Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 83 of 141
Found at i:27083883 original size:3 final size:3
Alignment explanation
Indices: 27083875--27083908 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
27083865 ATAGCAACTG
27083875 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27083909 AGTTATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27098701 original size:125 final size:126
Alignment explanation
Indices: 27098518--27099024 Score: 641
Period size: 124 Copynumber: 4.1 Consensus size: 126
27098508 TAAGGCCAAG
*
27098518 CAAGAACTACTGTAGAAAAA-A-AGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* ** * * * * *
27098581 ATCTTGGTTAAAACGTTTTTGACACTATTTTTTCAAAACCGTCTTATCAAAATTACTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
*
27098642 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAG-TTTTTTCAGTAATTTTGTTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* **
27098706 ATCCTACTTAAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATT-TTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
* * * * *
27098766 -AGGAACTACTGTAGAAAAAGAGCATTCACGTGGGAGCTTTTTTCAATAACTTTGCTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
27098830 ATCCTACTTGAAGCGTTTTTGACATTATTTTTTTAGAATCATCTTCTCAAAATTATTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
** * ** * * *
27098891 TTAGAAACTACTGTAGAAAAATAGCGTTTACGTGGGAGCTTTTTTCAGTACTTTTGCTGACATTA
1 CAAG-AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
* * * * *
27098956 CATCCTGCTTGAATCGTTTTTGTCACTA-TTTTTCAGAACCATTTTCTCAAAATTATTTTTT
65 CATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
27099017 CAA-AACTA
1 CAAGAACTA
27099025 TTTTATCAAA
Statistics
Matches: 334, Mismatches: 43, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
123 33 0.10
124 101 0.30
125 79 0.24
126 45 0.13
127 76 0.23
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (126 bp):
CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
Found at i:27099018 original size:28 final size:28
Alignment explanation
Indices: 27098984--27099049 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
27098974 TTTGTCACTA
*
27098984 TTTTTCAGAACCATTTTCTCAAAATTAT
1 TTTTTCAGAACCATTTTATCAAAATTAT
* *
27099012 TTTTTCAAAACTATTTTATCAAAATTAT
1 TTTTTCAGAACCATTTTATCAAAATTAT
27099040 TTTTTCAGAA
1 TTTTTCAGAA
27099050 ACTACTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTTTCAGAACCATTTTATCAAAATTAT
Found at i:27099019 original size:14 final size:14
Alignment explanation
Indices: 27098996--27099046 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
27098986 TTTCAGAACC
*
27098996 ATTTTCTCAAAATT
1 ATTTTTTCAAAATT
*
27099010 ATTTTTTCAAAACT
1 ATTTTTTCAAAATT
*
27099024 ATTTTATCAAAATT
1 ATTTTTTCAAAATT
27099038 ATTTTTTCA
1 ATTTTTTCA
27099047 GAAACTACTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTTTCAAAATT
Found at i:27099234 original size:32 final size:33
Alignment explanation
Indices: 27099141--27099238 Score: 101
Period size: 32 Copynumber: 3.0 Consensus size: 33
27099131 CCTAAACAAA
* * * *
27099141 AATTTATTTTTAAAAAGCCCCAAACCCTAATTT
1 AATTAATTTTAAAAAAACCCTAAACCCTAATTT
***
27099174 AATTAATTTTCCTAAAACCCTAAA-CCTAATTT
1 AATTAATTTTAAAAAAACCCTAAACCCTAATTT
**
27099206 AATTAA-TTTAAAAAAATTCTAAACCCTAATTT
1 AATTAATTTTAAAAAAACCCTAAACCCTAATTT
27099238 A
1 A
27099239 TTTTTTAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
31 12 0.23
32 23 0.43
33 18 0.34
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (33 bp):
AATTAATTTTAAAAAAACCCTAAACCCTAATTT
Found at i:27101367 original size:28 final size:26
Alignment explanation
Indices: 27101313--27101381 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 26
27101303 TACCTTGAAC
*
27101313 CTCAATCCCAAAACTCTAAACACTAAA
1 CTCAATCCC-AAACCCTAAACACTAAA
**
27101340 TCTACAATCCCAAACCCTAAACTTTAAA
1 -CT-CAATCCCAAACCCTAAACACTAAA
27101368 CTCAAATCCCAAAC
1 CTC-AATCCCAAAC
27101382 TTGTAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.03
27 12 0.33
28 16 0.44
29 7 0.19
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (26 bp):
CTCAATCCCAAACCCTAAACACTAAA
Found at i:27108784 original size:89 final size:89
Alignment explanation
Indices: 27108646--27108827 Score: 348
Period size: 89 Copynumber: 2.0 Consensus size: 89
27108636 ATAACTCTTG
27108646 TTTTATTATTAATTTTGCTACTATTTTAGTGGTATTTGTTTGTTAAGTTACACTTATCTTAGGGT
1 TTTTATTATTAATTTTGCTACTATTTTAGTGGTATTTGTTTGTTAAGTTACACTTATCTTAGGGT
27108711 TATTTAAGTATATATTTTTTAATT
66 TATTTAAGTATATATTTTTTAATT
27108735 TTTTAATTATT-ATTTTGCTACTATTTTAGTGGTATTTGTTTGTTAAGTTACACTTATCTTAGGG
1 TTTT-ATTATTAATTTTGCTACTATTTTAGTGGTATTTGTTTGTTAAGTTACACTTATCTTAGGG
27108799 TTATTTAAGTATATATTTTTTAATT
65 TTATTTAAGTATATATTTTTTAATT
27108824 TTTT
1 TTTT
27108828 TCCATTTGTT
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
89 86 0.93
90 6 0.07
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.58
Consensus pattern (89 bp):
TTTTATTATTAATTTTGCTACTATTTTAGTGGTATTTGTTTGTTAAGTTACACTTATCTTAGGGT
TATTTAAGTATATATTTTTTAATT
Found at i:27109857 original size:43 final size:41
Alignment explanation
Indices: 27109794--27109880 Score: 138
Period size: 43 Copynumber: 2.1 Consensus size: 41
27109784 TTACTGAGCA
*
27109794 AATAATATAAAAACGATTCAAGCAGGATGCTTTATTAGAAG
1 AATAATATAAAAACGATTCAAGCAGGATGCTTTATCAGAAG
*
27109835 AATAATAGTATAAAACGCTTCAAGCAGGATGCTTTATCAGAAG
1 AATAATA-TA-AAAACGATTCAAGCAGGATGCTTTATCAGAAG
27109878 AAT
1 AAT
27109881 TTCTGAAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 7 0.17
42 2 0.05
43 33 0.79
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.26
Consensus pattern (41 bp):
AATAATATAAAAACGATTCAAGCAGGATGCTTTATCAGAAG
Found at i:27110072 original size:125 final size:125
Alignment explanation
Indices: 27109838--27110172 Score: 566
Period size: 125 Copynumber: 2.7 Consensus size: 125
27109828 TTAGAAGAAT
* *
27109838 AATAGTAT--AAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCTCCTACGT
1 AATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTTGAAATCGCTCCCACGT
* *
27109901 GGACGCGCTTTTGCTACAGTAGGTCCTTAAAAAATAATTTCGAGTTGACGTTTCTGAGCA
66 GGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTGAGCA
* *
27109961 AATAGTATAAAAAACGCTTCAAGCAAGATGCTTTATCAGAAGAATTTTTAAAATCGCTCCCACGT
1 AATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTTGAAATCGCTCCCACGT
* *
27110026 GGACGCGCTTTTTCTATAGTAGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTGAGCA
66 GGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTGAGCA
*
27110086 AATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATTAGAAGAATTTTTGAAATCGCTCCCACGT
1 AATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTTGAAATCGCTCCCACGT
*
27110151 GGACGCGCTTTTGCTAGAGTAG
66 GGACGCGCTTTTGCTACAGTAG
27110173 CATGTTTGGG
Statistics
Matches: 197, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
123 8 0.04
125 189 0.96
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (125 bp):
AATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTTGAAATCGCTCCCACGT
GGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTGAGCA
Found at i:27111149 original size:14 final size:14
Alignment explanation
Indices: 27111130--27111159 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27111120 GATGATGCGT
27111130 TGGATCATAAACCA
1 TGGATCATAAACCA
*
27111144 TGGATCCTAAACCA
1 TGGATCATAAACCA
27111158 TG
1 TG
27111160 ATATGTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (14 bp):
TGGATCATAAACCA
Found at i:27112710 original size:11 final size:11
Alignment explanation
Indices: 27112694--27112750 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
27112684 TCTTTTAAAT
27112694 AGGAATTTGAG
1 AGGAATTTGAG
27112705 AGGAATTTGAG
1 AGGAATTTGAG
27112716 AGGAATTTGAG
1 AGGAATTTGAG
27112727 A-GAATATT-AG
1 AGGAAT-TTGAG
*
27112737 AGAGAAATTGAG
1 AG-GAATTTGAG
27112749 AG
1 AG
27112751 AAAGGGTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
10 7 0.17
11 27 0.66
12 7 0.17
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:27115208 original size:104 final size:101
Alignment explanation
Indices: 27115005--27115264 Score: 389
Period size: 104 Copynumber: 2.6 Consensus size: 101
27114995 TTTGTTAGTA
* * * *
27115005 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATAAATATAAATTTTTATG-TTGTTTTTAATT
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGT-AATTTTTTTGTTTTTTTTTAATT
27115069 TATTTTAAAGTCATTTTGTTAGTAATTATTATAAATT
65 TATTTTAAAGTCATTTTGTTAGTAATTATTATAAATT
* *
27115106 ATTTGTTTAGTTTAAAGTTTTTTGTGATTTGTTATGAATGTAATTTTTGTTGTTTTTTTTTAAAA
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAATTTTT-TTGTTTTTTTTT--AA
*
27115171 TTTATTTTAAAGTTATTTTGTTAGTAATTATTATAAATT
63 TTTATTTTAAAGTCATTTTGTTAGTAATTATTATAAATT
* *
27115210 ATTTGTTTAGTTTAATGCTTATTATGATTTGTTATGAATGT-ATTTTTTTGTTTTT
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAATTTTTTTGTTTTT
27115265 GATTTATTTG
Statistics
Matches: 144, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
100 7 0.05
101 39 0.27
102 15 0.10
103 6 0.04
104 77 0.53
ACGTcount: A:0.27, C:0.01, G:0.12, T:0.60
Consensus pattern (101 bp):
ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAATTTTTTTGTTTTTTTTTAATTT
ATTTTAAAGTCATTTTGTTAGTAATTATTATAAATT
Found at i:27115524 original size:14 final size:14
Alignment explanation
Indices: 27115489--27115565 Score: 61
Period size: 14 Copynumber: 5.5 Consensus size: 14
27115479 TGAGATATTT
27115489 TTTATTGTAATTATA
1 TTTATTGT-ATTATA
27115504 TTATTATTGTATTATA
1 -T-TTATTGTATTATA
*
27115520 TTTATCGTA-T-TA
1 TTTATTGTATTATA
*
27115532 TTTATTGTATAATA
1 TTTATTGTATTATA
* *
27115546 TTAATT-TTTTATA
1 TTTATTGTATTATA
*
27115559 ATTATTG
1 TTTATTG
27115566 AAAACGAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
12 10 0.20
13 10 0.20
14 14 0.29
15 1 0.02
16 7 0.14
17 7 0.14
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTATTGTATTATA
Found at i:27115524 original size:17 final size:18
Alignment explanation
Indices: 27115483--27115524 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
27115473 AATTTATGAG
*
27115483 ATATTTTTTATTGTAATT
1 ATATTTATTATTGTAATT
27115501 ATA-TTATTATTGT-ATT
1 ATATTTATTATTGTAATT
27115517 ATATTTAT
1 ATATTTAT
27115525 CGTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATATTTATTATTGTAATT
Found at i:27117995 original size:21 final size:21
Alignment explanation
Indices: 27117971--27118016 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
27117961 TGAGAGATCA
* *
27117971 CACATGGGCGTGTGGGATGGT
1 CACATGGGCGTGTAGGATGGC
27117992 CACATGGGCGTGTAGGATGGC
1 CACATGGGCGTGTAGGATGGC
27118013 CACA
1 CACA
27118017 CGACCATGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.41, T:0.20
Consensus pattern (21 bp):
CACATGGGCGTGTAGGATGGC
Found at i:27121426 original size:24 final size:24
Alignment explanation
Indices: 27121394--27121446 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
27121384 AAAAAAATTC
*
27121394 TTTTGCTACTCTTGAATCTTAAAA
1 TTTTACTACTCTTGAATCTTAAAA
*
27121418 TTTTACTACTTTTGAATCTTAAAA
1 TTTTACTACTCTTGAATCTTAAAA
27121442 TTTTA
1 TTTTA
27121447 TCTGCACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (24 bp):
TTTTACTACTCTTGAATCTTAAAA
Found at i:27122361 original size:16 final size:16
Alignment explanation
Indices: 27122340--27122392 Score: 106
Period size: 16 Copynumber: 3.3 Consensus size: 16
27122330 TTGGTTCGCT
27122340 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
27122356 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
27122372 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
27122388 GTAAT
1 GTAAT
27122393 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.38, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:27137785 original size:40 final size:40
Alignment explanation
Indices: 27137728--27137810 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
27137718 ATTCCACAGC
* *
27137728 ACTTCATTTATTCAGTATACATCCTCTGGTGT-CTAGTCAA
1 ACTTCATTTATTCAGTATACAACCTCTGGT-TCCAAGTCAA
* *
27137768 ACTTTATTTATTCAGTATACAACTTCTGGTTCCAAGTCAA
1 ACTTCATTTATTCAGTATACAACCTCTGGTTCCAAGTCAA
27137808 ACT
1 ACT
27137811 CATGCTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (40 bp):
ACTTCATTTATTCAGTATACAACCTCTGGTTCCAAGTCAA
Found at i:27145380 original size:65 final size:65
Alignment explanation
Indices: 27145270--27145399 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 65
27145260 AAACATTATA
* *
27145270 TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGTATCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
* * *
27145335 TCAAACGTCTCCCATACTAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
27145400 CTACCAATAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.23
Consensus pattern (65 bp):
TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
Found at i:27156505 original size:15 final size:16
Alignment explanation
Indices: 27156467--27156532 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
27156457 TGAATAATAT
27156467 TAAATA-TATTTTTAAA
1 TAAATATTA-TTTTAAA
27156483 TAAATATTATTTTAAA
1 TAAATATTATTTTAAA
* * *
27156499 T-AATATTGTAATTAAT
1 TAAATATTAT-TTTAAA
*
27156515 TAAATTTTATTTTAAA
1 TAAATATTATTTTAAA
27156531 TA
1 TA
27156533 TTAATTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
15 7 0.17
16 25 0.62
17 8 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TAAATATTATTTTAAA
Found at i:27158268 original size:25 final size:21
Alignment explanation
Indices: 27158224--27158266 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27158214 TTTTAAAGAA
27158224 AACTTAGTTAATTTTTTATTT
1 AACTTAGTTAATTTTTTATTT
*
27158245 AACTTAGTTAATTTTTGATTT
1 AACTTAGTTAATTTTTTATTT
27158266 A
1 A
27158267 TTCGTTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (21 bp):
AACTTAGTTAATTTTTTATTT
Found at i:27159041 original size:45 final size:45
Alignment explanation
Indices: 27158891--27159041 Score: 121
Period size: 45 Copynumber: 3.4 Consensus size: 45
27158881 CTGCCAATGA
* * * * * * *
27158891 CTGTGGATAGA-AAAAAAAATCCCGCAGATAGAATTTGCGTCTGG
1 CTGTGGATACACAACAAATATCCTGCAGATAGAATCTGCCTCTAG
* * * * *
27158935 CTGTAGATGCACAA-AAA-AT-CTCGCAAATAAAATCTGTCTCTAG
1 CTGTGGATACACAACAAATATCCT-GCAGATAGAATCTGCCTCTAG
* * * *
27158978 CTGTGAAAACATAGCAAATATCCTGCAGATAGAATCTGCCTCTAG
1 CTGTGGATACACAACAAATATCCTGCAGATAGAATCTGCCTCTAG
27159023 CTGTGGATACACAACAAAT
1 CTGTGGATACACAACAAAT
27159042 TTGTAGATAA
Statistics
Matches: 79, Mismatches: 23, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
42 1 0.01
43 25 0.32
44 14 0.18
45 37 0.47
46 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (45 bp):
CTGTGGATACACAACAAATATCCTGCAGATAGAATCTGCCTCTAG
Found at i:27159143 original size:34 final size:33
Alignment explanation
Indices: 27159105--27159214 Score: 103
Period size: 34 Copynumber: 3.2 Consensus size: 33
27159095 GCAATGTGAC
*
27159105 ATGCTTATAGCAGATCAATTCGGTAGCAATTAAT
1 ATGCTTATAACAGATCAATT-GGTAGCAATTAAT
* * * *
27159139 ATGCTTATAACAAATCAATAAGATAACAATTAAT
1 ATGCTTATAACAGATCAAT-TGGTAGCAATTAAT
* * * * *
27159173 ATGTTTATAATAGTTTAATATGGTTGCAATTAAT
1 ATGCTTATAACAGATCAAT-TGGTAGCAATTAAT
27159207 ATGCTTAT
1 ATGCTTAT
27159215 CATAAATCAA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (33 bp):
ATGCTTATAACAGATCAATTGGTAGCAATTAAT
Found at i:27163760 original size:26 final size:25
Alignment explanation
Indices: 27163735--27163784 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27163725 CCAAGTAAGT
*
27163735 TACGAACTATGTTCGCCAGTCAAAG
1 TACGAACTAGGTTCGCCAGTCAAAG
* * *
27163760 TGCGAATTAGGTTCGCCGGTCAAAG
1 TACGAACTAGGTTCGCCAGTCAAAG
27163785 ATACAATCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (25 bp):
TACGAACTAGGTTCGCCAGTCAAAG
Found at i:27164418 original size:55 final size:55
Alignment explanation
Indices: 27164334--27164459 Score: 164
Period size: 55 Copynumber: 2.3 Consensus size: 55
27164324 AAAGCACAGA
* ** * *
27164334 TTTATGC-ATGCTCTCTGTTAAGTTCGCTTTGTGTGAGCTCTCTGTTTGGCTCTGT
1 TTTATGCGA-GCTCTCTGCTAAGTTCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
*
27164389 TTTATGCGAGCTCTTTGCTAAGTTCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
1 TTTATGCGAGCTCTCTGCTAAGTTCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
* *
27164444 TTTGTGTGAGCTCTCT
1 TTTATGCGAGCTCTCT
27164460 ATTTAGCTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 60 0.98
56 1 0.02
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.45
Consensus pattern (55 bp):
TTTATGCGAGCTCTCTGCTAAGTTCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
Found at i:27164454 original size:28 final size:28
Alignment explanation
Indices: 27164359--27164463 Score: 95
Period size: 28 Copynumber: 3.8 Consensus size: 28
27164349 TGTTAAGTTC
* *
27164359 GCTTTGTGTGAGCTCTCTGTTTGGCTCT
1 GCTTTGTGCGAGCTCTCTATTTGGCTCT
* * * ** ** *
27164387 GTTTTATGCGAGCTCTTTGCTAAGTTC-
1 GCTTTGTGCGAGCTCTCTATTTGGCTCT
*
27164414 GCTTTGTACGAGCTCTCTATTTGGCTCT
1 GCTTTGTGCGAGCTCTCTATTTGGCTCT
*
27164442 GCTTTGTGTGAGCTCTCTATTT
1 GCTTTGTGCGAGCTCTCTATTT
27164464 AGCTTTGCCT
Statistics
Matches: 57, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
27 18 0.32
28 39 0.68
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.46
Consensus pattern (28 bp):
GCTTTGTGCGAGCTCTCTATTTGGCTCT
Found at i:27164486 original size:17 final size:17
Alignment explanation
Indices: 27164464--27164515 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
27164454 CTCTCTATTT
27164464 AGCTTTGCCTTATTGCA
1 AGCTTTGCCTTATTGCA
*
27164481 AGCTTT--C-TATT--T
1 AGCTTTGCCTTATTGCA
*
27164493 ATCTTTGCCTTATTGCA
1 AGCTTTGCCTTATTGCA
27164510 AGCTTT
1 AGCTTT
27164516 CTATTTAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 5 0.19
14 5 0.19
15 5 0.19
17 11 0.42
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.48
Consensus pattern (17 bp):
AGCTTTGCCTTATTGCA
Found at i:27164498 original size:29 final size:29
Alignment explanation
Indices: 27164452--27164523 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
27164442 GCTTTGTGTG
*
27164452 AGCTCTCTATTTAGCTTTGCCTTATTGCA
1 AGCTTTCTATTTAGCTTTGCCTTATTGCA
*
27164481 AGCTTTCTATTTATCTTTGCCTTATTGCA
1 AGCTTTCTATTTAGCTTTGCCTTATTGCA
27164510 AGCTTTCTATTTAG
1 AGCTTTCTATTTAG
27164524 TGAGCTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.49
Consensus pattern (29 bp):
AGCTTTCTATTTAGCTTTGCCTTATTGCA
Found at i:27164662 original size:41 final size:42
Alignment explanation
Indices: 27164587--27164668 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 42
27164577 CATGTTAAGT
*
27164587 CTCACTCTGTGTGTTCCTTTGAGAGCATGAGCTTTTGTGAGC
1 CTCACTCTGTGTGCTCCTTTGAGAGCATGAGCTTTTGTGAGC
*
27164629 CTCACTCTGTGTGCTCC-TTGAGAGCATGGGCTTTTGTGAG
1 CTCACTCTGTGTGCTCCTTTGAGAGCATGAGCTTTTGTGAG
27164669 ACTTGTGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 22 0.58
42 16 0.42
ACGTcount: A:0.13, C:0.22, G:0.28, T:0.37
Consensus pattern (42 bp):
CTCACTCTGTGTGCTCCTTTGAGAGCATGAGCTTTTGTGAGC
Found at i:27165992 original size:17 final size:17
Alignment explanation
Indices: 27165970--27166003 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27165960 TGTGTTTTCC
27165970 GTTGCTTTGTTGAAGAT
1 GTTGCTTTGTTGAAGAT
27165987 GTTGCTTTGTTGAAGAT
1 GTTGCTTTGTTGAAGAT
27166004 TAACACTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.29, T:0.47
Consensus pattern (17 bp):
GTTGCTTTGTTGAAGAT
Found at i:27169837 original size:111 final size:111
Alignment explanation
Indices: 27169638--27169850 Score: 277
Period size: 111 Copynumber: 1.9 Consensus size: 111
27169628 TATTTCTCTA
* * * * *
27169638 TATTCGGTAAGGTAAGATTTTAGAAAATTTCAGTATTAATTATTTTACCATATATATTTAGTGTT
1 TATTCGGTAAGGTAAGATTTTAAAAAATATAAGTATTAATTATTTCACCATATATATTTAATGTT
** *
27169703 TATTTGGAAATATTTTTTTAAGAT-TTCTATAGTTATTATTTTCGTT
66 TATTTGGAAATATTTAATCAAGATATT-TATAGTTATTATTTTCGTT
* * * *
27169749 TATTTGGTAAGGTGAGGTTTTAAAAAATATAAGTATTAATTATTTCACTATATATATTTGAATGT
1 TATTCGGTAAGGTAAGATTTTAAAAAATATAAGTATTAATTATTTCACCATATATATTT-AATGT
*
27169814 TTATTTGGAAA-ATTTAATCAAGATATTTATTGTTATT
65 TTATTTGGAAATATTTAATCAAGATATTTATAGTTATT
27169851 TGTTTCTTAT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
111 70 0.80
112 17 0.20
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (111 bp):
TATTCGGTAAGGTAAGATTTTAAAAAATATAAGTATTAATTATTTCACCATATATATTTAATGTT
TATTTGGAAATATTTAATCAAGATATTTATAGTTATTATTTTCGTT
Found at i:27180460 original size:21 final size:21
Alignment explanation
Indices: 27180435--27180484 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
27180425 CACTGTTTCT
* *
27180435 AATCTCACCATTACAGTATCC
1 AATCTCACCACTACAGTAACC
* *
27180456 AATCTCACTACTACAGTAACT
1 AATCTCACCACTACAGTAACC
27180477 AATCTCAC
1 AATCTCAC
27180485 AGCCACCGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.28
Consensus pattern (21 bp):
AATCTCACCACTACAGTAACC
Found at i:27194018 original size:111 final size:111
Alignment explanation
Indices: 27193813--27194023 Score: 280
Period size: 111 Copynumber: 1.9 Consensus size: 111
27193803 TATCTCCCTA
* * *
27193813 TATTTGATAAGGTAAGATTTTAGAAAATATCAGTATTAATTATTTCAACATATATATTTAGTGTT
1 TATTTGATAAGGTAAGATTTTAAAAAATATAAATATTAATTATTTCAACATATATATTTAGTGTT
** * *
27193878 TATTTGGAAATATTTTTTTAAGATTTTTATAGTTAGTATTTTCCTT
66 TATTTGGAAATATTTAATCAAGATATTTATAGTTAGTATTTTCCTT
* * * * * *
27193924 TATTTGGTAAGGTGAGGTTTTAAAAAATATAAATATTAATTTTTTTACCATATATATTTGAGTGT
1 TATTTGATAAGGTAAGATTTTAAAAAATATAAATATTAATTATTTCAACATATATATTT-AGTGT
*
27193989 TTATTTGGAAAT-TTTAATCATGATATTTATAGTTA
65 TTATTTGGAAATATTTAATCAAGATATTTATAGTTA
27194024 TTTGTTTCTT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
111 68 0.80
112 17 0.20
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (111 bp):
TATTTGATAAGGTAAGATTTTAAAAAATATAAATATTAATTATTTCAACATATATATTTAGTGTT
TATTTGGAAATATTTAATCAAGATATTTATAGTTAGTATTTTCCTT
Found at i:27197939 original size:37 final size:37
Alignment explanation
Indices: 27197861--27197940 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
27197851 CTATTAAGAT
*
27197861 TGTTAAACCGAAAGCATGAGAAGCATGCCACTATAAT
1 TGTTAAACCGAAAGCATGAGAAGCATGCCACTATAAC
* * * *
27197898 TGTTAAGCCGAAAGCATGATAATCATGCCATTGAT-AC
1 TGTTAAACCGAAAGCATGAGAAGCATGCCACT-ATAAC
27197935 TGTTAA
1 TGTTAA
27197941 TATTACTGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (37 bp):
TGTTAAACCGAAAGCATGAGAAGCATGCCACTATAAC
Found at i:27204136 original size:7 final size:7
Alignment explanation
Indices: 27204110--27204179 Score: 58
Period size: 7 Copynumber: 10.3 Consensus size: 7
27204100 TAGGAGCCAA
*
27204110 GAGAGTT
1 GAGAGAT
27204117 GAGAGA-
1 GAGAGAT
27204123 GAG-GAT
1 GAGAGAT
27204129 GAGAGAT
1 GAGAGAT
27204136 GAGAGAT
1 GAGAGAT
27204143 GAGAGGGAT
1 GAGA--GAT
*
27204152 GAGGGAT
1 GAGAGAT
*
27204159 GAGGGAT
1 GAGAGAT
27204166 GA-AG-T
1 GAGAGAT
*
27204171 GAGAAAT
1 GAGAGAT
27204178 GA
1 GA
27204180 CCTCTTATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.09
6 8 0.15
7 34 0.64
9 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.14
Consensus pattern (7 bp):
GAGAGAT
Found at i:27204143 original size:14 final size:14
Alignment explanation
Indices: 27204110--27204179 Score: 58
Period size: 12 Copynumber: 5.1 Consensus size: 14
27204100 TAGGAGCCAA
*
27204110 GAGAGTTGAGAGA-
1 GAGAGATGAGAGAT
27204123 GAG-GATGAGAGAT
1 GAGAGATGAGAGAT
27204136 GAGAGATGAGAGGGAT
1 GAGAGATGAGA--GAT
* *
27204152 GAGGGATGAGGGAT
1 GAGAGATGAGAGAT
*
27204166 GA-AG-TGAGAAAT
1 GAGAGATGAGAGAT
27204178 GA
1 GA
27204180 CCTCTTATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
12 16 0.34
13 7 0.15
14 12 0.26
16 12 0.26
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.14
Consensus pattern (14 bp):
GAGAGATGAGAGAT
Found at i:27204154 original size:16 final size:16
Alignment explanation
Indices: 27204119--27204161 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
27204109 AGAGAGTTGA
*
27204119 GAGAGAGGATGAGAGAT
1 GAGAGATGA-GAGAGAT
*
27204136 GAGAGATGAGAGGGAT
1 GAGAGATGAGAGAGAT
*
27204152 GAGGGATGAG
1 GAGAGATGAG
27204162 GGATGAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.12
Consensus pattern (16 bp):
GAGAGATGAGAGAGAT
Found at i:27204159 original size:23 final size:24
Alignment explanation
Indices: 27204119--27204167 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
27204109 AGAGAGTTGA
27204119 GAGAGAGGATGAGAGATGAGAGAT
1 GAGAGAGGATGAGAGATGAGAGAT
* *
27204143 GAGAG-GGATGAGGGATGAGGGAT
1 GAGAGAGGATGAGAGATGAGAGAT
27204166 GA
1 GA
27204168 AGTGAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.12
Consensus pattern (24 bp):
GAGAGAGGATGAGAGATGAGAGAT
Found at i:27217451 original size:25 final size:25
Alignment explanation
Indices: 27217390--27217453 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
27217380 ACTTACACGG
*
27217390 CGATG-GAGCAGAGGAGTGTCGACGA
1 CGATGAGA-CAGAGGAGTATCGACGA
*
27217415 CGATGAGGCAGAGGAGTATCGAC-A
1 CGATGAGACAGAGGAGTATCGACGA
27217439 TCGATGCA-ACAGAGG
1 -CGATG-AGACAGAGG
27217454 TGACAGTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 1 0.03
25 30 0.91
26 2 0.06
ACGTcount: A:0.31, C:0.17, G:0.39, T:0.12
Consensus pattern (25 bp):
CGATGAGACAGAGGAGTATCGACGA
Found at i:27217754 original size:41 final size:40
Alignment explanation
Indices: 27217633--27217768 Score: 184
Period size: 39 Copynumber: 3.4 Consensus size: 40
27217623 TAAAATGATA
*
27217633 TTTTGTGGCATTTTTCTCATAGTGCCGTTAATGCTTGACC
1 TTTTGTGGCATTTTTCTCATAGTGCCGCTAATGCTTGACC
*
27217673 TTTTCT-GCATTTTTCTCATAGTGCCGCTAATGCTTGACC
1 TTTTGTGGCATTTTTCTCATAGTGCCGCTAATGCTTGACC
** * *
27217712 TTTTGTGGCATTTTTCTCATAAACGTCGCTACTGCTTGACC
1 TTTTGTGGCATTTTTCTCAT-AGTGCCGCTAATGCTTGACC
* *
27217753 TTTTGCGGCGTTTTTC
1 TTTTGTGGCATTTTTC
27217769 CATTAGCGCC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.44
40 18 0.21
41 30 0.35
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (40 bp):
TTTTGTGGCATTTTTCTCATAGTGCCGCTAATGCTTGACC
Found at i:27224903 original size:130 final size:132
Alignment explanation
Indices: 27224663--27225021 Score: 530
Period size: 130 Copynumber: 2.7 Consensus size: 132
27224653 AATTGGTAAT
27224663 TTCAACCTACTCCACTGTAACT--TCAGGGAGATAAGG-CTGGTGGCTTAAATCTGCTTCCCTAC
1 TTCAACCTACTCCAC--T-ACTGCTCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTAC
* * * *
27224725 TACCTCGGGAAGATAAGACTCACCGTCTTTGATCTGCTGCACTTCTGCTTAGGGAGACAAGATAT
62 TACCTCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATAT
27224790 ACAATC
127 ACAATC
* *
27224796 TTCAACCTACTCCACTACTGCTC-GGGAGATAGGACTGGTGGCTTAAATATGCTT-CCTACTATC
1 TTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
* * * *
27224859 TCGGGAATATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
66 TCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAA
27224924 TC
131 TC
* *
27224926 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
*
27224991 TTGGGAAGATAAGATTCGCCGTCTTTGATCT
66 TCGGGAAGATAAGATTCGCCGTCTTTGATCT
27225022 ATTCCACTGC
Statistics
Matches: 204, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
130 96 0.47
131 55 0.27
132 38 0.19
133 15 0.07
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
TTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
TCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAA
TC
Found at i:27225393 original size:44 final size:44
Alignment explanation
Indices: 27225282--27225406 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 44
27225272 GATTCGCTAT
* * * *
27225282 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTCT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGTCG
* * * * * * *
27225326 CTTCAATCCGCTCTACTATAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGTCG
* *
27225370 CTTTAATCTGCTCCACTACAACTTTAGAGG-GATAAGA
1 CTTCAATCTGCTCCACTACAACTTCAG-GGAGATAAGA
27225407 TTTGCCATCT
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
44 61 0.97
45 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGTCG
Found at i:27225541 original size:44 final size:44
Alignment explanation
Indices: 27225478--27225782 Score: 244
Period size: 44 Copynumber: 6.9 Consensus size: 44
27225468 AGACTTGTTA
** *
27225478 CTTTAATCCCCTCCACTGCAACTTTAGGGAGATAGGATTATTGG
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTGG
* * *
27225522 CTTTAATCAACTTCACTGCAACTTTAGTGAGATAAGA-T-TTGCCAT
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTG---G
* ** * * *
27225567 CTTTATTCTGC-CCTACTGCAACTTCAGGGGGATAAGACTTGCTT--
1 CTTTAATCAACTCC-ACTGCAACTTTAGGGAGATAAGA-TT-ATTGG
* * ** * * **
27225611 TTTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGATT-TGTAA
1 CTTT-AATCAACTCCACTGCAACTTTAGGGAGATAAGATTAT-TGG
** * *
27225656 CTTTAATCCGCTCCACTTCAACTTTAGGGAGATAGGATTATTGG
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTGG
* *
27225700 CTTTAATCAACTCCACTGCAACTTCAGGGAGATAGGATTATTGG
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTGG
* *
27225744 CTTTAATCTACTCCACTACAACTTTAGGGAGATAAGATT
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATT
27225783 CGCCATCTTC
Statistics
Matches: 214, Mismatches: 33, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
42 4 0.02
43 2 0.01
44 144 0.67
45 59 0.28
46 2 0.01
47 1 0.00
49 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTGG
Found at i:27225587 original size:45 final size:45
Alignment explanation
Indices: 27225535--27225818 Score: 154
Period size: 44 Copynumber: 6.3 Consensus size: 45
27225525 TAATCAACTT
* * *
27225535 CACTGCAACTTTAGTGAGATAAGATTTGCCATCTTT-ATTCTGC-C
1 CACTGCAACTTCAGGGAGATAAGATTTG-CATCTTTCAGTCTGCTC
* * * *
27225579 CTACTGCAACTTCAGGGGGATAAGACTTGCTTTTTTCAGTCTGCTC
1 C-ACTGCAACTTCAGGGAGATAAGATTTGCATCTTTCAGTCTGCTC
* * * * *
27225625 CACTACAACTTCAGGGAGATAAGATTTGTAACTTT-AATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGCATCTTTCAGTCTGCTC
* * * * * **
27225669 CACTTCAACTTTAGGGAGATAGGATTATTG--GCTTT-AATCAACTC
1 CACTGCAACTTCAGGGAGATAAGA-T-TTGCATCTTTCAGTCTGCTC
* * * *
27225713 CACTGCAACTTCAGGGAGATAGGATTATTG--GCTTT-AATCTACTC
1 CACTGCAACTTCAGGGAGATAAGA-T-TTGCATCTTTCAGTCTGCTC
* * * * ***
27225757 CACTACAACTTTAGGGAGATAAGATTCGCCATCTTCTTCAATCCATTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-CATC-T-TTCAGTCTGCTC
27225805 CACTGCAACTTCAG
1 CACTGCAACTTCAG
27225819 TGGTATAGGA
Statistics
Matches: 195, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
42 2 0.01
43 1 0.01
44 107 0.55
45 58 0.30
46 6 0.03
47 2 0.01
48 19 0.10
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (45 bp):
CACTGCAACTTCAGGGAGATAAGATTTGCATCTTTCAGTCTGCTC
Found at i:27230414 original size:19 final size:19
Alignment explanation
Indices: 27230390--27230433 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
27230380 GTGAAAATCC
*
27230390 AATGCATATG-ATGCAATG
1 AATGCAGATGCATGCAATG
*
27230408 TAATGCAGATGCATGGAATG
1 -AATGCAGATGCATGCAATG
27230428 AATGCA
1 AATGCA
27230434 AAAAGAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (19 bp):
AATGCAGATGCATGCAATG
Found at i:27232923 original size:23 final size:22
Alignment explanation
Indices: 27232895--27232937 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27232885 ATTAAATTTA
27232895 TAAGATTACAAAATCATATCTTC
1 TAAGATTAC-AAATCATATCTTC
* *
27232918 TAAGATTGCATATCATATCT
1 TAAGATTACAAATCATATCT
27232938 AAGATTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAGATTACAAATCATATCTTC
Found at i:27234776 original size:30 final size:30
Alignment explanation
Indices: 27234709--27234776 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
27234699 AAACTACACC
*
27234709 AACAGTCACTCAACTTTGATAAAATAACAA
1 AACAGTCACTAAACTTTGATAAAATAACAA
*
27234739 AATAGTCACTAAACTTTAGA-AAAATAACAA
1 AACAGTCACTAAACTTT-GATAAAATAACAA
*
27234769 ACCAGTCA
1 AACAGTCA
27234777 AGTTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.22
Consensus pattern (30 bp):
AACAGTCACTAAACTTTGATAAAATAACAA
Found at i:27236556 original size:22 final size:22
Alignment explanation
Indices: 27236531--27236622 Score: 88
Period size: 22 Copynumber: 4.5 Consensus size: 22
27236521 AAGCATGTTA
*
27236531 GGCACTAAGCCTGAATAACATC
1 GGCACTAAGCCTGAATAACACC
*
27236553 GGCACTAAGCTTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
* *
27236575 AGCACTAAGCCT-ACT---A--
1 GGCACTAAGCCTGAATAACACC
*
27236591 GGCACTAAGACTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
*
27236613 GACACTAAGC
1 GGCACTAAGC
27236623 ATGCTAAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
16 10 0.19
17 2 0.04
18 1 0.02
20 1 0.02
21 2 0.04
22 38 0.70
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.16
Consensus pattern (22 bp):
GGCACTAAGCCTGAATAACACC
Found at i:27236606 original size:38 final size:37
Alignment explanation
Indices: 27236553--27236649 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 37
27236543 GAATAACATC
*
27236553 GGCACTAAGCTTGAATAACACC-AGCACTAAGCCTACTA
1 GGCACTAAGC-TGAATAACACCGA-CACTAAGCATACTA
*
27236591 GGCACTAAGACTGAATAACACCGACACTAAGCATGCTA
1 GGCACTAAG-CTGAATAACACCGACACTAAGCATACTA
* *
27236629 AGAACTAAGCCTGAATAACAC
1 GGCACTAAG-CTGAATAACAC
27236650 TATATGAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 50 0.96
39 2 0.04
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.16
Consensus pattern (37 bp):
GGCACTAAGCTGAATAACACCGACACTAAGCATACTA
Found at i:27239121 original size:48 final size:48
Alignment explanation
Indices: 27239052--27239143 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
27239042 CATGCTATGT
* * *
27239052 AATGCTACACTTAGTCTTCCACTATCTACACTCTTATCACTATTATAC
1 AATGCTAAACTTAGTCCTCCACTATCTACACTCTTATCAATATTATAC
*
27239100 AATGCTAAACTTGGTCCTCCACTATCTACACTCTTATCAATATT
1 AATGCTAAACTTAGTCCTCCACTATCTACACTCTTATCAATATT
27239144 TATCCCCTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.29, C:0.28, G:0.05, T:0.37
Consensus pattern (48 bp):
AATGCTAAACTTAGTCCTCCACTATCTACACTCTTATCAATATTATAC
Found at i:27242649 original size:20 final size:21
Alignment explanation
Indices: 27242603--27242667 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 21
27242593 GTAATGAAAT
27242603 AAAATATA-A-AAAATTCATA
1 AAAATATATATAAAATTCATA
27242622 AAAATATATATAAAA-TC-TA
1 AAAATATATATAAAATTCATA
*
27242641 AAAATTATATATGGAAATT-ATA
1 AAAA-TATATAT-AAAATTCATA
27242663 AAAAT
1 AAAAT
27242668 GAAATGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
19 14 0.36
20 10 0.26
21 8 0.21
22 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAATATATATAAAATTCATA
Found at i:27242664 original size:22 final size:20
Alignment explanation
Indices: 27242613--27242667 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
27242603 AAAATATAAA
27242613 AAATTCATAAAAA-TATATAT
1 AAATT-ATAAAAATTATATAT
* *
27242633 AAAATCTAAAAATTATATAT
1 AAATTATAAAAATTATATAT
27242653 GGAAATTATAAAAAT
1 --AAATTATAAAAAT
27242668 GAAATGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.21
20 11 0.39
22 11 0.39
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATTATAAAAATTATATAT
Found at i:27243745 original size:31 final size:31
Alignment explanation
Indices: 27243710--27243806 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
27243700 AAATGTTTAC
27243710 TAGTGACTAGTTTGTTATTTTTATAAAAGTT
1 TAGTGACTAGTTTGTTATTTTTATAAAAGTT
** *
27243741 TAGTGACTGAG-TTG-TAACTTT-TCAAAGTT
1 TAGTGACT-AGTTTGTTATTTTTATAAAAGTT
* * * *
27243770 TAGTGA-TTGTTTTGTTATTTTAACAAAAATT
1 TAGTGACTAG-TTTGTTATTTTTATAAAAGTT
27243801 TAGTGA
1 TAGTGA
27243807 TTTTTAGTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 16 0.31
30 9 0.18
31 22 0.43
32 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (31 bp):
TAGTGACTAGTTTGTTATTTTTATAAAAGTT
Found at i:27244828 original size:32 final size:34
Alignment explanation
Indices: 27244787--27244882 Score: 112
Period size: 32 Copynumber: 2.9 Consensus size: 34
27244777 TTTTTTGTCT
27244787 TTGTAATAAATTAATGTTAATTTTGTTAATTCT-A
1 TTGTAATAAATTAATGTTAATTTT-TTAATTCTCA
*
27244821 -T-TAATAAATTAATGTTATACTTTTTT--TTGTCA
1 TTGTAATAAATTAATGTTA-A-TTTTTTAATTCTCA
27244853 TTGTAATAAATTAATGTTAATTTTATTAAT
1 TTGTAATAAATTAATGTTAATTTT-TTAAT
27244883 AATTCTATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
31 3 0.06
32 21 0.40
33 8 0.15
34 20 0.38
35 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.54
Consensus pattern (34 bp):
TTGTAATAAATTAATGTTAATTTTTTAATTCTCA
Found at i:27244865 original size:34 final size:33
Alignment explanation
Indices: 27244768--27244871 Score: 117
Period size: 34 Copynumber: 3.1 Consensus size: 33
27244758 AGAAATTGTA
27244768 TTATACTTTTTTTTTGTCTTTGTAATAAATTAATG
1 TTATAC-TTTTTTTTGTC-TTGTAATAAATTAATG
*
27244803 TTA-A-TTTTGTTAAT-TCTAT-TAATAAATTAATG
1 TTATACTTTT-TT-TTGTCT-TGTAATAAATTAATG
27244835 TTATACTTTTTTTTGTCATTGTAATAAATTAATG
1 TTATACTTTTTTTTGTC-TTGTAATAAATTAATG
27244869 TTA
1 TTA
27244872 ATTTTATTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
32 22 0.37
33 11 0.19
34 23 0.39
35 3 0.05
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.57
Consensus pattern (33 bp):
TTATACTTTTTTTTGTCTTGTAATAAATTAATG
Found at i:27245976 original size:11 final size:12
Alignment explanation
Indices: 27245962--27246001 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
27245952 TATTTGGATT
27245962 TATTTTATTTT-
1 TATTTTATTTTA
27245973 TATTTTCATTTTA
1 TATTTT-ATTTTA
*
27245986 TTTTTTATTTTA
1 TATTTTATTTTA
27245998 TATT
1 TATT
27246002 AACGAACACG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.24
12 14 0.56
13 5 0.20
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TATTTTATTTTA
Found at i:27245985 original size:17 final size:18
Alignment explanation
Indices: 27245963--27245996 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27245953 ATTTGGATTT
27245963 ATTTTA-TTTTTATTTTC
1 ATTTTATTTTTTATTTTC
27245980 ATTTTATTTTTTATTTT
1 ATTTTATTTTTTATTTT
27245997 ATATTAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTTATTTTTTATTTTC
Found at i:27255120 original size:32 final size:34
Alignment explanation
Indices: 27255079--27255174 Score: 112
Period size: 32 Copynumber: 2.9 Consensus size: 34
27255069 TTTTTTGTCT
27255079 TTGTAATAAATTAATGTTAATTTTGTTAATTCT-A
1 TTGTAATAAATTAATGTTAATTTT-TTAATTCTCA
*
27255113 -T-TAATAAATTAATGTTATACTTTTTT--TTGTCA
1 TTGTAATAAATTAATGTTA-A-TTTTTTAATTCTCA
27255145 TTGTAATAAATTAATGTTAATTTTATTAAT
1 TTGTAATAAATTAATGTTAATTTT-TTAAT
27255175 AATTCTATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
31 3 0.06
32 21 0.40
33 8 0.15
34 20 0.38
35 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.54
Consensus pattern (34 bp):
TTGTAATAAATTAATGTTAATTTTTTAATTCTCA
Found at i:27255157 original size:34 final size:33
Alignment explanation
Indices: 27255060--27255163 Score: 117
Period size: 34 Copynumber: 3.1 Consensus size: 33
27255050 AGAAATTGTA
27255060 TTATACTTTTTTTTTGTCTTTGTAATAAATTAATG
1 TTATAC-TTTTTTTTGTC-TTGTAATAAATTAATG
*
27255095 TTA-A-TTTTGTTAAT-TCTAT-TAATAAATTAATG
1 TTATACTTTT-TT-TTGTCT-TGTAATAAATTAATG
27255127 TTATACTTTTTTTTGTCATTGTAATAAATTAATG
1 TTATACTTTTTTTTGTC-TTGTAATAAATTAATG
27255161 TTA
1 TTA
27255164 ATTTTATTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
32 22 0.37
33 11 0.19
34 23 0.39
35 3 0.05
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.57
Consensus pattern (33 bp):
TTATACTTTTTTTTGTCTTGTAATAAATTAATG
Found at i:27256268 original size:11 final size:12
Alignment explanation
Indices: 27256254--27256293 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
27256244 TATTTGGATT
27256254 TATTTTATTTT-
1 TATTTTATTTTA
27256265 TATTTTCATTTTA
1 TATTTT-ATTTTA
*
27256278 TTTTTTATTTTA
1 TATTTTATTTTA
27256290 TATT
1 TATT
27256294 AACGAACACG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.24
12 14 0.56
13 5 0.20
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TATTTTATTTTA
Found at i:27256277 original size:17 final size:18
Alignment explanation
Indices: 27256255--27256288 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27256245 ATTTGGATTT
27256255 ATTTTA-TTTTTATTTTC
1 ATTTTATTTTTTATTTTC
27256272 ATTTTATTTTTTATTTT
1 ATTTTATTTTTTATTTT
27256289 ATATTAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTTATTTTTTATTTTC
Found at i:27261991 original size:25 final size:25
Alignment explanation
Indices: 27261920--27262002 Score: 96
Period size: 26 Copynumber: 3.3 Consensus size: 25
27261910 ACAACTCTTA
* *
27261920 TGAGCGTCCCGATAAATGGCTCTTTG
1 TGAGCTTCCC-ATTAATGGCTCTTTG
* *
27261946 TGAGCTTCCTAATTAAAGGCTCTTTG
1 TGAGCTTCC-CATTAATGGCTCTTTG
*
27261972 TGAGCTTCCCATTAATGGCTCTCTG
1 TGAGCTTCCCATTAATGGCTCTTTG
27261997 -GAGCTT
1 TGAGCTT
27262003 TCCGATACAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
24 6 0.12
25 13 0.27
26 30 0.61
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (25 bp):
TGAGCTTCCCATTAATGGCTCTTTG
Found at i:27262005 original size:25 final size:26
Alignment explanation
Indices: 27261934--27262002 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
27261924 CGTCCCGATA
27261934 AATGGCTCTTTGTGAGCTTCCTAATT
1 AATGGCTCTTTGTGAGCTTCCTAATT
* *
27261960 AAAGGCTCTTTGTGAGCTTCC-CATT
1 AATGGCTCTTTGTGAGCTTCCTAATT
*
27261985 AATGGCTCTCTG-GAGCTT
1 AATGGCTCTTTGTGAGCTT
27262003 TCCGATACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.15
25 13 0.33
26 20 0.51
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
AATGGCTCTTTGTGAGCTTCCTAATT
Found at i:27262087 original size:24 final size:25
Alignment explanation
Indices: 27262034--27262089 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
27262024 TTCCTAATAT
* * *
27262034 ATGGCTATCCGGAGCTTCCCGATTA
1 ATGGCTCTTCGGAGCTACCCGATTA
27262059 ATGGCTCTTCGGAGCTACCC-ATTA
1 ATGGCTCTTCGGAGCTACCCGATTA
*
27262083 TTGGCTC
1 ATGGCTC
27262090 GCATGAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (25 bp):
ATGGCTCTTCGGAGCTACCCGATTA
Found at i:27262122 original size:73 final size:71
Alignment explanation
Indices: 27261946--27262130 Score: 167
Period size: 73 Copynumber: 2.5 Consensus size: 71
27261936 TGGCTCTTTG
* * *
27261946 TGAGCTTCCTAATTAAAGGCTCTTTGTGAGCTTCCCATTAATGGCTCTCTGGAGCTTTCCGATAC
1 TGAGCTTCCTAATT-AAGGCTC-TTATGAGCTTCCCATTAATGGCTCTCTGGAGCTTACCCATAC
*
27262011 AACTCGCT
64 AACTCGCA
* * * ***
27262019 TGAACTTCCTAATATATGGCTATCCGGAGCTTCCCGATTAATGGCTCT-TCGGAGC-TACCCATT
1 TGAGCTTCCTAAT-TAAGGCTCTTATGAGCTTCCC-ATTAATGGCTCTCT-GGAGCTTACCCA-T
***
27262082 ATTGGCTCGCA
62 A-CAACTCGCA
*
27262093 TGAGCTTCCTAATTAAGGCTCTTATGAGCTTCCTATTA
1 TGAGCTTCCTAATTAAGGCTCTTATGAGCTTCCCATTA
27262131 TATATCCCGA
Statistics
Matches: 88, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
72 19 0.22
73 51 0.58
74 18 0.20
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (71 bp):
TGAGCTTCCTAATTAAGGCTCTTATGAGCTTCCCATTAATGGCTCTCTGGAGCTTACCCATACAA
CTCGCA
Found at i:27262172 original size:25 final size:24
Alignment explanation
Indices: 27262144--27262227 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
27262134 ATCCCGAATA
27262144 AGCTTCCCGTTACATGGCTCATATG
1 AGCTTCCCGTTA-ATGGCTCATATG
** * *
27262169 AGCTTCATGTTATATGGTTCGA-AAG
1 AGCTTCCCGTTA-ATGGCTC-ATATG
*
27262194 AGCTTCCCGTTAA-GTGCTCGTATG
1 AGCTTCCCGTTAATG-GCTCATATG
27262218 AGCATTCCCG
1 AGC-TTCCCG
27262228 AATCTGAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.02
24 9 0.20
25 34 0.76
26 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (24 bp):
AGCTTCCCGTTAATGGCTCATATG
Found at i:27269755 original size:30 final size:30
Alignment explanation
Indices: 27269719--27269787 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
27269709 ACCATACATT
27269719 TAGTTTTAGGACTTTGACTTTGAATTTGAC
1 TAGTTTTAGGACTTTGACTTTGAATTTGAC
*
27269749 TAGTTTTAGGACTTTGACTTTGACTTTGAC
1 TAGTTTTAGGACTTTGACTTTGAATTTGAC
27269779 TAGTGTTTA
1 TAGT-TTTA
27269788 TAAAATAGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (30 bp):
TAGTTTTAGGACTTTGACTTTGAATTTGAC
Found at i:27271183 original size:80 final size:80
Alignment explanation
Indices: 27271091--27271249 Score: 309
Period size: 80 Copynumber: 2.0 Consensus size: 80
27271081 TTAAAACTCT
*
27271091 TCTAAAAGAAAACTCAAGAGAAATTATTTAAAAGAAAACTTAAGAGAAATTCTTTAAAATAAAAC
1 TCTAAAAAAAAACTCAAGAGAAATTATTTAAAAGAAAACTTAAGAGAAATTCTTTAAAATAAAAC
27271156 TCAAAGAGAATTTTC
66 TCAAAGAGAATTTTC
27271171 TCTAAAAAAAAACTCAAGAGAAATTATTTAAAAGAAAACTTAAGAGAAATTCTTTAAAATAAAAC
1 TCTAAAAAAAAACTCAAGAGAAATTATTTAAAAGAAAACTTAAGAGAAATTCTTTAAAATAAAAC
27271236 TCAAAGAGAATTTT
66 TCAAAGAGAATTTT
27271250 ATTAACTCAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.26
Consensus pattern (80 bp):
TCTAAAAAAAAACTCAAGAGAAATTATTTAAAAGAAAACTTAAGAGAAATTCTTTAAAATAAAAC
TCAAAGAGAATTTTC
Found at i:27271247 original size:26 final size:26
Alignment explanation
Indices: 27271088--27271245 Score: 199
Period size: 26 Copynumber: 5.9 Consensus size: 26
27271078 TTGTTAAAAC
27271088 TCTTCTAAAAGAAAACTCAAGAGAAAT
1 TCTT-TAAAAGAAAACTCAAGAGAAAT
* *
27271115 TATTTAAAAGAAAACTTAAGAGAAAT
1 TCTTTAAAAGAAAACTCAAGAGAAAT
* *
27271141 TCTTTAAAATAAAACTCAAAGAGAATTT
1 TCTTTAAAAGAAAACTC-AAGAGAA-AT
* *
27271169 TCTCTAAAAAAAAACTCAAGAGAAAT
1 TCTTTAAAAGAAAACTCAAGAGAAAT
* *
27271195 TATTTAAAAGAAAACTTAAGAGAAAT
1 TCTTTAAAAGAAAACTCAAGAGAAAT
*
27271221 TCTTTAAAATAAAACTCAAAGAGAA
1 TCTTTAAAAGAAAACTC-AAGAGAA
27271246 TTTTATTAAC
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 72 0.64
27 24 0.21
28 16 0.14
ACGTcount: A:0.55, C:0.10, G:0.09, T:0.25
Consensus pattern (26 bp):
TCTTTAAAAGAAAACTCAAGAGAAAT
Found at i:27271252 original size:54 final size:52
Alignment explanation
Indices: 27271093--27271245 Score: 189
Period size: 54 Copynumber: 2.9 Consensus size: 52
27271083 AAAACTCTTC
* * * * *
27271093 TAAAAGAAAACTCAAGAGAAATTATTTAAAAGAAAACTTAAGAGAAATTCTT
1 TAAAAGAAAACTAAAGAGAAATTCTTTAAAAAAAAACTCAAGAGAAATTATT
* * *
27271145 TAAAATAAAACTCAAAGAGAATTTTCTCTAAAAAAAAACTCAAGAGAAATTATT
1 TAAAAGAAAACT-AAAGAGAA-ATTCTTTAAAAAAAAACTCAAGAGAAATTATT
* *
27271199 TAAAAGAAAACTTAAGAGAAATTCTTTAAAATAAAACTCAAAGAGAA
1 TAAAAGAAAACTAAAGAGAAATTCTTTAAAAAAAAACTC-AAGAGAA
27271246 TTTTATTAAC
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
52 27 0.32
53 21 0.25
54 37 0.44
ACGTcount: A:0.57, C:0.09, G:0.10, T:0.24
Consensus pattern (52 bp):
TAAAAGAAAACTAAAGAGAAATTCTTTAAAAAAAAACTCAAGAGAAATTATT
Found at i:27274100 original size:43 final size:42
Alignment explanation
Indices: 27274039--27274247 Score: 192
Period size: 43 Copynumber: 4.9 Consensus size: 42
27274029 TCTGATATGT
*
27274039 GATTTCTTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-A
* **
27274082 GATTTCGTGTAAGACCACGTCTGGAACGTTGGTGTCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-A
* * * * *
27274125 GGTTTACGTGTAAGAGCATGTCTGGGACATTGGCATC-ATATA
1 GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTA
* *
27274167 TGATTTCGTGTAAGACC-CTGCCTGGGACAG-TGGCATCAATAGTT-
1 -GATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT--TTA
* * *
27274211 GATTACATGTAAGACCACGTCTAGGACGTTGGCATCG
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCG
27274248 TACGAGCTTT
Statistics
Matches: 134, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
42 27 0.20
43 80 0.60
44 26 0.19
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTA
Found at i:27274192 original size:42 final size:42
Alignment explanation
Indices: 27274128--27274227 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
27274118 GATTTGAGGT
* * *
27274128 TTACGTGTAAGAGCATGTCTGGGACATTGGCATCATATA-TGA
1 TTACGTGTAAGACCATGCCTGGGACAGTGGCATCA-ATAGTGA
* *
27274170 TTTCGTGTAAGACCCTGCCTGGGACAGTGGCATCAATAGTTGA
1 TTACGTGTAAGACCATGCCTGGGACAGTGGCATCAATAG-TGA
*
27274213 TTACATGTAAGACCA
1 TTACGTGTAAGACCA
27274228 CGTCTAGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.06
42 30 0.62
43 15 0.31
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TTACGTGTAAGACCATGCCTGGGACAGTGGCATCAATAGTGA
Found at i:27275111 original size:9 final size:9
Alignment explanation
Indices: 27275097--27275122 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27275087 CTGAGTATAT
27275097 ATGTTTGTG
1 ATGTTTGTG
27275106 ATGTTTGTG
1 ATGTTTGTG
27275115 ATGTTTGT
1 ATGTTTGT
27275123 TATATGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.31, T:0.58
Consensus pattern (9 bp):
ATGTTTGTG
Found at i:27280962 original size:27 final size:27
Alignment explanation
Indices: 27280932--27281141 Score: 246
Period size: 27 Copynumber: 7.9 Consensus size: 27
27280922 GGTATAACAA
* *
27280932 TCATTTTACCCTATAGGGATATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
**
27280959 TCATTTTACCCTATGGGGGTATTTCTT
1 TCATTTTACCCTATGGGGGTATTTCGG
* **
27280986 TCATTCTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
27281013 TTACTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
27281040 TCATTTTACCCTAT-GGGG--TTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
27281064 TCATTTTACCCTATGAAGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
27281091 TCATTCTACCCTATGGGGTTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
27281118 TCACTTTACCCTATGGAGGTATTT
1 TCATTTTACCCTATGGGGGTATTT
27281142 TGATCATAAC
Statistics
Matches: 155, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
24 20 0.13
25 2 0.01
26 4 0.03
27 129 0.83
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:27281106 original size:105 final size:107
Alignment explanation
Indices: 27280932--27281141 Score: 291
Period size: 105 Copynumber: 2.0 Consensus size: 107
27280922 GGTATAACAA
** *
27280932 TCATTTTACCCTATAGGGATATTTCGGTCATTTTACCCTATGGGGGTATTTCTTTCATTCTACCC
1 TCATTTTACCCTATAGGGA-ATTTCGGTCATTTTACCCTATGAAGGTATTTCTGTCATTCTACCC
* *
27280997 TATGGGGGTATTTCAATTACTTTACCCTATGGGGGTATTTCGG
65 TATGGGGGTATTTCAATCACTTTACCCTATGGAGGTATTTCGG
*
27281040 TCATTTTACCCTAT-GGG-GTTTCGGTCATTTTACCCTATGAAGGTATTT-TGGTCATTCTACCC
1 TCATTTTACCCTATAGGGAATTTCGGTCATTTTACCCTATGAAGGTATTTCT-GTCATTCTACCC
* ***
27281102 TATGGGGTTATTTTGGTCACTTTACCCTATGGAGGTATTT
65 TATGGGGGTATTTCAATCACTTTACCCTATGGAGGTATTT
27281142 TGATCATAAC
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
104 1 0.01
105 73 0.80
107 3 0.03
108 14 0.15
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.42
Consensus pattern (107 bp):
TCATTTTACCCTATAGGGAATTTCGGTCATTTTACCCTATGAAGGTATTTCTGTCATTCTACCCT
ATGGGGGTATTTCAATCACTTTACCCTATGGAGGTATTTCGG
Found at i:27287707 original size:9 final size:9
Alignment explanation
Indices: 27287693--27287723 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27287683 GTTAAACGAA
27287693 TCGAGTTAT
1 TCGAGTTAT
*
27287702 TCGAGTTAA
1 TCGAGTTAT
27287711 TCGAGTTAT
1 TCGAGTTAT
27287720 TCGA
1 TCGA
27287724 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:27287795 original size:9 final size:9
Alignment explanation
Indices: 27287778--27287814 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27287768 TGAGTTTTCG
27287778 AATTCGAAT
1 AATTCGAAT
*
27287787 AACTCGAAT
1 AATTCGAAT
27287796 AATTCGAAT
1 AATTCGAAT
27287805 AATTCGAAT
1 AATTCGAAT
27287814 A
1 A
27287815 TCCAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:27290001 original size:36 final size:37
Alignment explanation
Indices: 27289954--27290049 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
27289944 GTCTCCAAAT
* *
27289954 TCACATTTCAATTCAATTCCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAATTCCACTTTTCCACTTTCAAG
*
27289990 TCACAATTCAATTCAAAATT-CACTTTTCCATTTTCAAG
1 TCACAATTCAATTC--AATTCCACTTTTCCACTTTCAAG
27290028 TCA-ATATTCAATTCAATTCCAC
1 TCACA-ATTCAATTCAATTCCAC
27290050 ACATATATTC
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
36 17 0.33
37 19 0.37
38 16 0.31
ACGTcount: A:0.32, C:0.26, G:0.01, T:0.41
Consensus pattern (37 bp):
TCACAATTCAATTCAATTCCACTTTTCCACTTTCAAG
Found at i:27290037 original size:38 final size:38
Alignment explanation
Indices: 27289954--27290043 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
27289944 GTCTCCAAAT
* *
27289954 TCACATTTCAATTC--AATTCCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAAAATTCCACTTTTCCACTTTCAA
*
27289990 TCACAATTCAATTCAAAATT-CACTTTTCCATTTTCAA
1 TCACAATTCAATTCAAAATTCCACTTTTCCACTTTCAA
27290027 GTCA-ATATTCAATTCAA
1 -TCACA-ATTCAATTCAA
27290044 TTCCACACAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.28
37 16 0.34
38 18 0.38
ACGTcount: A:0.33, C:0.24, G:0.01, T:0.41
Consensus pattern (38 bp):
TCACAATTCAATTCAAAATTCCACTTTTCCACTTTCAA
Found at i:27290074 original size:23 final size:22
Alignment explanation
Indices: 27290031--27290074 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
27290021 TTTCAAGTCA
27290031 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
27290054 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
27290075 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:27290941 original size:14 final size:14
Alignment explanation
Indices: 27290899--27290933 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
27290889 GCCTCTGTTC
27290899 TTTCTTTCTTTT-T
1 TTTCTTTCTTTTGT
27290912 GTTTCTTTCTTTTGT
1 -TTTCTTTCTTTTGT
27290927 TTTCTTT
1 TTTCTTT
27290934 TATTTGTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTTGT
Found at i:27291105 original size:14 final size:17
Alignment explanation
Indices: 27291086--27291123 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
27291076 ATTTATTTCT
27291086 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
27291100 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
27291117 TAATATA
1 TAATATA
27291124 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:27293692 original size:83 final size:83
Alignment explanation
Indices: 27293591--27293887 Score: 242
Period size: 82 Copynumber: 3.5 Consensus size: 83
27293581 ATCAATTTTA
* * **
27293591 TTAAACGAC-AGAATTAAATCCTGAAACAAATTTATTTGA-TTAAGTCTTTGTTTGGAAACAAAA
1 TTAAACGGCGAGAA-TAAATCCTGAAACAAATTTATTTAATTTAAGTC-TAATTTGGAAACAAAA
* **
27293654 TTAGGATCGAATAAAATCTG
64 TCAAAATCGAATAAAATCTG
* * *
27293674 TTAAACGGCGAGAATAAAT-CTCGAAACAGA-TTATTCAATTTAATTCTAATTTGGAAACAAAAT
1 TTAAACGGCGAGAATAAATCCT-GAAACAAATTTATTTAATTTAAGTCTAATTTGGAAACAAAAT
27293737 CAAAATCGAATAAAATCTG
65 CAAAATCGAATAAAATCTG
* * * * ** * *
27293756 TTAAATGGCGAGAATAAATCCCGAAACAAATTTTATTTCATTTTAATTTCTCTTTTGGCAATAAA
1 TTAAACGGCGAGAATAAATCCTGAAACAAA-TTTATTT-AATTTAA-GTCTAATTTGGAAACAAA
* * *
27293821 ATAAAAATTGGAATAAAATATG
63 ATCAAAA-TCGAATAAAATCTG
* * * * ** *
27293843 TTAAATGGCGGGAAAAAATCCCGAAGTAGATTTTATTTAATTTAA
1 TTAAACGGCGAGAATAAATCCTGAAACA-AATTTATTTAATTTAA
27293888 TTACTCGTTT
Statistics
Matches: 176, Mismatches: 28, Indels: 17
0.80 0.13 0.08
Matches are distributed among these distances:
82 64 0.36
83 27 0.15
84 9 0.05
85 6 0.03
86 26 0.15
87 43 0.24
88 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.32
Consensus pattern (83 bp):
TTAAACGGCGAGAATAAATCCTGAAACAAATTTATTTAATTTAAGTCTAATTTGGAAACAAAATC
AAAATCGAATAAAATCTG
Found at i:27293852 original size:87 final size:86
Alignment explanation
Indices: 27293641--27293898 Score: 292
Period size: 82 Copynumber: 3.0 Consensus size: 86
27293631 TAAGTCTTTG
* ** * *
27293641 TTTGGAAACAAAATTAGGATCGAATAAAATCTGTTAAACGGCGAGAATAAATCTCGAAACAGA--
1 TTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAGATT
**
27293704 TTA-TTCAATTTAA-TTCTAA
66 TTATTTCAATTTAATTTCTCT
* *
27293723 TTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAAATT
1 TTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAGATT
*
27293788 TTATTTCATTTTAATTTCTCT
66 TTATTTCAATTTAATTTCTCT
* * * * * * **
27293809 TTTGGCAATAAAATAAAAATTGGAATAAAATATGTTAAATGGCGGGAAAAAATCCCGAAGTAGAT
1 TTTGGAAACAAAATAAAAA-TCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAGAT
*
27293874 TTTATTT-AATTTAATTACTCGT
65 TTTATTTCAATTTAATTTCTC-T
27293896 TTT
1 TTT
27293899 TATTTAATTT
Statistics
Matches: 149, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
82 57 0.38
84 3 0.02
85 9 0.06
86 31 0.21
87 49 0.33
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (86 bp):
TTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAGATT
TTATTTCAATTTAATTTCTCT
Found at i:27293902 original size:23 final size:23
Alignment explanation
Indices: 27293873--27293921 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
27293863 CCGAAGTAGA
27293873 TTTTATTTAA-TTTAATTACTCGT
1 TTTTATTTAATTTTAA-TACTCGT
27293896 TTTTATTTAATTTTAATACTCGT
1 TTTTATTTAATTTTAATACTCGT
27293919 TTT
1 TTT
27293922 AGAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTATTTAATTTTAATACTCGT
Found at i:27293929 original size:110 final size:109
Alignment explanation
Indices: 27293786--27293997 Score: 266
Period size: 110 Copynumber: 1.9 Consensus size: 109
27293776 CCGAAACAAA
* * * * * *
27293786 TTTTATTTCATTTTAATTTCTCTTTTGGCAATAAAATAAAAATTGGAATAAAATATGTTAAATGG
1 TTTTATTTAATTTTAATTACTCTTTTAGAAATAAAATAAAAATTGGAATAAAACATGTT-AACGG
**
27293851 CGGGAAA-AAATCCCGAAGTAGATTTTATTTAATTTAATTACTCGT
65 C-GGAAATAAATCCCGAAACAGATTTTATTTAATTTAATTACTCGT
* * *
27293896 TTTTATTTAATTTTAA-TACTCGTTTTAGAAATAAAATCAAAATTGGAATAATACATGTTGACGG
1 TTTTATTTAATTTTAATTACTC-TTTTAGAAATAAAATAAAAATTGGAATAAAACATGTTAACGG
* *
27293960 CTGAAATAAATCTCGAAACAGATTTTATTTAATTTAAT
65 CGGAAATAAATCCCGAAACAGATTTTATTTAATTTAAT
27293998 GTTAATTTTG
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
108 4 0.05
109 36 0.41
110 47 0.54
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.41
Consensus pattern (109 bp):
TTTTATTTAATTTTAATTACTCTTTTAGAAATAAAATAAAAATTGGAATAAAACATGTTAACGGC
GGAAATAAATCCCGAAACAGATTTTATTTAATTTAATTACTCGT
Found at i:27294032 original size:38 final size:39
Alignment explanation
Indices: 27293981--27294056 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
27293971 CTCGAAACAG
*
27293981 ATTTTATTTAA-TTTAAT-GTTAATTTTGGAAATAAAATA
1 ATTTTATTTAATTTTAATACTT-ATTTTGGAAATAAAATA
*
27294019 ATTTTATTTAATTTTAATACTTGTTTTGGAAATAAAAT
1 ATTTTATTTAATTTTAATACTTATTTTGGAAATAAAAT
27294057 TAAAATTGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 11 0.32
39 21 0.62
40 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.51
Consensus pattern (39 bp):
ATTTTATTTAATTTTAATACTTATTTTGGAAATAAAATA
Found at i:27294113 original size:87 final size:86
Alignment explanation
Indices: 27294019--27294296 Score: 301
Period size: 87 Copynumber: 3.2 Consensus size: 86
27294009 AAATAAAATA
* * *
27294019 ATTTTATTTAATTTTAATACTTGTTTTGGAAATAAAATTAAAATTGGAATAAAATCTGTTAAACG
1 ATTTTATTTAATTTTAATACTCGTTTTGGAAATAAAATAAAAAATGGAATAAAATC-GTTAAACG
* * * *
27294084 GTAGGGATAAATCACAAAATAT
65 GTAGGAATAAATCTCAAAACAG
* * *
27294106 ATTTTATTTAATTTAAATACTCGTTTTGGAAATAAAATAAAAAATGGAATAAAAATCATTGAACG
1 ATTTTATTTAATTTTAATACTCGTTTTGGAAATAAAATAAAAAATGGAAT-AAAATCGTTAAACG
**
27294171 GT-GAGAATAAATCTTGAAACAG
65 GTAG-GAATAAATCTCAAAACAG
* * * * *
27294193 ATTTTATTT-ATCTTTAATTCTCG-TTTAGAAATAAAATCAGAAGTGGAATAAAATCCGTTAAAC
1 ATTTTATTTAAT-TTTAATACTCGTTTTGGAAATAAAATAAAAAATGGAATAAAAT-CGTTAAAC
* * *
27294256 TGCAGGAATAAATCTCGAAACAG
64 GGTAGGAATAAATCTCAAAACAG
*
27294279 ATTTTATTTAACTTTAAT
1 ATTTTATTTAATTTTAAT
27294297 TTTTATTTTC
Statistics
Matches: 161, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
85 5 0.03
86 64 0.40
87 86 0.53
88 6 0.04
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (86 bp):
ATTTTATTTAATTTTAATACTCGTTTTGGAAATAAAATAAAAAATGGAATAAAATCGTTAAACGG
TAGGAATAAATCTCAAAACAG
Found at i:27297513 original size:183 final size:184
Alignment explanation
Indices: 27297197--27297531 Score: 464
Period size: 183 Copynumber: 1.8 Consensus size: 184
27297187 AGAATTCAGA
* * *
27297197 ACACCCAATGGACAAACACTAAACCTGAGCCCCAAAAACATGCCCAGTTTTCTATGTTCCCTAGG
1 ACACCCAATAGACAAACACTAAACCTGAGCCCCAAAAACAAGCCCAGTTTTCTATGCTCCCTAGG
* * * * *
27297262 TTTATGCACATGGAAACACATCATCCCATTAACCCGATATTTTACCAAGCTCTTCCTCACGACCC
66 TTTATACACATGAAAACACATCACCCCATTAACCCAATATTTTACCAAACTCTTCCTCACGACCC
*
27297327 TACAAAAGTCA-TTCCTATACAAACATGCCACAGAAATTACCAAACTCTTCCTC
131 TACAAAACTCATTTCCTATACAAACATGCCACAGAAATTACCAAACTCTTCCTC
* *
27297380 ACACCCAATAGACAAGCACTAAA-CTCGAG-CCCAAAAACAAGCGCAGTTTTCTATGCTCCCTAG
1 ACACCCAATAGACAAACACTAAACCT-GAGCCCCAAAAACAAGCCCAGTTTTCTATGCTCCCTAG
* * * *
27297443 GTTTGA-ACACTTGAAATACACTTTACCCCATTAACCCAATATTTTACCAAATTCTTCCTCAC-A
65 GTTT-ATACACATGAAA-ACACATCACCCCATTAACCCAATATTTTACCAAACTCTTCCTCACGA
27297506 CCCCTACAAAACTCATTTCCTATACA
128 -CCCTACAAAACTCATTTCCTATACA
27297532 GAGACCCCAT
Statistics
Matches: 132, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
182 45 0.34
183 77 0.58
184 10 0.08
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.25
Consensus pattern (184 bp):
ACACCCAATAGACAAACACTAAACCTGAGCCCCAAAAACAAGCCCAGTTTTCTATGCTCCCTAGG
TTTATACACATGAAAACACATCACCCCATTAACCCAATATTTTACCAAACTCTTCCTCACGACCC
TACAAAACTCATTTCCTATACAAACATGCCACAGAAATTACCAAACTCTTCCTC
Found at i:27300179 original size:20 final size:20
Alignment explanation
Indices: 27300143--27300209 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
27300133 TTATAAAATA
* *
27300143 TTTAAAGTTATAGCAAATTT
1 TTTAAAGATATATCAAATTT
* * **
27300163 TTTAAGGATGTATCAAAAAT
1 TTTAAAGATATATCAAATTT
*
27300183 TTTAAAGTTATATCAAATTT
1 TTTAAAGATATATCAAATTT
27300203 TCTTAAA
1 T-TTAAA
27300210 CTTTTACTTA
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
20 30 0.86
21 5 0.14
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (20 bp):
TTTAAAGATATATCAAATTT
Found at i:27300325 original size:21 final size:20
Alignment explanation
Indices: 27300308--27300350 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
27300298 ATACTAAATG
27300308 GTTTACCAAAATTTCTAAAA
1 GTTTACCAAAATTTCTAAAA
* *
27300328 GTTTACTAGAATTTCT-AAA
1 GTTTACCAAAATTTCTAAAA
27300347 GTTT
1 GTTT
27300351 TTCTTAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (20 bp):
GTTTACCAAAATTTCTAAAA
Found at i:27325663 original size:4 final size:4
Alignment explanation
Indices: 27325654--27325758 Score: 201
Period size: 4 Copynumber: 26.2 Consensus size: 4
27325644 AAAAATTCCA
27325654 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
27325702 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
27325750 ACAT ACAT A
1 ACAT ACAT A
27325759 ATTTATCTAA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 99 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:27327009 original size:16 final size:16
Alignment explanation
Indices: 27326984--27327014 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27326974 GCATTCGCAA
*
27326984 GCACATATGGTGAACT
1 GCACAAATGGTGAACT
27327000 GCACAAATGGTGAAC
1 GCACAAATGGTGAAC
27327015 AGTCCAAGTG
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:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (16 bp):
GCACAAATGGTGAACT
Found at i:27331668 original size:30 final size:31
Alignment explanation
Indices: 27331632--27331711 Score: 119
Period size: 30 Copynumber: 2.6 Consensus size: 31
27331622 GTAACCTCGA
27331632 TATAATGTCAGCTTGTGTGAACAACTCT-AT
1 TATAATGTCAGCTTGTGTGAACAACTCTGAT
* *
27331662 TATAATGTCAGCTTGTATGAACAATTCTGAT
1 TATAATGTCAGCTTGTGTGAACAACTCTGAT
*
27331693 T-TATTGTCAGCTTGTGTGA
1 TATAATGTCAGCTTGTGTGA
27331712 GTAACTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 42 0.93
31 3 0.07
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (31 bp):
TATAATGTCAGCTTGTGTGAACAACTCTGAT
Found at i:27334010 original size:43 final size:43
Alignment explanation
Indices: 27333932--27334088 Score: 235
Period size: 43 Copynumber: 3.7 Consensus size: 43
27333922 ATGTTCCAAT
27333932 ATCGATTTGAGATTTCGTG-AAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* * *
27333974 ATTGATTTGAGATTTCGTGTAAGACCATAACTGGGCTATTGAC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
*
27334017 ATCGATTTGAGATTTAGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
** *
27334060 ATCGATACGAGATTTCCATGTAAGACCAT
1 ATCGATTTGAGATTT-CGTGTAAGACCAT
27334089 GTTTGGGACA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
42 18 0.18
43 73 0.72
44 11 0.11
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:27336657 original size:160 final size:160
Alignment explanation
Indices: 27336393--27336713 Score: 617
Period size: 160 Copynumber: 2.0 Consensus size: 160
27336383 AATTTGAATC
27336393 TGTGTAAGTCTTTTTCATGGTTTTTTCCTCTTAAATTGTTTTATTTATAATATTATTATTTTAAT
1 TGTGTAAGTCTTTTTCATGGTTTTTTCCTCTTAAATTGTTTTATTTATAATATTATTATTTTAAT
27336458 AAATAAATTTCATGTTAGGAAATGAGAAAAATATCTATTCATTTATTTATAAATATTTTTATAAT
66 AAATAAATTTCATGTTAGGAAATGAGAAAAATATCTATTCATTTATTTATAAATATTTTTATAAT
27336523 TTTGTATGT-ATTTTTATCGAAACATAAACT
131 TTTGTATGTAATTTTTATCGAAA-ATAAACT
27336553 TGTGTAAGTCTTTTTCATGGTTTTTTCCTCTTAAATTGTTTTATTTATAATATTATTATTTTAAT
1 TGTGTAAGTCTTTTTCATGGTTTTTTCCTCTTAAATTGTTTTATTTATAATATTATTATTTTAAT
27336618 AAATAAATTTCATGTTAGGAAATGAGAAAAATATCTATTCATTTATTTATAAATATTTTTATAAT
66 AAATAAATTTCATGTTAGGAAATGAGAAAAATATCTATTCATTTATTTATAAATATTTTTATAAT
*
27336683 TTTGTATGTAATTTTTATCGAAAATGAACT
131 TTTGTATGTAATTTTTATCGAAAATAAACT
27336713 T
1 T
27336714 TTAAATAATT
Statistics
Matches: 159, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
160 146 0.92
161 13 0.08
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.51
Consensus pattern (160 bp):
TGTGTAAGTCTTTTTCATGGTTTTTTCCTCTTAAATTGTTTTATTTATAATATTATTATTTTAAT
AAATAAATTTCATGTTAGGAAATGAGAAAAATATCTATTCATTTATTTATAAATATTTTTATAAT
TTTGTATGTAATTTTTATCGAAAATAAACT
Found at i:27336751 original size:20 final size:19
Alignment explanation
Indices: 27336723--27336761 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
27336713 TTTAAATAAT
*
27336723 TTTTTATTTTAAAAGTTTTA
1 TTTTAATTTTAAAA-TTTTA
27336743 TTTTAATTTTAAAATTTTA
1 TTTTAATTTTAAAATTTTA
27336762 GGAATCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTAATTTTAAAATTTTA
Found at i:27337265 original size:5 final size:5
Alignment explanation
Indices: 27337259--27337298 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
27337249 GTCGGATCGG
*
27337259 TTTGG TTTGAT TTTGT TTTGT TTTGT TTTGT TTTGT TTTG
1 TTTGT TTTG-T TTTGT TTTGT TTTGT TTTGT TTTGT TTTG
27337299 GGGCAATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.03, C:0.00, G:0.23, T:0.75
Consensus pattern (5 bp):
TTTGT
Found at i:27342679 original size:40 final size:38
Alignment explanation
Indices: 27342635--27342741 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 38
27342625 GATAAAGCAG
*
27342635 GAAAACACTTCCTTGAGGAAGCGTTTTGTCCACGTGGAC
1 GAAAACGCTTCCTTGAGGAA-CGTTTTGTCCACGTGGAC
* *
27342674 AGAAAACGCGTCCTTGAGGGCACGCTTTGTGTCCACGTGGAC
1 -GAAAACGCTTCCTTGA-GGAACG-TTT-TGTCCACGTGGAC
**
27342716 -AAAGTGCTTCCTTGAGGAAACGTTTT
1 GAAAACGCTTCCTTGAGG-AACGTTTT
27342742 CCTCGTGTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
38 1 0.02
39 5 0.09
40 31 0.55
41 6 0.11
42 13 0.23
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (38 bp):
GAAAACGCTTCCTTGAGGAACGTTTTGTCCACGTGGAC
Found at i:27344603 original size:30 final size:30
Alignment explanation
Indices: 27344567--27344653 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
27344557 ACGATGCAGG
*
27344567 CCCATCAACAACGCCCACACAATTACTC-GA
1 CCCATCAACAACGCCCACACAATCAC-CAGA
* * *
27344597 CCCATCAACAGCGCCCATACAATCACCAGG
1 CCCATCAACAACGCCCACACAATCACCAGA
* * *
27344627 CCCAGCAACAACACCCACACAGTCACC
1 CCCATCAACAACGCCCACACAATCACC
27344654 GAGCCCGACA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 1 0.02
30 46 0.98
ACGTcount: A:0.36, C:0.46, G:0.09, T:0.09
Consensus pattern (30 bp):
CCCATCAACAACGCCCACACAATCACCAGA
Found at i:27344750 original size:18 final size:18
Alignment explanation
Indices: 27344714--27344756 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27344704 TGCCAAATGC
*
27344714 GTATCCTAGCCCATTTAT
1 GTATCCTAACCCATTTAT
27344732 GTATCCTAACCC-TTATAT
1 GTATCCTAACCCATT-TAT
*
27344750 GTTTCCT
1 GTATCCT
27344757 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCATTTAT
Found at i:27345359 original size:38 final size:39
Alignment explanation
Indices: 27345298--27345376 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 39
27345288 ATATTTTATA
27345298 TTATTTCATTTAATAAAATATAAATAATAAAACATAGTT
1 TTATTTCATTTAATAAAATATAAATAATAAAACATAGTT
27345337 TTATTTCATTT-ATAAAATATAAATAATAAAACATAGTT
1 TTATTTCATTTAATAAAATATAAATAATAAAACATAGTT
27345375 TT
1 TT
27345377 TTTACAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 29 0.73
39 11 0.28
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (39 bp):
TTATTTCATTTAATAAAATATAAATAATAAAACATAGTT
Found at i:27352224 original size:14 final size:14
Alignment explanation
Indices: 27352176--27352227 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 14
27352166 TTTTTCTTGA
27352176 TCAAAATTAATTTT
1 TCAAAATTAATTTT
27352190 CTCAAAAATACTAAGATTTT
1 -TC-AAAAT--T-A-ATTTT
27352210 TCAAAATTAATTTT
1 TCAAAATTAATTTT
27352224 TCAA
1 TCAA
27352228 GAAAATTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.28
15 3 0.09
16 6 0.19
18 6 0.19
19 3 0.09
20 5 0.16
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (14 bp):
TCAAAATTAATTTT
Found at i:27357614 original size:17 final size:17
Alignment explanation
Indices: 27357594--27357632 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
27357584 TTTGTATGTT
* *
27357594 TTATTTAACTTATTTTA
1 TTATTTAACATATATTA
27357611 TTATTTAACATATATTA
1 TTATTTAACATATATTA
27357628 TTATT
1 TTATT
27357633 AAATAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTAACATATATTA
Found at i:27361589 original size:30 final size:30
Alignment explanation
Indices: 27361553--27361617 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
27361543 CAACTTAACA
*
27361553 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
27361583 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
27361613 AACAA
1 AACAA
27361618 TAAAACCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.22
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:27362345 original size:51 final size:51
Alignment explanation
Indices: 27362269--27362374 Score: 194
Period size: 51 Copynumber: 2.1 Consensus size: 51
27362259 TATTTATCCC
27362269 AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
1 AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
* *
27362320 AAAAATATATTATCAAATTGGATAAGTTACATTTGGTATCTGTACTTTCAT
1 AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
27362371 AAAA
1 AAAA
27362375 TGTCCAATGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (51 bp):
AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
Found at i:27362458 original size:63 final size:63
Alignment explanation
Indices: 27362353--27362483 Score: 192
Period size: 63 Copynumber: 2.1 Consensus size: 63
27362343 AAGTTACATT
* * * * * *
27362353 TGGTATCTGTACTTTCATAAAATGTCCAATGTGGTACCTGAACTATCTA-TTTGTGTTTTATTA
1 TGGTACCTATACTTTCATAAAATGTCCAATGTAGCACATGAACTATC-AGTATGTGTTTTATTA
27362416 TGGTACCTATACTTTCATAAAATGTCCAATGTAGCACATGAACTATCAGTATGTGTTTTATTA
1 TGGTACCTATACTTTCATAAAATGTCCAATGTAGCACATGAACTATCAGTATGTGTTTTATTA
27362479 TGGTA
1 TGGTA
27362484 TCTAATGTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 1 0.02
63 60 0.98
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (63 bp):
TGGTACCTATACTTTCATAAAATGTCCAATGTAGCACATGAACTATCAGTATGTGTTTTATTA
Found at i:27366771 original size:148 final size:147
Alignment explanation
Indices: 27366503--27366793 Score: 340
Period size: 148 Copynumber: 2.0 Consensus size: 147
27366493 GTCAAATTTT
* *
27366503 AACAATGATTTTTTAATCACTATTATTAATTGTGTTTGTTAATTTAAATATCTTTCATACTTATC
1 AACAATGATTTTTTAATCACTATTATTAATTATCTTTGTTAATTTAAATATCTTTCATACTTATC
* * ***
27366568 ATGATGTATTATTATAATTGTTGTATGTTATTCTATTTTTTAATTTTTTTAAAATTAAAATTATA
66 ATGATGTATCATTATAATTGTTGTATGTTAGTCTATTACCT-ATTTTTTTAAAATTAAAATTATA
*
27366633 GTTAATTTTCTTAATGTC
130 GTTAACTTTCTTAATGTC
* * * *
27366651 AACAATTATTTTTTAATCACTATTATTAAATGTATCTATTAATTTAGTTTAAATATCTTTCATAT
1 AACAATGATTTTTTAATCACTATTATT-AAT-TATCT-TT--GTTAATTTAAATATCTTTCATAC
* * *
27366716 TTATCATGA-GCTATCATTATAATTGTTTTATGTT-GT-T-TTACCT-TTTTTTTCAAATTAACA
61 TTATCATGATG-TATCATTATAATTGTTGTATGTTAGTCTATTACCTATTTTTTTAAAATTAAAA
*
27366776 TTATAGTTTACTTTCTTA
125 TTATAGTTAACTTTCTTA
27366794 TATAGTATAT
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
148 57 0.47
149 3 0.02
150 6 0.05
151 3 0.02
152 2 0.02
153 50 0.41
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.54
Consensus pattern (147 bp):
AACAATGATTTTTTAATCACTATTATTAATTATCTTTGTTAATTTAAATATCTTTCATACTTATC
ATGATGTATCATTATAATTGTTGTATGTTAGTCTATTACCTATTTTTTTAAAATTAAAATTATAG
TTAACTTTCTTAATGTC
Found at i:27367555 original size:25 final size:25
Alignment explanation
Indices: 27367518--27367576 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
27367508 AGAACAGGAT
* *
27367518 AGAGCAAAACATAACAAAATAGAA-C
1 AGAGCAGAGCATAACAAAATA-AAGC
* *
27367543 AGAGTAGAGCATAACATAATAAAGC
1 AGAGCAGAGCATAACAAAATAAAGC
27367568 AGAGCAGAG
1 AGAGCAGAG
27367577 AATGTATGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.56, C:0.14, G:0.20, T:0.10
Consensus pattern (25 bp):
AGAGCAGAGCATAACAAAATAAAGC
Found at i:27367576 original size:30 final size:30
Alignment explanation
Indices: 27367507--27367576 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
27367497 ACAACCCAAC
27367507 CAGAACAG-GATAGAGCAAAACATAACAAAA
1 CAGAACAGAG-TAGAGCAAAACATAACAAAA
* * * *
27367537 TAGAACAGAGTAGAGCATAACATAATAAAG
1 CAGAACAGAGTAGAGCAAAACATAACAAAA
*
27367567 CAGAGCAGAG
1 CAGAACAGAG
27367577 AATGTATGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.21, T:0.10
Consensus pattern (30 bp):
CAGAACAGAGTAGAGCAAAACATAACAAAA
Found at i:27369171 original size:21 final size:21
Alignment explanation
Indices: 27369147--27369189 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
27369137 ACCCTTCAAA
27369147 ATGATCTTAGTCGTACGCAAG
1 ATGATCTTAGTCGTACGCAAG
* *
27369168 ATGATTTTAGTTGTACGCAAG
1 ATGATCTTAGTCGTACGCAAG
27369189 A
1 A
27369190 CCCTGGGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (21 bp):
ATGATCTTAGTCGTACGCAAG
Found at i:27373852 original size:21 final size:21
Alignment explanation
Indices: 27373809--27373863 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
27373799 GGTGGATCAA
* *
27373809 CTCTTACGAGCTTTTGTTAAG
1 CTCTTACGAGCTTCTATTAAG
*
27373830 CTCTTACGAGCTTCTATTCAG
1 CTCTTACGAGCTTCTATTAAG
27373851 CT-TT-CGAGCTTCT
1 CTCTTACGAGCTTCT
27373864 GTTGGTGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 9 0.29
20 2 0.06
21 20 0.65
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.42
Consensus pattern (21 bp):
CTCTTACGAGCTTCTATTAAG
Found at i:27378437 original size:31 final size:31
Alignment explanation
Indices: 27378402--27378464 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
27378392 ACGTAATACT
27378402 TAGTTTCTTGTTCTCAATTATGTGTGATTAA
1 TAGTTTCTTGTTCTCAATTATGTGTGATTAA
*
27378433 TAGTTTCTTGTTCTCAATTATGTGTGCTTAA
1 TAGTTTCTTGTTCTCAATTATGTGTGATTAA
27378464 T
1 T
27378465 TCTTGGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.52
Consensus pattern (31 bp):
TAGTTTCTTGTTCTCAATTATGTGTGATTAA
Found at i:27380267 original size:9 final size:9
Alignment explanation
Indices: 27380255--27380280 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27380245 GAGAGAATAA
27380255 GTTCAACTG
1 GTTCAACTG
27380264 GTTCAACTG
1 GTTCAACTG
27380273 GTTCAACT
1 GTTCAACT
27380281 ATTTTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (9 bp):
GTTCAACTG
Found at i:27385974 original size:19 final size:20
Alignment explanation
Indices: 27385934--27385983 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
27385924 AATTACAAAT
*
27385934 AAATTTAAAATAATTTTCAA
1 AAATTCAAAATAATTTTCAA
27385954 AAATTCAAAAT-ATTTAT-AA
1 AAATTCAAAATAATTT-TCAA
27385973 AAATTCCAAAA
1 AAATT-CAAAA
27385984 ATTATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTCAAAATAATTTTCAA
Found at i:27390859 original size:50 final size:49
Alignment explanation
Indices: 27390715--27393868 Score: 376
Period size: 50 Copynumber: 63.1 Consensus size: 49
27390705 CGGAAAAGTG
*
27390715 AGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-ATA
1 AGATTCGCCTTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAATA
* * * *** * *
27390763 AGATTCGCCGTT-GTGGCTTCGATCTTTTAAACTGTAAT-G-TTGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTG-CATCGCCT-GGGAA-TA
* *
27390813 AAATTCGCCTTCATAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCTTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27390863 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27390913 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27390963 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391013 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391063 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391113 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391163 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391213 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391263 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391313 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391363 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391413 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391463 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391513 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391563 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391613 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391663 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391713 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391763 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391813 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391863 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27391913 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27391963 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392013 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392063 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392113 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392163 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392213 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392263 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392313 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392363 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392413 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392463 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392513 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392563 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392613 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392663 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392713 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392763 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392813 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392863 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27392913 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27392963 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27393013 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27393063 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27393113 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27393163 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27393213 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27393263 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27393313 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27393363 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27393413 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27393463 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27393513 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27393563 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27393613 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27393663 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27393713 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
* * * * **** * * *
27393763 AGATTCACCATT-GTGGCTTCGATCTTTTAAATTACAAT-GTCGGGGAAGTA
1 AGATTCGCC-TTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAA-TA
* * *
27393813 AGATTCG-TTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGGAAATA
1 AGATTCGCCT-TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG-AATA
27393863 AGATTC
1 AGATTC
27393869 ACCATTGTGG
Statistics
Matches: 2177, Mismatches: 681, Indels: 494
0.65 0.20 0.15
Matches are distributed among these distances:
47 1 0.00
48 59 0.03
49 158 0.07
50 1776 0.82
51 154 0.07
52 29 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (49 bp):
AGATTCGCCTTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAATA
Found at i:27390908 original size:100 final size:100
Alignment explanation
Indices: 27390647--27394699 Score: 6974
Period size: 100 Copynumber: 40.6 Consensus size: 100
27390637 CAAGATTCGC
* ** * * * * * **
27390647 TGCATCG-CTAGGGAAATGAGATTTGCCGTTGTGACTTCAATCTTTTGAATTGCAATGTCGGAAA
1 TGCATCGCCT-GGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGA
* ** * *
27390711 AGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGC
65 AGTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* * * ** *
27390747 TGCATCGCCTGGG--ATAAGATTCGCCGTTGTGGCTTCGATCTTTTAAACTGTAATGTTGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
* * ** *
27390810 GTAAAATTCGCCT-TCATAGCTTCAATCTGTTCCGC
66 GTAAGATTCG-TTGTTGTAGCTTCAATCTGTTCCGT
27390845 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27390910 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27390945 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391010 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391045 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391110 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391145 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391210 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391245 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391310 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391345 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391410 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391445 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391510 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391545 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391610 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391645 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391710 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391745 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391810 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391845 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27391910 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27391945 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392010 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392045 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392110 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392145 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392210 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392245 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392310 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392345 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392410 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392445 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392510 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392545 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392610 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392645 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392710 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392745 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392810 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392845 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27392910 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27392945 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27393010 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27393045 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27393110 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27393145 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27393210 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27393245 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27393310 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27393345 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27393410 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27393445 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27393510 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27393545 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27393610 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27393645 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27393710 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
27393745 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
27393810 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* *
27393845 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTGCAATGTCGAGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
* * * * * ***
27393910 GCAAGATCCGCTGTTGTAGTTTCAATTTGTTCAAC
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* *
27393945 TGCA-CTGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTACAATGTCGGGAA
1 TGCATC-GCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGA
27394009 AGTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
65 AGTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* * * *
27394045 TGCATCGCCTGAGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGAGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
* * * * * **
27394110 GCAAGATCCGCTGTTGTTGCTTCAATCTATT-CAA
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* * * *
27394144 TGCA-CTGCTTGGGAAATAAAATTCACCGTTGTGGCTTCGATCTTTTAAATTACAATGTCGAGGA
1 TGCATC-GCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGA
* * * * ***
27394208 AGCAAGATCCGCTGTTGTAGCTTCAATCTATTCAAC
65 AGTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* *
27394244 TGCA-CTGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGA
1 TGCATC-GCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGA
* ***
27394308 AGTAAGATTCGTTGTTGTAGCTTCAATCTATTCAAC
65 AGTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* * *
27394344 TGCA-CTGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGAGA
1 TGCATC-GCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGA
* * *
27394408 AGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCAGC
65 AGTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* * ** * *
27394444 TGCATCG-CTAAGGAAATGAGATTTGCCGTTGTGGCTTCGATCTTTTGAATTACAATGTCGGGGA
1 TGCATCGCCT-GGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGA
* * *
27394508 AGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCTGC
65 AGTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* ** * ** * * ** * * *
27394544 TACATCATCAGGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
* *** * * * *
27394609 GTGAGATTCACCGTCGTAACTTCGATCTGTTCCGC
66 GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
* ** * * * * * *
27394644 TGCATCGCCAGGGAGGTGAGATTTACCGTTGTGGCTTCAATCTTTTGAATTGCAAT
1 TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAAT
27394700 CTATGGTTTT
Statistics
Matches: 3830, Mismatches: 111, Indels: 24
0.97 0.03 0.01
Matches are distributed among these distances:
98 83 0.02
99 95 0.02
100 3647 0.95
101 5 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (100 bp):
TGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTACAATGTCGGGGAA
GTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGT
Found at i:27395872 original size:10 final size:11
Alignment explanation
Indices: 27395857--27395921 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 11
27395847 CATTGGCCTC
27395857 TCCTTTT-TTT
1 TCCTTTTCTTT
27395867 TCCTTTTCTTT
1 TCCTTTTCTTT
* *
27395878 T-CTCTTCTTC
1 TCCTTTTCTTT
27395888 TCCTTCTTCTCTT
1 TCCTT-TTCT-TT
27395901 T-CTTTT-TTT
1 TCCTTTTCTTT
*
27395910 TCTTTTTCTTT
1 TCCTTTTCTTT
27395921 T
1 T
27395922 TGTTTTTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
9 3 0.07
10 20 0.45
11 12 0.27
12 7 0.16
13 2 0.05
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TCCTTTTCTTT
Found at i:27395930 original size:15 final size:15
Alignment explanation
Indices: 27395859--27395922 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
27395849 TTGGCCTCTC
*
27395859 CTTTTTTTTCCTTTT
1 CTTTTTTTTCTTTTT
* *
27395874 C--TTTTCTCTTCTT
1 CTTTTTTTTCTTTTT
** * *
27395887 CTCCTTCTTCTCTTT
1 CTTTTTTTTCTTTTT
27395902 CTTTTTTTTCTTTTT
1 CTTTTTTTTCTTTTT
27395917 CTTTTT
1 CTTTTT
27395923 GTTTTTTTGT
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
13 10 0.29
15 25 0.71
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
CTTTTTTTTCTTTTT
Found at i:27396938 original size:20 final size:20
Alignment explanation
Indices: 27396915--27396953 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
27396905 TGACCTCTCC
27396915 TTTTTC-TCTTTCTTTTTCT
1 TTTTTCTTCTTTCTTTTTCT
27396934 TTTTTCTTCTTTCTTTTTCT
1 TTTTTCTTCTTTCTTTTTCT
27396954 CCTATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCTTCTTTCTTTTTCT
Done.