 GACAAAAGCA
1737109 TTCACTCCAACACTACATT
1 TTCACTCCAACACTACATT
1737128 TTCACTCCAACACTACATT
1 TTCACTCCAACACTACATT
1737147 GTCAGGTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.37, G:0.00, T:0.32
Consensus pattern (19 bp):
TTCACTCCAACACTACATT
Found at i:1740371 original size:221 final size:224
Alignment explanation
Indices: 1739983--1740430 Score: 857
Period size: 221 Copynumber: 2.0 Consensus size: 224
1739973 CACATATTAT
1739983 CCACAAGTAGTGACGGAACCACGTGGGGGCGGAAGGAGGAAGTAGTCCACCCCAACTTTTATGGT
1 CCACAAGTAGTGACGGAACCACGTGGGGGCGGAAGGAGGAAGTAGTCCACCCCAACTTTTATGG-
1740048 TTAATTATATTTTAAGCCCTTAAAAATTTTAAAACCATTAAAATCAAATCATGATCCTCCAAAAA
65 TT-ATTATATTTTAAGCCCTTAAAAATTTTAAAACCATTAAAATCAAATCATGATCCTCCAAAAA
1740113 TTTGATGGATTAATTCTTTTTAAGACATTATTAGTTTTCAAATTAAATGAAATTAAGTCTTGCCT
129 TTTGATGGATTAATTCTTTTTAAGACATTATTAGTTTTCAAATTAAATGAAATTAAGTCTTGCCT
1740178 CTAGCTTTTTTGGTTTAATTACTTTTTAGGA
194 CTAGCTTTTTTGGTTTAATTACTTTTTAGGA
1740209 CCACAAGTAGTGACGGAACCACGTGGGGGCGGAAGGAGGAAGTAGTCCACCCCAACTTTTATGG-
1 CCACAAGTAGTGACGGAACCACGTGGGGGCGGAAGGAGGAAGTAGTCCACCCCAACTTTTATGGT
1740273 T-TTATA-TTTAAGCCCTTAAAAATTTTAAAACCATTAAAATCAAATCATGATCCTCCAAAAATT
66 TATTATATTTTAAGCCCTTAAAAATTTTAAAACCATTAAAATCAAATCATGATCCTCCAAAAATT
1740336 TGATGGATTAATTCTTTTTAAGACATTATTAGTTTTCAAATTAAATGAAATTAAGTCTTGCCTCT
131 TGATGGATTAATTCTTTTTAAGACATTATTAGTTTTCAAATTAAATGAAATTAAGTCTTGCCTCT
1740401 AGCTTTTTTGGTTTAATTACTTTTTAGGA
196 AGCTTTTTTGGTTTAATTACTTTTTAGGA
1740430 C
1 C
1740431 ACGACCATTT
Statistics
Matches: 222, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
221 152 0.68
222 5 0.02
224 1 0.00
226 64 0.29
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (224 bp):
CCACAAGTAGTGACGGAACCACGTGGGGGCGGAAGGAGGAAGTAGTCCACCCCAACTTTTATGGT
TATTATATTTTAAGCCCTTAAAAATTTTAAAACCATTAAAATCAAATCATGATCCTCCAAAAATT
TGATGGATTAATTCTTTTTAAGACATTATTAGTTTTCAAATTAAATGAAATTAAGTCTTGCCTCT
AGCTTTTTTGGTTTAATTACTTTTTAGGA
Found at i:1741970 original size:61 final size:61
Alignment explanation
Indices: 1741900--1742023 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
1741890 GTGTAAAAGA
1741900 ATCATGGTAATAAGTGAATAACCCTAACTATATATACTGAAATCCAAATAAAACCTTTAAC
1 ATCATGGTAATAAGTGAATAACCCTAACTATATATACTGAAATCCAAATAAAACCTTTAAC
1741961 ATCATGGTAATAAGTGAATAACCCTAACTATATATACTGAAATCCAAATAAAACCTTTAAC
1 ATCATGGTAATAAGTGAATAACCCTAACTATATATACTGAAATCCAAATAAAACCTTTAAC
1742022 AT
1 AT
1742024 ATAGGACTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (61 bp):
ATCATGGTAATAAGTGAATAACCCTAACTATATATACTGAAATCCAAATAAAACCTTTAAC
Found at i:1743626 original size:79 final size:79
Alignment explanation
Indices: 1743530--1743696 Score: 237
Period size: 79 Copynumber: 2.1 Consensus size: 79
1743520 TTTATGCAGT
* * *
1743530 TTATACAACCTATATTAATG-CTTAAACTCCAGCCATTAATGTGGCATGTGTATTCACACTTTAA
1 TTATACAACCTAGATTAATGCCTT-AACTCCAACCATTAATGTGGCATGTGTATTCACACTTCAA
*
1743594 TGATGGATTCATGCA
65 TGATGGATTCATACA
** * *
1743609 TTATACAACCTAGATTAATGCCTTAACTCCAACCATTAATGTGGTTTGTGTGTTCACACTTCACT
1 TTATACAACCTAGATTAATGCCTTAACTCCAACCATTAATGTGGCATGTGTATTCACACTTCAAT
*
1743674 GTTGGATTCATACA
66 GATGGATTCATACA
1743688 TTATACAAC
1 TTATACAAC
1743697 AAAGAAATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 75 0.96
80 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (79 bp):
TTATACAACCTAGATTAATGCCTTAACTCCAACCATTAATGTGGCATGTGTATTCACACTTCAAT
GATGGATTCATACA
Found at i:1748641 original size:102 final size:103
Alignment explanation
Indices: 1748486--1748697 Score: 372
Period size: 108 Copynumber: 2.0 Consensus size: 103
1748476 TTTTAACTAT
1748486 GAAATTGTGCAAAACTTTCTTAGTTTTAGAAGTGGACCCTTTC-ATATATATATATATAATAGAC
1 GAAATTGTGCAAAACTTTCTTAGTTTTAGAAGTGGACCCTTTCAATATATATATATATAATAGAC
1748550 AAGGGAAAAGGAACAAAGTTAAAGAATTTGTCATAAGC
66 AAGGGAAAAGGAACAAAGTTAAAGAATTTGTCATAAGC
1748588 GAAATTGTGCAAAACTTTCTTAGTTTTAGAAGTGGACCCTTTCATATATATATATATATATATAA
1 GAAATTGTGCAAAACTTTCTTAGTTTTAGAAGTGGACCCTTTC----A-ATATATATATATATAA
1748653 TAGACAAGGGAAAAGGAACAAAGTTAAAGAATTTGTCATAAGC
61 TAGACAAGGGAAAAGGAACAAAGTTAAAGAATTTGTCATAAGC
1748696 GA
1 GA
1748698 TTACAAGTAA
Statistics
Matches: 104, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
102 43 0.41
108 61 0.59
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (103 bp):
GAAATTGTGCAAAACTTTCTTAGTTTTAGAAGTGGACCCTTTCAATATATATATATATAATAGAC
AAGGGAAAAGGAACAAAGTTAAAGAATTTGTCATAAGC
Found at i:1755543 original size:7 final size:8
Alignment explanation
Indices: 1755524--1755550 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1755514 TCAATTCGGT
1755524 TTTTTTAA
1 TTTTTTAA
1755532 TTTTTTAA
1 TTTTTTAA
1755540 TTTTTTAA
1 TTTTTTAA
1755548 TTT
1 TTT
1755551 ATATTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTAA
Found at i:1759360 original size:31 final size:27
Alignment explanation
Indices: 1759325--1759399 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 27
1759315 CCAAACTATA
*
1759325 AAACTTTAAATATTGTATCATTTATACCACT
1 AAACTTTAAAT-TT-TATCAATTAT--CACT
*
1759356 AAACTTTCAATTTTATCAATTATCACT
1 AAACTTTAAATTTTATCAATTATCACT
* *
1759383 GAACTTTAATTTTTATC
1 AAACTTTAAATTTTATC
1759400 GAAATCAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 18 0.46
29 9 0.23
30 2 0.05
31 10 0.26
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.45
Consensus pattern (27 bp):
AAACTTTAAATTTTATCAATTATCACT
Found at i:1763573 original size:20 final size:20
Alignment explanation
Indices: 1763548--1763587 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1763538 AAATCTTACA
*
1763548 TGGGGGTATTGGTACCCTCT
1 TGGGGGTATCGGTACCCTCT
1763568 TGGGGGTATCGGTACCCTCT
1 TGGGGGTATCGGTACCCTCT
1763588 GAGTAATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.23, G:0.35, T:0.33
Consensus pattern (20 bp):
TGGGGGTATCGGTACCCTCT
Found at i:1763665 original size:20 final size:21
Alignment explanation
Indices: 1763624--1763665 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1763614 AATCTTACAT
1763624 GGGGTATCGGTACCCTCGTGG
1 GGGGTATCGGTACCCTCGTGG
1763645 GGGGTATCGGTACCCTC-TGG
1 GGGGTATCGGTACCCTCGTGG
1763665 G
1 G
1763666 AAATCTGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.10, C:0.24, G:0.43, T:0.24
Consensus pattern (21 bp):
GGGGTATCGGTACCCTCGTGG
Found at i:1763672 original size:75 final size:75
Alignment explanation
Indices: 1763472--1763672 Score: 293
Period size: 75 Copynumber: 2.7 Consensus size: 75
1763462 TCGTTATAAG
*
1763472 ATGGGGGTATCGGTA-CCTCCTGGGGGGTATCGGTACCCT-TCGAGAAATCTATTATTTCTCTGA
1 ATGGGGGTATCGGTACCCT-CTGGGGGGTATCGGTACCCTCT-GAGAAATCTGTTATTTCTCTGA
1763535 GCCAAATCTTAC
64 GCCAAATCTTAC
* * *
1763547 ATGGGGGTATTGGTACCCTCTTGGGGGTATCGGTACCCTCTGAGTAATCTGTTATTTCT-TGGAG
1 ATGGGGGTATCGGTACCCTCTGGGGGGTATCGGTACCCTCTGAGAAATCTGTTATTTCTCT-GAG
1763611 CCAAATCTTAC
65 CCAAATCTTAC
*
1763622 AT-GGGGTATCGGTACCCTCGTGGGGGGTATCGGTACCCTCTGGGAAATCTG
1 ATGGGGGTATCGGTACCCTC-TGGGGGGTATCGGTACCCTCTGAGAAATCTG
1763673 GTTTTTCAGT
Statistics
Matches: 114, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
74 17 0.15
75 93 0.82
76 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (75 bp):
ATGGGGGTATCGGTACCCTCTGGGGGGTATCGGTACCCTCTGAGAAATCTGTTATTTCTCTGAGC
CAAATCTTAC
Found at i:1765917 original size:23 final size:22
Alignment explanation
Indices: 1765866--1765944 Score: 88
Period size: 23 Copynumber: 3.6 Consensus size: 22
1765856 ACCCCGTTGA
* **
1765866 GGGTATCGGTACCC-TCCTGGG
1 GGGTATCGGTACCCATTCAAGG
1765887 GGGTATCGGTACCCATTCAAAGG
1 GGGTATCGGTACCCATTC-AAGG
* *
1765910 GGGAATCGGTACCCCTTCAAGG
1 GGGTATCGGTACCCATTCAAGG
*
1765932 GGGTATCGATACC
1 GGGTATCGGTACC
1765945 TCCTGCACCA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
21 14 0.29
22 17 0.35
23 18 0.37
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (22 bp):
GGGTATCGGTACCCATTCAAGG
Found at i:1767878 original size:27 final size:27
Alignment explanation
Indices: 1767840--1767896 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
1767830 CACCATCATT
1767840 GACATAGTTGTACTCTCTTGGGTAAGA
1 GACATAGTTGTACTCTCTTGGGTAAGA
*
1767867 GACATAGTTGTACTCTCTTGGGTAATA
1 GACATAGTTGTACTCTCTTGGGTAAGA
1767894 GAC
1 GAC
1767897 TTCCCTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (27 bp):
GACATAGTTGTACTCTCTTGGGTAAGA
Found at i:1767973 original size:18 final size:18
Alignment explanation
Indices: 1767950--1767992 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
1767940 TTTCATCTTT
1767950 TGGTTCTTCCTTTGATGA
1 TGGTTCTTCCTTTGATGA
1767968 TGGTTCTTCCTTTGATGA
1 TGGTTCTTCCTTTGATGA
1767986 TGGTTCT
1 TGGTTCT
1767993 CCAACGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.16, G:0.23, T:0.51
Consensus pattern (18 bp):
TGGTTCTTCCTTTGATGA
Found at i:1774300 original size:50 final size:50
Alignment explanation
Indices: 1774241--1774340 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
1774231 ACCAACATCT
1774241 AAATCTTCTGTAAAACCATAAACGATATTGTACATTAGTAACGGCTGAAC
1 AAATCTTCTGTAAAACCATAAACGATATTGTACATTAGTAACGGCTGAAC
*
1774291 AAATCTTCTGTAAAACCATAAATGATATTGTACATTAGTAACGGCTGAAC
1 AAATCTTCTGTAAAACCATAAACGATATTGTACATTAGTAACGGCTGAAC
1774341 GAAAATAGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (50 bp):
AAATCTTCTGTAAAACCATAAACGATATTGTACATTAGTAACGGCTGAAC
Found at i:1784967 original size:25 final size:25
Alignment explanation
Indices: 1784938--1785029 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
1784928 TTTGATTTAC
1784938 TAAAATATTAATAATTTTAAGAATT
1 TAAAATATTAATAATTTTAAGAATT
1784963 TAAAATATTAATAATTTTAAGAATT
1 TAAAATATTAATAATTTTAAGAATT
* *
1784988 TAAAATATTTAATATTTTTAA-TATT
1 TAAAATA-TTAATAATTTTAAGAATT
*
1785013 TAATAT-TTAAT-ATTTTA
1 TAAAATATTAATAATTTTA
1785030 TTATTTATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
22 5 0.08
23 5 0.08
25 40 0.65
26 12 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TAAAATATTAATAATTTTAAGAATT
Found at i:1784978 original size:16 final size:16
Alignment explanation
Indices: 1784938--1785022 Score: 52
Period size: 16 Copynumber: 5.2 Consensus size: 16
1784928 TTTGATTTAC
1784938 TAAAATATTAATAATTT
1 TAAAATATTAATAA-TT
1784955 TAAGAAT-TTAA-AATAT
1 TAA-AATATTAATAAT-T
* *
1784971 TAATAATTTTAAGAATT
1 TAA-AATATTAATAATT
1784988 TAAAATATTTAAT-ATT
1 TAAAATA-TTAATAATT
**
1785004 TTTAATATTTAAT-ATT
1 TAAAATA-TTAATAATT
1785020 TAA
1 TAA
1785023 TATTTTATTA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.02
16 30 0.54
17 19 0.34
18 6 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TAAAATATTAATAATT
Found at i:1785034 original size:15 final size:15
Alignment explanation
Indices: 1785000--1785045 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
1784990 AAATATTTAA
1785000 TATT-TTTAATA-TT
1 TATTATTTAATATTT
*
1785013 TAATATTTAATATTT
1 TATTATTTAATATTT
1785028 TATTATTT-ATAATTT
1 TATTATTTAAT-ATTT
1785043 TAT
1 TAT
1785046 GGGATGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 9 0.32
15 16 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATTTAATATTT
Found at i:1785037 original size:7 final size:7
Alignment explanation
Indices: 1784991--1785027 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
1784981 AAGAATTTAA
1784991 AATATTT
1 AATATTT
1784998 AATATTTTT
1 AATA--TTT
1785007 AATATTT
1 AATATTT
1785014 AATATTT
1 AATATTT
1785021 AATATTT
1 AATATTT
1785028 TATTATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATATTT
Found at i:1785044 original size:23 final size:23
Alignment explanation
Indices: 1784984--1785044 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
1784974 TAATTTTAAG
*
1784984 AATTTAAAATATTTAATATTTTT
1 AATTTATAATATTTAATATTTTT
1785007 AATATT-TAATATTTAATATTTTAT
1 AAT-TTATAATATTTAATATTTT-T
*
1785031 TATTTATAAT-TTTA
1 AATTTATAATATTTA
1785045 TGGGATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 24 0.73
24 9 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AATTTATAATATTTAATATTTTT
Found at i:1785127 original size:16 final size:17
Alignment explanation
Indices: 1785108--1785139 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1785098 TACTACCATA
1785108 ATATTAT-TTTTATATT
1 ATATTATATTTTATATT
1785124 ATATTATATTTTATAT
1 ATATTATATTTTATAT
1785140 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:1786975 original size:19 final size:19
Alignment explanation
Indices: 1786951--1786988 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1786941 TCTATAATTT
1786951 GTTTGACTATTGCAAGGTA
1 GTTTGACTATTGCAAGGTA
*
1786970 GTTTGACTGTTGCAAGGTA
1 GTTTGACTATTGCAAGGTA
1786989 CACATCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (19 bp):
GTTTGACTATTGCAAGGTA
Found at i:1788680 original size:54 final size:54
Alignment explanation
Indices: 1788620--1788729 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
1788610 ATCAGCTTGC
* * * *
1788620 GGTGGTGTTAGATTATCATTTCCAAAACCTTCTTAAAGTTTAAGTTGAGGTGGT
1 GGTGGTGTTAGATCATCACTTCCAAAACCTTCTTAAAGTTCAAGTTAAGGTGGT
* *
1788674 GGTGGTGTTTGATCATCACTTCCAAAACCTTCTTGAAGTTCAAGTTAAGGTGGT
1 GGTGGTGTTAGATCATCACTTCCAAAACCTTCTTAAAGTTCAAGTTAAGGTGGT
1788728 GG
1 GG
1788730 ATTATTTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (54 bp):
GGTGGTGTTAGATCATCACTTCCAAAACCTTCTTAAAGTTCAAGTTAAGGTGGT
Found at i:1795219 original size:26 final size:27
Alignment explanation
Indices: 1795160--1795219 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 27
1795150 CATAAGACCT
1795160 TATAATACCATTAATGCTTATTATGAAA
1 TATAATACCATTAATGCTTATTAT-AAA
*
1795188 TCATAATACTATTAATGCTTATTAT-AA
1 T-ATAATACCATTAATGCTTATTATAAA
1795215 TATAA
1 TATAA
1795220 AATTTATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.13
27 3 0.10
28 1 0.03
29 22 0.73
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (27 bp):
TATAATACCATTAATGCTTATTATAAA
Found at i:1797469 original size:292 final size:290
Alignment explanation
Indices: 1796899--1797477 Score: 838
Period size: 292 Copynumber: 2.0 Consensus size: 290
1796889 TTGATAATAT
*
1796899 CTTAACCTAATAAGTGAGAGAATTATTTTAGAGATATAATCTTTTTGGGATCTCTAAATTATTTG
1 CTTAACCTAATAAGTGAGAGAATTATTTTAGAGATATAATCTTTTTGGGATCTCTAAACTATTTG
* * * *
1796964 GGGTTTATGTTGGAGAGATAGTTTTGTAGGGATTGAAAGAGTTTTTGGGATACATCGGGTTTTGC
66 GGGTTTATGTTGGAGAGATAGTTTTATAGGGATTGAAAGAGTTTTTGGGATACACCGAGATTTGC
* * *
1797029 GATACATGTGATATCATGTACTTGTACTATTCATATTCTCTACATCTATAACGGATTATTGCTCA
131 GATACATGTGATATCATATACTTGTACTATTCATATTCTCTACATCTATAACGAATAATTGCTCA
* * * *
1797094 TCTCACCCGTGGAGGTAGGCAAGGTTGAACCACATTAAATCTTGTCTATTGTGCATGTCTTACTT
196 TCTCACCCGTGGAGGTAGGCAAGGTCGAACCACATTAAATCTCGTCTATAGTACATGTCTTACTT
*
1797159 AATGTTGATATAGCTTTGGTTATTTTTCAG
261 AATGCTGATATAGCTTTGGTTATTTTTCAG
* *
1797189 CTTATCCTAATGAA-TGAGAGAATTATTTTAGAGAGATGTAATCTTTTTGGGATCTCTATAACT-
1 CTTAACCTAAT-AAGTGAGAGAATTATTTT--AGAGATATAATCTTTTTGGGATCTCTA-AACTA
* * *
1797252 TTTGGGGTTTATGTTGTAGAGATAGTTTTATAGGGATTGACAGAGTTTTTGGGCTACACCGAGAT
62 TTTGGGGTTTATGTTGGAGAGATAGTTTTATAGGGATTGAAAGAGTTTTTGGGATACACCGAGAT
* * * * * * *
1797317 TTGGGATACATGTGATATCATATATTTGTACTCTTCGTGTTCTTTACATCTATAATGAATAATTG
127 TTGCGATACATGTGATATCATATACTTGTACTATTCATATTCTCTACATCTATAACGAATAATTG
* * *
1797382 TTCATCTCACCCGTGGAGGTAGGTAAGGTCGAACCACATTAAATCTCGTCTCTAGTACATGTCTT
192 CTCATCTCACCCGTGGAGGTAGGCAAGGTCGAACCACATTAAATCTCGTCTATAGTACATGTCTT
* *
1797447 ACTTTATGCTGATATCGCTTTGGTTATTTTT
257 ACTTAATGCTGATATAGCTTTGGTTATTTTT
1797478 TTCGCTTACA
Statistics
Matches: 255, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
290 25 0.10
291 2 0.01
292 225 0.88
293 3 0.01
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (290 bp):
CTTAACCTAATAAGTGAGAGAATTATTTTAGAGATATAATCTTTTTGGGATCTCTAAACTATTTG
GGGTTTATGTTGGAGAGATAGTTTTATAGGGATTGAAAGAGTTTTTGGGATACACCGAGATTTGC
GATACATGTGATATCATATACTTGTACTATTCATATTCTCTACATCTATAACGAATAATTGCTCA
TCTCACCCGTGGAGGTAGGCAAGGTCGAACCACATTAAATCTCGTCTATAGTACATGTCTTACTT
AATGCTGATATAGCTTTGGTTATTTTTCAG
Found at i:1797976 original size:57 final size:57
Alignment explanation
Indices: 1797913--1798022 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
1797903 ATCAGCTTGC
* * * * * *
1797913 GGTGGTGTTTGATTATCATTTCCAAATCCTTCTTGAGGTTCAAGTTGAGGTGGAAAT
1 GGTGGTGTTTGATCATCACTTCCAAAACCTTCTTAAAGTTCAACTTGAGGTGGAAAT
*
1797970 GGTGGTGTTTGATCATTACTTCCAAAACCTTCTTAAAGTTCAACTTGAGGTGG
1 GGTGGTGTTTGATCATCACTTCCAAAACCTTCTTAAAGTTCAACTTGAGGTGG
1798023 TGGATGATGA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.37
Consensus pattern (57 bp):
GGTGGTGTTTGATCATCACTTCCAAAACCTTCTTAAAGTTCAACTTGAGGTGGAAAT
Found at i:1799084 original size:20 final size:20
Alignment explanation
Indices: 1799051--1799089 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
1799041 AAATAAGGTA
*
1799051 AAGATAAATCCTAAATTAAAG
1 AAGATAAATACT-AATTAAAG
1799072 AAGA-AAATACTAATTAAA
1 AAGATAAATACTAATTAAA
1799090 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (20 bp):
AAGATAAATACTAATTAAAG
Found at i:1799704 original size:242 final size:242
Alignment explanation
Indices: 1799272--1799741 Score: 796
Period size: 242 Copynumber: 1.9 Consensus size: 242
1799262 CATCGCGATT
*
1799272 TAATACCCCAAATAATAGGTCAGTGACTAATTTGAAAGGAATTAAAATTTGGAGGACTAAAATGA
1 TAATACCCCAAATAATAGGTCAGAGACTAATTTGAAAGGAATTAAAATTTGGAGGACTAAAATGA
1799337 ATAAAAGGGTAAAGTATAAGAAAAGACTTGAGTAAGACCAATGTGTAAGACATAGAATAATGAAA
66 ATAAAAGGGTAAAGTATAAGAAAAGACTTGAGTAAGACCAATGTGTAAGACATAGAATAATGAAA
* * *
1799402 GGGAATTTTTGACCTTTTAAGTTAAATGAATTTAAATCTCATTTAATTTCAAGAGATTTAAATAA
131 GGGAATTTTGGACCTTTTAAGTGAAATGAATTTAAATCTCATTTAAATTCAAGAGATTTAAATAA
1799467 AAAGGGGAAAGCAAGTTTAGGAAGCCATTTTTTAAAAGGGAGAATTG
196 AAAGGGGAAAGCAAGTTTAGGAAGCCATTTTTTAAAAGGGAGAATTG
* * *
1799514 TAATACCCCTAATAATAGGTCAGAGACTAATTTGAAAGGAATTAAAATTTGGATGACTAAATTGA
1 TAATACCCCAAATAATAGGTCAGAGACTAATTTGAAAGGAATTAAAATTTGGAGGACTAAAATGA
* * *
1799579 ATGAAAGGGTAAAGTATAAGAAATGACTTGAGTAAGACCAATGTGTAAGAGATAGAATAATGAAA
66 ATAAAAGGGTAAAGTATAAGAAAAGACTTGAGTAAGACCAATGTGTAAGACATAGAATAATGAAA
* * * * *
1799644 GGGCATTTTGGTCTTTTTAAGTGAAATGAATTTAAATCTCATTTAAATTCTAGGGATTTAAATAA
131 GGGAATTTTGGACCTTTTAAGTGAAATGAATTTAAATCTCATTTAAATTCAAGAGATTTAAATAA
*
1799709 AAAGGGGAAAGTAAGTTTAGGAAGCCATTTTTT
196 AAAGGGGAAAGCAAGTTTAGGAAGCCATTTTTT
1799742 CTTTTTTCTT
Statistics
Matches: 212, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
242 212 1.00
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (242 bp):
TAATACCCCAAATAATAGGTCAGAGACTAATTTGAAAGGAATTAAAATTTGGAGGACTAAAATGA
ATAAAAGGGTAAAGTATAAGAAAAGACTTGAGTAAGACCAATGTGTAAGACATAGAATAATGAAA
GGGAATTTTGGACCTTTTAAGTGAAATGAATTTAAATCTCATTTAAATTCAAGAGATTTAAATAA
AAAGGGGAAAGCAAGTTTAGGAAGCCATTTTTTAAAAGGGAGAATTG
Found at i:1800425 original size:20 final size:20
Alignment explanation
Indices: 1800376--1800429 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
1800366 TACCAGTATG
1800376 GGGTATCGATACCATAGTAA
1 GGGTATCGATACCATAGTAA
1800396 GGTAGTATCGATACCAT-GATAA
1 GG--GTATCGATACCATAG-TAA
1800418 GGGTATCGATAC
1 GGGTATCGATAC
1800430 TAGGCAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 12 0.39
21 1 0.03
22 18 0.58
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:1800926 original size:57 final size:57
Alignment explanation
Indices: 1800857--1801235 Score: 580
Period size: 57 Copynumber: 6.6 Consensus size: 57
1800847 CTAAGTGTGC
* * * *
1800857 AAAAT-TTCAAGAAATCATACTAACTATGTGAATTTCAAATAGGGCATTTTGTACGCT
1 AAAATGTT-AAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
*
1800914 AAAATGTTAAGAAATCATAATAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
**
1800971 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTGTTTTGTACGCT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
* * **
1801028 AAAATGTTAAGAAATCATACTAAGTTTTTGAATTTCAGATAGCACATTTTGTACGCT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
* * *
1801085 AAAATGATATGAAATCATACTAAGTGTATGAATTTCATATAGGGCATTTTGTACGCT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
* * *
1801142 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGTTAGGGCGTTTTGTACGCA
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
1801199 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTC
1 AAAATGTTAAGAAA-TCATACTAAGTGTATGAATTTC
1801236 TGTATTGGGC
Statistics
Matches: 293, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
57 269 0.92
58 24 0.08
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (57 bp):
AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
Found at i:1801401 original size:27 final size:27
Alignment explanation
Indices: 1801369--1801422 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1801359 TAATGAGTAG
*
1801369 GAAAACCACACATATTTTAAAAATGGT
1 GAAAACCACACAAATTTTAAAAATGGT
*
1801396 GAAAACCATACAAATTTTAAAAATGGT
1 GAAAACCACACAAATTTTAAAAATGGT
1801423 TGATAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (27 bp):
GAAAACCACACAAATTTTAAAAATGGT
Found at i:1804707 original size:24 final size:23
Alignment explanation
Indices: 1804680--1804808 Score: 80
Period size: 24 Copynumber: 5.4 Consensus size: 23
1804670 TATATCAAAA
*
1804680 ATCAAAACATAAATCAAGTCAAGT
1 ATCAAATCA-AAATCAAGTCAAGT
* *
1804704 ATCATATCAGAAATCAGGTCAAGT
1 ATCAAATCA-AAATCAAGTCAAGT
* * *
1804728 AACAGATCAGAATCCAAGTCAAGT
1 ATCAAATCAAAAT-CAAGTCAAGT
* *
1804752 ATCAGATCAGAATCCAAGTC-AGAT
1 ATCAAATCAAAAT-CAAGTCAAG-T
* * * *
1804776 ATCATATTAGAATCCATGTCAAGT
1 ATCAAATCAAAAT-CAAGTCAAGT
*
1804800 ATCAGATCA
1 ATCAAATCA
1804809 GAATTCAAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
23 5 0.06
24 81 0.92
25 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (23 bp):
ATCAAATCAAAATCAAGTCAAGT
Found at i:1804811 original size:24 final size:24
Alignment explanation
Indices: 1804694--1804812 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
1804684 AAACATAAAT
*
1804694 CAAGTCAAGTATCATATCAGAAAT-
1 CAAGTCAAGTATCAGATCAG-AATC
* *
1804718 CAGGTCAAGTAACAGATCAGAATC
1 CAAGTCAAGTATCAGATCAGAATC
1804742 CAAGTCAAGTATCAGATCAGAATC
1 CAAGTCAAGTATCAGATCAGAATC
* *
1804766 CAAGTC-AGATATCATATTAGAATC
1 CAAGTCAAG-TATCAGATCAGAATC
*
1804790 CATGTCAAGTATCAGATCAGAAT
1 CAAGTCAAGTATCAGATCAGAAT
1804813 TCAAATAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
23 5 0.06
24 75 0.91
25 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (24 bp):
CAAGTCAAGTATCAGATCAGAATC
Found at i:1805884 original size:15 final size:15
Alignment explanation
Indices: 1805851--1805885 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1805841 GGTCAACGCC
**
1805851 GGTCAACGGTCAATG
1 GGTCAACGGTCAACA
1805866 GGTCAACGGTCAACA
1 GGTCAACGGTCAACA
1805881 GGTCA
1 GGTCA
1805886 GGTCGGGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (15 bp):
GGTCAACGGTCAACA
Found at i:1807996 original size:24 final size:24
Alignment explanation
Indices: 1807973--1808091 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
1807963 AAACATAAAT
* *
1807973 CAGGTCATGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
* *
1807997 CAGTTCAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
1808021 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
1808045 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
1808069 CATGTCAAGTATCAGATCAGAAT
1 CAGGTCAAGTATCAGATCAGAAT
1808092 TCAAATCGAA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
23 5 0.06
24 77 0.92
25 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:1808107 original size:48 final size:48
Alignment explanation
Indices: 1808009--1808109 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 48
1807999 GTTCAAGTAA
** *
1808009 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCATGTCAGATAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAAT
* *
1808057 CAGATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATC-GAAAAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG-AAAT
1808105 CAGAT
1 CAGAT
1808110 AAAATATTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.02
48 46 0.98
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.23
Consensus pattern (48 bp):
CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAAT
Found at i:1810584 original size:18 final size:18
Alignment explanation
Indices: 1810561--1810595 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1810551 ATGGTCAACG
1810561 GGTCAACGGGTCGGGTCT
1 GGTCAACGGGTCGGGTCT
1810579 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
1810596 GGGTTGTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCT
Found at i:1813092 original size:22 final size:21
Alignment explanation
Indices: 1813064--1813115 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
1813054 CTAGTATGGG
1813064 GTATCGATACCAT-AGTAAGGTA
1 GTATCGATACCATGA-TAAGG-A
1813086 GTATCGATACCATGATAAGGA
1 GTATCGATACCATGATAAGGA
1813107 -TATCGATAC
1 GTATCGATAC
1813116 TAGGCAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.31
21 1 0.03
22 18 0.62
23 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (21 bp):
GTATCGATACCATGATAAGGA
Found at i:1813156 original size:95 final size:96
Alignment explanation
Indices: 1812970--1813175 Score: 253
Period size: 95 Copynumber: 2.2 Consensus size: 96
1812960 GATTCAATCA
* * * *
1812970 GTATCGATACC-TA-TGAGGTATTATCGATACCATGATAAGGGGTATCGATACCCAGCAAAATTG
1 GTATCGATACCATAGTAAGGTAGTATCGATACCATGATAAGGGATATCGATACCCAGCAAAATCG
*
1813033 AATCCAATTTTGGTATCGATACTAGTATGGG
66 AATCCAATTTTGGTATCGACACTAGTATGGG
* *
1813064 GTATCGATACCATAGTAAGGTAGTATCGATACCATGATAA-GGATATCGATA-CTAGGCAACATC
1 GTATCGATACCATAGTAAGGTAGTATCGATACCATGATAAGGGATATCGATACCCA-GCAAAATC
*
1813127 GAA-CCTATTTTTGGTATCGACA-TAGGTATGGG
65 GAATCC-AATTTTGGTATCGACACTA-GTATGGG
* *
1813159 GAATCGGTACCATAGTA
1 GTATCGATACCATAGTA
1813176 TAGAAGTATT
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
94 17 0.18
95 57 0.59
96 23 0.24
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (96 bp):
GTATCGATACCATAGTAAGGTAGTATCGATACCATGATAAGGGATATCGATACCCAGCAAAATCG
AATCCAATTTTGGTATCGACACTAGTATGGG
Found at i:1813608 original size:57 final size:57
Alignment explanation
Indices: 1813542--1813920 Score: 480
Period size: 57 Copynumber: 6.6 Consensus size: 57
1813532 CTAGGTATGA
* * *
1813542 AAAATGTTAAGAAATCATACTAAGTATATGAATTTCAGATAGGGCGTTTTGTATGCT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
*
1813599 AAAATGTTAAGAAATCATGCTAAGTGTATGAATTTCAGATAGGG-AGTTTTGTACGCT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCA-TTTTGTACGCT
1813656 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTT-TACGCT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
* * * *
1813712 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCATATAGGGTATTTCGTATGCT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
* * * *
1813769 AAAATGTTAAGAAATCACACTAAGTGTTTGAATTTCAGATAGGGC-TTTTCGCACGCA
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTT-GTACGCT
* * ** **
1813826 AAAATGTTAAGAAATTCATACTAAGTGTAT-AATTTTCTGTATTGGGCACCTTGTGTGCT
1 AAAATGTTAAGAAA-TCATACTAAGTGTATGAA-TTTCAG-ATAGGGCATTTTGTACGCT
* * *
1813885 -AAAGGATAAGGAATTCATACTAAGTGTATGAATTTC
1 AAAATGTTAA-GAAATCATACTAAGTGTATGAATTTC
1813921 CGTATTGGAA
Statistics
Matches: 282, Mismatches: 30, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
56 56 0.20
57 165 0.59
58 45 0.16
59 14 0.05
60 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (57 bp):
AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTTGTACGCT
Found at i:1813754 original size:113 final size:113
Alignment explanation
Indices: 1813542--1813860 Score: 482
Period size: 113 Copynumber: 2.8 Consensus size: 113
1813532 CTAGGTATGA
* *
1813542 AAAATGTTAAGAAATCATACTAAGTATATGAATTTCAGATAGGGCGTTTTGTATGCTAAAATGTT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGC-TTTTGTACGCTAAAATGTT
* *
1813607 AAGAAATCATGCTAAGTGTATGAATTTCAGATAGGG-AGTTTTGTACGCT
65 AAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTA-TTTCGTACGCT
1813656 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTT-TACGCTAAAATGTT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGC-TTTTGTACGCTAAAATGTT
* *
1813720 AAGAAATCATACTAAGTGTATGAATTTCATATAGGGTATTTCGTATGCT
65 AAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTATTTCGTACGCT
* * * *
1813769 AAAATGTTAAGAAATCACACTAAGTGTTTGAATTTCAGATAGGGCTTTTCGCACGCAAAAATGTT
1 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCTTTT-GTACGCTAAAATGTT
1813834 AAGAAATTCATACTAAGTGTAT-AATTT
65 AAGAAA-TCATACTAAGTGTATGAATTT
1813861 TCTGTATTGG
Statistics
Matches: 190, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
112 4 0.02
113 99 0.52
114 72 0.38
115 15 0.08
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (113 bp):
AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCTTTTGTACGCTAAAATGTTA
AGAAATCATACTAAGTGTATGAATTTCAGATAGGGTATTTCGTACGCT
Found at i:1813832 original size:170 final size:170
Alignment explanation
Indices: 1813542--1813860 Score: 507
Period size: 170 Copynumber: 1.9 Consensus size: 170
1813532 CTAGGTATGA
* *
1813542 AAAATGTTAAGAAATCATACTAAGTATATGAATTTCAGATAGGGCGTTTTGTATGCTAAAATGTT
1 AAAATGTTAAGAAATCATACTAAGTATATGAATTTCAGATAGGGCATTTCGTATGCTAAAATGTT
** * * *
1813607 AAGAAATCATGCTAAGTGTATGAATTTCAGATAGGGAGTTTTGTACGCTAAAATGTTAAGAAA-T
66 AAGAAATCACACTAAGTGTATGAATTTCAGATAGGGACTTTTGCACGCAAAAATGTTAAGAAATT
1813671 CATACTAAGTGTATGAATTTCAGATAGGGCATTTTTACGCT
131 CATACTAAGTGTAT-AATTTCAGATAGGGCATTTTTACGCT
* * *
1813712 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCATATAGGGTATTTCGTATGCTAAAATGTT
1 AAAATGTTAAGAAATCATACTAAGTATATGAATTTCAGATAGGGCATTTCGTATGCTAAAATGTT
*
1813777 AAGAAATCACACTAAGTGTTTGAATTTCAGATAGGG-CTTTTCGCACGCAAAAATGTTAAGAAAT
66 AAGAAATCACACTAAGTGTATGAATTTCAGATAGGGACTTTT-GCACGCAAAAATGTTAAGAAAT
1813841 TCATACTAAGTGTATAATTT
130 TCATACTAAGTGTATAATTT
1813861 TCTGTATTGG
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
169 4 0.03
170 117 0.86
171 15 0.11
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (170 bp):
AAAATGTTAAGAAATCATACTAAGTATATGAATTTCAGATAGGGCATTTCGTATGCTAAAATGTT
AAGAAATCACACTAAGTGTATGAATTTCAGATAGGGACTTTTGCACGCAAAAATGTTAAGAAATT
CATACTAAGTGTATAATTTCAGATAGGGCATTTTTACGCT
Found at i:1825175 original size:19 final size:21
Alignment explanation
Indices: 1825138--1825176 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
1825128 AAACAAGGTT
1825138 AAGATAAATCCTAAATTAAAG
1 AAGATAAATCCTAAATTAAAG
1825159 AAGA-AAATCCT-AATTAAA
1 AAGATAAATCCTAAATTAAA
1825177 ATACTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (21 bp):
AAGATAAATCCTAAATTAAAG
Found at i:1827072 original size:734 final size:734
Alignment explanation
Indices: 1826044--1827577 Score: 2221
Period size: 734 Copynumber: 2.1 Consensus size: 734
1826034 TAATAAAAAC
* *
1826044 TATTTTTTAAAATAAATTATCCAAATCATCAGAACATGACATGTGTCACTTAATGGCCAAATTTA
1 TATTTTTTAAAATAAATTCT-CAAATCACCAGAACATGACATGTGTCACTTAATGGCCAAATTTA
* * * * * * *
1826109 ATGGTCGTTACAGTCTAGACACCTAAAAATGCTTCGATGAAATCATTTGGCACCTATTTTTAGCA
65 ACGGTCGTTACAGTCCAAACACCTAAAAATGATTCGATGAAAACATTTGGCACCTATGTTTAACA
** * * *
1826174 AAAAATATTTAGGCACTAAAACACTTTTTGAGGCATAGTTTAGGTATTTATTTTTTTATTAAACC
130 AAAAATATTTAGGCACTAAAACACTTTTTGACACATAATTTAGGCATTTATTTTTGTATTAAACC
*
1826239 TTCTAATTACCAATTTGATACCAATTTTTTATTTTAAATTACCACCGCTCAAATTCTAAAAGAGA
195 TTCTAATTACCAATTTGATACCAATTTTTTATTTTAAATTACCACCACTCAAATTCTAAAAGAGA
1826304 TACTTTAAAAGATGACAAAGAGAAACTCCAAAAGAGATGTTTTAAAAGATGAACAAAGAGAAGTT
260 TACTTTAAAAGATGACAAAGAGAAACTCCAAAAGAGATGTTTTAAAAGATGAACAAAGAGAAGTT
* *
1826369 TCCTAGCGTCAAAGATCGAAAATTGAAACATAATTAAAATTTATTTACGAAGTGTTGGATGATGG
325 TACTAGC-ACAAAGATCGAAAATTGAAACATAATTAAAATTTATTTACGAAGTGTTGGATGATGG
* * *
1826434 TTGCTACCA-TAAAAATAAATTAGAAGTTGTAAA-AAAGTCAAATTCATATTTAAAACACAAACA
389 TTGCTA-CAGTAAAAATAAATTAGAAGCTATAAATAAAGTCAAATCCATATTTAAAACACAAACA
1826497 ATACAAAATTTGAAATCTGACAAAATTGA-GAGATACTTTGACGATGTAATAAAATTGCATTGAA
453 ATACAAAATTTGAAATCTGACAAAATTGAGGAGATACTTTGACGATGTAATAAAATTGCATTGAA
1826561 TCTGACAAAGAC-A-AC-AC-GATATAATAATCTGTATATGCTCTTCATTTTTGGTTCCTTAACA
518 TCTGACAAAGACAAGACAACAGATATAATAATCTGTATATGCTCTTCATTTTTGGTTCCTTAACA
* * * ** *
1826622 TTCCTTTATTCTAAGCTCTCGAATTTTAAGACTCGACGTTGGTGCTGATGAAGGCAGCAGTGATG
583 TTCATTTATTCCAAGCTCTCGAATTGTAAGACTCGACGTCAGTGCTGATAAAGGCAGCAGTG-TG
* * *
1826687 GTCACGACTGATCGGTC-AGTGACTATGGAAGGGGGAAGGGGGAGGAACCGTACGTACTGTTTAG
647 GTCACGACTGATCGGTCGACT-ACTATGGAA-GGGAAAAGGGGAGGAACCGTACGTACTGTTTAG
1826751 TTTTTTTAATAATAAAAAATATTTT
710 TTTTTTTAATAATAAAAAATATTTT
* * * * *
1826776 TATTTTTTTTAAATAAATTCTCAAAATCACCAAAAATATGACACGTGTCACTTAATGGTCAAATT
1 TA-TTTTTTAAAATAAATTCTC-AAATCACC-AGAACATGACATGTGTCACTTAATGGCCAAATT
* * *
1826841 TAACGGTCGTTACAGTCCAAACACCTAAAAGTGATTCGATGAAAACGTTTGGCAGCTATGTTTAA
63 TAACGGTCGTTACAGTCCAAACACCTAAAAATGATTCGATGAAAACATTTGGCACCTATGTTTAA
* * *
1826906 C-AAATATATTTTGGACACTAAAAC-GTTTTTCGACACATAATTTAGGCATTTATTTTTGTATTA
128 CAAAAAATATTTAGG-CACTAAAACACTTTTT-GACACATAATTTAGGCATTTATTTTTGTATTA
*
1826969 AACCTTCTAATTACTAATTTGATACCAATTTTTTATTTCT-AATTACCACCACTCAAATTCTAAA
191 AACCTTCTAATTACCAATTTGATACCAATTTTTTATTT-TAAATTACCACCACTCAAATTCTAAA
* *
1827033 AGAGATACTTTAAAAGATGACAAAGAGAAACTCCAAAAGAGATGTTTTAAAATATGAACAAATAG
255 AGAGATACTTTAAAAGATGACAAAGAGAAACTCCAAAAGAGATGTTTTAAAAGATGAACAAAGAG
* *
1827098 AAGTTTACTAGCACAAAGATCGAAATTTGAAACATAATTAAAATTTATTTATGAAGTGTTGGATG
320 AAGTTTACTAGCACAAAGATCGAAAATTGAAACATAATTAAAATTTATTTACGAAGTGTTGGATG
* * * *
1827163 ATGGTTGTTACAGTAAAAATAAATTAGAAGCTATAAATAAATTCAAATCCATATTTAAAATACAT
385 ATGGTTGCTACAGTAAAAATAAATTAGAAGCTATAAATAAAGTCAAATCCATATTTAAAACACAA
1827228 ACAATACAAAATTTGAAATCTGACAAAATTGAGGGAGATACTTTGACGATGTAATAAAATTGCAT
450 ACAATACAAAATTTGAAATCTGACAAAATTGA-GGAGATACTTTGACGATGTAATAAAATTGCAT
*
1827293 TGAATCTGACAAAGACAATAAATAAAAAGACAACAAGATATAATAATTTGTATATGCTCTTCATT
514 TGAATCTGACAAAGAC----------AAGACAAC-AGATATAATAATCTGTATATGCTCTTCATT
* * *
1827358 TTTGGTTCCTTCACATTCATTTCTTCCAAGGTCTCGAATTGTAAGACTCGACGTCAGTGCTGATA
568 TTTGGTTCCTTAACATTCATTTATTCCAAGCTCTCGAATTGTAAGACTCGACGTCAGTGCTGATA
* * * *
1827423 AAGGCGGCAGTGTTGTCACGACTGATCGGTCGACTACTATGGAAGGGAAAAGGGGAGGTATCGTA
633 AAGGCAGCAGTGTGGTCACGACTGATCGGTCGACTACTATGGAAGGGAAAAGGGGAGGAACCGTA
**
1827488 CGTGTTGTTTAGTTTTTTTAATAATAAAAAATATTTT
698 CGTACTGTTTAGTTTTTTTAATAATAAAAAATATTTT
*
1827525 TA-TTTTTAAAATAAATTCT-AAATCACCAGAACGTGACATGTGTCACTTAATGG
1 TATTTTTTAAAATAAATTCTCAAATCACCAGAACATGACATGTGTCACTTAATGG
1827578 ACAAGAGTTT
Statistics
Matches: 712, Mismatches: 64, Indels: 40
0.87 0.08 0.05
Matches are distributed among these distances:
732 5 0.01
733 120 0.17
734 310 0.44
735 1 0.00
736 47 0.07
744 22 0.03
745 8 0.01
747 17 0.02
748 2 0.00
749 56 0.08
750 27 0.04
751 97 0.14
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (734 bp):
TATTTTTTAAAATAAATTCTCAAATCACCAGAACATGACATGTGTCACTTAATGGCCAAATTTAA
CGGTCGTTACAGTCCAAACACCTAAAAATGATTCGATGAAAACATTTGGCACCTATGTTTAACAA
AAAATATTTAGGCACTAAAACACTTTTTGACACATAATTTAGGCATTTATTTTTGTATTAAACCT
TCTAATTACCAATTTGATACCAATTTTTTATTTTAAATTACCACCACTCAAATTCTAAAAGAGAT
ACTTTAAAAGATGACAAAGAGAAACTCCAAAAGAGATGTTTTAAAAGATGAACAAAGAGAAGTTT
ACTAGCACAAAGATCGAAAATTGAAACATAATTAAAATTTATTTACGAAGTGTTGGATGATGGTT
GCTACAGTAAAAATAAATTAGAAGCTATAAATAAAGTCAAATCCATATTTAAAACACAAACAATA
CAAAATTTGAAATCTGACAAAATTGAGGAGATACTTTGACGATGTAATAAAATTGCATTGAATCT
GACAAAGACAAGACAACAGATATAATAATCTGTATATGCTCTTCATTTTTGGTTCCTTAACATTC
ATTTATTCCAAGCTCTCGAATTGTAAGACTCGACGTCAGTGCTGATAAAGGCAGCAGTGTGGTCA
CGACTGATCGGTCGACTACTATGGAAGGGAAAAGGGGAGGAACCGTACGTACTGTTTAGTTTTTT
TAATAATAAAAAATATTTT
Found at i:1829322 original size:77 final size:80
Alignment explanation
Indices: 1829182--1829341 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 80
1829172 TTTAAAAAAT
* *
1829182 GAGTAAAATATCAATATGTTAAAAAAATAGACTTAATTAAGAAGTAAATATTTATATCACTTATT
1 GAGTAAAATATCAACACGTTAAAAAAATAGACTTAATT-A-AAGTAAATATTTATATCACTTATT
1829247 TAC-TTAGCTGCCTAAA
64 TACTTTAGCTGCCTAAA
*
1829263 GAGTAAAATATCAACACGTT-AAAAAATAGATTTAATT-AAGTAAATATTTATATCACTTATTTA
1 GAGTAAAATATCAACACGTTAAAAAAATAGACTTAATTAAAGTAAATATTTATATCACTTATTTA
1829326 CTTTAGCTGCCTAAA
66 CTTTAGCTGCCTAAA
1829341 G
1 G
1829342 TTTTTTCTTG
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
77 27 0.36
78 14 0.19
80 16 0.21
81 18 0.24
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (80 bp):
GAGTAAAATATCAACACGTTAAAAAAATAGACTTAATTAAAGTAAATATTTATATCACTTATTTA
CTTTAGCTGCCTAAA
Found at i:1837515 original size:38 final size:38
Alignment explanation
Indices: 1837471--1837628 Score: 144
Period size: 38 Copynumber: 4.2 Consensus size: 38
1837461 ATAAGTTTGT
*
1837471 AATAATATA-TTCTTATTTTAATTTAATATAAATTCATA
1 AATAATATATTTC-TATTTTAATTGAATATAAATTCATA
* * *
1837509 AATAATATATTTGTA-TTTAA-TCAAGTATAAATTTATA
1 AATAATATATTTCTATTTTAATTGAA-TATAAATTCATA
* ** *
1837546 AATAATATATTTCTATTTCAACCGAATATAAATTCGTA
1 AATAATATATTTCTATTTTAATTGAATATAAATTCATA
* * * * *
1837584 AATAACATA-TTCAAATTTTAATTGAATATAAGTCCTTA
1 AATAATATATTTC-TATTTTAATTGAATATAAATTCATA
1837622 AATAATA
1 AATAATA
1837629 GAACATTATC
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
36 3 0.03
37 33 0.34
38 57 0.59
39 4 0.04
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.43
Consensus pattern (38 bp):
AATAATATATTTCTATTTTAATTGAATATAAATTCATA
Found at i:1840741 original size:12 final size:12
Alignment explanation
Indices: 1840699--1840741 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
1840689 CTAGGGCATG
* *
1840699 AAGTTTTACATC
1 AAGTTTTTCATT
1840711 AAGTTTTTCATT
1 AAGTTTTTCATT
*
1840723 AAG-TTTTCTTT
1 AAGTTTTTCATT
1840734 AAGTTTTT
1 AAGTTTTT
1840742 TGTTCTTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (12 bp):
AAGTTTTTCATT
Found at i:1855026 original size:30 final size:30
Alignment explanation
Indices: 1854990--1855047 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
1854980 TTTCATAAGA
*
1854990 GTACTTTGTGTACTTGGAGTAGTACTTTGT
1 GTACTTTGTGTACTTGAAGTAGTACTTTGT
*
1855020 GTACTTTTTGTACTTGAAGTAGTACTTT
1 GTACTTTGTGTACTTGAAGTAGTACTTT
1855048 CTGTTCTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.10, G:0.22, T:0.48
Consensus pattern (30 bp):
GTACTTTGTGTACTTGAAGTAGTACTTTGT
Found at i:1855044 original size:21 final size:21
Alignment explanation
Indices: 1855020--1855142 Score: 106
Period size: 21 Copynumber: 5.7 Consensus size: 21
1855010 AGTACTTTGT
*
1855020 GTACTTTTTGTACTTGAAGTA
1 GTACTTTGTGTACTTGAAGTA
* *
1855041 GTACTTTCTGTTCTATGGTAAG-A
1 GTACTTTGTGTACT-T-G-AAGTA
* * *
1855064 GTACATTCTGTACTTGGAGTA
1 GTACTTTGTGTACTTGAAGTA
*
1855085 GTAGTTTGTGTACTATGGCAAG-A
1 GTACTTTGTGTACT-T-G-AAGTA
*
1855108 GTACTTTGTGTACTTGGAGTA
1 GTACTTTGTGTACTTGAAGTA
1855129 GTACTTTGTGTACT
1 GTACTTTGTGTACT
1855143 ATGGCACTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.05
21 41 0.49
22 4 0.05
23 29 0.35
24 5 0.06
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.42
Consensus pattern (21 bp):
GTACTTTGTGTACTTGAAGTA
Found at i:1855077 original size:44 final size:44
Alignment explanation
Indices: 1855028--1855148 Score: 179
Period size: 44 Copynumber: 2.8 Consensus size: 44
1855018 GTGTACTTTT
* * * *
1855028 TGTACTTGAAGTAGTACTTTCTGTTCTATGGTAAGAGTACATTC
1 TGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGAGTACATTC
* * *
1855072 TGTACTTGGAGTAGTAGTTTGTGTACTATGGCAAGAGTACTTTG
1 TGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGAGTACATTC
1855116 TGTACTTGGAGTAGTACTTTGTGTACTATGGCA
1 TGTACTTGGAGTAGTACTTTGTGTACTATGGCA
1855149 CTTTATGTGC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.40
Consensus pattern (44 bp):
TGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGAGTACATTC
Found at i:1861698 original size:44 final size:44
Alignment explanation
Indices: 1861500--1861725 Score: 372
Period size: 42 Copynumber: 5.2 Consensus size: 44
1861490 TTGCATTTTC
*
1861500 GTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGTAAGA
1 GTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGA
1861544 GTAC-TT-TGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGA
1 GTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGA
*
1861586 GTACTTTGTGTTCTT-G-GTAGTACTTTGTGTACTATGGCAAGA
1 GTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGA
*
1861628 TTACTTT-TGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGA
1 GTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGA
* *
1861671 GTACTTTGTGTACTTAGAGTAGTACTTTGTGTACTATGGTAAGA
1 GTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGA
1861715 GTACTTTGTGT
1 GTACTTTGTGT
1861726 GCAAGGATGG
Statistics
Matches: 170, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
41 6 0.04
42 72 0.42
43 37 0.22
44 55 0.32
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.42
Consensus pattern (44 bp):
GTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGCAAGA
Found at i:1864952 original size:44 final size:44
Alignment explanation
Indices: 1864881--1864987 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
1864871 GTGCAATATT
* *
1864881 TTACCATTTAATACCATAAGCTTGTAAGCTTATTTTACCAATATAC
1 TTACCATTT-AT-CCATAAGCTCGTAAGCTTATTTTACCAATACAC
1864927 TTACCATTTATCCATAAGCTCGTAAGCTTATTTTACCAATACAC
1 TTACCATTTATCCATAAGCTCGTAAGCTTATTTTACCAATACAC
*
1864971 TTGCCA-TTATTCCATAA
1 TTACCATTTA-TCCATAA
1864988 CCATATACCA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 3 0.05
44 43 0.75
45 2 0.04
46 9 0.16
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (44 bp):
TTACCATTTATCCATAAGCTCGTAAGCTTATTTTACCAATACAC
Found at i:1873235 original size:21 final size:21
Alignment explanation
Indices: 1873209--1873251 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1873199 AAATACTTAG
1873209 CTCTTAATAATTCATTTTAAC
1 CTCTTAATAATTCATTTTAAC
1873230 CTCTTAATAATTCATTTTAAC
1 CTCTTAATAATTCATTTTAAC
1873251 C
1 C
1873252 CAACTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (21 bp):
CTCTTAATAATTCATTTTAAC
Found at i:1883871 original size:37 final size:37
Alignment explanation
Indices: 1883795--1883871 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1883785 TTTTTATATT
*
1883795 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
1883832 TTTAATTTTTTTAAAAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
1883869 TTT
1 TTT
1883872 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:1894731 original size:37 final size:36
Alignment explanation
Indices: 1894657--1894731 Score: 87
Period size: 37 Copynumber: 2.1 Consensus size: 36
1894647 CAAATTGTAA
**
1894657 AATATTTATATATTTTTAAAAAAAAATTAAATTTAT
1 AATATTTATATATTTTTAAAAAAAAATTAAAAATAT
*** *
1894693 AATATTTATATAATTTTTTTTATAAAATTAAAAATAT
1 AATATTTATAT-ATTTTTAAAAAAAAATTAAAAATAT
1894730 AA
1 AA
1894732 AAAAGGTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 11 0.34
37 21 0.66
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
AATATTTATATATTTTTAAAAAAAAATTAAAAATAT
Found at i:1897499 original size:13 final size:12
Alignment explanation
Indices: 1897468--1897495 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1897458 CCCCTTCCCA
1897468 TTTTATTTTATT
1 TTTTATTTTATT
1897480 TTTTATTTTATT
1 TTTTATTTTATT
1897492 TTTT
1 TTTT
1897496 TATTGTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:1908238 original size:24 final size:24
Alignment explanation
Indices: 1908206--1908261 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
1908196 TACATTCTTC
1908206 TTTTCTCTCTAGTTTTTATAAAAG
1 TTTTCTCTCTAGTTTTTATAAAAG
1908230 TTTTCTCTCTAGTTTTTATAAAAG
1 TTTTCTCTCTAGTTTTTATAAAAG
1908254 TTTTCTCT
1 TTTTCTCT
1908262 TTTTCCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (24 bp):
TTTTCTCTCTAGTTTTTATAAAAG
Found at i:1908924 original size:18 final size:19
Alignment explanation
Indices: 1908893--1908936 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
1908883 TATTCTCTTA
* *
1908893 TTTTTTTTACTTTAATTGC
1 TTTTATTTACTTTAATCGC
*
1908912 TTTTATTTA-TTTAATCGT
1 TTTTATTTACTTTAATCGC
1908930 TTTTATT
1 TTTTATT
1908937 ACTACTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTATTTACTTTAATCGC
Found at i:1913860 original size:5 final size:5
Alignment explanation
Indices: 1913850--1913904 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
1913840 AACGGTCAAC
* * *
1913850 GGTCG GGTCG GGTCAG CGATCG GGTCA GGTCG GGTC- GGTCG AGTCG GGTCG
1 GGTCG GGTCG GGTC-G -GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
1913901 GGTC
1 GGTC
1913905 AGACCGGTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
4 4 0.10
5 32 0.78
6 2 0.05
7 3 0.07
ACGTcount: A:0.07, C:0.22, G:0.51, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:1913901 original size:19 final size:22
Alignment explanation
Indices: 1913851--1913906 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 22
1913841 ACGGTCAACG
*
1913851 GTCGGGTCGGGTCAGCGATCGG
1 GTCGGGTCGGGTCAGCGATCGA
*
1913873 GTCAGGTCGGGTC-G-G-TCGA
1 GTCGGGTCGGGTCAGCGATCGA
1913892 GTCGGGTCGGGTCAG
1 GTCGGGTCGGGTCAG
1913907 ACCGGTTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 1 0.03
22 12 0.40
ACGTcount: A:0.09, C:0.21, G:0.50, T:0.20
Consensus pattern (22 bp):
GTCGGGTCGGGTCAGCGATCGA
Found at i:1913923 original size:19 final size:20
Alignment explanation
Indices: 1913901--1913951 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1913891 AGTCGGGTCG
*
1913901 GGTCAGACCGGTTC-AGACC
1 GGTCAGACCGGTTCAAAACC
*
1913920 GGTCAAACCGG-TCAAAACC
1 GGTCAGACCGGTTCAAAACC
1913939 GGTCAGACCGGTT
1 GGTCAGACCGGTT
1913952 TTCTAGCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 24 0.89
20 1 0.04
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.16
Consensus pattern (20 bp):
GGTCAGACCGGTTCAAAACC
Found at i:1913931 original size:9 final size:9
Alignment explanation
Indices: 1913901--1913950 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
1913891 AGTCGGGTCG
1913901 GGTCAGACC
1 GGTCAGACC
1913910 GGTTCAGACC
1 GG-TCAGACC
*
1913920 GGTCAAACC
1 GGTCAGACC
*
1913929 GGTCAAAACC
1 GGTC-AGACC
1913939 GGTCAGACC
1 GGTCAGACC
1913948 GGT
1 GGT
1913951 TTTCTAGCCC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
9 19 0.51
10 18 0.49
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.14
Consensus pattern (9 bp):
GGTCAGACC
Found at i:1922019 original size:213 final size:212
Alignment explanation
Indices: 1921654--1922078 Score: 762
Period size: 213 Copynumber: 2.0 Consensus size: 212
1921644 TTCTGTTTTG
*
1921654 AAACAGAAAGCCACCCCACGTATATATCATCAAAAACTAAACTTACCTAATTTTATTGGGTAAAT
1 AAACAGAAAACCACCCCACGTATATATCATCAAAAACTAAACTTACCTAATTTTATTGGGTAAAT
* * *
1921719 TTAGGGCTTAGTCCCTAAATTTCCTTTAACTCTAAAACAAGCTCCAAATTTTAAAATTTTTCAAT
66 TCAGGGCTTAGTCCCTAAATTTCCTCTAACTCTAAAACAAGCTCCAAATTTTAAAATCTTTCAAT
*
1921784 TTAGTCCCTAATTTTCACCAATTTTCACAATTAACCTCCAATTTCAATTAAATATTATTTTGTAA
131 TTAGTCCCCAATTTTCACCAATTTTCACAATTAACCTCCAATTTCAATTAAATATTATTTTGTAA
1921849 ATATTC-GGTTGTTACA
196 ATATTCGGGTTGTTACA
1921865 AAACAGAAAACCACCCCACGTATATATATCATCAAAAACTAAACTTACCTAATTTTATTGGGTAA
1 AAACAGAAAACCACCCCACG--TATATATCATCAAAAACTAAACTTACCTAATTTTATTGGGTAA
*
1921930 ATTCAGGGCTTAGTCGCTAAATTTCCTCTAACTCTAAAACAAGCTCCAAATTTTAAAATCTTTCA
64 ATTCAGGGCTTAGTCCCTAAATTTCCTCTAACTCTAAAACAAGCTCCAAATTTTAAAATCTTTCA
*
1921995 ATTTAGTCCCCAATTTTCACCAATTTTCACAATTAACCTCCAATTTCAATTAAATATTATTTTTT
129 ATTTAGTCCCCAATTTTCACCAATTTTCACAATTAACCTCCAATTTCAATTAAATATTATTTTGT
1922060 AAATATTCGGGTTGTTACA
194 AAATATTCGGGTTGTTACA
1922079 GTGATGCAAG
Statistics
Matches: 204, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
211 19 0.09
213 175 0.86
214 10 0.05
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (212 bp):
AAACAGAAAACCACCCCACGTATATATCATCAAAAACTAAACTTACCTAATTTTATTGGGTAAAT
TCAGGGCTTAGTCCCTAAATTTCCTCTAACTCTAAAACAAGCTCCAAATTTTAAAATCTTTCAAT
TTAGTCCCCAATTTTCACCAATTTTCACAATTAACCTCCAATTTCAATTAAATATTATTTTGTAA
ATATTCGGGTTGTTACA
Found at i:1925488 original size:22 final size:24
Alignment explanation
Indices: 1925454--1925497 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1925444 TCAAATACCT
1925454 AAAAATGACTTTTAAA-ACAAATA
1 AAAAATGACTTTTAAAGACAAATA
*
1925477 AAAAATTA-TTTTAAAGACAAA
1 AAAAATGACTTTTAAAGACAAA
1925498 ACTTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (24 bp):
AAAAATGACTTTTAAAGACAAATA
Found at i:1925935 original size:5 final size:5
Alignment explanation
Indices: 1925925--1925970 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
1925915 AAAACATTTT
** *
1925925 TAAAA TAAAA TAAAA TATCA TAAAAA TAAAA CAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA
1925971 ATATTGCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 31 0.91
6 3 0.09
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:1925950 original size:21 final size:21
Alignment explanation
Indices: 1925926--1925973 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
1925916 AAACATTTTT
* **
1925926 AAAATAAAATAAAATATCATA
1 AAAATAAAACAAAATAAAATA
1925947 AAAATAAAACAAAATAAAATA
1 AAAATAAAACAAAATAAAATA
1925968 AAAATA
1 AAAATA
1925974 TTGCTATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAATAAAACAAAATAAAATA
Found at i:1927939 original size:3 final size:3
Alignment explanation
Indices: 1927931--1928023 Score: 87
Period size: 3 Copynumber: 29.3 Consensus size: 3
1927921 TATTTTGTTT
* * *
1927931 ATA ATA ATA ATA GTA ATA ACA ATA ATTA ATA ATA ATA ATT ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA A-TA
* * *
1927978 GTA ATAA ATA ATA ATT GTAA ATA ATA ATA ATA ATTA ATA ATA ATA A
1 ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA ATA ATA A
1928024 GAATGCAAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
3 61 0.84
4 12 0.16
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1928015 original size:13 final size:13
Alignment explanation
Indices: 1927932--1928023 Score: 89
Period size: 13 Copynumber: 6.9 Consensus size: 13
1927922 ATTTTGTTTA
*
1927932 TAATAATAAT-AG
1 TAATAATAATAAT
*
1927944 TAATAACAATAAT
1 TAATAATAATAAT
1927957 TAATAATAATAAT
1 TAATAATAATAAT
*
1927970 T-ATAATTAGTAAT
1 TAATAA-TAATAAT
* *
1927983 AAATAATAATTGTAAA
1 TAATAATAA---TAAT
1927999 TAATAATAATAAT
1 TAATAATAATAAT
1928012 TAATAATAATAA
1 TAATAATAATAA
1928024 GAATGCAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
12 13 0.20
13 37 0.57
14 4 0.06
16 11 0.17
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:1929549 original size:12 final size:12
Alignment explanation
Indices: 1929531--1929560 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
1929521 TCTCTCTTTC
1929531 ATTTTTTTT-TT
1 ATTTTTTTTCTT
1929542 ATTTTTTTTCTT
1 ATTTTTTTTCTT
1929554 ATTTTTT
1 ATTTTTT
1929561 CAGGTGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (12 bp):
ATTTTTTTTCTT
Found at i:1945121 original size:2 final size:2
Alignment explanation
Indices: 1945114--1945163 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1945104 TTATTTTATT
1945114 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1945156 -A TA TA TA T
1 TA TA TA TA T
1945164 TAACAATAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1945171 original size:13 final size:15
Alignment explanation
Indices: 1945114--1945171 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 15
1945104 TTATTTTATT
*
1945114 TATATATATATA-TA
1 TATATATATATACAA
*
1945128 TATATATATATA-TA
1 TATATATATATACAA
*
1945142 TATATATATATATAA
1 TATATATATATACAA
1945157 TATATAT-TA-ACAA
1 TATATATATATACAA
1945170 TA
1 TA
1945172 AACAAGGGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
13 5 0.12
14 28 0.68
15 8 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATATATATACAA
Found at i:1945405 original size:3 final size:3
Alignment explanation
Indices: 1945385--1945483 Score: 72
Period size: 3 Copynumber: 30.7 Consensus size: 3
1945375 TATTTTGTTT
* * * * *
1945385 ATA ATA GTA ATA ATTA ATA ATA AAA ATA ATTA GTA ATA GTA ATTA ACA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA A-TA ATA
* *
1945433 ATA ATA ATTA ATTA GTA ATA GTA ATTA ATA ATA ATA ATTA ATA ATA ATA
1 ATA ATA A-TA A-TA ATA ATA ATA A-TA ATA ATA ATA A-TA ATA ATA ATA
1945482 AT
1 AT
1945484 GAAAAACTTA
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
3 56 0.74
4 20 0.26
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:1945429 original size:13 final size:13
Alignment explanation
Indices: 1945386--1945483 Score: 88
Period size: 13 Copynumber: 7.0 Consensus size: 13
1945376 ATTTTGTTTA
*
1945386 TAATAGTAATAAT
1 TAATAATAATAAT
1945399 TAATAATAAAAATAAT
1 TAATAAT---AATAAT
* *
1945415 TAGTAATAGTAAT
1 TAATAATAATAAT
1945428 TAACAATAATAATTAAT
1 T---AATAATAA-TAAT
* *
1945445 TAGTAATAGTAAT
1 TAATAATAATAAT
1945458 TAATAATAATAAT
1 TAATAATAATAAT
1945471 TAATAATAATAAT
1 TAATAATAATAAT
1945484 GAAAAACTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
13 40 0.58
14 6 0.09
16 18 0.26
17 5 0.07
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:1945447 original size:30 final size:30
Alignment explanation
Indices: 1945395--1945474 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
1945385 ATAATAGTAA
*
1945395 TAATTAATAATAA-AAATAATTAGTAATAG
1 TAATTAATAATAATAATTAATTAGTAATAG
*
1945424 TAATTAACAATAATAATTAATTAGTAATAG
1 TAATTAATAATAATAATTAATTAGTAATAG
1945454 TAATTAATAATAATAATTAAT
1 TAATTAATAATAATAATTAAT
1945475 AATAATAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 12 0.26
30 35 0.74
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (30 bp):
TAATTAATAATAATAATTAATTAGTAATAG
Found at i:1949624 original size:32 final size:32
Alignment explanation
Indices: 1949580--1949655 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
1949570 AACCCGACTT
1949580 CCCTTTACTAGTGATCCCTGGAAATGTAACCC
1 CCCTTTACTAGTGATCCCTGGAAATGTAACCC
*
1949612 CCGTTTACTAGTGATCCCTGGAAATGTAACCC
1 CCCTTTACTAGTGATCCCTGGAAATGTAACCC
*
1949644 CCCTTTATTAGT
1 CCCTTTACTAGT
1949656 AAGTTAAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (32 bp):
CCCTTTACTAGTGATCCCTGGAAATGTAACCC
Found at i:1950521 original size:19 final size:20
Alignment explanation
Indices: 1950484--1950523 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1950474 ACTTATTTGC
1950484 ATATAATTTACAATATTTTT
1 ATATAATTTACAATATTTTT
* *
1950504 ATATATTTTA-AATTTTTTT
1 ATATAATTTACAATATTTTT
1950523 A
1 A
1950524 ATGGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
ATATAATTTACAATATTTTT
Found at i:1950566 original size:74 final size:75
Alignment explanation
Indices: 1950483--1950642 Score: 209
Period size: 75 Copynumber: 2.1 Consensus size: 75
1950473 CACTTATTTG
* *
1950483 CATATAATTTACAATA-TTTTTATATATTTTAAATTTTT-TTAATGGAAGAAATAATTCTTAGTT
1 CATATAATTTACAATATTTTTTATATATTTTAAATTTTTGTTAATGAAAGAAATAATTCTTA-AT
*
1950546 TTTATTTATTA
65 TATATTTATTA
* * * * *
1950557 CATATAATTTATAATATTTTTTATTTATTTTAAATTTTTGTTAATGAAATAAATGATTTTTAATT
1 CATATAATTTACAATATTTTTTATATATTTTAAATTTTTGTTAATGAAAGAAATAATTCTTAATT
1950622 ATATTTATTA
66 ATATTTATTA
1950632 -ATTATAATTTA
1 CA-TATAATTTA
1950643 ATAGTTAAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
74 16 0.21
75 41 0.55
76 18 0.24
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (75 bp):
CATATAATTTACAATATTTTTTATATATTTTAAATTTTTGTTAATGAAAGAAATAATTCTTAATT
ATATTTATTA
Found at i:1950936 original size:153 final size:154
Alignment explanation
Indices: 1950663--1950943 Score: 358
Period size: 155 Copynumber: 1.8 Consensus size: 154
1950653 ATAATATTAG
*
1950663 AAATTATTTTTTTCATTAACAAAAAATAAACATATATTAAATATATTTTAAAATTATGATTAAAA
1 AAATTATTTTCTTCATTAACAAAAAATAAACATATATTAAATATATTTTAAAATTATGATTAAAA
* * *** *
1950728 AAATTAAGAACTATTTCTTTCATTAACAAAAATTAAAAATATGTAATTTTTTTGTAAATTATAGT
66 AAATTAAGAACTATTTCTTTCATCAACAAAAATTAAAAATATATAAAAATATTGTAAATTATAGT
1950793 AAATAAATAAATAAATAAAAATAA
131 AAATAAATAAATAAATAAAAATAA
* * * *
1950817 AAATTATTTTCTTCTATTAACAATATATATATATATA-TAAACTAT-TTTT-AAATTAT-AGTTA
1 AAATTATTTTCTTC-ATTAACAAAAAATAAACATATATTAAA-TATATTTTAAAATTATGA-TT-
* *
1950878 ATAAAAAATTAAGGATTATTTCTTTCATCAA-AAAAATT-AAAATATATAAAAATATTGTAAATT
62 A-AAAAAATTAAGAACTATTTCTTTCATCAACAAAAATTAAAAATATATAAAAATATTGTAAATT
1950941 ATA
126 ATA
1950944 TTCAAATATG
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
152 1 0.01
153 32 0.29
154 29 0.27
155 47 0.43
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (154 bp):
AAATTATTTTCTTCATTAACAAAAAATAAACATATATTAAATATATTTTAAAATTATGATTAAAA
AAATTAAGAACTATTTCTTTCATCAACAAAAATTAAAAATATATAAAAATATTGTAAATTATAGT
AAATAAATAAATAAATAAAAATAA
Found at i:1952754 original size:21 final size:22
Alignment explanation
Indices: 1952714--1952754 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1952704 GAAAAATAAA
* *
1952714 TAAAGACATGAAATAAAGAACT
1 TAAAGACATAAAAGAAAGAACT
1952736 TAAAGACA-AAAAGAAAGAA
1 TAAAGACATAAAAGAAAGAA
1952755 AGTAAGGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.66, C:0.07, G:0.15, T:0.12
Consensus pattern (22 bp):
TAAAGACATAAAAGAAAGAACT
Found at i:1954465 original size:14 final size:15
Alignment explanation
Indices: 1954446--1954475 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1954436 AACACCAAAA
1954446 ACCCATATAG-TTAT
1 ACCCATATAGATTAT
1954460 ACCCATATAGATTAT
1 ACCCATATAGATTAT
1954475 A
1 A
1954476 GATGTCACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
ACCCATATAGATTAT
Found at i:1956676 original size:10 final size:9
Alignment explanation
Indices: 1956625--1956709 Score: 62
Period size: 10 Copynumber: 8.7 Consensus size: 9
1956615 GTCGGGTCTG
1956625 ACCGGTCAA
1 ACCGGTCAA
*
1956634 ACCGGTTCAG
1 ACCGG-TCAA
1956644 ACCGGTCGAA
1 ACCGGTC-AA
* *
1956654 ACCAGTTCGA
1 ACC-GGTCAA
1956664 ACCGGTCGAA
1 ACCGGTC-AA
1956674 ACCGGTCAGA
1 ACCGGTCA-A
* *
1956684 ACCGATTGGAA
1 ACCG-GT-CAA
1956695 ACCGGTCAA
1 ACCGGTCAA
1956704 ACCGGT
1 ACCGGT
1956710 TTCCAGCCCT
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
9 19 0.32
10 30 0.51
11 9 0.15
12 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.14
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:1956678 original size:30 final size:30
Alignment explanation
Indices: 1956632--1956709 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
1956622 CTGACCGGTC
*
1956632 AAACCGGTTCAGACCGGTC-GAAACC-AGTTCG
1 AAACCGG-TCAAACCGGTCAG-AACCGA-TTCG
*
1956663 -AACCGGTCGAAACCGGTCAGAACCGATTGG
1 AAACCGGTC-AAACCGGTCAGAACCGATTCG
1956693 AAACCGGTCAAACCGGT
1 AAACCGGTCAAACCGGT
1956710 TTCCAGCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 2 0.05
30 29 0.71
31 10 0.24
ACGTcount: A:0.31, C:0.28, G:0.27, T:0.14
Consensus pattern (30 bp):
AAACCGGTCAAACCGGTCAGAACCGATTCG
Found at i:1956685 original size:20 final size:20
Alignment explanation
Indices: 1956625--1956709 Score: 88
Period size: 20 Copynumber: 4.3 Consensus size: 20
1956615 GTCGGGTCTG
1956625 ACCGGTC-AAACCGGTTCAG-
1 ACCGGTCGAAACCGG-TCAGA
*
1956644 ACCGGTCGAAACCAGTTC-GA
1 ACCGGTCGAAACC-GGTCAGA
1956664 ACCGGTCGAAACCGGTCAGA
1 ACCGGTCGAAACCGGTCAGA
* *
1956684 ACCGATTGGAAACCGGTCA-A
1 ACCG-GTCGAAACCGGTCAGA
1956704 ACCGGT
1 ACCGGT
1956710 TTCCAGCCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
19 12 0.21
20 31 0.55
21 13 0.23
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.14
Consensus pattern (20 bp):
ACCGGTCGAAACCGGTCAGA
Found at i:1963894 original size:19 final size:19
Alignment explanation
Indices: 1963853--1963895 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
1963843 AACAGTCAAC
* * *
1963853 GGTCGGGTCGGGTCAGTCT
1 GGTCGAGTCGGGTCAATCG
*
1963872 GGTCGAGTCGGGTTAATCG
1 GGTCGAGTCGGGTCAATCG
1963891 GGTCG
1 GGTCG
1963896 GGTCTGACCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.09, C:0.19, G:0.47, T:0.26
Consensus pattern (19 bp):
GGTCGAGTCGGGTCAATCG
Found at i:1963936 original size:28 final size:28
Alignment explanation
Indices: 1963902--1963983 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
1963892 GTCGGGTCTG
*
1963902 ACCGGTCAAACCGGTTCAGACCGGTCA-A
1 ACCGGTCAAACCGG-TCAAACCGGTCAGA
*
1963930 ACCGGTCAAACTGGTCAAACCGGTCAGA
1 ACCGGTCAAACCGGTCAAACCGGTCAGA
* *
1963958 ACCGGTTGAAAACCGATCAAACCGGT
1 ACCGG-T-CAAACCGGTCAAACCGGT
1963984 TTCCAACCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 11 0.24
28 19 0.41
29 1 0.02
30 15 0.33
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (28 bp):
ACCGGTCAAACCGGTCAAACCGGTCAGA
Found at i:1963947 original size:18 final size:18
Alignment explanation
Indices: 1963902--1963983 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 18
1963892 GTCGGGTCTG
*
1963902 ACCGGTCAAACCGGTTCAG
1 ACCGGTCAAACCGG-TCAA
1963921 ACCGGTCAAACCGGTCAA
1 ACCGGTCAAACCGGTCAA
*
1963939 ACTGGTCAAACCGGTCAGA
1 ACCGGTCAAACCGGTCA-A
* *
1963958 ACCGGTTGAAAACCGATCAA
1 ACCGG-T-CAAACCGGTCAA
1963978 ACCGGT
1 ACCGGT
1963984 TTCCAACCCT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
18 19 0.35
19 20 0.36
20 7 0.13
21 9 0.16
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (18 bp):
ACCGGTCAAACCGGTCAA
Found at i:1963981 original size:9 final size:9
Alignment explanation
Indices: 1963902--1963983 Score: 92
Period size: 9 Copynumber: 8.7 Consensus size: 9
1963892 GTCGGGTCTG
1963902 ACCGGTCAA
1 ACCGGTCAA
*
1963911 ACCGGTTCAG
1 ACCGG-TCAA
1963921 ACCGGTCAA
1 ACCGGTCAA
1963930 ACCGGTCAA
1 ACCGGTCAA
*
1963939 ACTGGTCAA
1 ACCGGTCAA
1963948 ACCGGTCAGA
1 ACCGGTCA-A
*
1963958 ACCGGTTGAAA
1 ACCGG-T-CAA
*
1963969 ACCGATCAA
1 ACCGGTCAA
1963978 ACCGGT
1 ACCGGT
1963984 TTCCAACCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
9 39 0.64
10 15 0.25
11 6 0.10
12 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:1963982 original size:20 final size:21
Alignment explanation
Indices: 1963946--1963984 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1963936 CAAACTGGTC
*
1963946 AAACCGGTCAGAACCGGTTGA
1 AAACCGATCAGAACCGGTTGA
1963967 AAACCGATCA-AACCGGTT
1 AAACCGATCAGAACCGGTT
1963985 TCCAACCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (21 bp):
AAACCGATCAGAACCGGTTGA
Found at i:1964875 original size:40 final size:40
Alignment explanation
Indices: 1964709--1964859 Score: 248
Period size: 40 Copynumber: 3.8 Consensus size: 40
1964699 ATTCGGGTTG
* *
1964709 TTACACATAAGGTCGTGCCCACCATATACATCGAAGTGCA
1 TTACACATAAGGTCATGCCCACCATATACACCGAAGTGCA
* *
1964749 TTACACATACGGTCATGCACACCATATACACCGAAGTGCA
1 TTACACATAAGGTCATGCCCACCATATACACCGAAGTGCA
* *
1964789 TTATACATAAGGTCATGTCCACCATATACACCGAAGTGCA
1 TTACACATAAGGTCATGCCCACCATATACACCGAAGTGCA
1964829 TTACACATAAGGTCATGCCCACCATATACAC
1 TTACACATAAGGTCATGCCCACCATATACAC
1964860 TTAGTGTCCT
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (40 bp):
TTACACATAAGGTCATGCCCACCATATACACCGAAGTGCA
Found at i:1965787 original size:30 final size:30
Alignment explanation
Indices: 1965730--1965790 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
1965720 CAACCATTCA
* *
1965730 TAACTTTTCCAAAATTACTAAATTGGTCCCC
1 TAACTTTTCAAAAATTAC-AAAATGGTCCCC
1965761 TAACTTTTCAAAAATTA-AATAATGGTCCCC
1 TAACTTTTCAAAAATTACAA-AATGGTCCCC
1965791 AAAATTTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 9 0.33
31 16 0.59
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (30 bp):
TAACTTTTCAAAAATTACAAAATGGTCCCC
Found at i:1970815 original size:18 final size:20
Alignment explanation
Indices: 1970775--1970813 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1970765 TTATCTCAAG
1970775 TAAAACTATCATATGATATT
1 TAAAACTATCATATGATATT
1970795 TAAAAC-AT-ATATGTATATT
1 TAAAACTATCATATG-ATATT
1970814 AATTACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAAACTATCATATGATATT
Found at i:1972824 original size:10 final size:10
Alignment explanation
Indices: 1972809--1972833 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1972799 CAAATATAAC
1972809 CTAAATGCAA
1 CTAAATGCAA
1972819 CTAAATGCAA
1 CTAAATGCAA
1972829 CTAAA
1 CTAAA
1972834 ATGTTGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:1973724 original size:13 final size:14
Alignment explanation
Indices: 1973706--1973734 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1973696 ATGTCATGAT
1973706 AACCAAA-ATTTTC
1 AACCAAATATTTTC
1973719 AACCAAATATTTTC
1 AACCAAATATTTTC
1973733 AA
1 AA
1973735 TTGCTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (14 bp):
AACCAAATATTTTC
Found at i:1978642 original size:13 final size:13
Alignment explanation
Indices: 1978626--1978665 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1978616 AGGAAACTAG
1978626 AAAGTGAAAGTAA
1 AAAGTGAAAGTAA
* *
1978639 AAAGAGAAAGTGA
1 AAAGTGAAAGTAA
1978652 AAAGTGAAAAGTAA
1 AAAGTG-AAAGTAA
1978666 GTGGGGTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (13 bp):
AAAGTGAAAGTAA
Found at i:1990319 original size:21 final size:20
Alignment explanation
Indices: 1990285--1990323 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1990275 CATCAAGGTC
1990285 TTTGTTGAACCCATGAAATCT
1 TTTGTTGAACCCAT-AAATCT
**
1990306 TTTGTTGAGGCCATAAAT
1 TTTGTTGAACCCATAAAT
1990324 TCTTGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTGTTGAACCCATAAATCT
Found at i:1993292 original size:10 final size:10
Alignment explanation
Indices: 1993277--1993301 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1993267 CAAATATAAC
1993277 CTAAATGCAA
1 CTAAATGCAA
1993287 CTAAATGCAA
1 CTAAATGCAA
1993297 CTAAA
1 CTAAA
1993302 ATGTTGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:1993627 original size:21 final size:21
Alignment explanation
Indices: 1993601--1993651 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1993591 TCTGCAGCTG
*
1993601 CTATACTCTATGGCATGCCAA
1 CTATACCCTATGGCATGCCAA
1993622 CTATACCCTATGGCATGCCAA
1 CTATACCCTATGGCATGCCAA
1993643 CTATACCCT
1 CTATACCCT
1993652 GTCCTTCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (21 bp):
CTATACCCTATGGCATGCCAA
Found at i:2004457 original size:15 final size:15
Alignment explanation
Indices: 2004433--2004462 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2004423 TATCACAATC
2004433 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
*
2004448 GCGCATGATTCCGGG
1 GCGCAGGATTCCGGG
2004463 AGCACCGTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.27, G:0.43, T:0.17
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Done.