Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_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: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 18
Found at i:1599800 original size:77 final size:77
Alignment explanation
Indices: 1599669--1599813 Score: 195
Period size: 77 Copynumber: 1.9 Consensus size: 77
1599659 AATCTTTTAA
* * *
1599669 TGATGTCCTTATTGACTTTCTCACAAAGAGGATCCAACCTTTTAGTGATTTCATTCTTGACTTTC
1 TGATGTCCTTATTGACTTTCTCACAAAGAAGATCCAACCTTTTAGTGATGTCATTATTGACTTTC
1599734 TTGAGAAGAGAG
66 TTGAGAAGAGAG
* * * *
1599746 TGATGTCTTTCTTGACTTTCTCGCGAAAAGAAG-T-CAACTTTTTAGTGATGTCATTATTGACTT
1 TGATGTCCTTATTGACTTTCTCAC--AAAGAAGATCCAACCTTTTAGTGATGTCATTATTGACTT
1599809 TCTTG
64 TCTTG
1599814 TAGAGATGAG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 52 0.88
78 1 0.02
79 6 0.10
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (77 bp):
TGATGTCCTTATTGACTTTCTCACAAAGAAGATCCAACCTTTTAGTGATGTCATTATTGACTTTC
TTGAGAAGAGAG
Found at i:1599853 original size:167 final size:167
Alignment explanation
Indices: 1599577--1599910 Score: 404
Period size: 167 Copynumber: 2.0 Consensus size: 167
1599567 TCAATATTTT
* * * * *
1599577 AGTGATGTATTTCTTGAATTTCTCGCGAAGAGGATTCAACCTTTTAGTGATGTCATTCTTGATTT
1 AGTGATGTATTTCTTGAATTTCTCGCGAAAAGAAGTCAACCTTTTAGTGATGTCATTATTGACTT
* * *
1599642 TCTCGCGAAGAAGCGTCAATCTTTTAATGATGTCCTTATTGACTTTCTCACAAAGAGGA-TCCAA
66 TCTCGAGAAGAAGAGTCAATCTTTTAATGATGTCCATATTGACTTTCTCACAAAGAGGAGT-CAA
* *
1599706 CCTTTTAGTGAT-TTCATTCTTGACTTTCTTGAGAAGAG
130 CCTTTTAGTGATGTT-ATTCTTAACTTTCTCGAGAAGAG
* * *
1599744 AGTGATGTCTTTCTTGACTTTCTCGCGAAAAGAAGTCAACTTTTTAGTGATGTCATTATTGACTT
1 AGTGATGTATTTCTTGAATTTCTCGCGAAAAGAAGTCAACCTTTTAGTGATGTCATTATTGACTT
* * * ** * * * * *
1599809 TCTTGTAG-AGATGAGTCAATCTTTTAGTTTTTTCCATCTTGACTTTCTCGCGAAGATGAGTCAA
66 TCTCG-AGAAGAAGAGTCAATCTTTTAATGATGTCCATATTGACTTTCTCACAAAGAGGAGTCAA
*
1599873 CCTTTTAGTGATGTTATTCTTAACTTTCTCGCGAAGAG
130 CCTTTTAGTGATGTTATTCTTAACTTTCTCGAGAAGAG
1599911 GAGTCAATAT
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
167 136 0.97
168 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (167 bp):
AGTGATGTATTTCTTGAATTTCTCGCGAAAAGAAGTCAACCTTTTAGTGATGTCATTATTGACTT
TCTCGAGAAGAAGAGTCAATCTTTTAATGATGTCCATATTGACTTTCTCACAAAGAGGAGTCAAC
CTTTTAGTGATGTTATTCTTAACTTTCTCGAGAAGAG
Found at i:1599864 original size:122 final size:123
Alignment explanation
Indices: 1599622--1599869 Score: 290
Period size: 122 Copynumber: 2.0 Consensus size: 123
1599612 TCAACCTTTT
* * *
1599622 AGTGATGTCATTCTTGATTTTCTCGCGAAGAAGCGTCAATCTTTTAATGATGTCCTTATTGACTT
1 AGTGATGTCATTCTTGACTTTCTCGCGAAGAAGAGTCAATCTTTTAATGATGTCATTATTGACTT
*
1599687 TCTCACAAAGAGGATCCAACCTTTTAGTGATTTCATTCTTGACTTTCTTGAGAAGA-G
66 TCTCACAAAGAGGATCCAACCTTTTAGTGATTTCATTCTTGACTTTCTCGAGAAGATG
* *
1599744 AGTGATGTCTTTCTTGACTTTCTCGCGAA-AAGAAGTCAA-CTTTTTAGTGATGTCATTATTGAC
1 AGTGATGTCATTCTTGACTTTCTCGCGAAGAAG-AGTCAATC-TTTTAATGATGTCATTATTGAC
*** * * * ** *
1599807 TTTCTTGTAGAGATGAGT-CAATCTTTTAGTTTTTTCCA-TCTTGACTTTCTCGCGAAGATG
64 TTTCTCACAAAGAGGA-TCCAACCTTTTAGTGATTT-CATTCTTGACTTTCTCGAGAAGATG
1599867 AGT
1 AGT
1599870 CAACCTTTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
121 4 0.04
122 95 0.90
123 7 0.07
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (123 bp):
AGTGATGTCATTCTTGACTTTCTCGCGAAGAAGAGTCAATCTTTTAATGATGTCATTATTGACTT
TCTCACAAAGAGGATCCAACCTTTTAGTGATTTCATTCTTGACTTTCTCGAGAAGATG
Found at i:1599943 original size:257 final size:257
Alignment explanation
Indices: 1599487--1599957 Score: 638
Period size: 257 Copynumber: 1.8 Consensus size: 257
1599477 TTAATATTTT
* * * *
1599487 AGTGATGTCTTTCTCGACTTTCTTGCGAAGAGGAGTCAATATTTTAGTAATGCCATTCTTGACAT
1 AGTGATGTCTTTCTCGACTTTCTCGCGAAAAGAAGTCAATATTTTAGTAATGCCATTATTGACAT
* ** *
1599552 TCTCGCAAAGAGGATTCAATATTTTAGTGATGTATTTCTTGAATTTCTCGCGAAGAGGATTCAAC
66 TCTCGCAAAGAGGAGTCAATATTTTAGTGATGTACATCTTGAATTTCTCGCGAAGAGGAGTCAAC
* * * *
1599617 CTTTTAGTGATGTCATTCTTGATTTTCTCGCGAAGAAGCGTCAATCTTTTAATGATGTCCTTATT
131 CTTTTAGTGATGTCATTCTTAACTTTCTCGCGAAGAAGAGTCAATATTTTAATGATGTCCTTATT
1599682 GACTTTCTCACAAAGAGGATCCAACCTTTTAGTGATTTCATTCTTGACTTTCTTGAGAAGAG
196 GACTTTCTCACAAAGAGGATCCAACCTTTTAGTGATTTCATTCTTGACTTTCTTGAGAAGAG
* * * *
1599744 AGTGATGTCTTTCTTGACTTTCTCGCGAAAAGAAGTCAACT-TTTTAGTGATGTCATTATTGACT
1 AGTGATGTCTTTCTCGACTTTCTCGCGAAAAGAAGTCAA-TATTTTAGTAATGCCATTATTGACA
* * * * * ** * * * *
1599808 TTCTTGTAGAGATGAGTCAATCTTTTAGTTTTTTCCATCTTGACTTTCTCGCGAAGATGAGTCAA
65 TTCTCGCAAAGAGGAGTCAATATTTTAGTGATGTACATCTTGAATTTCTCGCGAAGAGGAGTCAA
* * * *
1599873 CCTTTTAGTGATGTTATTCTTAACTTTCTCGCGAAGAGGAGTCAATATTTTAGTGATGTCCTTCT
130 CCTTTTAGTGATGTCATTCTTAACTTTCTCGCGAAGAAGAGTCAATATTTTAATGATGTCCTTAT
*
1599938 TGACTTTCTCGCAAAGAGGA
195 TGACTTTCTCACAAAGAGGA
1599958 GTCATAATTT
Statistics
Matches: 181, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
257 180 0.99
258 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (257 bp):
AGTGATGTCTTTCTCGACTTTCTCGCGAAAAGAAGTCAATATTTTAGTAATGCCATTATTGACAT
TCTCGCAAAGAGGAGTCAATATTTTAGTGATGTACATCTTGAATTTCTCGCGAAGAGGAGTCAAC
CTTTTAGTGATGTCATTCTTAACTTTCTCGCGAAGAAGAGTCAATATTTTAATGATGTCCTTATT
GACTTTCTCACAAAGAGGATCCAACCTTTTAGTGATTTCATTCTTGACTTTCTTGAGAAGAG
Found at i:1600512 original size:16 final size:15
Alignment explanation
Indices: 1600490--1600537 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
1600480 TTATATGAGA
1600490 ATTATTATTACTATT
1 ATTATTATTACTATT
*
1600505 AGTTATTATT-TTATT
1 A-TTATTATTACTATT
*
1600520 A-TATTATTACTAAT
1 ATTATTATTACTATT
1600534 ATTA
1 ATTA
1600538 ATTACATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 7 0.26
14 4 0.15
15 8 0.30
16 8 0.30
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTATTATTACTATT
Found at i:1604645 original size:12 final size:12
Alignment explanation
Indices: 1604619--1604661 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
1604609 AGAAAAAATG
1604619 TAATA-AATATA
1 TAATATAATATA
*
1604630 TAATATAATTTA
1 TAATATAATATA
1604642 TAATATAA-ATA
1 TAATATAATATA
1604653 TATATATAA
1 TA-ATATAA
1604662 GGACGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATATAATATA
Found at i:1604896 original size:20 final size:20
Alignment explanation
Indices: 1604873--1604914 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1604863 GAATCCTTCG
1604873 TCGTGAAATTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
*
1604893 TCGTGAAGTTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
1604913 TC
1 TC
1604915 AGAGTTCTGG
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:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGTGAAATTGAAATCGAAC
Found at i:1605169 original size:105 final size:105
Alignment explanation
Indices: 1604972--1605605 Score: 1133
Period size: 105 Copynumber: 6.0 Consensus size: 105
1604962 CGTTGTGAAG
* * * *
1604972 CTGAAATTGGGTAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTG
1 CTGAAATTGAG-AAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
1605037 CCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
1605078 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1605143 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* * *
1605183 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCTTGAAGTTGAACTTGTGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1605248 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
1605288 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1605353 ATGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
1605393 CTGAAATTGAGAAATGTTTGTTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1605458 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
1605498 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTAT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1605563 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
1605603 CTG
1 CTG
1605606 GGTAAAACCT
Statistics
Matches: 511, Mismatches: 17, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
105 502 0.98
106 9 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:1606407 original size:1 final size:1
Alignment explanation
Indices: 1606401--1606440 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
1606391 ACCCCAAACG
* **
1606401 TTTTTTTTTTTTTTTTTTTTTCTTTTTTCATTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1606441 CAACTTAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.03, C:0.05, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:1606426 original size:19 final size:19
Alignment explanation
Indices: 1606401--1606441 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1606391 ACCCCAAACG
1606401 TTTTT-TTTTTT--TTTTT
1 TTTTTCTTTTTTCATTTTT
1606417 TTTTTCTTTTTTCATTTTT
1 TTTTTCTTTTTTCATTTTT
1606436 TTTTTC
1 TTTTTC
1606442 AACTTAGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 6 0.27
19 11 0.50
ACGTcount: A:0.02, C:0.07, G:0.00, T:0.90
Consensus pattern (19 bp):
TTTTTCTTTTTTCATTTTT
Found at i:1615897 original size:20 final size:20
Alignment explanation
Indices: 1615859--1615902 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1615849 ATGGTTAGTA
*
1615859 AAATAAAAATAAATGGAAAT
1 AAATAAAAATAAATAGAAAT
1615879 AAATAAAAATAACA-AGAAAT
1 AAATAAAAATAA-ATAGAAAT
1615899 AAAT
1 AAAT
1615903 GGCAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAATAGAAAT
Found at i:1617379 original size:2 final size:2
Alignment explanation
Indices: 1617372--1617407 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1617362 AGGTAAATGA
*
1617372 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1617408 GTAAATGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1618737 original size:12 final size:12
Alignment explanation
Indices: 1618711--1618753 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
1618701 AGAAAAAATG
1618711 TAATA-AATATA
1 TAATATAATATA
*
1618722 TAATATAATTTA
1 TAATATAATATA
1618734 TAATATAA-ATA
1 TAATATAATATA
1618745 TATATATAA
1 TA-ATATAA
1618754 GGACGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATATAATATA
Found at i:1624027 original size:21 final size:21
Alignment explanation
Indices: 1624002--1624047 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1623992 TCTTCTTCAT
* * *
1624002 TTTTTATTCCTTTGTTATTGA
1 TTTTTACTCCTTTCTTATAGA
1624023 TTTTTACTCCTTTCTTATAGA
1 TTTTTACTCCTTTCTTATAGA
1624044 TTTT
1 TTTT
1624048 CTCTATTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.13, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTTTACTCCTTTCTTATAGA
Found at i:1632946 original size:61 final size:64
Alignment explanation
Indices: 1632834--1632978 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 64
1632824 GCAGGTTTAT
* *
1632834 ATTAGCACTAGTGTGTAAGGACACTAAGTGCAGGTGGAGGGCACAAGCTTATGTGTCATATCCGA
1 ATTAGCACTAGAGTGTAA-GACACTAAGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGA
* * * *
1632899 ATTAGCACTAGAGTGTAA-AC-CT-AGTGTAGGTGGTGGGCACGACCTTATGTGTCATATCCGG
1 ATTAGCACTAGAGTGTAAGACACTAAGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGA
* *
1632960 ATTATCACTAGAGCGTAAG
1 ATTAGCACTAGAGTGTAAG
1632979 CTTAGTGCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
61 50 0.70
62 2 0.03
63 2 0.03
65 17 0.24
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (64 bp):
ATTAGCACTAGAGTGTAAGACACTAAGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGA
Found at i:1639053 original size:2 final size:2
Alignment explanation
Indices: 1639046--1639106 Score: 95
Period size: 2 Copynumber: 30.0 Consensus size: 2
1639036 CACTGGTTAT
1639046 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
* *
1639088 TT TA TCA TA AA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA
1639107 ATGTTTATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 52 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1639419 original size:61 final size:61
Alignment explanation
Indices: 1639296--1639421 Score: 162
Period size: 61 Copynumber: 2.1 Consensus size: 61
1639286 AAGGACACTA
* * * * *
1639296 AGTGTAGGTGGAGGGCACAAGCTTATTTTTCGTATCCGGATTAGCACTAGAGTATAAACTT
1 AGTGTAGGTGGAGGGCACAACCTTATGTGTCATATCCGGATTAGCACTAGAGCATAAACTT
* * * * *
1639357 AGTGTGGGTGGTGGGCACGACCTTATGTGTCATATCCGGATTAGCACTAGAGCGTAAGCTT
1 AGTGTAGGTGGAGGGCACAACCTTATGTGTCATATCCGGATTAGCACTAGAGCATAAACTT
1639418 AGTG
1 AGTG
1639422 CAAGTTTAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (61 bp):
AGTGTAGGTGGAGGGCACAACCTTATGTGTCATATCCGGATTAGCACTAGAGCATAAACTT
Found at i:1639772 original size:11 final size:10
Alignment explanation
Indices: 1639744--1639771 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
1639734 TTTCACGCGT
1639744 AGGAAAAATG
1 AGGAAAAATG
1639754 AGGAAAAATG
1 AGGAAAAATG
1639764 AGGAAAAA
1 AGGAAAAA
1639772 AGAGTAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (10 bp):
AGGAAAAATG
Found at i:1644194 original size:13 final size:13
Alignment explanation
Indices: 1644127--1644188 Score: 97
Period size: 13 Copynumber: 4.8 Consensus size: 13
1644117 TGCGTCATAA
*
1644127 ATTTATGACGCGC
1 ATTTATGACGCAC
*
1644140 ATTTATGACACAC
1 ATTTATGACGCAC
1644153 ATTTATGACGCAC
1 ATTTATGACGCAC
*
1644166 ATTTATGACGCGC
1 ATTTATGACGCAC
1644179 ATTTATGACG
1 ATTTATGACG
1644189 TTCATTGAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (13 bp):
ATTTATGACGCAC
Found at i:1644265 original size:85 final size:85
Alignment explanation
Indices: 1644166--1644329 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 85
1644156 TATGACGCAC
* * * * * *
1644166 ATTTATGACGCGCATTTATGACGTT-CATTGAGCGTCATTGAAGCCCCCGTCA-TAAATTAAGAT
1 ATTTATGACACGCATGTATGAC-TTACATTGAGCGTCATTGAAGCACACGCCATTAAA-AAAGAT
*
1644229 GACACACATTTGTGTGCCATAA
64 GACACACATTCGTGTGCCATAA
* * *
1644251 ATTTATGACACGCATGTATGACTTACATTGTGTGTCATTGAAGCACACGCCATTAAAAAATATGA
1 ATTTATGACACGCATGTATGACTTACATTGAGCGTCATTGAAGCACACGCCATTAAAAAAGATGA
1644316 CACACATTCGTGTG
66 CACACATTCGTGTG
1644330 TCGTGATTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 2 0.03
85 61 0.91
86 4 0.06
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACTTACATTGAGCGTCATTGAAGCACACGCCATTAAAAAAGATGA
CACACATTCGTGTGCCATAA
Found at i:1644440 original size:2 final size:2
Alignment explanation
Indices: 1644429--1644499 Score: 105
Period size: 2 Copynumber: 37.5 Consensus size: 2
1644419 ATAATACTAA
*
1644429 AT AT AT -T AT AT AT AT AT AT AT AT AG AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1644469 AT AT AT AT AT AT -T AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1644500 AGCAATCCAT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
1 4 0.06
2 59 0.94
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1644465 original size:23 final size:23
Alignment explanation
Indices: 1644435--1644499 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
1644425 CTAAATATAT
1644435 TATATATATATATATATAGATAA
1 TATATATATATATATATAGATAA
* *
1644458 TATATATATATATATATATATAT
1 TATATATATATATATATAGATAA
1644481 TATATATATATATTATATA
1 TATATATATATA-TATATA
1644500 AGCAATCCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 33 0.85
24 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TATATATATATATATATAGATAA
Found at i:1655847 original size:30 final size:30
Alignment explanation
Indices: 1655813--1655891 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
1655803 TATTAATATG
* *
1655813 TGAATGTGTTCTATGTGAAAATGTTTTGCA
1 TGAATGTGTTCTATGTGAAAATGCTTTACA
* *
1655843 TGAATGTGTTCTATATGAAGATGCTTTACA
1 TGAATGTGTTCTATGTGAAAATGCTTTACA
* *
1655873 TGAATGTGTTATACGTGAA
1 TGAATGTGTTCTATGTGAA
1655892 TAAAGGATAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (30 bp):
TGAATGTGTTCTATGTGAAAATGCTTTACA
Found at i:1656037 original size:25 final size:24
Alignment explanation
Indices: 1655995--1656075 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 24
1655985 GAGTTGAGGG
* *
1655995 TTCTACACG-GTCCTCGGGACAAA
1 TTCTACGCGAGTCTTCGGGACAAA
1656018 TATCTACGC-AGTCTTTCGGGACAAA
1 T-TCTACGCGAGTC-TTCGGGACAAA
* *
1656043 TTCTACGCGATTCTTCTGGACAAA
1 TTCTACGCGAGTCTTCGGGACAAA
*
1656067 -TCTATGCGA
1 TTCTACGCGA
1656076 CATTTCGGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
23 9 0.18
24 26 0.53
25 14 0.29
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (24 bp):
TTCTACGCGAGTCTTCGGGACAAA
Found at i:1656047 original size:24 final size:25
Alignment explanation
Indices: 1656008--1656067 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
1655998 TACACGGTCC
1656008 TCGGGACAAATATCTACGC-AGTCTT
1 TCGGGACAAATATCTACGCGAGTC-T
*
1656033 TCGGGACAAAT-TCTACGCGATTCT
1 TCGGGACAAATATCTACGCGAGTCT
*
1656057 TCTGGACAAAT
1 TCGGGACAAAT
1656068 CTATGCGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (25 bp):
TCGGGACAAATATCTACGCGAGTCT
Found at i:1657781 original size:16 final size:16
Alignment explanation
Indices: 1657760--1657795 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1657750 TGTCAGCATT
*
1657760 GTGGCAAAAAATCATA
1 GTGGCAAAAAATAATA
1657776 GTGGCAAAAAATAATA
1 GTGGCAAAAAATAATA
1657792 GTGG
1 GTGG
1657796 TGTATGTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.08, G:0.25, T:0.19
Consensus pattern (16 bp):
GTGGCAAAAAATAATA
Found at i:1673504 original size:17 final size:18
Alignment explanation
Indices: 1673479--1673518 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1673469 AAGAATAAAG
* *
1673479 GATGAATGTGGACACTT-
1 GATGTATGTAGACACTTA
1673496 GATGTATGTAGACACTTA
1 GATGTATGTAGACACTTA
1673514 GATGT
1 GATGT
1673519 CCAAAAGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.33
Consensus pattern (18 bp):
GATGTATGTAGACACTTA
Found at i:1680843 original size:1 final size:1
Alignment explanation
Indices: 1680837--1680864 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
1680827 AAGCAATTGC
1680837 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1680865 TCCAATAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1689525 original size:3 final size:3
Alignment explanation
Indices: 1689510--1689559 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
1689500 AACCTGTAAA
*
1689510 AAT AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1689556 AAT A
1 AAT A
1689560 TAACGTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1690007 original size:83 final size:84
Alignment explanation
Indices: 1689897--1690066 Score: 236
Period size: 83 Copynumber: 2.0 Consensus size: 84
1689887 ACTCCATAAT
* * * *
1689897 TTTGTTGACATATAACCCTTCTTGCCTTGAGCTATGCTGTAAATGATGCG-CCTC-AGAGCTGTG
1 TTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGCGCCCTCGA-AGCTGAG
*
1689960 TGTAATCGAACTCGAGGGTC
65 TGTAATCGAACTCGAAGGTC
* * *
1689980 TTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT
1 TTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGCGCCCTCGAAGCTGAGT
*
1690045 GTAGTCGAACTCGAAGGTC
66 GTAATCGAACTCGAAGGTC
1690064 TTT
1 TTT
1690067 TTGTTTCAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
83 44 0.58
84 31 0.41
85 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (84 bp):
TTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGCGCCCTCGAAGCTGAGT
GTAATCGAACTCGAAGGTC
Found at i:1690104 original size:29 final size:28
Alignment explanation
Indices: 1690064--1690129 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 28
1690054 CTCGAAGGTC
*
1690064 TTTTTGTTTCAAGAGAAACATTTTCAAAGG
1 TTTTT-TTTCAAGAGAAACAATTTCAAA-G
1690094 TTTTTTTTCAAGAGAAACAATTTCAAAG
1 TTTTTTTTCAAGAGAAACAATTTCAAAG
1690122 TTTTTTTT
1 TTTTTTTT
1690130 GTGTTTCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 9 0.26
29 21 0.60
30 5 0.14
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (28 bp):
TTTTTTTTCAAGAGAAACAATTTCAAAG
Found at i:1690223 original size:36 final size:36
Alignment explanation
Indices: 1690131--1690731 Score: 556
Period size: 36 Copynumber: 17.1 Consensus size: 36
1690121 GTTTTTTTTG
1690131 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
1690168 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
1690204 TGTTTCAAAAGAAATTGTCTCAATAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
1690241 AGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
1690277 TGTTTCAAG-GAAAACATAT-TC-----A-A-ATATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
*
1690306 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1690342 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
1690378 TGTTTCAAGAGAAACTATCTCAATAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * * *
1690415 AGTTCCAAAAGAAAACTGTCTCAAGGGAAACGAAATT
1 TGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAAATT
* * *
1690452 TATTTCAAG-GAACACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAGAA-AC-TGTCTCAAGAGAGACAAAATT
*
1690481 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * **
1690517 TGTTTCAAGGGAAACTATCTCAAGGGAGATGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
1690553 TGTTTCAAGCA-AAACATAT-TC-----A-A-ATATTT
1 TGTTTCAAG-AGAAAC-TGTCTCAAGAGAGACAAAATT
1690582 TGTTTCAAG-GTAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAAATT
* *
1690618 TGTTTCAAGAGAAACTGTCTCAAAAGTGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1690654 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1690690 TATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
1690727 TGTTT
1 TGTTT
1690732 TGAGTAAATT
Statistics
Matches: 463, Mismatches: 62, Indels: 78
0.77 0.10 0.13
Matches are distributed among these distances:
28 6 0.01
29 51 0.11
30 7 0.02
31 3 0.01
32 2 0.00
33 1 0.00
34 2 0.00
35 6 0.01
36 273 0.59
37 94 0.20
38 18 0.04
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:1690387 original size:21 final size:21
Alignment explanation
Indices: 1690325--1690389 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
1690315 GGAAACTGTC
1690325 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* *
1690346 TCAAG-G-G---AAA-CTGTC
1 TCAAGAGAGACAAAATTTGTT
1690361 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
1690382 TCAAGAGA
1 TCAAGAGA
1690390 AACTATCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 1 0.03
19 1 0.03
20 4 0.12
21 16 0.47
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:1690441 original size:175 final size:174
Alignment explanation
Indices: 1690131--1690731 Score: 769
Period size: 175 Copynumber: 3.4 Consensus size: 174
1690121 GTTTTTTTTG
*
1690131 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAG
* * *
1690196 ACAAAATTTGTTTCAAAAGAAATTGTCTCAATAGAGACAAAACTTAGTTCCAAAAGAAACTGTCT
65 ACAAAATTTGTTTCAAGAGAAACTATCTCAATAGAGACAAAACTTAGTTCCAAAAGAAACTGTCT
1690261 CAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAATATTT
130 CAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAATATTT
1690306 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1690371 CAAAATTTGTTTCAAGAGAAACTATCTCAATAGAGACAAAACTTAGTTCCAAAAGAAAACTGTCT
66 CAAAATTTGTTTCAAGAGAAACTATCTCAATAGAGACAAAACTTAGTTCCAAAAG-AAACTGTCT
* * * *
1690436 CAAGGGAAACGAAATTTATTTCAAGGAACACATATTCAAAGATTT
130 CAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAATATTT
* *
1690481 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGGGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
** * * * * *
1690546 TGAAATTTGTTTCAAGCA-AAACATAT-TC-------A-AATATTTTGTTTC-AAGGTAAACTGT
66 CAAAATTTGTTTCAAG-AGAAAC-TATCTCAATAGAGACAAAACTTAGTTCCAAAAG-AAACTGT
* * * *
1690600 CTCAAGAGAGACAAAATTTGTTTCAA-GAGAAAC-TGTCTCAAAAGTGACAAAATT
128 CTCAAGGGAGACGAAATTTGTTTCAAGGA-AAACATAT-TC-AAA-T-----ATTT
* *
1690654 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1690719 CAAAACTTTGTTT
66 CAAAA-TTTGTTT
1690732 TGAGTAAATT
Statistics
Matches: 381, Mismatches: 32, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
165 4 0.01
166 37 0.10
167 12 0.03
168 1 0.00
173 67 0.18
174 90 0.24
175 166 0.44
176 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (174 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
CAAAATTTGTTTCAAGAGAAACTATCTCAATAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTC
AAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAATATTT
Found at i:1690560 original size:101 final size:101
Alignment explanation
Indices: 1690304--1690731 Score: 401
Period size: 101 Copynumber: 4.1 Consensus size: 101
1690294 ATTCAAATAT
* * * *
1690304 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC-TGTCTCAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACATAT-TC-A-A-
* * * *
1690368 AGACAAAATTTGTTTCAAGAGAAACTATCTCAATAGAGACAAAA
62 AG----ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * * * *
1690412 CTTAGTTCCAAAAGAAAACTGTCTCAAGGGAAACGAAATTTATTTCAAGGAACACATATTCAAAG
1 -TTTGTTTC-AAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAG
1690477 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
64 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
1690515 TTTGTTTCAAGGGAAACTATCTCAAGGGAGATGAAATTTGTTTCAAGCAAAACATATTCAAATAT
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGAT
*
1690580 TTTGTTTCAAGGTAAACTGTCTCAAGAGAGACAAAA
66 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** * * * *
1690616 TTTGTTTCAAGAGAAACTGTCTCAAAAGTGACAAAATTTGTTTCAAGGGAAAC-TGTCTCAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACATAT-TC-A-A-
* * *
1690680 AGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
62 AG----ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1690724 CTTTGTTT
1 -TTTGTTT
1690732 TGAGTAAATT
Statistics
Matches: 266, Mismatches: 42, Indels: 22
0.81 0.13 0.07
Matches are distributed among these distances:
100 2 0.01
101 129 0.48
102 7 0.03
103 35 0.13
104 1 0.00
107 2 0.01
108 35 0.13
109 14 0.05
110 39 0.15
111 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (101 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGAT
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:1690569 original size:276 final size:275
Alignment explanation
Indices: 1690202--1690713 Score: 810
Period size: 276 Copynumber: 1.9 Consensus size: 275
1690192 AGAGACAAAA
* * *
1690202 TTTGTTTCAAAAGAAATTGTCTCAATAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGG
*
1690267 AGACGAAATTTGTTTCAAGGAAAACATATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAG
66 AGACGAAATTTGTTTCAAGCAAAACATATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAG
* *
1690332 AGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATC
131 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAACTATC
*
1690397 TCAATAGAGACAAAACTTAGTTCCAAAAGAAAACTGTCTCAAGGGAAACGAAATTTATTTCAAGG
196 TCAAGAGAGACAAAACTTA-TTCCAAAAG-AAACTGTCTCAAGGGAAACGAAATTTATTTCAAGG
1690462 AACACATATTCAAAGAT
259 AACACATATTCAAAGAT
** * * **
1690479 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGGG
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGG
* *
1690543 AGATGAAATTTGTTTCAAGCAAAACATATTCAAATATTTTGTTTCAAGGTAAACTGTCTCAAGAG
66 AGACGAAATTTGTTTCAAGCAAAACATATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAG
* * *
1690608 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAAGTGACAAAATTTGTTTCAAGGGAAACTGTC
131 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAACTATC
* * *
1690673 TCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAG
196 TCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAG
1690714 AGAGACAAAA
Statistics
Matches: 214, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
274 13 0.06
275 7 0.03
276 162 0.76
277 32 0.15
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (275 bp):
TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGG
AGACGAAATTTGTTTCAAGCAAAACATATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAG
AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAACTATC
TCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGGGAAACGAAATTTATTTCAAGGAA
CACATATTCAAAGAT
Found at i:1691181 original size:37 final size:37
Alignment explanation
Indices: 1691128--1691232 Score: 149
Period size: 37 Copynumber: 2.8 Consensus size: 37
1691118 CCTTTTCGTC
*
1691128 CTACTAGGATTCAAACTCTTAAAAATAGGATAGAATTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAG-ATTT
*
1691166 -TGCTAGGATTCAAACTCCTAAAAATAGGATAGATTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGATTT
* * *
1691202 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
1691233 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
36 4 0.07
37 56 0.93
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGATTT
Found at i:1691795 original size:19 final size:20
Alignment explanation
Indices: 1691763--1691822 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
1691753 ATTTGGTTAT
1691763 TTTTTAATACTATATTTA-TTA
1 TTTTTAA-A-TATATTTACTTA
* *
1691784 TTTTTAGATATATATACTT-
1 TTTTTAAATATATTTACTTA
1691803 TTTTTAAATAT-TTTACTTA
1 TTTTTAAATATATTTACTTA
1691822 T
1 T
1691823 AAGCATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.18
19 18 0.55
20 3 0.09
21 6 0.18
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTAAATATATTTACTTA
Found at i:1691844 original size:2 final size:2
Alignment explanation
Indices: 1691837--1691891 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1691827 ATATTATTAC
1691837 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
1691879 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
1691892 GTAATTGTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1692121 original size:2 final size:2
Alignment explanation
Indices: 1692114--1692140 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1692104 TTTACTCATT
1692114 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1692141 TAATATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1692157 original size:4 final size:4
Alignment explanation
Indices: 1692144--1692173 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
1692134 TATATATTAA
1692144 TATT TCATT TATT TATT TATT TATT TATT T
1 TATT T-ATT TATT TATT TATT TATT TATT T
1692174 TTCCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:1692225 original size:23 final size:22
Alignment explanation
Indices: 1692178--1692234 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 22
1692168 TTATTTTTCC
*
1692178 TTTTATTTTATTTTTTTACTTAT
1 TTTTATTTTATTTTTTTA-TCAT
1692201 TTTTATTCTTCATTTTTTT-TCAT
1 TTTTATT-TT-ATTTTTTTATCAT
1692224 TTATTCATTTT
1 TT-TT-ATTTT
1692235 TTCCCTCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 12 0.41
24 6 0.21
25 11 0.38
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTATTTTATTTTTTTATCAT
Found at i:1696704 original size:16 final size:14
Alignment explanation
Indices: 1696663--1696704 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 14
1696653 CAAAAAGGGC
1696663 AAAAACAAAAAAGA
1 AAAAACAAAAAAGA
1696677 AAAGAAGCAAAAAAGA
1 AAA-AA-CAAAAAAGA
1696693 AGAAAACAAAAA
1 A-AAAACAAAAA
1696705 TCAAAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 8 0.32
16 12 0.48
17 2 0.08
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAACAAAAAAGA
Found at i:1696716 original size:16 final size:16
Alignment explanation
Indices: 1696697--1696730 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1696687 AAAAGAAGAA
1696697 AACAAAAATCAAAAAG
1 AACAAAAATCAAAAAG
1696713 AACAAAAATCAAAAAG
1 AACAAAAATCAAAAAG
1696729 AA
1 AA
1696731 AAAGGGACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.12, G:0.06, T:0.06
Consensus pattern (16 bp):
AACAAAAATCAAAAAG
Found at i:1697365 original size:22 final size:22
Alignment explanation
Indices: 1697337--1697391 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1697327 GCTACCCCAT
1697337 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
1697359 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
1697381 CAAACCTTTGA
1 CAAACCTTTGA
1697392 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:1698479 original size:106 final size:106
Alignment explanation
Indices: 1698348--1699623 Score: 1901
Period size: 106 Copynumber: 12.0 Consensus size: 106
1698338 ATATCGTGCC
* ** * * *
1698348 ACTCGAGACAACATAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1698413 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * *
1698454 ACTCTAGACAATACAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
1698519 AATTTCAAAGCCAATTTTAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1698560 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1698625 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1698666 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** *
1698731 AATTTCAGAGCCAATTTTTACTTCACACCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1698772 ACTCCAGACAATGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1698837 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1698878 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTTTCAACAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1698943 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1698984 ACTCGAGACAACGCAAGTTCAACTTAACGACGAAGGGACCGCCGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* **
1699049 AATTTCAGAGCCAATTTCAACTTCACAACGAAATATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1699090 ACTCCAGACAACGCAAGTTCAATTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
1699155 AATTTCGGAGCCAATTTCAACTTCACAGCGAATGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
1699196 ACTCCATATAACTCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1699261 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1699302 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1699367 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1699408 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
1699473 AATTTTGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
1699514 AC-CCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCC
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
* *
1699578 CGATTCCAGAGCCAATTTCAACTTCAC-GACGGAA-GATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAG-C-GAAGGATATTGG
1699620 ACTC
1 ACTC
1699624 GGAACAATGC
Statistics
Matches: 1062, Mismatches: 104, Indels: 7
0.91 0.09 0.01
Matches are distributed among these distances:
105 1 0.00
106 1058 1.00
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:1700407 original size:37 final size:37
Alignment explanation
Indices: 1700354--1700458 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
1700344 CATTTTCGTC
1700354 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
1700391 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
1700428 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
1700459 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:1701011 original size:22 final size:22
Alignment explanation
Indices: 1700986--1701041 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
1700976 ATTCATTTGG
*
1700986 TTATTTTTTAATACTATATTTA-
1 TTATTTTTTAATA-TATATATAC
1701008 TTA-TTTTT-ATATATATATAC
1 TTATTTTTTAATATATATATAC
*
1701028 TTTTTTTTTAATAT
1 TTATTTTTTAATAT
1701042 TTTACTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 7 0.24
20 5 0.17
21 10 0.34
22 7 0.24
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTTTTAATATATATATAC
Found at i:1701022 original size:19 final size:19
Alignment explanation
Indices: 1700953--1701023 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 19
1700943 TTATATGTAC
*
1700953 ATATATATTTTTTATTTATT
1 ATATATATTTATTATTT-TT
*
1700973 -TATATTCATTTGGTTATTTTTT
1 ATATA-T-ATTT-ATTA-TTTTT
1700995 AATACTATATTTATTATTTTT
1 -ATA-TATATTTATTATTTTT
1701016 ATATATAT
1 ATATATAT
1701024 ATACTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
19 9 0.21
20 4 0.10
21 9 0.21
22 8 0.19
23 7 0.17
24 3 0.07
25 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
ATATATATTTATTATTTTT
Found at i:1701033 original size:19 final size:19
Alignment explanation
Indices: 1700987--1701034 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1700977 TTCATTTGGT
* *
1700987 TATTTTTTAATACTATATT
1 TATTTTTTTATACTATATA
1701006 TATTATTTTTATA-TATATA
1 TATT-TTTTTATACTATATA
1701025 TACTTTTTTT
1 TA-TTTTTTT
1701035 TTAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTTTATACTATATA
Found at i:1705484 original size:4 final size:4
Alignment explanation
Indices: 1705475--1705515 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
1705465 ATAAAATAAT
*
1705475 AATA AATA AATA AAT- ATTA AATA AATCA AATA AA-A AATA AA
1 AATA AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AA
1705516 AAAAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 5 0.16
4 23 0.72
5 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:1705490 original size:15 final size:15
Alignment explanation
Indices: 1705468--1705515 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
1705458 ATGTTAGATA
1705468 AAAT-AATAATAAAT
1 AAATAAATAATAAAT
*
1705482 AAATAAATATTAAAT
1 AAATAAATAATAAAT
*
1705497 AAATCAAATAAAAAAT
1 AAAT-AAATAATAAAT
1705513 AAA
1 AAA
1705516 AAAAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 4 0.14
15 13 0.45
16 12 0.41
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:1705499 original size:30 final size:30
Alignment explanation
Indices: 1705454--1705525 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
1705444 CTTAAAAGAC
* * *
1705454 ATAAATGTTAGATAAA-ATAATAATAAATAA
1 ATAAATATTAAATAAATA-AATAAAAAATAA
1705484 ATAAATATTAAATAAATCAAATAAAAAATAA
1 ATAAATATTAAATAAAT-AAATAAAAAATAA
*
1705515 A-AAAAATTAAA
1 ATAAATATTAAA
1705526 AATTTAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 23 0.64
31 12 0.33
32 1 0.03
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (30 bp):
ATAAATATTAAATAAATAAATAAAAAATAA
Found at i:1706871 original size:3 final size:3
Alignment explanation
Indices: 1706863--1706918 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
1706853 AACCTGTAAA
* * * *
1706863 AAT AAT AAT AAA AAT AAT AAA AAT AAT AAA AAT AAT AAT -AT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1706910 AAT -AT AAT A
1 AAT AAT AAT A
1706919 TAACGTTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1706880 original size:9 final size:9
Alignment explanation
Indices: 1706866--1706900 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
1706856 CTGTAAAAAT
1706866 AATAATAAA
1 AATAATAAA
1706875 AATAATAAA
1 AATAATAAA
1706884 AATAATAAA
1 AATAATAAA
1706893 AATAATAA
1 AATAATAA
1706901 TATAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAATAAA
Found at i:1706921 original size:21 final size:23
Alignment explanation
Indices: 1706859--1706921 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 23
1706849 CATGAACCTG
1706859 TAAAAATAATAATAA-A-AATAA
1 TAAAAATAATAATAATATAATAA
*
1706880 TAAAAATAATAAAAATAATAAT-A
1 TAAAAATAATAATAAT-ATAATAA
1706903 TAAAAATAAT-ATAATATAA
1 TAAAAATAATAATAATATAA
1706922 CGTTTTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
21 18 0.49
22 4 0.11
23 12 0.32
24 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAAATAATAATAATATAATAA
Found at i:1711496 original size:17 final size:17
Alignment explanation
Indices: 1711474--1711509 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1711464 ATTGAATTTT
1711474 AAATTAATTTTATTTAA
1 AAATTAATTTTATTTAA
1711491 AAATTAATTTTATTTAA
1 AAATTAATTTTATTTAA
1711508 AA
1 AA
1711510 GATGACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTAATTTTATTTAA
Found at i:1721192 original size:21 final size:21
Alignment explanation
Indices: 1721166--1721238 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
1721156 GAATTATTTT
*
1721166 GAAGGACCACATATTTGTCCC
1 GAAGGACCACATATATGTCCC
* * * * *
1721187 GAAGGACCTCGTAGAATCTTCCT
1 GAAGGACCACATA-TAT-GTCCC
*
1721210 GAAGGACAACATATATGTCCC
1 GAAGGACCACATATATGTCCC
1721231 GAAGGACC
1 GAAGGACC
1721239 TAGTAGAACC
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
21 21 0.57
22 3 0.08
23 13 0.35
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (21 bp):
GAAGGACCACATATATGTCCC
Found at i:1726395 original size:24 final size:25
Alignment explanation
Indices: 1726355--1726401 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1726345 CTTAATATAA
*
1726355 AAAAATATATTATTAATCCTATTAT
1 AAAAATATATTATTAATCATATTAT
*
1726380 AAAATTATATTA-TAATCATATT
1 AAAAATATATTATTAATCATATT
1726402 GATTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (25 bp):
AAAAATATATTATTAATCATATTAT
Found at i:1726467 original size:18 final size:17
Alignment explanation
Indices: 1726444--1726484 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
1726434 AAGTACTAAT
1726444 AATAATTAATCATATAAA
1 AATAATTAAT-ATATAAA
*
1726462 AATAATTAATATTTAAA
1 AATAATTAATATATAAA
1726479 ATATAA
1 A-ATAA
1726485 AATATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AATAATTAATATATAAA
Found at i:1729044 original size:65 final size:64
Alignment explanation
Indices: 1728940--1729071 Score: 183
Period size: 65 Copynumber: 2.0 Consensus size: 64
1728930 CCACGTCCGT
* * *
1728940 TCTGATTTGACTATTGAAACACTTCATAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACA
1 TCTGATTAGACTATTGAAACACATCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACA
* * * * *
1729004 TCTGATTAGATCTCTTGAAATACATCACAAGAAGGTTTTATCCTAATTCCTTTTATGTCTTCACA
1 TCTGATTAGA-CTATTGAAACACATCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACA
1729069 TCT
1 TCT
1729072 AATAAGATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
64 9 0.15
65 50 0.85
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (64 bp):
TCTGATTAGACTATTGAAACACATCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACA
Found at i:1730332 original size:65 final size:64
Alignment explanation
Indices: 1730228--1730359 Score: 174
Period size: 65 Copynumber: 2.0 Consensus size: 64
1730218 CCACGCCCAT
* * * **
1730228 TCTGATTTGACTATTAAAACACTTCATAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACA
1 TCTGATTAGACTATTAAAACACATCACAAGAAGGATTTATCCTAATTCCTTTCATACCTCCACA
* * * *
1730292 TCTGATTAGATCTCTTAAAATACATCACAAGAAGGTTTTATCCTAATTCCTTTTATACCTCCACA
1 TCTGATTAGA-CTATTAAAACACATCACAAGAAGGATTTATCCTAATTCCTTTCATACCTCCACA
1730357 TCT
1 TCT
1730360 AATAAGATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
64 9 0.16
65 49 0.84
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (64 bp):
TCTGATTAGACTATTAAAACACATCACAAGAAGGATTTATCCTAATTCCTTTCATACCTCCACA
Found at i:1738447 original size:46 final size:47
Alignment explanation
Indices: 1738380--1738472 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
1738370 ACATATATAT
* * * *
1738380 CCTAACCTCATGCTTTCTAGTT-TCATGC-TTTGTTCAGGAAAAATAA
1 CCTAACCACATGATTTCTAGTTCACATGCATTTATTCA-GAAAAATAA
1738426 CCTAACCACATGATTTCTAGTTCACATGCATTTATTCAGAAAAATAA
1 CCTAACCACATGATTTCTAGTTCACATGCATTTATTCAGAAAAATAA
1738473 AGTAATAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
46 20 0.49
47 14 0.34
48 7 0.17
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (47 bp):
CCTAACCACATGATTTCTAGTTCACATGCATTTATTCAGAAAAATAA
Found at i:1739526 original size:24 final size:25
Alignment explanation
Indices: 1739480--1739526 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1739470 CTTAATATAA
*
1739480 AAAAGTATATTATTAATCCTATTAT
1 AAAAGTATATTATTAATCATATTAT
*
1739505 AAAATTATATTA-TAATCATATT
1 AAAAGTATATTATTAATCATATT
1739527 GATTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAAGTATATTATTAATCATATTAT
Found at i:1739590 original size:18 final size:17
Alignment explanation
Indices: 1739569--1739609 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
1739559 ATGCACTAAT
1739569 AATAATTAATCATATAAA
1 AATAATTAAT-ATATAAA
*
1739587 AATAATTAATATTTAAA
1 AATAATTAATATATAAA
1739604 ACATAA
1 A-ATAA
1739610 ATTATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAATTAATATATAAA
Found at i:1740917 original size:14 final size:14
Alignment explanation
Indices: 1740884--1740983 Score: 79
Period size: 12 Copynumber: 7.3 Consensus size: 14
1740874 ATATTATTTA
1740884 ATAATACTAATAT-T
1 ATAATA-TAATATAT
1740898 ATTAATATAATATAT
1 A-TAATATAATATAT
*
1740913 AT-A-ATAATGTAT
1 ATAATATAATATAT
* *
1740925 ATAATAAAAACATAT
1 ATAAT-ATAATATAT
1740940 ATAATTAATAATATAT
1 ATAA-T-ATAATATAT
1740956 ATAAT-TAA-ATAT
1 ATAATATAATATAT
1740968 AT-ATATAATA-AT
1 ATAATATAATATAT
1740980 ATAA
1 ATAA
1740984 ACGGATAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
11 2 0.03
12 23 0.32
13 7 0.10
14 8 0.11
15 18 0.25
16 13 0.18
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (14 bp):
ATAATATAATATAT
Found at i:1740926 original size:16 final size:15
Alignment explanation
Indices: 1740907--1740979 Score: 64
Period size: 16 Copynumber: 4.9 Consensus size: 15
1740897 TATTAATATA
1740907 ATATATATAATAATGT
1 ATATATATAATAAT-T
1740923 ATATA-ATAA-AA--
1 ATATATATAATAATT
* *
1740934 ACATATATAATTAATA
1 ATATATATAA-TAATT
*
1740950 ATATATATAATTAAAT
1 ATATATATAA-TAATT
1740966 ATATATATAATAAT
1 ATATATATAATAAT
1740980 ATAAACGGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
11 4 0.09
12 4 0.09
14 4 0.09
15 7 0.15
16 28 0.60
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (15 bp):
ATATATATAATAATT
Found at i:1740949 original size:31 final size:31
Alignment explanation
Indices: 1740882--1740980 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
1740872 TAATATTATT
* * *
1740882 TAATAATACTA-ATATTATTAATATA-ATATA
1 TAATAATAATATATATAATTAA-AAACATATA
*
1740912 T-ATAATAATGTATATAA-TAAAAACATATA
1 TAATAATAATATATATAATTAAAAACATATA
* *
1740941 TAATTAATAATATATATAATTAAATATATATA
1 TAA-TAATAATATATATAATTAAAAACATATA
1740973 TAATAATA
1 TAATAATA
1740981 TAAACGGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.04
29 16 0.28
30 7 0.12
31 19 0.33
32 13 0.23
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (31 bp):
TAATAATAATATATATAATTAAAAACATATA
Found at i:1748463 original size:32 final size:32
Alignment explanation
Indices: 1748391--1748469 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 32
1748381 TGTGTGATAC
* *
1748391 CAGATATTAGCATAGCAGAGCCAGTCTAACATT
1 CAGATAAT-GCATAGAAGAGCCAGTCTAACATT
* * * *
1748424 CATATAATGCATAGAAGAGTCAGTGTAGCATT
1 CAGATAATGCATAGAAGAGCCAGTCTAACATT
* *
1748456 TAGATAATGTATAG
1 CAGATAATGCATAG
1748470 TAGTTTCAGT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
32 31 0.84
33 6 0.16
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (32 bp):
CAGATAATGCATAGAAGAGCCAGTCTAACATT
Found at i:1751323 original size:25 final size:25
Alignment explanation
Indices: 1751295--1751371 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
1751285 ATATAATATA
*
1751295 ATATGATATATTTTGTATTTTTATT
1 ATATGATTTATTTTGTATTTTTATT
* **
1751320 ATATGATTTATTTTATATTATCGA-T
1 ATATGATTTATTTTGTATT-TTTATT
1751345 ATAT--TTTATTTTGTATTTTTCATT
1 ATATGATTTATTTTGTATTTTT-ATT
1751369 ATA
1 ATA
1751372 CTTCACTAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
22 1 0.02
23 13 0.31
24 4 0.10
25 22 0.52
26 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (25 bp):
ATATGATTTATTTTGTATTTTTATT
Found at i:1751349 original size:18 final size:19
Alignment explanation
Indices: 1751310--1751353 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
1751300 ATATATTTTG
* *
1751310 TATTTT-TATTATATGATT
1 TATTTTATATTATACGATA
1751328 TATTTTATATTAT-CGATA
1 TATTTTATATTATACGATA
1751346 TATTTTAT
1 TATTTTAT
1751354 TTTGTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTATATTATACGATA
Found at i:1752780 original size:52 final size:52
Alignment explanation
Indices: 1752703--1752808 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
1752693 TTACCCTTAA
* *
1752703 TAATCTCTTCAGATTATGTTCCCTTACAGGATTCCAGAGTGTTGTGTTTCAT
1 TAATCTCTTCAGATTATGTGCCCTTACAAGATTCCAGAGTGTTGTGTTTCAT
1752755 TAATCTCTTCAGATTATGTGCCCTTACAAGATTCCAGAGTGTTGTGTTTCAT
1 TAATCTCTTCAGATTATGTGCCCTTACAAGATTCCAGAGTGTTGTGTTTCAT
1752807 TA
1 TA
1752809 TCATCAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (52 bp):
TAATCTCTTCAGATTATGTGCCCTTACAAGATTCCAGAGTGTTGTGTTTCAT
Found at i:1758113 original size:18 final size:20
Alignment explanation
Indices: 1758079--1758116 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1758069 TATGCAAGGG
1758079 GTATTGATACCTAAAGGGTA
1 GTATTGATACCTAAAGGGTA
1758099 GTATTGATA-CT-AAGGGTA
1 GTATTGATACCTAAAGGGTA
1758117 CCGATACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (20 bp):
GTATTGATACCTAAAGGGTA
Found at i:1758906 original size:21 final size:21
Alignment explanation
Indices: 1758848--1758906 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
1758838 CGAGGGTTAT
* *
1758848 ATGAGGTCCTTCGGGAAAAAT
1 ATGAGGTCCTTCGGGACAAAC
* *
1758869 ACGAGGTCCTTCGGGACATAC
1 ATGAGGTCCTTCGGGACAAAC
1758890 ATGAGGTCCTTCGGGAC
1 ATGAGGTCCTTCGGGAC
1758907 TAATTTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (21 bp):
ATGAGGTCCTTCGGGACAAAC
Found at i:1765748 original size:21 final size:21
Alignment explanation
Indices: 1765722--1765761 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1765712 TTCCACGTGG
*
1765722 TCCTTTGGGACATATATGTAA
1 TCCTTTGGAACATATATGTAA
1765743 TCCTTTGGAACATATATGT
1 TCCTTTGGAACATATATGT
1765762 GGTACTTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TCCTTTGGAACATATATGTAA
Found at i:1774423 original size:16 final size:18
Alignment explanation
Indices: 1774384--1774424 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
1774374 GTGTACTTAA
*
1774384 GTTTAAGAGTATGAAAGG
1 GTTTAAGAGAATGAAAGG
*
1774402 GATTAAGA-AATG-AAGG
1 GTTTAAGAGAATGAAAGG
1774418 GTTTAAG
1 GTTTAAG
1774425 TTGATATGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (18 bp):
GTTTAAGAGAATGAAAGG
Found at i:1775635 original size:17 final size:17
Alignment explanation
Indices: 1775613--1775654 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1775603 TACTTTAGGA
*
1775613 ATGCATTATTTTATTAT
1 ATGCATCATTTTATTAT
1775630 ATGCATCATTTTATTAT
1 ATGCATCATTTTATTAT
1775647 ATGCATCA
1 ATGCATCA
1775655 CTAAGTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (17 bp):
ATGCATCATTTTATTAT
Found at i:1780768 original size:24 final size:23
Alignment explanation
Indices: 1780738--1780829 Score: 63
Period size: 24 Copynumber: 4.1 Consensus size: 23
1780728 GAGAAAAAAG
1780738 AAAAATATAATAAGTAATAAATAA
1 AAAAATATAATAA-TAATAAATAA
*
1780762 AAAAATAAAAT-A-AAT-AATAA
1 AAAAATATAATAATAATAAATAA
**
1780782 AAAGGTA-AATAATAATATAATAA
1 AAAAATATAATAATAATA-AATAA
*
1780805 TAATAATA-AAT-A-AATACAATAA
1 -AAAAATATAATAATAATA-AATAA
1780827 AAA
1 AAA
1780830 CATTTTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
19 3 0.05
20 11 0.20
21 8 0.15
22 9 0.16
23 7 0.13
24 17 0.31
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (23 bp):
AAAAATATAATAATAATAAATAA
Found at i:1780782 original size:20 final size:20
Alignment explanation
Indices: 1780757--1780817 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
1780747 ATAAGTAATA
1780757 AATAAAAAAATAAAATAAAT
1 AATAAAAAAATAAAATAAAT
**
1780777 AATAAAAAGGT-AAAT-AAT
1 AATAAAAAAATAAAATAAAT
* *
1780795 AATATAATAATAATAATAAAT
1 AATAAAAAAATAA-AATAAAT
1780816 AA
1 AA
1780818 ATACAATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 10 0.31
19 5 0.16
20 12 0.38
21 5 0.16
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AATAAAAAAATAAAATAAAT
Found at i:1780793 original size:43 final size:44
Alignment explanation
Indices: 1780746--1780829 Score: 111
Period size: 43 Copynumber: 1.9 Consensus size: 44
1780736 AGAAAAATAT
1780746 AATAAGTAATA-AATAA-AAAAATAAAATAAAT-AATAAAAAGGTA
1 AATAA-TAATATAATAATAAAAAT-AAATAAATAAATAAAAAGGTA
*
1780789 AATAATAATATAATAATAATAATAAATAAATACAATAAAAA
1 AATAATAATATAATAATAAAAATAAATAAATA-AATAAAAA
1780830 CATTTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
42 5 0.14
43 18 0.50
44 5 0.14
45 8 0.22
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (44 bp):
AATAATAATATAATAATAAAAATAAATAAATAAATAAAAAGGTA
Found at i:1780879 original size:38 final size:38
Alignment explanation
Indices: 1780831--1781086 Score: 286
Period size: 38 Copynumber: 6.7 Consensus size: 38
1780821 CAATAAAAAC
* * *
1780831 ATTTTTAAAACTATACAATATATGTTTTTTAAAAAATA
1 ATTTTCAAAACTATATAATATATATTTTTTAAAAAATA
*
1780869 ATTTTCAAAACCATATAATATATA-TTTTTAAAAAATA
1 ATTTTCAAAACTATATAATATATATTTTTTAAAAAATA
* * * *
1780906 ATTTTTAAAACTATATAATATATATATATTT-ATAACTA
1 ATTTTCAAAACTATATAATATATAT-TTTTTAAAAAATA
* *
1780944 ATTTTCAAAACTATATAATATATATATTTTAAAAACTA
1 ATTTTCAAAACTATATAATATATATTTTTTAAAAAATA
* *
1780982 ATTTTCAAAACTATATAATATATATGTTTTTTAAAAATG
1 ATTTTCAAAACTATATAATATATAT-TTTTTAAAAAATA
* * *
1781021 TTTTTAAAAACTATATATTATATATATTTTT-AAAAAT-
1 ATTTTCAAAACTATATAATATATAT-TTTTTAAAAAATA
* * *
1781058 GTTTTCAAAAATTATATATTATATATTTT
1 ATTTTC-AAAACTATATAATATATATTTT
1781087 CAAAATATTT
Statistics
Matches: 189, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
37 45 0.24
38 104 0.55
39 40 0.21
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (38 bp):
ATTTTCAAAACTATATAATATATATTTTTTAAAAAATA
Found at i:1781023 original size:13 final size:12
Alignment explanation
Indices: 1781009--1781069 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
1780999 ATATATATGT
1781009 TTTTTAAAAATG
1 TTTTTAAAAATG
*
1781021 TTTTTAAAAACTA
1 TTTTTAAAAA-TG
* * * *
1781034 TATATTATATATA
1 T-TTTTAAAAATG
1781047 TTTTTAAAAATG
1 TTTTTAAAAATG
*
1781059 TTTTCAAAAAT
1 TTTTTAAAAAT
1781070 TATATATTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
12 27 0.71
13 5 0.13
14 6 0.16
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (12 bp):
TTTTTAAAAATG
Found at i:1781081 original size:113 final size:113
Alignment explanation
Indices: 1780831--1781091 Score: 323
Period size: 113 Copynumber: 2.3 Consensus size: 113
1780821 CAATAAAAAC
* * * *
1780831 ATTTTTAAAACTATACAATATATGTTTTTTAAAAAATAATTTTCAAAACCATATAATATATATTT
1 ATTTTCAAAACTATATAATATATATATTTTAAAAAATAATTTTCAAAACCATATAATATATATTT
* *
1780896 TTAAAAAATAATTTTTAAAACTATATAATATATATATATTTATAACTA
66 TTAAAAAATAATTTTTAAAACTATATAATATATATATATTTAAAAATA
* *
1780944 ATTTTCAAAACTATATAATATATATATTTTAAAAACTAATTTTCAAAACTATATAATATATATGT
1 ATTTTCAAAACTATATAATATATATATTTTAAAAAATAATTTTCAAAACCATATAATATATA--T
* * * *
1781009 TTTTTAAAAAT-GTTTTTAAAAACTATATATTATATATATTTTTAAAAAT-
64 TTTTAAAAAATAATTTTT-AAAACTATATAATATATATATATTTAAAAATA
* * *
1781058 GTTTTCAAAAAT-TAT-ATATTATATATTTTCAAAA
1 ATTTTCAAAACTATATAATA-TATATATTTTAAAAA
1781092 TATTTAAAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
112 3 0.02
113 73 0.57
114 15 0.12
115 38 0.29
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.46
Consensus pattern (113 bp):
ATTTTCAAAACTATATAATATATATATTTTAAAAAATAATTTTCAAAACCATATAATATATATTT
TTAAAAAATAATTTTTAAAACTATATAATATATATATATTTAAAAATA
Found at i:1782215 original size:249 final size:249
Alignment explanation
Indices: 1781756--1782490 Score: 1100
Period size: 249 Copynumber: 2.9 Consensus size: 249
1781746 TGTACTCTAG
* * * * * * * * *
1781756 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGAAGATAGCCCTTCTAGCCTTGAGTTATACCACA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTACA
* * * * *
1781821 AATGATGTGTCGTTGACCTGAGTGTAATCGAACTCAAAGGTCTTT-GCTGGCAGATAACCCTTCT
66 AATGATGTG-CCTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCT
*
1781885 CGACTTAAGTTATGTTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTT
130 CGACTTAAGTTATGTTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTT
* *
1781950 TAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATTTTCCCTCGA-
194 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATTTGCCCTCGAT
* **
1782005 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTACA
*
1782070 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCT
66 AATGATGTGCCTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCT
* *
1782135 TGACTTAAGTTATGTTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTT
130 CGACTTAAGTTATGTTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTT
1782200 GGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATTTGCCCTCGAT
195 GGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATTTGCCCTCGAT
* *
1782255 A-TTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGTTATGCTACA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTACA
*
1782319 AATGATGTGCCTTAGAGCTTAGCGTAGTCGAACTCAAAAGGTCTTTGGTTGGCAGATAACCCTTC
66 AATGATGTGCCTT-GAGCTGAGCGTAGTCGAACTC-AAAGGTCTTTGGTTGGCAGATAACCCTTC
* * *
1782384 TCGATTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT
129 TCGACTTAAGTTATGTTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
* ** *
1782448 TGGTGACATATAACAATTCTAGCCTTGAGTTATGCTGCAAATG
194 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
1782491 TTGTCTTTTA
Statistics
Matches: 442, Mismatches: 40, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
248 3 0.01
249 277 0.63
250 162 0.37
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (249 bp):
AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTACA
AATGATGTGCCTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTC
GACTTAAGTTATGTTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG
GTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATTTGCCCTCGAT
Found at i:1782395 original size:334 final size:332
Alignment explanation
Indices: 1781709--1782451 Score: 817
Period size: 334 Copynumber: 2.2 Consensus size: 332
1781699 ATTTATTGAT
* * * * * * * *
1781709 AGATAGCCCTTCTTGCCTTAGGCTATACTGTAAATGATGT-ACTCTAGAGCTGAGCGTAGTCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCT-TGGAGCTGAGCGTAGTCGAA
* * * * *
1781773 CTCGAAGGTC--T--TTGGAAGATAGCCCTTCTAGCCTTGAGTTATACCACAAATGATGTGTCGT
65 CTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTAGACTTAAGTTATACCACAAATGATATGTCCT
* * *
1781834 TGACCTGAGTGTAATCGAACTCAAAGGTCTTTGCTGGCAGATAACCCTTCTCGACTTAAGTTATG
130 TGACCTGAGCGTAATCGAACTCAAAGGTCTTTGCTGACAGATAACCCTTCTAGACTTAAGTTATG
* * * * *
1781899 TTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTTAGTGACAGATAAC
195 CTGTAAATGATATGCCCTAGAACTGAGCGTAATCGAACTCGAAGGTC-TTTTAGTGACAGATAAC
* * ** * * * * * *
1781964 CCTTCTAGCCTTGAGTTATGCTGTAAATGATTTTCCCTCGAAGCTGAGTGTAATCGAACTCGAGG
259 CCTTCTAGACTTAAGTTATGCTACAAATGATGTGCCCTAGAAGCTGAGCGTAATCGAACTCAAAG
1782029 GTCTTTGGC
324 GTCTTTGGC
1782038 AGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * ****
1782103 TCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGTTGCAAATGATATG-CCTT
66 TCGAAGGTCTTTGGTTGGAAGATAACCCTTCTAGACTTAAGTTATACCACAAATGATATGTCCTT
* * * * * *
1782167 AGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
131 -GACCTGAGCGTAATCGAACTCAAAGGTC-TTTGCTGACAGATAACCCTTCTAGACTTAAGTTAT
* * * * * *
1782232 GCTGTAAATGATTTGCCCTCGATATTGAGTGTAATCGAACTCGAGGGTC-TTT-G-G-CAGATAG
194 GCTGTAAATGATATGCCCTAGA-ACTGAGCGTAATCGAACTCGAAGGTCTTTTAGTGACAGATAA
* * *
1782293 CCCTTCTCA-ACTTAAGTTATGCTACAAATGATGTGCCTTAG-AGCTTAGCGTAGTCGAACTCAA
258 CCCTTCT-AGACTTAAGTTATGCTACAAATGATGTGCCCTAGAAGCTGAGCGTAATCGAACTC-A
1782356 AAGGTCTTTGGTTGGC
321 AAGGTC--T--TTGGC
* *
1782372 AGATAACCCTTCTCGATTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1782437 TCGAAGGTCTTTGGT
66 TCGAAGGTCTTTGGT
1782452 GACATATAAC
Statistics
Matches: 346, Mismatches: 54, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
329 80 0.23
330 44 0.13
331 3 0.01
332 5 0.01
333 63 0.18
334 131 0.38
335 20 0.06
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (332 bp):
AGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGTTGGAAGATAACCCTTCTAGACTTAAGTTATACCACAAATGATATGTCCTT
GACCTGAGCGTAATCGAACTCAAAGGTCTTTGCTGACAGATAACCCTTCTAGACTTAAGTTATGC
TGTAAATGATATGCCCTAGAACTGAGCGTAATCGAACTCGAAGGTCTTTTAGTGACAGATAACCC
TTCTAGACTTAAGTTATGCTACAAATGATGTGCCCTAGAAGCTGAGCGTAATCGAACTCAAAGGT
CTTTGGC
Found at i:1783844 original size:95 final size:94
Alignment explanation
Indices: 1783676--1783858 Score: 271
Period size: 95 Copynumber: 1.9 Consensus size: 94
1783666 CATAAACACC
* * *
1783676 TTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGACGTTTAACCAATTGCCTTAGATGGACA
1 TTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGACGTTTAACCAATTGCCTTAGAGGGACA
* *
1783741 GCTTAAGCTTTATTGTATAGTATAATTACT
66 ACTCAAGCTTTATTGTATA-TATAATTACT
1783771 TTTATCAGGCTAGCTGAATATTATCCATAAAGCCGAGG-CGTTTAACCAATTG-CTCTAGAGGGA
1 TTTATCAGGCTAGCTGAATATTATCCATAAAGCCG-GGACGTTTAACCAATTGCCT-TAGAGGGA
*
1783834 TAACTCAAGCTTTATTGTATATATA
64 CAACTCAAGCTTTATTGTATATATA
1783859 TAATATTATA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
94 6 0.08
95 72 0.90
96 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (94 bp):
TTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGACGTTTAACCAATTGCCTTAGAGGGACA
ACTCAAGCTTTATTGTATATATAATTACT
Found at i:1787670 original size:18 final size:17
Alignment explanation
Indices: 1787647--1787680 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
1787637 TAAAAAATAA
1787647 ATAAATAAAAATGAAAAG
1 ATAAATAAAAAT-AAAAG
1787665 ATAAATAAAAATAAAA
1 ATAAATAAAAATAAAA
1787681 TAATAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
ATAAATAAAAATAAAAG
Found at i:1787686 original size:18 final size:18
Alignment explanation
Indices: 1787640--1787695 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 18
1787630 GTTAGATTAA
1787640 AAAATAAATAAATAAAAAT
1 AAAAT-AATAAATAAAAAT
*
1787659 GAAAA-GATAAATAAAAAT
1 -AAAATAATAAATAAAAAT
*
1787677 AAAATAAT-AATAATAAT
1 AAAATAATAAATAAAAAT
1787694 AA
1 AA
1787696 TAGTGATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 14 0.44
18 14 0.44
20 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAATAATAAATAAAAAT
Found at i:1787759 original size:17 final size:17
Alignment explanation
Indices: 1787737--1787770 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1787727 ATAAAAAGTT
1787737 TAAAAAAA-GTTTATAAA
1 TAAAAAAATGTTT-TAAA
1787754 TAAAAAAATGTTTTAAA
1 TAAAAAAATGTTTTAAA
1787771 AGTAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
TAAAAAAATGTTTTAAA
Found at i:1788918 original size:16 final size:16
Alignment explanation
Indices: 1788890--1788969 Score: 51
Period size: 16 Copynumber: 5.0 Consensus size: 16
1788880 ACCTAAAACG
*
1788890 AGAAA-AAAGAAAAAA
1 AGAAATAAATAAAAAA
*
1788905 AGTAATAAATAAAAAA
1 AGAAATAAATAAAAAA
1788921 TA-AAATAAATAATAAAA
1 -AGAAATAAATAA-AAAA
* *
1788938 AG--GTAAATAATAATA
1 AGAAATAAATAA-AAAA
*
1788953 ATAAATACAATAAAAAA
1 AGAAATA-AATAAAAAA
1788970 CATTTTTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
15 16 0.32
16 19 0.38
17 10 0.20
18 5 0.10
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.17
Consensus pattern (16 bp):
AGAAATAAATAAAAAA
Found at i:1788925 original size:23 final size:23
Alignment explanation
Indices: 1788892--1788936 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1788882 CTAAAACGAG
1788892 AAAAAAGAAAA-AAAGTAATAAAT
1 AAAAAAGAAAATAAA-TAATAAAT
*
1788915 AAAAAATAAAATAAATAATAAA
1 AAAAAAGAAAATAAATAATAAA
1788937 AAGGTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAAAAGAAAATAAATAATAAAT
Found at i:1789013 original size:38 final size:38
Alignment explanation
Indices: 1788963--1789184 Score: 281
Period size: 37 Copynumber: 5.9 Consensus size: 38
1788953 ATAAATACAA
* * * *
1788963 TAAAAAA-CATTTTTAAAACTATACAATATATGTTTTT
1 TAAAAAATAATTTTCAAAACTATATAATATATATTTTT
*
1789000 TAAAAAATAATTTTCAAAACCATATAATATATATTTTT
1 TAAAAAATAATTTTCAAAACTATATAATATATATTTTT
*
1789038 T-AAAAATAATTTTCAAAACTATAGAATATATATATTTT
1 TAAAAAATAATTTTCAAAACTATATAATATATAT-TTTT
* *
1789076 T-ATAACTAATTTTCAAAACTATATAATATATATATATTT
1 TAAAAAATAATTTTCAAAACTATATAATATATAT-T-TTT
*
1789115 TAAAAACTAATTTTCAAAACTATATAATATATA-TTTT
1 TAAAAAATAATTTTCAAAACTATATAATATATATTTTT
* * *
1789152 TAAAAACTAATTTTCAAAATTATATATTATATA
1 TAAAAAATAATTTTCAAAACTATATAATATATA
1789185 ATTTCAAAAT
Statistics
Matches: 168, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
37 71 0.42
38 63 0.38
39 4 0.02
40 30 0.18
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (38 bp):
TAAAAAATAATTTTCAAAACTATATAATATATATTTTT
Found at i:1789127 original size:115 final size:112
Alignment explanation
Indices: 1788971--1789188 Score: 321
Period size: 115 Copynumber: 1.9 Consensus size: 112
1788961 AATAAAAAAC
* *
1788971 ATTTTTAAAACTATACAATATATGTTTTTTAAAAAATAATTTTCAAAACCATATAATATATATTT
1 ATTTTCAAAACTATACAATATATATTTTTTAAAAAATAATTTTCAAAACCATATAATATATA-TT
1789036 TTTAAAAA-TAATTTTCAAAACTATAGAATATATATATTTTTATAACTA
65 TTTAAAAACTAATTTTCAAAACTATAGAATATATA-ATTTTTATAACTA
* * *
1789084 ATTTTCAAAACTATATAATATATATATATTTTAAAAACTAATTTTCAAAACTATATAATATATAT
1 ATTTTCAAAACTATACAATATATAT-T-TTTTAAAAAATAATTTTCAAAACCATATAATATATAT
* * *
1789149 TTTTAAAAACTAATTTTCAAAATTATATATTATATAATTT
64 TTTTAAAAACTAATTTTCAAAACTATAGAATATATAATTT
1789189 CAAAATATTT
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
113 22 0.23
114 15 0.16
115 57 0.61
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (112 bp):
ATTTTCAAAACTATACAATATATATTTTTTAAAAAATAATTTTCAAAACCATATAATATATATTT
TTAAAAACTAATTTTCAAAACTATAGAATATATAATTTTTATAACTA
Found at i:1789249 original size:37 final size:35
Alignment explanation
Indices: 1789163--1789257 Score: 99
Period size: 35 Copynumber: 2.7 Consensus size: 35
1789153 AAAAACTAAT
1789163 TTTCAAAAT--TATATATTATATAATTTCAAAATA
1 TTTCAAAATAATATATATTATATAATTTCAAAATA
* *
1789196 TTT-AAAA-AACCCATATATTGTATAATTTTCAAAATGA
1 TTTCAAAATAA--TATATATTATATAA-TTTCAAAAT-A
1789233 TTTCAAAATAATATATATATATATA
1 TTTCAAAATAATATATAT-TATATA
1789258 TATATATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
32 4 0.08
33 3 0.06
35 12 0.24
36 9 0.18
37 10 0.20
38 9 0.18
39 2 0.04
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.42
Consensus pattern (35 bp):
TTTCAAAATAATATATATTATATAATTTCAAAATA
Found at i:1789250 original size:2 final size:2
Alignment explanation
Indices: 1789243--1789271 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1789233 TTTCAAAATA
1789243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1789272 ATGGAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1790418 original size:20 final size:21
Alignment explanation
Indices: 1790393--1790432 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1790383 TTTTTATTTT
1790393 ATTATT-TTAT-TATTTTTTAA
1 ATTATTATTATCT-TTTTTTAA
1790413 ATTATTATTATCTTTTTTTA
1 ATTATTATTATCTTTTTTTA
1790433 CTTGATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 11 0.61
22 1 0.06
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTATTATTATCTTTTTTTAA
Found at i:1790490 original size:13 final size:14
Alignment explanation
Indices: 1790472--1790504 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1790462 AAAATTTAAC
1790472 TTTTTTCT-TTTTA
1 TTTTTTCTATTTTA
1790485 TTTTTT-TATTTTA
1 TTTTTTCTATTTTA
1790498 TTTTTTC
1 TTTTTTC
1790505 CTTTGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.06
13 17 0.94
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTCTATTTTA
Found at i:1790527 original size:26 final size:26
Alignment explanation
Indices: 1790472--1790527 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
1790462 AAAATTTAAC
* * * *
1790472 TTTTTTCTTTTTATTTTTTTATTTTA
1 TTTTTTCCTTTGATTTTTTAATATTA
1790498 TTTTTTCCTTTGATTTATTTAATATT-
1 TTTTTTCCTTTGATTT-TTTAATATTA
1790524 TTTT
1 TTTT
1790528 ATCTAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (26 bp):
TTTTTTCCTTTGATTTTTTAATATTA
Found at i:1790541 original size:13 final size:14
Alignment explanation
Indices: 1790511--1790540 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1790501 TTTCCTTTGA
*
1790511 TTTATTTAATATTT
1 TTTATCTAATATTT
1790525 TTTATCTAATATTT
1 TTTATCTAATATTT
1790539 TT
1 TT
1790541 AATTTTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATCTAATATTT
Found at i:1793513 original size:2 final size:2
Alignment explanation
Indices: 1793506--1793543 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1793496 GAAATGAAAT
1793506 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
1793544 GGGTTGTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1794154 original size:23 final size:22
Alignment explanation
Indices: 1794126--1794176 Score: 93
Period size: 23 Copynumber: 2.3 Consensus size: 22
1794116 TATAATTTGA
1794126 ATATTAATTATAATATATATAT
1 ATATTAATTATAATATATATAT
1794148 ATCATTAATTATAATATATATAT
1 AT-ATTAATTATAATATATATAT
1794171 ATATTA
1 ATATTA
1794177 TAATTTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATTAATTATAATATATATAT
Found at i:1810191 original size:22 final size:21
Alignment explanation
Indices: 1810166--1810219 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
1810156 CTTTAGGGCA
* *
1810166 AGATTTAGGTTGAATAAGATTG
1 AGATTTAGGTTAAATAAGA-GG
1810188 AGA-TTAGGATTAAATAAGAGG
1 AGATTTAGG-TTAAATAAGAGG
*
1810209 AGATTGAGGTT
1 AGATTTAGGTT
1810220 TTGGGAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.31
Consensus pattern (21 bp):
AGATTTAGGTTAAATAAGAGG
Found at i:1810195 original size:21 final size:20
Alignment explanation
Indices: 1810170--1810219 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1810160 AGGGCAAGAT
* *
1810170 TTAGGTTGAATAAGATTGAGA
1 TTAGGTTAAATAAGA-GGAGA
1810191 TTAGGATTAAATAAGAGGAGA
1 TTAGG-TTAAATAAGAGGAGA
1810212 TTGAGGTT
1 TT-AGGTT
1810220 TTGGGAGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.32
Consensus pattern (20 bp):
TTAGGTTAAATAAGAGGAGA
Found at i:1817024 original size:10 final size:10
Alignment explanation
Indices: 1817009--1817045 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
1816999 GACGACTCAT
*
1817009 ATTCAATTTA
1 ATTCAAATTA
1817019 ATTCAAATTA
1 ATTCAAATTA
1817029 ATTCAAATTA
1 ATTCAAATTA
1817039 ATTCAAA
1 ATTCAAA
1817046 ATCTCTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTCAAATTA
Found at i:1819810 original size:19 final size:17
Alignment explanation
Indices: 1819772--1819834 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
1819762 TAAGTTAATA
*
1819772 TTATTTTTATAATATTT
1 TTATTTTTATAATATAT
1819789 TTATATTTTATAATATCAT
1 TTAT-TTTTATAATAT-AT
** * *
1819808 TTATGATCATAGTATAT
1 TTATTTTTATAATATAT
*
1819825 GTATTTTTAT
1 TTATTTTTAT
1819835 TTTTTTATTC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
17 12 0.34
18 18 0.51
19 5 0.14
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (17 bp):
TTATTTTTATAATATAT
Found at i:1822202 original size:22 final size:22
Alignment explanation
Indices: 1822174--1822234 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
1822164 GGGTCTACGC
*
1822174 GGTCCTTTGGGACATATACAGT-
1 GGTCCTTTGGGACAAATACA-TA
*
1822196 GGTCCTTCGGGACAAATACATA
1 GGTCCTTTGGGACAAATACATA
1822218 GGT-CTTTCGGGACAAAT
1 GGTCCTTT-GGGACAAAT
1822235 TTCATATGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.12
22 30 0.88
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (22 bp):
GGTCCTTTGGGACAAATACATA
Found at i:1822976 original size:21 final size:21
Alignment explanation
Indices: 1822950--1822989 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1822940 AGCAGTATTG
1822950 TAGCAGGGTATCGGTTCCCTA
1 TAGCAGGGTATCGGTTCCCTA
1822971 TAGCAGGGTATCGGTTCCC
1 TAGCAGGGTATCGGTTCCC
1822990 CTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (21 bp):
TAGCAGGGTATCGGTTCCCTA
Found at i:1824226 original size:76 final size:76
Alignment explanation
Indices: 1824035--1824461 Score: 484
Period size: 76 Copynumber: 5.7 Consensus size: 76
1824025 GCGCCATAAA
* *
1824035 AATT-TGTTTCAAGGGAAACAATCTCCAGTGAGATAATGCTGATCCAACTCCTTATGCGATGGAA
1 AATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGTTGATCCAACTCCTTATGTGAT-GAA
1824099 TTGAGTGAAATGG
65 -TGAGTGAAATGG
* * * ** *
1824112 AATTCTATTTCGA-GGAAACAATCTTTAGTGAGATAATGTTAATCCAACTCCTTATGTGATGAAT
1 AATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGTTGATCCAACTCCTTATGTGATGAAT
* *
1824176 AAGTGAAAGGG
66 GAGTGAAATGG
*
1824187 AATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGTTGATCCAACTCCTTATGTGATGGAT
1 AATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGTTGATCCAACTCCTTATGTGATGAAT
*
1824252 GAGAGAAATGG
66 GAGTGAAATGG
* * * *
1824263 AATTTTGTTTCAAGGGAAACAATCTTCAGTGAGATAATATTGATCCAACTCCTTATGCGATGGAA
1 AATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGTTGATCCAACTCCTTATGTGAT-GAA
*
1824328 TCGAGTGAAATAG
65 T-GAGTGAAATGG
* * * * *
1824341 -A--A---TTC---GG-TA-TATCTCTAGTGAGATAATGTTGATCCAACTCCTTATGTGATGGAC
1 AATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGTTGATCCAACTCCTTATGTGATGAAT
* *
1824395 AAGCGAAATGG
66 GAGTGAAATGG
* * *
1824406 AATTTTGTTTCAAGGGAAACAATCTCTAGTGAGATAATGCTGATCCAACTCCTTAT
1 AATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGTTGATCCAACTCCTTAT
1824462 ATAATAGACG
Statistics
Matches: 293, Mismatches: 42, Indels: 31
0.80 0.11 0.08
Matches are distributed among these distances:
65 8 0.03
66 3 0.01
67 36 0.12
68 1 0.00
69 2 0.01
71 3 0.01
72 3 0.01
74 2 0.01
75 21 0.07
76 149 0.51
77 50 0.17
78 15 0.05
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (76 bp):
AATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGTTGATCCAACTCCTTATGTGATGAAT
GAGTGAAATGG
Found at i:1824452 original size:219 final size:225
Alignment explanation
Indices: 1824037--1824461 Score: 628
Period size: 219 Copynumber: 1.9 Consensus size: 225
1824027 GCCATAAAAA
* *
1824037 TTTGTTTCAAGGGAAACAATCTCCAGTGAGATAATGCTGATCCAACTCCTTATGCGATGGAATTG
1 TTTGTTTCAAGGGAAACAATCTCCAGTGAGATAATACTGATCCAACTCCTTATGCGATGGAATCG
* *
1824102 AGTGAAATGGAATTCTATTTCGAGGAAACAATCTTTAGTGAGATAATGTTAATCCAACTCCTTAT
66 AGTGAAATAGAA---TATTTC-AGGAAACAATCTCTAGTGAGATAATGTTAATCCAACTCCTTAT
* * *
1824167 GTGATGAATAAGTGAAAGGGAATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGTTGATC
127 GTGATGAACAAGCGAAAGGGAATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGCTGATC
1824232 CAACTCCTTATGTGATGGATGAGAGAAATGGAAT
192 CAACTCCTTATGTGATGGATGAGAGAAATGGAAT
* *
1824266 TTTGTTTCAAGGGAAACAATCTTCAGTGAGATAATATTGATCCAACTCCTTATGCGATGGAATCG
1 TTTGTTTCAAGGGAAACAATCTCCAGTGAGATAATACTGATCCAACTCCTTATGCGATGGAATCG
* * *
1824331 AGTGAAATAG-A-A-TTC-GG-TA-TATCTCTAGTGAGATAATGTTGATCCAACTCCTTATGTGA
66 AGTGAAATAGAATATTTCAGGAAACAATCTCTAGTGAGATAATGTTAATCCAACTCCTTATGTGA
* * * *
1824390 TGGACAAGCGAAATGGAATTTTGTTTCAAGGGAAACAATCTCTAGTGAGATAATGCTGATCCAAC
131 TGAACAAGCGAAAGGGAATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGCTGATCCAAC
1824455 TCCTTAT
196 TCCTTAT
1824462 ATAATAGACG
Statistics
Matches: 180, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
219 102 0.57
220 1 0.01
221 2 0.01
223 3 0.02
224 1 0.01
228 1 0.01
229 70 0.39
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (225 bp):
TTTGTTTCAAGGGAAACAATCTCCAGTGAGATAATACTGATCCAACTCCTTATGCGATGGAATCG
AGTGAAATAGAATATTTCAGGAAACAATCTCTAGTGAGATAATGTTAATCCAACTCCTTATGTGA
TGAACAAGCGAAAGGGAATTATGTTTCAAGGGAAACAATCTCCAGTGAGATAATGCTGATCCAAC
TCCTTATGTGATGGATGAGAGAAATGGAAT
Found at i:1825732 original size:109 final size:108
Alignment explanation
Indices: 1825577--1825783 Score: 288
Period size: 109 Copynumber: 1.9 Consensus size: 108
1825567 ATTCCATTTA
* * * * *
1825577 ATTTGCTTTTGTTTGGCTAGCTGAATAATCTATCCATAAAGCCAGGGCTTTCAACTAATTTCTTT
1 ATTTGCCTTTATTTGGCTAGCTGAAGAATCTATCCATAAAGCCAGGGCTTTCAACCAATTGCTTT
* *
1825642 AGAGGAGTAACTCAGCTTTATTGTATGTATATATGTATATATT
66 AGAGGAATAACTCAGCTTTATTGTATATATATATGTATATATT
* * *
1825685 ATTTGCCTTTATTTGTCTAGCTGAAGGAATCTATCCATAAAGTCAGGGCTTTCAACCGATTGCTT
1 ATTTGCCTTTATTTGGCTAGCTGAA-GAATCTATCCATAAAGCCAGGGCTTTCAACCAATTGCTT
** *
1825750 TAGAGGAATAGGTCAGTTTTATTGTATATATATA
65 TAGAGGAATAACTCAGCTTTATTGTATATATATA
1825784 ATTATTTTAA
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
108 22 0.26
109 63 0.74
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (108 bp):
ATTTGCCTTTATTTGGCTAGCTGAAGAATCTATCCATAAAGCCAGGGCTTTCAACCAATTGCTTT
AGAGGAATAACTCAGCTTTATTGTATATATATATGTATATATT
Found at i:1832434 original size:107 final size:108
Alignment explanation
Indices: 1832242--1832547 Score: 420
Period size: 108 Copynumber: 2.8 Consensus size: 108
1832232 ATATTATTTT
*
1832242 ATTCTGGAATTTGAGCAATGCTGGTAGTATCGATACTACCTTATGAGTATCGATACTTCCACTAC
1 ATTCTGGAATTTGAGCAATGCTGGTAGTATCGATACTACCTTATGAGTATCGATACTTCCATTAC
** **
1832307 CTTTGGTATCGGTACCCCTTTAGG-AACCGGTA-CGATTTTTGC
66 CTTTGGTATCGGTATTCCTTTAGGTAACCAATATC-ATTTTTGC
* * *
1832349 ATTCTGGAATTTGTGCAATGCTGGTAGTATCAATACTACCTTGTGAGTATCGATACTTCCATTAC
1 ATTCTGGAATTTGAGCAATGCTGGTAGTATCGATACTACCTTATGAGTATCGATACTTCCATTAC
* * *
1832414 CTTTGGTATCAGTATTCCTTTAGGTTATCAATATCATTTTTGC
66 CTTTGGTATCGGTATTCCTTTAGGTAACCAATATCATTTTTGC
* * * **
1832457 ATTATGAAATTTGAGCAATGCTGGTAGTATCGATATTATGTTATGAGTATCGATACTAT-CATTA
1 ATTCTGGAATTTGAGCAATGCTGGTAGTATCGATACTACCTTATGAGTATCGATACT-TCCATTA
*
1832521 CCTTTGGTATCGGTATTCCTTTGGGTA
65 CCTTTGGTATCGGTATTCCTTTAGGTA
1832548 TTGATACTTC
Statistics
Matches: 174, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
107 82 0.47
108 90 0.52
109 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (108 bp):
ATTCTGGAATTTGAGCAATGCTGGTAGTATCGATACTACCTTATGAGTATCGATACTTCCATTAC
CTTTGGTATCGGTATTCCTTTAGGTAACCAATATCATTTTTGC
Found at i:1838775 original size:65 final size:63
Alignment explanation
Indices: 1838706--1838843 Score: 150
Period size: 63 Copynumber: 2.1 Consensus size: 63
1838696 AATGAATGAA
* * * * * * * *
1838706 TGAATGAATGTATGGTTTTTCTTATTTATTTTCTGAATGTGTTTTATGGATTTTCATATTTTATT
1 TGAATGAATGTATGATTTTTCCTATTT-TTTT-TGAACGAGTGTGATGGATTTCCATATTTGATT
* *
1838771 TGAATGAATGTTTGATTTTTCCTCTTTTTTTTGAACGAGTGTGATGGATTTCCATATTTGATT
1 TGAATGAATGTATGATTTTTCCTATTTTTTTTGAACGAGTGTGATGGATTTCCATATTTGATT
*
1838834 TAAAATGAAT
1 T-GAATGAAT
1838844 TTAACACAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
63 27 0.44
64 11 0.18
65 23 0.38
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.53
Consensus pattern (63 bp):
TGAATGAATGTATGATTTTTCCTATTTTTTTTGAACGAGTGTGATGGATTTCCATATTTGATT
Found at i:1838783 original size:34 final size:36
Alignment explanation
Indices: 1838702--1838783 Score: 82
Period size: 34 Copynumber: 2.4 Consensus size: 36
1838692 ATTTAATGAA
* * * * *
1838702 TGAATGAATGAATGTATGGTTTTTCTTATTTATTTTC
1 TGAATGAATG-TTTTATGGATTTTCATATTTATATTC
1838739 TGAATG--TGTTTTATGGATTTTCATATTT-TATT-
1 TGAATGAATGTTTTATGGATTTTCATATTTATATTC
1838771 TGAATGAATGTTT
1 TGAATGAATGTTT
1838784 GATTTTTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
32 6 0.16
33 3 0.08
34 21 0.55
35 2 0.05
37 6 0.16
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.55
Consensus pattern (36 bp):
TGAATGAATGTTTTATGGATTTTCATATTTATATTC
Found at i:1841592 original size:30 final size:31
Alignment explanation
Indices: 1841556--1841614 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1841546 TAAGCATTAC
*
1841556 CCCTCACTTATTGCT-TTGTTCAGTTATTCT
1 CCCTCACTTATTGCTGTTGTTCAATTATTCT
* *
1841586 CCCTCACTTGTTGCTGTTTTTCAATTATT
1 CCCTCACTTATTGCTGTTGTTCAATTATT
1841615 TGCCTGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.14, C:0.25, G:0.10, T:0.51
Consensus pattern (31 bp):
CCCTCACTTATTGCTGTTGTTCAATTATTCT
Found at i:1846824 original size:23 final size:23
Alignment explanation
Indices: 1846793--1846846 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
1846783 ATTTTAATCA
1846793 AAAAT-TATTTATTAAAATATAT
1 AAAATATATTTATTAAAATATAT
* *
1846815 AAAATATATTTATTAATATTTAT
1 AAAATATATTTATTAAAATATAT
1846838 AATAATATA
1 AA-AATATA
1846847 ATATTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 5 0.18
23 17 0.61
24 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAATATATTTATTAAAATATAT
Found at i:1846855 original size:22 final size:23
Alignment explanation
Indices: 1846793--1846857 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
1846783 ATTTTAATCA
* * *
1846793 AAAAT-TATTTATTAAAATATAT
1 AAAATATATATATTAATATTTAT
*
1846815 AAAATATATTTATTAATATTTAT
1 AAAATATATATATTAATATTTAT
1846838 AATAATATA-ATATT-ATATTT
1 AA-AATATATATATTAATATTT
1846858 TTTAATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 11 0.29
23 21 0.55
24 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAATATATATATTAATATTTAT
Found at i:1846863 original size:32 final size:31
Alignment explanation
Indices: 1846811--1846872 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
1846801 TTATTAAAAT
1846811 ATATAAAATATATTTATTAATATTTATAATA
1 ATATAAAATATATTTATTAATATTTATAATA
* *
1846842 ATATAATATTATATTTTTTAATATTTATAAT
1 ATATAA-AATATATTTATTAATATTTATAAT
1846873 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 6 0.21
32 22 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
ATATAAAATATATTTATTAATATTTATAATA
Found at i:1850539 original size:2 final size:2
Alignment explanation
Indices: 1850532--1850561 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1850522 AAGCATTGAA
*
1850532 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1850562 TATTTAATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1859535 original size:18 final size:15
Alignment explanation
Indices: 1859500--1859556 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 15
1859490 TAAACAAAAA
* *
1859500 TAAAAAATATTTACT
1 TAAAAAAAATTTAAT
1859515 TAAAAAATAACTTTTAAT
1 TAAAAAA-AA--TTTAAT
1859533 TAAAATAAAATTTAAT
1 TAAAA-AAAATTTAAT
1859549 TAAAAAAA
1 TAAAAAAA
1859557 TTCATTCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 10 0.28
16 12 0.33
18 12 0.33
19 2 0.06
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAAAAAATTTAAT
Found at i:1860070 original size:21 final size:23
Alignment explanation
Indices: 1860046--1860092 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
1860036 TTCAACATAA
*
1860046 TACAAGT-TAAAAAAT-CATAGT
1 TACAAGTACAAAAAATACATAGT
*
1860067 TAC-AGTACAAAAAATACATATT
1 TACAAGTACAAAAAATACATAGT
1860089 TACA
1 TACA
1860093 GTATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 3 0.14
21 10 0.48
22 8 0.38
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (23 bp):
TACAAGTACAAAAAATACATAGT
Done.