Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008157.1 Hibiscus syriacus cultivar Beakdansim tig00110724_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: 217995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:7389 original size:33 final size:33
Alignment explanation
Indices: 7347--7413 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
7337 GTGAATCTTG
7347 AATAAAATAAAAACTTTCCTTCTTGAAAACTCT
1 AATAAAATAAAAACTTTCCTTCTTGAAAACTCT
7380 AATAAAATAAAAACTTTCCTTCTTGAAAACTCT
1 AATAAAATAAAAACTTTCCTTCTTGAAAACTCT
7413 A
1 A
7414 GTTCTATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (33 bp):
AATAAAATAAAAACTTTCCTTCTTGAAAACTCT
Found at i:7620 original size:3 final size:3
Alignment explanation
Indices: 7606--7658 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
7596 AATCGAGATG
*
7606 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7654 ATA AT
1 ATA AT
7659 TATTATTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8117 original size:21 final size:21
Alignment explanation
Indices: 8093--8189 Score: 77
Period size: 21 Copynumber: 4.6 Consensus size: 21
8083 AAAGGTTAAG
*
8093 ACCTTTCGATGAAAGGACTTA
1 ACCTTTTGATGAAAGGACTTA
* ** *
8114 ACCTTTTGATTAAAATACTTC
1 ACCTTTTGATGAAAGGACTTA
* * *
8135 TCCTTTTAATGAAAGGCCTTA
1 ACCTTTTGATGAAAGGACTTA
* * *
8156 ACCTTTTCATAAAAGGATTTA
1 ACCTTTTGATGAAAGGACTTA
* *
8177 ATCTTTTCATGAA
1 ACCTTTTGATGAA
8190 TAGAATTGTT
Statistics
Matches: 57, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (21 bp):
ACCTTTTGATGAAAGGACTTA
Found at i:16154 original size:13 final size:13
Alignment explanation
Indices: 16136--16165 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16126 AGACTGGTGG
*
16136 TCAAAGGATATGC
1 TCAAAGGATATGA
16149 TCAAAGGATATGA
1 TCAAAGGATATGA
16162 TCAA
1 TCAA
16166 GTGACGATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.23
Consensus pattern (13 bp):
TCAAAGGATATGA
Found at i:19557 original size:16 final size:18
Alignment explanation
Indices: 19525--19559 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
19515 ATATAAAAAC
19525 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
19543 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
19559 A
1 A
19560 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:21047 original size:105 final size:105
Alignment explanation
Indices: 20749--21580 Score: 1298
Period size: 105 Copynumber: 8.0 Consensus size: 105
20739 CATTGTTCCA
* * * ** * * *
20749 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * *
20814 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* **
20855 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
20915 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
20955 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTTAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
21020 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
21060 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
21125 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
21165 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
21230 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
21270 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* * *
21335 AGCGGTCCCTTCATCATGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
21375 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGAC-AGA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG-
*
21439 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
21480 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * *
21545 CAGCCGTCCCTTCGTTGTGAAGTTAAACTTGTGTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
21581 CCTCGAGTGC
Statistics
Matches: 677, Mismatches: 41, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
100 82 0.12
101 1 0.00
102 4 0.01
103 4 0.01
104 5 0.01
105 507 0.75
106 73 0.11
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:22397 original size:65 final size:67
Alignment explanation
Indices: 22224--22379 Score: 192
Period size: 68 Copynumber: 2.3 Consensus size: 67
22214 AGATATATGT
* * * * ** *
22224 TGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGAGT
22289 TTG
65 TTG
* *
22292 TGTTTCAAGAGTAACTGTCTCAAAGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAG-GTT
1 TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAGTT
22356 T-
66 TG
22357 TGTTTCAAG-GAAAACTGTCTCAA
1 TGTTTCAAGAG-AAACTGTCTCAA
22380 GATAGACGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 1 0.01
65 20 0.26
66 3 0.04
67 22 0.29
68 31 0.40
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAGTT
TG
Found at i:22408 original size:36 final size:35
Alignment explanation
Indices: 22356--22637 Score: 256
Period size: 36 Copynumber: 8.0 Consensus size: 35
22346 TTCAAAGGTT
*
22356 TTGTTTCAAG-GAAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAG-AAACTGTCTCAAGAGAGAC-AAAA
22392 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
22427 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGGAAT
1 -TT-GTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
* * ***
22465 TTGTTTCAA-AGAAAACATAT-TC---A-A-ATATTT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
* *
22495 TTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
22530 TTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAAT
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
22567 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
22602 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
22638 CTCTTCTAGT
Statistics
Matches: 201, Mismatches: 29, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
29 2 0.01
30 15 0.07
31 2 0.01
32 1 0.00
33 1 0.00
34 1 0.00
35 11 0.05
36 132 0.66
37 34 0.17
38 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:22466 original size:138 final size:138
Alignment explanation
Indices: 22304--22618 Score: 400
Period size: 138 Copynumber: 2.3 Consensus size: 138
22294 TTTCAAGAGT
* * * * *
22304 AACTGTCTCAAAGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAA-GGTTTTGTTTCAAGGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAATAGTTTTGTTTCAAGGA
* *
22368 AAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
66 AAACTGTCTCAAGAGAGAC-AAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTAG
22432 TTCCAAAAGA
129 TTCCAAAAGA
** * * * * * *
22442 AACTGTCTCAAGGGAGACGGAATTTGTTTCAAAGAAAACATATTCAAATATTTTTGTTTTAAGGG
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAATAGTTTTGTTTCAAGGA
* * * *
22507 AAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTT
66 AAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTT
* *
22572 TCAAGAGA
131 CCAAAAGA
*
22580 AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
22619 TGTCTCAAGA
Statistics
Matches: 149, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
138 88 0.59
139 61 0.41
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (138 bp):
AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAATAGTTTTGTTTCAAGGA
AAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTT
CCAAAAGA
Found at i:22574 original size:102 final size:104
Alignment explanation
Indices: 22392--22581 Score: 285
Period size: 103 Copynumber: 1.8 Consensus size: 104
22382 TAGACGAAAA
*
22392 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
*
22457 GACGGAATTTGTTTCAA-AGAAAACATATTCAAATATTT
66 GACGAAATTTGTTTCAAGAGAAAACATATTCAAATATTT
* * * * ** *
22495 TTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTA-TTTCAAGGGAAACTGTCTCAAGATA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
22559 GACGAAATTTGTTTCAAGAGAAA
66 GACGAAATTTGTTTCAAGAGAAA
22582 CTGTCTCAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 36 0.47
103 41 0.53
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (104 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
GACGAAATTTGTTTCAAGAGAAAACATATTCAAATATTT
Found at i:22586 original size:72 final size:71
Alignment explanation
Indices: 22355--22636 Score: 292
Period size: 72 Copynumber: 4.0 Consensus size: 71
22345 ATTCAAAGGT
* *
22355 TTTGTTTCAAG-GAAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGA
1 TTTGTTTCAAGAG-AAACTGTCTCAAGAGAGAC-AAAATTTGTTTCAAGGGAAACTGTCTCAAGA
22418 GAGACAAAA
64 GAGAC-AAA
* * * * ** * * *
22427 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGGAATTTGTTTCAAAGAAAACATAT-TC---A
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC-TGTCTCAAGA
* **
22488 -A-ATATT
64 GAGACAAA
* * * *
22494 TTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGATA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
22559 GACGAAA
66 GAC-AAA
22566 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
22631 GACAAA
66 GACAAA
22637 ACTCTTCTAG
Statistics
Matches: 166, Mismatches: 33, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
65 2 0.01
66 44 0.27
67 1 0.01
68 1 0.01
69 2 0.01
70 2 0.01
71 4 0.02
72 67 0.40
73 40 0.24
74 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (71 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
GACAAA
Found at i:22659 original size:35 final size:36
Alignment explanation
Indices: 22502--22671 Score: 166
Period size: 36 Copynumber: 4.8 Consensus size: 36
22492 TTTTTGTTTT
* * **
22502 AAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTC
1 AAGGAAAACTGTCTCAAGAGAGACAAAATCTGCTTC
* * * * *
22538 AAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTC
1 AAGGAAAACTGTCTCAAGAGAGACAAAATCTGCTTC
* *
22574 AA-GAGAAACTGTCTCAAGAGAGACAAAATTTGTTTC
1 AAGGA-AAACTGTCTCAAGAGAGACAAAATCTGCTTC
*
22610 AAGGGAAACTGTCTCAAGAGAGACAAAA-CT-CTTC
1 AAGGAAAACTGTCTCAAGAGAGACAAAATCTGCTTC
* * *
22644 TAGTGAAAACGGTCTCAAGTGAGACAAA
1 AAG-GAAAACTGTCTCAAGAGAGACAAA
22672 TCTTGTTTTA
Statistics
Matches: 118, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
34 5 0.04
35 23 0.19
36 89 0.75
37 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (36 bp):
AAGGAAAACTGTCTCAAGAGAGACAAAATCTGCTTC
Found at i:22701 original size:36 final size:36
Alignment explanation
Indices: 22659--22774 Score: 110
Period size: 36 Copynumber: 3.2 Consensus size: 36
22649 AAAACGGTCT
22659 CAAGTGAGACAAATCTTGTTTTAAGAAAAACAATCA
1 CAAGTGAGACAAATCTTGTTTTAAGAAAAACAATCA
** * * * ** * * *
22695 TGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCC
1 CAAGTGAGACAAATCTTGTTTTAAGAAAAACAATCA
*
22731 CAAGTGAGACAAAGTC-TGTTTTAA-AAAAACAATCT
1 CAAGTGAGACAAA-TCTTGTTTTAAGAAAAACAATCA
22766 CAAGTGAGA
1 CAAGTGAGA
22775 TAATCATCTG
Statistics
Matches: 59, Mismatches: 20, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
35 17 0.29
36 40 0.68
37 2 0.03
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (36 bp):
CAAGTGAGACAAATCTTGTTTTAAGAAAAACAATCA
Found at i:23593 original size:22 final size:22
Alignment explanation
Indices: 23567--23615 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
23557 TTGTGTTTGG
* *
23567 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTGGATGC
23589 TCAAAGGTTTGACATTGGATGC
1 TCAAAGGTTTGACATTGGATGC
23611 TCAAA
1 TCAAA
23616 AGATTGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (22 bp):
TCAAAGGTTTGACATTGGATGC
Found at i:23622 original size:22 final size:22
Alignment explanation
Indices: 23579--23622 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23569 AAAGGTTTGG
* * *
23579 CATTTGATGCTCAAAGGTTTGA
1 CATTGGATGCTCAAAAGATTGA
23601 CATTGGATGCTCAAAAGATTGA
1 CATTGGATGCTCAAAAGATTGA
23623 TGGGTAGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
CATTGGATGCTCAAAAGATTGA
Found at i:24338 original size:16 final size:15
Alignment explanation
Indices: 24251--24344 Score: 57
Period size: 16 Copynumber: 6.0 Consensus size: 15
24241 TTTTTGTCCC
24251 TTTTTC-TTTTTGATT
1 TTTTTCTTTTTTG-TT
* *
24266 TTTGCTCTTTTTTCCTT
1 TTT-TTCTTTTTT-GTT
* * * *
24283 TTGTTCTTGTTTCTC
1 TTTTTCTTTTTTGTT
*
24298 TCTTTCTTTGTTT-TT
1 TTTTTCTTT-TTTGTT
24313 TTTTTGCTTTTTTGTT
1 TTTTT-CTTTTTTGTT
24329 TCTTTTCTTTTTTGTT
1 T-TTTTCTTTTTTGTT
24345 CTTGATTGGA
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
15 19 0.31
16 29 0.48
17 13 0.21
ACGTcount: A:0.01, C:0.14, G:0.09, T:0.77
Consensus pattern (15 bp):
TTTTTCTTTTTTGTT
Found at i:27101 original size:17 final size:18
Alignment explanation
Indices: 27068--27103 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27058 ATATAAAAAC
*
27068 ATAAAATATAGGATAAAT
1 ATAAAAAATAGGATAAAT
27086 ATAAAAAATA-GATAAAT
1 ATAAAAAATAGGATAAAT
27103 A
1 A
27104 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (18 bp):
ATAAAAAATAGGATAAAT
Found at i:27685 original size:37 final size:37
Alignment explanation
Indices: 27644--27766 Score: 108
Period size: 37 Copynumber: 3.4 Consensus size: 37
27634 GTGCTTGTGG
* * *
27644 ATCCTATCTTTAGGAATTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAATTTAAATAATAGCAAAACTCT
* * * * *
27681 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAATTTT
1 ATCCTATTTTTAGGAATTTAAATAATAGCAAAACTCT
* * ** *
27718 ATCCTATTTTTAGGAGTTTGAATCCT---AAAATTCT
1 ATCCTATTTTTAGGAATTTAAATAATAGCAAAACTCT
27752 ATCCTATTTTTAGGA
1 ATCCTATTTTTAGGA
27767 GTTTGAATCC
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
34 22 0.29
37 54 0.71
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAATTTAAATAATAGCAAAACTCT
Found at i:27755 original size:34 final size:34
Alignment explanation
Indices: 27678--27778 Score: 157
Period size: 34 Copynumber: 2.9 Consensus size: 34
27668 ATAGTAGAAC
*
27678 TCTATCCTATTTTTAGGAGTTTGAATCATAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAAT
*
27715 TTTATCCTATTTTTAGGAGTTTGAATCCTAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAAT
27749 TCTATCCTATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
27779 GTAGGACGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
34 34 0.56
37 27 0.44
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (34 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAAT
Found at i:28024 original size:40 final size:40
Alignment explanation
Indices: 27948--28063 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
27938 CCACTGAAAC
** * *
27948 AAACACCGCTAAAGGTTA-TGTTTTTAGCGGCTTTTTTAT
1 AAACACCGCTAAAGGTTACAATATTTAGCGGCGTTTTTAT
*
27987 AAACGCCGCTAAAGGTTACAATATTTAGCGGCGTTTTTTAT
1 AAACACCGCTAAAGGTTACAATATTTAGCGGCG-TTTTTAT
* * * *
28028 AAACACCGC-AAAAGTTACGATATTTAGTGCCGTTTT
1 AAACACCGCTAAAGGTTACAATATTTAGCGGCGTTTT
28064 CTCCCAATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
39 21 0.32
40 29 0.45
41 15 0.23
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (40 bp):
AAACACCGCTAAAGGTTACAATATTTAGCGGCGTTTTTAT
Found at i:30052 original size:28 final size:28
Alignment explanation
Indices: 30012--30072 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
30002 GTCGATGAGT
30012 GGTCGATGACATTAGAGTGAAAGCCTTG
1 GGTCGATGACATTAGAGTGAAAGCCTTG
30040 GGTCGATGACATTAGAGTGAAAGCCTTG
1 GGTCGATGACATTAGAGTGAAAGCCTTG
30068 GGTCG
1 GGTCG
30073 CTGAGGAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (28 bp):
GGTCGATGACATTAGAGTGAAAGCCTTG
Found at i:30254 original size:40 final size:41
Alignment explanation
Indices: 30204--30416 Score: 146
Period size: 40 Copynumber: 5.2 Consensus size: 41
30194 TATAAAGGCC
* *
30204 AGTACGAGTATTTTGC-GACGTTTGTATAAAAATACAAATAA
1 AGTACGAGTATTTAGCAG-CGTTTATATAAAAATACAAATAA
* * *
30245 AGTAC-AGTATTTAGCAGCGTTTATATAAAAATGCCACTAA
1 AGTACGAGTATTTAGCAGCGTTTATATAAAAATACAAATAA
* * * * * * *
30285 AGTACGAGTATTAAGCGGCATTTATGCTTAAAA-CCCAA-AA
1 AGTACGAGTATTTAGCAGCGTTTAT-ATAAAAATACAAATAA
* * * * ** * *
30325 AGTACGAGTTTTTAGCGGCGTTTATGCTTAAAACGCCACTAA
1 AGTACGAGTATTTAGCAGCGTTTAT-ATAAAAATACAAATAA
* * * * *
30367 AGTACGAGTCTTTAGCGGCGTTTATATAAAAACACCACTAA
1 AGTACGAGTATTTAGCAGCGTTTATATAAAAATACAAATAA
30408 AGTACGAGT
1 AGTACGAGT
30417 CATTGGCGGC
Statistics
Matches: 146, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
40 65 0.45
41 50 0.34
42 31 0.21
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (41 bp):
AGTACGAGTATTTAGCAGCGTTTATATAAAAATACAAATAA
Found at i:30384 original size:82 final size:82
Alignment explanation
Indices: 30243--30545 Score: 272
Period size: 83 Copynumber: 3.7 Consensus size: 82
30233 AAATACAAAT
* * * * *
30243 AAAGTAC-AGTATTTAGCAGCGTTTATATAAAAATGCCACTAAAGTACGAGTATTAAGCGGCATT
1 AAAGTACGAGTATTTAGCGGCGTTTATGTAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTT
30307 TATGCTTAAAAC-CCA-A
66 TAT-CTTAAAACACCACA
* * *
30323 AAAGTACGAGTTTTTAGCGGCGTTTATGCTTAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGT
1 AAAGTACGAGTATTTAGCGGCGTTTATG-TAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGT
* * *
30388 TTATATAAAAACACCACT
65 TTATCTTAAAACACCACA
* * * * * *
30406 AAAGTACGAGTCA-TTGGCGGCATTTTTGTAAAAACGCCACTAAAGTACGCGTATATAGTGGCGT
1 AAAGTACGAGT-ATTTAGCGGCGTTTATGTAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGT
** *
30470 TTATACTTAAAACGTCACT
65 TTAT-CTTAAAACACCACA
* * * * * ** * * *
30489 AAAGTATGAGTCTTTAACGGCATTTGTACAAAAACGCCATTAAAATTCGAGTATTTA
1 AAAGTACGAGTATTTAGCGGCGTTTATGTAAAAACGCCACTAAAGTACGAGTATTTA
30546 CCGTGTTTTT
Statistics
Matches: 180, Mismatches: 36, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
80 7 0.04
81 23 0.13
82 73 0.41
83 77 0.43
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (82 bp):
AAAGTACGAGTATTTAGCGGCGTTTATGTAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTT
TATCTTAAAACACCACA
Found at i:30417 original size:41 final size:41
Alignment explanation
Indices: 30204--30545 Score: 287
Period size: 41 Copynumber: 8.3 Consensus size: 41
30194 TATAAAGGCC
* * * ** * *
30204 AGTACGAGTATTTTGCGACGTTTGTATAAAAATACAAATAA
1 AGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACTAA
* *
30245 AGTAC-AGTATTTAGCAGCGTTTATATAAAAATGCCACTAA
1 AGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACTAA
* * * * *
30285 AGTACGAGTATTAAGCGGCATTTATGCTTAAAAC-CCA-AAA
1 AGTACGAGTATTTAGCGGCGTTTAT-ATAAAAACGCCACTAA
* * *
30325 AGTACGAGTTTTTAGCGGCGTTTATGCTTAAAACGCCACTAA
1 AGTACGAGTATTTAGCGGCGTTTAT-ATAAAAACGCCACTAA
* *
30367 AGTACGAGTCTTTAGCGGCGTTTATATAAAAACACCACTAA
1 AGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACTAA
* * * *
30408 AGTACGAGTCA-TTGGCGGCATTTTTGTAAAAACGCCACTAA
1 AGTACGAGT-ATTTAGCGGCGTTTATATAAAAACGCCACTAA
* * * * *
30449 AGTACGCGTATATAGTGGCGTTTATACTTAAAACGTCACTAA
1 AGTACGAGTATTTAGCGGCGTTTATA-TAAAAACGCCACTAA
* * * * * * *
30491 AGTATGAGTCTTTAACGGCATTTGTACAAAAACGCCATTAA
1 AGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACTAA
* *
30532 AATTCGAGTATTTA
1 AGTACGAGTATTTA
30546 CCGTGTTTTT
Statistics
Matches: 241, Mismatches: 53, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
40 67 0.28
41 112 0.46
42 62 0.26
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (41 bp):
AGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACTAA
Found at i:30522 original size:124 final size:123
Alignment explanation
Indices: 30242--30543 Score: 322
Period size: 124 Copynumber: 2.5 Consensus size: 123
30232 AAAATACAAA
* * * * * **
30242 TAAAGTAC-AGTATTTAGCAGCGTTTATATAAAAATGCCACTAAAGTACGAGTATTAAGCGGCAT
1 TAAAGTACGAGTCTTTAACGGCATTTATACAAAAACACCACTAAAGTACGAGTATTAAGCGGCAT
* * * *
30306 TTATGCTTAAAACCCAAAAAGTACGAGTTTTTAGCGGCGTTTATGCTTAAAACGCCAC
66 TTATGCTAAAAACCCAAAAAGTACGAGTATATAGCGGCGTTTATACTTAAAACGCCAC
* * * *
30364 TAAAGTACGAGTCTTTAGCGGCGTTTATATAAAAACACCACTAAAGTACGAGTCATT-GGCGGCA
1 TAAAGTACGAGTCTTTAACGGCATTTATACAAAAACACCACTAAAGTACGAGT-ATTAAGCGGCA
* * * * *
30428 TTTTTG-TAAAAACGCCACTAAAGTACGCGTATATAGTGGCGTTTATACTTAAAACGTCAC
65 TTTATGCTAAAAAC-CCA-AAAAGTACGAGTATATAGCGGCGTTTATACTTAAAACGCCAC
* * * * * *
30488 TAAAGTATGAGTCTTTAACGGCATTTGTACAAAAACGCCATTAAAATTCGAGTATT
1 TAAAGTACGAGTCTTTAACGGCATTTATACAAAAACACCACTAAAGTACGAGTATT
30544 TACCGTGTTT
Statistics
Matches: 153, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
122 14 0.09
123 57 0.37
124 82 0.54
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (123 bp):
TAAAGTACGAGTCTTTAACGGCATTTATACAAAAACACCACTAAAGTACGAGTATTAAGCGGCAT
TTATGCTAAAAACCCAAAAAGTACGAGTATATAGCGGCGTTTATACTTAAAACGCCAC
Found at i:33692 original size:64 final size:63
Alignment explanation
Indices: 33581--33725 Score: 141
Period size: 64 Copynumber: 2.3 Consensus size: 63
33571 ACACATTCAA
* * * **
33581 AGTGTACCGATGCACTCTTTAAAGAAGAAATATTGAATGCCTTGAATGTACCGATGCACAGTT
1 AGTGTACCGATGCACCCTTTAAAGAAGAAACATCGAATGCCAGGAATGTACCGATGCACAGTT
* * * *
33644 AGTGTATCGATGCACCCATTTAAA-ATGAAAACATCGAATGCCAGGAATGTATCGATACACTA-T
1 AGTGTACCGATGCACCC-TTTAAAGAAG-AAACATCGAATGCCAGGAATGTACCGATGCAC-AGT
*
33707 G
63 T
33708 AGTGTGTACCGATGCACC
1 A--GTGTACCGATGCACC
33726 AAGACAAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
63 17 0.26
64 34 0.52
65 1 0.02
66 14 0.21
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (63 bp):
AGTGTACCGATGCACCCTTTAAAGAAGAAACATCGAATGCCAGGAATGTACCGATGCACAGTT
Found at i:34150 original size:9 final size:9
Alignment explanation
Indices: 34136--34169 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
34126 TTTGTTATGA
34136 TTATATGTG
1 TTATATGTG
34145 TTATATGTG
1 TTATATGTG
*
34154 ATTATATGTA
1 -TTATATGTG
34164 TTATAT
1 TTATAT
34170 TAATTGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (9 bp):
TTATATGTG
Found at i:34155 original size:19 final size:19
Alignment explanation
Indices: 34133--34182 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
34123 GTGTTTGTTA
*
34133 TGATTATATGTGTTATATG
1 TGATTATATGTATTATATG
34152 TGATTATATGTATTATAT-
1 TGATTATATGTATTATATG
* *
34170 TAATTGTATGTAT
1 TGATTATATGTAT
34183 GCATGACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (19 bp):
TGATTATATGTATTATATG
Found at i:34564 original size:6 final size:6
Alignment explanation
Indices: 34547--34576 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
34537 GGGATGATAA
34547 ACGGGG AC-GGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG ACGGGG A
34577 AAACCTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.20, C:0.17, G:0.63, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:35868 original size:23 final size:23
Alignment explanation
Indices: 35842--35901 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
35832 CATTTTATAT
* *
35842 GGCACTTCGGTGTATTTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* * *
35865 GGCACTTAGGTGCAATTCTATGT
1 GGCACTTCGGTGCAATTCTACGC
*
35888 GGCACTTCGATGCA
1 GGCACTTCGGTGCA
35902 TTTATACGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:36277 original size:3 final size:3
Alignment explanation
Indices: 36269--36293 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36259 GATATACATG
36269 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
36294 GAATTAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:38452 original size:13 final size:15
Alignment explanation
Indices: 38434--38466 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38424 GAATAAGATG
38434 AAAATAA-AAT-AGA
1 AAAATAATAATGAGA
38447 AAAATAATAATGAGA
1 AAAATAATAATGAGA
38462 AAAAT
1 AAAAT
38467 CACCTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 3 0.17
15 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAATAATAATGAGA
Found at i:42031 original size:13 final size:13
Alignment explanation
Indices: 42013--42038 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42003 TCTTCTCTTG
42013 AAAAATATTTTCT
1 AAAAATATTTTCT
42026 AAAAATATTTTCT
1 AAAAATATTTTCT
42039 CTCATTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAATATTTTCT
Found at i:42292 original size:15 final size:15
Alignment explanation
Indices: 42272--42320 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
42262 CGCCCCGCAT
42272 CCGCACCGCATCCAC
1 CCGCACCGCATCCAC
42287 CCGCACCGCATCCAC
1 CCGCACCGCATCCAC
* *
42302 CCACACCGCATCCGC
1 CCGCACCGCATCCAC
42317 CCGC
1 CCGC
42321 CCAACTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.18, C:0.61, G:0.14, T:0.06
Consensus pattern (15 bp):
CCGCACCGCATCCAC
Found at i:43954 original size:31 final size:31
Alignment explanation
Indices: 43919--43980 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
43909 ATGTTTTTCG
43919 TTATCTTCTAACAAATTGTATCAAAATATCT
1 TTATCTTCTAACAAATTGTATCAAAATATCT
43950 TTATCTTCTAACAAATTGTATCAAAATATCT
1 TTATCTTCTAACAAATTGTATCAAAATATCT
43981 ACCAAATCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (31 bp):
TTATCTTCTAACAAATTGTATCAAAATATCT
Found at i:53343 original size:5 final size:5
Alignment explanation
Indices: 53335--53421 Score: 51
Period size: 5 Copynumber: 17.8 Consensus size: 5
53325 TTATCTTATT
* * *
53335 TTTTA TTTTA -TTTA TTTCCA --TTA TTTTA TTTTA TTCTA TTTTTG TCTTTA
1 TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA
* *
53385 TTTT- TTAT- TTTTA TTTTTA CTTTA TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
53422 GTTATTTTCC
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
3 1 0.02
4 15 0.24
5 34 0.54
6 13 0.21
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:53390 original size:24 final size:24
Alignment explanation
Indices: 53322--53412 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 24
53312 TTTTTGTTCC
53322 TTTTTA-TCTTATTTTTTATTT-TA
1 TTTTTACT-TTATTTTTTATTTCTA
* * *
53345 TTTATTTCCATTATTTTATTTTATTCTA
1 -TT-TTTACTTTATTTT-TTAT-TTCTA
* *
53373 TTTTTGTCTTTATTTTTTATTTTTA
1 TTTTT-ACTTTATTTTTTATTTCTA
53398 TTTTTACTTTATTTT
1 TTTTTACTTTATTTT
53413 ATTTATTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
24 11 0.21
25 19 0.36
26 9 0.17
27 12 0.23
28 2 0.04
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (24 bp):
TTTTTACTTTATTTTTTATTTCTA
Found at i:53403 original size:19 final size:21
Alignment explanation
Indices: 53334--53421 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 21
53324 TTTATCTTAT
*
53334 TTTTTATTTTATTTATTTCCATTA
1 TTTTTACTTTATTTATTT---TTA
* *
53358 -TTTTATTTTATTCTATTTTTG
1 TTTTTACTTTATT-TATTTTTA
*
53379 TCTTTA-TTT-TTTATTTTTA
1 TTTTTACTTTATTTATTTTTA
*
53398 TTTTTACTTTATTT-TATTTA
1 TTTTTACTTTATTTATTTTTA
53418 TTTT
1 TTTT
53422 GTTATTTTCC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
19 12 0.22
20 14 0.25
21 8 0.15
22 4 0.07
23 12 0.22
24 5 0.09
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (21 bp):
TTTTTACTTTATTTATTTTTA
Found at i:56154 original size:22 final size:22
Alignment explanation
Indices: 56114--56157 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
56104 GAAACAAAGG
56114 GTAAGGGAACTTGAAACTGAAA
1 GTAAGGGAACTTGAAACTGAAA
*
56136 GTAAGGGAACTTGAGACTGAAA
1 GTAAGGGAACTTGAAACTGAAA
56158 TGTTCCAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.30, T:0.18
Consensus pattern (22 bp):
GTAAGGGAACTTGAAACTGAAA
Found at i:56960 original size:20 final size:19
Alignment explanation
Indices: 56932--56970 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
56922 CATACTTTAC
56932 ATTTTTATTTTCCATGTTT
1 ATTTTTATTTTCCATGTTT
56951 ATTTTCTATTTTCCATGTTT
1 ATTTT-TATTTTCCATGTTT
56971 TTACATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTTTATTTTCCATGTTT
Found at i:61921 original size:31 final size:31
Alignment explanation
Indices: 61886--61973 Score: 131
Period size: 31 Copynumber: 2.8 Consensus size: 31
61876 TAGGTCTCGA
*
61886 AGAACCTAGGTAAACTGTCCATATGTTCCTT
1 AGAACATAGGTAAACTGTCCATATGTTCCTT
* * *
61917 AGAACATAGGTATATTATCCATATGTTCCTT
1 AGAACATAGGTAAACTGTCCATATGTTCCTT
*
61948 AGAACATAGGTATACTGTCCATATGT
1 AGAACATAGGTAAACTGTCCATATGT
61974 CCCGAAAGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (31 bp):
AGAACATAGGTAAACTGTCCATATGTTCCTT
Found at i:61986 original size:31 final size:31
Alignment explanation
Indices: 61855--61990 Score: 123
Period size: 31 Copynumber: 4.4 Consensus size: 31
61845 AGAGGTCATA
* * * * *
61855 AAGAACCTCGGTA-ACTGTCCATAGGTCTCG
1 AAGAACATAGGTATACTGTCCATATGTCCCT
* * *
61885 AAGAACCTAGGTAAACTGTCCATATGTTCCT
1 AAGAACATAGGTATACTGTCCATATGTCCCT
* * * *
61916 TAGAACATAGGTATATTATCCATATGTTCCT
1 AAGAACATAGGTATACTGTCCATATGTCCCT
* *
61947 TAGAACATAGGTATACTGTCCATATGTCCCG
1 AAGAACATAGGTATACTGTCCATATGTCCCT
61978 AA-AGACATAGGTA
1 AAGA-ACATAGGTA
61991 AACCCTCGAC
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.15
31 76 0.85
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (31 bp):
AAGAACATAGGTATACTGTCCATATGTCCCT
Found at i:78770 original size:2 final size:2
Alignment explanation
Indices: 78763--78789 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
78753 GACATTTTAT
78763 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
78790 TATTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78871 original size:20 final size:19
Alignment explanation
Indices: 78810--78902 Score: 62
Period size: 20 Copynumber: 4.6 Consensus size: 19
78800 TTTTTGTTCC
* *
78810 TTTTTTA-TCTTATTTTAT
1 TTTTTTATTTTTACTTTAT
*
78828 TTTATTTATTTCCATTATTTTAT
1 TTT-TTTATTT---TTACTTTAT
* *
78851 TTTTTTCTTTATTCCTTTAT
1 TTTTTTATTT-TTACTTTAT
*
78871 TTCTTTATTTTTACTTTATT
1 TTTTTTATTTTTACTTTA-T
78891 TTATTTTATTTT
1 TT-TTTTATTTT
78903 GTTATTTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
18 3 0.05
19 11 0.18
20 20 0.33
21 8 0.13
22 6 0.10
23 12 0.20
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTATTTTTACTTTAT
Found at i:78891 original size:57 final size:56
Alignment explanation
Indices: 78806--78917 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 56
78796 TTTGTTTTTG
* *
78806 TTCCTTTTTTATCTTATTTTATTTTA-TTTATTTCCATTATT-TTATTTTTTTCTTTA
1 TTCCTTTTTTATCTTATTTTACTTTATTTTATTT-CATT-TTGTTATTTTCTTCTTTA
* *
78862 TTCCTTTATT-TCTTTATTTTTACTTTATTTTATTTTATTTTGTTATTTTCTTCTTT
1 TTCCTTTTTTATC-TTA-TTTTACTTTATTTTATTTCATTTTGTTATTTTCTTCTTT
78918 TTTGACATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
55 2 0.04
56 14 0.29
57 25 0.52
58 7 0.15
ACGTcount: A:0.14, C:0.11, G:0.01, T:0.74
Consensus pattern (56 bp):
TTCCTTTTTTATCTTATTTTACTTTATTTTATTTCATTTTGTTATTTTCTTCTTTA
Found at i:78898 original size:10 final size:10
Alignment explanation
Indices: 78813--78902 Score: 54
Period size: 10 Copynumber: 9.8 Consensus size: 10
78803 TTGTTCCTTT
* *
78813 TTTATCTTAT
1 TTTATTTTAC
78823 TTTATTTTA-
1 TTTATTTTAC
*
78832 TTTA-TTTCC
1 TTTATTTTAC
*
78841 ATTATTTTA-
1 TTTATTTTAC
78850 TTT-TTTT-C
1 TTTATTTTAC
*
78858 TTTA--TTCC
1 TTTATTTTAC
78866 TTTA-TTT-C
1 TTTATTTTAC
78874 TTTATTTTTAC
1 TTTA-TTTTAC
*
78885 TTTATTTTAT
1 TTTATTTTAC
78895 TTTATTTT
1 TTTATTTT
78903 GTTATTTTCT
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
7 2 0.03
8 20 0.31
9 11 0.17
10 27 0.42
11 5 0.08
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATTTTAC
Found at i:79785 original size:27 final size:26
Alignment explanation
Indices: 79732--79802 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
79722 GTATAATTAA
79732 TTAAAAAATGTAGTTTTATGTCAATT
1 TTAAAAAATGTAGTTTTATGTCAATT
*** *
79758 TTTTTAAATGTAGTTTT-TTTACAGATT
1 TTAAAAAATGTAGTTTTATGT-CA-ATT
79785 TTAAAAAATGTAGTTTTA
1 TTAAAAAATGTAGTTTTA
79803 AATATTAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.06
26 16 0.46
27 17 0.49
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (26 bp):
TTAAAAAATGTAGTTTTATGTCAATT
Found at i:81061 original size:13 final size:13
Alignment explanation
Indices: 81043--81069 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
81033 TTCACTAACT
81043 TAGAGAGATTTTG
1 TAGAGAGATTTTG
81056 TAGAGAGATTTTG
1 TAGAGAGATTTTG
81069 T
1 T
81070 CATAGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (13 bp):
TAGAGAGATTTTG
Found at i:83992 original size:14 final size:14
Alignment explanation
Indices: 83973--84001 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
83963 TAATAATATA
83973 AGATATATTTATGT
1 AGATATATTTATGT
83987 AGATATATTTATGT
1 AGATATATTTATGT
84001 A
1 A
84002 TTGGAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (14 bp):
AGATATATTTATGT
Found at i:85895 original size:173 final size:172
Alignment explanation
Indices: 85580--85902 Score: 445
Period size: 173 Copynumber: 1.9 Consensus size: 172
85570 AATTGAAAAA
* *
85580 TCACAATTTAATTATTTTTATGATTTATTAATGTAATATTAAATTAATTATTTAAAATAAAATAA
1 TCACAATTTAATCATTTTTATGATTTATTAATGTAATATTAAATTAATTATTTAAAATAAAAGAA
* * ** * * *
85645 TATATTTTTGTTTTATAATACTTATTTCTTAGTTTTTCTCCAGGTTTATATCTAAGAGTCCCTAA
66 TATATATTTGTTTTATAAGACTTATTTCTTAGTTTTTCTAAAAGTTTATAACTAAGAGGCCCTAA
*
85710 TTTTTTTCAATTTTATAAAAGATTCCATACTTAACTAAGGGC
131 TTGTTTTCAATTTTATAAAAGATTCCATACTTAACTAAGGGC
* * * *
85752 TCACAATTTAATCATTTTTTATGGTTTATTAATGTATTATTAAATT-ATTTTTTAAAATAATAGA
1 TCACAATTTAATCA-TTTTTATGATTTATTAATGTAATATTAAATTAATTATTTAAAATAAAAGA
* *
85816 ATATATATTTGTTTTATAGGACTTATTTTTTAG-TTTTCGATAAAAGTTTATAACTAAG-GGCCT
65 ATATATATTTGTTTTATAAGACTTATTTCTTAGTTTTTC--TAAAAGTTTATAACTAAGAGGCC-
85879 CTAATTGTTTTCAATTTTATAAAA
127 CTAATTGTTTTCAATTTTATAAAA
85903 TAGTCCCTAC
Statistics
Matches: 131, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
171 5 0.04
172 60 0.46
173 66 0.50
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (172 bp):
TCACAATTTAATCATTTTTATGATTTATTAATGTAATATTAAATTAATTATTTAAAATAAAAGAA
TATATATTTGTTTTATAAGACTTATTTCTTAGTTTTTCTAAAAGTTTATAACTAAGAGGCCCTAA
TTGTTTTCAATTTTATAAAAGATTCCATACTTAACTAAGGGC
Found at i:88898 original size:8 final size:8
Alignment explanation
Indices: 88885--88911 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
88875 CATTTTTTAT
88885 TATATGTA
1 TATATGTA
88893 TATATGTA
1 TATATGTA
88901 TATATGTA
1 TATATGTA
88909 TAT
1 TAT
88912 TGTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (8 bp):
TATATGTA
Found at i:88971 original size:18 final size:16
Alignment explanation
Indices: 88953--89027 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 16
88943 TTGTTTCTAT
88953 TTTTATCTTATTTTTTA
1 TTTTAT-TTATTTTTTA
88970 TTTTATTTATTTTCATTA
1 TTTTATTTATTTT--TTA
*
88988 TTTTATTT-TGTTTTA
1 TTTTATTTATTTTTTA
*
89003 TTTT-TTGCATTTATTTA
1 TTTTATT-TATTT-TTTA
89020 TTTTATTT
1 TTTTATTT
89028 TATTCTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.04
15 7 0.15
16 9 0.19
17 17 0.35
18 13 0.27
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTATTTATTTTTTA
Found at i:88973 original size:5 final size:5
Alignment explanation
Indices: 88965--89031 Score: 56
Period size: 5 Copynumber: 14.4 Consensus size: 5
88955 TTATCTTATT
* **
88965 TTTTA TTTTA -TTTA TTTTCA --TTA TTTTA TTTTG TTTTA TTTT- TTGCA
1 TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
89012 -TTTA -TTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TT
89032 CTTTTTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
3 1 0.02
4 14 0.28
5 34 0.68
6 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:88980 original size:9 final size:9
Alignment explanation
Indices: 88953--89031 Score: 60
Period size: 9 Copynumber: 8.8 Consensus size: 9
88943 TTGTTTCTAT
88953 TTTTATCTTA
1 TTTTAT-TTA
88963 -TTT-TTTA
1 TTTTATTTA
88970 TTTTATTTA
1 TTTTATTTA
88979 TTTTCA-TTA
1 TTTT-ATTTA
*
88988 TTTTATTTTG
1 TTTTA-TTTA
88998 TTTTATTT-
1 TTTTATTTA
*
89006 TTTGCATTTA
1 TTT-TATTTA
89016 -TTTATTTTA
1 TTTTA-TTTA
89025 TTTTATT
1 TTTTATT
89032 CTTTTTTTGA
Statistics
Matches: 57, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
7 3 0.05
8 9 0.16
9 33 0.58
10 12 0.21
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.76
Consensus pattern (9 bp):
TTTTATTTA
Found at i:89021 original size:27 final size:27
Alignment explanation
Indices: 88965--89036 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
88955 TTATCTTATT
*
88965 TTTTATTTTATTTATTTTCATTATTTTA
1 TTTTATTTTATTT-TTTGCATTATTTTA
*
88993 TTTTGTTTTATTTTTTGCATT-TATTTA
1 TTTTATTTTATTTTTTGCATTAT-TTTA
89020 TTTTATTTTATTCTTTT
1 TTTTATTTTATT-TTTT
89037 TTTGACATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 22 0.56
28 16 0.41
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (27 bp):
TTTTATTTTATTTTTTGCATTATTTTA
Found at i:89026 original size:32 final size:32
Alignment explanation
Indices: 88985--89045 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
88975 TTTATTTTCA
* *
88985 TTATTTTATTTTGTTTTATTTTTTG-CATTTAT
1 TTATTTTATTTTATTCT-TTTTTTGACATTTAT
89017 TTATTTTATTTTATTCTTTTTTTGACATT
1 TTATTTTATTTTATTCTTTTTTTGACATT
89046 ATCTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (32 bp):
TTATTTTATTTTATTCTTTTTTTGACATTTAT
Found at i:89066 original size:18 final size:17
Alignment explanation
Indices: 89043--89078 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
89033 TTTTTTTGAC
*
89043 ATTATCTTTTTATTATTT
1 ATTATCCTTTT-TTATTT
89061 ATTATCCTTTTTTATTT
1 ATTATCCTTTTTTATTT
89078 A
1 A
89079 GCTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTATCCTTTTTTATTT
Found at i:89113 original size:18 final size:18
Alignment explanation
Indices: 88953--89114 Score: 62
Period size: 17 Copynumber: 9.3 Consensus size: 18
88943 TTGTTTCTAT
*
88953 TTTTATCTTATTT-TTTA
1 TTTTATTTTATTTCTTTA
*
88970 TTTTA-TTTATTTTCATTA
1 TTTTATTTTA-TTTCTTTA
*
88988 TTTTA-TTT-TGT-TTTA
1 TTTTATTTTATTTCTTTA
** *
89003 TTTT-TTGCATTTATTTA
1 TTTTATTTTATTTCTTTA
89020 TTTTATTTTA-TTCTTT-
1 TTTTATTTTATTTCTTTA
**
89036 TTTTGACATTA--TCTTT-
1 TTTT-ATTTTATTTCTTTA
*
89052 TTATTA-TTTATTATCCTT-
1 TT-TTATTTTATT-TCTTTA
* *
89070 TTTTATTTAGCTATTTTTTTGT
1 TTTTATTT---TATTTCTTT-A
89092 TTTTATTTTATTTCTTTA
1 TTTTATTTTATTTCTTTA
89110 TTTTA
1 TTTTA
89115 GTAATTGTTT
Statistics
Matches: 110, Mismatches: 18, Indels: 33
0.68 0.11 0.20
Matches are distributed among these distances:
15 11 0.10
16 19 0.17
17 30 0.27
18 27 0.25
19 8 0.07
20 3 0.03
21 4 0.04
22 8 0.07
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTATTTTATTTCTTTA
Found at i:91461 original size:15 final size:16
Alignment explanation
Indices: 91421--91461 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
91411 TTACTTTTCT
91421 TTTAACATTTTTTATA
1 TTTAACATTTTTTATA
*
91437 TATAACATTTTTTA-A
1 TTTAACATTTTTTATA
*
91452 TTTAATATTT
1 TTTAACATTT
91462 CCTTTTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAACATTTTTTATA
Found at i:91519 original size:28 final size:28
Alignment explanation
Indices: 91445--91527 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 28
91435 TATATAACAT
* *
91445 TTTTTAATTTAATATTTCCTTTTTTGATTTAT
1 TTTTT-ATTTGATATTT-C-TTTTT-ATTTAA
91477 TTATTTA-TTG-T-TTTCTTTTTATTTAA
1 TT-TTTATTTGATATTTCTTTTTATTTAA
91503 TTTTTATTTGATATTTC-TTTTATTT
1 TTTTTATTTGATATTTCTTTTTATTT
91528 TACCATCTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
25 4 0.09
26 10 0.22
27 14 0.31
28 5 0.11
29 3 0.07
30 1 0.02
31 2 0.04
32 3 0.07
33 3 0.07
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (28 bp):
TTTTTATTTGATATTTCTTTTTATTTAA
Found at i:94974 original size:36 final size:36
Alignment explanation
Indices: 94916--94990 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
94906 TAGTATATTG
94916 TTTGAACTTGTTTTTTTGAACTTTCTCATATTTCCT
1 TTTGAACTTGTTTTTTTGAACTTTCTCATATTTCCT
*
94952 TTTGTAACTTG-TTTTTTGAACTTTCTCATATTTCTT
1 TTTG-AACTTGTTTTTTTGAACTTTCTCATATTTCCT
94988 TTT
1 TTT
94991 ATAAGGATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
36 31 0.84
37 6 0.16
ACGTcount: A:0.16, C:0.15, G:0.08, T:0.61
Consensus pattern (36 bp):
TTTGAACTTGTTTTTTTGAACTTTCTCATATTTCCT
Found at i:95965 original size:75 final size:76
Alignment explanation
Indices: 95839--96015 Score: 259
Period size: 75 Copynumber: 2.4 Consensus size: 76
95829 GTTGTACAAG
* * * *
95839 GGGGGGATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-C
1 GGGGGGATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
**
95902 AAAACTGTTTA
66 AAAACCATTTA
* * *
95913 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGCC
1 GGGGGGATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
95978 AAAACCATTTA
66 AAAACCATTTA
95989 GGGGGGATCGGTTCCTCCTATGGGGGG
1 GGGGGGATCGGTTCCTCCTATGGGGGG
96016 GGGGGAATCG
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 16 0.18
75 39 0.43
76 36 0.40
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.23
Consensus pattern (76 bp):
GGGGGGATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
AAAACCATTTA
Found at i:102529 original size:22 final size:21
Alignment explanation
Indices: 102487--102526 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
102477 GAGTTTGTTT
*
102487 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
102508 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
102527 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:104563 original size:54 final size:54
Alignment explanation
Indices: 104471--104594 Score: 178
Period size: 54 Copynumber: 2.3 Consensus size: 54
104461 GTACCCCCTT
* **
104471 GGGGTGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-CAAAACTGTTTA
1 GGGG-GGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTTA
* *
104525 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGCCAAAACCATTTA
1 GGGGGG-ATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTTA
104580 GGGGGGATCGGTTCC
1 GGGGGGATCGGTTCC
104595 TCCTATGGGG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
53 2 0.03
54 45 0.71
55 16 0.25
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.23
Consensus pattern (54 bp):
GGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTTA
Found at i:105327 original size:99 final size:98
Alignment explanation
Indices: 105150--105343 Score: 264
Period size: 99 Copynumber: 2.0 Consensus size: 98
105140 ATTATATGTG
* * * * * *
105150 TACAATAAAGTTTGAGCTGTCCTTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAATAT
1 TACAATAAAGCTTGAGATGTCCTTATAAAGCAATTGGTTAAACGCACCGACTTTATGGATAAGAT
* *
105215 TTAACTAGTCTGATAAAGGTGATTATAATATCTA
66 TCAACTAGCCTGATAAA-GTGATTATAATATCTA
* *
105249 TACAATAAAGCTTGAGATGT-CTATATAAAGCAATTGGTTAAATGCACCGGCTTTATGGATAAGA
1 TACAATAAAGCTTGAGATGTCCT-TATAAAGCAATTGGTTAAACGCACCGACTTTATGGATAAGA
*
105313 TTCAGCTAGCCTGATAAAGTGATTATAATAT
65 TTCAACTAGCCTGATAAAGTGATTATAATAT
105344 TGAGCTGTCC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
98 15 0.18
99 68 0.82
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (98 bp):
TACAATAAAGCTTGAGATGTCCTTATAAAGCAATTGGTTAAACGCACCGACTTTATGGATAAGAT
TCAACTAGCCTGATAAAGTGATTATAATATCTA
Found at i:107329 original size:174 final size:176
Alignment explanation
Indices: 107034--107527 Score: 525
Period size: 174 Copynumber: 2.8 Consensus size: 176
107024 ATCAAATTTA
* * *
107034 CAACATAGCTTAAA-GAGAGAAGGGCTATCTGTCAACAAAAACCTTT-GAGCTCGATTTCATTCA
1 CAACATAGC-TAAAGGAGAGAAGGGTTATCTGTCAACAAAAA-CTTTCGAGTTCGATTCCATTCA
** ** * * *
107097 GCTC-AAGAGCATATCAATTGCACAGTAACAACGAGGAACTACTTTTCAGTTAAAGTTTAAATCG
64 GCTCGAAGA-CATATCAACCGCATGGTAGCAGCGAGGAACTACTTTTCAGTTAAAGTTTAAACCG
* * *
107161 AGGTATTTAAGTCAATAGGAAGATCTGGGGTAATCTCTCAGCTTTGT-T
128 AGGTATTTAAGTCAAGAGGAAGATCTGGGGCAATCTCTCAGCTTAGTAT
* * *
107209 CAACATAGCTAAAGGCGAGAAGAGTTATCTGTCAA-AAAAACTTTCGAGTTCGATTCCATTCTGC
1 CAACATAGCTAAAGGAGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCGATTCCATTCAGC
* *
107273 TCGATGACATATCAACCGCATGGTAGCAGCGAGGAACTACTTTTCAGTTGAAGTTTAAACCGAGG
66 TCGAAGACATATCAACCGCATGGTAGCAGCGAGGAACTACTTTTCAGTTAAAGTTTAAACCGAGG
* * * *
107338 TCTTTAAGTCAAGAGTAATATCTGGGGCAATCTCTTAGCTTAGTAT
131 TATTTAAGTCAAGAGGAAGATCTGGGGCAATCTCTCAGCTTAGTAT
* * * * * * *
107384 -AGCATAACTCAAGGAAAGAAGGGTTATATGTCAATAAAAACTTTCGAGTTCGATTCAATTCAGC
1 CAACATAGCTAAAGGAGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCGATTCCATTCAGC
* * * * * * * * * * *
107448 TTGAGGGCCTATCAACCACATGGTAG-TGTCGAGGAACTACTTTTCACTAAAATTTTCATACCAA
66 TCGAAGACATATCAACCGCATGGTAGCAG-CGAGGAACTACTTTTCAGTTAAAGTTT-AAACCGA
*
107512 GGTATTTAAATCAAGA
129 GGTATTTAAGTCAAGA
107528 AGAATATAAA
Statistics
Matches: 267, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
173 4 0.01
174 142 0.53
175 102 0.38
176 19 0.07
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (176 bp):
CAACATAGCTAAAGGAGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCGATTCCATTCAGC
TCGAAGACATATCAACCGCATGGTAGCAGCGAGGAACTACTTTTCAGTTAAAGTTTAAACCGAGG
TATTTAAGTCAAGAGGAAGATCTGGGGCAATCTCTCAGCTTAGTAT
Found at i:110734 original size:5 final size:5
Alignment explanation
Indices: 110724--110813 Score: 67
Period size: 5 Copynumber: 17.0 Consensus size: 5
110714 AAAATTTAAC
*
110724 TTTAT TTTAT TTTAT TTTAT TTTAT TTATAT TTTCCCACT CTTTTT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT-TAT TTT---A-T -TTTAT TTTAT
* * *
110775 TTCAT TTCAT TTTGT TTTAT TTT-T TATT-T TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT
110814 CTTTTATCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
4 4 0.06
5 56 0.79
6 6 0.08
8 1 0.01
9 1 0.01
10 3 0.04
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:110801 original size:7 final size:7
Alignment explanation
Indices: 110789--110848 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
110779 TTTCATTTTG
110789 TTTTATT
1 TTTTATT
110796 TTTTATT
1 TTTTATT
110803 TTTTA--
1 TTTTATT
*
110808 TTTTATC
1 TTTTATT
110815 TTTTATCT
1 TTTTAT-T
* *
110823 TTTAACAT
1 TTTTA-TT
*
110831 TTTTATA
1 TTTTATT
110838 TTTTATT
1 TTTTATT
110845 TTTT
1 TTTT
110849 CCTGAAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 5 0.12
7 28 0.67
8 9 0.21
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTATT
Found at i:110808 original size:14 final size:14
Alignment explanation
Indices: 110789--110848 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 14
110779 TTTCATTTTG
110789 TTTTATTTTTTATT
1 TTTTATTTTTTATT
*
110803 TTTTA--TTTTATC
1 TTTTATTTTTTATT
* *
110815 TTTTATCTTTTAACAT
1 TTTTAT-TTTTTA-TT
*
110831 TTTTATATTTTATT
1 TTTTATTTTTTATT
110845 TTTT
1 TTTT
110849 CCTGAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
12 11 0.31
14 10 0.29
15 8 0.23
16 6 0.17
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTTATT
Found at i:110826 original size:19 final size:19
Alignment explanation
Indices: 110784--110826 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
110774 TTTCATTTCA
* * *
110784 TTTTGTTTTATTTTTTATT
1 TTTTATTTTATCTTTTATC
110803 TTTTATTTTATCTTTTATC
1 TTTTATTTTATCTTTTATC
110822 TTTTA
1 TTTTA
110827 ACATTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTATTTTATCTTTTATC
Found at i:110928 original size:15 final size:16
Alignment explanation
Indices: 110888--110928 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
110878 TTATTTTTCT
110888 TTTAACATTTTTTATA
1 TTTAACATTTTTTATA
*
110904 TATAACATTTTTTA-A
1 TTTAACATTTTTTATA
*
110919 TTTAATATTT
1 TTTAACATTT
110929 CCTTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAACATTTTTTATA
Found at i:111087 original size:12 final size:13
Alignment explanation
Indices: 111065--111093 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
111055 AGAATCGAGT
111065 TTTTAAATTTTAA
1 TTTTAAATTTTAA
111078 TTTT-AATTTTAA
1 TTTTAAATTTTAA
111090 TTTT
1 TTTT
111094 TGTAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:112115 original size:29 final size:29
Alignment explanation
Indices: 112091--112194 Score: 112
Period size: 29 Copynumber: 3.7 Consensus size: 29
112081 AAAAATAGCG
112091 AAGCTTTCTATAAATTACAATAAATACCA
1 AAGCTTTCTATAAATTACAATAAATACCA
* *
112120 AATCTTTCTATAATTTACAATAAATACC-
1 AAGCTTTCTATAAATTACAATAAATACCA
*
112148 -A-CTTT-TATAAATTA-AAAAATATACCA
1 AAGCTTTCTATAAATTACAATAA-ATACCA
*
112174 AAACTATT-TATAAATTACAAT
1 AAGCT-TTCTATAAATTACAAT
112195 CAAAAGAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.06
25 13 0.20
26 4 0.06
27 2 0.03
28 2 0.03
29 37 0.58
30 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (29 bp):
AAGCTTTCTATAAATTACAATAAATACCA
Found at i:112902 original size:16 final size:16
Alignment explanation
Indices: 112867--112907 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
112857 GTTTACTTCA
112867 GAATGATT-AAACGCT
1 GAATGATTCAAACGCT
* *
112882 GAATGATTCAAATGTT
1 GAATGATTCAAACGCT
112898 GAATGATTCA
1 GAATGATTCA
112908 GAGGCTCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:114213 original size:2 final size:2
Alignment explanation
Indices: 114206--114260 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
114196 TGAACCCTTC
114206 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
114248 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
114261 AAATATAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117541 original size:29 final size:30
Alignment explanation
Indices: 117509--117566 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
117499 GTGACTGGAA
117509 TATAAAAATATAAAAGTTT-GGGACTAAAG
1 TATAAAAATATAAAAGTTTAGGGACTAAAG
** * *
117538 TATAAAGTTGTAAAATTTTAGGGACTAAA
1 TATAAAAATATAAAAGTTTAGGGACTAAA
117567 AATGTAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.48, C:0.03, G:0.17, T:0.31
Consensus pattern (30 bp):
TATAAAAATATAAAAGTTTAGGGACTAAAG
Found at i:145966 original size:11 final size:11
Alignment explanation
Indices: 145950--145975 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
145940 GATATTATGG
145950 AAATAAGACAT
1 AAATAAGACAT
145961 AAATAAGACAT
1 AAATAAGACAT
145972 AAAT
1 AAAT
145976 CATACTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (11 bp):
AAATAAGACAT
Found at i:148975 original size:17 final size:16
Alignment explanation
Indices: 148944--148978 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
148934 ATTTGAAAAA
148944 AATATAATATATATAT
1 AATATAATATATATAT
*
148960 AATATAAGTTTATATAT
1 AATATAA-TATATATAT
148977 AA
1 AA
148979 ACTACATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
AATATAATATATATAT
Found at i:149043 original size:17 final size:17
Alignment explanation
Indices: 148968--149044 Score: 57
Period size: 17 Copynumber: 4.4 Consensus size: 17
148958 ATAATATAAG
* *
148968 TTTATATATAAACTACA
1 TTTATATATAAATTATA
148985 TTTATATTATAAACTATATA
1 TTTATA-TATAAA-T-TATA
* **
149005 ATTAT-TATAAGCTATA
1 TTTATATATAAATTATA
* *
149021 TATATATATAAATTATG
1 TTTATATATAAATTATA
149038 TTTATAT
1 TTTATAT
149045 GAACTATATA
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
16 7 0.16
17 20 0.44
18 11 0.24
20 7 0.16
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTATATATAAATTATA
Found at i:149056 original size:13 final size:13
Alignment explanation
Indices: 149021--149176 Score: 54
Period size: 13 Copynumber: 11.5 Consensus size: 13
149011 ATAAGCTATA
*
149021 TATATATATAAAT
1 TATATATATAAAC
* *
149034 TATGTTTATATGAAC
1 TA--TATATATAAAC
149049 TATATATATAAAC
1 TATATATATAAAC
** *
149062 TATGCATGTAAAC
1 TATATATATAAAC
*
149075 TATACATGCATAAAC
1 TATATAT--ATAAAC
149090 TATA-A-A-AAGTA-
1 TATATATATAA--AC
*
149101 TATAGTTTATAAAC
1 TATA-TATATAAAC
*
149115 TATAATTTATATTAA-
1 TAT-A--TATATAAAC
* *
149130 TATAGTGTATATA-
1 TATA-TATATAAAC
149143 TATATATATAAAC
1 TATATATATAAAC
149156 TATATATGTATAAAC
1 TATATA--TATAAAC
149171 TATATA
1 TATATA
149177 AAATATATAG
Statistics
Matches: 107, Mismatches: 20, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
10 2 0.02
11 5 0.05
12 7 0.07
13 43 0.40
14 6 0.06
15 38 0.36
16 6 0.06
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:149058 original size:15 final size:15
Alignment explanation
Indices: 148970--149058 Score: 52
Period size: 15 Copynumber: 5.4 Consensus size: 15
148960 AATATAAGTT
*
148970 TATATATAAACTACATT
1 TATATATAAACT--ATA
148987 TATATTATAAACTATA
1 TATA-TATAAACTATA
*
149003 TAATTATTATAAGCTATATA
1 T-A-TA-TATAAAC--TATA
* *
149023 TATATATAAATTATG
1 TATATATAAACTATA
* *
149038 TTTATATGAACTATA
1 TATATATAAACTATA
149053 TATATA
1 TATATA
149059 AACTATGCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
15 19 0.33
16 3 0.05
17 10 0.18
18 19 0.33
19 1 0.02
20 5 0.09
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:149090 original size:15 final size:14
Alignment explanation
Indices: 149046--149093 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
149036 TGTTTATATG
*
149046 AACTATATAT-ATA
1 AACTATACATGATA
*
149059 AACTATGCATG-TA
1 AACTATACATGATA
149072 AACTATACATGCATA
1 AACTATACATG-ATA
149087 AACTATA
1 AACTATA
149094 AAAAGTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 20 0.69
15 9 0.31
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.31
Consensus pattern (14 bp):
AACTATACATGATA
Found at i:149159 original size:15 final size:15
Alignment explanation
Indices: 149141--149176 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
149131 ATAGTGTATA
149141 TATATATATATAAAC
1 TATATATATATAAAC
*
149156 TATATATGTATAAAC
1 TATATATATATAAAC
149171 TATATA
1 TATATA
149177 AAATATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:149222 original size:81 final size:80
Alignment explanation
Indices: 149018--149242 Score: 260
Period size: 81 Copynumber: 2.8 Consensus size: 80
149008 ATTATAAGCT
* * * * ** * *
149018 ATATATA-TATATAAATTAT-GTTTATATGAACTATA-TATATAAACTATGCATGTAAACTATAC
1 ATATATAGTTTATAAATTATAATTTATATTAA-TATAGTATATATA-TATATATATAAACTATAT
149080 ATGCATAAACTATAAAA
64 ATGCATAAACTATAAAA
* *
149097 AGTATATAGTTTATAAACTATAATTTATATTAATATAGTGTATATATATATATATAAACTATATA
1 A-TATATAGTTTATAAATTATAATTTATATTAATATAGTATATATATATATATATAAACTATATA
*
149162 TGTATAAACTATATAAA
65 TGCATAAACTATA-AAA
* *
149179 ATATATAGTTTATAAATTATAATTTATATTAATATAGTATATATATGTATGTAT-AACTAATATA
1 ATATATAGTTTATAAATTATAATTTATATTAATATAGTATATATATATATATATAAACT-ATATA
149243 AGTAATCTAT
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
79 1 0.01
80 10 0.08
81 95 0.76
82 19 0.15
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (80 bp):
ATATATAGTTTATAAATTATAATTTATATTAATATAGTATATATATATATATATAAACTATATAT
GCATAAACTATAAAA
Found at i:149259 original size:45 final size:45
Alignment explanation
Indices: 149210--149309 Score: 150
Period size: 45 Copynumber: 2.2 Consensus size: 45
149200 ATTTATATTA
*
149210 ATATAGTATATA-TATGTATGTATAACTAATATAAGTAATCTATAT
1 ATATA-TATATATTATGTATGCATAACTAATATAAGTAATCTATAT
* *
149255 ATATAAATATATTGTGTATGCATAACTAATATAAGTAATCTATAT
1 ATATATATATATTATGTATGCATAACTAATATAAGTAATCTATAT
149300 ATATAT-TATA
1 ATATATATATA
149310 GAAATACTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.18
45 41 0.82
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (45 bp):
ATATATATATATTATGTATGCATAACTAATATAAGTAATCTATAT
Found at i:149381 original size:7 final size:7
Alignment explanation
Indices: 149365--149439 Score: 51
Period size: 7 Copynumber: 10.7 Consensus size: 7
149355 ATAGAAAACT
*
149365 TAAACTC
1 TAAACCC
149372 TAAACCC
1 TAAACCC
* *
149379 TAAATCA
1 TAAACCC
*
149386 TGAACCC
1 TAAACCC
*
149393 TAAACAC
1 TAAACCC
* *
149400 TAAATCA
1 TAAACCC
* *
149407 TAAATCT
1 TAAACCC
*
149414 TAAACTC
1 TAAACCC
149421 TAAACCC
1 TAAACCC
*
149428 TAACCCC
1 TAAACCC
149435 TAAAC
1 TAAAC
149440 TATATATGTA
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:149417 original size:21 final size:21
Alignment explanation
Indices: 149365--149439 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
149355 ATAGAAAACT
* *
149365 TAAACTCTAAACCCTAAATCA
1 TAAACCCTAAACACTAAATCA
*
149386 TGAACCCTAAACACTAAATCA
1 TAAACCCTAAACACTAAATCA
* * * * *
149407 TAAATCTTAAACTCTAAACCC
1 TAAACCCTAAACACTAAATCA
*
149428 TAACCCCTAAAC
1 TAAACCCTAAAC
149440 TATATATGTA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACACTAAATCA
Found at i:149438 original size:28 final size:28
Alignment explanation
Indices: 149360--149438 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 28
149350 CGTTTATAGA
*
149360 AAACT-TAAACTCTAAACCCTAAATCAT
1 AAACTCTAAACACTAAACCCTAAATCAT
* * * * *
149387 GAACCCTAAACACTAAATCATAAATCTT
1 AAACTCTAAACACTAAACCCTAAATCAT
* *
149415 AAACTCTAAACCCTAACCCCTAAA
1 AAACTCTAAACACTAAACCCTAAA
149439 CTATATATGT
Statistics
Matches: 39, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
27 3 0.08
28 36 0.92
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (28 bp):
AAACTCTAAACACTAAACCCTAAATCAT
Found at i:149624 original size:7 final size:7
Alignment explanation
Indices: 149614--149653 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
149604 CTTTAAATTA
149614 TAAACCC
1 TAAACCC
*
149621 TAAACTC
1 TAAACCC
*
149628 TAAACCT
1 TAAACCC
*
149635 TAGACCC
1 TAAACCC
149642 TAAACCC
1 TAAACCC
149649 TAAAC
1 TAAAC
149654 TATATATGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:149631 original size:21 final size:21
Alignment explanation
Indices: 149593--149657 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
149583 ATAGAAACCC
* * * *
149593 TAAACCTTAACCTTTAAATTA
1 TAAACCCTAAACTCTAAACTA
149614 TAAACCCTAAACTCTAAACCT-
1 TAAACCCTAAACTCTAAA-CTA
* *
149635 TAGACCCTAAACCCTAAACTA
1 TAAACCCTAAACTCTAAACTA
149656 TA
1 TA
149658 TATGTATAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 2 0.06
21 33 0.92
22 1 0.03
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAACCCTAAACTCTAAACTA
Found at i:149708 original size:16 final size:16
Alignment explanation
Indices: 149687--149717 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
149677 TAATTCATAT
149687 ATAGTTTATATAAATA
1 ATAGTTTATATAAATA
149703 ATAGTTTATATAAAT
1 ATAGTTTATATAAAT
149718 TATATATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
ATAGTTTATATAAATA
Found at i:149872 original size:57 final size:55
Alignment explanation
Indices: 149797--149909 Score: 138
Period size: 57 Copynumber: 2.0 Consensus size: 55
149787 ATGTAAACTA
* *
149797 TATATGTATAAACTATCTATAGTATATAATATATATA-TATATATATAACCTATAG
1 TATATGTATAAACAATCTAT-GTATATAATATATAAACTATATATATAACCTATAG
* ** *
149852 TATATGTATATATACAATCTATTTATATGTTATATAAACTATATATGTAACCTATAG
1 TATATGTATA-A-ACAATCTATGTATATAATATATAAACTATATATATAACCTATAG
149909 T
1 T
149910 TTATAAACAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
55 10 0.20
56 13 0.27
57 26 0.53
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.43
Consensus pattern (55 bp):
TATATGTATAAACAATCTATGTATATAATATATAAACTATATATATAACCTATAG
Found at i:149928 original size:21 final size:20
Alignment explanation
Indices: 149904--149994 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 20
149894 ATATGTAACC
149904 TATAGTTTATAAACAATAGTT
1 TATA-TTTATAAACAATAGTT
**
149925 TATA-TTAGTGTACTATATAGTT
1 TATATTTA-TAAAC-A-ATAGTT
* * *
149947 TATACTTTATAACCTATAGTA
1 TATA-TTTATAAACAATAGTT
*
149968 TATAATTTATAAACTATAGTT
1 TAT-ATTTATAAACAATAGTT
149989 TATATT
1 TATATT
149995 AATGTACTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.05
20 6 0.11
21 30 0.55
22 11 0.20
23 2 0.04
24 3 0.05
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (20 bp):
TATATTTATAAACAATAGTT
Found at i:150009 original size:22 final size:21
Alignment explanation
Indices: 149919--150021 Score: 75
Period size: 22 Copynumber: 4.8 Consensus size: 21
149909 TTTATAAACA
*
149919 ATAGTTTATATTAGTGTACTAT
1 ATAGTTTATATTAATGTAC-AT
* * *
149941 ATAGTTTATACTTTAT-AACCT
1 ATAGTTTATA-TTAATGTACAT
* * **
149962 ATAGTATATAATTTATAAAC-T
1 ATAGTTTAT-ATTAATGTACAT
149983 ATAGTTTATATTAATGTACTAT
1 ATAGTTTATATTAATGTAC-AT
*
150005 ATAGTTTGTATTAATGT
1 ATAGTTTATATTAATGT
150022 TAATTAACTT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
20 7 0.11
21 23 0.35
22 33 0.50
23 3 0.05
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.49
Consensus pattern (21 bp):
ATAGTTTATATTAATGTACAT
Found at i:150074 original size:14 final size:14
Alignment explanation
Indices: 150057--150116 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
150047 TAATATAGTA
150057 TATAGTTTATAAAC
1 TATAGTTTATAAAC
* * *
150071 TATACTATATTAA-
1 TATAGTTTATAAAC
* *
150084 TATTAATTTTATTAAC
1 TA-T-AGTTTATAAAC
150100 TATAGTTTATAAAC
1 TATAGTTTATAAAC
150114 TAT
1 TAT
150117 GCTATATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
13 2 0.06
14 23 0.64
15 9 0.25
16 2 0.06
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (14 bp):
TATAGTTTATAAAC
Found at i:150094 original size:29 final size:29
Alignment explanation
Indices: 150062--150215 Score: 112
Period size: 29 Copynumber: 4.9 Consensus size: 29
150052 TAGTATATAG
*
150062 TTTATAAACTATACTATATTAATATTAAT
1 TTTATAAACTATATTATATTAATATTAAT
* *
150091 TTTATTAACTATAGTT-TATAAACTATGCTATAT
1 TTTATAAACTATA-TTATATTAA-TAT--TA-AT
*
150124 AATTTATAAAATATAGTTTATATTAATATTAAT
1 --TTTATAAACTATA--TTATATTAATATTAAT
* *
150157 TTTATAGACTATTTTATATTAATATTAAT
1 TTTATAAACTATATTATATTAATATTAAT
*
150186 TACAAATTATAAAGTATATTATATTAATAT
1 T-----TTATAAACTATATTATATTAATAT
150216 AAAGTAATAT
Statistics
Matches: 98, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
29 34 0.35
30 4 0.04
31 10 0.10
32 2 0.02
33 4 0.04
34 23 0.23
35 11 0.11
36 5 0.05
37 5 0.05
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (29 bp):
TTTATAAACTATATTATATTAATATTAAT
Found at i:150227 original size:21 final size:20
Alignment explanation
Indices: 150193--150236 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
150183 AATTACAAAT
150193 TATAAAGTATATTA-TATTAA
1 TATAAAGTATATTATTA-TAA
150213 TATAAAGTAATATTATTATAA
1 TATAAAGT-ATATTATTATAA
150234 TAT
1 TAT
150237 TAATTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 12 0.55
22 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TATAAAGTATATTATTATAA
Found at i:150905 original size:25 final size:25
Alignment explanation
Indices: 150876--150961 Score: 102
Period size: 25 Copynumber: 3.4 Consensus size: 25
150866 ACTAATTATT
*
150876 TAACA-CCTAATGTAACATGAATTAA
1 TAACATCC-AATGCAACATGAATTAA
*
150901 TAACATGCAATGCAACATGAATTAA
1 TAACATCCAATGCAACATGAATTAA
* * *
150926 TAACATGCAATACCACATGAATTAA
1 TAACATCCAATGCAACATGAATTAA
*
150951 TAACATGCAAT
1 TAACATCCAAT
150962 TATTATTTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
25 55 0.98
26 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (25 bp):
TAACATCCAATGCAACATGAATTAA
Found at i:150906 original size:13 final size:14
Alignment explanation
Indices: 150888--150963 Score: 67
Period size: 13 Copynumber: 5.9 Consensus size: 14
150878 ACACCTAATG
150888 TAACATG-AATTAA
1 TAACATGCAATTAA
*
150901 TAACATGCAA-T-G
1 TAACATGCAATTAA
*
150913 CAACATG-AATTAA
1 TAACATGCAATTAA
150926 TAACATGCAA-T-A
1 TAACATGCAATTAA
**
150938 CCACATG-AATTAA
1 TAACATGCAATTAA
150951 TAACATGCAATTA
1 TAACATGCAATTA
150964 TTATTTAACA
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
11 4 0.08
12 14 0.29
13 21 0.44
14 9 0.19
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (14 bp):
TAACATGCAATTAA
Found at i:151552 original size:12 final size:11
Alignment explanation
Indices: 151524--151563 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
151514 TTGAATTAAC
151524 TCAAATGTTAT
1 TCAAATGTTAT
*
151535 TCAAATTTTAT
1 TCAAATGTTAT
151546 ATCAAATGTTAT
1 -TCAAATGTTAT
*
151558 TTAAAT
1 TCAAAT
151564 TATCATTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (11 bp):
TCAAATGTTAT
Found at i:152467 original size:48 final size:48
Alignment explanation
Indices: 152415--152514 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
152405 TTGACTCTAG
*
152415 TCGGTTTTAGTCAATTTCGCAGGTCGGGTCAGCTTTTTACAACCCTAC
1 TCGGTTTTAGTCAATTTCGCAGGCCGGGTCAGCTTTTTACAACCCTAC
*
152463 TCGGTTTTAGTCAATTTTGCAGGCCGGGTCAGCTTTTTACAACCCTAC
1 TCGGTTTTAGTCAATTTCGCAGGCCGGGTCAGCTTTTTACAACCCTAC
152511 TCGG
1 TCGG
152515 GAGTGATGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (48 bp):
TCGGTTTTAGTCAATTTCGCAGGCCGGGTCAGCTTTTTACAACCCTAC
Found at i:153631 original size:36 final size:35
Alignment explanation
Indices: 153558--153631 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
153548 CTGACTGTGC
* * *
153558 CATTTCAAATATGTTCCTTTCTTTTCAAAACAGAT
1 CATTTCAAATATGTTACTTTCATTTCAAAACAAAT
*
153593 CATTTCAAATATG-TACTTTACCATTTCAAATCAAAT
1 CATTTCAAATATGTTACTTT--CATTTCAAAACAAAT
153629 CAT
1 CAT
153632 CGTTAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 5 0.15
35 13 0.39
36 15 0.45
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (35 bp):
CATTTCAAATATGTTACTTTCATTTCAAAACAAAT
Found at i:154856 original size:24 final size:24
Alignment explanation
Indices: 154824--154876 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
154814 CTTTTGCAAA
154824 TTTCACCACTAACTTTACCAAATC
1 TTTCACCACTAACTTTACCAAATC
154848 TTTCACCACTAACTTTACCAAATC
1 TTTCACCACTAACTTTACCAAATC
154872 TTTCA
1 TTTCA
154877 ACTTTACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (24 bp):
TTTCACCACTAACTTTACCAAATC
Found at i:158646 original size:17 final size:20
Alignment explanation
Indices: 158624--158665 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
158614 AAGGGTTTAG
158624 TAAAAAG-GA-TTAAA-TAA
1 TAAAAAGCGATTTAAAGTAA
158641 TAAAAAGCGATTTAAAGTAA
1 TAAAAAGCGATTTAAAGTAA
158661 -AAAAA
1 TAAAAA
158666 TTAAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 10 0.45
20 3 0.14
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.21
Consensus pattern (20 bp):
TAAAAAGCGATTTAAAGTAA
Found at i:159270 original size:13 final size:13
Alignment explanation
Indices: 159252--159300 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
159242 CTTAGCATGT
159252 TTAAAAATAAAAC
1 TTAAAAATAAAAC
159265 TT-AAAATAAAA-
1 TTAAAAATAAAAC
159276 -TAAAAATGAAAAC
1 TTAAAAAT-AAAAC
* *
159289 TTGAAAAGAAAA
1 TTAAAAATAAAA
159301 GAAAATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
10 1 0.03
11 5 0.17
12 13 0.43
13 6 0.20
14 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.20
Consensus pattern (13 bp):
TTAAAAATAAAAC
Found at i:159287 original size:24 final size:24
Alignment explanation
Indices: 159253--159309 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
159243 TTAGCATGTT
*
159253 TAAAAATAAAACTT-AAAATAAAA
1 TAAAAATAAAACTTGAAAAGAAAA
159276 TAAAAATGAAAACTTGAAAAGAAAA
1 TAAAAAT-AAAACTTGAAAAGAAAA
*
159301 -GAAAATAAA
1 TAAAAATAAA
159310 GAACTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.33
24 12 0.40
25 8 0.27
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.18
Consensus pattern (24 bp):
TAAAAATAAAACTTGAAAAGAAAA
Found at i:161315 original size:24 final size:24
Alignment explanation
Indices: 161287--161336 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
161277 CCACATGCAA
161287 ACTTAGCTAATCGACCCCCATCTT
1 ACTTAGCTAATCGACCCCCATCTT
161311 ACTTAGCTAATCGACCCCCATCTT
1 ACTTAGCTAATCGACCCCCATCTT
161335 AC
1 AC
161337 AAGCTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.38, G:0.08, T:0.28
Consensus pattern (24 bp):
ACTTAGCTAATCGACCCCCATCTT
Found at i:163936 original size:20 final size:21
Alignment explanation
Indices: 163897--163936 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
163887 TTTTACATTT
**
163897 AAATATTATTTAAATTTTAAA
1 AAATATTATTTAAAAATTAAA
163918 AAATATT-TTTAAAAATTAA
1 AAATATTATTTAAAAATTAA
163937 CTTACTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATATTATTTAAAAATTAAA
Found at i:165620 original size:101 final size:101
Alignment explanation
Indices: 165424--165643 Score: 262
Period size: 101 Copynumber: 2.2 Consensus size: 101
165414 GGAAACATCG
* * * * * * * *
165424 CTTCCAGTTCAAGGGGAAGGCATTCATCTACCAATTTCTTTGACCTAAATGTGGATATGCCCTCG
1 CTTCAAGTTCAAGGGG-AGACATTCAACTGCGAGTTTCTTCGACCTAAATGTGGAGATGCCCTCG
* ** *
165489 ACACAACAATCTGTTCAGTACCCATTTGACACGATGC
65 ACACAACAATCAGTTCAAAACCCATATGACACGATGC
* * *
165526 CTTCAAGTTCCAGGGGAGACATTCAACTGCGAGTTTCTTCGACCTCAATGTGGAGATG-CTTACG
1 CTTCAAGTTCAAGGGGAGACATTCAACTGCGAGTTTCTTCGACCTAAATGTGGAGATGCCCT-CG
* *
165590 ACACAACACTCAGTTCAAAACCCATATGACATGATGC
65 ACACAACAATCAGTTCAAAACCCATATGACACGATGC
165627 CTTCAAGTTCAAGGGGA
1 CTTCAAGTTCAAGGGGA
165644 AGGAATTCAA
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
100 2 0.02
101 83 0.84
102 14 0.14
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (101 bp):
CTTCAAGTTCAAGGGGAGACATTCAACTGCGAGTTTCTTCGACCTAAATGTGGAGATGCCCTCGA
CACAACAATCAGTTCAAAACCCATATGACACGATGC
Found at i:166417 original size:3 final size:3
Alignment explanation
Indices: 166409--166443 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
166399 AAACTTAGTC
166409 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
166444 CACCGTGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:167665 original size:16 final size:15
Alignment explanation
Indices: 167644--167725 Score: 79
Period size: 16 Copynumber: 5.7 Consensus size: 15
167634 AATGAAAATG
167644 GTCTATGTGAATACAT
1 GTCTATGTGAATA-AT
167660 GTCTATGTG-ATAA-
1 GTCTATGTGAATAAT
167673 G-CTATGTGAA-AAT
1 GTCTATGTGAATAAT
*
167686 GGTCTATATGAATACAT
1 -GTCTATGTGAATA-AT
167703 GTCTATGTG-ATAA-
1 GTCTATGTGAATAAT
167716 G-CTATGTGAA
1 GTCTATGTGAA
167726 ATGGTATAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
12 16 0.28
13 4 0.07
14 3 0.05
15 14 0.25
16 18 0.32
17 2 0.04
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (15 bp):
GTCTATGTGAATAAT
Found at i:167679 original size:12 final size:14
Alignment explanation
Indices: 167644--167728 Score: 72
Period size: 12 Copynumber: 6.1 Consensus size: 14
167634 AATGAAAATG
167644 GTCTATGTGAATACAT
1 GTCTATGTG-ATA-AT
167660 GTCTATGTGATAA-
1 GTCTATGTGATAAT
*
167673 G-CTATGTGAAAAT
1 GTCTATGTGATAAT
*
167686 GGTCTATATGAATACAT
1 -GTCTATGTG-ATA-AT
167703 GTCTATGTGATAA-
1 GTCTATGTGATAAT
167716 G-CTATGTGA-AAT
1 GTCTATGTGATAAT
167728 G
1 G
167729 GTATAAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
11 2 0.03
12 19 0.32
13 2 0.03
14 3 0.05
15 12 0.20
16 19 0.32
17 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.35
Consensus pattern (14 bp):
GTCTATGTGATAAT
Found at i:167684 original size:43 final size:43
Alignment explanation
Indices: 167636--167730 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
167626 TTCTGTGAAA
*
167636 TGAAAATGGTCTATGTGAATACATGTCTATGTGATAAGCTATG
1 TGAAAATGGTCTATATGAATACATGTCTATGTGATAAGCTATG
167679 TGAAAATGGTCTATATGAATACATGTCTATGTGATAAGCTATG
1 TGAAAATGGTCTATATGAATACATGTCTATGTGATAAGCTATG
167722 TG-AAATGGT
1 TGAAAATGGT
167731 ATAAAATATA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 7 0.14
43 44 0.86
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (43 bp):
TGAAAATGGTCTATATGAATACATGTCTATGTGATAAGCTATG
Found at i:167853 original size:46 final size:46
Alignment explanation
Indices: 167801--167897 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
167791 GATTCGAGGG
* *
167801 TTCTACGCGGTCCTTCGGGATAATTCTACGTGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAATACTACGTGGTCCTTCGGGACAT
*
167847 TTCTACGCGGTCCTTCGGGACAATACTATGTGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAATACTACGTGGTCCTTCGGGACAT
167893 TTCTA
1 TTCTA
167898 TGTGGAACTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (46 bp):
TTCTACGCGGTCCTTCGGGACAATACTACGTGGTCCTTCGGGACAT
Found at i:167908 original size:23 final size:23
Alignment explanation
Indices: 167801--167902 Score: 132
Period size: 23 Copynumber: 4.4 Consensus size: 23
167791 GATTCGAGGG
* *
167801 TTCTACGCGGTCCTTCGGGATAA
1 TTCTACGTGGTCCTTCGGGACAA
*
167824 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
*
167847 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* * *
167870 TACTATGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
*
167893 TTCTATGTGG
1 TTCTACGTGG
167903 AACTTCAGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.33
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:168054 original size:15 final size:15
Alignment explanation
Indices: 168034--168064 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
168024 GTGCATAATA
*
168034 ATGATAATGATGATG
1 ATGATAATAATGATG
168049 ATGATAATAATGATG
1 ATGATAATAATGATG
168064 A
1 A
168065 GGAAATATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (15 bp):
ATGATAATAATGATG
Found at i:176310 original size:23 final size:21
Alignment explanation
Indices: 176258--176319 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
176248 TTTTGGTGCA
*
176258 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
176278 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
176299 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
176320 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:176338 original size:21 final size:21
Alignment explanation
Indices: 176301--176340 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
176291 CCCCCTTTGA
*
176301 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
176322 AGGGGAATCC-ATACCCCCC
1 AGGGGAA-CCGATACCCCCC
176341 TAGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.25, C:0.42, G:0.23, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:179819 original size:9 final size:9
Alignment explanation
Indices: 179805--179829 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
179795 ATTACAAACT
179805 AAATAATAA
1 AAATAATAA
179814 AAATAATAA
1 AAATAATAA
179823 AAATAAT
1 AAATAAT
179830 TAAATACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAATAA
Found at i:179835 original size:23 final size:24
Alignment explanation
Indices: 179781--179835 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
179771 CTAAATTGAA
* * *
179781 AATTAAATAAAATTATTACAAACT
1 AATTAAATAAAAATAATACAAAAT
*
179805 AAAT-AATAAAAATAATA-AAAAT
1 AATTAAATAAAAATAATACAAAAT
179827 AATTAAATA
1 AATTAAATA
179836 CAAACATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 7 0.28
23 15 0.60
24 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
AATTAAATAAAAATAATACAAAAT
Done.