Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 25
Found at i:3821282 original size:24 final size:24
Alignment explanation
Indices: 3821249--3821298 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
3821239 TGGCAGTATC
3821249 CCTCCCCTTAATTAAAATCCCTAA
1 CCTCCCCTTAATTAAAATCCCTAA
*
3821273 CCTCCTCTTAATTAAAATCCCTAA
1 CCTCCCCTTAATTAAAATCCCTAA
3821297 CC
1 CC
3821299 CTATTTGCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.30
Consensus pattern (24 bp):
CCTCCCCTTAATTAAAATCCCTAA
Found at i:3823720 original size:18 final size:18
Alignment explanation
Indices: 3823697--3823734 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
3823687 AGACTTAATT
3823697 TTTTTTACTTTTGTTTAG
1 TTTTTTACTTTTGTTTAG
3823715 TTTTTTACTTTTGTTTAG
1 TTTTTTACTTTTGTTTAG
3823733 TT
1 TT
3823735 AACGAGACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.05, G:0.11, T:0.74
Consensus pattern (18 bp):
TTTTTTACTTTTGTTTAG
Found at i:3825207 original size:27 final size:26
Alignment explanation
Indices: 3825177--3825241 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
3825167 AAGTCAATGG
*
3825177 AAAATAGAGATAAGAA-AAATGATGGA
1 AAAATAGAGATAAGAATAAAT-AAGGA
* * *
3825203 TAAAATAAATATAAGAATAGATAAGGA
1 -AAAATAGAGATAAGAATAAATAAGGA
3825230 AAAATAGAGATA
1 AAAATAGAGATA
3825242 TGTAATGGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 10 0.32
27 18 0.58
28 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.18, T:0.18
Consensus pattern (26 bp):
AAAATAGAGATAAGAATAAATAAGGA
Found at i:3827699 original size:21 final size:21
Alignment explanation
Indices: 3827673--3827749 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
3827663 AAAATGAGGT
* *
3827673 GTAAGTAGATGAATTACCTTC
1 GTAAGTAGATGAAGTACCTTA
3827694 GTAAGTAGATGAAGTACCTTA
1 GTAAGTAGATGAAGTACCTTA
* *
3827715 GTAAGTAGATGAAGGACCTTG
1 GTAAGTAGATGAAGTACCTTA
*
3827736 GTAAATAGATGAAG
1 GTAAGTAGATGAAG
3827750 CTCCTTGGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.27
Consensus pattern (21 bp):
GTAAGTAGATGAAGTACCTTA
Found at i:3827755 original size:21 final size:20
Alignment explanation
Indices: 3827673--3827758 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 20
3827663 AAAATGAGGT
* *
3827673 GTAAGTAGATGAATTACCTTC
1 GTAAGTAGATGAAGT-CCTTG
*
3827694 GTAAGTAGATGAAGTACCTTA
1 GTAAGTAGATGAAGT-CCTTG
*
3827715 GTAAGTAGATGAAGGACCTTG
1 GTAAGTAGATGAA-GTCCTTG
*
3827736 GTAAATAGATGAAGCTCCTTG
1 GTAAGTAGATGAAG-TCCTTG
3827757 GT
1 GT
3827759 GACTATTGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.02
21 55 0.96
22 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (20 bp):
GTAAGTAGATGAAGTCCTTG
Found at i:3829843 original size:77 final size:79
Alignment explanation
Indices: 3829753--3829905 Score: 199
Period size: 77 Copynumber: 2.0 Consensus size: 79
3829743 AAATTAATAA
*
3829753 AAAATATTATTTAATTAATT-CAAATTAAATAT-ATATT-AAAGACTTATAAT-ATGAATTACAA
1 AAAATATTATTTAATT-ATTCCAAATTAAATATCA-ATTAAAAGACTTATAATCA-AAATTACAA
3829814 TC-TTTAATGTTTATTT
63 TCTTTTAATGTTTATTT
* * * *
3829830 AAAATCTTATTTAATTATTCCGAATTAAATATCAATTAAAAGAGTTATAATCAAAATTACATTCT
1 AAAATATTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCT
3829895 TTTAATGTTTA
66 TTTAATGTTTA
3829906 CTTACTATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
76 3 0.05
77 29 0.44
78 22 0.33
79 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (79 bp):
AAAATATTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCT
TTTAATGTTTATTT
Found at i:3840737 original size:734 final size:730
Alignment explanation
Indices: 3839274--3840647 Score: 2049
Period size: 734 Copynumber: 1.9 Consensus size: 730
3839264 AAATGGATTC
*
3839274 AAAAACTCCTTCATACAGACATGATCTATATGATATCGAATAGTAATTGGATAAGTCTGATTTAT
1 AAAAACTCCTTCATACAGACATGATCTATATGATATCGAATAGTAATTGAATAAGTCTGATTTAT
*
3839339 ATAGTTCCCAAGAAAATAGGAGTTGTAGTGATTGAAAATCAACAAGGGGAGTTAGTTTTGAAAAA
66 ATAGTTCCCAAGAAAATAGGAGTTGTAGTGATTGAAAATCAACAAGGGGAGTTAG-TTGGAAAAA
* * *
3839404 AGTTCAAAACATATGGTGAGTCTGCATTGATTATAGGAAGTTGAACTCTCTCACTAGAAATGACC
130 AGTTCAAAACAGATGGTGAGTCTGCATTGATTACAGGAAGTTGAACTATCTCACTAGAAATGACC
3839469 ATTTCCCTTTCCCTTTATAGATCAAAGGTATGTTTATAAAATAGGTAATGTTTTAATTAAACGTG
195 ATTTCCCTTTCCCTTTATAGATCAAAGGTATGTTTATAAAATAGGTAATGTTTTAATTAAACGTG
* * *
3839534 CAATGTACAACTTAAGAGTTTTAATTAACGTTGTGTCACTTTTGTTTATTAAATGATCATTAACG
260 CAATGTACAACTTAAGAGCTTTAATTAACGTTATGTCACTTTTGTTTATTAAATGATCACTAACG
* * *
3839599 AGCCTTTAAAGAAACAAGAGTAACTATCCAGTTACCTAATCGTTTTGTTATCTACCAGGAGGGAG
325 AGCCTTTAAAGAAACAAGAGTAAATATCCAGTTACCTAATCGTTCTGTTATCTACCAGAAGGGAG
*
3839664 TGCTTGAAATGTCTTGGTGAAGGTCGATGTTCTAGTTTTCCCTACCGATTTATATATCATCAACA
390 TGCTTGAAATGTCTTGGTGAAGGTCGATGTTATAGTTTTCCCTACCGATTTATATATCATCAACA
* * * * * *
3839729 TGGAAAATGATAGGATGAAAACTTGTTTTGAGATTCTTTTAGGTTGACCATTTCTTAGCACCACT
455 TGGAAAATGATAAGATGAAAACTTGTTTTAAGATTATTTTAAGTTGACCATTCCTAAGCACCACT
* * *
3839794 CATACAAAGATCAATATGAAGAGTGGTATATTAACAATGGAGTTTGATGGTGTGGTCGTAGAGTT
520 CATACAAAGATCAATATGAAGAGCGGTATATTAACAATGGAGTTTGATGGTGAGGTCATAGAGTT
* *
3839859 TGACATTTATAAAGCGATCAAATACCCGAATCAAGTTGAAAGAATTAATTATGAAGTATGCCTTT
585 TGACATTTATAAAGCGATCAAATACCCGAATCAAGTTGAAAGAATTAATTATGAAGTAT-CATTA
** * * *
3839924 TTGGGCGAAAATGGTACCTTACCAATGATCATCTCAAACAAGTTATCCGAAGAAGAAGAAAAAGA
649 TTGCCCGAAAATGGAACCTTACCAATAATCATCTCAAACAAGTTATAC-AAG-AG-AGAAAAAGA
*
3839989 AATGGTAAAGAAAGAGTTTT
711 AATGCTAAAGAAAGAGTTTT
* * * * * *
3840009 AAAAACTTCTTCATGCTGACTTGATCTATCTGATATCGACTAGTAATTGAATAAGTCTGA-TTAT
1 AAAAACTCCTTCATACAGACATGATCTATATGATATCGAATAGTAATTGAATAAGTCTGATTTAT
* * * *
3840073 GTAGTTCCGAAGAATAT-GAGAGTTGTAGTGATTGAAAATCAATAAGGGGAGTTAG-TGGCAAAA
66 ATAGTTCCCAAGAAAATAG-GAGTTGTAGTGATTGAAAATCAACAAGGGGAGTTAGTTGG-AAAA
3840136 AGAGTTCAAAACAGATGGTGAGTCTGCATTGATTACAGGAAGTTGAACTATCTCACTAGAAATGA
129 A-AGTTCAAAACAGATGGTGAGTCTGCATTGATTACAGGAAGTTGAACTATCTCACTAGAAATGA
* *
3840201 CCTTTTCCTTTTCCCTTTATAGATCAAAGGTATGTTTATAAAATAGGTAATGTTTTAATTAAACG
193 CCATTTCCCTTTCCCTTTATAGATCAAAGGTATGTTTATAAAATAGGTAATGTTTTAATTAAACG
* * *
3840266 TGCAATGTTCAACTTAGGAGCTTTAATTAATGTTATGTCACTTTTTGTTTATTAAATGATCACTA
258 TGCAATGTACAACTTAAGAGCTTTAATTAACGTTATGTCAC-TTTTGTTTATTAAATGATCACTA
* * ** *
3840331 ATGAGCC-TTAGAAGGATACAAGAGTAAATATCCAGTTAGTTGATCGTTCTGTTATCTACCAGAA
322 ACGAGCCTTTA-AA-GAAACAAGAGTAAATATCCAGTTACCTAATCGTTCTGTTATCTACCAGAA
*
3840395 GGGAGTGCTTGAAAATGTCTTGGTGAAGGTCGATGTTATCA-TTTTCCCTACCGATTTATATGTC
385 GGGAGTGCTTG-AAATGTCTTGGTGAAGGTCGATGTTAT-AGTTTTCCCTACCGATTTATATATC
* * *
3840459 ATCAACATGGAAAATGATAAGATGGATACTT-TTTTAAGGTTATTTTAAGTTGACCATTCCTAAG
448 ATCAACATGGAAAATGATAAGATGAAAACTTGTTTTAAGATTATTTTAAGTTGACCATTCCTAAG
** *
3840523 CACCGTTTATACAAAGATCAATATGAAGAGCGGTATATTAACAATGGAGTTTGATGGTGAGGTCA
513 CACCACTCATACAAAGATCAATATGAAGAGCGGTATATTAACAATGGAGTTTGATGGTGAGGTCA
* * * *
3840588 TAGAGTTTGACGTTTATAAAGCGGTGAAATACCTGAATCAAGTTGAAAGAATTAATTATG
578 TAGAGTTTGACATTTATAAAGCGATCAAATACCCGAATCAAGTTGAAAGAATTAATTATG
3840648 TTGATATTAT
Statistics
Matches: 579, Mismatches: 52, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
732 2 0.00
733 6 0.01
734 215 0.37
735 83 0.14
736 196 0.34
737 76 0.13
738 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (730 bp):
AAAAACTCCTTCATACAGACATGATCTATATGATATCGAATAGTAATTGAATAAGTCTGATTTAT
ATAGTTCCCAAGAAAATAGGAGTTGTAGTGATTGAAAATCAACAAGGGGAGTTAGTTGGAAAAAA
GTTCAAAACAGATGGTGAGTCTGCATTGATTACAGGAAGTTGAACTATCTCACTAGAAATGACCA
TTTCCCTTTCCCTTTATAGATCAAAGGTATGTTTATAAAATAGGTAATGTTTTAATTAAACGTGC
AATGTACAACTTAAGAGCTTTAATTAACGTTATGTCACTTTTGTTTATTAAATGATCACTAACGA
GCCTTTAAAGAAACAAGAGTAAATATCCAGTTACCTAATCGTTCTGTTATCTACCAGAAGGGAGT
GCTTGAAATGTCTTGGTGAAGGTCGATGTTATAGTTTTCCCTACCGATTTATATATCATCAACAT
GGAAAATGATAAGATGAAAACTTGTTTTAAGATTATTTTAAGTTGACCATTCCTAAGCACCACTC
ATACAAAGATCAATATGAAGAGCGGTATATTAACAATGGAGTTTGATGGTGAGGTCATAGAGTTT
GACATTTATAAAGCGATCAAATACCCGAATCAAGTTGAAAGAATTAATTATGAAGTATCATTATT
GCCCGAAAATGGAACCTTACCAATAATCATCTCAAACAAGTTATACAAGAGAGAAAAAGAAATGC
TAAAGAAAGAGTTTT
Found at i:3848882 original size:27 final size:28
Alignment explanation
Indices: 3848849--3848901 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
3848839 TTTTGAATTC
*
3848849 TTTTTCTTTTCTTTTAT-TCTTTTCTGA
1 TTTTTCTCTTCTTTTATATCTTTTCTGA
*
3848876 TTTTTCTCTTCTTTTTTATCTTTTCT
1 TTTTTCTCTTCTTTTATATCTTTTCT
3848902 TTCTTTTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (28 bp):
TTTTTCTCTTCTTTTATATCTTTTCTGA
Found at i:3848887 original size:19 final size:18
Alignment explanation
Indices: 3848865--3848910 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
3848855 TTTTCTTTTA
3848865 TTCTTTTCTGAT-TTTTCT
1 TTCTTTT-TGATCTTTTCT
*
3848883 CTTCTTTTTTATCTTTTCT
1 -TTCTTTTTGATCTTTTCT
3848902 TTCTTTTTG
1 TTCTTTTTG
3848911 CAATCCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (18 bp):
TTCTTTTTGATCTTTTCT
Found at i:3848901 original size:14 final size:13
Alignment explanation
Indices: 3848849--3848908 Score: 66
Period size: 14 Copynumber: 4.4 Consensus size: 13
3848839 TTTTGAATTC
3848849 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
* *
3848862 TTATTCTTTTCTGA
1 TTTTTCTTTTCT-T
*
3848876 TTTTTCTCTTCTT
1 TTTTTCTTTTCTT
3848889 TTTTATCTTTTCTT
1 TTTT-TCTTTTCTT
3848903 TCTTTT
1 T-TTTT
3848909 TGCAATCCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
13 15 0.39
14 20 0.53
15 3 0.08
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:3849203 original size:19 final size:20
Alignment explanation
Indices: 3849175--3849214 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3849165 GAATAATAAT
3849175 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
* *
3849195 ATAAG-AATGAGATGAAATA
1 ATAAGTAATGAAAAGAAATA
3849214 A
1 A
3849215 AGAAAGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:3850824 original size:22 final size:24
Alignment explanation
Indices: 3850796--3850845 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
3850786 AAAAAATGCA
3850796 GAAAAAAG-AGAAA-ACAATGTTT
1 GAAAAAAGCAGAAATACAATGTTT
*
3850818 GAAAAAAGCAGAAATTACACTGTTT
1 GAAAAAAGCAGAAA-TACAATGTTT
3850843 GAA
1 GAA
3850846 TAGTGCAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 5 0.21
25 11 0.46
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.20
Consensus pattern (24 bp):
GAAAAAAGCAGAAATACAATGTTT
Found at i:3851294 original size:38 final size:39
Alignment explanation
Indices: 3851252--3851335 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
3851242 GGGTATTGAG
*
3851252 TTTTGC-ATCATGAGATTAATGAGTTATTAAAATGTATT
1 TTTTGCTATAATGAGATTAATGAGTTATTAAAATGTATT
*
3851290 TTTTGCTTTAATGAGATTAATGAGTTATTAAAATGTATT
1 TTTTGCTATAATGAGATTAATGAGTTATTAAAATGTATT
3851329 TTTTGCT
1 TTTTGCT
3851336 TTAACTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 6 0.14
39 37 0.86
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (39 bp):
TTTTGCTATAATGAGATTAATGAGTTATTAAAATGTATT
Found at i:3851305 original size:39 final size:39
Alignment explanation
Indices: 3851261--3851339 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
3851251 GTTTTGCATC
3851261 ATGAGATTAATGAGTTATTAAAATGTATTTTTTGCTTTA
1 ATGAGATTAATGAGTTATTAAAATGTATTTTTTGCTTTA
3851300 ATGAGATTAATGAGTTATTAAAATGTATTTTTTGCTTTA
1 ATGAGATTAATGAGTTATTAAAATGTATTTTTTGCTTTA
3851339 A
1 A
3851340 CTTATTTCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (39 bp):
ATGAGATTAATGAGTTATTAAAATGTATTTTTTGCTTTA
Found at i:3855183 original size:28 final size:29
Alignment explanation
Indices: 3855151--3855206 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
3855141 ATTTTAGGAT
*
3855151 TAATTAAT-ATTAATATTTTATGT-ATTAG
1 TAATTAATAATT-ATATATTATGTGATTAG
3855179 TAATTAATAATTATATATTATGTGATTA
1 TAATTAATAATTATATATTATGTGATTA
3855207 ATTAGTACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (29 bp):
TAATTAATAATTATATATTATGTGATTAG
Found at i:3860667 original size:22 final size:22
Alignment explanation
Indices: 3860642--3860715 Score: 139
Period size: 22 Copynumber: 3.4 Consensus size: 22
3860632 TGTGAATGTC
3860642 AAATGAAGGAAACAATGGGAGG
1 AAATGAAGGAAACAATGGGAGG
3860664 AAATGAAGGAAACAATGGGAGG
1 AAATGAAGGAAACAATGGGAGG
*
3860686 AAATGAAGGAAACAATTGGAGG
1 AAATGAAGGAAACAATGGGAGG
3860708 AAATGAAG
1 AAATGAAG
3860716 AGGTAGATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.51, C:0.04, G:0.34, T:0.11
Consensus pattern (22 bp):
AAATGAAGGAAACAATGGGAGG
Found at i:3866681 original size:36 final size:36
Alignment explanation
Indices: 3866632--3866829 Score: 281
Period size: 36 Copynumber: 5.5 Consensus size: 36
3866622 TTCTCAAGTC
** * *
3866632 AATCAAGATTTCACAAAGGAGTTGTGATGCAATGCA
1 AATCAAGCCTTCACAAAGGAGTAGTGAAGCAATGCA
*
3866668 AATCAAGCCTTCACAAAGGAGTCGTGAAGCAATGCA
1 AATCAAGCCTTCACAAAGGAGTAGTGAAGCAATGCA
* *
3866704 AATCAAGCCTTCATAAAGGAGTAGTGAAGAAATGCA
1 AATCAAGCCTTCACAAAGGAGTAGTGAAGCAATGCA
* *
3866740 AATCAAGCCTTCACAAAAGAGTAGTGGAGCAATGCA
1 AATCAAGCCTTCACAAAGGAGTAGTGAAGCAATGCA
*
3866776 AATCAAGCCTTCACAAAAAGAGTAGTGAAGCAATGCA
1 AATCAAGCCTTCAC-AAAGGAGTAGTGAAGCAATGCA
3866813 AATTCAA-CCTTCACAAA
1 AA-TCAAGCCTTCACAAA
3866830 AAATAATAAT
Statistics
Matches: 148, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
36 114 0.77
37 30 0.20
38 4 0.03
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (36 bp):
AATCAAGCCTTCACAAAGGAGTAGTGAAGCAATGCA
Found at i:3868131 original size:28 final size:29
Alignment explanation
Indices: 3868098--3868155 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
3868088 ATTTTAGGAT
*
3868098 TAATTAAT-ATTAATATTTTATG-TATTAA
1 TAATTAATAATT-ATATATTATGATATTAA
3868126 TAATTAATAATTATATATTATGATATTAA
1 TAATTAATAATTATATATTATGATATTAA
3868155 T
1 T
3868156 TAGTACTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
TAATTAATAATTATATATTATGATATTAA
Found at i:3868139 original size:21 final size:21
Alignment explanation
Indices: 3868100--3868155 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
3868090 TTTAGGATTA
* *
3868100 ATTAATATTAATATTTTATGT
1 ATTAATATTAATATATTATAT
3868121 ATTAATAATTAATA-ATTATAT
1 ATTAAT-ATTAATATATTATAT
3868142 ATTATGATATTAAT
1 ATTA--ATATTAAT
3868156 TAGTACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 15 0.50
22 13 0.43
23 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTAATATTAATATATTATAT
Found at i:3868220 original size:13 final size:13
Alignment explanation
Indices: 3868202--3868241 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
3868192 ATTAATATGA
3868202 TTATAATAGAATT
1 TTATAATAGAATT
3868215 TTATAATAGAA-T
1 TTATAATAGAATT
* *
3868227 TAATAATAGACTT
1 TTATAATAGAATT
3868240 TT
1 TT
3868242 TATTTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (13 bp):
TTATAATAGAATT
Found at i:3868234 original size:12 final size:13
Alignment explanation
Indices: 3868204--3868236 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
3868194 TAATATGATT
*
3868204 ATAATAGAATTTT
1 ATAATAGAATTTA
3868217 ATAATAGAA-TTA
1 ATAATAGAATTTA
3868229 ATAATAGA
1 ATAATAGA
3868237 CTTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (13 bp):
ATAATAGAATTTA
Found at i:3869119 original size:5 final size:5
Alignment explanation
Indices: 3869109--3869145 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
3869099 TTTTTTGCCT
3869109 TTTTC TTTTC TTTT- TTTTC -TTT- TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
3869146 AATGAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 10 0.34
5 19 0.66
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:3869124 original size:22 final size:22
Alignment explanation
Indices: 3869099--3869144 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
3869089 GGGTTTTCCC
*
3869099 TTTTTTGC-CTTTTTCTTTTCT
1 TTTTTTTCTCTTTTTCTTTTCT
*
3869120 TTTTTTTCTTTTTTTCTTTTCT
1 TTTTTTTCTCTTTTTCTTTTCT
3869142 TTT
1 TTT
3869145 CAATGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTTTTCTCTTTTTCTTTTCT
Found at i:3869563 original size:16 final size:15
Alignment explanation
Indices: 3869542--3869573 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
3869532 GATGGATAAA
3869542 ATAAAGATAAGAATAG
1 ATAAAGATAA-AATAG
3869558 ATAAAGATAAAATAG
1 ATAAAGATAAAATAG
3869573 A
1 A
3869574 GATATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.19
Consensus pattern (15 bp):
ATAAAGATAAAATAG
Found at i:3871156 original size:197 final size:200
Alignment explanation
Indices: 3870819--3871215 Score: 748
Period size: 196 Copynumber: 2.0 Consensus size: 200
3870809 TTAGCATAGG
3870819 CTGGCTGGGATCAATGAACGACGATCAAGTGCTGAAAAAATCATCCCTTTTATCAAAGAGCAAAC
1 CTGGCTGGGATCAATGAACGACGATCAAGTGCTGAAAAAATCATCCCTTTTATCAAAGAGCAAAC
3870884 GGCGGGTTCTTCAATTGAGTTTGGATCGTGGGGGCATTTTTCAATTAATCTATTTTAATTAATTT
66 GGCGGGTTCTTCAATTGAGTTTGGATCGTGGGGGCATTTTTCAATTAATCTATTTTAATTAATTT
*
3870949 CTTATTTT-AAAATTATTTTTT-AAATT-AAAAATATGTCAGTTGCCATTTTTAATGGTTTAACG
131 CTTATTTTAAAAATTATTTTTTAAAATTAAAAAATATGTCAGTTGCCATTTTTAATGGGTTAACG
3871011 GCCAA
196 GCCAA
3871016 CTGGCTGGGATCAATGAACGACGATCAAGTGCTGAAAAAATCATCCC-TTTATCAAAGAGCAAAC
1 CTGGCTGGGATCAATGAACGACGATCAAGTGCTGAAAAAATCATCCCTTTTATCAAAGAGCAAAC
3871080 GGCGGGTTCTTCAATTGAGTTTGGATCGTGGGGGCATTTTTCAATTAATCTATTTTAATTAATTT
66 GGCGGGTTCTTCAATTGAGTTTGGATCGTGGGGGCATTTTTCAATTAATCTATTTTAATTAATTT
3871145 CTTATTTTTAAAAATTATTTTTTAAAATTAAAAAATATGTCAGTTGCCATTTTTAATGGGTTAAC
131 CTTA-TTTTAAAAATTATTTTTTAAAATTAAAAAATATGTCAGTTGCCATTTTTAATGGGTTAAC
3871210 GGCCAA
195 GGCCAA
3871216 ACTTAACGGT
Statistics
Matches: 195, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
196 86 0.44
197 51 0.26
198 13 0.07
199 5 0.03
200 40 0.21
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (200 bp):
CTGGCTGGGATCAATGAACGACGATCAAGTGCTGAAAAAATCATCCCTTTTATCAAAGAGCAAAC
GGCGGGTTCTTCAATTGAGTTTGGATCGTGGGGGCATTTTTCAATTAATCTATTTTAATTAATTT
CTTATTTTAAAAATTATTTTTTAAAATTAAAAAATATGTCAGTTGCCATTTTTAATGGGTTAACG
GCCAA
Found at i:3875511 original size:8 final size:8
Alignment explanation
Indices: 3875498--3875587 Score: 68
Period size: 8 Copynumber: 11.6 Consensus size: 8
3875488 GTAATATTTG
3875498 TAATATAA
1 TAATATAA
3875506 TAATAT--
1 TAATATAA
3875512 TAATAT-A
1 TAATATAA
3875519 TAA-AT-A
1 TAATATAA
*
3875525 TAATGATAT
1 TAAT-ATAA
3875534 TAATAT-A
1 TAATATAA
3875541 TAATAATAA
1 TAAT-ATAA
3875550 T-ATAGTAA
1 TAATA-TAA
3875558 TAATATAA
1 TAATATAA
*
3875566 TAATGTAA
1 TAATATAA
*
3875574 CAATATTAA
1 TAATA-TAA
3875583 TAATA
1 TAATA
3875588 GTGTAATAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
6 12 0.18
7 8 0.12
8 31 0.46
9 16 0.24
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (8 bp):
TAATATAA
Found at i:3875517 original size:6 final size:7
Alignment explanation
Indices: 3875498--3875567 Score: 74
Period size: 8 Copynumber: 9.7 Consensus size: 7
3875488 GTAATATTTG
3875498 TAATATAA
1 TAATAT-A
3875506 TAATAT-
1 TAATATA
3875512 TAATATA
1 TAATATA
3875519 TAA-ATA
1 TAATATA
3875525 TAATGATA
1 TAAT-ATA
3875533 TTAATATA
1 -TAATATA
3875541 TAATA-A
1 TAATATA
3875547 TAATATA
1 TAATATA
3875554 GTAATAATA
1 -TAAT-ATA
3875563 TAATA
1 TAATA
3875568 ATGTAACAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
6 18 0.33
7 10 0.18
8 20 0.36
9 7 0.13
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (7 bp):
TAATATA
Found at i:3875526 original size:22 final size:22
Alignment explanation
Indices: 3875499--3875584 Score: 86
Period size: 22 Copynumber: 3.8 Consensus size: 22
3875489 TAATATTTGT
3875499 AATATAATAATATTAATATATA
1 AATATAATAATATTAATATATA
*
3875521 AATATAATGATATTAATATAT-
1 AATATAATAATATTAATATATA
*
3875542 AATAATAAT-ATAGTAATAATATAA
1 AAT-ATAATAATATTAAT-ATAT-A
* *
3875566 TAATGTAACAATATTAATA
1 -AATATAATAATATTAATA
3875585 ATAGTGTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
21 10 0.19
22 29 0.55
24 4 0.08
25 10 0.19
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (22 bp):
AATATAATAATATTAATATATA
Found at i:3875558 original size:11 final size:11
Alignment explanation
Indices: 3875498--3875569 Score: 68
Period size: 11 Copynumber: 7.1 Consensus size: 11
3875488 GTAATATTTG
3875498 TAATATAATAA
1 TAATATAATAA
3875509 T-AT-TAAT-A
1 TAATATAATAA
3875517 T-ATA-AAT-A
1 TAATATAATAA
*
3875525 TAATGATATTAA
1 TAAT-ATAATAA
3875537 T-ATATAATAA
1 TAATATAATAA
*
3875547 TAATATAGTAA
1 TAATATAATAA
3875558 TAATATAATAA
1 TAATATAATAA
3875569 T
1 T
3875570 GTAACAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
8 9 0.18
9 6 0.12
10 10 0.20
11 24 0.47
12 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TAATATAATAA
Found at i:3875794 original size:20 final size:20
Alignment explanation
Indices: 3875747--3875794 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
3875737 TCCTACCATG
** * *
3875747 AGGATTTACAGTTGACCCGG
1 AGGATTTACAAATCACCCGA
*
3875767 AGGTTTTACAAATCACCCGA
1 AGGATTTACAAATCACCCGA
3875787 AGGATTTA
1 AGGATTTA
3875795 ATTTTCTAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (20 bp):
AGGATTTACAAATCACCCGA
Found at i:3875942 original size:119 final size:119
Alignment explanation
Indices: 3875731--3876010 Score: 463
Period size: 119 Copynumber: 2.4 Consensus size: 119
3875721 ATCAAAAATA
* * *
3875731 AAAACATCCTACCATGAGGATTTACAGTTGACCCGGAGGTTTTACAAATCACCCGAAGGATTTAA
1 AAAACATCCTACCATGAGGTTTTACAGATGACCAGGAGGTTTTACAAATCACCCGAAGGATTTAA
*
3875796 TTTTCTAGAACATTAAATGATAAACTTTGAAAATCGATTCCTCATTTTCATGCG
66 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGATTCCTCATTTTCATGCG
* *
3875850 AAAACATCCTACCTTGAGGTTTTACAGATGACCATGAGGTTTTACAAATCACCCGAAGGATTTAA
1 AAAACATCCTACCATGAGGTTTTACAGATGACCAGGAGGTTTTACAAATCACCCGAAGGATTTAA
* *
3875915 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGTTTCTTCATTTTCATGCG
66 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGATTCCTCATTTTCATGCG
*
3875969 AAAACATCCTACCCTGAGGTTTTACAGATGATCC-GGAGGTTT
1 AAAACATCCTACCATGAGGTTTTACAGATGA-CCAGGAGGTTT
3876011 ATAAATTTGT
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
119 148 0.99
120 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (119 bp):
AAAACATCCTACCATGAGGTTTTACAGATGACCAGGAGGTTTTACAAATCACCCGAAGGATTTAA
TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGATTCCTCATTTTCATGCG
Found at i:3882608 original size:22 final size:22
Alignment explanation
Indices: 3882565--3882609 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3882555 GACTAAAATA
* *
3882565 CAAATTAATAAAATATAAGAAC
1 CAAATTAAAAAAATACAAGAAC
* *
3882587 CAAATTAAAAAAATGCAGGAAC
1 CAAATTAAAAAAATACAAGAAC
3882609 C
1 C
3882610 TGATTTCGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.13, G:0.09, T:0.18
Consensus pattern (22 bp):
CAAATTAAAAAAATACAAGAAC
Found at i:3883606 original size:3 final size:3
Alignment explanation
Indices: 3883594--3883703 Score: 79
Period size: 3 Copynumber: 37.7 Consensus size: 3
3883584 GTAATATTTG
* * *
3883594 TAA T-A TAA TAA TAT TAA TATA TAA -ATA TAA TGA TAT TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TA-A TAA
* * * *
3883640 TAA TAA T-A TAG TAA T-A TAG TAA TAA T-A TAA TAA TAG TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3883685 TAA TAA TAG T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
3883704 TCAACTCGGA
Statistics
Matches: 82, Mismatches: 16, Indels: 18
0.71 0.14 0.16
Matches are distributed among these distances:
2 10 0.12
3 65 0.79
4 7 0.09
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:3883607 original size:8 final size:8
Alignment explanation
Indices: 3883594--3883692 Score: 79
Period size: 8 Copynumber: 12.6 Consensus size: 8
3883584 GTAATATTTG
3883594 TAATATAA
1 TAATATAA
3883602 TAATAT--
1 TAATATAA
3883608 TAATAT-A
1 TAATATAA
3883615 TAA-AT-A
1 TAATATAA
*
3883621 TAATGATAT
1 TAAT-ATAA
3883630 TAATAT-A
1 TAATATAA
3883637 TAATAATAA
1 TAAT-ATAA
3883646 T-ATAGTAA
1 TAATA-TAA
3883654 T-ATAGTAA
1 TAATA-TAA
3883662 TAATATAA
1 TAATATAA
3883670 TAATAGTAA
1 TAATA-TAA
3883679 TAATATTAA
1 TAATA-TAA
3883688 TAATA
1 TAATA
3883693 GTATAATAAT
Statistics
Matches: 79, Mismatches: 3, Indels: 17
0.80 0.03 0.17
Matches are distributed among these distances:
6 12 0.15
7 8 0.10
8 34 0.43
9 25 0.32
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (8 bp):
TAATATAA
Found at i:3883611 original size:14 final size:14
Alignment explanation
Indices: 3883594--3883704 Score: 72
Period size: 14 Copynumber: 8.0 Consensus size: 14
3883584 GTAATATTTG
3883594 TAATATAATAATAT
1 TAATATAATAATAT
3883608 TAATAT-ATAA-AT
1 TAATATAATAATAT
*
3883620 ATAATGATATTAATAT
1 -TAAT-ATAATAATAT
*
3883636 ATAATAATAAT-ATAG
1 -TAAT-ATAATAATAT
*
3883651 TAATATAGT-A-A-
1 TAATATAATAATAT
*
3883662 TAATATAATAATAG
1 TAATATAATAATAT
* *
3883676 TAATAATATTAATAA
1 TAAT-ATAATAATAT
*
3883691 TAGTATAATAATAT
1 TAATATAATAATAT
3883705 CAACTCGGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
11 8 0.10
12 4 0.05
13 14 0.18
14 24 0.31
15 17 0.22
16 11 0.14
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (14 bp):
TAATATAATAATAT
Found at i:3883622 original size:22 final size:22
Alignment explanation
Indices: 3883595--3883695 Score: 97
Period size: 22 Copynumber: 4.7 Consensus size: 22
3883585 TAATATTTGT
*
3883595 AATATAATAATATTAATATATA
1 AATATAATAATAGTAATATATA
* *
3883617 AATATAATGATATTAATATAT-
1 AATATAATAATAGTAATATATA
3883638 AATAATAAT-ATAGTAATATAGTAA
1 AAT-ATAATAATAGTAATATA-T-A
3883662 TAATATAATAATAGTAATA-AT-
1 -AATATAATAATAGTAATATATA
3883683 -AT-TAATAATAGTA
1 AATATAATAATAGTA
3883696 TAATAATATC
Statistics
Matches: 71, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
18 11 0.15
19 2 0.03
21 13 0.18
22 26 0.37
23 1 0.01
24 6 0.08
25 12 0.17
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
AATATAATAATAGTAATATATA
Found at i:3883654 original size:11 final size:10
Alignment explanation
Indices: 3883596--3883704 Score: 90
Period size: 9 Copynumber: 11.2 Consensus size: 10
3883586 AATATTTGTA
3883596 ATATAATAAT
1 ATATAATAAT
3883606 AT-TAAT-AT
1 ATATAATAAT
3883614 ATA-AAT-AT
1 ATATAATAAT
*
3883622 AATGATATTAAT
1 -AT-ATAATAAT
3883634 ATATAATAAT
1 ATATAATAAT
*
3883644 AATATAGTAAT
1 -ATATAATAAT
3883655 ATAGTAAT-A-
1 ATA-TAATAAT
3883664 ATATAATAAT
1 ATATAATAAT
*
3883674 A-GTAATAAT
1 ATATAATAAT
3883683 AT-TAATAAT
1 ATATAATAAT
3883692 AGTATAATAAT
1 A-TATAATAAT
3883703 AT
1 AT
3883705 CAACTCGGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 24
0.74 0.05 0.22
Matches are distributed among these distances:
8 13 0.16
9 26 0.32
10 17 0.21
11 24 0.29
12 2 0.02
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (10 bp):
ATATAATAAT
Found at i:3887275 original size:26 final size:27
Alignment explanation
Indices: 3887217--3887275 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
3887207 ATTTCGAATT
*
3887217 AATTAAAATTTTATTTAGTTATTCCGA
1 AATTAAAATTTTATTTAATTATTCCGA
*
3887244 AA-TAAAATTTTATTTAATTATTTC-A
1 AATTAAAATTTTATTTAATTATTCCGA
3887269 AATTAAA
1 AATTAAA
3887276 TATTCATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 3 0.10
26 24 0.83
27 2 0.07
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (27 bp):
AATTAAAATTTTATTTAATTATTCCGA
Found at i:3899555 original size:14 final size:14
Alignment explanation
Indices: 3899536--3899570 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3899526 CTTAGTTCGG
**
3899536 GTTGACTCAAGTGA
1 GTTGACTCAACCGA
3899550 GTTGACTCAACCGA
1 GTTGACTCAACCGA
3899564 GTTGACT
1 GTTGACT
3899571 TGGTTCAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (14 bp):
GTTGACTCAACCGA
Found at i:3903087 original size:31 final size:32
Alignment explanation
Indices: 3903051--3903113 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
3903041 GATACATGAT
3903051 TATATTGTTAGAG-ACAATGTATTGGATTGAC
1 TATATTGTTAGAGAACAATGTATTGGATTGAC
3903082 TATATTGTTAGAGAACAATGTATTGGATTGAC
1 TATATTGTTAGAGAACAATGTATTGGATTGAC
3903114 CCATCATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (32 bp):
TATATTGTTAGAGAACAATGTATTGGATTGAC
Found at i:3911414 original size:27 final size:26
Alignment explanation
Indices: 3911373--3911424 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
3911363 TCCAGAAGGC
*
3911373 ACTGACTAGATCTTCTAGAAAACTGCT
1 ACTGACTAGACCTTCTAG-AAACTGCT
*
3911400 ACTGACTGGACCTTCTAGAAACTGC
1 ACTGACTAGACCTTCTAGAAACTGC
3911425 CACGTCATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (26 bp):
ACTGACTAGACCTTCTAGAAACTGCT
Found at i:3917864 original size:22 final size:22
Alignment explanation
Indices: 3917839--3917899 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
3917829 CCACGAACAG
* **
3917839 AGTTTTGGTACGAAAGGAGAAA
1 AGTTTTGGTACCAAACAAGAAA
*
3917861 AGTTTTAGTACCAAACAAGAAA
1 AGTTTTGGTACCAAACAAGAAA
* *
3917883 CGTTTTGGTACAAAACA
1 AGTTTTGGTACCAAACA
3917900 GGTAGAGTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (22 bp):
AGTTTTGGTACCAAACAAGAAA
Found at i:3919053 original size:14 final size:15
Alignment explanation
Indices: 3919034--3919066 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3919024 ATCAATTATA
*
3919034 TATAAGAA-ATAAGG
1 TATAAGAATATAAAG
3919048 TATAAGAATATAAAG
1 TATAAGAATATAAAG
3919063 TATA
1 TATA
3919067 TGGACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (15 bp):
TATAAGAATATAAAG
Found at i:3920352 original size:39 final size:39
Alignment explanation
Indices: 3920298--3920372 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
3920288 ATTAGGTTCG
*
3920298 TAGATCATCTCGATATCTAATGGCGTGAGATAGTGCAAT
1 TAGATCATCTCGATATCTAACGGCGTGAGATAGTGCAAT
3920337 TAGATCATCTCGATATCTAACGGCGTGAGATAGTGC
1 TAGATCATCTCGATATCTAACGGCGTGAGATAGTGC
3920373 GATCAAATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (39 bp):
TAGATCATCTCGATATCTAACGGCGTGAGATAGTGCAAT
Found at i:3925549 original size:9 final size:9
Alignment explanation
Indices: 3925535--3925577 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
3925525 CCTGTAAAAT
*
3925535 ATATTAACA
1 ATATTAATA
3925544 ATATTAATA
1 ATATTAATA
3925553 ATATTAATA
1 ATATTAATA
3925562 ATA-TAATA
1 ATATTAATA
*
3925570 ATAATAAT
1 ATATTAAT
3925578 TATTATATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
ATATTAATA
Found at i:3925929 original size:79 final size:78
Alignment explanation
Indices: 3925818--3926333 Score: 464
Period size: 79 Copynumber: 6.7 Consensus size: 78
3925808 ACTTTTTAGT
*
3925818 GAAGGCTTA-AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTT
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTT
3925882 AATCATGATGCTCG
66 AATCAT-ATGCTCG
* * * **** ****
3925896 GAAGACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAATGCTTAATATTGATTTGCTTCAC-
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TGGCCCGGAGGACT
* * *
3925960 TACTC-TTTGGT--
65 TAATCATATGCTCG
* ** *
3925971 GAAGGCTTA-AGATTTATTTGCTTCACCACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTT
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTT
3926035 AATCATCATGCTCG
66 AATCAT-ATGCTCG
* * ***** * *
3926049 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGAATTTGCGTTAC-
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAG-GACT
* *
3926113 TACTC-T-T-C-GG
65 TAATCATATGCTCG
* * *
3926123 TGAAGGCTT--TAGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGCCCAGAGGAC
1 -GAAGGCTTACT-GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGAC
**
3926186 TTAATCATCATGCTTA
64 TTAATCAT-ATGCTCG
* * * * *
3926202 AAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTAAAGGCTTATGATGGCCTGGAGGACTT
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTT
*
3926267 AATCATCGTGCTCG
66 AATCAT-ATGCTCG
* * * *
3926281 GAAGGCTTAATGATGGATTTGCTTCACTACTCTTTGGTGAAGACTTATGATGG
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
3926334 ATTTGCTTCA
Statistics
Matches: 340, Mismatches: 79, Indels: 37
0.75 0.17 0.08
Matches are distributed among these distances:
73 8 0.02
74 82 0.24
75 19 0.06
76 4 0.01
77 4 0.01
78 27 0.08
79 188 0.55
80 8 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (78 bp):
GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTT
AATCATATGCTCG
Found at i:3926068 original size:116 final size:115
Alignment explanation
Indices: 3925948--3926406 Score: 405
Period size: 116 Copynumber: 4.0 Consensus size: 115
3925938 GCTTAATATT
* ** *
3925948 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTTATTTGCTTCACCACTCTTCGGTGAAGG
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGG
3926013 CTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATG
66 CTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTA-TGATG
** *
3926064 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGAATTTGCGTT-ACTACTCTTCGGTGAAG
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTATGATGGATTTGC-TTCACTACTCTTCGGTGAAG
* **** **** * * * *
3926128 GCTTTAGATTGATTTGCTTCAC-TACTC-T-TTGGT--GAAGGCTTAAGATG
65 GCTTAAGA-TGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTATGATG
*** * * * *
3926175 GCCCAGAGGACTT-AAT-CATC-ATGCTTAAAAGGCTTACTGATGGATTTGCTTCACTACTCTTC
1 G---ATTTG-CTTCACTAC-TCTTTG-GT-GAAGGCTTA-TGATGGATTTGCTTCACTACTCTTC
* * * * *
3926237 CGTAAAGGCTTATGATGGCCTGGAGGACTTAATCATCGTGCTCGGAAGGCTTAATGATG
58 GGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTT-ATGATG
* *
3926296 GATTTGCTTCACTACTCTTTGGTGAAGACTTATGATGGATTTGCTTCACTACTCTTCAGTGAAGG
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGG
* * * *
3926361 TTTTATATGGCCCAGAGGACTTAATCATCATGCTCGGAAGGCTTAT
66 CTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTAT
3926407 TGATAGCCCG
Statistics
Matches: 262, Mismatches: 61, Indels: 41
0.72 0.17 0.11
Matches are distributed among these distances:
111 5 0.02
112 9 0.03
113 1 0.00
114 10 0.04
115 22 0.08
116 170 0.65
117 18 0.07
118 10 0.04
119 3 0.01
120 8 0.03
121 6 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (115 bp):
GATTTGCTTCACTACTCTTTGGTGAAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGG
CTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTATGATG
Found at i:3926253 original size:153 final size:153
Alignment explanation
Indices: 3925758--3926252 Score: 753
Period size: 153 Copynumber: 3.2 Consensus size: 153
3925748 ACTCGAGATC
* * * * * *
3925758 GATTTGCTTCATTACTCTTCGGTGAAGGCTGAAGATTGATTTGCTTCACTACTTTTTAGTGAAGG
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATTGATTTGCTTCACTACTCTTTGGTGAAGG
*
3925823 CTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCAT
66 CTTAAGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCAT
* *
3925888 GATGCTCGGAAGACTTACTGATG
131 CATGCTCGGAAGGCTTACTGATG
* *
3925911 GATTTGCTTCACTACTCTTCGGTGAATGCTTAAT-ATTGATTTGCTTCACTACTCTTTGGTGAAG
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTT-ATGATTGATTTGCTTCACTACTCTTTGGTGAAG
* *
3925975 GCTTAAGATTTATTTGCTTCACCACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCA
65 GCTTAAGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCA
3926040 TCATGCTCGGAAGGCTTACTGATG
130 TCATGCTCGGAAGGCTTACTGATG
*
3926064 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGA-TGAATTTGCGTT-ACTACTCTTCGGTGAA
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATTG-ATTTGC-TTCACTACTCTTTGGTGAA
* * *
3926127 GGCTTTAGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGCCCAGAGGACTTAATC
64 GGCTTAAGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATC
***
3926192 ATCATGCTTAAAAGGCTTACTGATG
129 ATCATGCTCGGAAGGCTTACTGATG
*
3926217 GATTTGCTTCACTACTCTTCCGTAAAGGCTTATGAT
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGAT
3926253 GGCCTGGAGG
Statistics
Matches: 314, Mismatches: 23, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
152 4 0.01
153 307 0.98
154 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (153 bp):
GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATTGATTTGCTTCACTACTCTTTGGTGAAGG
CTTAAGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCAT
CATGCTCGGAAGGCTTACTGATG
Found at i:3926358 original size:37 final size:37
Alignment explanation
Indices: 3925758--3926360 Score: 312
Period size: 37 Copynumber: 15.8 Consensus size: 37
3925748 ACTCGAGATC
* * * *
3925758 GATTTGCTTCATTACTCTTCGGTGAAGGCTGAAGATT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
* ** *
3925795 GATTTGCTTCACTACTTTTTAGTGAAGGCTTAAGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
*
3925832 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
**** * *
3925869 GCCCGGAGGACTTAATCATGA-TGC-TC-G-GAAGACTTACTGATG
1 G---ATTTG-CTTCA-C-T-ACT-CTTCGGTGAAGGCTTA-TGATG
* *
3925911 GATTTGCTTCACTACTCTTCGGTGAATGCTTAAT-ATT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTT-ATGATG
* * *
3925948 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
* * *
3925985 TATTTGCTTCACCACTCTTCGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
*** **** * * *
3926022 G-CCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATG
1 GATTTGCTTCAC-TACTCTTC--GGT--GAAGGCTTA-TGATG
*
3926064 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
* *
3926101 AATTTGCGTT-ACTACTCTTCGGTGAAGGCTT-TAGATT
1 GATTTGC-TTCACTACTCTTCGGTGAAGGCTTAT-GATG
* *
3926138 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
*** * * * *
3926175 GCCCAGAGGACTT-AAT-CATCAT-GCTTAAAAGGCTTACTGATG
1 G---ATTTG-CTTCACTAC-TCTTCG-GT-GAAGGCTTA-TGATG
* *
3926217 GATTTGCTTCACTACTCTTCCGTAAAGGCTTATGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
** **** * *
3926254 G-CCTGGAGGACTTAATCATCGTGCTCGGAAGGCTTAATGATG
1 GATTTGCTTCAC-TACTCTTCG-G-T--GAAGGCTT-ATGATG
* *
3926296 GATTTGCTTCACTACTCTTTGGTGAAGACTTATGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
*
3926333 GATTTGCTTCACTACTCTTCAGTGAAGG
1 GATTTGCTTCACTACTCTTCGGTGAAGG
3926361 TTTTATATGG
Statistics
Matches: 422, Mismatches: 100, Indels: 88
0.69 0.16 0.14
Matches are distributed among these distances:
35 2 0.00
36 15 0.04
37 247 0.59
38 42 0.10
39 15 0.04
40 12 0.03
41 40 0.09
42 36 0.09
43 11 0.03
44 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (37 bp):
GATTTGCTTCACTACTCTTCGGTGAAGGCTTATGATG
Found at i:3926781 original size:42 final size:41
Alignment explanation
Indices: 3926707--3926807 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
3926697 AGGTCTTATG
* * * *
3926707 GATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTACA
1 GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* **
3926748 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATT
1 GATGACCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
* *
3926790 GATGGCACGAAGGACTTA
1 GATGACCCGAAGGACTTA
3926808 TAAATTTTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:3931861 original size:6 final size:6
Alignment explanation
Indices: 3931850--3931879 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3931840 GCAAAATAAG
*
3931850 AATGCA AATGCA AATGCA AGTGCA AATGCA
1 AATGCA AATGCA AATGCA AATGCA AATGCA
3931880 CAAGGTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (6 bp):
AATGCA
Found at i:3934159 original size:22 final size:24
Alignment explanation
Indices: 3934134--3934179 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
3934124 AAACTTATTT
3934134 AATTA-AT-AAATAATATTTGAAA
1 AATTATATGAAATAATATTTGAAA
*
3934156 AATTATTATGCAATAATATTTGAA
1 AATTA-TATGAAATAATATTTGAA
3934180 TACTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
24 2 0.10
25 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (24 bp):
AATTATATGAAATAATATTTGAAA
Found at i:3936431 original size:37 final size:37
Alignment explanation
Indices: 3936376--3936796 Score: 265
Period size: 37 Copynumber: 11.1 Consensus size: 37
3936366 GTCAGACTCG
*
3936376 AGATCGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* *
3936413 AGATTGATTTGCTTCACTACTTTTTGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* *
3936450 AGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
**** ** * * ** * *
3936487 AG-TTGGCCCGGATGACTTAATCATCATGCTCTAAAGACTTA
1 AGATTGATTTGCTTCAC-T-A-C-TC-TTCGGTGAAGGCTTA
* * * *
3936528 CTGATGGATTTGTTTCACTACACTTCGGTGAAGGCTTA
1 -AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* *
3936566 AGATTGATTTCCTTCACTACTCTTTGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* * * *
3936603 AGATTTATTTACTTCACCACTCTTCGGTGAAGCCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
**** **** * * *
3936640 AGA-TGGCCCGGAGGACTTAATCATCATGCTTGGAAGGCTTA
1 AGATTGATTTGCTTCAC-TACTCTTC--G-GT-GAAGGCTTA
* * *
3936681 CTGATGGATTTGCTTCA-TGACTCTTCCGTGAAGGCTTA
1 -AGATTGATTTGCTTCACT-ACTCTTCGGTGAAGGCTTA
* * * * *
3936719 TGA-TGAATTTACTTCACTAATCTTCGATGAAGGCTTT
1 AGATTG-ATTTGCTTCACTACTCTTCGGTGAAGGCTTA
*
3936756 AGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
3936793 AGAT
1 AGAT
3936797 GGCCCAGAGG
Statistics
Matches: 278, Mismatches: 88, Indels: 36
0.69 0.22 0.09
Matches are distributed among these distances:
36 9 0.03
37 200 0.72
38 23 0.08
39 4 0.01
40 4 0.01
41 20 0.07
42 9 0.03
43 9 0.03
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (37 bp):
AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
Found at i:3936560 original size:79 final size:79
Alignment explanation
Indices: 3936442--3936955 Score: 384
Period size: 79 Copynumber: 6.6 Consensus size: 79
3936432 CTTTTTGGTG
* * * *
3936442 AAGGCTTA-AGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAAGTTGGCCCGGATGACTTA
1 AAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTA
3936506 ATCATCATGCTCTA
66 ATCATCATGCTCTA
* * * ** ***
3936520 AAGACTTACTGATGGATTTGTTTCACTACACTTCGGTGAAGGCTTAAGATTGATTTCC--TTCAC
1 AAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TG--GCCCGGAGGAC
* * * *
3936583 -TACTC-T-TTG--GTG
63 TTAATCATCATGCTCTA
* ** * * *
3936595 AAGGCTTA-AGATTTATTTACTTCACCACTCTTCGGTGAAGCCTTAAGATGGCCCGGAGGACTTA
1 AAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTA
*
3936659 ATCATCATGCT-TGG
66 ATCATCATGCTCT-A
* * * **
3936673 AAGGCTTACTGATGGATTTGCTTCA-TGACTCTTCCGTGAAGGCTTATGAT-----GAATTTACT
1 AAGGCTTACTGATGGATTTGCTTCACT-ACTCTTCGGTGAAGGCTTAAGATGGCCCGGA-GGACT
* * * ** *
3936732 TCACTAATC-TTCGATG
64 T-AATCATCATGCTCTA
* * * *
3936748 AAGGCTT--TAGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGCCCAGAGGACCT
1 AAGGCTTACT-GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTT
*
3936811 AATCATCATGCTCGA
65 AATCATCATGCTCTA
* * * *
3936826 AAGGCTTATTGATGGATTTGCTTCACTACTCGTCTGTGAAGGCTTATGATGGCCCGGAGGACTTA
1 AAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTA
*
3936891 ATTATCATGCTC-A
66 ATCATCATGCTCTA
* * *
3936904 GAGGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGACTTATGATG
1 -AAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
3936956 AATTTGCTTC
Statistics
Matches: 334, Mismatches: 74, Indels: 55
0.72 0.16 0.12
Matches are distributed among these distances:
71 2 0.01
73 5 0.01
74 72 0.22
75 24 0.07
76 8 0.02
77 8 0.02
78 30 0.09
79 177 0.53
80 6 0.02
82 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (79 bp):
AAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTA
ATCATCATGCTCTA
Found at i:3936876 original size:153 final size:153
Alignment explanation
Indices: 3936381--3936871 Score: 698
Period size: 153 Copynumber: 3.2 Consensus size: 153
3936371 ACTCGAGATC
* *
3936381 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTACTTTTTGGTGAAGG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTACTTCACTACTCTTTGGTGAAGG
* * *
3936446 CTTAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAAGTTGGCCCGGATGACTTAATCAT
66 CTTAAGATTGATTTACTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCAT
* *
3936511 CATGCTCTAAAGACTTACTGATG
131 CATGCTCGAAAGGCTTACTGATG
* * *
3936534 GATTTGTTTCACTACACTTCGGTGAAGGCTTAAGATTGATTTCCTTCACTACTCTTTGGTGAAGG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTACTTCACTACTCTTTGGTGAAGG
* * *
3936599 CTTAAGATTTATTTACTTCACCACTCTTCGGTGAAGCCTTAAGATGGCCCGGAGGACTTAATCAT
66 CTTAAGATTGATTTACTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCAT
* *
3936664 CATGCTTGGAAGGCTTACTGATG
131 CATGCTCGAAAGGCTTACTGATG
* * * * *
3936687 GATTTGCTTCA-TGACTCTTCCGTGAAGGCTTATGA-TGAATTTACTTCACTAATCTTCGATGAA
1 GATTTGCTTCACT-ACTCTTCGGTGAAGGCTTAAGATTG-ATTTACTTCACTACTCTTTGGTGAA
* * * * *
3936750 GGCTTTAGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGCCCAGAGGACCTAATC
64 GGCTTAAGATTGATTTACTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATC
*
3936815 ATCATGCTCGAAAGGCTTATTGATG
129 ATCATGCTCGAAAGGCTTACTGATG
* *
3936840 GATTTGCTTCACTACTCGTCTGTGAAGGCTTA
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTA
3936872 TGATGGCCCG
Statistics
Matches: 300, Mismatches: 35, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
152 3 0.01
153 296 0.99
154 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (153 bp):
GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTACTTCACTACTCTTTGGTGAAGG
CTTAAGATTGATTTACTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCAT
CATGCTCGAAAGGCTTACTGATG
Found at i:3937253 original size:151 final size:151
Alignment explanation
Indices: 3937035--3937353 Score: 471
Period size: 151 Copynumber: 2.1 Consensus size: 151
3937025 CTTACTAATA
* *
3937035 GCCCGAATGACTTAT-AAATTTTGGAAATAGTTTACTAAGGAAGAAACCTTTCTTACTTTTCAAA
1 GCCCGAATGACTTATCATATTTTGGAAATAGTTTACTAAGGAAGAAACATTTCTTACTTTTCAAA
* * * *
3937099 AATTTCAAATTTCAGATTTAAATGAGAAACCTTTCTCATATTTCGATAGACATGTGAAAACATCT
66 AATTTCAAATTTCAGATTTAAATGAGAAACATTTCCCATATTTCAATAGACATGTGAAAACATCC
*
3937164 TGCCCAAAGGTCTTATGAATG
131 TACCCAAAGGTCTTATGAATG
* *
3937185 TCCCGAATGACTTATCATATTTTGGAAATATTTTACT-AGGTAAGAAACATTTCTTACTTTTCAA
1 GCCCGAATGACTTATCATATTTTGGAAATAGTTTACTAAGG-AAGAAACATTTCTTACTTTTCAA
* * * *
3937249 AAATTTCAATTTTCATATTTAAATGAGAAACATTTCCCATTTTTTAATAGACATGTGAAAACATC
65 AAATTTCAAATTTCAGATTTAAATGAGAAACATTTCCCATATTTCAATAGACATGTGAAAACATC
* *
3937314 CTACCCGAAGGTCTTATGGATG
130 CTACCCAAAGGTCTTATGAATG
*
3937336 GCCCGAAGGACTTATCAT
1 GCCCGAATGACTTATCAT
3937354 CTTGCTCGAA
Statistics
Matches: 150, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
150 17 0.11
151 133 0.89
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (151 bp):
GCCCGAATGACTTATCATATTTTGGAAATAGTTTACTAAGGAAGAAACATTTCTTACTTTTCAAA
AATTTCAAATTTCAGATTTAAATGAGAAACATTTCCCATATTTCAATAGACATGTGAAAACATCC
TACCCAAAGGTCTTATGAATG
Found at i:3937426 original size:42 final size:42
Alignment explanation
Indices: 3937326--3937432 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 42
3937316 ACCCGAAGGT
* * * * * *
3937326 CTTATGGATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGG
1 CTTATAGATTGCCCGAAGGATTTAAGCATCATGCTCGAAAGA
* *
3937367 CTTACAGA-TGACTCGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATTG-CCCGAAGGATTTAAGCATCATGCTCGAAAGA
*
3937409 CTTATTGATTGCCCGAAGGATTTA
1 CTTATAGATTGCCCGAAGGATTTA
3937433 CACATCTTTC
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
40 1 0.02
41 16 0.31
42 33 0.63
43 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
CTTATAGATTGCCCGAAGGATTTAAGCATCATGCTCGAAAGA
Found at i:3943393 original size:6 final size:6
Alignment explanation
Indices: 3943382--3943411 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3943372 GTGAAATAAG
*
3943382 AATGCA AATGCA AATGCA AGTGCA AATGCA
1 AATGCA AATGCA AATGCA AATGCA AATGCA
3943412 CAAGGTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (6 bp):
AATGCA
Found at i:3945690 original size:22 final size:24
Alignment explanation
Indices: 3945665--3945710 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
3945655 AAACTTATTT
3945665 AATTA-AT-AAATAATATTTGAAA
1 AATTATATGAAATAATATTTGAAA
*
3945687 AATTATTATGCAATAATATTTGAA
1 AATTA-TATGAAATAATATTTGAA
3945711 TACCACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
24 2 0.10
25 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (24 bp):
AATTATATGAAATAATATTTGAAA
Found at i:3947222 original size:89 final size:89
Alignment explanation
Indices: 3947081--3947248 Score: 327
Period size: 89 Copynumber: 1.9 Consensus size: 89
3947071 CTTTCTGGGT
3947081 TTTAATACCCAATTACAAGACTTCCTTCATATCAATTTGTCATGGCTAATGTTTTTCTTTTTCTT
1 TTTAATACCCAATTACAAGACTTCCTTCATATCAATTTGTCATGGCTAATGTTTTTCTTTTTCTT
3947146 GATGATTTCGATTGCTTTATGTGG
66 GATGATTTCGATTGCTTTATGTGG
*
3947170 TTTAATACCCAATTACAAGACTTCCTTCATATCAATTTGTCATGGCTTATGTTTTTCTTTTTCTT
1 TTTAATACCCAATTACAAGACTTCCTTCATATCAATTTGTCATGGCTAATGTTTTTCTTTTTCTT
3947235 GATGATTTCGATTG
66 GATGATTTCGATTG
3947249 ATTTCTGATT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (89 bp):
TTTAATACCCAATTACAAGACTTCCTTCATATCAATTTGTCATGGCTAATGTTTTTCTTTTTCTT
GATGATTTCGATTGCTTTATGTGG
Found at i:3947780 original size:9 final size:9
Alignment explanation
Indices: 3947768--3947810 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
3947758 CATAATAAAC
3947768 AATATTAAT
1 AATATTAAT
3947777 AATATTAAT
1 AATATTAAT
3947786 AATATTAAT
1 AATATTAAT
3947795 AATA-TAAT
1 AATATTAAT
3947803 AATTATTA
1 AA-TATTA
3947811 TTATTATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 6 0.19
9 24 0.75
10 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATATTAAT
Found at i:3947791 original size:18 final size:17
Alignment explanation
Indices: 3947759--3947810 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
3947749 CCTGTAAAAC
*
3947759 ATAATA-AACAATATTA
1 ATAATATAATAATATTA
3947775 ATAATATTAATAATATTA
1 ATAATA-TAATAATATTA
3947793 ATAATATAATAATTATTA
1 ATAATATAATAA-TATTA
3947811 TTATTATATC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 20 0.62
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAATATAATAATATTA
Found at i:3948043 original size:37 final size:37
Alignment explanation
Indices: 3947993--3948407 Score: 253
Period size: 37 Copynumber: 11.0 Consensus size: 37
3947983 ACTCGAGAAC
3947993 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
* * * *
3948030 GATTTGCTTCACTAGTTTTTGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
* * *
3948067 GATTTTCTTTACTACTCTTCAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
**** **** * * * * * *
3948103 GGCCCGAAGGACTTAATCATCATGCTCGGAAGACTTACTGATG
1 GATTTGCTTCAC-TACTCTTC--GGT--GAAGGCTTA-AGATT
* *
3948146 GATTTGCTTCATTACTCTTTGGTGAA-GCTTAAGATT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
* *
3948182 GATTTACTTCACTACTCTTTGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
* * *
3948219 TATTTGCTTCACCACTCTTCGATGAAGGCTTAAGA-T
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
**** **** * * * * *
3948255 GGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATG
1 GATTTGCTTCAC-TACTCTTC--GGT--GAAGGCTTA-AGATT
* *
3948298 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGA-T
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
* * * *
3948334 GAATTTGCTTCACTACTCTTCAGTGAATGCTTTAGTTT
1 G-ATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
*
3948372 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGAT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
3948408 GGCCCAGAGG
Statistics
Matches: 273, Mismatches: 88, Indels: 34
0.69 0.22 0.09
Matches are distributed among these distances:
36 35 0.13
37 179 0.66
38 14 0.05
39 3 0.01
40 3 0.01
41 17 0.06
42 15 0.05
43 7 0.03
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (37 bp):
GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
Found at i:3948163 original size:79 final size:79
Alignment explanation
Indices: 3948053--3948567 Score: 447
Period size: 79 Copynumber: 6.7 Consensus size: 79
3948043 AGTTTTTGGT
* * * *
3948053 GAAGGCTTA-AGATGGATTTTCTTTACTACTCTTCAGTGAAGGCTTAAGATGGCCCGAAGGACTT
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGAAGGACTT
3948117 AATCATCATGCTCG
66 AATCATCATGCTCG
* * * * ***
3948131 GAAGACTTACTGATGGATTTGCTTCATTACTCTTTGGTGAA-GCTTAAGAT----TGATTTACTT
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGAAGGACTT
* * *
3948191 CA-CTACTC-T-TTGG
66 AATC-A-TCATGCTCG
* ** * * *
3948204 TGAAGGCTTA-AGATTTATTTGCTTCACCACTCTTCGATGAAGGCTTAAGATGGCCCGGAGGACT
1 -GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGAAGGACT
3948268 TAATCATCATGCTCG
65 TAATCATCATGCTCG
* * **** ****
3948283 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGAATTTGCTTCAC-
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-GCCCGAAGGACT
* *
3948347 TACTCTTCA-G-T--
65 TAATCATCATGCTCG
* * * *
3948358 GAATGCTT--TAGTTTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGCCC-AGAGGAC
1 GAAGGCTTACT-GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGA-AGGAC
*
3948420 TTAATCATCATGCACG
64 TTAATCATCATGCTCG
* * *
3948436 AAAGGCTTACTGATGGATTTGCTTCACTACTCTTTC-GTGAAGGCTTATGATGGCCCGGAGGACT
1 GAAGGCTTACTGATGGATTTGCTTCACTACTC-TTCGGTGAAGGCTTAAGATGGCCCGAAGGACT
3948500 TAATCATCATGCTCG
65 TAATCATCATGCTCG
* * *
3948515 GAAGGCTTACTCATGGATTTGCTTCACTACTCTTCGGTGAAGACTTATGATGG
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
3948568 ATTTGCTTTA
Statistics
Matches: 336, Mismatches: 75, Indels: 51
0.73 0.16 0.11
Matches are distributed among these distances:
73 30 0.09
74 69 0.21
75 10 0.03
77 3 0.01
78 44 0.13
79 174 0.52
80 6 0.02
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (79 bp):
GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGAAGGACTT
AATCATCATGCTCG
Found at i:3948323 original size:116 final size:116
Alignment explanation
Indices: 3948182--3948644 Score: 401
Period size: 116 Copynumber: 4.0 Consensus size: 116
3948172 GCTTAAGATT
* ** * ** *
3948182 GATTTACTTCACTACTCTTTGGTGAAGGCTTAAGATTTATTTGCTTCACCACTCTTC-GATGAAG
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGGATTTGCTTCACTACTCTTCAG-TGAAG
3948246 GCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATG
65 GCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATG
* *
3948298 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGAATTTGCTTCACTACTCTTCAGTGAATG
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGGATTTGCTTCACTACTCTTCAGTGAAGG
* * **** **** * * * *
3948363 CTTTAGTTTGATTTGCTTCAC-TACTC-T-TTGGT--GAAGGCTTA-AGATG
66 CTTAAG-ATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATG
*** * * *
3948409 GCCCAGAGGACTT-AAT-CATCATGCACG-AAAGGCTTACTGATGGATTTGCTTCACTACTCTTT
1 G---ATTTG-CTTCACTAC-TC-TTC-CGTGAAGGCTTA-TGATGGATTTGCTTCACTACTC-TT
* *
3948471 C-GTGAAGGCTTATGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTCATG
57 CAGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATG
* * *
3948530 GATTTGCTTCACTACTCTTCGGTGAAGACTTATGATGGATTTGCTTTACTACTCTTCAGTGAAGG
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGGATTTGCTTCACTACTCTTCAGTGAAGG
* * *
3948595 CTTTAGATGTG-GCAGAGGACTTAATCATCATGCTCGGAAGGCTTACTGAT
66 CTTAAGATG-GCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGAT
3948645 AGCCCGAAGG
Statistics
Matches: 265, Mismatches: 60, Indels: 44
0.72 0.16 0.12
Matches are distributed among these distances:
111 5 0.02
112 9 0.03
113 1 0.00
114 9 0.03
115 22 0.08
116 173 0.65
117 23 0.09
118 9 0.03
119 1 0.00
120 9 0.03
121 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (116 bp):
GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGGATTTGCTTCACTACTCTTCAGTGAAGG
CTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATG
Found at i:3948412 original size:153 final size:153
Alignment explanation
Indices: 3947993--3948482 Score: 707
Period size: 153 Copynumber: 3.2 Consensus size: 153
3947983 ACTCGAGAAC
* * *
3947993 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTAGTTTTTGGTGAAGG
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTTGGTGAAGG
* * * * * *
3948058 CTTAAGATGGATTTTCTTTACTACTCTTCAGTGAAGGCTTAAGATGGCCCGAAGGACTTAATCAT
66 CTTAAGTTTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCAT
*
3948123 CATGCTCGGAAGACTTACTGATG
131 CATGCTCGGAAGGCTTACTGATG
* ** *
3948146 GATTTGCTTCATTACTCTTTGGTGAA-GCTTAAGATTGATTTACTTCACTACTCTTTGGTGAAGG
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTTGGTGAAGG
* *
3948210 CTTAAGATTT-ATTTGCTTCACCACTCTTCGATGAAGGCTTAAGATGGCCCGGAGGACTTAATCA
66 CTTAAG-TTTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCA
3948274 TCATGCTCGGAAGGCTTACTGATG
130 TCATGCTCGGAAGGCTTACTGATG
* ** *
3948298 GATTTGCTTCACTACTCTTCCGTGAAGGCTTATGA-TGAATTTGCTTCACTACTCTTCAGTGAAT
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTG-ATTTGCTTCACTACTCTTTGGTGAAG
* * *
3948362 GCTTTAGTTTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGCCCAGAGGACTTAATCA
65 GCTTAAGTTTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCA
* *
3948427 TCATGCACGAAAGGCTTACTGATG
130 TCATGCTCGGAAGGCTTACTGATG
*
3948451 GATTTGCTTCACTACTCTTTCGTGAAGGCTTA
1 GATTTGCTTCACTACTCTTCCGTGAAGGCTTA
3948483 TGATGGCCCG
Statistics
Matches: 303, Mismatches: 30, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
152 140 0.46
153 163 0.54
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (153 bp):
GATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTTGGTGAAGG
CTTAAGTTTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCAT
CATGCTCGGAAGGCTTACTGATG
Found at i:3948937 original size:151 final size:151
Alignment explanation
Indices: 3948646--3948964 Score: 482
Period size: 151 Copynumber: 2.1 Consensus size: 151
3948636 CTTACTGATA
*
3948646 GCCCGAAGGACTTAT-AAATTTTGAAAATATTTTACTAAGCAAGAAACCTTTCTTACTTTTCAAA
1 GCCCGAAGGACTTATCATATTTTGAAAATATTTTACTAAGCAAGAAACCTTTCTTACTTTTCAAA
* *
3948710 AATTTCAAATTTCAGATTTAAATGAGAAATCTTTCTCATATTTCGATAGACATGTGAAAACATCT
66 AATTTCAAATTTCAAATTTAAATGAGAAATCTTTCTCATATTTCAATAGACATGTGAAAACATCT
*
3948775 TGCCCAAAGGTCTTATGAATG
131 TACCCAAAGGTCTTATGAATG
* * *
3948796 GCCCGAAGGACTTATCATATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAA
1 GCCCGAAGGACTTATCATATTTTGAAAATATTTTACTAAGCAAGAAACCTTTCTTACTTTTCAAA
* * *
3948861 AATTTCAATTTTCAAATTTAAATGAGAAA-CATTTCTCATTTTTTAATAGACATGTGAAAACATA
66 AATTTCAAATTTCAAATTTAAATGAGAAATC-TTTCTCATATTTCAATAGACATGTGAAAACAT-
* *
3948925 C-TACCCGAAGGTCTTATGGATG
129 CTTACCCAAAGGTCTTATGAATG
*
3948947 GCCCGAATGACTTATCAT
1 GCCCGAAGGACTTATCAT
3948965 CTTGCTCGAA
Statistics
Matches: 153, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
150 16 0.10
151 136 0.89
152 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (151 bp):
GCCCGAAGGACTTATCATATTTTGAAAATATTTTACTAAGCAAGAAACCTTTCTTACTTTTCAAA
AATTTCAAATTTCAAATTTAAATGAGAAATCTTTCTCATATTTCAATAGACATGTGAAAACATCT
TACCCAAAGGTCTTATGAATG
Found at i:3956066 original size:19 final size:17
Alignment explanation
Indices: 3956042--3956085 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
3956032 ATTTACCCAA
3956042 AACTAATAATATAAAACCT
1 AACTAATAAT-T-AAACCT
3956061 AACTAAATAATTAAACCT
1 AACT-AATAATTAAACCT
3956079 ATACTAA
1 A-ACTAA
3956086 CCTCACATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.39
19 8 0.35
20 6 0.26
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (17 bp):
AACTAATAATTAAACCT
Found at i:3956078 original size:18 final size:20
Alignment explanation
Indices: 3956042--3956085 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
3956032 ATTTACCCAA
3956042 AACT-AATAATATAAAACCT
1 AACTAAATAATATAAAACCT
3956061 AACTAAATAAT-T-AAACCT
1 AACTAAATAATATAAAACCT
3956079 ATACTAA
1 A-ACTAA
3956086 CCTCACATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (20 bp):
AACTAAATAATATAAAACCT
Found at i:3957009 original size:55 final size:55
Alignment explanation
Indices: 3956919--3957228 Score: 315
Period size: 55 Copynumber: 5.6 Consensus size: 55
3956909 CGAATGATGA
* *
3956919 GTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATATTCAGCAAACGT
1 GTCTGCTCCCTATTCATTCAAGGAGTATAAGACTCGAACAATATTCAACAAACGT
* * * *
3956974 TTTTGTTCCCTATTCATTCAAGGAGTATAAGACTCGAACAATATTCAGCAAACGT
1 GTCTGCTCCCTATTCATTCAAGGAGTATAAGACTCGAACAATATTCAACAAACGT
* * * * *
3957029 GTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGG
1 GTCTGCTCCCTATTCATTCAAGGAGTATAAGACTCGAACAATATTCAACAAACGT
* * *
3957084 GTCCGCTCTCTATTCATTC-AGAGAGTAT-AGAACTCGAACAATCTTCAACAAACGT
1 GTCTGCTCCCTATTCATTCAAG-GAGTATAAG-ACTCGAACAATATTCAACAAACGT
* * * * * * *
3957139 GTCCGCTCCCTATTTC-TTC-AGAGAGTAT-GGTATTTGAACAATCTTCAACGAACTT
1 GTCTGCTCCCTA-TTCATTCAAG-GAGTATAAG-ACTCGAACAATATTCAACAAACGT
* * * *
3957194 GTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTC
1 GTCTGCTCCCTATTCATTCAAGGAGTATAAGACTC
3957229 AATCTTCAAC
Statistics
Matches: 220, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
54 6 0.03
55 208 0.95
56 6 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (55 bp):
GTCTGCTCCCTATTCATTCAAGGAGTATAAGACTCGAACAATATTCAACAAACGT
Found at i:3957112 original size:110 final size:108
Alignment explanation
Indices: 3956919--3957228 Score: 354
Period size: 110 Copynumber: 2.8 Consensus size: 108
3956909 CGAATGATGA
* * * ** *
3956919 GTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATATTCAGCAAACGTTTTTGTTCCC
1 GTCTGCTCCCTATTC-TTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
*
3956984 TATTCATTCAAGGAGTATAAGACTCGAACAATATTCAGCAAACGT
65 TATTCATTCAA-GAGTATAAGACTCGAACAATATTCAACAAACGT
* * *
3957029 GTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGGTCCGCTCTC
1 GTCTGCTCCCTATTC-TTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
*
3957094 TATTCATTCAGAGAGTAT-AGAACTCGAACAATCTTCAACAAACGT
65 TATTCATTCA-AGAGTATAAG-ACTCGAACAATATTCAACAAACGT
* * * * * * *
3957139 GTCCGCTCCCTATTTCTTCAGAGAGTAT-GGTATTTGAACAATCTTCAACGAACTTGTCCGCTCC
1 GTCTGCTCCCTA-TTCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAACAAACGTGTCCGCTCC
* *
3957203 CTATTCCTTCAAAGAGTATAGGACTC
64 CTATTCATTC-AAGAGTATAAGACTC
3957229 AATCTTCAAC
Statistics
Matches: 170, Mismatches: 24, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
109 3 0.02
110 161 0.95
111 6 0.04
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (108 bp):
GTCTGCTCCCTATTCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCCGCTCCCT
ATTCATTCAAGAGTATAAGACTCGAACAATATTCAACAAACGT
Found at i:3957180 original size:165 final size:165
Alignment explanation
Indices: 3956923--3957228 Score: 368
Period size: 165 Copynumber: 1.9 Consensus size: 165
3956913 TGATGAGTCT
* * * ** *
3956923 GCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATATTCAGCAAACGTTTTTGTTCCCTATT
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATATTCAACAAACGTGTCCGCTCCCTATT
* * * **
3956988 CATTCAAGGAGTATAAGACTCGAACAATATTCAGCAAACGTGTCTGCTCCCTATTCGTTCAGGGA
66 CATTCAAGGAGTATAAGACTCGAACAATATTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAGA
3957053 GTATAAGACTCGAACAATCTTCAATAAACGGGTCC
131 GTATAAGACTCGAACAATCTTCAATAAACGGGTCC
* *
3957088 GCTCTCTATTCATTCAGAGAGTAT-AGAACTCGAACAATCTTCAACAAACGTGTCCGCTCCCTAT
1 GCTCCCTATTCATTCAGAGAGTATAAG-ACTCGAACAATATTCAACAAACGTGTCCGCTCCCTA-
* * * * * *
3957152 TTC-TTC-AGAGAGTAT-GGTATTTGAACAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCA
64 TTCATTCAAG-GAGTATAAG-ACTCGAACAATATTCAACAAACGTGTCCGCTCCCTATTCCTTCA
*
3957214 AAGAGTATAGGACTC
127 AAGAGTATAAGACTC
3957229 AATCTTCAAC
Statistics
Matches: 117, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
164 5 0.04
165 109 0.93
166 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (165 bp):
GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATATTCAACAAACGTGTCCGCTCCCTATT
CATTCAAGGAGTATAAGACTCGAACAATATTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAGA
GTATAAGACTCGAACAATCTTCAATAAACGGGTCC
Found at i:3957287 original size:37 final size:36
Alignment explanation
Indices: 3957246--3957353 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 36
3957236 AACAAACGAG
*
3957246 TTTGCTTCACTACTTTTCCATGAAGGCTTATAGATGA
1 TTTGCTTCACTACTTTTCCGTGAAGGCTTA-AGATGA
* *
3957283 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGA
1 TTTGCTTCACTACTTTTCCGTGAAGGCTTAAG-ATGA
* *
3957320 ATTGCTTCACTGCTCTTT-CGTGAAGGCTTAAGAT
1 TTTGCTTCACTACT-TTTCCGTGAAGGCTTAAGAT
3957354 TTACCTGTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
36 3 0.05
37 57 0.92
38 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (36 bp):
TTTGCTTCACTACTTTTCCGTGAAGGCTTAAGATGA
Found at i:3957600 original size:16 final size:18
Alignment explanation
Indices: 3957571--3957609 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
3957561 TAGTTATCTT
3957571 TATC-TCAATGCTTCAA-
1 TATCTTCAATGCTTCAAC
3957587 TATCTTCAAT-CTTCAAC
1 TATCTTCAATGCTTCAAC
3957604 TATCTT
1 TATCTT
3957610 TGGGAAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.28, C:0.26, G:0.03, T:0.44
Consensus pattern (18 bp):
TATCTTCAATGCTTCAAC
Found at i:3958553 original size:24 final size:23
Alignment explanation
Indices: 3958521--3958620 Score: 96
Period size: 24 Copynumber: 4.1 Consensus size: 23
3958511 CTTTTATTTC
3958521 TTTTTCTTTTCCTTTTTTCATCAT
1 TTTTTCTTTT-CTTTTTTCATCAT
*
3958545 TTTTTCTTTTCTTTTTTCTTCCAT
1 TTTTTCTTTTCTTTTTTCAT-CAT
**
3958569 TTTCCCATTTTCTATTTTTC-TC-T
1 TTTTTC-TTTTCT-TTTTTCATCAT
3958592 TTTTCTCTTTTCATTTTTTTCATCAT
1 TTTT-TCTTTTC--TTTTTTCATCAT
3958618 TTT
1 TTT
3958621 CCATCATTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
23 18 0.29
24 25 0.40
25 10 0.16
26 10 0.16
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTCTTTTCTTTTTTCATCAT
Found at i:3958684 original size:9 final size:9
Alignment explanation
Indices: 3958576--3958701 Score: 99
Period size: 9 Copynumber: 14.4 Consensus size: 9
3958566 CATTTTCCCA
3958576 TTTTCT-AT
1 TTTTCTCAT
3958584 TTTTCTC-T
1 TTTTCTCAT
3958592 TTTTCTC--
1 TTTTCTCAT
*
3958599 TTTTCAT-TT
1 TTTTC-TCAT
3958608 TTTTCATCAT
1 TTTTC-TCAT
*
3958618 TTTCCATCAT
1 TTTTC-TCAT
3958628 TTTTCATCAT
1 TTTTC-TCAT
*
3958638 TTTTATCAT
1 TTTTCTCAT
*
3958647 TTTTTTCAT
1 TTTTCTCAT
*
3958656 TTTTTTCAT
1 TTTTCTCAT
3958665 TTTT-TCAT
1 TTTTCTCAT
3958673 TTTTCTC-T
1 TTTTCTCAT
3958681 TTTTCT--T
1 TTTTCTCAT
3958688 TTTTCATCAT
1 TTTTC-TCAT
3958698 TTTT
1 TTTT
3958702 TCTTTTTTAA
Statistics
Matches: 104, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
7 11 0.11
8 31 0.30
9 34 0.33
10 28 0.27
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTCTCAT
Found at i:3958698 original size:33 final size:32
Alignment explanation
Indices: 3958648--3958709 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
3958638 TTTTATCATT
3958648 TTTTTCATTTTTTTCATTTTTTCATTTTTCTC
1 TTTTTCATTTTTTTCATTTTTTCATTTTTCTC
*
3958680 TTTTTC-TTTTTTCATCATTTTTTCTTTTTT
1 TTTTTCATTTTTT--TCATTTTTTCATTTTT
3958710 AAGCGAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 6 0.22
32 6 0.22
33 15 0.56
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (32 bp):
TTTTTCATTTTTTTCATTTTTTCATTTTTCTC
Found at i:3958700 original size:16 final size:16
Alignment explanation
Indices: 3958525--3958709 Score: 78
Period size: 16 Copynumber: 10.9 Consensus size: 16
3958515 TATTTCTTTT
*
3958525 TCTTTTCCTTTTTTCA
1 TCTTTTTCTTTTTTCA
*
3958541 TCATTTTT-TCTTTTC-
1 TC-TTTTTCTTTTTTCA
3958556 T-TTTTTCTTCCATTTTC-
1 TCTTTTTCTT---TTTTCA
* *
3958573 CCATTTTCTATTTTTC-
1 TCTTTTTCT-TTTTTCA
*
3958589 TCTTTTTCTCTTTTCA
1 TCTTTTTCTTTTTTCA
* *
3958605 TTTTTTTCATCATTTTCCA
1 TCTTTTTC-T--TTTTTCA
3958624 TCATTTTTCATCATTTTTATCA
1 TC--TTTT--TC-TTTTT-TCA
*
3958646 TTTTTTTCATTTTTTTCA
1 TCTTTTTC--TTTTTTCA
*
3958664 T-TTTTTCATTTTTC-
1 TCTTTTTCTTTTTTCA
3958678 TCTTTTTCTTTTTTCA
1 TCTTTTTCTTTTTTCA
3958694 TCATTTTTTCTTTTTT
1 TC--TTTTTCTTTTTT
3958710 AAGCGAAATA
Statistics
Matches: 131, Mismatches: 17, Indels: 40
0.70 0.09 0.21
Matches are distributed among these distances:
13 5 0.04
14 2 0.02
15 24 0.18
16 29 0.22
17 16 0.12
18 24 0.18
19 12 0.09
20 4 0.03
21 8 0.06
22 3 0.02
23 4 0.03
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTTTTCTTTTTTCA
Found at i:3958708 original size:8 final size:8
Alignment explanation
Indices: 3958646--3958709 Score: 58
Period size: 8 Copynumber: 7.8 Consensus size: 8
3958636 ATTTTTATCA
3958646 TTTTTTTC
1 TTTTTTTC
3958654 ATTTTTTTC
1 -TTTTTTTC
*
3958663 ATTTTTTC
1 TTTTTTTC
*
3958671 -ATTTTTC
1 TTTTTTTC
*
3958678 TCTTTTTC
1 TTTTTTTC
3958686 TTTTTTCATC
1 TTTTTT--TC
*
3958696 ATTTTTTC
1 TTTTTTTC
3958704 TTTTTT
1 TTTTTT
3958710 AAGCGAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
7 6 0.13
8 25 0.54
9 8 0.17
10 7 0.15
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTTC
Found at i:3958709 original size:41 final size:41
Alignment explanation
Indices: 3958527--3958709 Score: 110
Period size: 41 Copynumber: 4.3 Consensus size: 41
3958517 TTTCTTTTTC
* *
3958527 TTTTCCTTTTTTCATCATTTTT-TC-TTTTCTTTTTTCTTCCAT
1 TTTTTCTTTTTT--TCATTTTTCTCTTTTTCTTTTTTCAT-CAT
** * * *
3958569 TTTCCCATTTTCT-ATTTTTCTCTTTTTCTCTTTTCAT--T
1 TTTTTCTTTTTTTCATTTTTCTCTTTTTCTTTTTTCATCAT
*
3958607 TTTTTCATCATTTTCCATCATTTTTCATCATTTTTATCATTTTTT--TCATT
1 TTTTTC-T--TTTT--TTCATTTTTC-TC--TTTT-TC-TTTTTTCATCA-T
*
3958657 TTTTTCATTTTTTCATTTTTCTCTTTTTCTTTTTTCATCAT
1 TTTTTCTTTTTTTCATTTTTCTCTTTTTCTTTTTTCATCAT
3958698 TTTTTCTTTTTT
1 TTTTTCTTTTTT
3958710 AAGCGAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 37
0.69 0.08 0.23
Matches are distributed among these distances:
38 5 0.05
39 6 0.05
40 9 0.08
41 30 0.27
42 16 0.15
43 1 0.01
44 9 0.08
45 11 0.10
47 9 0.08
48 2 0.02
49 5 0.05
50 7 0.06
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.70
Consensus pattern (41 bp):
TTTTTCTTTTTTTCATTTTTCTCTTTTTCTTTTTTCATCAT
Found at i:3968393 original size:49 final size:48
Alignment explanation
Indices: 3968334--3968453 Score: 113
Period size: 47 Copynumber: 2.5 Consensus size: 48
3968324 TATCTACCCC
*
3968334 CATGCATTGTTATTCAAAAAAGAAATCCTAACTGCATGATATCTAATTCA
1 CATGC-TTGTTATTCAAAAAAGAAA-CCTAACCGCATGATATCTAATTCA
* * *
3968384 CATGCTTG---TTCGAGAAAAATAAACCTAACCGCATGATATCTAGTTCG
1 CATGCTTGTTATTC-A-AAAAAGAAACCTAACCGCATGATATCTAATTCA
* * *
3968431 CATACAT-TTATTCAAAAACGAAA
1 CATGCTTGTTATTCAAAAAAGAAA
3968454 ATAAATGACT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
46 3 0.05
47 34 0.60
48 9 0.16
49 6 0.11
50 5 0.09
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (48 bp):
CATGCTTGTTATTCAAAAAAGAAACCTAACCGCATGATATCTAATTCA
Found at i:3970542 original size:19 final size:17
Alignment explanation
Indices: 3970518--3970561 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
3970508 ATTTACCCAA
3970518 AACTAATAATATAAAACCT
1 AACTAATAAT-T-AAACCT
3970537 AACTAAATAATTAAACCT
1 AACT-AATAATTAAACCT
3970555 AGACTAA
1 A-ACTAA
3970562 CCTCACCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.39
19 8 0.35
20 6 0.26
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (17 bp):
AACTAATAATTAAACCT
Found at i:3970554 original size:18 final size:20
Alignment explanation
Indices: 3970518--3970561 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
3970508 ATTTACCCAA
3970518 AACT-AATAATATAAAACCT
1 AACTAAATAATATAAAACCT
3970537 AACTAAATAAT-T-AAACCT
1 AACTAAATAATATAAAACCT
3970555 AGACTAA
1 A-ACTAA
3970562 CCTCACCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (20 bp):
AACTAAATAATATAAAACCT
Found at i:3979673 original size:18 final size:18
Alignment explanation
Indices: 3979650--3979691 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
3979640 GAATCCTTAG
3979650 GCACCAAGTTACAGTTTA
1 GCACCAAGTTACAGTTTA
3979668 GCACCAAGTTACAGTTTA
1 GCACCAAGTTACAGTTTA
3979686 GCACCA
1 GCACCA
3979692 CTTTCCATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (18 bp):
GCACCAAGTTACAGTTTA
Found at i:3984615 original size:25 final size:25
Alignment explanation
Indices: 3984587--3984646 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
3984577 CTCATTCAAC
*
3984587 TCCTTTAGCTAGCCTTGATCTAAGT
1 TCCTTTAACTAGCCTTGATCTAAGT
3984612 TCCTTTAACTAGCCTTGATCTAAGT
1 TCCTTTAACTAGCCTTGATCTAAGT
3984637 TCCTTTAACT
1 TCCTTTAACT
3984647 TTGAGCTCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.42
Consensus pattern (25 bp):
TCCTTTAACTAGCCTTGATCTAAGT
Found at i:3986657 original size:397 final size:385
Alignment explanation
Indices: 3985910--3986645 Score: 980
Period size: 397 Copynumber: 1.9 Consensus size: 385
3985900 AAATGGGTTG
* * * * * *
3985910 GTCTGATAGATCAACTAAGCATCAGTCTCGCTACGAACAAAAGTAGTACACGATCCTAAATCAGA
1 GTCTGAGAGATCAACTAAGCATCAGTCTCGCTACCAACAAAAGTAGTAAACAATCCCAAATCAAA
* * * **
3985975 TCAGAGTATGATTACTATCGGGATAATATACTAAATAGAGTTAGGGAATTATGCTGGTAGTCACG
66 TCAGAGTAGGATTACTATCGGGATAATATACTAAATAGAGTTAGGAAATTATACTAATAGTCACG
* *
3986040 ACTCACACGGTCAGATAGATCAAGAGGAGCTGGGCCGAGCAGTCGGAGGGTCAAAAGAATCATGG
131 ACTCACACAGTCAGATAGATCAAGAGGAGCTGGGCCGAGCAGTCAGAGGGTCAAAAGAATCATGG
* * *
3986105 GTACCTAGCATAACCAAATTCATAAATTAGTCCTTTCCCTTTCCTCATTTCTCCTTAACCAATTT
196 GTACCTAACATAACCAAATTCATAAATCAGTCCTTGCCCTTTCCTCATTTCTCCTTAACCAATTT
3986170 TAATAAAGTAACTATGAGCGTTCAAGTTTATAGGTCAATTTGGAGGCTTTCAGGTTAAAATTTGG
261 TAATAAAGTAACTATGAGCGTTCAAGTTTATAGGTCAATTTGGAGGCTTTCAGGTTAAAATTTGG
3986235 AAAAATGAACTTCGAAATCAGACTCAGGATATCGAAAAACATAACTCACAAAACAGGCAA
326 AAAAATGAACTTCGAAATCAGACTCAGGATATCGAAAAACATAACTCACAAAACAGGCAA
*
3986295 GTCTGAGAGATCTACTAAGCA-CGAGTCTCGCTACCAACAAAAGTAGTAAACAATCCCAAATCAA
1 GTCTGAGAGATCAACTAAGCATC-AGTCTCGCTACCAACAAAAGTAGTAAACAATCCCAAATCAA
* * *
3986359 ATCATAGTAGGATTATTATCGGGATAATATACTAAACATAGTATTTAACAGAGTTACAAAATTAT
65 ATCAGAGTAGGATTACTATCGGGATAATATACT-AA-ATAG-AGTT---AG-G-----AAATTAT
* * * *
3986424 ACTAATAGTCACGGCTCACGCAGTC-GA-ACGGATCCAGAGGAGCTGGGTCGAGCAGTCAGAGGG
118 ACTAATAGTCACGACTCACACAGTCAGATA--GATCAAGAGGAGCTGGGCCGAGCAGTCAGAGGG
* * *
3986487 TTAGAAGAATCATGGGTACCTAACATAACCAATTTCATAAATCAGTCCTTGCCCTTTCCTTC-TT
181 TCAAAAGAATCATGGGTACCTAACATAACCAAATTCATAAATCAGTCCTTGCCCTTTCC-TCATT
* * *
3986551 TTTCCTTAACCAATTTTAATAAAGTAACTATG-TCAGTTCAAGTTTATAGGTCAATTTGGAGGTT
245 TCTCCTTAACCAATTTTAATAAAGTAACTATGAGC-GTTCAAGTTTATAGGTCAATTTGGAGGCT
* *
3986615 TTC-GGTTTAGAATTTGGCAAAATGAACTTCG
309 TTCAGG-TTAAAATTTGGAAAAATGAACTTCG
3986646 GATTTAGACT
Statistics
Matches: 301, Mismatches: 32, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
384 1 0.00
385 85 0.28
386 2 0.01
387 4 0.01
388 3 0.01
391 2 0.01
392 1 0.00
395 1 0.00
396 5 0.02
397 195 0.65
398 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (385 bp):
GTCTGAGAGATCAACTAAGCATCAGTCTCGCTACCAACAAAAGTAGTAAACAATCCCAAATCAAA
TCAGAGTAGGATTACTATCGGGATAATATACTAAATAGAGTTAGGAAATTATACTAATAGTCACG
ACTCACACAGTCAGATAGATCAAGAGGAGCTGGGCCGAGCAGTCAGAGGGTCAAAAGAATCATGG
GTACCTAACATAACCAAATTCATAAATCAGTCCTTGCCCTTTCCTCATTTCTCCTTAACCAATTT
TAATAAAGTAACTATGAGCGTTCAAGTTTATAGGTCAATTTGGAGGCTTTCAGGTTAAAATTTGG
AAAAATGAACTTCGAAATCAGACTCAGGATATCGAAAAACATAACTCACAAAACAGGCAA
Found at i:3986837 original size:23 final size:23
Alignment explanation
Indices: 3986811--3986867 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
3986801 TAACTCAGTC
3986811 GAGTTGACTCGTTAACTAAACCT
1 GAGTTGACTCGTTAACTAAACCT
*
3986834 GAGTTGACTCGTTAACTCAACCT
1 GAGTTGACTCGTTAACTAAACCT
*
3986857 GAGTTAACTCG
1 GAGTTGACTCG
3986868 CTCCTAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (23 bp):
GAGTTGACTCGTTAACTAAACCT
Found at i:3991451 original size:80 final size:76
Alignment explanation
Indices: 3991300--3991453 Score: 200
Period size: 80 Copynumber: 2.0 Consensus size: 76
3991290 TCTGTTCTGC
* * * *
3991300 CGGATATTACCATTATATGAAATTTGATTTTGAAGAACACATGGATTTGGTGCTAATGTTATGTA
1 CGGATATTACCATTATATGAAATTTGATTTTGAAGAACAAATGGATTTGATGCCAATGCTATGTA
3991365 TCAAACTTAGG
66 TCAAACTTAGG
* * *
3991376 CGGATGTTGCCATTATATGAAATTTGATTATTTTTTAAGAACAAATGGATTTGATGCCAATGCTA
1 CGGATATTACCATTATATGAAATTTG---A-TTTTGAAGAACAAATGGATTTGATGCCAATGCTA
*
3991441 TTTATCAAACTTA
62 TGTATCAAACTTA
3991454 ATTACCTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
76 24 0.36
79 1 0.02
80 41 0.62
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (76 bp):
CGGATATTACCATTATATGAAATTTGATTTTGAAGAACAAATGGATTTGATGCCAATGCTATGTA
TCAAACTTAGG
Found at i:3992568 original size:29 final size:29
Alignment explanation
Indices: 3992535--3992600 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
3992525 TCCAGTCACT
3992535 GAGTCAACTCGACATGAGTCAACCCATCC
1 GAGTCAACTCGACATGAGTCAACCCATCC
* *** * *
3992564 GAGTCAATTCGGTTTGAGTCAACTCGTCC
1 GAGTCAACTCGACATGAGTCAACCCATCC
3992593 GAGTCAAC
1 GAGTCAAC
3992601 CCATTGACTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (29 bp):
GAGTCAACTCGACATGAGTCAACCCATCC
Found at i:3992598 original size:14 final size:14
Alignment explanation
Indices: 3992535--3992600 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 14
3992525 TCCAGTCACT
* *
3992535 GAGTCAACTCGACAT
1 GAGTCAACTCGTC-C
* *
3992550 GAGTCAACCCATCC
1 GAGTCAACTCGTCC
* **
3992564 GAGTCAATTCGGTTT
1 GAGTCAACTC-GTCC
3992579 GAGTCAACTCGTCC
1 GAGTCAACTCGTCC
3992593 GAGTCAAC
1 GAGTCAAC
3992601 CCATTGACTT
Statistics
Matches: 38, Mismatches: 12, Indels: 3
0.72 0.23 0.06
Matches are distributed among these distances:
14 18 0.47
15 20 0.53
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (14 bp):
GAGTCAACTCGTCC
Found at i:3993742 original size:31 final size:31
Alignment explanation
Indices: 3993707--3993791 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 31
3993697 GGAGTACCTT
*
3993707 GGGGCCTGC-GAGCCTACCCAAGAAAATTCTC
1 GGGGCC-GCAGAGCCTACCCAAGAAAAATCTC
* * * *
3993738 GGGGCCACGGAGGCCTATCCAGGAAAAATCTC
1 GGGGCCGCAGA-GCCTACCCAAGAAAAATCTC
*
3993770 AGGGCCGCAGAGCCTACCCAAG
1 GGGGCCGCAGAGCCTACCCAAG
3993792 GGTCTCCTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 1 0.02
31 17 0.40
32 25 0.58
ACGTcount: A:0.27, C:0.32, G:0.29, T:0.12
Consensus pattern (31 bp):
GGGGCCGCAGAGCCTACCCAAGAAAAATCTC
Found at i:3995563 original size:14 final size:14
Alignment explanation
Indices: 3995544--3995607 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
3995534 GTAAACAGGC
3995544 TGACTCGGACGAGT
1 TGACTCGGACGAGT
*
3995558 TGACTCAGACCGAGT
1 TGACTCGGA-CGAGT
** * *
3995573 AAACTCGGATGGGT
1 TGACTCGGACGAGT
*
3995587 TGACTCGGGCCGAGT
1 TGACTC-GGACGAGT
3995602 TGACTC
1 TGACTC
3995608 AGTGACTGGA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
14 15 0.41
15 22 0.59
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (14 bp):
TGACTCGGACGAGT
Found at i:3995588 original size:29 final size:29
Alignment explanation
Indices: 3995546--3995601 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
3995536 AAACAGGCTG
3995546 ACTCGGACGAGTTGACTCAGACCGAGTAA
1 ACTCGGACGAGTTGACTCAGACCGAGTAA
* * * *
3995575 ACTCGGATGGGTTGACTCGGGCCGAGT
1 ACTCGGACGAGTTGACTCAGACCGAGT
3995602 TGACTCAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.20
Consensus pattern (29 bp):
ACTCGGACGAGTTGACTCAGACCGAGTAA
Found at i:3995607 original size:29 final size:29
Alignment explanation
Indices: 3995544--3995607 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
3995534 GTAAACAGGC
3995544 TGACTCGGACGAGTTGACTCAGACCGAGT
1 TGACTCGGACGAGTTGACTCAGACCGAGT
** * * * *
3995573 AAACTCGGATGGGTTGACTCGGGCCGAGT
1 TGACTCGGACGAGTTGACTCAGACCGAGT
3995602 TGACTC
1 TGACTC
3995608 AGTGACTGGA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (29 bp):
TGACTCGGACGAGTTGACTCAGACCGAGT
Found at i:3997388 original size:43 final size:43
Alignment explanation
Indices: 3997340--3997427 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
3997330 CTTTACTACC
3997340 TTATATATGTTTTATAGTACACTTTGGTAATTGGTAATGCAAG
1 TTATATATGTTTTATAGTACACTTTGGTAATTGGTAATGCAAG
3997383 TTATATATGTTTTATAGTACACTTTGGTAATTGGTAATGCAAG
1 TTATATATGTTTTATAGTACACTTTGGTAATTGGTAATGCAAG
3997426 TT
1 TT
3997428 TGAATTCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (43 bp):
TTATATATGTTTTATAGTACACTTTGGTAATTGGTAATGCAAG
Found at i:4001179 original size:2 final size:2
Alignment explanation
Indices: 4001172--4001198 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4001162 GTACATTTTA
4001172 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
4001199 ATAGCATCCT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4001772 original size:46 final size:46
Alignment explanation
Indices: 4001698--4001790 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
4001688 CGTTAAATTT
* *
4001698 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATATATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
** *
4001744 CATTTTATATATGACATTGTTTCTTGCCTTAATGCATCCTTTCATG
1 CATTTTATATATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
4001790 C
1 C
4001791 CCTAATGCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (46 bp):
CATTTTATATATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
Found at i:4001817 original size:66 final size:66
Alignment explanation
Indices: 4001711--4001992 Score: 263
Period size: 66 Copynumber: 4.2 Consensus size: 66
4001701 TTTATTTATG
* ** *
4001711 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATATATGACATTGTTTCTTGCCTTAA
1 GCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTATATATGACATCCTTTCATGCCTTAA
4001776 T
66 T
* *
4001777 GCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAA
1 GCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTATATATGACATCCTTTCATGCCTTAA
4001842 T
66 T
* ** * *
4001843 GCATTCTTTCATGCATTTTATTTATGGCATCCTTTCATGC---CT-TA-ATG-CATCATTTCATG
1 GCATCCTTTCATGC--CCTA---AT-GCATCCTTTCATGCATTTTATATATGACATCCTTTCATG
*
4001902 CATTTTATTTAT
60 C--CTTA---AT
* *
4001914 GGCATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTAT-TGATGACATCCTTTCATGCCTT
1 -GCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTATAT-ATGACATCCTTTCATGCCTT
4001978 AAT
64 AAT
*
4001981 ACATCCTTTCAT
1 GCATCCTTTCAT
4001993 TCATTTTATT
Statistics
Matches: 176, Mismatches: 21, Indels: 38
0.75 0.09 0.16
Matches are distributed among these distances:
66 109 0.62
67 7 0.04
68 6 0.03
69 2 0.01
70 7 0.04
71 7 0.04
72 38 0.22
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (66 bp):
GCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTATATATGACATCCTTTCATGCCTTAA
T
Found at i:4001827 original size:46 final size:46
Alignment explanation
Indices: 4001777--4002158 Score: 620
Period size: 46 Copynumber: 8.3 Consensus size: 46
4001767 TTGCCTTAAT
*
4001777 GCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
*
4001823 GCATCCTTTCATGCCTTAATGCATTCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
*
4001869 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
* *
4001915 GCATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTATTGATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
* * *
4001961 ACATCCTTTCATGCCTTAATACATCCTTTCATTCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
* * *
4002007 GCATCTTTTCATGCCTTAATGCCTCCTTTCATGTATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
* *
4002053 GCATTCTTTCATGCCTTAATGTATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
* *
4002099 GCATCCATGCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
*
4002145 GCATCATTTCATGC
1 GCATCCTTTCATGC
4002159 ATTTTATTAA
Statistics
Matches: 306, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 306 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.46
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
Found at i:4010728 original size:12 final size:12
Alignment explanation
Indices: 4010711--4010736 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4010701 AAACTCCCTT
4010711 TGTTTTCATGGA
1 TGTTTTCATGGA
4010723 TGTTTTCATGGA
1 TGTTTTCATGGA
4010735 TG
1 TG
4010737 AATGAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.27, T:0.50
Consensus pattern (12 bp):
TGTTTTCATGGA
Found at i:4013150 original size:11 final size:11
Alignment explanation
Indices: 4013134--4013164 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
4013124 TAGTTTCTTC
4013134 ACTTGCACTAA
1 ACTTGCACTAA
4013145 ACTTGCACTAA
1 ACTTGCACTAA
4013156 ACTTGCACT
1 ACTTGCACT
4013165 TATTTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (11 bp):
ACTTGCACTAA
Found at i:4015352 original size:54 final size:54
Alignment explanation
Indices: 4015266--4015368 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
4015256 CATGACTCGA
*
4015266 CTATGGTAGTGAATAAATTTAGTAATGCAGAGCTAGTCAAAATTTATTTATGTT
1 CTATGGTAGTGAATAAATTTAATAATGCAGAGCTAGTCAAAATTTATTTATGTT
* * *
4015320 CTATGGTTGTGAATAAATTTAATAATGTAGAGCTAGTCGAAATTTATTT
1 CTATGGTAGTGAATAAATTTAATAATGCAGAGCTAGTCAAAATTTATTT
4015369 GCGCTCTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (54 bp):
CTATGGTAGTGAATAAATTTAATAATGCAGAGCTAGTCAAAATTTATTTATGTT
Found at i:4021851 original size:44 final size:44
Alignment explanation
Indices: 4021774--4021880 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
4021764 TTTTTTGCAC
* *
4021774 TATGCATCGATACACTATGAAAATGTAATGATGCA-TCTCTTGAA
1 TATGCATCGATACACTATGAAAATGCAACGATGCATTCT-TTGAA
* * ** *
4021818 TTTGCATCGATACGCTATGAAGGTGCACCGATGCATTCTTTGAA
1 TATGCATCGATACACTATGAAAATGCAACGATGCATTCTTTGAA
4021862 TATGCATCGATACACTATG
1 TATGCATCGATACACTATG
4021881 CAGTGTACCG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 50 0.94
45 3 0.06
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
TATGCATCGATACACTATGAAAATGCAACGATGCATTCTTTGAA
Found at i:4022376 original size:13 final size:14
Alignment explanation
Indices: 4022345--4022385 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
4022335 ATGTATCATA
*
4022345 ATTTTTTAAACATT
1 ATTTTTCAAACATT
*
4022359 GTTTTTCAAA-ATT
1 ATTTTTCAAACATT
4022372 A-TTTTCAAACATT
1 ATTTTTCAAACATT
4022385 A
1 A
4022386 CCCATTAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.35
13 7 0.30
14 8 0.35
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (14 bp):
ATTTTTCAAACATT
Found at i:4024662 original size:65 final size:65
Alignment explanation
Indices: 4024547--4024671 Score: 164
Period size: 65 Copynumber: 1.9 Consensus size: 65
4024537 ATGAACAGCC
* * * *
4024547 ATGCATCGATGCACTCTTGATTTTATTGAAACATCGAAAGCATTTTGTGTACCAATGCACATATA
1 ATGCATCGATGCACTCATGATATTATTGAAACATCGAAAGCAATTAGTGTACCAATGCACATATA
* *
4024612 ATGCATCGATGCACTCATGACTATT-TTGAAACATCGAATA-TAATTAGTGTACCGATGCAC
1 ATGCATCGATGCACTCATGA-TATTATTGAAACATCGAA-AGCAATTAGTGTACCAATGCAC
4024672 CCTAAGTGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 48 0.92
66 4 0.08
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (65 bp):
ATGCATCGATGCACTCATGATATTATTGAAACATCGAAAGCAATTAGTGTACCAATGCACATATA
Found at i:4026189 original size:41 final size:41
Alignment explanation
Indices: 4026144--4026349 Score: 216
Period size: 41 Copynumber: 4.9 Consensus size: 41
4026134 ATTCACGTTG
*
4026144 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
* * *
4026185 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
*** *
4026226 CATTTCGCGTTGCGATAGTTG-AAATCGCAACGCGATCTCCATCATC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG-T-T---T-TTC
* * * *
4026272 GCAAATTCGTGTTGCGATAGTTGAAAATCGCGTTGTGGTTTTC
1 -C-ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
*
4026315 CATTTCGCGTTGCGATAGTTGAAAATTGCGTTGCG
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG
4026350 ATAGTCTACA
Statistics
Matches: 134, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
40 9 0.07
41 88 0.66
42 2 0.01
43 2 0.01
44 1 0.01
45 1 0.01
46 2 0.01
47 2 0.01
48 18 0.13
49 9 0.07
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
Found at i:4026240 original size:20 final size:20
Alignment explanation
Indices: 4026169--4026241 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
4026159 TAGTTGAAAA
*
4026169 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
4026189 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
4026210 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
4026230 TCGCGTTGCGAT
1 TCGCGTTGCGAT
4026242 AGTTGAAATC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:4026253 original size:20 final size:21
Alignment explanation
Indices: 4026148--4026253 Score: 67
Period size: 20 Copynumber: 5.2 Consensus size: 21
4026138 ACGTTGCATT
*
4026148 TCGCATTGCGATAGTT-GAAAA
1 TCGCGTTGCGATAGTTCG-AAA
** * **
4026169 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
* *
4026189 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGAAA
* * **
4026210 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
4026230 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGAAA
4026250 TCGC
1 TCGC
4026254 AACGCGATCT
Statistics
Matches: 61, Mismatches: 21, Indels: 7
0.69 0.24 0.08
Matches are distributed among these distances:
20 34 0.56
21 27 0.44
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGAAA
Found at i:4026306 original size:21 final size:21
Alignment explanation
Indices: 4026282--4026354 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
4026272 GCAAATTCGT
4026282 GTTGCGATAGTTGAAAATCGC
1 GTTGCGATAGTTGAAAATCGC
* * * ** **
4026303 GTTGTGGT-TTTCCATTTCGC
1 GTTGCGATAGTTGAAAATCGC
*
4026323 GTTGCGATAGTTGAAAATTGC
1 GTTGCGATAGTTGAAAATCGC
4026344 GTTGCGATAGT
1 GTTGCGATAGT
4026355 CTACAGTCGT
Statistics
Matches: 36, Mismatches: 15, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
20 13 0.36
21 23 0.64
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.37
Consensus pattern (21 bp):
GTTGCGATAGTTGAAAATCGC
Found at i:4026475 original size:6 final size:6
Alignment explanation
Indices: 4026464--4026490 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4026454 GACACGTATT
4026464 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
4026491 CGATCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4026515 original size:6 final size:6
Alignment explanation
Indices: 4026504--4026534 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4026494 TCATCTCGTC
4026504 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
4026535 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:4026642 original size:19 final size:19
Alignment explanation
Indices: 4026618--4026683 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
4026608 TTAACTATCA
4026618 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
4026637 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
4026659 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
4026678 CAACGA
1 CAACGA
4026684 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:4026668 original size:41 final size:41
Alignment explanation
Indices: 4026627--4026765 Score: 210
Period size: 41 Copynumber: 3.4 Consensus size: 41
4026617 ACAACGAATT
*
4026627 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA-CGAATT
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAA-A
4026668 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAAC-CGAAA
* *
4026710 TGGAAAATCGCAATG-CAAATGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAAC-CGAAA
4026751 TGGAAAATCGCAACG
1 TGGAAAATCGCAACG
4026766 CGATTTTCAA
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
41 74 0.80
42 14 0.15
43 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (41 bp):
TGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAAA
Found at i:4026721 original size:20 final size:20
Alignment explanation
Indices: 4026696--4026768 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
4026686 ACTGTAGACT
4026696 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
4026716 ATCGCAATGC-AAATGTAGACT
1 ATCGCAACGCGAAATG--GAAA
4026737 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
4026757 ATCGCAACGCGA
1 ATCGCAACGCGA
4026769 TTTTCAACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.11
20 23 0.52
21 11 0.25
22 5 0.11
ACGTcount: A:0.41, C:0.22, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:4026779 original size:41 final size:41
Alignment explanation
Indices: 4026627--4026789 Score: 206
Period size: 41 Copynumber: 4.0 Consensus size: 41
4026617 ACAACGAATT
* *
4026627 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATT
1 TGGAAAATCGCAACG-CAAATGTAGACTATCGCAACGCGAA-A
*
4026668 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CAAATGTAGACTATCGCAACGCGAAA
*
4026710 TGGAAAATCGCAATGCAAATGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCAAATGTAGACTATCGCAACGCGAAA
* * *
4026751 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGA
1 TGGAAAATCGCAACGCAAATGT-AGACTATCGCAACGCGA
4026790 TTTTCAACTA
Statistics
Matches: 112, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
41 93 0.83
42 15 0.13
43 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.18
Consensus pattern (41 bp):
TGGAAAATCGCAACGCAAATGTAGACTATCGCAACGCGAAA
Found at i:4026818 original size:21 final size:21
Alignment explanation
Indices: 4026693--4026818 Score: 114
Period size: 21 Copynumber: 6.1 Consensus size: 21
4026683 ACAACTGTAG
*
4026693 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
4026714 A-AATCGCAATGC-AAATGTA
1 ACTATCGCAACGCGAAATGCA
*
4026733 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* ** *
4026755 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
** *
4026775 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
4026796 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
4026817 AC
1 AC
4026819 GCAAATTTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.07
20 25 0.29
21 49 0.57
22 6 0.07
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:4032474 original size:15 final size:15
Alignment explanation
Indices: 4032454--4032488 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4032444 TGCTCACCAT
4032454 TCGAACAAACTTCAC
1 TCGAACAAACTTCAC
*
4032469 TCGAACAAGCTTCAC
1 TCGAACAAACTTCAC
4032484 TCGAA
1 TCGAA
4032489 GAGCCTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.20
Consensus pattern (15 bp):
TCGAACAAACTTCAC
Found at i:4033236 original size:115 final size:116
Alignment explanation
Indices: 4033107--4033392 Score: 312
Period size: 115 Copynumber: 2.5 Consensus size: 116
4033097 AACACTCCAT
* * * **
4033107 TCTCGCTTATTTACCCTCGGCTCT-TCAGCTTGGCC-CTTAGCTTTCG-CACCGAGCTTTACTTC
1 TCTCGCTTCTTTACCCTCGGCT-TAT-AGCTTCGCCAC-TAGCATT-GTCACCGAGCCCTACTTC
* * * * *
4033169 GGTGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTG-GAA-ACTTCAATGGC
62 AGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGAAAACACTTCAATGGC
* * * *
4033222 TCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGTCACCGAGCCCTGCTTCATT
1 TCTCGCTTCTTTACCCTCGGCTTA-TAGCTTCGCCACTAGCATTGTCACCGAGCCCTACTTCAGT
*
4033287 GGTGCAATCTCGCACCTTGTGTTCTCCATCACATCGAAAACACTTCAATGGC
65 GGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGAAAACACTTCAATGGC
* * * *
4033339 TCTCGCTTCTTTATCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGC
1 TCTCGCTTCTTTACCCTCGGCTTA-TAGCTTCGCCACTAGCATTGTCACCGAGC
4033393 TTTGCTTTGT
Statistics
Matches: 148, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
114 2 0.01
115 79 0.53
116 4 0.03
117 63 0.43
ACGTcount: A:0.15, C:0.33, G:0.19, T:0.33
Consensus pattern (116 bp):
TCTCGCTTCTTTACCCTCGGCTTATAGCTTCGCCACTAGCATTGTCACCGAGCCCTACTTCAGTG
GTGCAATCTCGCACCTTGTGTTCTCCACCACATCGAAAACACTTCAATGGC
Found at i:4033399 original size:117 final size:115
Alignment explanation
Indices: 4033152--4033399 Score: 370
Period size: 117 Copynumber: 2.1 Consensus size: 115
4033142 CTTAGCTTTC
* * * * * *
4033152 GCACCGAGCTTTACTTCGGTGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTGGAAACTTCA
1 GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGAAAACTTCA
4033217 ATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
66 ATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
* ** * *
4033267 TCACCGAGCCCTGCTTCATTGGTGCAATCTCGCACCTTGTGTTCTCCATCACATCGAAAACACTT
1 GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCG-AAA-ACTT
*
4033332 CAATGGCTCTCGCTTCTTTATCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
64 CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
4033384 GCACCGAGCTTTGCTT
1 GCACCGAGCTTTGCTT
4033400 TGTTTGGGCA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
115 46 0.40
116 2 0.02
117 68 0.59
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (115 bp):
GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGAAAACTTCA
ATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
Found at i:4037016 original size:19 final size:19
Alignment explanation
Indices: 4036797--4037016 Score: 194
Period size: 19 Copynumber: 11.6 Consensus size: 19
4036787 TTCCGATCGA
* *
4036797 AAACTAGATTTTAGGTTGG
1 AAACCAGATTTCAGGTTGG
* * *
4036816 AAACCTGATTTTATGTTGG
1 AAACCAGATTTCAGGTTGG
*
4036835 AAACCAAATTTCAGGTTGG
1 AAACCAGATTTCAGGTTGG
4036854 AAACCAGA-TTCTAGGTTGG
1 AAACCAGATTTC-AGGTTGG
* * * *
4036873 AAATCAGGTTCCATGTTGG
1 AAACCAGATTTCAGGTTGG
4036892 AAACCAGATTTCAGGTTGG
1 AAACCAGATTTCAGGTTGG
* * *
4036911 AAA-TAGGATTTTAGGTTAG
1 AAACCA-GATTTCAGGTTGG
4036930 AAACCCA-ATTTCAGGTTGG
1 AAA-CCAGATTTCAGGTTGG
* *
4036949 AAATCAGATTTCAGGTTAG
1 AAACCAGATTTCAGGTTGG
* * * *
4036968 AAATCAGGTTCCAGTTTGG
1 AAACCAGATTTCAGGTTGG
* *
4036987 AAACTACATTTCAGGTTGG
1 AAACCAGATTTCAGGTTGG
*
4037006 AAACCGGATTT
1 AAACCAGATTT
4037017 TAGCTTGGGA
Statistics
Matches: 158, Mismatches: 37, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
18 6 0.04
19 149 0.94
20 2 0.01
21 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (19 bp):
AAACCAGATTTCAGGTTGG
Done.