Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 197 of 208
Found at i:59926047 original size:16 final size:17
Alignment explanation
Indices: 59926026--59926058 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
59926016 ATAAAAATTA
59926026 AATATTTT-ATTAAAAT
1 AATATTTTAATTAAAAT
59926042 AATATTTTAATTAAAAT
1 AATATTTTAATTAAAAT
59926059 TTATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATTTTAATTAAAAT
Found at i:59930507 original size:3 final size:3
Alignment explanation
Indices: 59930499--59930528 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
59930489 TTCACACAAG
59930499 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59930529 CAACAACGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:59936449 original size:48 final size:47
Alignment explanation
Indices: 59935961--59936451 Score: 226
Period size: 48 Copynumber: 10.3 Consensus size: 47
59935951 ATATGTATAC
* *
59935961 CAAATTGAGCAGCATTTTTTTACATCTAAAATTGGACAGCATATACACAA
1 CAAATTGGGCAGCA--TTTTTACA-CAAAAATTGGACAGCATATACACAA
* * * * * * * *
59936011 CAATTTGAGCAGCATATATATA-ACAAATTGAACAGCATTTTTACATCAA
1 CAAATTGGGCAGCATTTTTACACAAAAATTGGACAGCA--TATACA-CAA
* * * * * * * *
59936060 -AAATTGGACAGC--TTATAAACAACAATTTGGGCAGCATATATATAC
1 CAAATTGGGCAGCATTTTTACACAA-AAATTGGACAGCATATACACAA
*
59936105 CAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACACAA
1 CAAATTGGGCAGCATTTTTACA-CAAAAATTGGACAGCATATACACAA
* * *
59936153 CAATTTGGGCAGCATATATGTAC-C--AAATT-GAGCAGCATTTTTACATCAA
1 CAAATTGGGCAGCAT-T-TTTACACAAAAATTGGA-CAGCA--TATACA-CAA
* * * * * * * * *
59936202 -AAATTGGACA--ACTTATAGACAACAATTTGGGCAGCATATATATAC
1 CAAATTGGGCAGCATTTTTACACAA-AAATTGGACAGCATATACACAA
*
59936247 CAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACACAA
1 CAAATTGGGCAGCATTTTTACA-CAAAAATTGGACAGCATATACACAA
* * *
59936295 CAATTTGGGCAGCATATATGTAC-C--AAATT-GAGCAGCATTTTTACATCAA
1 CAAATTGGGCAGCAT-T-TTTACACAAAAATTGGA-CAGCA--TATACA-CAA
* * * * * * *
59936344 -AAATTGGACAGCA--TATACACAACAATTTGGGCAGCATATATATAC
1 CAAATTGGGCAGCATTTTTACACAA-AAATTGGACAGCATATACACAA
* * *
59936389 CAAATTGAGCAGCATTTTTACATCAAAAATTAGACAGCATATAGACAA
1 CAAATTGGGCAGCATTTTTACA-CAAAAATTGGACAGCATATACACAA
*
59936437 CAATTTGGGCAGCAT
1 CAAATTGGGCAGCAT
59936452 ATATATACCA
Statistics
Matches: 323, Mismatches: 79, Indels: 80
0.67 0.16 0.17
Matches are distributed among these distances:
44 7 0.02
45 10 0.03
46 79 0.24
47 1 0.00
48 183 0.57
49 22 0.07
50 21 0.07
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (47 bp):
CAAATTGGGCAGCATTTTTACACAAAAATTGGACAGCATATACACAA
Found at i:59936536 original size:71 final size:71
Alignment explanation
Indices: 59935868--59936512 Score: 1008
Period size: 71 Copynumber: 9.1 Consensus size: 71
59935858 CCATATACAT
* * * * *
59935868 CAATTTGGACAGCATTTATATACCAAACT-AGGCAACATTTTTACA-CTAAAAATTAGACAGCAT
1 CAATTTGGGCAGCATATATATACCAAATTGA-GCAGCATTTTTACATC-AAAAATTGGACAGCAT
*
59935931 ATATACAA
64 ATACACAA
* * *
59935939 TAATTT-GGCAGCATATGTATACCAAATTGAGCAGCATTTTTTTACATCTAAAATTGGACAGCAT
1 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCA--TTTTTACATCAAAAATTGGACAGCAT
59936003 ATACACAA
64 ATACACAA
* * * *
59936011 CAATTTGAGCAGCATATATATAACAAATTGAACAGCATTTTTACATCAAAAATTGGACAGCTTAT
1 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
*
59936076 AAACAA
66 ACACAA
59936082 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
1 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
59936147 ACACAA
66 ACACAA
* * *
59936153 CAATTTGGGCAGCATATATGTACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAACTTAT
1 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
*
59936218 AGACAA
66 ACACAA
59936224 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
1 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
59936289 ACACAA
66 ACACAA
*
59936295 CAATTTGGGCAGCATATATGTACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
1 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
59936360 ACACAA
66 ACACAA
*
59936366 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTAGACAGCATAT
1 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
*
59936431 AGACAA
66 ACACAA
* *
59936437 CAATTTGGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAAATTAGACAGCATAT
1 CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
**
59936502 ATGCAA
66 ACACAA
59936508 CAATT
1 CAATT
59936513 AGACAGCATT
Statistics
Matches: 532, Mismatches: 37, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
70 23 0.04
71 448 0.84
72 34 0.06
73 27 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (71 bp):
CAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
ACACAA
Found at i:59937285 original size:28 final size:29
Alignment explanation
Indices: 59937253--59937376 Score: 130
Period size: 28 Copynumber: 4.4 Consensus size: 29
59937243 AATAAGTTCA
* *
59937253 CACACTTAGTGC-TCAATAATCAAACTCG
1 CACACTTAGTGCTTCAACAATTAAACTCG
* * * *
59937281 CACACTCAGTGCTT-TACCATTATACTCG
1 CACACTTAGTGCTTCAACAATTAAACTCG
*
59937309 CACACTTAGTGCTT-TACAAATTAAACTCG
1 CACACTTAGTGCTTCAAC-AATTAAACTCG
* *
59937338 CACACTTAGTACTTC-ACAATTAAATTCG
1 CACACTTAGTGCTTCAACAATTAAACTCG
59937366 CACACTTAGTG
1 CACACTTAGTG
59937377 TCGAAAGTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 56 0.69
29 25 0.31
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.30
Consensus pattern (29 bp):
CACACTTAGTGCTTCAACAATTAAACTCG
Found at i:59937343 original size:57 final size:56
Alignment explanation
Indices: 59937253--59937376 Score: 151
Period size: 57 Copynumber: 2.2 Consensus size: 56
59937243 AATAAGTTCA
* * * *
59937253 CACACTTAGTGCTCAATAATCAAACTCGCACACTCAGTGCTTTACCATTATACTCG
1 CACACTTAGTGCTCAATAATCAAACTCGCACACTCAGTACTTCACAATTAAACTCG
* * * *
59937309 CACACTTAGTGCTTTACA-AATTAAACTCGCACACTTAGTACTTCACAATTAAATTCG
1 CACACTTAGTGC-TCA-ATAATCAAACTCGCACACTCAGTACTTCACAATTAAACTCG
59937366 CACACTTAGTG
1 CACACTTAGTG
59937377 TCGAAAGTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 12 0.21
57 45 0.78
58 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.30
Consensus pattern (56 bp):
CACACTTAGTGCTCAATAATCAAACTCGCACACTCAGTACTTCACAATTAAACTCG
Found at i:59939892 original size:33 final size:33
Alignment explanation
Indices: 59939855--59939918 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
59939845 GGTATGAAAG
*
59939855 TTTAATGTGGTACTCTTTTTTTTGTTTGTTTGT
1 TTTAATGTGATACTCTTTTTTTTGTTTGTTTGT
* *
59939888 TTTAATGTGATACTTTTTTTTTTTTTTGTTT
1 TTTAATGTGATACTCTTTTTTTTGTTTGTTT
59939919 CTATTAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.11, C:0.05, G:0.14, T:0.70
Consensus pattern (33 bp):
TTTAATGTGATACTCTTTTTTTTGTTTGTTTGT
Found at i:59946567 original size:23 final size:24
Alignment explanation
Indices: 59946530--59946574 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
59946520 AATCGATATG
*
59946530 AAATATTGATAAATTTTGATAAAA
1 AAATATTGATAAATTTTAATAAAA
*
59946554 AAATATTTAT-AATTTTAATAA
1 AAATATTGATAAATTTTAATAA
59946575 TTGAATTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATTGATAAATTTTAATAAAA
Found at i:59947952 original size:3 final size:3
Alignment explanation
Indices: 59947944--59947983 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
59947934 GATCTGTTTG
59947944 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
59947984 AGTATTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:59950401 original size:2 final size:2
Alignment explanation
Indices: 59950394--59950425 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
59950384 TACAAAAATC
59950394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59950426 TAGTTTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59951229 original size:25 final size:24
Alignment explanation
Indices: 59951184--59951238 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
59951174 ACTAAAAATT
*
59951184 TTAAAATATATCATCTAAAAAAGA
1 TTAAAATATATCATATAAAAAAGA
59951208 TTAAATATATAT-ATATAGAAAAA-A
1 TTAAA-ATATATCATATA-AAAAAGA
59951232 TATAAAA
1 T-TAAAA
59951239 ATGATAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
TTAAAATATATCATATAAAAAAGA
Found at i:59952600 original size:16 final size:17
Alignment explanation
Indices: 59952579--59952614 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
59952569 GGATCAAAGA
*
59952579 TAAATATATTTATT-AT
1 TAAATATAATTATTAAT
59952595 TAAATATAATTATTAAT
1 TAAATATAATTATTAAT
59952612 TAA
1 TAA
59952615 TGAAATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATATAATTATTAAT
Found at i:59958269 original size:15 final size:15
Alignment explanation
Indices: 59958249--59958279 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
59958239 AAGTTTTGGT
59958249 CTTTTGTCTCAGCAA
1 CTTTTGTCTCAGCAA
59958264 CTTTTGTCTCAGCAA
1 CTTTTGTCTCAGCAA
59958279 C
1 C
59958280 CAAGCGTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (15 bp):
CTTTTGTCTCAGCAA
Found at i:59961216 original size:7 final size:7
Alignment explanation
Indices: 59961204--59961233 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
59961194 CCTCAGTTCG
59961204 AAACAAA
1 AAACAAA
59961211 AAACAAA
1 AAACAAA
59961218 AAACAAA
1 AAACAAA
59961225 AAACAAA
1 AAACAAA
59961232 AA
1 AA
59961234 GGAAAAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACAAA
Found at i:59969614 original size:18 final size:18
Alignment explanation
Indices: 59969591--59969630 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59969581 AATCAAGCTT
59969591 AATATTATTATATTAAAA
1 AATATTATTATATTAAAA
* * *
59969609 AATATTTTTATTTTTAAA
1 AATATTATTATATTAAAA
59969627 AATA
1 AATA
59969631 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATTATTATATTAAAA
Found at i:59969770 original size:33 final size:30
Alignment explanation
Indices: 59969717--59969802 Score: 81
Period size: 34 Copynumber: 2.9 Consensus size: 30
59969707 TTTAACCATA
59969717 TAATAAATTATTAATATAA-TTTATTTTTT
1 TAATAAATTATTAATATAATTTTATTTTTT
**
59969746 TAATAAATTATTTAATATTTTAATTTTATTTTAA
1 TAATAAATTA-TTAATA---TAATTTTATTTTTT
*
59969780 TAAT-AATT-TTAA-ATAATATTATT
1 TAATAAATTATTAATATAATTTTATT
59969803 CGAAAATATT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
27 9 0.18
29 10 0.20
30 7 0.14
31 4 0.08
33 7 0.14
34 12 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TAATAAATTATTAATATAATTTTATTTTTT
Found at i:59969771 original size:29 final size:30
Alignment explanation
Indices: 59969717--59969782 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
59969707 TTTAACCATA
59969717 TAATAAATTATTAATATAATTTA-TTT-TTT
1 TAATAAATTATTAATAT-ATTTATTTTATTT
59969746 TAATAAATTATTTAATAT-TTTAATTTTATTT
1 TAATAAATTA-TTAATATATTT-ATTTTATTT
59969777 TAATAA
1 TAATAA
59969783 TAATTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 3 0.09
29 11 0.33
30 10 0.30
31 9 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TAATAAATTATTAATATATTTATTTTATTT
Found at i:59982846 original size:12 final size:12
Alignment explanation
Indices: 59982829--59982855 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59982819 CCCATAATTA
59982829 TTTTTTTACAAT
1 TTTTTTTACAAT
59982841 TTTTTTTACAAT
1 TTTTTTTACAAT
59982853 TTT
1 TTT
59982856 CCAAAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTTACAAT
Found at i:59983547 original size:18 final size:17
Alignment explanation
Indices: 59983521--59983559 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
59983511 ATTTTCCTTC
59983521 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
59983538 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
59983556 CACA
1 CACA
59983560 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:59987149 original size:46 final size:45
Alignment explanation
Indices: 59987085--59987353 Score: 166
Period size: 36 Copynumber: 6.6 Consensus size: 45
59987075 TTTGAGTACT
*
59987085 TCTGATCAAGAGATAAAGTGATAAGTAGTAGCTTTAGGTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTAGTAGCTTTA-GTACACTTA
* *
59987131 TCTAATCAAGTGAAAAAGTGAT-A--AGT-GC-----TACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTAGTAGCTTTAGTACACTTA
* * *
59987167 TCTGATCAAGAGACAAAGTGATAAGTGGTAACTTTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTAGTAGCTTTAG-TACACTTA
*
59987213 TCTGATCAAGTGAAAAAGTGAT-A--AGT-G--TTA-T--ACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTAGTAGCTTTAGTACACTTA
* *
59987249 TCTGATCAGGTGAAAAAGTGAT-A--AGT-GC--TA-T--ACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTAGTAGCTTTAGTACACTTA
* * * *
59987285 TCTGATCAAGTGACAAAGCGATAAGTGGTAGC-TTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTAGTAGCTTTAG-TACACTTA
* *
59987330 TCTGATC-AGGGACAAA-TGATAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGT
59987354 GATCATACGT
Statistics
Matches: 184, Mismatches: 19, Indels: 43
0.75 0.08 0.17
Matches are distributed among these distances:
36 85 0.46
37 2 0.01
38 1 0.01
39 4 0.02
40 6 0.03
41 2 0.01
42 2 0.01
43 13 0.07
44 8 0.04
45 14 0.08
46 47 0.26
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGAGAAAAAGTGATAAGTAGTAGCTTTAGTACACTTA
Found at i:59987164 original size:36 final size:36
Alignment explanation
Indices: 59987123--59987311 Score: 207
Period size: 36 Copynumber: 5.0 Consensus size: 36
59987113 TAGCTTTAGG
*
59987123 TACACTTATCTAATCAAGTGAAAAAGTGATAAGTGC
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
* *
59987159 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAACTTTAGC
1 TACACTTATCTGATCAAGTGAAAAAGTGATAA---G------T-GC
*
59987205 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
* *
59987241 TATACTTATCTGATCAGGTGAAAAAGTGATAAGTGC
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
* * *
59987277 TATACTTATCTGATCAAGTGACAAAGCGATAAGTG
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTG
59987312 GTAGCTTAGC
Statistics
Matches: 131, Mismatches: 12, Indels: 20
0.80 0.07 0.12
Matches are distributed among these distances:
36 95 0.73
37 1 0.01
39 1 0.01
43 1 0.01
45 1 0.01
46 32 0.24
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
Found at i:59987222 original size:82 final size:82
Alignment explanation
Indices: 59987085--59987275 Score: 292
Period size: 82 Copynumber: 2.3 Consensus size: 82
59987075 TTTGAGTACT
* * * *
59987085 TCTGATCAAGAGATAAAGTGATAAGTAGTAGCTTTAGGTACACTTATCTAATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTAATCAAGTGAAAAAGT
59987150 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
59987167 TCTGATCAAGAGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTAATCAAGTGAAAAAGT
* *
59987232 GATAAGTGTTATACTTA
66 GATAAGTGCTACACTTA
* *
59987249 TCTGATCAGGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
59987276 CTATACTTAT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 99 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTAATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:59997408 original size:17 final size:20
Alignment explanation
Indices: 59997381--59997419 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
59997371 ATTTGTAATA
59997381 ATCTCCATACAA-T-CACAT
1 ATCTCCATACAAGTGCACAT
59997399 ATCT-CATACAAGTGCACAT
1 ATCTCCATACAAGTGCACAT
59997418 AT
1 AT
59997420 AACCCTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.28
Consensus pattern (20 bp):
ATCTCCATACAAGTGCACAT
Found at i:60018760 original size:93 final size:92
Alignment explanation
Indices: 60018648--60018836 Score: 306
Period size: 93 Copynumber: 2.0 Consensus size: 92
60018638 AACATTGATT
* *
60018648 TTTTTAATATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAATTTGTTTTTA
1 TTTTTAACATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
* *
60018713 GTATTTTAATAGTAATTTATTTTTAATA
66 ATATTTTAACAGTAATTTATTTTT-ATA
* *
60018741 TTTTTAACATATTTGTACAAACTGTTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTA
1 TTTTTAACATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
*
60018806 ATATTTTAGCAGTAATTTATTTTTATA
66 ATATTTTAACAGTAATTTATTTTTATA
60018833 TTTT
1 TTTT
60018837 AATAAAATAG
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 7 0.08
93 82 0.92
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (92 bp):
TTTTTAACATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
ATATTTTAACAGTAATTTATTTTTATA
Found at i:60021556 original size:50 final size:50
Alignment explanation
Indices: 60021481--60021581 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
60021471 GAAGAACAGT
*
60021481 AAATGTTGAAGTTACAAATGCTTTATCTGGCAATGAAAATTATACATATA
1 AAATGTTGAAGTTACAAATGCTTTATCTGGCAATAAAAATTATACATATA
* * * *
60021531 AAATGTTGAAGTTGCAAATGCTTTATTTGGCGATAAAAATTATATATATA
1 AAATGTTGAAGTTACAAATGCTTTATCTGGCAATAAAAATTATACATATA
60021581 A
1 A
60021582 CTCAAGATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.36
Consensus pattern (50 bp):
AAATGTTGAAGTTACAAATGCTTTATCTGGCAATAAAAATTATACATATA
Found at i:60022229 original size:123 final size:124
Alignment explanation
Indices: 60022009--60022503 Score: 631
Period size: 123 Copynumber: 4.0 Consensus size: 124
60021999 GAGAGCGTCC
* *
60022009 ACGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCTTGCTTGAAGCGTTTTTGA
1 ACGTCCACGTGAAAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGA
* *
60022074 CACTATTTATTCATAATCGTCTTCTCAAAATTATTTTTTCAGGAACTACTATAGAAAGA
66 CACTATTTATTCAGAATCGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAAGA
*
60022133 ACGTCCACGTTAAAGC-TTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGA
1 ACGTCCACGTGAAAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGA
* * *
60022197 CACTATTTACTCATAATCGTCTTCTCAAAATTATTTTTTCAGGAACTATTGTAGAAAGA
66 CACTATTTATTCAGAATCGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAAGA
* * * * *
60022256 GCGTCCACGTGGAAA-C-TTTTTCAGTAATTTTGCTGACA-TACATCCTGCTTGAAGTGTTTTTT
1 ACGTCCACGT-GAAAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTG
* * *
60022318 ACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTGCAAGAACTACTGTAGAAAAAGA
65 ACACTATTTATTCAGAATCGTCTTCTCAAAATTATTTTTT-CAGGAACTACTGTAG--AAAGA
* ** * * *** * * *
60022381 GCGTCCACGTGGGATCTTTTTTCAGTAATTTTGCTGACAATGCATATTGCTTAAAGTGTTTTTTA
1 ACGTCCACGTGAAAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGA
* * *
60022446 CATTATCTT-TTTAGAATCGTCTTCTCAAAATTATTTTTTTCAGAAACTACTGTAGAAA
66 CACTAT-TTATTCAGAATCGTCTTCTCAAAATTA-TTTTTTCAGGAACTACTGTAGAAA
60022504 AAATAAAAGT
Statistics
Matches: 333, Mismatches: 29, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
122 56 0.17
123 148 0.44
124 19 0.06
125 19 0.06
126 22 0.07
127 61 0.18
128 8 0.02
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (124 bp):
ACGTCCACGTGAAAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGA
CACTATTTATTCAGAATCGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAAGA
Found at i:60022477 original size:249 final size:247
Alignment explanation
Indices: 60022026--60022503 Score: 640
Period size: 249 Copynumber: 1.9 Consensus size: 247
60022016 CGTGAGAGCT
* * *
60022026 TTTTTCAGTAATTTTGCTGACAGTGCACCTTGCTTGAAGCGTTTTTGACACTATTTATTCATAAT
1 TTTTTCAGTAATTTTGCTGACAGTACACCTTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAC
* *
60022091 CGTCTTCTCAAAATTATTTTTTCAGGAACTACTATAGAAAGAACGTCCACGTTAAAGCTTTTTCA
66 CGTCTTCTCAAAATTATTTTTTCAAGAACTACTATAGAAAGAACGTCCACGTGAAAGCTTTTTCA
* * * *
60022156 GTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGACACTATTTACTCATAATCGTCTTC
131 GTAATTTTGCTGACAATGCACACTGCTTAAAGCGTTTTTGACACTATTTACTCAGAATCGTCTTC
* *
60022221 TCAAAATTA-TTTTTTCAGGAACTATTGTAGAAAGAGCGTCCACGTGGAAAC
196 TCAAAATTATTTTTTTCAGAAACTACTGTAGAAAGAGCGTCCACGTGGAAAC
* * *
60022272 TTTTTCAGTAATTTTGCTGACA-TACATCC-TGCTTGAAGTGTTTTTTACACTATTTGTTCAGAA
1 TTTTTCAGTAATTTTGCTGACAGTACA-CCTTGCTTGAAGCGTTTTTGACACTATTTATTCAGAA
* * ** *
60022335 CCGTCTTCTCAAAATTATTTTTTGCAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGATCTTT
65 CCGTCTTCTCAAAATTATTTTTT-CAAGAACTACTATAG--AAAGAACGTCCACGTGAAAGC-TT
* * * * * * *
60022400 TTTCAGTAATTTTGCTGACAATGCATATTGCTTAAAGTGTTTTTTACATTATCTT-TTTAGAATC
126 TTTCAGTAATTTTGCTGACAATGCACACTGCTTAAAGCGTTTTTGACACTAT-TTACTCAGAATC
60022464 GTCTTCTCAAAATTATTTTTTTCAGAAACTACTGTAGAAA
190 GTCTTCTCAAAATTATTTTTTTCAGAAACTACTGTAGAAA
60022504 AAATAAAAGT
Statistics
Matches: 199, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
245 55 0.28
246 37 0.19
248 16 0.08
249 67 0.34
250 24 0.12
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (247 bp):
TTTTTCAGTAATTTTGCTGACAGTACACCTTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAC
CGTCTTCTCAAAATTATTTTTTCAAGAACTACTATAGAAAGAACGTCCACGTGAAAGCTTTTTCA
GTAATTTTGCTGACAATGCACACTGCTTAAAGCGTTTTTGACACTATTTACTCAGAATCGTCTTC
TCAAAATTATTTTTTTCAGAAACTACTGTAGAAAGAGCGTCCACGTGGAAAC
Found at i:60022615 original size:34 final size:33
Alignment explanation
Indices: 60022577--60022663 Score: 124
Period size: 34 Copynumber: 2.6 Consensus size: 33
60022567 CTAAACCATG
60022577 ATTTAATTAATTTTCTTAAAACC-CAAAAATCCTA
1 ATTTAATTAATTTT-TTAAAACCTCAAAAA-CCTA
*
60022611 ATTTAATCAATTTATTTAAAACCTCAAAAACCTA
1 ATTTAATTAATTT-TTTAAAACCTCAAAAACCTA
60022645 ATTTAATT-ATTTTTTAAAA
1 ATTTAATTAATTTTTTAAAA
60022664 AACCTTAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
32 7 0.14
33 4 0.08
34 31 0.63
35 7 0.14
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (33 bp):
ATTTAATTAATTTTTTAAAACCTCAAAAACCTA
Found at i:60026807 original size:25 final size:24
Alignment explanation
Indices: 60026768--60026833 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
60026758 CCCAAACTCA
* *
60026768 TTATAAAATATATTTTTTAAATTTT
1 TTATAATAT-TATTTTTGAAATTTT
* *
60026793 TATATATTTTTATTTATTGAAATTTT
1 T-TATAATATTATTT-TTGAAATTTT
60026819 TTATAATATTATTTT
1 TTATAATATTATTTT
60026834 AATATTTACA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 1 0.03
25 17 0.52
26 15 0.45
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATAATATTATTTTTGAAATTTT
Found at i:60026834 original size:26 final size:25
Alignment explanation
Indices: 60026768--60026834 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
60026758 CCCAAACTCA
*
60026768 TTATAAAATATATTTT-TTAAATTTT
1 TTATAATAT-TATTTTATTAAATTTT
* *
60026793 TATATATTTTTA-TTTATTGAAATTTT
1 T-TATAATATTATTTTATT-AAATTTT
60026819 TTATAATATTATTTTA
1 TTATAATATTATTTTA
60026835 ATATTTACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
24 3 0.09
25 13 0.39
26 17 0.52
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (25 bp):
TTATAATATTATTTTATTAAATTTT
Found at i:60041007 original size:11 final size:11
Alignment explanation
Indices: 60040991--60041044 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
60040981 TCAATTATTT
*
60040991 TCTCAATTTCC
1 TCTCAAATTCC
*
60041002 TCTCAAATTGC
1 TCTCAAATTCC
60041013 TCTCAAATTCC
1 TCTCAAATTCC
*
60041024 T-TCTAAATTTC
1 TCTC-AAATTCC
60041035 TCTCAAATTC
1 TCTCAAATTC
60041045 ATATTTAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 2 0.06
11 32 0.89
12 2 0.06
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCAAATTCC
Found at i:60041023 original size:22 final size:22
Alignment explanation
Indices: 60040991--60041044 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
60040981 TCAATTATTT
*
60040991 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAAATTCCTTCT-AAATTGC
*
60041013 TCTCAAATTCCTTCTAAATTTC
1 TCTCAAATTCCTTCTAAATTGC
60041035 TCTCAAATTC
1 TCTCAAATTC
60041045 ATATTTAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (22 bp):
TCTCAAATTCCTTCTAAATTGC
Found at i:60041088 original size:22 final size:22
Alignment explanation
Indices: 60040987--60041088 Score: 57
Period size: 22 Copynumber: 4.4 Consensus size: 22
60040977 TCTCTCAATT
* *
60040987 ATTT-TCTCAATTTCCTCTCAA
1 ATTTCTCTCAATTTCTTCTTAA
* *
60041008 ATTGCTCTCAAATTCCTTC-TAA
1 ATTTCTCTC-AATTTCTTCTTAA
*
60041030 ATTTCTCTCAAATTCATAT-TTAATCTCA
1 ATTTCTCTCAATTTC-T-TCTT-A----A
60041058 ATTTGCTCTCAATTTCTTCTTAA
1 ATTT-CTCTCAATTTCTTCTTAA
60041081 ATTTCTCT
1 ATTTCTCT
60041089 TAAATCCCTA
Statistics
Matches: 61, Mismatches: 8, Indels: 23
0.66 0.09 0.25
Matches are distributed among these distances:
21 7 0.11
22 19 0.31
23 14 0.23
24 1 0.02
27 2 0.03
28 8 0.13
29 10 0.16
ACGTcount: A:0.25, C:0.25, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTCTCTCAATTTCTTCTTAA
Found at i:60041101 original size:51 final size:51
Alignment explanation
Indices: 60041002--60041101 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
60040992 CTCAATTTCC
*
60041002 TCTCAAATTGCTCTCAAATTCCTTCTAAATTTCTCTCAAATTCATATTTAA
1 TCTCAAATTGCTCTCAAATTCCTTCTAAATTTCTCTCAAATCCATATTTAA
* * * *
60041053 TCTCAATTTGCTCTC-AATTTCTTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAAATTCCTTC-TAAATTTCTCTCAAATCCATATTT
60041102 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 8 0.19
51 35 0.81
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAAATTCCTTCTAAATTTCTCTCAAATCCATATTTAA
Found at i:60041141 original size:12 final size:13
Alignment explanation
Indices: 60041117--60041145 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
60041107 TAATTTAAAA
60041117 AAATTTATTTTTT
1 AAATTTATTTTTT
60041130 AAATTT-TTTTTT
1 AAATTTATTTTTT
60041142 AAAT
1 AAAT
60041146 CGTAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
AAATTTATTTTTT
Found at i:60042190 original size:22 final size:21
Alignment explanation
Indices: 60042165--60042205 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60042155 TCTAAAATCC
* *
60042165 TAAAAATCCTAAACCCTAACCT
1 TAAAAA-CCAAAAACCTAACCT
60042187 TAAAAACCAAAAACCTAAC
1 TAAAAACCAAAAACCTAAC
60042206 ATGGGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAAAACCAAAAACCTAACCT
Found at i:60046200 original size:3 final size:3
Alignment explanation
Indices: 60046192--60046241 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
60046182 CATTTAACTG
60046192 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
60046240 TA
1 TA
60046242 AAAACTAGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:60053270 original size:14 final size:16
Alignment explanation
Indices: 60053247--60053278 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
60053237 TCACAAATAA
60053247 TTTAATTTATTAA-AT
1 TTTAATTTATTAAGAT
60053262 TTTAA-TTATTAAGAT
1 TTTAATTTATTAAGAT
60053277 TT
1 TT
60053279 AGTGCTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTAATTTATTAAGAT
Found at i:60058610 original size:18 final size:17
Alignment explanation
Indices: 60058587--60058631 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
60058577 AATTTTTTTT
*
60058587 AAAAATTCAAAAATTATG
1 AAAAATTAAAAAATT-TG
*
60058605 AAAAATATAAAAAATTTT
1 AAAAAT-TAAAAAATTTG
60058623 AAAAATTAA
1 AAAAATTAA
60058632 TATATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 13 0.54
19 8 0.33
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAATTAAAAAATTTG
Found at i:60071626 original size:11 final size:11
Alignment explanation
Indices: 60071610--60071674 Score: 78
Period size: 11 Copynumber: 6.0 Consensus size: 11
60071600 TTTTTTTTTT
*
60071610 TCAATTCACTC
1 TCAATTCTCTC
*
60071621 TCAATTCTCTT
1 TCAATTCTCTC
60071632 TCAATTCTCTC
1 TCAATTCTCTC
*
60071643 T-AATTCTTTC
1 TCAATTCTCTC
*
60071653 TCAATTCACTC
1 TCAATTCTCTC
*
60071664 TCAATTTTCTC
1 TCAATTCTCTC
60071675 ACTTTTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
10 9 0.20
11 36 0.80
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.48
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:60071648 original size:32 final size:32
Alignment explanation
Indices: 60071612--60071674 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
60071602 TTTTTTTTTC
* *
60071612 AATTCACTCTCAATTCTCTTTCAATTCTCTCT
1 AATTCACTCTCAATTCACTCTCAATTCTCTCT
** *
60071644 AATTCTTTCTCAATTCACTCTCAATTTTCTC
1 AATTCACTCTCAATTCACTCTCAATTCTCTC
60071675 ACTTTTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTCACTCTCAATTCACTCTCAATTCTCTCT
Found at i:60090669 original size:13 final size:14
Alignment explanation
Indices: 60090648--60090684 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
60090638 CTTAAACCAA
*
60090648 ACTTTTCAAAAAT-
1 ACTTCTCAAAAATC
60090661 ACTTCTC-AAAATC
1 ACTTCTCAAAAATC
60090674 ACTTCTCAAAA
1 ACTTCTCAAAA
60090685 GCAATACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 5 0.24
13 13 0.62
14 3 0.14
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
ACTTCTCAAAAATC
Found at i:60091233 original size:30 final size:30
Alignment explanation
Indices: 60091199--60091256 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
60091189 TTTTAGAAAG
* * *
60091199 TATAGGGACTAAATTTGACCAATTCAAAAA
1 TATAGGAACTAAAATTGACCAAATCAAAAA
*
60091229 TATAGGAACTAAAATTGATCAAATCAAA
1 TATAGGAACTAAAATTGACCAAATCAAA
60091257 GTATAAAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (30 bp):
TATAGGAACTAAAATTGACCAAATCAAAAA
Found at i:60091777 original size:42 final size:42
Alignment explanation
Indices: 60091730--60091813 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
60091720 TAATAATAAC
*
60091730 TTAAAAAGTAGAGTAATATAAGAACCAAATTAAGTCAAATTA
1 TTAAAAAGTAGAGTAATATAAGAACCAAATTAAATCAAATTA
*
60091772 TTAAAAAGTAGATTAATATAAGAACCAAATTAAATCAAATTA
1 TTAAAAAGTAGAGTAATATAAGAACCAAATTAAATCAAATTA
60091814 AAACAGAGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (42 bp):
TTAAAAAGTAGAGTAATATAAGAACCAAATTAAATCAAATTA
Found at i:60092853 original size:27 final size:28
Alignment explanation
Indices: 60092815--60092891 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 28
60092805 CCGGCCCGGC
*
60092815 CCATTGGCGCCTCTCAGAAT-GGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
60092842 CCATTGGCGCCTCCCAG-GTAGGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
60092869 CCATTGGCACCTCCCAG-ATAGGC
1 CCATTGGCGCCTCCCAGAATAGGC
60092892 GCCAATACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.21, C:0.39, G:0.23, T:0.17
Consensus pattern (28 bp):
CCATTGGCGCCTCCCAGAATAGGCACCA
Found at i:60093638 original size:24 final size:24
Alignment explanation
Indices: 60093594--60093639 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
60093584 GCCCTTTAAA
*
60093594 TATTAAATTAATTCTTTTAAAATT
1 TATTAAATTAATTCTTCTAAAATT
*
60093618 TATTAATTTAACTTC-TCTAAAA
1 TATTAAATTAA-TTCTTCTAAAA
60093640 ATACTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTAAATTAATTCTTCTAAAATT
Found at i:60094527 original size:9 final size:9
Alignment explanation
Indices: 60094515--60094621 Score: 58
Period size: 9 Copynumber: 11.1 Consensus size: 9
60094505 AAATATATTT
60094515 ATTTTTTAA
1 ATTTTTTAA
*
60094524 A-TTTTAAA
1 ATTTTTTAA
60094532 ATATTTTTACA
1 AT-TTTTTA-A
60094543 TACTTTTTT-A
1 -A-TTTTTTAA
*
60094553 ATTTTTTTA
1 ATTTTTTAA
*
60094562 A-TTTTAAA
1 ATTTTTTAA
*
60094570 ATAATTTTAAA
1 AT--TTTTTAA
60094581 ATATTTTTAAAA
1 AT-TTTTT--AA
60094593 TATTTTTTAA
1 -ATTTTTTAA
60094603 ATTTTTTAA
1 ATTTTTTAA
*
60094612 AATTTTTAA
1 ATTTTTTAA
60094621 A
1 A
60094622 ATAAAAATGG
Statistics
Matches: 80, Mismatches: 6, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
8 19 0.24
9 22 0.28
10 13 0.16
11 10 0.12
12 13 0.16
13 3 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:60094574 original size:11 final size:11
Alignment explanation
Indices: 60094560--60094625 Score: 75
Period size: 11 Copynumber: 6.3 Consensus size: 11
60094550 TTAATTTTTT
60094560 TAATTTTAAAA
1 TAATTTTAAAA
60094571 TAATTTTAAAA
1 TAATTTTAAAA
*
60094582 TATTTTTAAAA
1 TAATTTTAAAA
* *
60094593 TATTTTTTAAA
1 TAATTTTAAAA
*
60094604 T-TTTTTAAAA
1 TAATTTTAAAA
60094614 T--TTTTAAAA
1 TAATTTTAAAA
60094623 TAA
1 TAA
60094626 AAATGGACAG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
9 9 0.18
10 9 0.18
11 32 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:60094580 original size:49 final size:52
Alignment explanation
Indices: 60094523--60094625 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 52
60094513 TTATTTTTTA
* *
60094523 AATTTTAAAATATTTTT-ACATACTTTTTT-AATTTTTT-TAA-TTTTAAAAT
1 AATTTTAAAATATTTTTAAAATA-TTTTTTAAATTTTTTAAAATTTTTAAAAT
60094572 AATTTTAAAATATTTTTAAAATATTTTTTAAATTTTTTAAAATTTTTAAAAT
1 AATTTTAAAATATTTTTAAAATATTTTTTAAATTTTTTAAAATTTTTAAAAT
60094624 AA
1 AA
60094626 AAATGGACAG
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
49 23 0.48
50 12 0.25
51 2 0.04
52 11 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (52 bp):
AATTTTAAAATATTTTTAAAATATTTTTTAAATTTTTTAAAATTTTTAAAAT
Found at i:60095572 original size:19 final size:20
Alignment explanation
Indices: 60095528--60095572 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
60095518 TTGATTCCTT
60095528 AATATA-ATATCATGATAAA
1 AATATATATATCATGATAAA
*
60095547 AAT-TATATATTAT-ATAAA
1 AATATATATATCATGATAAA
60095565 AATATATA
1 AATATATA
60095573 AAAAAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AATATATATATCATGATAAA
Found at i:60101933 original size:14 final size:14
Alignment explanation
Indices: 60101916--60101965 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
60101906 TTTTAGTTTC
60101916 AAGTTTTAA-ATTT
1 AAGTTTTAAGATTT
60101929 AAAG-TTTAAGATTT
1 -AAGTTTTAAGATTT
* *
60101943 GATGGTTTAAGATTT
1 -AAGTTTTAAGATTT
60101958 AAGTTTTA
1 AAGTTTTA
60101966 TATTAAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 5 0.17
14 15 0.50
15 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (14 bp):
AAGTTTTAAGATTT
Found at i:60109150 original size:36 final size:36
Alignment explanation
Indices: 60109103--60109174 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
60109093 GAGTGAGACA
*
60109103 TTGAATGTGATGGAAAATGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
* *
60109139 TTGAATGTGATGGGATAGGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
60109175 CTGTATTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.44, T:0.31
Consensus pattern (36 bp):
TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
Found at i:60112939 original size:28 final size:28
Alignment explanation
Indices: 60112901--60112997 Score: 81
Period size: 28 Copynumber: 3.4 Consensus size: 28
60112891 ACTTTTTACT
*
60112901 AATTTGATACTTAAGCTTTTTTTCATTC
1 AATTTGGTACTTAAGCTTTTTTTCATTC
*
60112929 AATTTGGTACTTAAACTTGACACTTTTTC-TT-
1 AATTTGGTACTTAAGCTT-----TTTTTCATTC
* * **
60112960 AATTTGGTACTTCAGATTTTTTAGATTC
1 AATTTGGTACTTAAGCTTTTTTTCATTC
60112988 AATTTGGTAC
1 AATTTGGTAC
60112998 CCAAACCTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
26 4 0.07
27 2 0.04
28 26 0.47
31 15 0.27
32 2 0.04
33 6 0.11
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.49
Consensus pattern (28 bp):
AATTTGGTACTTAAGCTTTTTTTCATTC
Found at i:60116226 original size:4 final size:4
Alignment explanation
Indices: 60116217--60116291 Score: 141
Period size: 4 Copynumber: 18.8 Consensus size: 4
60116207 AACAATAGAT
*
60116217 TATG TATG TATG TATG GATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
60116265 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
60116292 TAAAATACGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 69 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:60117527 original size:3 final size:3
Alignment explanation
Indices: 60117519--60117560 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
60117509 TAATCCCTAT
*
60117519 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
60117561 CTATACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:60117901 original size:30 final size:32
Alignment explanation
Indices: 60117840--60117901 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
60117830 ATGATTCACC
* *
60117840 AATACATACACTTATACATTTTTTATTTTGTA
1 AATACATACACATATACATTATTTATTTTGTA
*
60117872 AATATATACACATATACA-TATTT-TTTTGTA
1 AATACATACACATATACATTATTTATTTTGTA
60117902 TTTTATCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 7 0.26
31 4 0.15
32 16 0.59
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.48
Consensus pattern (32 bp):
AATACATACACATATACATTATTTATTTTGTA
Found at i:60118070 original size:14 final size:14
Alignment explanation
Indices: 60118051--60118089 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
60118041 TTGTGTATTG
60118051 TATTTGTATATATA
1 TATTTGTATATATA
* *
60118065 TATTTGTAAATATT
1 TATTTGTATATATA
*
60118079 TATTCGTATAT
1 TATTTGTATAT
60118090 GATGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:60119490 original size:37 final size:37
Alignment explanation
Indices: 60119448--60119593 Score: 204
Period size: 37 Copynumber: 3.9 Consensus size: 37
60119438 ACCCGAATTA
* *
60119448 AATCACTACATAATTTAAAACATTACATAAATCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
* * *
60119485 GATCACTACATAATTAAAAATATTACATAAGTTTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
* *
60119522 AATCACTACATGATTAAAAATATTACATAAGTC-TTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
60119558 AAATCACTACATAATTAAAAACATTATATAAGTCTT
1 -AATCACTACATAATTAAAAACATTACATAAGTCTT
60119594 GAAATTAACA
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
36 3 0.03
37 92 0.96
38 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:60119513 original size:17 final size:17
Alignment explanation
Indices: 60119491--60119588 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
60119481 TTTGGATCAC
60119491 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
60119508 TACATAAGTTTTTGAATCAC
1 TACATAA--TTAAAAAT-AT
*
60119528 TACATGATTAAAAATAT
1 TACATAATTAAAAATAT
** *
60119545 TACATAAGTCTTGAAATCAC
1 TACATAA-T-TAAAAAT-AT
*
60119565 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
*
60119582 TATATAA
1 TACATAA
60119589 GTCTTGAAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 21 0.37
18 10 0.18
19 11 0.19
20 15 0.26
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:60123832 original size:6 final size:6
Alignment explanation
Indices: 60123809--60123847 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
60123799 TAAGTGTGTG
** *
60123809 AGTGAA AGTTTA AGTGAA ACTGAA AGTGAA AGTGAA AGT
1 AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGT
60123848 AGGGAGGGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.28, T:0.23
Consensus pattern (6 bp):
AGTGAA
Found at i:60126719 original size:9 final size:9
Alignment explanation
Indices: 60126705--60126750 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
60126695 TGAGTTTTCG
60126705 AATTCGAAT
1 AATTCGAAT
60126714 AATTCGAAT
1 AATTCGAAT
*
60126723 AACTCGAAT
1 AATTCGAAT
60126732 AATTCGAAT
1 AATTCGAAT
*
60126741 AATTCAAAT
1 AATTCGAAT
60126750 A
1 A
60126751 TCAAACTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:60129582 original size:26 final size:27
Alignment explanation
Indices: 60129545--60129602 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
60129535 AAATATGTTA
* *
60129545 TAAAAAGAAAAG-AGA-AAACCTAATC
1 TAAAAAGAAAAGAAAAGAAACCTAACC
60129570 TAAAAATGAAAAGAAAAGAAACCTAACC
1 TAAAAA-GAAAAGAAAAGAAACCTAACC
60129598 TAAAA
1 TAAAA
60129603 CTATAAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 6 0.21
27 2 0.07
28 14 0.50
ACGTcount: A:0.66, C:0.12, G:0.10, T:0.12
Consensus pattern (27 bp):
TAAAAAGAAAAGAAAAGAAACCTAACC
Found at i:60131118 original size:22 final size:23
Alignment explanation
Indices: 60131093--60131148 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
60131083 TAATTATAAC
60131093 TTAAAAAATATACATA-TATTA-A
1 TTAAAAAATA-ACATAGTATTATA
* *
60131115 TTAAAAATTAACCTAGTATTATA
1 TTAAAAAATAACATAGTATTATA
*
60131138 TTAGAAAATAA
1 TTAAAAAATAA
60131149 AGCAAATCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.14
22 14 0.50
23 10 0.36
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (23 bp):
TTAAAAAATAACATAGTATTATA
Found at i:60131210 original size:19 final size:18
Alignment explanation
Indices: 60131170--60131213 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
60131160 GTTTAATTTA
60131170 ATAA-TAATTAAATTTTT
1 ATAATTAATTAAATTTTT
*
60131187 ATAATTAATTAAGTTTTT
1 ATAATTAATTAAATTTTT
60131205 ATTAATTAA
1 A-TAATTAA
60131214 AAACGATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 13 0.54
19 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATAATTAATTAAATTTTT
Found at i:60134303 original size:12 final size:12
Alignment explanation
Indices: 60134286--60134312 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60134276 AATAAATCAT
60134286 ATATGTATATTA
1 ATATGTATATTA
60134298 ATATGTATATTA
1 ATATGTATATTA
60134310 ATA
1 ATA
60134313 GAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATGTATATTA
Found at i:60134678 original size:21 final size:21
Alignment explanation
Indices: 60134630--60134685 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
60134620 CACCATTGTT
*
60134630 TCTAATCTCACAGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
* *
60134651 TCCAATCTCACCGCTATAGTAA
1 TCTAATCTCACCGCTACAGT-A
60134673 T-TAATCTCACCGC
1 TCTAATCTCACCGC
60134686 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:60148499 original size:25 final size:28
Alignment explanation
Indices: 60148443--60148503 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
60148433 GCAGAGGAAT
*
60148443 AAAGAACCAGCAGAGGGCAGAGATGAGGGC
1 AAAGAACCAGCAGAGAGCA-AGATGA-GGC
60148473 AAAGAACCAGCAGAGAGC-AGA-GA-GC
1 AAAGAACCAGCAGAGAGCAAGATGAGGC
60148498 AAAGAA
1 AAAGAA
60148504 GGGCGTTCGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.27
27 2 0.07
28 3 0.10
30 17 0.57
ACGTcount: A:0.48, C:0.16, G:0.34, T:0.02
Consensus pattern (28 bp):
AAAGAACCAGCAGAGAGCAAGATGAGGC
Found at i:60149038 original size:17 final size:17
Alignment explanation
Indices: 60149018--60149056 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
60149008 TTTTTATTTA
60149018 TTTTTA-TTTTAAAATAT
1 TTTTTATTTTTAAAAT-T
60149035 TTTTTATTTTTAAAATT
1 TTTTTATTTTTAAAATT
60149052 TTTTT
1 TTTTT
60149057 TGGTGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTATTTTTAAAATT
Found at i:60149054 original size:27 final size:27
Alignment explanation
Indices: 60149001--60149053 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
60148991 AATTTAATAA
***
60149001 AAAATATTTTTTATTTATTTTTATTTT
1 AAAATATTTTTTATTTATTAAAATTTT
60149028 AAAATATTTTTTATTT-TTAAAATTTT
1 AAAATATTTTTTATTTATTAAAATTTT
60149054 TTTTGGTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
AAAATATTTTTTATTTATTAAAATTTT
Found at i:60149057 original size:18 final size:17
Alignment explanation
Indices: 60149013--60149057 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
60149003 AATATTTTTT
60149013 ATTTATTTTTATTTTAAA
1 ATTT-TTTTTATTTTAAA
*
60149031 ATATTTTTTATTTTTAAA
1 ATTTTTTTTA-TTTTAAA
60149049 ATTTTTTTT
1 ATTTTTTTT
60149058 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTTTATTTTAAA
Found at i:60154000 original size:30 final size:30
Alignment explanation
Indices: 60153957--60154014 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
60153947 GGAATTATTT
60153957 ATTATGTTATATCAATTA-ATTATTCATATA
1 ATTATGTTATATCAATTATATT-TTCATATA
*
60153987 ATTAT-TTATTATCACTTATATTTTCATA
1 ATTATGTTA-TATCAATTATATTTTCATA
60154015 AATAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 19 0.76
31 3 0.12
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTATGTTATATCAATTATATTTTCATATA
Found at i:60154414 original size:30 final size:30
Alignment explanation
Indices: 60154378--60154436 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
60154368 CAACCGAGCA
60154378 CCAACTTGGTTAGAAAAATTACAAAAATAT
1 CCAACTTGGTTAGAAAAATTACAAAAATAT
* *
60154408 CCAACTTGGTTAGAGAAATTAGAAAAATA
1 CCAACTTGGTTAGAAAAATTACAAAAATA
60154437 ACCTTCAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (30 bp):
CCAACTTGGTTAGAAAAATTACAAAAATAT
Found at i:60155463 original size:32 final size:32
Alignment explanation
Indices: 60155422--60155485 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
60155412 ACCCAAAACC
60155422 TAGGCCTAAATTTTTTTTAAACTTGCCCATAT
1 TAGGCCTAAATTTTTTTTAAACTTGCCCATAT
60155454 TAGGCCTAAATTTTTTTTAAACTTGCCCATAT
1 TAGGCCTAAATTTTTTTTAAACTTGCCCATAT
60155486 ATGTGAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (32 bp):
TAGGCCTAAATTTTTTTTAAACTTGCCCATAT
Found at i:60155567 original size:34 final size:36
Alignment explanation
Indices: 60155524--60155602 Score: 108
Period size: 34 Copynumber: 2.2 Consensus size: 36
60155514 AAGTCCACTC
* * *
60155524 ATATTATTTTAATTTTTTATAA-AATATTTATAT-T
1 ATATTATTTTAATATTTAATAATAATATATATATAT
*
60155558 ATATTATTTTAATATTTAATAATTATATATATATAT
1 ATATTATTTTAATATTTAATAATAATATATATATAT
60155594 ATATTATTT
1 ATATTATTT
60155603 ATTTAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 20 0.51
35 9 0.23
36 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (36 bp):
ATATTATTTTAATATTTAATAATAATATATATATAT
Found at i:60155606 original size:32 final size:30
Alignment explanation
Indices: 60155546--60155620 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
60155536 TTTTTTATAA
* *
60155546 AATATTTATAT-TATATTATTTTAATATTT
1 AATAATTATATATATATTATATTAATATTT
*
60155575 AATAATTATATATATATATATATTATTTATTT
1 AATAATTATATATATAT-TATATTA-ATATTT
*
60155607 AA-AATT-TTTATATA
1 AATAATTATATATATA
60155621 ATCATCTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 10 0.26
30 12 0.31
31 10 0.26
32 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
AATAATTATATATATATTATATTAATATTT
Found at i:60162761 original size:18 final size:18
Alignment explanation
Indices: 60162738--60162773 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
60162728 TCTGGGAGTT
60162738 ATCCGCTTCGATACGCAA
1 ATCCGCTTCGATACGCAA
60162756 ATCCGCTTCGATACGCAA
1 ATCCGCTTCGATACGCAA
60162774 GAAAAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (18 bp):
ATCCGCTTCGATACGCAA
Found at i:60166588 original size:19 final size:19
Alignment explanation
Indices: 60166550--60166588 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
60166540 AAATACTTTA
*
60166550 AAAATATTTTTTTATTTTT
1 AAAATATTTTTTTATGTTT
*
60166569 AAAATATTTTTTTGTGTTT
1 AAAATATTTTTTTATGTTT
60166588 A
1 A
60166589 TTAAAAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
AAAATATTTTTTTATGTTT
Found at i:60173099 original size:15 final size:16
Alignment explanation
Indices: 60173071--60173100 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60173061 AAATTATGAT
60173071 AATTATACATTTAAAA
1 AATTATACATTTAAAA
60173087 AATTATA-ATTTAAA
1 AATTATACATTTAAA
60173101 GAAGTTGCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTATACATTTAAAA
Found at i:60180412 original size:25 final size:25
Alignment explanation
Indices: 60180383--60180442 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
60180373 AGTTTGGGAA
*
60180383 GTGCGCTGGTTTAGGCGTTAGGATG
1 GTGCGATGGTTTAGGCGTTAGGATG
60180408 GTGCGATGGTTTAGGCGTTAGGATG
1 GTGCGATGGTTTAGGCGTTAGGATG
60180433 GTGCGATGGT
1 GTGCGATGGT
60180443 GTTGCACAGT
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:0.13, C:0.10, G:0.45, T:0.32
Consensus pattern (25 bp):
GTGCGATGGTTTAGGCGTTAGGATG
Found at i:60181760 original size:18 final size:16
Alignment explanation
Indices: 60181744--60181774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60181734 CTTTAATTAA
60181744 ATTATTTAAAATAATT
1 ATTATTTAAAATAATT
*
60181760 ATTTTTTAAAATAAT
1 ATTATTTAAAATAAT
60181775 AAACAAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTTAAAATAATT
Found at i:60183134 original size:126 final size:126
Alignment explanation
Indices: 60182905--60183199 Score: 457
Period size: 126 Copynumber: 2.3 Consensus size: 126
60182895 TTTAAAGAAG
* * *
60182905 CTCCCACGTGGATGCGCTTTTGCTACAGTGGCTCCTGAGAAAATAATTTTGAGTAGATGTTTCTG
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGATGTTTCTG
* **
60182970 AGCAAACAGTGTTAAAAACGCTTTAAGCAGGATACTTTGTCAGTAGAAGTACTGAAAAAAC
66 AGCAAACAGTGTCAAAAACGCTTTAAGCAGGATACTTTGTCACCAGAAGTACTGAAAAAAC
* * *
60183031 CTTCCACGTGGACGCACTTTTGCTACAGTAACTCCTGAAAAAATAATTTTGAGTAGACT-TTTCT
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGA-TGTTTCT
* * *
60183095 GAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCACCAGAAGTACTGAAAGAAG
65 GAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATACTTTGTCACCAGAAGTACTGAAAAAAC
*
60183157 CTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAA
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAA
60183200 GCTCCCACGT
Statistics
Matches: 152, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
126 151 0.99
127 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (126 bp):
CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGATGTTTCTG
AGCAAACAGTGTCAAAAACGCTTTAAGCAGGATACTTTGTCACCAGAAGTACTGAAAAAAC
Found at i:60188710 original size:11 final size:10
Alignment explanation
Indices: 60188694--60188802 Score: 73
Period size: 11 Copynumber: 10.5 Consensus size: 10
60188684 ATTTTAAATA
*
60188694 AGAATTTGAG
1 AGAAATTGAG
*
60188704 AGAAATTTGAA
1 AGAAA-TTGAG
60188715 AGGAAATTGAG
1 A-GAAATTGAG
60188726 AGCAAATTGAG
1 AG-AAATTGAG
*
60188737 ATTAAA-T-AG
1 A-GAAATTGAG
* *
60188746 -GGATTTGAG
1 AGAAATTGAG
60188755 AGAAAATTGAG
1 AG-AAATTGAG
60188766 AGCAAATTGAG
1 AG-AAATTGAG
60188777 AAGAAATTGAG
1 -AGAAATTGAG
60188788 AGGAAATT-AG
1 A-GAAATTGAG
60188798 AGAAA
1 AGAAA
60188803 GGATTTATTT
Statistics
Matches: 79, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 8 0.10
10 11 0.14
11 52 0.66
12 6 0.08
ACGTcount: A:0.49, C:0.02, G:0.28, T:0.22
Consensus pattern (10 bp):
AGAAATTGAG
Found at i:60188752 original size:51 final size:51
Alignment explanation
Indices: 60188687--60188788 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
60188677 TAAAGCAATT
* *
60188687 TTAAATAAGAATTTGAGAGAAATTTGAAAGGAAATTGAG-AGCAAATTGAGA
1 TTAAATAAGAATTTGAGAGAAAATTGAAAGCAAATTGAGAAG-AAATTGAGA
* * *
60188738 TTAAATAGGGATTTGAGAGAAAATTGAGAGCAAATTGAGAAGAAATTGAGA
1 TTAAATAAGAATTTGAGAGAAAATTGAAAGCAAATTGAGAAGAAATTGAGA
60188789 GGAAATTAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 43 0.96
52 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.25, T:0.25
Consensus pattern (51 bp):
TTAAATAAGAATTTGAGAGAAAATTGAAAGCAAATTGAGAAGAAATTGAGA
Found at i:60191985 original size:31 final size:32
Alignment explanation
Indices: 60191921--60191985 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
60191911 GGATTTTAAT
* *
60191921 TTGACCAATTTTAGTTCCTGTACTTTTTTGAA
1 TTGACCAATTTTAGTTCCTGTAATTTTTCGAA
*
60191953 TTGATCAATTTTAGTT-CT-TAAATTTTTCGAA
1 TTGACCAATTTTAGTTCCTGT-AATTTTTCGAA
60191984 TT
1 TT
60191986 TTGAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 1 0.03
31 13 0.45
32 15 0.52
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (32 bp):
TTGACCAATTTTAGTTCCTGTAATTTTTCGAA
Found at i:60192860 original size:18 final size:18
Alignment explanation
Indices: 60192822--60192863 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
60192812 AACGATTAGT
**
60192822 AGTTCGTCGTCGTGTCAG
1 AGTTCGTCGTCGCCTCAG
*
60192840 AGTTCGTCGTCGCCTCGG
1 AGTTCGTCGTCGCCTCAG
60192858 AGTTCG
1 AGTTCG
60192864 CCGTATGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (18 bp):
AGTTCGTCGTCGCCTCAG
Found at i:60198459 original size:29 final size:30
Alignment explanation
Indices: 60198376--60198461 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 30
60198366 TATTAAATCA
60198376 AAATTAAAGTTTCAAGTATA-AATTTGAACC
1 AAATTAAAGTTTCAAGTATATAA-TTGAACC
* * * * *
60198406 ATAATCAGAGTTTCACGTGTATAATTGTACC
1 A-AATTAAAGTTTCAAGTATATAATTGAACC
*
60198437 AAATTAAAG-TTCATGTATATAATTG
1 AAATTAAAGTTTCAAGTATATAATTG
60198462 CACATCAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
29 14 0.31
30 7 0.16
31 22 0.49
32 2 0.04
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:60200619 original size:21 final size:23
Alignment explanation
Indices: 60200595--60200654 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 23
60200585 CAAATTATCA
*
60200595 TATTTAAAAATTTA-AT-ATTTT
1 TATTTAAAAATTGATATGATTTT
60200616 TA-TTAAAAA-TGATATGATTTT
1 TATTTAAAAATTGATATGATTTT
60200637 T-TTTAAAAATT-A-ATGATT
1 TATTTAAAAATTGATATGATT
60200655 AAATTCGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
19 2 0.06
20 15 0.44
21 16 0.47
22 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (23 bp):
TATTTAAAAATTGATATGATTTT
Found at i:60200623 original size:20 final size:22
Alignment explanation
Indices: 60200598--60200654 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 22
60200588 ATTATCATAT
*
60200598 TTAAAAATTTA-AT-ATTTTTA
1 TTAAAAATTGATATGATTTTTA
*
60200618 TTAAAAA-TGATATGATTTTTT
1 TTAAAAATTGATATGATTTTTA
60200639 TTAAAAATT-A-ATGATT
1 TTAAAAATTGATATGATT
60200655 AAATTCGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 2 0.06
20 15 0.47
21 14 0.44
22 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
TTAAAAATTGATATGATTTTTA
Found at i:60201292 original size:14 final size:14
Alignment explanation
Indices: 60201273--60201303 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
60201263 TGGTGTTCAA
60201273 GTTTAAGATTTTGG
1 GTTTAAGATTTTGG
*
60201287 GTTTAAGGTTTTGG
1 GTTTAAGATTTTGG
60201301 GTT
1 GTT
60201304 CATGGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (14 bp):
GTTTAAGATTTTGG
Found at i:60202183 original size:24 final size:25
Alignment explanation
Indices: 60202132--60202189 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
60202122 AATAGTAAAT
* *
60202132 TATTTTTTATTAGAAATTTCATCAA
1 TATTTATTATTAGAAATTTAATCAA
*
60202157 TATTTATTATTA-AAATTTAATCTA
1 TATTTATTATTAGAAATTTAATCAA
*
60202181 TATATATTA
1 TATTTATTA
60202190 GAATGAGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTTATTATTAGAAATTTAATCAA
Found at i:60209984 original size:216 final size:216
Alignment explanation
Indices: 60208861--60209947 Score: 1372
Period size: 216 Copynumber: 5.0 Consensus size: 216
60208851 ACTGCTAAGT
** * * * * * *
60208861 CCATCTTAGGTTCCATATTCAAAGTAATAC-CTTCAATTTTACCAATTCTCTCACCATTTTCCCC
1 CCATCTTAGACTCCGTATTCAAAATAGTACAC-TCAATTTTACCAATCCCCTCACCATTTTCCTC
* * * * * * *
60208925 GGCACCA-CTATTTTCTTCCTCCTCCAGCTTCACACTGTGAGGAACTTCGCTTTTGGAACT-AAG
65 AGCACCAGC-ATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGA-
* * * * * * * *
60208988 CTCTAAAGAAGCTAATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAG
128 CTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAG
**
60209053 CCTTTTCTAAATCAGGAACTAAAG
193 CCTTTTCTGTATCAGGAACTAAAG
* * * * ** *
60209077 CCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACCAATCCTTTCACCTTTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATCCCCTCACCATTTTCCTCA
* ** * * * *
60209142 GCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTGGAACCGGACTC
66 GCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
** *
60209207 AAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGAGAAGCCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
*
60209272 TTTCTGTATCAGCAACTAAAG
196 TTTCTGTATCAGGAACTAAAG
* * *
60209293 CTATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTGCCAATTCCCTCACC-TTCTTCCTC
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATCCCCTCACCATT-TTCCTC
* * * * *
60209357 AGCACCAGTATTTTCTTCCTTTTCCAACTTAACACTCTGGGGAACTTTACTTTTGGAACTGGACC
65 AGCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACT
*
60209422 CTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCC
130 CTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCC
60209487 TTTTCTGTATCAGGAACTAAAG
195 TTTTCTGTATCAGGAACTAAAG
* * *
60209509 CCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATCCCCTCACCATTTTCCTCA
* * *
60209574 GCACCCGCATTTTCATCCTCTTCCAACTTAACACCGTGGGGAACTTCACTTTTGGAACTGGACTC
66 GCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * * *
60209639 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGCGAAGCCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
*
60209704 TTTCTGTATCAAGAACTAAAG
196 TTTCTGTATCAGGAACTAAAG
* * *
60209725 CAATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAAACCCCTCACCATTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATCCCCTCACCATTTTCCTCA
* * *** **
60209790 GCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTCCAAACCAGACTC
66 GCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * * * * *
60209855 TGAAGGAGCCAATTCAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
* * *
60209920 TTTCTATATCAGGAGCTAAAT
196 TTTCTGTATCAGGAACTAAAG
60209941 CCATCTT
1 CCATCTT
60209948 TGATACCATA
Statistics
Matches: 763, Mismatches: 103, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
215 2 0.00
216 757 0.99
217 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (216 bp):
CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATCCCCTCACCATTTTCCTCA
GCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
TTTCTGTATCAGGAACTAAAG
Found at i:60210036 original size:432 final size:429
Alignment explanation
Indices: 60209001--60210053 Score: 1228
Period size: 432 Copynumber: 2.4 Consensus size: 429
60208991 TAAAGAAGCT
* * * ** * * * *
60209001 AATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGCCTTTTCTAAATC
1 AATTCAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATC
* ** *
60209066 AGGAACTAAAGCCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACCAA-TCCTTTCA
66 AGGAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATTTTACCAATTCC--TCA
** ** ** * * * *
60209130 CCTTTTTCCTCAGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTT
129 CCTACTTCCTCAGCACCCGCATTTTCATCCTCGT-CAACTTAACAC-CTGGGGAACTTCACTTTT
* * *
60209195 GGAACCGGACTCAAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTG
192 GGAACCGGACTCAAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTG
* *
60209260 GAGGAGAAGCCTTTTCTGTATCAGCAACTAAAGCTATCTTAGACTCCGTATTCAAAATAGTACAC
257 GAAGAGAAGCCTTTTCTGTATCAGCAACTAAAGCAATCTTAGACTCCGTATTCAAAATAGTACAC
* ** *
60209325 TCAATTTTGCCAATTCCCTCACCTTCTTCCTCAGCACCAGTATTTTCTTCCTTTTCCAACTTAAC
322 TCAATTTTACCAAACCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTTTTCCAACTTAAC
* *** ** *
60209390 ACTCTGGGGAACTTTACTTTTGGAACTGGACCCTGAAGGAGCT
387 ACTCTGGGGAACTTCACTTTCCAAACCAGACCCTGAAGGAGCC
* * * *
60209433 AATTCAGTTGTAATTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATC
1 AATTCAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATC
** *
60209498 AGGAACTAAAGCCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCAC
66 AGGAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATTTTACCAATT-CCTCAC
** *
60209563 CTTTTTCCTCAGCACCCGCATTTTCATCCTCTTCCAACTTAACACCGTGGGGAACTTCACTTTTG
130 CTACTTCCTCAGCACCCGCATTTTCATCCTCGT-CAACTTAACACC-TGGGGAACTTCACTTTTG
* **
60209628 GAACTGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGG
193 GAACCGGACTCAAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGG
* *
60209693 AAGCGAAGCCTTTTCTGTATCAAG-AACTAAAGCAATCTTAGACTCTGTATTCAAAATAGTACAC
258 AAGAGAAGCCTTTTCTGTATC-AGCAACTAAAGCAATCTTAGACTCCGTATTCAAAATAGTACAC
*
60209757 TCAATTTTACCAAACCCCTCACCATT-TTCCTCAGCACCAGCGTTTTCTT-CTTCTTCCAACTTA
322 TCAATTTTACCAAACCCCTCACC-TTCTTCCTCAGCACCAGCATTTTCTTCCTT-TTCCAACTTA
* *
60209820 ACACTGTGGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCC
385 ACACTCTGGGGAACTTCACTTTCCAAACCAGACCCTGAAGGAGCC
* * *
60209865 AATTCAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCTTTTCTATATC
1 AATTCAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATC
* * * * * *
60209930 AGGAGCTAAATCCATCTTTGA-TACCATATTCAGAGCAGTATC-CTCAGTTTTACCATCATT-CT
66 AGGAACTAAAGCCATCTTAGACT-CCATATTCAAAACAGTA-CACTCAATTTTACCA--ATTCCT
** *
60209992 CACC-ACTTCCTTCAGAACCACCCTTATTTGTC-TCCT-GT-AACTTAACACCATGGGGCACTTC
127 CACCTACTTCC-TCAG---CACCCGCATTT-TCATCCTCGTCAACTTAACACC-TGGGGAACTTC
60210053 A
186 A
60210054 ACTTCGGAAC
Statistics
Matches: 538, Mismatches: 68, Indels: 30
0.85 0.11 0.05
Matches are distributed among these distances:
431 9 0.02
432 502 0.93
433 6 0.01
434 6 0.01
435 13 0.02
436 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (429 bp):
AATTCAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATC
AGGAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATTTTACCAATTCCTCACC
TACTTCCTCAGCACCCGCATTTTCATCCTCGTCAACTTAACACCTGGGGAACTTCACTTTTGGAA
CCGGACTCAAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAG
AGAAGCCTTTTCTGTATCAGCAACTAAAGCAATCTTAGACTCCGTATTCAAAATAGTACACTCAA
TTTTACCAAACCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTTTTCCAACTTAACACTC
TGGGGAACTTCACTTTCCAAACCAGACCCTGAAGGAGCC
Found at i:60210100 original size:648 final size:646
Alignment explanation
Indices: 60208876--60210105 Score: 1433
Period size: 648 Copynumber: 1.9 Consensus size: 646
60208866 TTAGGTTCCA
* * * * *
60208876 TATTCAAAGTAATACCTTCAATTTTACCAATTCTCTCACCATTTTCCCCGGCACCACTATTTTCT
1 TATTCAAAATAATACCTTCAATTTTACCAATTCCCTCACCATTTTCCCCAGCACCACCATTTTCA
* * * *
60208941 TCCTCCTCCAGCTTCACACTGTGAGGAACTTCGCTTTTGGAACTAAGCTCTAAAGAAGCTAATTC
66 TCCTCCTCCAACTTAACACCGTGAGGAACTTCACTTTTGGAACTAAGCTCTAAAGAAGCTAATTC
* * * * * *
60209006 AGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGCCTTTTCTAAATCAGGAA
131 AGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAATGGAAGAGAAGCCTTTTCTAAATCAAGAA
* * * * ** *
60209071 CTAAAGCCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACCAATCCTTTCACCTTTT
196 CTAAAGCAATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTACCAAACCCCTCACCATTT
* * * ***
60209136 TCCTCAGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTGGAACC
261 TCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAACTTCACTTTCCAAACC
* * * * *
60209201 GGACTCAAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGAG
326 AGACTCAAAAGGAGCCAATTCAGTTGTAATTTCACTTCCAATAGCAGAAGCTCCCAGTGGAGGAG
* * * * *
60209266 AAGCCTTTTCTGTATCAGCAACTAAAGCTATCTTAGACTCCGTATTCAAAATAGTACACTCAATT
391 AAACCTTTTCTATATCAGCAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATT
* * *
60209331 TTGCCAATTCCCTCACCTTCTTCCTCAGCACCAGTATTTTCTTCCTTTTCCAACTTAACACTCTG
456 TTACCAATT-CCTCACCTACTTCCTCAGCACCAGTATTTTCTTCCTTGT-CAACTTAACACTCTG
* * *** * * * *
60209396 GGGAACTTTACTTTTGGAACTGGACCCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAG
519 GGGAACTTAACTTTCGGAACCCAACCCTGAAGAACCTAATACAGTAGTAATTTCACTTTCAATAG
60209461 CAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAGCCATCTTAGACTCTG
584 CAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAGCCATCTTAGACTCTG
* * *
60209524 TATTCAAAATAGTACAC-TCAATTTTACCAATTCCCTCACCTTTTTCCTCAGCACC-CGCATTTT
1 TATTCAAAATAATAC-CTTCAATTTTACCAATTCCCTCACCATTTTCCCCAGCACCAC-CATTTT
* * * * *
60209587 CATCCTCTTCCAACTTAACACCGTGGGGAACTTCACTTTTGGAACT-GGACTCTGAAGGAGCTAA
64 CATCCTCCTCCAACTTAACACCGTGAGGAACTTCACTTTTGGAACTAAG-CTCTAAAGAAGCTAA
* * * **
60209651 TTCAGTTGTAATTTCACTTTCAATAGCAGAAACTT-CAAGTGGAAGCGAAGCCTTTTCTGTATCA
128 TTCAGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAA-TGGAAGAGAAGCCTTTTCTAAATCA
** *
60209715 AGAACTAAAGCAATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAAACCCCTCACC
192 AGAACTAAAGCAATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTACCAAACCCCTCACC
* * *
60209780 ATTTTCCTCAGCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTCCA
257 ATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAACTTCACTTTCCA
** * *
60209845 AACCAGACTCTGAAGGAGCCAATTCAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGG
322 AACCAGACTCAAAAGGAGCCAATTCAGTTGTAATTTCACTTCCAATAGCAGAAGCTCCCAGTGGA
* * * * * *
60209910 GGAGAAACCTTTTCTATATCAGGAGCTAAATCCATCTTTGA-TACCATATTCAGAGCAGTATC-C
387 GGAGAAACCTTTTCTATATCAGCAACTAAAGCCATCTTAGACT-CCATATTCAAAACAGTA-CAC
* **
60209973 TCAGTTTTACCATCATT-CTCACC-ACTTCCTTCAGAACCACCCTTATTTGTC-TCC-TGT-AAC
450 TCAATTTTACCA--ATTCCTCACCTACTTCC-TCAG---CACCAGTATTT-TCTTCCTTGTCAAC
* * * * *
60210033 TTAACAC-CATGGGGCACTTCAAC-TTCGGAACCCAACTCTGGAGAACCTAATAGAGTAGTAGTT
508 TTAACACTC-TGGGGAACTT-AACTTTCGGAACCCAACCCTGAAGAACCTAATACAGTAGTAATT
60210096 TCACTTTCAA
571 TCACTTTCAA
60210106 CAACAGAAGC
Statistics
Matches: 480, Mismatches: 87, Indels: 30
0.80 0.15 0.05
Matches are distributed among these distances:
647 12 0.03
648 445 0.93
649 4 0.01
650 5 0.01
651 12 0.03
652 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (646 bp):
TATTCAAAATAATACCTTCAATTTTACCAATTCCCTCACCATTTTCCCCAGCACCACCATTTTCA
TCCTCCTCCAACTTAACACCGTGAGGAACTTCACTTTTGGAACTAAGCTCTAAAGAAGCTAATTC
AGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAATGGAAGAGAAGCCTTTTCTAAATCAAGAA
CTAAAGCAATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTACCAAACCCCTCACCATTT
TCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAACTTCACTTTCCAAACC
AGACTCAAAAGGAGCCAATTCAGTTGTAATTTCACTTCCAATAGCAGAAGCTCCCAGTGGAGGAG
AAACCTTTTCTATATCAGCAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATT
TTACCAATTCCTCACCTACTTCCTCAGCACCAGTATTTTCTTCCTTGTCAACTTAACACTCTGGG
GAACTTAACTTTCGGAACCCAACCCTGAAGAACCTAATACAGTAGTAATTTCACTTTCAATAGCA
AAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAGCCATCTTAGACTCTG
Found at i:60211888 original size:27 final size:27
Alignment explanation
Indices: 60211858--60211924 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
60211848 CGCCAATGGG
60211858 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* **
60211885 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
60211912 ATTGGCGGCACCA
1 ATTGGCGGCACCA
60211925 GTTAATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.28, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:60215407 original size:159 final size:154
Alignment explanation
Indices: 60214963--60215414 Score: 385
Period size: 159 Copynumber: 2.8 Consensus size: 154
60214953 CACACTAAAT
* * * *
60214963 TAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAAGACTAAGTTTATGATATT
1 TAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATA-GAA-ATTATGATATT
*
60215028 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTA-TTACT
64 TTTTAAAGTAATAAAATGC-GAGAAAAAAATACGAACAAATGGCAGAAGTAAGA-TTTATTTACT
*** * *
60215092 AACTTTTATAAAATTCAGAAATAATTAA
127 AACTCAAATAAAATTCAAAAACAATTAA
* * * * * ** *
60215120 TACAAAATATTTCAAAGAAAATGTACTGAAATAATATAAAACAATAAAATACGATAATAAT-ATA
1 TA-ATAA-ATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATA-GA-AATTATGAT-
* * ** **
60215184 ATTTTATTTAAAGTAATAAAAAT-CGAGAAAATAATACGAGCAAA-GGACAGGGGTAAGGGTTAT
61 A-TTT-TTTAAAGTAAT-AAAATGCGAGAAAAAAATACGAACAAATGG-CAGAAGTAAGATTTAT
** * * *
60215247 TTTTTACAC-CAAAT-TAATTTAAACAACACTCTAGA
122 TTACTA-ACTCAAATAAAATTCAAA-AACAAT-TA-A
* *
60215282 GTAATAAATTTCAAACATTATGCATTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
1 -TAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAA-TAGAAATTATGATATT
* *
60215347 TTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAATAAATGGCCGAAGTAAGATTTATTTACTA
64 TTTTAAAGTAATAAAATGCG-AGAAAAAAATACGAACAAATGGCAGAAGTAAGATTTATTTACTA
60215412 ACT
128 ACT
60215415 TTTTTTTCAA
Statistics
Matches: 226, Mismatches: 49, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
157 7 0.03
158 20 0.09
159 85 0.38
160 48 0.21
161 53 0.23
162 11 0.05
163 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (154 bp):
TAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATAGAAATTATGATATTTT
TTAAAGTAATAAAATGCGAGAAAAAAATACGAACAAATGGCAGAAGTAAGATTTATTTACTAACT
CAAATAAAATTCAAAAACAATTAA
Found at i:60217539 original size:25 final size:24
Alignment explanation
Indices: 60217486--60217547 Score: 106
Period size: 24 Copynumber: 2.5 Consensus size: 24
60217476 GGTTTTTTTG
*
60217486 TATATTTTGGTAATAAAAAATTTA
1 TATATTTTGGTAATAAAAAAGTTA
60217510 TATATTTTGGTAATAAAAAAGTTA
1 TATATTTTGGTAATAAAAAAGTTA
60217534 TAATATTTTGGTAA
1 T-ATATTTTGGTAA
60217548 ATTTTTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 24 0.67
25 12 0.33
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (24 bp):
TATATTTTGGTAATAAAAAAGTTA
Found at i:60222565 original size:27 final size:30
Alignment explanation
Indices: 60222526--60222582 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
60222516 AAATAAGGTG
*
60222526 AATATCGATATTGAATTAAA-TGAATTAAA
1 AATATCGATATTGAATAAAAGTGAATTAAA
60222555 AATAT-GA-ATTGAATAAAAGTGAATTAAA
1 AATATCGATATTGAATAAAAGTGAATTAAA
60222583 TTCTGATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.38
28 11 0.42
29 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (30 bp):
AATATCGATATTGAATAAAAGTGAATTAAA
Found at i:60223939 original size:17 final size:17
Alignment explanation
Indices: 60223917--60223967 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
60223907 ACGTGGCATG
*
60223917 TACCTAAATAATGTATA
1 TACCTAAGTAATGTATA
60223934 TACCTAAGTAATGTATA
1 TACCTAAGTAATGTATA
*
60223951 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
60223968 GGGATTAGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:60225981 original size:15 final size:15
Alignment explanation
Indices: 60225956--60226002 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
60225946 TTGAAATATA
60225956 AAAAATATAAAAACT
1 AAAAATATAAAAACT
* * *
60225971 -AAAATTTTAAAAGT
1 AAAAATATAAAAACT
60225985 AAAAATATAAAAACT
1 AAAAATATAAAAACT
60226000 AAA
1 AAA
60226003 TCCCTAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAAATATAAAAACT
Found at i:60225982 original size:14 final size:14
Alignment explanation
Indices: 60225957--60226002 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
60225947 TGAAATATAA
60225957 AAAATATAAAAACT
1 AAAATATAAAAACT
* * *
60225971 AAAATTTTAAAAGT
1 AAAATATAAAAACT
60225985 AAAAATATAAAAACT
1 -AAAATATAAAAACT
60226000 AAA
1 AAA
60226003 TCCCTAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (14 bp):
AAAATATAAAAACT
Found at i:60226546 original size:21 final size:22
Alignment explanation
Indices: 60226500--60226547 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
60226490 GTGAATTATT
*
60226500 ATTATAATTATAATTAATGAAT
1 ATTATAATTATAATTAATGAAA
*
60226522 ATTA-AATTATATTTAAAT-AAA
1 ATTATAATTATAATT-AATGAAA
60226543 ATTAT
1 ATTAT
60226548 TAATATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTATAATTATAATTAATGAAA
Found at i:60226758 original size:14 final size:14
Alignment explanation
Indices: 60226741--60226793 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
60226731 CATAACATAT
60226741 AATATATAAATTAC
1 AATATATAAATTAC
** *
60226755 AATATATTCATTAT
1 AATATATAAATTAC
60226769 AAT-TATAAATTAC
1 AATATATAAATTAC
60226782 AATATATTAAAT
1 AATATA-TAAAT
60226794 ACATATAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 10 0.32
14 16 0.52
15 5 0.16
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
AATATATAAATTAC
Found at i:60236400 original size:21 final size:21
Alignment explanation
Indices: 60236376--60236415 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
60236366 CAAAACAACG
*
60236376 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
60236397 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
60236416 TAAATAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:60236624 original size:121 final size:121
Alignment explanation
Indices: 60236400--60236763 Score: 658
Period size: 121 Copynumber: 3.0 Consensus size: 121
60236390 AACTTGATAG
*
60236400 TTTTGACTTTTAACTTTAAATAAGGTAAACATTTATCAAAA-AGACGTAGTTTTGTTTTTTCTTT
1 TTTTGACTTTTAACTTTAAATAAGGTAAACATTTATCAAAACA-ACGTAGTTTTGTCTTTTCTTT
* *
60236464 TTTGGATTTTCGAATAACTTGAACTAAGTGTGAGCGTTTGGTCGAATTGAGTAAAAT
65 TTTGGATTTTCGAATAACTCGAACTAAGTGTGAGCGTTTGGTCGAATTGAGTGAAAT
*
60236521 TTTTTACTTTTAACTTTAAATAAGGTAAACATTTATCAAAACAACGTAGTTTTGTCTTTTCTTTT
1 TTTTGACTTTTAACTTTAAATAAGGTAAACATTTATCAAAACAACGTAGTTTTGTCTTTTCTTTT
*
60236586 TTGGATTTTCGAATAACTCGAACTAAGTGTGAGTGTTTGGTCGAATTGAGTGAAAT
66 TTGGATTTTCGAATAACTCGAACTAAGTGTGAGCGTTTGGTCGAATTGAGTGAAAT
60236642 TTTTGACTTTTAACTTTAAATAAGGTAAACATTTATCAAAACAACGTAGTTTTGTCTTTTCTTTT
1 TTTTGACTTTTAACTTTAAATAAGGTAAACATTTATCAAAACAACGTAGTTTTGTCTTTTCTTTT
*
60236707 TTGGATTTTCGAATAACTCGAACTAAGTGTGAGCATTTGGTCGAATTGAGTGAAAT
66 TTGGATTTTCGAATAACTCGAACTAAGTGTGAGCGTTTGGTCGAATTGAGTGAAAT
60236763 T
1 T
60236764 GTTCGAGTTA
Statistics
Matches: 234, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
121 233 1.00
122 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (121 bp):
TTTTGACTTTTAACTTTAAATAAGGTAAACATTTATCAAAACAACGTAGTTTTGTCTTTTCTTTT
TTGGATTTTCGAATAACTCGAACTAAGTGTGAGCGTTTGGTCGAATTGAGTGAAAT
Found at i:60236970 original size:9 final size:9
Alignment explanation
Indices: 60236950--60236988 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
60236940 CAAAATTATT
60236950 ATTTTATAAA
1 ATTTT-TAAA
60236960 ATTTTTAAA
1 ATTTTTAAA
60236969 A-TTTTAAA
1 ATTTTTAAA
*
60236977 ATTTTAAAA
1 ATTTTTAAA
60236986 ATT
1 ATT
60236989 CAACTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 8 0.30
9 14 0.52
10 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:60236973 original size:8 final size:8
Alignment explanation
Indices: 60236956--60236985 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
60236946 TATTATTTTA
60236956 TAAAATTTT
1 TAAAA-TTT
60236965 TAAAATTT
1 TAAAATTT
60236973 TAAAATTT
1 TAAAATTT
60236981 TAAAA
1 TAAAA
60236986 ATTCAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TAAAATTT
Found at i:60236978 original size:17 final size:17
Alignment explanation
Indices: 60236956--60236988 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60236946 TATTATTTTA
*
60236956 TAAAATTTTTAAAATTT
1 TAAAATTTTAAAAATTT
60236973 TAAAATTTTAAAAATT
1 TAAAATTTTAAAAATT
60236989 CAACTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAAATTTTAAAAATTT
Found at i:60237063 original size:26 final size:27
Alignment explanation
Indices: 60237034--60237096 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
60237024 AAATATAATT
60237034 TTTTTTTAAAAATACAAATTTTT-AAA
1 TTTTTTTAAAAATACAAATTTTTGAAA
* * **
60237060 TTTTTATAAATATTTAAATTTTTGAAA
1 TTTTTTTAAAAATACAAATTTTTGAAA
* *
60237087 ATTATTTAAA
1 TTTTTTTAAA
60237097 TTTTTGTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTTTTTAAAAATACAAATTTTTGAAA
Found at i:60237070 original size:18 final size:18
Alignment explanation
Indices: 60237049--60237111 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
60237039 TTAAAAATAC
60237049 AAATTTTTAAATTTTTAT
1 AAATTTTTAAATTTTTAT
*
60237067 AAATATTTAAATTTTTGA-
1 AAATTTTTAAATTTTT-AT
*
60237085 AAATTATTTAAATTTTTGT
1 AAATT-TTTAAATTTTTAT
60237104 -AATTTTTA
1 AAATTTTTA
60237112 TTAAGAGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 23 0.59
19 12 0.31
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
AAATTTTTAAATTTTTAT
Found at i:60237092 original size:19 final size:20
Alignment explanation
Indices: 60237049--60237102 Score: 80
Period size: 18 Copynumber: 2.9 Consensus size: 20
60237039 TTAAAAATAC
60237049 AAATT-TTTAAATTTTT-AT
1 AAATTATTTAAATTTTTGAT
60237067 AAA-TATTTAAATTTTTGA-
1 AAATTATTTAAATTTTTGAT
60237085 AAATTATTTAAATTTTTG
1 AAATTATTTAAATTTTTG
60237103 TAATTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.03
18 17 0.52
19 15 0.45
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
AAATTATTTAAATTTTTGAT
Found at i:60243033 original size:7 final size:7
Alignment explanation
Indices: 60243023--60243048 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
60243013 ATCACATTTA
60243023 TCACTTG
1 TCACTTG
60243030 TCACTTG
1 TCACTTG
60243037 TCACTTG
1 TCACTTG
60243044 TCACT
1 TCACT
60243049 GATCAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.42
Consensus pattern (7 bp):
TCACTTG
Found at i:60243104 original size:51 final size:51
Alignment explanation
Indices: 60243024--60243193 Score: 297
Period size: 51 Copynumber: 3.4 Consensus size: 51
60243014 TCACATTTAT
* * *
60243024 CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTAC
60243075 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTAC
*
60243126 CACTTATCACTTGTCACTTGTCGCCGATCAGATAAGTGTAGCT-AAGCTAC
1 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTAC
60243176 CACTTATCACTTGTCACT
1 CACTTATCACTTGTCACT
60243194 GATAAGAAGT
Statistics
Matches: 115, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
50 25 0.22
51 90 0.78
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (51 bp):
CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:60248692 original size:21 final size:24
Alignment explanation
Indices: 60248666--60248724 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
60248656 GGGGATATGG
60248666 GTATCGGTACC-CA-A-CAGCCAA
1 GTATCGGTACCTCATAGCAGCCAA
* *
60248687 GTATCGATACCTTATAGCAGCCAA
1 GTATCGGTACCTCATAGCAGCCAA
*
60248711 GTCTCGGTACCTCA
1 GTATCGGTACCTCA
60248725 CTTAGAGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 10 0.33
22 1 0.03
23 1 0.03
24 18 0.60
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.22
Consensus pattern (24 bp):
GTATCGGTACCTCATAGCAGCCAA
Found at i:60251534 original size:49 final size:49
Alignment explanation
Indices: 60251479--60251672 Score: 307
Period size: 49 Copynumber: 3.9 Consensus size: 49
60251469 TCGTTTTCTT
* *
60251479 GATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATACC
1 GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACC
* *
60251528 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACAAATCACATACC
1 GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACC
* * *
60251577 GATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTACC
1 GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACC
*
60251626 GATGCCATAGCCCAACTATGGTCTTATACGGAATCACATAATCACAT
1 GATGCCATAGCCCAACTATGGTCTTACACGGAATCACA-AATCACAT
60251673 GTTCACATGT
Statistics
Matches: 135, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 129 0.96
50 6 0.04
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACC
Found at i:60253547 original size:2 final size:2
Alignment explanation
Indices: 60253540--60253569 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
60253530 GATAAATCTC
60253540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60253570 CAAAAGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60255078 original size:16 final size:16
Alignment explanation
Indices: 60255041--60255082 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
60255031 TTAATCATAT
*
60255041 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
60255057 TT-AAATATATTATAA
1 TTAAAATATATTATAA
60255072 TTAAAATATAT
1 TTAAAATATAT
60255083 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:60255089 original size:14 final size:15
Alignment explanation
Indices: 60255050--60255091 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60255040 TTTAAACATA
*
60255050 ATTATTATTAAATAT
1 ATTATAATTAAATAT
60255065 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
60255079 A-TATAATTTAATA
1 ATTATAATTAAATA
60255092 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:60255181 original size:108 final size:108
Alignment explanation
Indices: 60255064--60255281 Score: 384
Period size: 108 Copynumber: 2.0 Consensus size: 108
60255054 TTATTAAATA
60255064 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACT
1 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACT
*
60255129 CAAATAATAATATATGATACTATAAAATATAAATT-AACATAAT
66 CAAATAATAATATATGATACTATAAAAGATAAATTGAA-ATAAT
*
60255172 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT
1 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACT
* *
60255237 CAAATCATAATATATGATACTATAAAAGATAATTTGAAATAAT
66 CAAATAATAATATATGATACTATAAAAGATAAATTGAAATAAT
60255280 TA
1 TA
60255282 ATATTAAATA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
108 103 0.98
109 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (108 bp):
TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACT
CAAATAATAATATATGATACTATAAAAGATAAATTGAAATAAT
Found at i:60255191 original size:32 final size:33
Alignment explanation
Indices: 60255155--60255216 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
60255145 ATACTATAAA
*
60255155 ATATAAATTAACATAATTATT-ATAATTAAAAT
1 ATATAAATTAACAAAATTATTAATAATTAAAAT
* * *
60255187 ATATAATTTAATAAAATTCTTAATAATTAA
1 ATATAAATTAACAAAATTATTAATAATTAA
60255217 TATTCTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 17 0.68
33 8 0.32
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (33 bp):
ATATAAATTAACAAAATTATTAATAATTAAAAT
Found at i:60255320 original size:108 final size:106
Alignment explanation
Indices: 60255067--60255306 Score: 364
Period size: 108 Copynumber: 2.3 Consensus size: 106
60255057 TTAAATATAT
60255067 TATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAA
1 TATAATTAAAATATAT-ATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAA
*
60255132 ATAATAATATATGATACTATAAAATATAAATTAACATAATTA
65 ATAATAATATATGATACTATAAAAGATAAATTAACATAATTA
*
60255174 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
1 -TATAATTAAAATATAT-ATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCA
* *
60255239 AATCATAATATATGATACTATAAAAGATAATTTGAA-ATAATTA
64 AATAATAATATATGATACTATAAAAGATAAATT-AACATAATTA
60255282 -AT-ATT-AAATATAT-TTTAATTAAAAT
1 TATAATTAAAATATATATTTAA-TAAAAT
60255307 ATATGATTTA
Statistics
Matches: 126, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
102 5 0.04
103 6 0.05
104 8 0.06
105 3 0.02
106 2 0.02
108 100 0.79
109 2 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (106 bp):
TATAATTAAAATATATATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAA
TAATAATATATGATACTATAAAAGATAAATTAACATAATTA
Done.