Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007905.1 Hibiscus syriacus cultivar Beakdansim tig00110299_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: 2946335
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 14
Found at i:1466698 original size:7 final size:6
Alignment explanation
Indices: 1466649--1466704 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
1466639 TTTGGTTTCG
*
1466649 TTATAA TTAT-A TTATTA TTAT-A TTAT-A TTATATTA TTATAA TTGATAA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATA--A TTATAA TT-ATAA
1466697 TTATAA TT
1 TTATAA TT
1466705 CTACAGGCCC
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
5 15 0.33
6 18 0.40
7 6 0.13
8 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (6 bp):
TTATAA
Found at i:1466699 original size:21 final size:22
Alignment explanation
Indices: 1466649--1466701 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
1466639 TTTGGTTTCG
1466649 TTATAATTATATTATTATTATA
1 TTATAATTATATTATTATTATA
1466671 TTAT-ATTATATTATTA-TA-A
1 TTATAATTATATTATTATTATA
1466690 TTGATAATTATA
1 TT-ATAATTATA
1466702 ATTCTACAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.10
20 4 0.14
21 18 0.62
22 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATAATTATATTATTATTATA
Found at i:1479209 original size:17 final size:19
Alignment explanation
Indices: 1479187--1479223 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
1479177 TTTAATAAAT
1479187 ACAATA-AATAATC-TATG
1 ACAATATAATAATCATATG
*
1479204 ACAATATAATCATCATATG
1 ACAATATAATAATCATATG
1479223 A
1 A
1479224 TTAGTCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (19 bp):
ACAATATAATAATCATATG
Found at i:1486029 original size:2 final size:2
Alignment explanation
Indices: 1486022--1486050 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1486012 AAAAGAGTGT
1486022 TA 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 TA T
1486051 GCTATGAATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1492503 original size:20 final size:20
Alignment explanation
Indices: 1492441--1492503 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
1492431 TACCATTAAG
1492441 TTTAAACGATTATATATGA-
1 TTTAAACGATTATATATGAT
* *
1492460 TTT-AAC-ATAACATGAT-ATT
1 TTTAAACGATTATAT-ATGA-T
1492479 TTTAAACGATTATATATGAT
1 TTTAAACGATTATATATGAT
1492499 TTTAA
1 TTTAA
1492504 TTAATATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 6 0.18
20 11 0.32
21 6 0.18
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.44
Consensus pattern (20 bp):
TTTAAACGATTATATATGAT
Found at i:1503755 original size:16 final size:16
Alignment explanation
Indices: 1503725--1503767 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
1503715 TAAATTATTT
*
1503725 ATTAACATTATTTTAAA
1 ATTAA-ATTAATTTAAA
1503742 ATTAAATTAATTTAAA
1 ATTAAATTAATTTAAA
*
1503758 TTTAAATTAA
1 ATTAAATTAA
1503768 ATTTTTCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAAATTAATTTAAA
Found at i:1506073 original size:103 final size:103
Alignment explanation
Indices: 1505892--1506098 Score: 351
Period size: 103 Copynumber: 2.0 Consensus size: 103
1505882 GATGATTTCC
* *
1505892 TGGTTGATAACAATATTTTCAGTGATAGAGCGGCCCAGAATGAAGTTTGTTTGGTTCGGAGAAAC
1 TGGTTGATAACAATATTTTCAGTGATAGAGCGACCCAGAATGAAGCTTGTTTGGTTCGGAGAAAC
* *
1505957 AAGGAGCGAGATGATGCTCTGGAGTCGACGAACAATGA
66 AAGGAGCGAGATGATACTCTGGAGTCAACGAACAATGA
*
1505995 TGGTTGATAACAATATTTTTAGTGATAGAGCGACCCAGAATGAAGCTTGTTTGGTTCGGAGAAAC
1 TGGTTGATAACAATATTTTCAGTGATAGAGCGACCCAGAATGAAGCTTGTTTGGTTCGGAGAAAC
* *
1506060 AAGGAGCGGGATGATACTCTGGAGTCAACGAGCAATGA
66 AAGGAGCGAGATGATACTCTGGAGTCAACGAACAATGA
1506098 T
1 T
1506099 TTTGGTGATG
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (103 bp):
TGGTTGATAACAATATTTTCAGTGATAGAGCGACCCAGAATGAAGCTTGTTTGGTTCGGAGAAAC
AAGGAGCGAGATGATACTCTGGAGTCAACGAACAATGA
Found at i:1512111 original size:47 final size:46
Alignment explanation
Indices: 1512052--1512149 Score: 133
Period size: 47 Copynumber: 2.1 Consensus size: 46
1512042 AATATTTGCA
* * *
1512052 TTAATATAAGAATATATTAATATAGTTTTCAATTTAGTATATGGTT
1 TTAATATAAGAATATATTAATATACTTTTCAATGTAGTATATGGCT
* * *
1512098 TTAAGTATTAGAATATATTAGTATACTTTTCAATGTAGTGTATGGCT
1 TTAA-TATAAGAATATATTAATATACTTTTCAATGTAGTATATGGCT
1512145 TTAAT
1 TTAAT
1512150 TTTCAGATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 5 0.11
47 40 0.89
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (46 bp):
TTAATATAAGAATATATTAATATACTTTTCAATGTAGTATATGGCT
Found at i:1514323 original size:13 final size:14
Alignment explanation
Indices: 1514291--1514323 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1514281 TGCATATTAA
1514291 TATATATATATAGGT
1 TATA-ATATATAGGT
1514306 TATAATATATA-GT
1 TATAATATATAGGT
1514319 TATAA
1 TATAA
1514324 AAGATGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (14 bp):
TATAATATATAGGT
Found at i:1519472 original size:122 final size:122
Alignment explanation
Indices: 1519314--1519617 Score: 387
Period size: 135 Copynumber: 2.4 Consensus size: 122
1519304 AAGTGAATCC
1519314 ATTT-TAAGCTTTCACCAAAGAGTAGTGAAGCAAATCCATCAGTAAGTCTTTCGAGCGTGATGAT
1 ATTTGTAAGCTTTCACCAAAGAGTAGTGAAGCAAATCCATCAGTAAGTCTTTCGAGCGTGATGAT
* *
1519378 GAAGTAC-GTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCTTTCGGGTA
66 GAAGT-CTGTCAGGCCAGCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTA
*
1519435 ATTTGTAAGCTTTCACCAAAGAGTAGTTAAGCAAATCCATCAGTAAGTGCCATCAGTAAGTCTTT
1 ATTTGTAAGCTTTCACCAAAGAGTAG-T--G---A---AGCA--AA-T-CCATCAGTAAGTCTTT
* *
1519500 CGAGCGTGATGATGAAGTCTTTCGGGCCAGCAGTAAGTCTTTCGAGCATGATGATTAAATCATTC
53 CGAGCGTGATGATGAAGTCTGTCAGGCCAGCAGTAAGTCTTTCGAGCATGATGATTAAATCATTC
1519565 GGGTA
118 GGGTA
* * * *
1519570 ATTTGTAAGCCTTCACCAAGGAGTAGTGGAGAAAATCCATCAGTAAGT
1 ATTTGTAAGCTTTCACCAAAGAGTAGTGAAGCAAATCCATCAGTAAGT
1519618 GCCATCATTA
Statistics
Matches: 158, Mismatches: 10, Indels: 29
0.80 0.05 0.15
Matches are distributed among these distances:
121 4 0.03
122 33 0.21
123 2 0.01
124 2 0.01
125 1 0.01
126 2 0.01
128 1 0.01
131 3 0.02
132 1 0.01
133 2 0.01
134 3 0.02
135 104 0.66
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (122 bp):
ATTTGTAAGCTTTCACCAAAGAGTAGTGAAGCAAATCCATCAGTAAGTCTTTCGAGCGTGATGAT
GAAGTCTGTCAGGCCAGCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTA
Found at i:1519489 original size:13 final size:13
Alignment explanation
Indices: 1519471--1519495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1519461 TTAAGCAAAT
1519471 CCATCAGTAAGTG
1 CCATCAGTAAGTG
1519484 CCATCAGTAAGT
1 CCATCAGTAAGT
1519496 CTTTCGAGCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:1519566 original size:42 final size:42
Alignment explanation
Indices: 1519483--1519567 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
1519473 ATCAGTAAGT
* * * *
1519483 GCCATCAGTAAGTCTTTCGAGCGTGATGATGAAGTCTTTCGG
1 GCCAGCAGTAAGTCTTTCGAGCATGATGATGAAATCATTCGG
*
1519525 GCCAGCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGG
1 GCCAGCAGTAAGTCTTTCGAGCATGATGATGAAATCATTCGG
1519567 G
1 G
1519568 TAATTTGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
GCCAGCAGTAAGTCTTTCGAGCATGATGATGAAATCATTCGG
Found at i:1519647 original size:135 final size:135
Alignment explanation
Indices: 1519349--1519640 Score: 478
Period size: 135 Copynumber: 2.2 Consensus size: 135
1519339 TGAAGCAAAT
*
1519349 CCATCAGTAAGTCTTTCGAGCGTGATGATGAAGTACGTCAGGCCATCAGTAAGTCTTTCGAGCAT
1 CCATCAGTAAGTCTTTCGAGCGTGATGATGAAGTACGTCAGGCCAGCAGTAAGTCTTTCGAGCAT
* * * *
1519414 GATGATTAAATCTTTCGGGTAATTTGTAAGCTTTCACCAAAGAGTAGTTAAGCAAATCCATCAGT
66 GATGATTAAATCATTCGGGTAATTTGTAAGCCTTCACCAAAGAGTAGTGAAGAAAATCCATCAGT
1519479 AAGTG
131 AAGTG
* *
1519484 CCATCAGTAAGTCTTTCGAGCGTGATGATGAAGT-CTTTCGGGCCAGCAGTAAGTCTTTCGAGCA
1 CCATCAGTAAGTCTTTCGAGCGTGATGATGAAGTAC-GTCAGGCCAGCAGTAAGTCTTTCGAGCA
* *
1519548 TGATGATTAAATCATTCGGGTAATTTGTAAGCCTTCACCAAGGAGTAGTGGAGAAAATCCATCAG
65 TGATGATTAAATCATTCGGGTAATTTGTAAGCCTTCACCAAAGAGTAGTGAAGAAAATCCATCAG
1519613 TAAGTG
130 TAAGTG
*
1519619 CCATCATTAAGTCTTTCGAGCG
1 CCATCAGTAAGTCTTTCGAGCG
1519641 CAATGATTAA
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
134 1 0.01
135 145 0.99
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (135 bp):
CCATCAGTAAGTCTTTCGAGCGTGATGATGAAGTACGTCAGGCCAGCAGTAAGTCTTTCGAGCAT
GATGATTAAATCATTCGGGTAATTTGTAAGCCTTCACCAAAGAGTAGTGAAGAAAATCCATCAGT
AAGTG
Found at i:1519740 original size:93 final size:93
Alignment explanation
Indices: 1519525--1519887 Score: 322
Period size: 93 Copynumber: 4.0 Consensus size: 93
1519515 AGTCTTTCGG
* * * * *
1519525 GCCAGCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATTTGTAAGCCTTCACCAAG
1 GCCATCAGTAAGTCTTTCGAGCGTGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACCAAA
*
1519590 GAGTAGTGGAGAAAATCCATCAGTAAGT
66 GAGTAGTGAAGAAAATCCATCAGTAAGT
* **
1519618 GCCATCATTAAGTCTTTCGAGCGCAATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACCAAA
1 GCCATCAGTAAGTCTTTCGAGCGTGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACCAAA
* *
1519683 GAGTAGTGAAGCAAATCCATTAGTAAGT
66 GAGTAGTGAAGAAAATCCATCAGTAAGT
* * * * * ** ** * *
1519711 GCCTTCAGTAAGTCTTTTGAACGTGATGATGAAGTCCTTCA-GGCCATCAGTAAGTCTTTCGAGC
1 GCCATCAGTAAGTCTTTCGAGCGTGATGATTAAATCCTT-AGGGTAATTTGTAAG-CCTTC-ACC
* *
1519775 -ATGA-TGAG-GAAG----TCCTTC-G---G-
63 AAAGAGT-AGTGAAGAAAATCCATCAGTAAGT
* * * * *
1519795 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTAATTTGTAAGTCTGCACCGAA
1 GCCATCAGTAAGTCTTTCGAGCGTGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACCAAA
1519860 GAGTAGTGAA-ACAAATCCATCAGTAAGT
66 GAGTAGTGAAGA-AAATCCATCAGTAAGT
1519888 CATTCGAGCA
Statistics
Matches: 207, Mismatches: 45, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
82 2 0.01
83 7 0.03
84 46 0.22
85 1 0.00
88 6 0.03
89 5 0.02
92 1 0.00
93 127 0.61
94 10 0.05
95 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (93 bp):
GCCATCAGTAAGTCTTTCGAGCGTGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACCAAA
GAGTAGTGAAGAAAATCCATCAGTAAGT
Found at i:1519780 original size:42 final size:42
Alignment explanation
Indices: 1519715--1519955 Score: 201
Period size: 42 Copynumber: 5.8 Consensus size: 42
1519705 GTAAGTGCCT
* * * * *
1519715 TCAGTAAGTCTTTTGAACGTGATGATGAAGTCCTTCAGGCCA
1 TCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCA
* *
1519757 TCAGTAAGTCTTTCGAGCATGATGAGGAAGTCCTTCGGGCCA
1 TCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCA
* * **
1519799 TCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTAA
1 TCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCA
** * * * **
1519841 TTTGTAAGTC-TGC-ACCGAAGA-GTAGTGAAA-CAAAT----CCA
1 TCAGTAAGTCTTTCGAGC-ATGATG-A-TGAAATC-CTTCGGGCCA
* *
1519879 TCAGTAAGTCATTCGAGCATGATGATGAAATCCTTCGGGACA
1 TCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCA
*
1519921 TCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT
1 TCAGTAAGTCTTTCGAGCATGATGATGAAATCCTT
1519956 TGGGTGTCAT
Statistics
Matches: 156, Mismatches: 31, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
38 15 0.10
39 7 0.04
40 6 0.04
41 7 0.04
42 121 0.78
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
TCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCA
Found at i:1519793 original size:22 final size:22
Alignment explanation
Indices: 1519762--1519823 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
1519752 GGCCATCAGT
1519762 AAGTCTTTCGAGCATGATGAGG
1 AAGTCTTTCGAGCATGATGAGG
* * * * *
1519784 AAGTCCTTCGGGC--CATCAGT
1 AAGTCTTTCGAGCATGATGAGG
1519804 AAGTCTTTCGAGCATGATGA
1 AAGTCTTTCGAGCATGATGA
1519824 TTAAATCCTT
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
20 15 0.52
22 14 0.48
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (22 bp):
AAGTCTTTCGAGCATGATGAGG
Found at i:1519813 original size:20 final size:20
Alignment explanation
Indices: 1519742--1519813 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
1519732 CGTGATGATG
*
1519742 AAGTCCTTCAGGCCATCAGT
1 AAGTCCTTCGGGCCATCAGT
* * * * *
1519762 AAGTCTTTCGAGCATGATGAGG
1 AAGTCCTTCGGGC--CATCAGT
1519784 AAGTCCTTCGGGCCATCAGT
1 AAGTCCTTCGGGCCATCAGT
*
1519804 AAGTCTTTCG
1 AAGTCCTTCG
1519814 AGCATGATGA
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
20 23 0.61
22 15 0.39
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (20 bp):
AAGTCCTTCGGGCCATCAGT
Found at i:1520588 original size:264 final size:266
Alignment explanation
Indices: 1520112--1520645 Score: 858
Period size: 264 Copynumber: 2.0 Consensus size: 266
1520102 GATCATCAGA
*
1520112 TGTGAAAGGAAATCGAATATTCTCGGGTACGAAGAAACAAAACAATCGATTAAAAAGGTTTGTGC
1 TGTGAAAGGAAATCGAATATTCTCAGGTACGAAGAAACAAAACAATCGATTAAAAAGGTTTGTGC
* * * *
1520177 ACGTGAGATGAAGGTGAAAGTCAAGAAAAAGATTGAAGAAAGGAAAAAGACATTGCAGTCAGACA
66 ACGTGAGATAAAGGAGAAAGTCAAGAAAAAGACTGAAGAAAGGAAAAAGACATTACAGTCAGACA
*
1520242 AAATTAGGTTAATTTTTATCTTTGCTACATTCTTGTGTTCACAACAACGTGCAAAGAGGGGCAGC
131 AAATTAGGTTAATTTTTATCTTTGCTACATTCTTGTGTTCACAACAACGAGCAAAGAGGGGCAGC
* *
1520307 TGTAATACCCTAATTTTGTCCGGACCATTTAAATTCATTTGAAGATGATCGAGAATTAATTTGAA
196 TGCAATACCCTAATTTTGTCCGGACCATTTAAATTCATTTGAAGATAATCGAGAATTAATTTGAA
1520372 GATATT
261 GATATT
* **** *
1520378 TGTG-AAGGAAATCGAATATTCTTAGGTACGAAGAAGTGGAACAATCGATTAAAAGGGTTTGTGC
1 TGTGAAAGGAAATCGAATATTCTCAGGTACGAAGAAACAAAACAATCGATTAAAAAGGTTTGTGC
* **
1520442 ACGTGAGA-AAAGGCAG-AAGTCAAGAAAAAGACTGAAGAAAGGAAAAAGACGTTATGGTCAGAC
66 ACGTGAGATAAAGG-AGAAAGTCAAGAAAAAGACTGAAGAAAGGAAAAAGACATTACAGTCAGAC
* * *
1520505 AAAATTAGGTTATTTTTTGTCTTTGCTACATTCTTGTGTTCACAACAATGAGCAAAGAGGGGCAG
130 AAAATTAGGTTAATTTTTATCTTTGCTACATTCTTGTGTTCACAACAACGAGCAAAGAGGGGCAG
1520570 CTGCAATACCCTAATTTTGTCCGGACCATTTAAATTCATTTGAAGATAATCGAGAATTAATTTGA
195 CTGCAATACCCTAATTTTGTCCGGACCATTTAAATTCATTTGAAGATAATCGAGAATTAATTTGA
1520635 AGATATT
260 AGATATT
1520642 TGTG
1 TGTG
1520646 CTCGATGAGA
Statistics
Matches: 247, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
264 181 0.73
265 62 0.25
266 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (266 bp):
TGTGAAAGGAAATCGAATATTCTCAGGTACGAAGAAACAAAACAATCGATTAAAAAGGTTTGTGC
ACGTGAGATAAAGGAGAAAGTCAAGAAAAAGACTGAAGAAAGGAAAAAGACATTACAGTCAGACA
AAATTAGGTTAATTTTTATCTTTGCTACATTCTTGTGTTCACAACAACGAGCAAAGAGGGGCAGC
TGCAATACCCTAATTTTGTCCGGACCATTTAAATTCATTTGAAGATAATCGAGAATTAATTTGAA
GATATT
Found at i:1522401 original size:2 final size:2
Alignment explanation
Indices: 1522390--1522436 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
1522380 TGTATATTGC
1522390 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1522431 AT AT AT
1 AT AT AT
1522437 GTGTGTAGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1522473 original size:17 final size:17
Alignment explanation
Indices: 1522451--1522491 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
1522441 GTAGGTTATA
1522451 ATGTATAGTTATAAAAG
1 ATGTATAGTTATAAAAG
1522468 ATGTATAGTTATAAAAG
1 ATGTATAGTTATAAAAG
1522485 ATGTATA
1 ATGTATA
1522492 TGATTTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
ATGTATAGTTATAAAAG
Found at i:1531864 original size:29 final size:29
Alignment explanation
Indices: 1531827--1531900 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
1531817 TAAAATTATT
*
1531827 AAATTTATTTTATTCTTT-TCT-TAACCTAA
1 AAATATATTTTATTCTTTAT-TATAA-CTAA
*
1531856 AAATATATTTTATT-TTTATTATAACTTA
1 AAATATATTTTATTCTTTATTATAACTAA
*
1531884 AAATATATTTTAATCTT
1 AAATATATTTTATTCTT
1531901 ATTTTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
28 20 0.51
29 19 0.49
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.55
Consensus pattern (29 bp):
AAATATATTTTATTCTTTATTATAACTAA
Found at i:1532013 original size:5 final size:5
Alignment explanation
Indices: 1532005--1532029 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1531995 AATTATATAT
1532005 TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA
1532030 AAATATATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:1532045 original size:33 final size:34
Alignment explanation
Indices: 1531985--1532055 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 34
1531975 ATTTATCCTT
* ** *
1531985 ATTTAACTTAAATTATATATTTTAATTTAATTTA
1 ATTTAACTTAAATAATATATTCCAATTTAATGTA
* *
1532019 ATTTAATTTAAA-AATATATTCCAATTTTATGTA
1 ATTTAACTTAAATAATATATTCCAATTTAATGTA
1532052 ATTT
1 ATTT
1532056 TAAAATATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
33 20 0.65
34 11 0.35
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (34 bp):
ATTTAACTTAAATAATATATTCCAATTTAATGTA
Found at i:1532097 original size:20 final size:22
Alignment explanation
Indices: 1532057--1532104 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
1532047 ATGTAATTTT
1532057 AAAATATTATAAGAATAAAATA
1 AAAATATTATAAGAATAAAATA
* *
1532079 TAAATATT-TAAG-TTAAAATA
1 AAAATATTATAAGAATAAAATA
1532099 AAAATA
1 AAAATA
1532105 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 12 0.52
21 4 0.17
22 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAATATTATAAGAATAAAATA
Found at i:1532105 original size:31 final size:30
Alignment explanation
Indices: 1532065--1532169 Score: 79
Period size: 35 Copynumber: 3.3 Consensus size: 30
1532055 TTAAAATATT
*
1532065 ATAAGAATAAAATATAAATATTTAAGTTAAA
1 ATAAAAATAAAATA-AAATATTTAAGTTAAA
*
1532096 ATAAAAATAAAAATAAAATATATTTTTAGGTTAAGA
1 ATAAAAAT-AAAAT-AAA-ATA--TTTAAGTTAA-A
**
1532132 A-AAAAATAAAA-AAAATAATTTAAAATAAA
1 ATAAAAATAAAATAAAAT-ATTTAAGTTAAA
*
1532161 AAAAAAATA
1 ATAAAAATA
1532170 TTTTAACGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
29 2 0.03
30 14 0.23
31 9 0.15
32 11 0.18
33 4 0.07
34 4 0.07
35 15 0.25
36 2 0.03
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (30 bp):
ATAAAAATAAAATAAAATATTTAAGTTAAA
Found at i:1532137 original size:35 final size:36
Alignment explanation
Indices: 1532065--1532143 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
1532055 TTAAAATATT
*
1532065 ATAAGAATAAAATATAAATATTTAAGTTAAAATAAAA
1 ATAAAAATAAAATAT-AATATTTAAGTTAAAATAAAA
* *
1532102 ATAAAAATAAAATAT-ATTTTTAGGTTAAGAA-AAAA
1 ATAAAAATAAAATATAATATTTAAGTTAA-AATAAAA
1532137 ATAAAAA
1 ATAAAAA
1532144 AAATAATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 22 0.58
36 2 0.05
37 14 0.37
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (36 bp):
ATAAAAATAAAATATAATATTTAAGTTAAAATAAAA
Found at i:1532172 original size:20 final size:19
Alignment explanation
Indices: 1532134--1532172 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1532124 GGTTAAGAAA
*
1532134 AAAATAAAAAAAATAATTT
1 AAAATAAAAAAAAAAATTT
1532153 AAAATAAAAAAAAAATATTT
1 AAAATAAAAAAAAAA-ATTT
1532173 TAACGTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATAAAAAAAAAAATTT
Found at i:1533518 original size:147 final size:147
Alignment explanation
Indices: 1533263--1533562 Score: 564
Period size: 147 Copynumber: 2.0 Consensus size: 147
1533253 AACAAATCAA
1533263 CAAACTAACAACTAATTACAACTTATTTCTAACATTCTCCCTACTTTCTCAACCTTCTTGATCTT
1 CAAACTAACAACTAATTACAACTTATTTCTAACATTCTCCCTACTTTCTCAACCTTCTTGATCTT
* *
1533328 CAGAACTTGACTCGTTCATGAGTAAATTACAATTCATTTATGACATTCTCCACTTGGCTAGTTCA
66 CAAAACTTGACTCGTTCACGAGTAAATTACAATTCATTTATGACATTCTCCACTTGGCTAGTTCA
1533393 CGATCAAAACTAGCCTC
131 CGATCAAAACTAGCCTC
*
1533410 CAAACTAACAACTAATTACAACTTATTTCTAACATTCTCCCTATTTTCTCAACCTTCTTGATCTT
1 CAAACTAACAACTAATTACAACTTATTTCTAACATTCTCCCTACTTTCTCAACCTTCTTGATCTT
*
1533475 CAAAACTTGACTCGTTCACGATTAAATTACAATTCATTTATGACATTCTCCACTTGGCTAGTTCA
66 CAAAACTTGACTCGTTCACGAGTAAATTACAATTCATTTATGACATTCTCCACTTGGCTAGTTCA
1533540 CGATCAAAACTAGCCTC
131 CGATCAAAACTAGCCTC
1533557 CAAACT
1 CAAACT
1533563 GGTTGAAGTT
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 149 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (147 bp):
CAAACTAACAACTAATTACAACTTATTTCTAACATTCTCCCTACTTTCTCAACCTTCTTGATCTT
CAAAACTTGACTCGTTCACGAGTAAATTACAATTCATTTATGACATTCTCCACTTGGCTAGTTCA
CGATCAAAACTAGCCTC
Found at i:1533697 original size:35 final size:35
Alignment explanation
Indices: 1533646--1533727 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
1533636 CTGTCAATGA
* *
1533646 GAATCAAAAGTACTATGCCTCATTTCGTTCAACTT
1 GAATCGAAAGTGCTATGCCTCATTTCGTTCAACTT
* *
1533681 GAATCGAAAGTGCTATGCCTCCTTTCGTTCTACTT
1 GAATCGAAAGTGCTATGCCTCATTTCGTTCAACTT
1533716 GAATCGAAAGTG
1 GAATCGAAAGTG
1533728 TGATGATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (35 bp):
GAATCGAAAGTGCTATGCCTCATTTCGTTCAACTT
Found at i:1533745 original size:35 final size:35
Alignment explanation
Indices: 1533646--1533880 Score: 120
Period size: 35 Copynumber: 6.3 Consensus size: 35
1533636 CTGTCAATGA
* * * * * *
1533646 GAATCAAAAGTACTATGCCTCATTTCGTTCAACTT
1 GAATCGAAAGTGCTATGACTCCTTCCGTTCTACTT
* *
1533681 GAATCGAAAGTGCTATGCCTCCTTTCGTTCTACTT
1 GAATCGAAAGTGCTATGACTCCTTCCGTTCTACTT
* *
1533716 GAATCGAAAGTG-TGATGATTTCTTCCGTTCTACTAT
1 GAATCGAAAGTGCT-ATGACTCCTTCCGTTCTACT-T
* *
1533752 AGAGGAGAATC-AAACTGCTATGCCTCCTTTCC-TTCTTA-TT
1 ------GAATCGAAAGTGCTATGACTCC-TTCCGTTC-TACTT
*
1533792 GAATCGAAAGTGCGATG-CTTCCTTCCGTTCTACTTTAT
1 GAATCGAAAGTGCTATGAC-TCCTTCCGTTCTAC--T-T
* * **
1533830 ACAAGAATCGAAAGTGCTATGCCTCCTTTCGTTAAACTT
1 ----GAATCGAAAGTGCTATGACTCCTTCCGTTCTACTT
1533869 GAATCGAAAGTG
1 GAATCGAAAGTG
1533881 TGATGCTTCA
Statistics
Matches: 159, Mismatches: 18, Indels: 46
0.71 0.08 0.21
Matches are distributed among these distances:
34 13 0.08
35 86 0.54
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 2 0.01
41 14 0.09
42 39 0.25
43 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (35 bp):
GAATCGAAAGTGCTATGACTCCTTCCGTTCTACTT
Found at i:1533781 original size:76 final size:77
Alignment explanation
Indices: 1533681--1533885 Score: 288
Period size: 76 Copynumber: 2.7 Consensus size: 77
1533671 CGTTCAACTT
*
1533681 GAATCGAAAGTGCTATGCCTCCTTTCGTTCTACTTGAATCGAAAGTGTGATGATTTCTTCCGTTC
1 GAATCGAAAGTGCTATGCCTCCTTTCGTTCTACTTGAATCGAAAGTGTGATGATTCCTTCCGTTC
**
1533746 TACTATAGAGGA
66 TACTATAGACAA
* * * *
1533758 GAATC-AAACTGCTATGCCTCCTTTCCTTCTTA-TTGAATCGAAAGTGCGATGCTTCCTTCCGTT
1 GAATCGAAAGTGCTATGCCTCCTTTCGTTC-TACTTGAATCGAAAGTGTGATGATTCCTTCCGTT
* *
1533821 CTACTTTATACAA
65 CTACTATAGACAA
**
1533834 GAATCGAAAGTGCTATGCCTCCTTTCGTTAAACTTGAATCGAAAGTGTGATG
1 GAATCGAAAGTGCTATGCCTCCTTTCGTTCTACTTGAATCGAAAGTGTGATG
1533886 CTTCATTTCA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
76 65 0.59
77 46 0.41
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (77 bp):
GAATCGAAAGTGCTATGCCTCCTTTCGTTCTACTTGAATCGAAAGTGTGATGATTCCTTCCGTTC
TACTATAGACAA
Found at i:1542142 original size:17 final size:17
Alignment explanation
Indices: 1542120--1542172 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
1542110 AATTAAGAGT
1542120 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
1542137 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
*
1542154 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
1542171 TA
1 TA
1542173 ACTTTATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:1542185 original size:18 final size:18
Alignment explanation
Indices: 1542123--1542190 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 18
1542113 TAAGAGTTAG
* *
1542123 TTTAATAAATGAACT-AG
1 TTTAATTAATGAACTAAC
* * *
1542140 TTTGATGAATGAACT-AG
1 TTTAATTAATGAACTAAC
1542157 TTTAATTAATGAACTAAC
1 TTTAATTAATGAACTAAC
1542175 TTT-ATTCAATGAACTA
1 TTTAATT-AATGAACTA
1542191 TATGCATGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
17 31 0.70
18 13 0.30
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (18 bp):
TTTAATTAATGAACTAAC
Found at i:1544710 original size:14 final size:14
Alignment explanation
Indices: 1544693--1544722 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1544683 TAACAAGATT
1544693 TAAATTCTCACCAA
1 TAAATTCTCACCAA
1544707 TAAATTCTCACCAA
1 TAAATTCTCACCAA
1544721 TA
1 TA
1544723 CACTCAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATTCTCACCAA
Found at i:1545109 original size:29 final size:28
Alignment explanation
Indices: 1545050--1545105 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1545040 CCCTCTTTAA
**
1545050 ACTTTTTATTTCTTTTTTTTGATTTTTT
1 ACTTTTTATTTCTTTTTTTCAATTTTTT
1545078 ACTTTTTATTT-TCTTTTTTCAATTTTTT
1 ACTTTTTATTTCT-TTTTTTCAATTTTTT
1545106 TACTAACCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (28 bp):
ACTTTTTATTTCTTTTTTTCAATTTTTT
Found at i:1548928 original size:29 final size:29
Alignment explanation
Indices: 1548857--1549100 Score: 171
Period size: 28 Copynumber: 8.4 Consensus size: 29
1548847 CATAATAATA
* * * *
1548857 TTAAAAATATTTTTTATTTTCATTTTAAA
1 TTAAAAATATATTTTATTTTTATCTTAAC
* *
1548886 TTATTAAATTTATTTTATTCTTT-TCTTAAC
1 TTA-AAAATATATTTTATT-TTTATCTTAAC
* *
1548916 TTAGAAATATATTTTATTTTTATTTTAAC
1 TTAAAAATATATTTTATTTTTATCTTAAC
* * * *
1548945 -TAAAAAAATATTTTAATCTTATATTAA-
1 TTAAAAATATATTTTATTTTTATCTTAAC
*
1548972 TTTAAAATATATTTTATTTTTATCTTAAC
1 TTAAAAATATATTTTATTTTTATCTTAAC
* *
1549001 TTTTAAAAATATATCTTATTTTTATTTTAAC
1 --TTAAAAATATATTTTATTTTTATCTTAAC
* **
1549032 TTATATAAA-A-A-TTAATCATTAT-TTAAC
1 TTA-A-AAATATATTTTATTTTTATCTTAAC
* * **
1549059 ATAAAATATATATTTTA-TTTTATTTTATT
1 TTAAAA-ATATATTTTATTTTTATCTTAAC
1549088 TTAAAAATATATT
1 TTAAAAATATATT
1549101 CCACTTTTAT
Statistics
Matches: 168, Mismatches: 33, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 8 0.05
28 66 0.39
29 37 0.22
30 22 0.13
31 31 0.18
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAAAATATATTTTATTTTTATCTTAAC
Found at i:1548959 original size:87 final size:86
Alignment explanation
Indices: 1548891--1549099 Score: 227
Period size: 87 Copynumber: 2.4 Consensus size: 86
1548881 TTAAATTATT
* * *
1548891 AAATTTATTTTATTCTTT-TCTTAAC-TTAGAAATATATTTTATTTTTATTTTAACTAAAAAAAT
1 AAATATATTTTATT-TTTATCTTAACTTTAAAAATATATCTTATTTTTATTTTAACTAAAAAAAT
1548954 ATTTTAATCTTATATTAATTTA
65 ATTTTAATCTTATATTAATTTA
*
1548976 AAATATATTTTATTTTTATCTTAACTTTTAAAAATATATCTTATTTTTATTTTAACTTATATAAA
1 AAATATATTTTATTTTTATCTTAAC-TTTAAAAATATATCTTATTTTTATTTTAAC-TA-AAAAA
**
1549041 A-A--TTAATCATTAT-TTAACATA
63 ATATTTTAATC-TTATATTAATTTA
* *
1549062 AAATATATATTT-TATTTTAT-TTTATTTTAAAAATATAT
1 AAATATAT-TTTAT-TTTTATCTTAACTTTAAAAATATAT
1549100 TCCACTTTTA
Statistics
Matches: 108, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
84 3 0.03
85 33 0.31
86 24 0.22
87 40 0.37
88 3 0.03
89 5 0.05
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (86 bp):
AAATATATTTTATTTTTATCTTAACTTTAAAAATATATCTTATTTTTATTTTAACTAAAAAAATA
TTTTAATCTTATATTAATTTA
Found at i:1548990 original size:33 final size:31
Alignment explanation
Indices: 1548953--1549043 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 31
1548943 ACTAAAAAAA
* *
1548953 TATTTTAATCTTATA-TTAATTTAAAATATATTT
1 TATTTTAATCTTA-ACTT--TTAAAAATATATCT
*
1548986 TATTTTTATCTTAACTTTTAAAAATATATCT
1 TATTTTAATCTTAACTTTTAAAAATATATCT
* *
1549017 TATTTTTATTTTAACTTATATAAAAAT
1 TATTTTAATCTTAACTT-T-TAAAAAT
1549044 TAATCATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
31 28 0.55
32 2 0.04
33 21 0.41
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (31 bp):
TATTTTAATCTTAACTTTTAAAAATATATCT
Found at i:1550875 original size:29 final size:28
Alignment explanation
Indices: 1550842--1550920 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 28
1550832 TTAGTAAAAA
*
1550842 GACAAAACTTTACATAAATTAAAATTAAG
1 GACAAAACTTT-TATAAATTAAAATTAAG
1550871 GACAAAACATTTTATAAATTAAAATTAAG
1 GACAAAAC-TTTTATAAATTAAAATTAAG
*
1550900 GATAAAAACTTTTATAAATTA
1 GA-CAAAACTTTTATAAATTA
1550921 TAATAGAGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 38 0.83
30 8 0.17
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (28 bp):
GACAAAACTTTTATAAATTAAAATTAAG
Found at i:1554095 original size:32 final size:31
Alignment explanation
Indices: 1554057--1554132 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
1554047 CGGGGCCGTG
* *
1554057 GGGCCTACCTAAGAACACATCTTAGGGTCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
1554089 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
1554120 GAGCCTACCTAAG
1 GGGCCTACCTAAG
1554133 TGTCACATTA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:1554116 original size:63 final size:63
Alignment explanation
Indices: 1554010--1554132 Score: 142
Period size: 63 Copynumber: 2.0 Consensus size: 63
1554000 ACCTAAGGGA
* * ** *
1554010 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* * *
1554073 ACATCTTAGGGTC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
1554133 TGTCACATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 2 0.04
63 48 0.96
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:1556970 original size:7 final size:7
Alignment explanation
Indices: 1556958--1556996 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
1556948 GGTCAACGTG
1556958 GGTCAAC
1 GGTCAAC
1556965 GGTCAAC
1 GGTCAAC
1556972 GGGTCAAC
1 -GGTCAAC
1556980 GGTCAAC
1 GGTCAAC
1556987 GGGTCAAC
1 -GGTCAAC
1556995 GG
1 GG
1556997 GTCGGGTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (7 bp):
GGTCAAC
Found at i:1556977 original size:15 final size:15
Alignment explanation
Indices: 1556957--1556996 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
1556947 TGGTCAACGT
1556957 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
1556972 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
1556987 GGGTCAACGG
1 GGGTCAACGG
1556997 GTCGGGTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:1557004 original size:13 final size:13
Alignment explanation
Indices: 1556999--1557047 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
1556989 GTCAACGGGT
*
1556999 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
1557012 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
1557025 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
1557038 CGGGTCGGGT
1 CGGGTCGGGT
1557048 TATGACCGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.16, C:0.18, G:0.47, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:1557009 original size:18 final size:18
Alignment explanation
Indices: 1556986--1557021 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1556976 CAACGGTCAA
1556986 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
*
1557004 CGGGTCAACTGGTCGGGT
1 CGGGTCAACGGGTCGGGT
1557022 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:1557017 original size:8 final size:8
Alignment explanation
Indices: 1556957--1556999 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
1556947 TGGTCAACGT
1556957 GGGTCAAC
1 GGGTCAAC
1556965 -GGTCAAC
1 GGGTCAAC
1556972 GGGTCAAC
1 GGGTCAAC
1556980 -GGTCAAC
1 GGGTCAAC
1556987 GGGTCAAC
1 GGGTCAAC
1556995 GGGTC
1 GGGTC
1557000 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.14
Consensus pattern (8 bp):
GGGTCAAC
Found at i:1559172 original size:32 final size:31
Alignment explanation
Indices: 1559136--1559211 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
1559126 CGGGGCCGTG
*
1559136 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
1559168 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
1559199 GAGCCTACCTAAG
1 GGGCCTACCTAAG
1559212 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:1559195 original size:63 final size:63
Alignment explanation
Indices: 1559089--1559211 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
1559079 ACCTAAGGGA
* * ** *
1559089 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
1559152 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
1559212 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:1562071 original size:8 final size:7
Alignment explanation
Indices: 1562031--1562068 Score: 67
Period size: 7 Copynumber: 5.3 Consensus size: 7
1562021 GGTCAACGTG
1562031 GGTCAAC
1 GGTCAAC
1562038 GGTCAAC
1 GGTCAAC
1562045 GGTCAAC
1 GGTCAAC
1562052 GGTCAAC
1 GGTCAAC
1562059 GGGTCAAC
1 -GGTCAAC
1562067 GG
1 GG
1562069 GTCGGGTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GGTCAAC
Found at i:1562081 original size:18 final size:18
Alignment explanation
Indices: 1562058--1562093 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1562048 CAACGGTCAA
1562058 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
*
1562076 CGGGTCAACTGGTCGGGT
1 CGGGTCAACGGGTCGGGT
1562094 AAACGGTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:1562103 original size:12 final size:13
Alignment explanation
Indices: 1562071--1562118 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
1562061 GTCAACGGGT
*
1562071 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
1562084 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
1562097 C-GGTCGGGTAAA
1 CGGGTCGGGTAAA
1562109 CGGGTCGGGT
1 CGGGTCGGGT
1562119 TATGACCGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 12 0.38
13 20 0.62
ACGTcount: A:0.17, C:0.19, G:0.46, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:1564918 original size:26 final size:26
Alignment explanation
Indices: 1564886--1564946 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
1564876 GAATGTTGAG
1564886 GCCTTGTGCCATAGTTAGTCTTAAGT
1 GCCTTGTGCCATAGTTAGTCTTAAGT
*
1564912 GTCTTGTGCCATAGTTAGTCTTAAGT
1 GCCTTGTGCCATAGTTAGTCTTAAGT
1564938 GCCTTGTGC
1 GCCTTGTGC
1564947 ACTACATAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (26 bp):
GCCTTGTGCCATAGTTAGTCTTAAGT
Found at i:1570479 original size:2 final size:2
Alignment explanation
Indices: 1570472--1570506 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1570462 GCGCTTCCAA
1570472 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1570507 GAATTGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1576368 original size:35 final size:34
Alignment explanation
Indices: 1576328--1576440 Score: 88
Period size: 34 Copynumber: 3.2 Consensus size: 34
1576318 GGGGGTTTTG
1576328 GTAAAAATGATCAAATAATAAAAAATCAATTTAAA
1 GTAAAAATGAT-AAATAATAAAAAATCAATTTAAA
* * * * *
1576363 GTAAAAAT-A-AAGAAAATAAAGAATGTAAAGTTGAAG
1 GTAAAAATGATAA-ATAATAAA-AA-ATCAA-TTTAAA
* *
1576399 GTAAAAATGATTAAATAAT-AAAAAGCGATTTAAA
1 GTAAAAATGA-TAAATAATAAAAAATCAATTTAAA
1576433 GTAAAAAT
1 GTAAAAAT
1576441 AAAGAATGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
32 2 0.03
33 7 0.12
34 15 0.25
35 12 0.20
36 14 0.24
37 3 0.05
38 4 0.07
39 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (34 bp):
GTAAAAATGATAAATAATAAAAAATCAATTTAAA
Found at i:1588330 original size:28 final size:26
Alignment explanation
Indices: 1588293--1588347 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
1588283 CTTTTCTCTG
*
1588293 TCTTTTCTT-ATCTTTGATTGTTAATTC
1 TCTTTTCTTAAGC-TTGATT-TTAATTC
1588320 TCTTTTCCTTAAGCTTGATTTTAATTC
1 TCTTTT-CTTAAGCTTGATTTTAATTC
1588347 T
1 T
1588348 TAATTGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 14 0.56
28 9 0.36
29 2 0.08
ACGTcount: A:0.16, C:0.16, G:0.07, T:0.60
Consensus pattern (26 bp):
TCTTTTCTTAAGCTTGATTTTAATTC
Found at i:1590573 original size:20 final size:19
Alignment explanation
Indices: 1590548--1590595 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
1590538 GAAATGATCG
1590548 ATCCCTTAAAAAAAGGACCA
1 ATCCCTT-AAAAAAGGACCA
* *
1590568 ATCCCTCGTGAAAAAGGATCA
1 ATCCCT--TAAAAAAGGACCA
1590589 ATCCCTT
1 ATCCCTT
1590596 CTCTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 6 0.25
21 16 0.67
22 1 0.04
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (19 bp):
ATCCCTTAAAAAAGGACCA
Found at i:1592364 original size:13 final size:13
Alignment explanation
Indices: 1592346--1592384 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
1592336 TAAATAAGAT
1592346 CTATTTATATATA
1 CTATTTATATATA
1592359 CTATTTCTATATATA
1 CTA-TT-TATATATA
*
1592374 CTATTCATATA
1 CTATTTATATA
1592385 AGTATATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 8 0.35
14 4 0.17
15 11 0.48
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (13 bp):
CTATTTATATATA
Found at i:1604685 original size:81 final size:81
Alignment explanation
Indices: 1604585--1605077 Score: 666
Period size: 81 Copynumber: 6.1 Consensus size: 81
1604575 ACAGTTCTAA
* * * * *
1604585 AGTAAAAGATTAATGGCCTAGCTGTGTATTTTGCAGAAATGTGTCAATTATCCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1604650 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
1604666 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGCCAGAAAGCTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1604731 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
*
1604747 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1604812 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * ** * *
1604828 AGTAAAAGATTAATAGCCTAGCTGTGTATTTTTCAGAAATGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1604893 AGGTTAAATACCTTTC
66 AGGTTAAATACCTTTG
* ** * * ***
1604909 AATAAAAGATTAATGGAATAGATGTG-TTTTGGCAGAAAGGTGTCAATTATTTTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1604973 A-GATAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
1604988 AGTAAAAGATTAATGGCCTAGTTGTGCAATTGGGAGAAAAGTGTCAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
1605053 AGGCTAAATGCCTTTG
66 AGGTTAAATACCTTTG
*
1605069 GGTAAAAGA
1 AGTAAAAGA
1605078 CTAAAGGATA
Statistics
Matches: 361, Mismatches: 49, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
79 34 0.09
80 64 0.18
81 263 0.73
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:1609865 original size:81 final size:80
Alignment explanation
Indices: 1609773--1610267 Score: 625
Period size: 81 Copynumber: 6.1 Consensus size: 80
1609763 ATAGTTCTAA
*
1609773 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCTAGTTAGATAAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAG-TGTCAATTATGCTAGTTAGATGAA
*
1609838 ATGTTAAATACCTTTG
65 AGGTTAAATACCTTTG
* ** *
1609854 AGTAAAAGATTATTGGCCTAGCTGTGCATTAAGCAGAAAGGTGTGAATTATG-TCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAA-GTGTCAATTATGCT-AGTTAGATGA
*
1609918 AAGGTTAAATAACTTTG
64 AAGGTTAAATACCTTTG
* * * *
1609935 AGTAAAAGATTAATGGTCTAGTTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAA-GTGTCAATTATGCTAGTTAGATGAA
1610000 AGGTTAAATACCTTTG
65 AGGTTAAATACCTTTG
* * * * * *
1610016 AGTAAAAGATTAATGGCCTAGATGTGCATTTGGAAGAAAGGTGTCAATTATCCCAATTAAATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAA-GTGTCAATTATGCTAGTTAGATGAA
*
1610081 ATGTTAAATACCTTTG
65 AGGTTAAATACCTTTG
* * * *
1610097 AGTAAAAGATTAATGGCCTACCTGTGCATTTGGCATAAATGTGTTAATTACG-TCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAA-GTGTCAATTATGCT-AGTTAGATGA
*
1610161 AATGTTAAATACCTTTG
64 AAGGTTAAATACCTTTG
* * * * *
1610178 AGTGAAATATTAATGGCCTAGCTGTGCATTTGGCAGAAAAGTGACAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAG-AAAGTGTCAATTATGCTAGTTAGATGAA
* *
1610243 AGGCTAAATGCCTTTG
65 AGGTTAAATACCTTTG
*
1610259 GGTAAAAGA
1 AGTAAAAGA
1610268 CTAAAAGATT
Statistics
Matches: 357, Mismatches: 51, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.00
81 352 0.99
82 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (80 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGTGTCAATTATGCTAGTTAGATGAAA
GGTTAAATACCTTTG
Found at i:1610206 original size:243 final size:243
Alignment explanation
Indices: 1609773--1610267 Score: 720
Period size: 243 Copynumber: 2.0 Consensus size: 243
1609763 ATAGTTCTAA
* * * * * *
1609773 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCTAGTTAGATAAA
1 AGTAAAAGATTAATGGCCTAGATGTGCATTTGGAAGAAAGATGTCAATTATCCCAATTAAATAAA
* *
1609838 ATGTTAAATACCTTTGAGTAAAAGATTATTGGCCTAGCTGTGCATTAAGCAGAAAGGTGTGAATT
66 ATGTTAAATACCTTTGAGTAAAAGATTAATGGCCTACCTGTGCATTAAGCAGAAAGGTGTGAATT
* * *
1609903 ATGTCAGTTAGATGAAAGGTTAAATAACTTTGAGTAAAAGATTAATGGTCTAGTTGTGCATTTGG
131 ACGTCAGTTAGATGAAAGGTTAAATAACTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
* * * * * *
1609968 TAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
196 CAGAAAAGTGACAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTG
* *
1610016 AGTAAAAGATTAATGGCCTAGATGTGCATTTGGAAGAAAGGTGTCAATTATCCCAATTAAATGAA
1 AGTAAAAGATTAATGGCCTAGATGTGCATTTGGAAGAAAGATGTCAATTATCCCAATTAAATAAA
** * * *
1610081 ATGTTAAATACCTTTGAGTAAAAGATTAATGGCCTACCTGTGCATTTGGCATAAATGTGTTAATT
66 ATGTTAAATACCTTTGAGTAAAAGATTAATGGCCTACCTGTGCATTAAGCAGAAAGGTGTGAATT
* * * *
1610146 ACGTCAGTTAGATGAAATGTTAAATACCTTTGAGTGAAATATTAATGGCCTAGCTGTGCATTTGG
131 ACGTCAGTTAGATGAAAGGTTAAATAACTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
*
1610211 CAGAAAAGTGACAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTG
196 CAGAAAAGTGACAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTG
*
1610259 GGTAAAAGA
1 AGTAAAAGA
1610268 CTAAAAGATT
Statistics
Matches: 222, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
243 222 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (243 bp):
AGTAAAAGATTAATGGCCTAGATGTGCATTTGGAAGAAAGATGTCAATTATCCCAATTAAATAAA
ATGTTAAATACCTTTGAGTAAAAGATTAATGGCCTACCTGTGCATTAAGCAGAAAGGTGTGAATT
ACGTCAGTTAGATGAAAGGTTAAATAACTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
CAGAAAAGTGACAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTG
Found at i:1615223 original size:117 final size:122
Alignment explanation
Indices: 1615008--1615694 Score: 831
Period size: 117 Copynumber: 5.7 Consensus size: 122
1614998 CACTCGAGGG
1615008 ATCAACATTTCCAGAAGAAG-TTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCA-AA-AAGATTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* *
1615072 AATTTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAG-A-G-GATAGAGCAGC
64 AATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* *
1615128 ATCAACATTTCCAAAAAGATTCGTAAT-A-AAGAACTCACCTGAAGAGGAAGGAGAAGTTCATAA
1 ATCAACATTTCCAAAAAGATTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
1615191 TCTGAAGAACTTGTTCAACCTTTTGTTCGACTCTATCGCAGAAGGAGATAGAGTAGC
66 TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* *
1615248 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAAAAAGA-TTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * *
1615313 ATCTGAAGAACTTGTTCAACCTTTTGCTCGACTCTAT--C--AAGAAGATTGAGCAAC
65 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * *
1615367 ATCAATATTTCC-AAAAGGTTC---ATAATAAGAACTCATCTGAAGA-G--GAAGAAGTTCATAA
1 ATCAACATTTCCAAAAAGATTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
*
1615425 TCTGAAG-ACTTA-TCAACCTTTTGCTCGACTTTATCGCAGAAGGAGATAGAGCAGC
66 TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * *
1615480 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAA-AAAAAGTTCATA
1 ATCAACATTTCCAAAAAGA-TTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *** *
1615544 ATCTGAAGAACTTATTTAACCTTTTGCTCAACTCTATTATAGAAGGAGATAGAGCAAC
65 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * * * * *
1615602 CTCAACATTTTAAACAAAATGAGTTCATAATGAGAATAACTCATCTG-AGAAGGAAGAAGAAGTT
1 ATCAACA-TTT--CCAAAAAGA-TTCGTAATAAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTT
** *
1615666 CATAATGAGAAGAACTTATTCAACATTTT
61 CATAATCTGAAGAACTTATTCAACCTTTT
1615695 CGTCTAAATC
Statistics
Matches: 490, Mismatches: 51, Indels: 46
0.83 0.09 0.08
Matches are distributed among these distances:
109 21 0.04
110 4 0.01
111 22 0.04
113 25 0.05
114 24 0.05
115 3 0.01
117 73 0.15
118 29 0.06
119 35 0.07
120 59 0.12
121 14 0.03
122 43 0.09
123 71 0.14
124 2 0.00
125 33 0.07
126 32 0.07
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAAAAAGATTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
Found at i:1615527 original size:232 final size:239
Alignment explanation
Indices: 1615008--1615682 Score: 927
Period size: 240 Copynumber: 2.8 Consensus size: 239
1614998 CACTCGAGGG
*
1615008 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * *
1615073 ATTTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAGGATAGAGCAGCATCAACATTT
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGAAGAAGATAGAGCAACATCAACATTT
*
1615138 CCAAAAAGATTCGTAATAAAGAACTCACCTGAAGAGGAAGGAGAAGTTCATAATCTGAAGAACTT
131 CCAAAAAGATTCATAATAAAGAACTCACCTGAAGAGGAA-GAGAAGTTCATAATCTGAAGAACTT
* * *
1615203 GTTCAACCTTTTGTTCGACTCTATCGCAGAAGGAGATAGAGTAGC
195 GATCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
1615248 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
1615313 ATCTGAAGAACTTGTTCAACCTTTTGCTCGACTCTATC-AAGAAGATTGAGCAACATCAATATTT
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGAAGAAGATAGAGCAACATCAACATTT
* *
1615377 CC-AAAAGGTTCATAAT-AAGAACTCATCTGAAGAGG-A-AGAAGTTCATAATCTGAAG-ACTT-
131 CCAAAAAGATTCATAATAAAGAACTCACCTGAAGAGGAAGAGAAGTTCATAATCTGAAGAACTTG
*
1615436 ATCAACCTTTTGCTCGACTTTATCGCAGAAGGAGATAGAGCAGC
196 ATCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
*
1615480 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAA-AAAAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * *
1615544 ATCTGAAGAACTTATTTAACCTTTTGCTCAACTCTATTATAGAAGGAGATAGAGCAACCTCAACA
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTC---TATCGAAGAAGATAGAGCAACATCAACA
* * * * *
1615609 TTTTAAACAAAATGAGTTCATAATGAGAATAACTCATCTG-AGAAGGAAGAAGAAGTTCATAATG
128 -TTT--CCAAAAAGA-TTCATAAT-A-AAGAACTCACCTGAAG-AGGAAG-AGAAGTTCATAATC
*
1615673 AGAAGAACTT
185 TGAAGAACTT
1615683 ATTCAACATT
Statistics
Matches: 387, Mismatches: 31, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
231 42 0.11
232 92 0.24
233 4 0.01
234 22 0.06
235 19 0.05
236 4 0.01
237 18 0.05
238 13 0.03
239 27 0.07
240 107 0.28
242 2 0.01
243 15 0.04
244 1 0.00
246 17 0.04
247 4 0.01
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (239 bp):
ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGAAGAAGATAGAGCAACATCAACATTT
CCAAAAAGATTCATAATAAAGAACTCACCTGAAGAGGAAGAGAAGTTCATAATCTGAAGAACTTG
ATCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
Found at i:1615708 original size:354 final size:352
Alignment explanation
Indices: 1615034--1615710 Score: 902
Period size: 354 Copynumber: 1.9 Consensus size: 352
1615024 GAAGTTCGTA
*
1615034 ATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATTTGAAGAACTTATTCAACCTTTTG
1 ATAAGAAGAACTCATCTGAAGAGG-AGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTG
*
1615099 CTTGACTCTATCGCAGAGGATAGAGCAGCATCAACATTTCCAAAAAGATTCGTAATAAAGAACTC
65 CTCGACTCTATCGCAGAGGATAGAGCAGCATCAACATTTCCAAAAAGATTCGTAATAAAGAACTC
* * * * * *
1615164 ACCTGAAGAGGAAGGAGAAGTTCATAATCTGAAGAACTTGTTCAACCTTTTGTTCGACTCTATCG
130 ACCTGAAGAGGAAGAAAAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTCAACTCTATCA
* * * * *
1615229 CAGAAGGAGATAGAGTAGCATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAA
195 CAGAAGGAGATAGAGCAACATCAACATTTACAAAAGGAGTTCATAATAAGAAGAACTCATCTGAA
* * * **
1615294 GAGGAAGAAGAAGTTCATAATCTGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCAAGAAGAT
260 GAGGAAGAAGAAGTTCATAATCAGAAGAACTTATTCAACCATTT-CTCGACTAAATCAAGAAGAT
1615359 TGAGCAACATCAATATTTCCAAAAGGTTC
324 TGAGCAACATCAATATTTCCAAAAGGTTC
*
1615388 ATAATAAGAACTCATCTGAAGA-G-GAAGAAGTTCATAATCTGAAG-ACTTA-TCAACCTTTTGC
1 ATAAGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGC
* * *
1615449 TCGACTTTATCGCAGAAGGAGATAGAGCAGCATCAACATTTCCAGAAGGAGTTCGTAATAAGAAG
66 TCGACTCTATCGCAG-A-G-GATAGAGCAGCATCAACATTTCCAAAAAGA-TTCGTAAT-A-AAG
* *
1615514 AACTCATCTGAAGAGGAA-AAAAAGTTCATAATCTGAAGAACTTATTTAACCTTTTGCTCAACTC
125 AACTCACCTGAAGAGGAAGAAAAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTCAACTC
* * * * * *
1615578 TATTATAGAAGGAGATAGAGCAACCTCAACATTTTAAACAAAATGAGTTCATAATGAGAATAACT
190 TATCACAGAAGGAGATAGAGCAACATCAACA-TTT--ACAAAAGGAGTTCATAATAAGAAGAACT
* *
1615643 CATCTG-AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAA-CATTT-TCGTCTAAATC
252 CATCTGAAG-AGGAAGAAGAAGTTCATAATCAGAAGAACTTATTCAACCATTTCTCGACTAAATC
1615705 AAGAAG
316 AAGAAG
1615711 TCAAATGGAC
Statistics
Matches: 281, Mismatches: 32, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
349 25 0.09
350 6 0.02
351 21 0.07
352 28 0.10
353 9 0.03
354 101 0.36
355 23 0.08
356 6 0.02
357 62 0.22
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (352 bp):
ATAAGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGC
TCGACTCTATCGCAGAGGATAGAGCAGCATCAACATTTCCAAAAAGATTCGTAATAAAGAACTCA
CCTGAAGAGGAAGAAAAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTCAACTCTATCAC
AGAAGGAGATAGAGCAACATCAACATTTACAAAAGGAGTTCATAATAAGAAGAACTCATCTGAAG
AGGAAGAAGAAGTTCATAATCAGAAGAACTTATTCAACCATTTCTCGACTAAATCAAGAAGATTG
AGCAACATCAATATTTCCAAAAGGTTC
Found at i:1615813 original size:3 final size:3
Alignment explanation
Indices: 1615805--1615879 Score: 91
Period size: 3 Copynumber: 25.3 Consensus size: 3
1615795 TATCCATTTG
* * * *
1615805 TTA TTA TTA TTA TTT TTA TTA -TA TTA TTA AT- TTA ATA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1615851 TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
1615880 AATAATAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 3 0.05
3 57 0.90
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1616423 original size:20 final size:20
Alignment explanation
Indices: 1616376--1616416 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1616366 GTGGTGGCCT
1616376 ATAAAAACCATCACACCTGC
1 ATAAAAACCATCACACCTGC
1616396 ATAAAAACCATCACACCTGC
1 ATAAAAACCATCACACCTGC
1616416 A
1 A
1616417 AACAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.34, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAAACCATCACACCTGC
Found at i:1617338 original size:2 final size:2
Alignment explanation
Indices: 1617331--1617415 Score: 149
Period size: 2 Copynumber: 44.0 Consensus size: 2
1617321 CACATTAATA
1617331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1617373 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1617412 AT AT
1 AT AT
1617416 GAAAGATTCA
Statistics
Matches: 80, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 3 0.04
2 77 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1619393 original size:7 final size:7
Alignment explanation
Indices: 1619381--1619414 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1619371 ATTCCCTCCG
1619381 TTTTTTC
1 TTTTTTC
1619388 TTTTTTC
1 TTTTTTC
*
1619395 TTTTTCTT
1 TTTTT-TC
1619403 TTTTTTC
1 TTTTTTC
1619410 TTTTT
1 TTTTT
1619415 ATATTCTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:1619400 original size:13 final size:13
Alignment explanation
Indices: 1619382--1619406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1619372 TTCCCTCCGT
1619382 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
1619395 TTTTTCTTTTTT
1 TTTTTCTTTTTT
1619407 TTCTTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:1624244 original size:15 final size:14
Alignment explanation
Indices: 1624210--1624247 Score: 60
Period size: 13 Copynumber: 2.7 Consensus size: 14
1624200 TGTTGAAATT
1624210 GTTTTATTTTAAAA
1 GTTTTATTTTAAAA
1624224 -TTTTATTTGTAAAA
1 GTTTTATTT-TAAAA
1624238 GTTTTATTTT
1 GTTTTATTTT
1624248 TAATGAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.36
14 6 0.27
15 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (14 bp):
GTTTTATTTTAAAA
Found at i:1627851 original size:93 final size:94
Alignment explanation
Indices: 1627655--1627841 Score: 252
Period size: 93 Copynumber: 2.0 Consensus size: 94
1627645 ATACCGATGA
* ** *
1627655 GGTAGTATCGATACCATGGTAAATGTATCGATACCAAGCAATGTCGAATCTAAAATCGGTATGGA
1 GGTAGTATCGATACCATGGTAAAGGTATCGATACCAAGCAACATCGAACCTAAAATCGGTATGGA
* *
1627720 TACTGAAGGGGGTATCGGTACCATAGTAT
66 TACGGAAGGGAGTATCGGTACCATAGTAT
* * * *
1627749 GGTAGTATCGATACCATGGTAAGGGTA-CGATACCAGGCAACATCGAACCTAAAATTGGTATTGA
1 GGTAGTATCGATACCATGGTAAAGGTATCGATACCAAGCAACATCGAACCTAAAATCGGTATGGA
*
1627813 TACCGGAAGGGAGTATC-GTACCATTGTAT
66 TA-CGGAAGGGAGTATCGGTACCATAGTAT
1627842 TTAAGTATCG
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
93 44 0.54
94 37 0.46
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (94 bp):
GGTAGTATCGATACCATGGTAAAGGTATCGATACCAAGCAACATCGAACCTAAAATCGGTATGGA
TACGGAAGGGAGTATCGGTACCATAGTAT
Found at i:1628176 original size:54 final size:54
Alignment explanation
Indices: 1628105--1628219 Score: 194
Period size: 54 Copynumber: 2.1 Consensus size: 54
1628095 TTACCAAATA
*
1628105 GGCATTAAATGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
1 GGCACTAAATGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
* *
1628159 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAATGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
*
1628213 GACACTA
1 GGCACTA
1628220 TGTAAATCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (54 bp):
GGCACTAAATGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
Found at i:1628422 original size:14 final size:15
Alignment explanation
Indices: 1628405--1628433 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1628395 TACTAAAAGT
1628405 TTAAAAAT-AAATAA
1 TTAAAAATGAAATAA
1628419 TTAAAAATGAAATAA
1 TTAAAAATGAAATAA
1628434 ATAATCCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TTAAAAATGAAATAA
Found at i:1628543 original size:30 final size:31
Alignment explanation
Indices: 1628470--1628578 Score: 165
Period size: 31 Copynumber: 3.6 Consensus size: 31
1628460 CAATCCATAT
*
1628470 TTTAAAA-AAATCAATCCA-A-TAAAAATTA
1 TTTAAAATAAATCAATCCATACTAATAATTA
1628498 TTTAAAATAAATCAATCCATACTAATAATTA
1 TTTAAAATAAATCAATCCATACTAATAATTA
1628529 TTTAAAAT-AATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAAT-AATTA
1628560 TTT-AAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
1628579 TTTAAAATAA
Statistics
Matches: 75, Mismatches: 1, Indels: 7
0.90 0.01 0.08
Matches are distributed among these distances:
28 7 0.09
29 11 0.15
30 22 0.29
31 35 0.47
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAATTA
Found at i:1628706 original size:26 final size:25
Alignment explanation
Indices: 1628651--1628720 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
1628641 AAATCAATCC
1628651 ATATT-TTAAAATAAATCAACAAATA
1 ATATTATTAAAA-AAATCAACAAATA
*
1628676 A-ATTATTAAAAAAATGAACATAATA
1 ATATTATTAAAAAAATCAACA-AATA
*
1628701 ATATTATTTAAAATAATCAA
1 ATATTA-TTAAAAAAATCAA
1628721 TCAATATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 11 0.29
25 12 0.32
26 4 0.11
27 11 0.29
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (25 bp):
ATATTATTAAAAAAATCAACAAATA
Found at i:1628763 original size:151 final size:156
Alignment explanation
Indices: 1628496--1628934 Score: 574
Period size: 151 Copynumber: 2.8 Consensus size: 156
1628486 CAATAAAAAT
* *
1628496 TATTTAAAATAAATCAATCCATACTAAT-AATTATTTAAAAT-AATCAATCCATACTAATAAATT
1 TATTTAAAAT-AA-CAATCCATACAAATAAATTATTTAAAATAAATCAAT--ACA-TAATAAATT
1628559 ATTT-AAATAAATCAATCCATTTTAAAATAAATCAAT--TCACTAATAAATTATTTAAAATAAAT
61 ATTTAAAATAAATCAATCCATTTTAAAATAAATCAATCAT-ACTAATAAATTATTT-AAATAAAT
1628621 CAATCCATACAACTACAAT-A-AAATCAATCCA
124 CAATCCATACAACTACAATAATAAATCAATCCA
*
1628652 TATTTTAAAAT-A-AAT-CA-ACAAATAAATTA-TTAAAA-AAAT-GA-ACATAATAATATTATT
1 TA-TTTAAAATAACAATCCATACAAATAAATTATTTAAAATAAATCAATACATAATAA-ATTATT
*
1628709 TAAAAT-AATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCA
64 TAAAATAAATCAATC--CATTTTAAAATAAATCAAT-CATACTAATAAATTATTTAAATAAATCA
1628773 ATCCATACAACTACAATAATAAATCAATCCA
126 ATCCATACAACTACAATAATAAATCAATCCA
*
1628804 TATTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATACATACTAAATTATT
1 TATTTAAAAT-AA-CAATCCATACAAATAAATTATTTAAAATAAATCAATACATAATAAATTATT
1628869 TAAAATAAATCAATCCATTTTAAAATAAATCAAT-ATACTAA-AAA-TATTTAAATAAATCAATC
64 TAAAATAAATCAATCCATTTTAAAATAAATCAATCATACTAATAAATTATTTAAATAAATCAATC
1628931 CATA
129 CATA
1628935 TTTTAAAATA
Statistics
Matches: 253, Mismatches: 7, Indels: 47
0.82 0.02 0.15
Matches are distributed among these distances:
146 6 0.02
147 17 0.07
148 4 0.02
149 18 0.07
150 28 0.11
151 38 0.15
152 21 0.08
153 4 0.02
155 26 0.10
156 7 0.03
157 27 0.11
158 6 0.02
159 22 0.09
160 13 0.05
161 16 0.06
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (156 bp):
TATTTAAAATAACAATCCATACAAATAAATTATTTAAAATAAATCAATACATAATAAATTATTTA
AAATAAATCAATCCATTTTAAAATAAATCAATCATACTAATAAATTATTTAAATAAATCAATCCA
TACAACTACAATAATAAATCAATCCA
Found at i:1628845 original size:14 final size:14
Alignment explanation
Indices: 1628828--1628878 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1628818 CAATCCATAC
1628828 AAATAAATTATTTA
1 AAATAAATTATTTA
* *
1628842 AAATAAATCA-ATA
1 AAATAAATTATTTA
*
1628855 CATACTAAATTATTTA
1 -A-AATAAATTATTTA
1628871 AAATAAAT
1 AAATAAAT
1628879 CAATCCATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
13 2 0.07
14 16 0.57
15 8 0.29
16 2 0.07
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:1628873 original size:29 final size:30
Alignment explanation
Indices: 1628804--1628882 Score: 124
Period size: 29 Copynumber: 2.6 Consensus size: 30
1628794 AATCAATCCA
*
1628804 TATTTAAAATAAATCAATCCATACAAATAAAT
1 TATTTAAAATAAATCAATACATAC--ATAAAT
1628836 TATTTAAAATAAATCAATACATAC-TAAAT
1 TATTTAAAATAAATCAATACATACATAAAT
1628865 TATTTAAAATAAATCAAT
1 TATTTAAAATAAATCAAT
1628883 CCATTTTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
29 23 0.50
32 23 0.50
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (30 bp):
TATTTAAAATAAATCAATACATACATAAAT
Found at i:1628910 original size:47 final size:48
Alignment explanation
Indices: 1628838--1628968 Score: 178
Period size: 49 Copynumber: 2.7 Consensus size: 48
1628828 AAATAAATTA
1628838 TTTAAAATAAATCAATACATACTAAATTATTTAAAATAAATCAATCC-AT
1 TTTAAAATAAATCAAT--ATACTAAATTATTTAAAATAAATCAATCCAAT
*
1628887 TTTAAAATAAATCAATATACTAAAAATATTT-AAATAAATCAATCCATAT
1 TTTAAAATAAATCAATATACT-AAATTATTTAAAATAAATCAATCCA-AT
* *
1628936 TTTAAAATAAAT-ATTATAATAAATTATTTAAAA
1 TTTAAAATAAATCAATATACTAAATTATTTAAAA
1628969 AATATTTTAA
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
47 27 0.36
48 17 0.23
49 30 0.41
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (48 bp):
TTTAAAATAAATCAATATACTAAATTATTTAAAATAAATCAATCCAAT
Found at i:1629007 original size:14 final size:14
Alignment explanation
Indices: 1628933--1629059 Score: 139
Period size: 14 Copynumber: 9.6 Consensus size: 14
1628923 AATCAATCCA
*
1628933 TATTTTAAAATAAA
1 TATTTTAAAATAAT
* *
1628947 TATTATAATA-AAT
1 TATTTTAAAATAAT
1628960 TA-TTTAAAA-AA-
1 TATTTTAAAATAAT
1628971 TATTTTAAAATAAT
1 TATTTTAAAATAAT
1628985 T-TTTT--AATAAT
1 TATTTTAAAATAAT
1628996 TATTTTAAAATAAT
1 TATTTTAAAATAAT
1629010 TATTTT-AAATAAAT
1 TATTTTAAAAT-AAT
1629024 TA-TTTAAAATAAAT
1 TATTTTAAAAT-AAT
1629038 TATTTTAAAA-AAT
1 TATTTTAAAATAAT
1629051 TATTTTAAA
1 TATTTTAAA
1629060 TAAAAACCTT
Statistics
Matches: 99, Mismatches: 5, Indels: 19
0.80 0.04 0.15
Matches are distributed among these distances:
11 9 0.09
12 18 0.18
13 29 0.29
14 36 0.36
15 7 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTTTAAAATAAT
Found at i:1629024 original size:28 final size:28
Alignment explanation
Indices: 1628933--1629059 Score: 148
Period size: 25 Copynumber: 4.8 Consensus size: 28
1628923 AATCAATCCA
* *
1628933 TATTTTAAAATAAA-TATTATAATA-AAT
1 TATTTT-AAATAAATTATTTTAAAATAAT
1628960 TA-TTTAAA-AAA-TATTTTAAAATAAT
1 TATTTTAAATAAATTATTTTAAAATAAT
1628985 T-TTTT-AAT-AATTATTTTAAAATAAT
1 TATTTTAAATAAATTATTTTAAAATAAT
1629010 TATTTTAAATAAATTA-TTTAAAATAAAT
1 TATTTTAAATAAATTATTTTAAAAT-AAT
1629038 TATTTTAAA-AAATTATTTTAAA
1 TATTTTAAATAAATTATTTTAAA
1629060 TAAAAACCTT
Statistics
Matches: 89, Mismatches: 2, Indels: 17
0.82 0.02 0.16
Matches are distributed among these distances:
24 15 0.17
25 25 0.28
26 7 0.08
27 19 0.21
28 23 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TATTTTAAATAAATTATTTTAAAATAAT
Found at i:1629029 original size:27 final size:27
Alignment explanation
Indices: 1628933--1629062 Score: 134
Period size: 27 Copynumber: 5.0 Consensus size: 27
1628923 AATCAATCCA
*
1628933 TATTTTAAAATAAA-TA-TTATAATAAAT
1 TATTTT-AAATAAATTATTTAAAAT-AAT
1628960 TA-TTTAAA-AAA-TATTTTAAAATAAT
1 TATTTTAAATAAATTA-TTTAAAATAAT
1628985 T-TTTT-AAT-AATTATTTTAAAATAAT
1 TATTTTAAATAAATTA-TTTAAAATAAT
1629010 TATTTTAAATAAATTATTTAAAATAAAT
1 TATTTTAAATAAATTATTTAAAAT-AAT
*
1629038 TATTTTAAA-AAATTATTTTAAATAA
1 TATTTTAAATAAATTATTTAAAATAA
1629063 AAACCTTATT
Statistics
Matches: 92, Mismatches: 2, Indels: 19
0.81 0.02 0.17
Matches are distributed among these distances:
24 9 0.10
25 25 0.27
26 15 0.16
27 26 0.28
28 17 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTTTAAATAAATTATTTAAAATAAT
Found at i:1629086 original size:26 final size:27
Alignment explanation
Indices: 1629017--1629086 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
1629007 AATTATTTTA
* **
1629017 AATAAATTATTTAAAATAAATTATTTT
1 AATAAATTATTTAAAATAAATAACCTT
* *
1629044 AAAAAATTATTTTAAATAAA-AACCTT
1 AATAAATTATTTAAAATAAATAACCTT
*
1629070 ATTAAATTATTTAAAAT
1 AATAAATTATTTAAAAT
1629087 TATTTTAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 17 0.49
27 18 0.51
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
AATAAATTATTTAAAATAAATAACCTT
Found at i:1629466 original size:52 final size:53
Alignment explanation
Indices: 1629301--1629715 Score: 508
Period size: 52 Copynumber: 7.9 Consensus size: 53
1629291 ACCACCTTAT
*
1629301 TGAATATCCGTACAGGCACTATCTGTGCAAATCCACGGAATTCATCATGAGTTGA
1 TGAATACCCGTACAGGCACTA--TGTGCAAATCCACGGAATTCATCATGAGTTGA
* * * **
1629356 TGAATA--AGTACAAGCACTATGTGTGTAAATCCACATAATTCATCATGAGTTGA
1 TGAATACCCGTACAGGCACTA--TGTGCAAATCCACGGAATTCATCATGAGTTGA
* *
1629409 TGAATACCCATACAGGCACTATGTGCAAA-CCACGAAATTCATCATGAGTTGA
1 TGAATACCCGTACAGGCACTATGTGCAAATCCACGGAATTCATCATGAGTTGA
*
1629461 TGAATACCCGTACAGGCACTATGTATGCAAATCCACGGAATTCGTCATGAGTTGA
1 TGAATACCCGTACAGGCACTATG--TGCAAATCCACGGAATTCATCATGAGTTGA
** ** *
1629516 TGAATAATCGTACAAACA-TATGTGAAAATCCAC-GAATTCATCATGAGTTGA
1 TGAATACCCGTACAGGCACTATGTGCAAATCCACGGAATTCATCATGAGTTGA
* * *
1629567 TGAATA-CCGTAC-GACACTA--TGCAAAACCATGGAATTCATCATGAGTTGA
1 TGAATACCCGTACAGGCACTATGTGCAAATCCACGGAATTCATCATGAGTTGA
* *
1629616 TGAATAACCGTACA-GCACTATGTGTAAATCCACGGAATTCATCATGAGTTGA
1 TGAATACCCGTACAGGCACTATGTGCAAATCCACGGAATTCATCATGAGTTGA
*
1629668 TGAATACCCGTACAGGCACTATGTGTGCAAATCCACGAAATTCATCAT
1 TGAATACCCGTACAGGCACTA--TGTGCAAATCCACGGAATTCATCAT
1629716 TAGATGAATA
Statistics
Matches: 313, Mismatches: 33, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
48 8 0.03
49 27 0.09
50 18 0.06
51 23 0.07
52 93 0.30
53 60 0.19
54 10 0.03
55 74 0.24
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (53 bp):
TGAATACCCGTACAGGCACTATGTGCAAATCCACGGAATTCATCATGAGTTGA
Found at i:1629699 original size:207 final size:206
Alignment explanation
Indices: 1629324--1629731 Score: 572
Period size: 207 Copynumber: 2.0 Consensus size: 206
1629314 AGGCACTATC
* * *
1629324 TGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAAGTACAAGCACTATGTGTGTAAATCCA
1 TGTGAAAATCCACGGAATTCATCATGAGTTGATGAATAAGTACAAGCACTA---GTGCAAAACCA
* *
1629389 CATAATTCATCATGAGTTGATGAATACCCATACAGGCACTATGTGCAAACCACGAAATTCATCAT
63 CAGAATTCATCATGAGTTGATGAATAACCATACAGGCACTATGTGCAAACCACGAAATTCATCAT
* * *
1629454 GAGTTGATGAATACCCGTACAGGCACTATGTATGCAAATCCACGGAATTCGTCATGAGTTGATGA
128 GAGTTGATGAATACCCGTACAGGCACTATGTATGCAAATCCACGAAATTCATCAT---TAGATGA
1629519 ATAATCGTACAAACATA
190 ATAATCGTACAAACATA
* * **
1629536 TGTGAAAATCCAC-GAATTCATCATGAGTTGATGAATACCGTACGA-CACTA-TGCAAAACCATG
1 TGTGAAAATCCACGGAATTCATCATGAGTTGATGAATA-AGTACAAGCACTAGTGCAAAACCACA
* * *
1629598 GAATTCATCATGAGTTGATGAATAACCGTACA-GCACTATGTGTAAATCCACGGAATTCATCATG
65 GAATTCATCATGAGTTGATGAATAACCATACAGGCACTATGTGCAAA-CCACGAAATTCATCATG
*
1629662 AGTTGATGAATACCCGTACAGGCACTATGTGTGCAAATCCACGAAATTCATCATTAGATGAATAA
129 AGTTGATGAATACCCGTACAGGCACTATGTATGCAAATCCACGAAATTCATCATTAGATGAATAA
1629727 TCGTA
194 TCGTA
1629732 AAGGTACGAT
Statistics
Matches: 178, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
204 15 0.08
206 13 0.07
207 104 0.58
211 29 0.16
212 17 0.10
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (206 bp):
TGTGAAAATCCACGGAATTCATCATGAGTTGATGAATAAGTACAAGCACTAGTGCAAAACCACAG
AATTCATCATGAGTTGATGAATAACCATACAGGCACTATGTGCAAACCACGAAATTCATCATGAG
TTGATGAATACCCGTACAGGCACTATGTATGCAAATCCACGAAATTCATCATTAGATGAATAATC
GTACAAACATA
Found at i:1629794 original size:207 final size:205
Alignment explanation
Indices: 1629392--1629794 Score: 546
Period size: 207 Copynumber: 1.9 Consensus size: 205
1629382 AAATCCACAT
*
1629392 AATTCATCATGAGTTGATGAATACCCATACAGGCACTATGTGCAAACCACGAAATTCATCATGAG
1 AATTCATCATGAGTTGATGAATAACCATACAGGCACTATGTGCAAACCACGAAATTCATCATGAG
* * *
1629457 TTGATGAATACCCGTACAGGCACTATGTATGCAAATCCACGGAATTCGTCATGAGTTGATGAATA
66 TTGATGAATACCCGTACAGGCACTATGTATGCAAATCCACGAAATTCATCAT--GTAGATGAATA
* * *
1629522 ATCGTACAAACATATGTGAAAATCCACGAATTCATCATGAGTTGATGAATACCGTACGACACTAT
129 ATCGTACAAACATATATGAAAATCCACGAATTCATCATGAGTTGAAGAATACCGTAAGACACTAT
1629587 GCAAAACCATGG
194 GCAAAACCATGG
* * *
1629599 AATTCATCATGAGTTGATGAATAACCGTACA-GCACTATGTGTAAATCCACGGAATTCATCATGA
1 AATTCATCATGAGTTGATGAATAACCATACAGGCACTATGTGCAAA-CCACGAAATTCATCATGA
*
1629663 GTTGATGAATACCCGTACAGGCACTATGTGTGCAAATCCACGAAATTCATCAT-TAGATGAATAA
65 GTTGATGAATACCCGTACAGGCACTATGTATGCAAATCCACGAAATTCATCATGTAGATGAATAA
* * * * *
1629727 TCGTA-AAGGTACGATGTATGCAACT-CA-GAATTCATCATGAGTTGAAGAACTATCGTATAGGC
130 TCGTACAA---AC-ATATATGAAAATCCACGAATTCATCATGAGTTGAAGAA-TACCGTA-AGAC
1629789 ACTATG
189 ACTATG
1629795 TGGCATTTTA
Statistics
Matches: 173, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
203 2 0.01
204 15 0.09
205 21 0.12
206 23 0.13
207 112 0.65
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (205 bp):
AATTCATCATGAGTTGATGAATAACCATACAGGCACTATGTGCAAACCACGAAATTCATCATGAG
TTGATGAATACCCGTACAGGCACTATGTATGCAAATCCACGAAATTCATCATGTAGATGAATAAT
CGTACAAACATATATGAAAATCCACGAATTCATCATGAGTTGAAGAATACCGTAAGACACTATGC
AAAACCATGG
Found at i:1630105 original size:80 final size:80
Alignment explanation
Indices: 1629960--1630184 Score: 319
Period size: 80 Copynumber: 2.8 Consensus size: 80
1629950 TGACCTAGTT
* * * *
1629960 GTGCATTTGACAGAAATATGTCAATTATGCTAGTTAGA-G-AAAGTTAAATACCTTTCAGTAAAA
1 GTGCTTTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTGAGTAAAA
1630023 GATTAATAGCTAGCC
66 GATTAATAGCTAGCC
* *
1630038 GTGCTTTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTGAGTAAAA
1 GTGCTTTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTGAGTAAAA
**
1630103 GATTAATAGCTAGTT
66 GATTAATAGCTAGCC
* * * * *
1630118 GTGCTTTTGACAGAAATGTGCCAATAATGCCAGTTAGATGAAAGGTTATATGCCTTTGAGTAAAA
1 GTGCTTTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTGAGTAAAA
1630183 GA
66 GA
1630185 CTAGATGTAT
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
78 33 0.25
79 1 0.01
80 96 0.74
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (80 bp):
GTGCTTTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAAGTTAAATACCTTTGAGTAAAA
GATTAATAGCTAGCC
Found at i:1630317 original size:45 final size:42
Alignment explanation
Indices: 1630201--1630324 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 42
1630191 GTATAACACT
1630201 ATATAATAGTGTATAAAAGGCATGAAAGGA-GCCATAATGAA
1 ATATAATAGTGTATAAAAGGCATGAAAGGATGCCATAATGAA
* *
1630242 ATAT-ATATTGTATAAAAGGCATGAAAGGATGTCATAATGAA
1 ATATAATAGTGTATAAAAGGCATGAAAGGATGCCATAATGAA
* * *
1630283 ATGTATAATAGCGTACAAAAGCGCATGAAGGGATGCCATAAT
1 A--TATAATAGTGTATAAAAG-GCATGAAAGGATGCCATAAT
1630325 TAATGCATAA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
40 24 0.34
41 15 0.21
43 3 0.04
44 11 0.15
45 18 0.25
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.24
Consensus pattern (42 bp):
ATATAATAGTGTATAAAAGGCATGAAAGGATGCCATAATGAA
Found at i:1632423 original size:21 final size:21
Alignment explanation
Indices: 1632372--1632424 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
1632362 CTTCTTGGAA
* *
1632372 GCTTCACCATAAGAATTCATG
1 GCTTCAACAAAAGAATTCATG
* *
1632393 GAC-TCGACAAAAGATTTCATG
1 G-CTTCAACAAAAGAATTCATG
1632414 GCTTCAACAAA
1 GCTTCAACAAA
1632425 GACTCTGATG
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (21 bp):
GCTTCAACAAAAGAATTCATG
Found at i:1645935 original size:26 final size:27
Alignment explanation
Indices: 1645878--1645928 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1645868 TTCTTGTTCC
*
1645878 TCAGACACATTTCAGAAACTTTTACAT
1 TCAGACACATTTCAGAAACTTTCACAT
1645905 TCAGACACATTTCAG-AACTTTCAC
1 TCAGACACATTTCAGAAACTTTCAC
1645929 TTCCAGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (27 bp):
TCAGACACATTTCAGAAACTTTCACAT
Found at i:1652172 original size:24 final size:24
Alignment explanation
Indices: 1652140--1652186 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1652130 AAATATAAGT
1652140 TAGTATCGTACTAACATAATCTAG
1 TAGTATCGTACTAACATAATCTAG
1652164 TAGTATCGTACTAACATAATCTA
1 TAGTATCGTACTAACATAATCTA
1652187 TAATTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (24 bp):
TAGTATCGTACTAACATAATCTAG
Found at i:1653702 original size:5 final size:5
Alignment explanation
Indices: 1653684--1653722 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
1653674 AATTTAGTCC
*
1653684 TTTAA TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1653723 TACCCTTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:1655033 original size:24 final size:24
Alignment explanation
Indices: 1655004--1655050 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1654994 AACTATAAGT
1655004 TAGTATCGTACTAACACAATCTAG
1 TAGTATCGTACTAACACAATCTAG
*
1655028 TAGTATCGTACTAACATAATCTA
1 TAGTATCGTACTAACACAATCTA
1655051 TAATTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (24 bp):
TAGTATCGTACTAACACAATCTAG
Found at i:1656575 original size:5 final size:5
Alignment explanation
Indices: 1656557--1656596 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
1656547 AATTTAGTCC
*
1656557 TTTAA TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1656597 CCCTTCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:1661933 original size:75 final size:75
Alignment explanation
Indices: 1661844--1662730 Score: 1181
Period size: 75 Copynumber: 11.8 Consensus size: 75
1661834 AAAATATCAG
* * * *
1661844 AAATTTTATCTCACTCT-AGATAGTTTTTCTTAAAACAAACTTTGTCTCACTTAAGACAGTTTTC
1 AAATTTTATCTCACT-TGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTC
1661908 ACTCGAAACAT
65 ACTCGAAACAT
* * * *
1661919 AAATTTTATCTCACTTGGGATTCTTTTTCTTAAATCAAACTTCGTCTCCCTTGAGACAGTTTTCA
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTCA
* *
1661984 CTCGAAAAAG
66 CTCGAAACAT
* * *
1661994 AAATTTTGTCTCACTTGAGATTGTTTTTCTTAAAAAAAACTTCGTCTCGCTTGAGACAATTTTCA
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTCA
* * *
1662059 CTCAAAATAG
66 CTCGAAACAT
* * *
1662069 AAATTTTATCTCACTTAAGATTGTTTTTCTTAAAACAAAC-TCTGTCTCGCATGAGACAGTTTCC
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTC-GTCTCGCTTGAGACAGTTTTC
*
1662133 ACTCGAAACAA
65 ACTCGAAACAT
** * *
1662144 AAATTTTATCTCACTTGAGATTAATTTTCTTAAAACAAACTTCATCTCGCTTGAGGCAGTTTTCA
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTCA
1662209 CTCGAAACAT
66 CTCGAAACAT
* * * ** *
1662219 AAGTTTTATCTCACTCGAGATAGTTTTTCTTAAAACAAACTTATTCTCGCTTGAGACAGTTTTTA
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTCA
*
1662284 CTTGAAACA-
66 CTCGAAACAT
* * * * *
1662293 AAAGTTTATCTCACTTGATATTATTTTTCTTAAAACAAA-TTCCATCTCGCTTGAGATAGTTTTC
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTT-CGTCTCGCTTGAGACAGTTTTC
*
1662357 ACTCAAAACAT
65 ACTCGAAACAT
* * * **
1662368 AAATTTTATCTCACTTGTGATTGTTTTGCTTAAAACAAACTTCATCTTTCTTGAGACAGTTTTCA
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTCA
1662433 CTCGAAACAT
66 CTCGAAACAT
*
1662443 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCCTCTCGCTTGAGACAGTTTTCA
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTCA
*
1662508 CTTGAAACA-
66 CTCGAAACAT
** * *
1662517 AGAGGTTTATCTCACTTGAAATTGTTTTTCTTAAAACAAACTTCATCTCGCTTGAGACAGTTTTC
1 A-AATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTC
1662582 ACTCGAAACAT
65 ACTCGAAACAT
* * *
1662593 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCGCTTGAGAAAGTTTTTA
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTCA
*
1662658 CTCGAAACAAG
66 CTCGAAAC-AT
* * * * *
1662669 AAATTTTATTTCACTCGAGATTGTTTTTCTTAAAACAAATTTCATCTCGCTTGAGAAAGTTT
1 AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTT
1662731 CCCTTGAAAT
Statistics
Matches: 713, Mismatches: 90, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
73 2 0.00
74 63 0.09
75 585 0.82
76 63 0.09
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (75 bp):
AAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCGTCTCGCTTGAGACAGTTTTCA
CTCGAAACAT
Found at i:1664193 original size:18 final size:18
Alignment explanation
Indices: 1664156--1664194 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1664146 GGCTAGAAGA
*
1664156 TTTACGTTTTTTGGGCTT
1 TTTACGTTTTTTGAGCTT
1664174 TTTACGTTATTTTGAG-TT
1 TTTACGTT-TTTTGAGCTT
1664192 TTT
1 TTT
1664195 CGATCACCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.10, C:0.08, G:0.18, T:0.64
Consensus pattern (18 bp):
TTTACGTTTTTTGAGCTT
Found at i:1664745 original size:16 final size:16
Alignment explanation
Indices: 1664720--1664751 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1664710 CAATTTAGTC
1664720 TTTTAATTTATTTTTA
1 TTTTAATTTATTTTTA
*
1664736 TTTTATTTTATTTTTA
1 TTTTAATTTATTTTTA
1664752 ACCTTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTAATTTATTTTTA
Found at i:1669159 original size:3 final size:3
Alignment explanation
Indices: 1669146--1669175 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
1669136 CTCCAGAGCT
1669146 TTC TTC TTTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TT
1669176 TTTCATACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:1670771 original size:15 final size:15
Alignment explanation
Indices: 1670741--1670781 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1670731 AACATGCATC
1670741 ACATA-ATAAT-TAAA
1 ACATATATAATAT-AA
*
1670755 ACATATTTAATATAA
1 ACATATATAATATAA
1670770 ACATATATAATA
1 ACATATATAATA
1670782 CTTACGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 17 0.74
16 1 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (15 bp):
ACATATATAATATAA
Found at i:1672692 original size:31 final size:31
Alignment explanation
Indices: 1672630--1672694 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
1672620 AGAGTCGAGG
* *
1672630 GTTTACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTAGGTTCTAAGGAACATATAGACA
** * *
1672661 GTTTACCTAGGTTCTTCGGGACCTATAGACA
1 GTTTACCTAGGTTCTAAGGAACATATAGACA
1672692 GTT
1 GTT
1672695 ACCGAGGATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (31 bp):
GTTTACCTAGGTTCTAAGGAACATATAGACA
Found at i:1672714 original size:30 final size:30
Alignment explanation
Indices: 1672680--1672744 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
1672670 GGTTCTTCGG
1672680 GACCTATAGACAGTTACCGAGGATCTTTAT
1 GACCTATAGACAGTTACCGAGGATCTTTAT
* * *
1672710 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTATAGACAGTTACCGAGGATCTTTAT
1672740 GACCT
1 GACCT
1672745 CTGGATAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (30 bp):
GACCTATAGACAGTTACCGAGGATCTTTAT
Found at i:1672745 original size:30 final size:30
Alignment explanation
Indices: 1672691--1672752 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1672681 ACCTATAGAC
1672691 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
1672721 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
1672751 AG
1 AG
1672753 GTCTTTCGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:1676761 original size:3 final size:3
Alignment explanation
Indices: 1676748--1676778 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
1676738 CTACAGAGCT
1676748 TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC
1676779 ATACGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:1678210 original size:30 final size:30
Alignment explanation
Indices: 1678162--1678234 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
1678152 GGTTCTTCGG
*
1678162 GACCTATGGACAGCTACCGAGGATCTTTAT
1 GACCTATGGATAGCTACCGAGGATCTTTAT
* *
1678192 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTATGGATAGCTACCGAGGATCTTTAT
*
1678222 GACCTTTGGATAG
1 GACCTATGGATAG
1678235 GTCCTTCGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTATGGATAGCTACCGAGGATCTTTAT
Found at i:1684454 original size:29 final size:30
Alignment explanation
Indices: 1684400--1684460 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
1684390 TTTTAATCCT
* *
1684400 TAAACTTTTCAAAATTTATACTTTGGCCAC
1 TAAACTTTTCAAAACTTACACTTTGGCCAC
* *
1684430 TAAACTTTT-AAAACTTACATTTTGGTCAC
1 TAAACTTTTCAAAACTTACACTTTGGCCAC
1684459 TA
1 TA
1684461 CTAAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (30 bp):
TAAACTTTTCAAAACTTACACTTTGGCCAC
Found at i:1685159 original size:24 final size:24
Alignment explanation
Indices: 1685083--1685152 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
1685073 AAAATGAAAT
*
1685083 TATTTTTTGACTAAAAATAATGGG
1 TATTTTTTGACAAAAAATAATGGG
1685107 TATTTTTTGACAAAAAATAATGGG
1 TATTTTTTGACAAAAAATAATGGG
1685131 TATTTTTTGAC-AAAAATAATGG
1 TATTTTTTGACAAAAAATAATGG
1685153 AAAATTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 11 0.24
24 34 0.76
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (24 bp):
TATTTTTTGACAAAAAATAATGGG
Found at i:1686045 original size:18 final size:18
Alignment explanation
Indices: 1686022--1686060 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1686012 GTTTCATTTT
1686022 AGTACATACAATTAAAAA
1 AGTACATACAATTAAAAA
1686040 AGTACATACAATTAAAAA
1 AGTACATACAATTAAAAA
1686058 AGT
1 AGT
1686061 TAATTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (18 bp):
AGTACATACAATTAAAAA
Found at i:1686373 original size:12 final size:12
Alignment explanation
Indices: 1686333--1686378 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
1686323 ATTTTGATCA
1686333 AAATATTATTTAT
1 AAATA-TATTTAT
*
1686346 AAAAATATTTA-
1 AAATATATTTAT
1686357 AAATATATTTAT
1 AAATATATTTAT
*
1686369 TAATAT-TTTA
1 AAATATATTTA
1686379 ATCACATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 14 0.48
12 11 0.38
13 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AAATATATTTAT
Found at i:1686661 original size:23 final size:23
Alignment explanation
Indices: 1686616--1686662 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1686606 ACCCATGTTC
**
1686616 AAAATATAAAGTTAAGTTTTAAA
1 AAAATATAAAGTTAAGTACTAAA
1686639 AAAATA-AAAGTTTAAGTACTAAA
1 AAAATATAAAG-TTAAGTACTAAA
1686662 A
1 A
1686663 CATACTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAATATAAAGTTAAGTACTAAA
Found at i:1688424 original size:12 final size:12
Alignment explanation
Indices: 1688407--1688431 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1688397 AGAAATATCA
1688407 ACAAAATAGAGC
1 ACAAAATAGAGC
1688419 ACAAAATAGAGC
1 ACAAAATAGAGC
1688431 A
1 A
1688432 TAGACAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (12 bp):
ACAAAATAGAGC
Found at i:1691781 original size:3 final size:3
Alignment explanation
Indices: 1691773--1691816 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1691763 TGGGCTTGTA
1691773 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1691817 ATTTTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1691829 original size:3 final size:3
Alignment explanation
Indices: 1691823--1691867 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
1691813 TTATATTTTT
*
1691823 TAA TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
1691868 ATAAATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1692536 original size:113 final size:112
Alignment explanation
Indices: 1692220--1692664 Score: 497
Period size: 113 Copynumber: 4.0 Consensus size: 112
1692210 ATAGAATTAT
* * ** * *
1692220 GCAAAATGTTGAATAAGCTCTTCTCATTGTGAAC-T-TT-TTCTTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTATTCAGATGAGTTCTTCTCA
* * * * *
1692282 TTATGAACTCGAACTGGAAAAGTTGATACATCAAGTGATGGATTTGA
66 TTATGAACTCGACCTGGAAAAGTTGATCCATCAAATGATGAATTTAA
* * * *
1692329 GCAAATGGTTGAACAAATTCTTTTCATTATGAATTTCTTCTTCTTCA--GATGATGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTT-ATTCA-GATGAGTTCTTCT
* * * * * *
1692392 CATTATGAACCCTACCTGGCAATGTTGATCCATCAAACGATGAATTCAA
64 CATTATGAACTCGACCTGGAAAAGTTGATCCATCAAATGATGAATTTAA
*
1692441 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTATTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTATTCAGATGAGTTCTTCTC
* * *
1692506 ATTATGAACTCGACCTGGAAATGTTGATCCACCGAATGATGAATTTAA
65 ATTATGAACTCGACCTGGAAAAGTTGATCCATCAAATGATGAATTTAA
* * * * *
1692554 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTGCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT-TCTTATTCAGATGAGTTCTTCTC
** * *
1692619 ATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTT
65 ATTATGAACTCGAC-CTGGAAAAGTTGATCCATCAAATGATGAATTT
1692665 GAATCTTTGC
Statistics
Matches: 280, Mismatches: 46, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
109 26 0.09
110 1 0.00
111 3 0.01
112 96 0.34
113 153 0.55
114 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTATTCAGATGAGTTCTTCTCA
TTATGAACTCGACCTGGAAAAGTTGATCCATCAAATGATGAATTTAA
Found at i:1693752 original size:94 final size:93
Alignment explanation
Indices: 1693472--1693763 Score: 487
Period size: 93 Copynumber: 3.1 Consensus size: 93
1693462 CTTATTTCTA
* * * * *
1693472 CTATGATCGCATTCATCTTTCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAT
1 CTATGAGCACATTCATCTTTCAAATTAAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
1693537 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
*
1693565 CTGTGAGCACATTCATCTTTCAAATTAAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATTAAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
1693630 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* *
1693658 CTATGAGCACATTCATCTTTCAAATTAAATGATTGGTT-TTTCGGGGTTCATACCAAACCAGATC
1 CTATGAGCACATTCATCTTTCAAATTAAATGATTGGTTCTGT--GGTTTCATACCAAACCAGATC
1693722 AGATAACTCAAAGAACACTTCCAGAAGATG
64 AGATAACTCAAAGAACACTTCCAGAAGATG
1693752 CTATGAGCACAT
1 CTATGAGCACAT
1693764 GGCACTTGTT
Statistics
Matches: 188, Mismatches: 9, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
92 2 0.01
93 124 0.66
94 62 0.33
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (93 bp):
CTATGAGCACATTCATCTTTCAAATTAAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:1694706 original size:7 final size:7
Alignment explanation
Indices: 1694690--1694734 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
1694680 CTTGACCCCC
*
1694690 TTTCTCT
1 TTTCTTT
1694697 TTTCTTT
1 TTTCTTT
1694704 TTTCTTT
1 TTTCTTT
*
1694711 TCTCTTT
1 TTTCTTT
1694718 TTT-TTT
1 TTTCTTT
1694724 CTTTCTTT
1 -TTTCTTT
1694732 TTT
1 TTT
1694735 TTTCCTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 3 0.09
7 27 0.82
8 3 0.09
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:1694716 original size:14 final size:14
Alignment explanation
Indices: 1694690--1694749 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
1694680 CTTGACCCCC
1694690 TTTCTCTTT-TCTTT
1 TTTCT-TTTCTCTTT
1694704 TTTCTTTTCTCTTT
1 TTTCTTTTCTCTTT
*
1694718 TTT-TTTCTTTCTTT
1 TTTCTTT-TCTCTTT
*
1694732 TTT-TTTCCT-TTT
1 TTTCTTTTCTCTTT
1694744 TTTCTT
1 TTTCTT
1694750 CAAGCATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 6 0.15
13 9 0.22
14 25 0.62
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCTTTTCTCTTT
Found at i:1694722 original size:16 final size:15
Alignment explanation
Indices: 1694694--1694743 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
1694684 ACCCCCTTTC
*
1694694 TCTTTTCTTTTTTCT
1 TCTTTTCTTTTTTTT
*
1694709 T-TTCTCTTTTTTTT
1 TCTTTTCTTTTTTTT
1694723 TC-TTTCTTTTTTTT
1 TCTTTTCTTTTTTTT
1694737 TCCTTTT
1 T-CTTTT
1694744 TTTCTTCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 24 0.83
15 2 0.07
16 3 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TCTTTTCTTTTTTTT
Found at i:1694723 original size:24 final size:24
Alignment explanation
Indices: 1694696--1694746 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
1694686 CCCCTTTCTC
*
1694696 TTTTCTTT-TTTCTTTTCTCTTTTT
1 TTTTCTTTCTTT-TTTTCTCCTTTT
*
1694720 TTTTCTTTCTTTTTTTTTCCTTTT
1 TTTTCTTTCTTTTTTTCTCCTTTT
1694744 TTT
1 TTT
1694747 CTTCAAGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (24 bp):
TTTTCTTTCTTTTTTTCTCCTTTT
Found at i:1694732 original size:12 final size:11
Alignment explanation
Indices: 1694696--1694749 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 11
1694686 CCCCTTTCTC
1694696 TTTTCTTTTTT
1 TTTTCTTTTTT
1694707 CTTTTCTCTTTTT
1 -TTTTCT-TTTTT
1694720 TTTTCTTTCTTT
1 TTTTCTTT-TTT
*
1694732 TTTT-TTCCTTT
1 TTTTCTT-TTTT
1694743 TTTTCTT
1 TTTTCTT
1694750 CAAGCATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 11 0.30
12 21 0.57
13 5 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:1707534 original size:3 final size:3
Alignment explanation
Indices: 1707528--1707587 Score: 75
Period size: 3 Copynumber: 19.0 Consensus size: 3
1707518 ATATTTTTTT
* *
1707528 TAA TAA TAA TAA TAA TATA TATA TAA TTA TAA TAA TAA TTAA TTA TAA
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA -TAA TAA TAA
1707576 TAA TAA TAA TAA
1 TAA TAA TAA TAA
1707588 ATAAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 41 0.80
4 10 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1710562 original size:31 final size:31
Alignment explanation
Indices: 1710524--1710584 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1710514 GAGTCGAGGG
* *
1710524 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACAAATGGACTGA
1710555 TTACCTATGTTCTTCGGAACAAATGGACTG
1 TTACCTATGTTCTTCGGAACAAATGGACTG
1710585 GTCTTTCGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACAAATGGACTGA
Done.