Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 159 of 173
Found at i:47797723 original size:8 final size:7
Alignment explanation
Indices: 47797694--47797721 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47797684 TTTTAATATA
47797694 AAAATTT
1 AAAATTT
47797701 AAAATTT
1 AAAATTT
47797708 AAAATTT
1 AAAATTT
47797715 AAAATTT
1 AAAATTT
47797722 TATTTTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:47808109 original size:31 final size:32
Alignment explanation
Indices: 47808050--47808112 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
47808040 AAATAAATAA
* *
47808050 TAAATAAAGGACAAATAAAAAAACTGAAAAAG
1 TAAATAAAGGACAAACAAAAAAAATGAAAAAG
*
47808082 TAAATAAAGTA-AAACAAAAAAAATGAAAAAG
1 TAAATAAAGGACAAACAAAAAAAATGAAAAAG
47808113 GACAAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.71, C:0.05, G:0.11, T:0.13
Consensus pattern (32 bp):
TAAATAAAGGACAAACAAAAAAAATGAAAAAG
Found at i:47808145 original size:11 final size:11
Alignment explanation
Indices: 47808116--47808152 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
47808106 GAAAAAGGAC
47808116 AAACAAATAAA
1 AAACAAATAAA
47808127 AGAACAAATAAA
1 A-AACAAATAAA
47808139 AAACAAATAAA
1 AAACAAATAAA
47808150 AAA
1 AAA
47808153 AGCAGGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (11 bp):
AAACAAATAAA
Found at i:47808956 original size:17 final size:17
Alignment explanation
Indices: 47808934--47808991 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
47808924 TTCAACATAC
47808934 TTAAAATTTTAATATAT
1 TTAAAATTTTAATATAT
47808951 TTAAAATTCTTTAAGT-T-T
1 TTAAAA-T-TTTAA-TATAT
47808969 TTAAAATTTTAA-ATAT
1 TTAAAATTTTAATATAT
47808985 ATTAAAA
1 -TTAAAA
47808992 AATATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
15 1 0.03
16 6 0.17
17 13 0.37
18 8 0.23
19 6 0.17
20 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAAAATTTTAATATAT
Found at i:47809072 original size:40 final size:41
Alignment explanation
Indices: 47809013--47809092 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
47809003 ATTTTACGTA
*
47809013 TTAAAAAATATATTAAATATATT-AAAATTTTAATATATTT
1 TTAAAAAATATATTAAATATATTAAAAAATTTAATATATTT
*
47809053 TTAAAAAATATATTGAATATATTAAAAAATTTAATATATT
1 TTAAAAAATATATTAAATATATTAAAAAATTTAATATATT
47809093 ACAATTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 22 0.59
41 15 0.41
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (41 bp):
TTAAAAAATATATTAAATATATTAAAAAATTTAATATATTT
Found at i:47809218 original size:19 final size:18
Alignment explanation
Indices: 47809123--47809233 Score: 77
Period size: 19 Copynumber: 6.1 Consensus size: 18
47809113 TTGTTTATGC
47809123 TTAACATTTTTTAATATAT
1 TTAA-ATTTTTTAATATAT
*
47809142 TT-AATTTTTTAAATAGATT
1 TTAAATTTTTT-AATATA-T
* * *
47809161 ATTAAA--ATTTATTATAC
1 -TTAAATTTTTTAATATAT
47809178 TTAACATTTTTTAATATAT
1 TTAA-ATTTTTTAATATAT
* *
47809197 TTAAATTTTTTAAGTTTTT
1 TTAAATTTTTTAA-TATAT
*
47809216 TTAAA-TTTTAAATATAT
1 TTAAATTTTTTAATATAT
47809233 T
1 T
47809234 AACAAATATA
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
16 4 0.06
17 12 0.17
18 25 0.35
19 26 0.37
20 2 0.03
21 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (18 bp):
TTAAATTTTTTAATATAT
Found at i:47809235 original size:26 final size:28
Alignment explanation
Indices: 47809184--47809235 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
47809174 ATACTTAACA
* *
47809184 TTTTTTAATATATTTAAATTTTTTAAGT
1 TTTTTTAATATATTTAAATATATTAAGT
47809212 TTTTTTAA-AT-TTTAAATATATTAA
1 TTTTTTAATATATTTAAATATATTAA
47809236 CAAATATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 2 0.09
28 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTTTAATATATTTAAATATATTAAGT
Found at i:47809249 original size:67 final size:68
Alignment explanation
Indices: 47809173--47809307 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
47809163 TAAAATTTAT
*
47809173 TATACTTAACATTTTTTAATATATTT-AAATTTTTTAAGTTTTTTTAAATTTTAAATATATTAAC
1 TATACTTAACATTTTTTAATATATTTAAAAATTTTTAAGTTTTTTTAAATTTTAAATATATTAAC
47809237 AAA
66 AAA
47809240 TATACTTAACATTTTTTAATATATTTAAAAATTTTTAAGTTTTTTTAAATTTTAAATATATTAAC
1 TATACTTAACATTTTTTAATATATTTAAAAATTTTTAAGTTTTTTTAAATTTTAAATATATTAAC
47809305 AAA
66 AAA
47809308 ATCTTTTTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 26 0.39
68 40 0.61
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (68 bp):
TATACTTAACATTTTTTAATATATTTAAAAATTTTTAAGTTTTTTTAAATTTTAAATATATTAAC
AAA
Found at i:47809262 original size:19 final size:19
Alignment explanation
Indices: 47809238--47809277 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47809228 TATATTAACA
* *
47809238 AATATACTTAACATTTTTT
1 AATATACTTAAAAATTTTT
*
47809257 AATATATTTAAAAATTTTT
1 AATATACTTAAAAATTTTT
47809276 AA
1 AA
47809278 GTTTTTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATACTTAAAAATTTTT
Found at i:47816359 original size:29 final size:30
Alignment explanation
Indices: 47816298--47816363 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
47816288 AAGTACAGCA
*
47816298 ACTAAAAGTGATCAATTCAAAAAGCATAAAG
1 ACTAAAAGTGATCAAAT-AAAAAGCATAAAG
* * *
47816329 ACTAAAATTGATCAAAT-AAAAGTATAGAG
1 ACTAAAAGTGATCAAATAAAAAGCATAAAG
47816358 ACTAAA
1 ACTAAA
47816364 TTTACAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.52
31 15 0.48
ACGTcount: A:0.56, C:0.11, G:0.12, T:0.21
Consensus pattern (30 bp):
ACTAAAAGTGATCAAATAAAAAGCATAAAG
Found at i:47817057 original size:13 final size:13
Alignment explanation
Indices: 47817039--47817066 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47817029 ATAATATATT
47817039 TATTAATTAAAAA
1 TATTAATTAAAAA
47817052 TATTAATTAAAAA
1 TATTAATTAAAAA
47817065 TA
1 TA
47817067 ATAAAAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:47822225 original size:11 final size:11
Alignment explanation
Indices: 47822211--47822245 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
47822201 ATATCCAAAC
*
47822211 AATAACAACAA
1 AATAATAACAA
47822222 AATAATAACAA
1 AATAATAACAA
*
47822233 TATAATAACAA
1 AATAATAACAA
47822244 AA
1 AA
47822246 ACAACAGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAATAACAA
Found at i:47837355 original size:16 final size:16
Alignment explanation
Indices: 47837317--47837358 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47837307 CAAATAATTT
*
47837317 AAAAAATAAATTAAAA
1 AAAAAAAAAATTAAAA
**
47837333 ATTAAAAAAATTAAAA
1 AAAAAAAAAATTAAAA
47837349 AAAAAAAAAA
1 AAAAAAAAAA
47837359 GAAGAAGAGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAAAAAAATTAAAA
Found at i:47846705 original size:108 final size:108
Alignment explanation
Indices: 47846514--47847166 Score: 1081
Period size: 108 Copynumber: 6.0 Consensus size: 108
47846504 ATATAACTAT
**
47846514 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGGTGTAAACCCTAAATCGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
*
47846579 ACTCAACACAACCCTATTCCCTATCCCATCGAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
* *
47846622 ATAAATCTCAACCTTTTGTTATTAACTATCATAACAAAAATGACGTAAACCCTAAATTGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
* *
47846687 ACTCAACACAACCTTATTCCCTATCCCATCGAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
*
47846730 ATAAATCTCAACCTTTTGTTATTAACTATCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
*
47846795 ACTCAACACAACCCTATTTCCTATCCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
* * * *
47846838 ATAAATCCCAACCTTTTGTTATTAACTAGCATAACAAAAATAACATAAACCCTAAATTGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
*
47846903 ACTCAACACAATCCTATTCCCTATCCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
* ** *
47846946 ATAAATCCCAATATTTTGTTATTAGCTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
*
47847011 ACTCAACACAACCTTATTCCCTATCCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
* * *
47847054 ATAAATCTCAACCTTTTGTTATTAATTAGCATAACGAAAATGACGTAAACCCTAAATCGATTTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
* *
47847119 ACTAAACACAACCCTATTCCCTAACCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
47847162 TATAA
1 -ATAA
47847167 CTAAATATTG
Statistics
Matches: 510, Mismatches: 34, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
108 506 0.99
109 4 0.01
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.30
Consensus pattern (108 bp):
ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
Found at i:47848661 original size:210 final size:211
Alignment explanation
Indices: 47848139--47848680 Score: 537
Period size: 205 Copynumber: 2.6 Consensus size: 211
47848129 AAAATCAGTT
* *
47848139 TTTTGGACTAAAAATGATAGCTTTCAT-GGTCAAAGATCTATGGTGAATTTGAGGTGACTGATGA
1 TTTTGGAC-CAAAATGATAGCTTTCATATGTCAAAGATCTATGGTGAATTTGA-G-G--TGATGA
* * * * * *
47848203 TCTAATTGGATTTATGGGG-TTGCTCTTTCCTTAATTATTAATTTATACAGTTCTTCTCTACTTC
61 TCTAATTGGATTGATGGGGTTTTC-CTTCCCTTAATGATTAATATATACAGTTCTTCTCTACTTA
* * * *
47848267 AGTGTAAAGGGTGTTTTGCTATCTTTCTAGATTGATATCATGTTTGGTTTCATCAACTGCTATAT
125 AATGTAAAGGGTGTTTTGCCATCTTTCTACATTGATATCATGTTTGGTTTCATCAACTACTATAT
47848332 GTAATTCAACATTGAAAATTCCTC
190 GTAATTCAACATTG--AATTCCTC
*
47848356 TTTTGGACTAAAATGATAGCTTTCATATGTCAAAGATCTAT-G-G----T--GGTGATGATCTAA
1 TTTTGGACCAAAATGATAGCTTTCATATGTCAAAGATCTATGGTGAATTTGAGGTGATGATCTAA
* * ** *
47848413 TTGGATTGATGGTGTTTTTCTTGACTGT-ATGATTAATATGTACAGTTCTTCTCTACTTAAATGT
66 TTGGATTGATGGGGTTTTCCTTCCCT-TAATGATTAATATATACAGTTCTTCTCTACTTAAATGT
* * ** * *
47848477 AGAGGGTGTTTTGCCATCTCTTC-ACATTGA-ATAATTAGTTTTTTTTTATCAAATTAC-AT-TG
130 AAAGGGTGTTTTGCCATCT-TTCTACATTGATATCA-T-GTTTGGTTTCATC-AACTACTATATG
* * *
47848538 -AATAT-TA-GTTG-ATTCAGTC
191 TAAT-TCAACATTGAATTC-CTC
* *
47848557 TTGTTGGACCAAAATGATAGATTTCATATGTCAAAGATCTATGGTGAATTTGAGGTGATGATCCA
1 TT-TTGGACCAAAATGATAGCTTTCATATGTCAAAGATCTATGGTGAATTTGAGGTGATGATCTA
*
47848622 ATTGGATTGATGGGGTTTTCCTTCCCTTAATGATTAATATATATAGTTCTTCTCTACTT
65 ATTGGATTGATGGGGTTTTCCTTCCCTTAATGATTAATATATACAGTTCTTCTCTACTT
47848681 CAGAGTTACG
Statistics
Matches: 272, Mismatches: 34, Indels: 45
0.77 0.10 0.13
Matches are distributed among these distances:
200 4 0.01
201 4 0.01
202 37 0.14
203 4 0.01
204 8 0.03
205 86 0.32
206 18 0.07
207 5 0.02
208 2 0.01
209 1 0.00
210 62 0.23
211 1 0.00
215 1 0.00
216 18 0.07
217 21 0.08
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (211 bp):
TTTTGGACCAAAATGATAGCTTTCATATGTCAAAGATCTATGGTGAATTTGAGGTGATGATCTAA
TTGGATTGATGGGGTTTTCCTTCCCTTAATGATTAATATATACAGTTCTTCTCTACTTAAATGTA
AAGGGTGTTTTGCCATCTTTCTACATTGATATCATGTTTGGTTTCATCAACTACTATATGTAATT
CAACATTGAATTCCTC
Found at i:47857178 original size:28 final size:30
Alignment explanation
Indices: 47857147--47857225 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 30
47857137 TCAAAATATT
*
47857147 TTTTTTATCAC-AAG-TGGTACCTAAACTA
1 TTTTTTACCACTAAGTTGGTACCTAAACTA
* *
47857175 --TTTTCCCCCTAAGTTGGTACCTAAACTA
1 TTTTTTACCACTAAGTTGGTACCTAAACTA
* * *
47857203 TTTTTT-CCCCCAAGTTGGAACCT
1 TTTTTTACCACTAAGTTGGTACCT
47857226 TTGTCGTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 6 0.14
27 3 0.07
28 14 0.33
29 15 0.36
30 4 0.10
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.38
Consensus pattern (30 bp):
TTTTTTACCACTAAGTTGGTACCTAAACTA
Found at i:47857217 original size:29 final size:27
Alignment explanation
Indices: 47857157--47857225 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 27
47857147 TTTTTTATCA
47857157 CAAG-TGGTACCTAAACTATTTTCCCC
1 CAAGTTGGTACCTAAACTATTTTCCCC
47857183 CTAAGTTGGTACCTAAACTATTTTTTCCCC
1 C-AAGTTGGTACCTAAACTA--TTTTCCCC
*
47857213 CAAGTTGGAACCT
1 CAAGTTGGTACCT
47857226 TTGTCGTTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
26 1 0.03
27 3 0.08
28 14 0.37
29 11 0.29
30 9 0.24
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (27 bp):
CAAGTTGGTACCTAAACTATTTTCCCC
Found at i:47862110 original size:46 final size:46
Alignment explanation
Indices: 47862038--47862176 Score: 199
Period size: 46 Copynumber: 3.0 Consensus size: 46
47862028 ACATTACTAT
* * *
47862038 AACTTAGTATGGTTTTCTACACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
47862084 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * * *
47862130 AACTCAATATGGTTTTCTTTA-TCGAAATAACATACCTGCTTTTCAC
1 AACTCAGTATGGTTTTCTTCACT-GAAATACCATACCTACTTTTCAC
47862176 A
1 A
47862177 CTTTGCCATG
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 84 0.99
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:47865401 original size:21 final size:21
Alignment explanation
Indices: 47865375--47865417 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47865365 ACGAGTTTAA
47865375 GCTTTTTGGATACTTGCAAAT
1 GCTTTTTGGATACTTGCAAAT
47865396 GCTTTTTGGATACTTGCAAAT
1 GCTTTTTGGATACTTGCAAAT
47865417 G
1 G
47865418 ATGTCTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (21 bp):
GCTTTTTGGATACTTGCAAAT
Found at i:47867737 original size:20 final size:20
Alignment explanation
Indices: 47867714--47867758 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
47867704 AAAAATTTAG
47867714 AAAATTAAAAAAAGTATTTT
1 AAAATTAAAAAAAGTATTTT
*
47867734 AAAAATAAAAAAAGTATTTT
1 AAAATTAAAAAAAGTATTTT
47867754 AAAAT
1 AAAAT
47867759 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAATTAAAAAAAGTATTTT
Found at i:47867759 original size:19 final size:20
Alignment explanation
Indices: 47867709--47867757 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
47867699 CCAAAAAAAA
47867709 TTTAGAAAATTAAAAAAAGTAT
1 TTTA-AAAA-TAAAAAAAGTAT
47867731 TTTAAAAATAAAAAAAGTAT
1 TTTAAAAATAAAAAAAGTAT
47867751 TTTAAAA
1 TTTAAAA
47867758 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 19 0.70
21 4 0.15
22 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (20 bp):
TTTAAAAATAAAAAAAGTAT
Found at i:47868592 original size:22 final size:21
Alignment explanation
Indices: 47868564--47868616 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
47868554 CATTTTCAAA
*
47868564 TATTTTTTTAGATAATTATG-TT
1 TATTTTTTTA-A-AATTAAGATT
47868586 TATTTTTTT-AAATTAAGATT
1 TATTTTTTTAAAATTAAGATT
47868606 TATTTTTTTAA
1 TATTTTTTTAA
47868617 TTTCATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 6 0.21
20 12 0.43
21 1 0.04
22 9 0.32
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (21 bp):
TATTTTTTTAAAATTAAGATT
Found at i:47869089 original size:3 final size:3
Alignment explanation
Indices: 47869083--47869112 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
47869073 GCCATCGCCG
47869083 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
47869113 ACCCATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:47870599 original size:31 final size:31
Alignment explanation
Indices: 47870564--47870624 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
47870554 ATATTATTAC
47870564 TAAATTATTCAAAAAGTTTCATTTAAGTTAT
1 TAAATTATTCAAAAAGTTTCATTTAAGTTAT
* *
47870595 TAAATTATTTAAAAATTTTCATTTAAGTTA
1 TAAATTATTCAAAAAGTTTCATTTAAGTTA
47870625 CTAGATAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (31 bp):
TAAATTATTCAAAAAGTTTCATTTAAGTTAT
Found at i:47873641 original size:31 final size:31
Alignment explanation
Indices: 47873606--47873665 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
47873596 CCAGTGACTA
**
47873606 AAATAAAAGTTTTTGAATAGTTCAATGATTT
1 AAATAAAAACTTTTGAATAGTTCAATGATTT
*
47873637 AAATAAAAACTTTTGAATAGTTCAGTGAT
1 AAATAAAAACTTTTGAATAGTTCAATGAT
47873666 CAAATTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.38
Consensus pattern (31 bp):
AAATAAAAACTTTTGAATAGTTCAATGATTT
Found at i:47874726 original size:25 final size:25
Alignment explanation
Indices: 47874693--47874746 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
47874683 AATATTTTTT
* **
47874693 TAAATTTAAATATTTTAATTAATAA
1 TAAAGTTAAATATAATAATTAATAA
47874718 TAAAGTTAAATATAATAATTAATAA
1 TAAAGTTAAATATAATAATTAATAA
47874743 TAAA
1 TAAA
47874747 TATAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
TAAAGTTAAATATAATAATTAATAA
Found at i:47875121 original size:31 final size:31
Alignment explanation
Indices: 47875083--47875143 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
47875073 GGCCCATTTT
47875083 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAG
*
47875114 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
47875144 TTTAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAG
Found at i:47875123 original size:11 final size:11
Alignment explanation
Indices: 47875083--47875174 Score: 65
Period size: 11 Copynumber: 8.9 Consensus size: 11
47875073 GGCCCATTTT
47875083 TATTTT-AAAA
1 TATTTTAAAAA
47875093 -ATTTTAAAAA
1 TATTTTAAAAA
**
47875103 -ATTAAAAAAA
1 TATTTTAAAAA
47875113 GTATTTTAAAAA
1 -TATTTTAAAAA
47875125 TATTTT--AAA
1 TATTTTAAAAA
47875134 -A--TTAAAAA
1 TATTTTAAAAA
* *
47875142 AATTTAAAAAA
1 TATTTTAAAAA
47875153 GTATTTTAAAAA
1 -TATTTTAAAAA
*
47875165 AATTTTAAAA
1 TATTTTAAAA
47875175 TTAAAAAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
6 2 0.03
8 4 0.06
9 9 0.14
10 12 0.18
11 21 0.32
12 17 0.26
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:47875151 original size:17 final size:17
Alignment explanation
Indices: 47875118--47875190 Score: 58
Period size: 17 Copynumber: 4.0 Consensus size: 17
47875108 AAAAAGTATT
* *
47875118 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAA
47875135 TTAAAAAAATTTAAAAAAGTA
1 TTAAAAAAATTT--AAAA--A
*
47875156 TTTTAAAAAAATTTTAAAA
1 --TTAAAAAAATTTAAAAA
47875175 TTAAAAAAA-TTAAAAA
1 TTAAAAAAATTTAAAAA
47875191 AAAGTATGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
16 6 0.13
17 20 0.43
19 4 0.09
21 4 0.09
23 12 0.26
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:47875153 original size:40 final size:40
Alignment explanation
Indices: 47875083--47875228 Score: 213
Period size: 40 Copynumber: 3.6 Consensus size: 40
47875073 GGCCCATTTT
*
47875083 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAA
*
47875125 TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
* *
47875165 AATTTTAAAATTAAAAAAATTAAAAAAAAGTA-TGTAAAAA
1 TATTTTAAAATTAAAAAAATT-AAAAAAAGTATTTTAAAAA
*
47875205 TATTTTAAAATTAAAAAAAATAAA
1 TATTTTAAAATTAAAAAAATTAAA
47875229 TATATTTATT
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.03
40 74 0.77
41 13 0.14
42 6 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:47875192 original size:9 final size:9
Alignment explanation
Indices: 47875131--47875192 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 9
47875121 AAAATATTTT
47875131 AAAATTAAA
1 AAAATTAAA
47875140 AAAATTTAAA
1 AAAA-TTAAA
47875150 AAAGTATTTTAAA
1 AAA--A--TTAAA
**
47875163 AAAATT-TT
1 AAAATTAAA
47875171 AAAATTAAA
1 AAAATTAAA
47875180 AAAATTAAA
1 AAAATTAAA
47875189 AAAA
1 AAAA
47875193 AGTATGTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 6 0.14
9 19 0.43
10 8 0.18
11 1 0.02
12 1 0.02
13 9 0.20
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATTAAA
Found at i:47879284 original size:31 final size:31
Alignment explanation
Indices: 47879204--47879286 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 31
47879194 GAGTTCAAGC
* * * **
47879204 CCTAAAGTGGGAACAGTTGCCTAATTTAGGT
1 CCTAATGTGGGAACAATTGTCTAATCCAGGT
** ** *
47879235 CCCCATGTAAGAATAATTGTCTAATCCAGGT
1 CCTAATGTGGGAACAATTGTCTAATCCAGGT
47879266 CCTAATGTGGGAACAATTGTC
1 CCTAATGTGGGAACAATTGTC
47879287 AAGTTTAGGG
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (31 bp):
CCTAATGTGGGAACAATTGTCTAATCCAGGT
Found at i:47884541 original size:30 final size:29
Alignment explanation
Indices: 47884498--47884673 Score: 132
Period size: 30 Copynumber: 6.0 Consensus size: 29
47884488 TAACCACTGT
47884498 ACTTTTC-AAAATTTACATTTTGACCCCAA
1 ACTTTTCTAAAA-TTACATTTTGACCCCAA
47884527 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAA-TTACATTTTGACCCC-AA
* *
47884558 AC-TTTCTAAAATTACATTTCGACCCTTC-G
1 ACTTTTCTAAAATTACATTTTGACCC--CAA
* *
47884587 AC-TTTCTCAAAATTTCACTTTGACCCCTAA
1 ACTTTTCT-AAAATTACATTTTGACCCC-AA
* * * *
47884617 ACTCTTAC-GAAATTACATTTTG-GCCCAT
1 ACT-TTTCTAAAATTACATTTTGACCCCAA
*
47884645 ATTTTTGCTAAAATTACACTTTTG-CCCCA
1 ACTTTT-CTAAAATTACA-TTTTGACCCCA
47884674 GAAGCTTTGC
Statistics
Matches: 119, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
27 2 0.02
28 5 0.04
29 38 0.32
30 66 0.55
31 5 0.04
32 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.38
Consensus pattern (29 bp):
ACTTTTCTAAAATTACATTTTGACCCCAA
Found at i:47885239 original size:14 final size:13
Alignment explanation
Indices: 47885217--47885279 Score: 62
Period size: 12 Copynumber: 4.9 Consensus size: 13
47885207 AGACAAGAAG
47885217 AAGAGAAGAAGAAAA
1 AAGA-AAGAA-AAAA
47885232 AAGAAAG-AAAAA
1 AAGAAAGAAAAAA
47885244 AAG--AGAAAGAAA
1 AAGAAAGAAA-AAA
*
47885256 AAGAGAG-AAAAA
1 AAGAAAGAAAAAA
47885268 AAGAAAGAAAAA
1 AAGAAAGAAAAA
47885280 CAGTAATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
10 2 0.05
11 2 0.05
12 22 0.52
13 7 0.17
14 5 0.12
15 4 0.10
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:47885240 original size:22 final size:22
Alignment explanation
Indices: 47885214--47885276 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 22
47885204 TTGAGACAAG
47885214 AAGAAGAGAAGAAGAAAAAAGA
1 AAGAAGAGAAGAAGAAAAAAGA
*
47885236 AAGAA-A-AA-AAG-AGAAAGA
1 AAGAAGAGAAGAAGAAAAAAGA
47885254 AA-AAGAG-AG-A-AAAAAAGA
1 AAGAAGAGAAGAAGAAAAAAGA
47885272 AAGAA
1 AAGAA
47885277 AAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
17 2 0.06
18 19 0.56
19 5 0.15
20 2 0.06
21 1 0.03
22 5 0.15
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (22 bp):
AAGAAGAGAAGAAGAAAAAAGA
Found at i:47885242 original size:10 final size:10
Alignment explanation
Indices: 47885220--47885279 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
47885210 CAAGAAGAAG
*
47885220 AGAAGAAGAA
1 AGAAAAAGAA
*
47885230 AAAAGAAAGAA
1 AGAA-AAAGAA
47885241 A-AAAAGAGAA
1 AGAAAA-AGAA
47885251 AGAAAAAGAGA
1 AGAAAAAGA-A
*
47885262 GAAAAAAAGAA
1 -AGAAAAAGAA
47885273 AGAAAAA
1 AGAAAAA
47885280 CAGTAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 2 0.05
10 19 0.46
11 12 0.29
12 8 0.20
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:47885245 original size:12 final size:12
Alignment explanation
Indices: 47885228--47885279 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
47885218 AGAGAAGAAG
47885228 AAAAAAGAAAGA
1 AAAAAAGAAAGA
47885240 AAAAAAGAGAA-A
1 AAAAAAGA-AAGA
* *
47885252 GAAAAAGAGAGA
1 AAAAAAGAAAGA
47885264 AAAAAAGAAAGA
1 AAAAAAGAAAGA
47885276 AAAA
1 AAAA
47885280 CAGTAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
11 1 0.03
12 31 0.91
13 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:47885759 original size:20 final size:20
Alignment explanation
Indices: 47885734--47885771 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47885724 AAAAATATTC
47885734 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
47885754 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
47885772 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTATTTTAAT
Found at i:47885936 original size:16 final size:16
Alignment explanation
Indices: 47885917--47886104 Score: 69
Period size: 17 Copynumber: 10.9 Consensus size: 16
47885907 CGTGAATAAA
47885917 AAAAATT-CGTGTTTTC
1 AAAAATTCCGTG-TTTC
47885933 AAAAATTCCCGTGTTTC
1 AAAAATT-CCGTGTTTC
*
47885950 AAAAAAAATGT-CGTGTTTT
1 ---AAAAAT-TCCGTGTTTC
*
47885969 AAAAATTTTCGTGTTTC
1 AAAAA-TTCCGTGTTTC
* * * *
47885986 TGAAATTTCCCTGTTTT
1 -AAAAATTCCGTGTTTC
47886003 AAAAATTCCCGTGTTTC
1 AAAAATT-CCGTGTTTC
* *
47886020 AAAAAAAATGT-CATGTTTT
1 ---AAAAAT-TCCGTGTTTC
* *
47886039 AAAAATTTTCATGTTTC
1 AAAAA-TTCCGTGTTTC
* *
47886056 TAAAATTTTCGTGTTT-
1 -AAAAATTCCGTGTTTC
*
47886072 ACAAATTCTCGTGTTTTC
1 AAAAATTC-CGTG-TTTC
47886090 AAAAATTCTCGTGTT
1 AAAAATTC-CGTGTT
47886105 AAAAAAAACT
Statistics
Matches: 132, Mismatches: 20, Indels: 39
0.69 0.10 0.20
Matches are distributed among these distances:
15 5 0.04
16 28 0.21
17 49 0.37
18 23 0.17
19 13 0.10
20 12 0.09
21 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (16 bp):
AAAAATTCCGTGTTTC
Found at i:47885936 original size:19 final size:19
Alignment explanation
Indices: 47885914--47885973 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
47885904 TCTCGTGAAT
47885914 AAAAAAAATTCGTGTTTTC
1 AAAAAAAATTCGTGTTTTC
47885933 ---AAAAATTCCCGTG-TTTC
1 AAAAAAAATT--CGTGTTTTC
47885950 AAAAAAAATGTCGTGTTTT-
1 AAAAAAAAT-TCGTGTTTTC
47885969 AAAAA
1 AAAAA
47885974 TTTTCGTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
16 7 0.21
17 4 0.12
18 4 0.12
19 9 0.26
20 9 0.26
21 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (19 bp):
AAAAAAAATTCGTGTTTTC
Found at i:47886000 original size:17 final size:18
Alignment explanation
Indices: 47885924--47886024 Score: 77
Period size: 17 Copynumber: 5.8 Consensus size: 18
47885914 AAAAAAAATT
47885924 CGTGTTT-TCAAAAATTCC
1 CGTGTTTCT-AAAAATTCC
* * **
47885942 CGTGTTTCAAAAAAAATGT
1 CGTGTTTC-TAAAAATTCC
**
47885961 CGTGTTT-TAAAAATTTT
1 CGTGTTTCTAAAAATTCC
* *
47885978 CGTGTTTCTGAAATTTCC
1 CGTGTTTCTAAAAATTCC
47885996 C-TGTTT-TAAAAATTCC
1 CGTGTTTCTAAAAATTCC
47886012 CGTGTTTC-AAAAA
1 CGTGTTTCTAAAAA
47886025 AAATGTCATG
Statistics
Matches: 65, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
16 9 0.14
17 29 0.45
18 14 0.22
19 13 0.20
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (18 bp):
CGTGTTTCTAAAAATTCC
Found at i:47886037 original size:70 final size:70
Alignment explanation
Indices: 47885926--47886094 Score: 250
Period size: 70 Copynumber: 2.4 Consensus size: 70
47885916 AAAAAATTCG
* * *
47885926 TGTTTTCAAAAATTCCCGTGTTTCAAAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTGAAA
1 TGTTTT-AAAAATTCCCGTGTTTCAAAAAAAATGTCATGTTTTAAAAATTTTCATGTTTCTAAAA
47885991 TTTCCC
65 TTTCCC
47885997 TGTTTTAAAAATTCCCGTGTTTCAAAAAAAATGTCATGTTTTAAAAATTTTCATGTTTCTAAAAT
1 TGTTTTAAAAATTCCCGTGTTTCAAAAAAAATGTCATGTTTTAAAAATTTTCATGTTTCTAAAAT
* *
47886062 TTTCG
66 TTCCC
* *
47886067 TG-TTTACAAATTCTCGTGTTTTCAAAAA
1 TGTTTTAAAAATTCCCGTG-TTTCAAAAA
47886095 TTCTCGTGTT
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
69 14 0.16
70 70 0.78
71 6 0.07
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (70 bp):
TGTTTTAAAAATTCCCGTGTTTCAAAAAAAATGTCATGTTTTAAAAATTTTCATGTTTCTAAAAT
TTCCC
Found at i:47886055 original size:36 final size:36
Alignment explanation
Indices: 47885889--47886045 Score: 162
Period size: 36 Copynumber: 4.4 Consensus size: 36
47885879 TAAAGAAAAA
* * **
47885889 TCGTGTTTCAAAAATTCTCGTGAAT-AAAAAAAAT-
1 TCGTGTTTTAAAAATTCCCGTGTTTCAAAAAAAATG
47885923 TCGTGTTTTCAAAAATTCCCGTGTTTCAAAAAAAATG
1 TCGTGTTTT-AAAAATTCCCGTGTTTCAAAAAAAATG
** ** *
47885960 TCGTGTTTTAAAAATTTTCGTGTTTC---TGAAATT
1 TCGTGTTTTAAAAATTCCCGTGTTTCAAAAAAAATG
*
47885993 TCCCTGTTTTAAAAATTCCCGTGTTTCAAAAAAAATG
1 T-CGTGTTTTAAAAATTCCCGTGTTTCAAAAAAAATG
*
47886030 TCATGTTTTAAAAATT
1 TCGTGTTTTAAAAATT
47886046 TTCATGTTTC
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
33 5 0.05
34 30 0.30
35 13 0.13
36 38 0.38
37 14 0.14
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (36 bp):
TCGTGTTTTAAAAATTCCCGTGTTTCAAAAAAAATG
Found at i:47886061 original size:17 final size:17
Alignment explanation
Indices: 47885963--47886096 Score: 76
Period size: 17 Copynumber: 7.8 Consensus size: 17
47885953 AAAAATGTCG
*
47885963 TGTTTTAAAAATTTTCG
1 TGTTTTAAAAATTTTCA
* * *
47885980 TGTTTCT-GAAATTTCCC
1 TGTTT-TAAAAATTTTCA
** *
47885997 TGTTTTAAAAATTCCCG
1 TGTTTTAAAAATTTTCA
* * *
47886014 TGTTTCAAAAAAAATGTCA
1 TGTTT--TAAAAATTTTCA
47886033 TGTTTTAAAAATTTTCA
1 TGTTTTAAAAATTTTCA
*
47886050 TGTTTCT-AAAATTTTCG
1 TGTTT-TAAAAATTTTCA
* * *
47886067 TG-TTTACAAATTCTCG
1 TGTTTTAAAAATTTTCA
47886083 TGTTTTCAAAAATT
1 TGTTTT-AAAAATT
47886097 CTCGTGTTAA
Statistics
Matches: 91, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
15 1 0.01
16 13 0.14
17 57 0.63
18 8 0.09
19 12 0.13
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (17 bp):
TGTTTTAAAAATTTTCA
Found at i:47886109 original size:16 final size:16
Alignment explanation
Indices: 47886057--47886110 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
47886047 TCATGTTTCT
* *
47886057 AAAATTTTCGTGTTTA
1 AAAATTCTCGTGTTAA
* *
47886073 CAAATTCTCGTGTTTTCA
1 AAAATTCTCGTG--TTAA
47886091 AAAATTCTCGTGTTAA
1 AAAATTCTCGTGTTAA
47886107 AAAA
1 AAAA
47886111 AACTTTCGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 17 0.55
18 14 0.45
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (16 bp):
AAAATTCTCGTGTTAA
Found at i:47886111 original size:18 final size:18
Alignment explanation
Indices: 47886074--47886128 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
47886064 TCGTGTTTAC
***
47886074 AAATTCTCGTGTTTTCAA
1 AAATTCTCGTGTTAAAAA
47886092 AAATTCTCGTGTTAAAAA
1 AAATTCTCGTGTTAAAAA
*
47886110 AAACTT-TCGTTTTAAAAA
1 AAA-TTCTCGTGTTAAAAA
47886128 A
1 A
47886129 GAAATACTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 30 0.94
19 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (18 bp):
AAATTCTCGTGTTAAAAA
Found at i:47895294 original size:10 final size:10
Alignment explanation
Indices: 47895281--47895336 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
47895271 CTAAAAACAG
47895281 AAAAAAAAAC
1 AAAAAAAAAC
47895291 AAAAAAAAAC
1 AAAAAAAAAC
*
47895301 AAACAAAAA-
1 AAAAAAAAAC
*
47895310 AAAACAAAAC
1 AAAAAAAAAC
*
47895320 AAAAAAAGAAG
1 AAAAAAA-AAC
47895331 AAAAAA
1 AAAAAA
47895337 TCAAATCAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
9 7 0.18
10 24 0.62
11 8 0.21
ACGTcount: A:0.88, C:0.09, G:0.04, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:47895309 original size:15 final size:14
Alignment explanation
Indices: 47895281--47895326 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
47895271 CTAAAAACAG
47895281 AAAAAA-AAACAAA
1 AAAAAACAAACAAA
47895294 AAAAAACAAACAAA
1 AAAAAACAAACAAA
47895308 AAAAAACAAAACAAA
1 AAAAAAC-AAACAAA
47895323 AAAA
1 AAAA
47895327 GAAGAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.19
14 14 0.45
15 11 0.35
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAACAAACAAA
Found at i:47895313 original size:24 final size:23
Alignment explanation
Indices: 47895281--47895341 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
47895271 CTAAAAACAG
47895281 AAAAAAAAACAAAAAAAAACAAAC
1 AAAAAAAAACAAAAAAAAA-AAAC
* *
47895305 AAAAAAAAACAAAACAAAAAAAG
1 AAAAAAAAACAAAAAAAAAAAAC
*
47895328 AAGAAAAAATCAAA
1 AA-AAAAAAACAAA
47895342 TCAAGATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 5 0.15
24 28 0.85
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (23 bp):
AAAAAAAAACAAAAAAAAAAAAC
Found at i:47896602 original size:77 final size:76
Alignment explanation
Indices: 47896217--47898500 Score: 2944
Period size: 76 Copynumber: 29.7 Consensus size: 76
47896207 TTATGTTTTT
* *
47896217 TTTTTCAAAAATTAACTCATAATACAGAGGTGAGTTGAGCCTCGGTTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
47896282 TTAAATTTCCG
66 TTAAATTTCTG
47896293 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
47896358 TTAAATTTCCG
66 TTAAATTTCTG
47896369 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
47896434 TTAAATTT-TCG
66 TTAAATTTCT-G
*
47896445 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCAAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
**
47896510 TTAAATTTCCA
66 TTAAATTTCTG
* * * *
47896521 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGATATTT-T
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
47896585 TTT-AATTTCTG
65 TTTAAATTTCTG
* * *
47896596 TTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAACCTCGGGTCACGCTGAGGTATT
1 ---TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
*
47896661 T-TTTTAAATTTTTGCTT
62 TCTTTTAAA--TTT-CTG
47896678 TTTTTCGAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
47896743 TTTAAATTTCTG
65 TTTAAATTTCTG
47896755 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
47896820 TTAAATTTTTG
66 TTAAATTTCTG
* * * *
47896831 TTTTTCAAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCTTCGGGTCACGCTGAGGTA
1 TTTTTC-----AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTA
47896896 -TT-TTTT-AATTTCTG
60 TTTCTTTTAAATTTCTG
* * *
47896910 TTTTTTTTCAAAAAATTAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-T
1 ---TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
47896974 T-TTTTAAATTTCTG
62 TCTTTTAAATTTCTG
* * *
47896988 CTTTTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTAT
1 -----TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTAT
*
47897053 TT-TTTTTAATTTCTG
61 TTCTTTTAAATTTCTG
* *
47897068 TTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 --TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT
47897133 -TTTTAAATTTCTG
63 CTTTTAAATTTCTG
* *
47897146 CTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 --TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT
47897211 -TTTTAAATTTCTG
63 CTTTTAAATTTCTG
* *
47897224 CTTTTTTTCGAAAAATCAACTCATAATACATAGGTGAGTTGAGCCTTGGGTCATGCCGAGGTATT
1 ---TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
*
47897289 TCTTTTAAATTTCCG
62 TCTTTTAAATTTCTG
*
47897304 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
47897369 TTAAATTTCCG
66 TTAAATTTCTG
*
47897380 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
47897445 TTTAAATTT-TCG
65 TTTAAATTTCT-G
* *
47897457 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-T
1 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
47897521 TTTAAATTTCTG
65 TTTAAATTTCTG
* *
47897533 CTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 --TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT
47897598 -TTTTAAATTTCTG
63 CTTTTAAATTTCTG
* * *
47897611 CTTTTTTTCGAAAAATCAACTCATAATACATAGGTGAGTTGAGCCTTGGGTCATACCGAGGTATT
1 ---TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
*
47897676 TCTTTTAAATTTCCG
62 TCTTTTAAATTTCTG
*
47897691 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
47897756 TTAAATTTCCG
66 TTAAATTTCTG
*
47897767 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
47897832 TTTAAATTT-TCG
65 TTTAAATTTCT-G
**
47897844 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTA-TT-AG
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
* * *
47897907 GT-GA-GT-TG
66 TTAAATTTCTG
**** *** * ** **
47897915 AGCCTC--GGGTCATGC-CGA-GGTA-TTAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTC
1 TTTTTCAAAAATCA-ACTC-ATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTC
*
47897975 TTTTAAATTTCCG
64 TTTTAAATTTCTG
*
47897988 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
47898053 TTAAATTTCCG
66 TTAAATTTCTG
*
47898064 TTTTTCAAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
47898129 TTAAATTTCCG
66 TTAAATTTCTG
* *
47898140 TTTTTCAAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
47898205 TTAAATTTCTG
66 TTAAATTTCTG
* * * * **
47898216 TTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCT
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
*
47898281 TTTAAATTTCAG
65 TTTAAATTTCTG
* * **
47898293 TTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCACACCGAGGTA--T-T
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
*
47898355 TTTCAA-TTCATG
65 TTTAAATTTC-TG
* ** * *
47898367 TTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTA---
1 TTTTTCAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTC-GGG-TCATGCCGAGGTATTT
** *
47898429 -TTTTCGATTTTTG
63 CTTTTAAATTTCTG
* * * *
47898442 TTTTTCGAAGATCAACTCATAATCCAAGAGGTGAGTTGAGTCTCGGGTCGGATGCCGAG
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTC--ATGCCGAG
47898501 CTGTTCTCAA
Statistics
Matches: 2003, Mismatches: 146, Indels: 119
0.88 0.06 0.05
Matches are distributed among these distances:
68 32 0.02
69 8 0.00
70 3 0.00
71 4 0.00
72 3 0.00
73 8 0.00
74 51 0.03
75 70 0.03
76 779 0.39
77 358 0.18
78 313 0.16
79 255 0.13
80 57 0.03
81 23 0.01
82 39 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (76 bp):
TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
TTAAATTTCTG
Found at i:47897511 original size:387 final size:385
Alignment explanation
Indices: 47896217--47898500 Score: 2939
Period size: 387 Copynumber: 5.9 Consensus size: 385
47896207 TTATGTTTTT
* *
47896217 TTTTTCAAAAATTAACTCATAATACAGAGGTGAGTTGAGCCTCGGTTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
47896282 TTAAA-TTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCC
66 TTAAATTTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCC
*
47896346 GAGGTATTTCTTTTAAATTTC--CGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGC
131 GAGGTATTTCTTTTAAATTTCTGCTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGC
* *
47896409 CTCGGGTCATGCCGAGGTATTTCTTTTAAATTT-T-CGTTTTTCAAAAATCAACTCATAATACAG
196 CTCGGGTCACGCCGAGGTATTTCTTTTAAATTTCTGCTTTTTTCAAAAATCAACTCATAATACAG
* * *
47896472 AGGTGAGTTGAGCCTCGGGTCATGCCAAGGTATTTCTTTTAAATTTCCATTTTTCAAAAATCAAC
261 AGGTGAGTTGAGCCTTGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAATCAAC
* * * * *
47896537 TCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGATATTT-TTTT-AATTTCTG
326 TCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCG
* * *
47896596 TTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAACCTCGGGTCACGCTGAGGTATT
1 ---TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
*
47896661 T-TTTTAAATTTTTGCTTTTTTTCGAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
62 TCTTTTAAA-TTTT-CTGTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
47896725 TCATGCCGAGGTATTTCTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATAATACAGAGGTGA
124 TCATGCCGAGGTATTTCTTTTAAATTTCTGCTTTTTTCAAAAATCAACTCATAATACAGAGGTGA
* *
47896788 GTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTTTG--TTTTTCAAAAAAAAAATCAA
189 GTTGAGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTTCTGCTTTTTTC-----AAAAATCAA
* * * *
47896851 CTCATAATGCGAGAGGTGAGTTGAG-CTTCGGGTCACGCTGAGGTA-TT-TTTT-AATTTCTGTT
249 CTCATAATAC-AGAGGTGAGTTGAGCCTT-GGGTCATGCCGAGGTATTTCTTTTAAATTTCCG--
* * *
47896912 TTTTTTCAAAAAATTAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TT-
310 -TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTC
*
47896975 TTTTAAATTTCTGCTTTT
373 TTTTAAATTTC--C---G
* * *
47896993 TTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
* *
47897057 TTTAA-TTTCTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAC
66 TTAAATTTTCTG--TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
*
47897121 GCTGAGGTATTT-TTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTT
128 GCCGAGGTATTTCTTTTAAATTTCTGCTTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTT
*
47897185 GAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTGCTTTTTTTCGAAAAATCAACTCATA
192 GAGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTTCTGC-TTTTTTC-AAAAATCAACTCATA
*
47897249 ATACATAGGTGAGTTGAGCCTTGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAA
255 ATACAGAGGTGAGTTGAGCCTTGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAA
*
47897314 ATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTTTTAAATTTCC
320 ATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCC
47897379 G
385 G
*
47897380 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
*
47897445 TTTAAATTTTC-GTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACG
65 TTTAAATTTTCTGTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
*
47897509 CTGAGGTATTT-TTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTG
129 CCGAGGTATTTCTTTTAAATTTCTGCTTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTG
*
47897573 AGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTGCTTTTTTTCGAAAAATCAACTCATAA
193 AGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTTCTGC-TTTTTTC-AAAAATCAACTCATAA
* *
47897637 TACATAGGTGAGTTGAGCCTTGGGTCATACCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAA
256 TACAGAGGTGAGTTGAGCCTTGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAA
*
47897702 TCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTTTTAAATTTCCG
321 TCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCG
*
47897767 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
47897832 TTTAAATTTTC-GTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGC
65 TTTAAATTTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGC
*** * * ** **** * ** **
47897896 CGAGGTA-TT-AGGT-GAGTTGAGCCTCGGGTC----ATGC--C-GA-GGTA-TTAGGTGAGTTG
130 CGAGGTATTTCTTTTAAATTTCTG-CTTTTTTCAAAAAT-CAACTCATAATACAGAGGTGAGTTG
* *
47897949 AGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTC--CGTTTTTCAAAAATCAACTCATAATA
193 AGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTTCTGCTTTTTTCAAAAATCAACTCATAATA
* *
47898012 CAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTTTTAAATTTCCGTTTTTCAAAAATC
258 CAGAGGTGAGTTGAGCCTTGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAATC
*
47898077 AACTCATAATATAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCG
323 AACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCG
* *
47898140 TTTTTCAAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
* * * * **
47898205 TTAAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGACCATGC
66 TTAAATTTTCTGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGC
* * *
47898269 CGAGGTATTTCTTTTAAATTTCAG--TTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGA
130 CGAGGTATTTCTTTTAAATTTCTGCTTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGA
* * *
47898332 GCCTCGGGTCACACCGAGGTA--T-TTTTCAA-TTCATG--TTTTTCAAAAATCAACTCATATTG
194 GCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTTC-TGCTTTTTTCAAAAATCAACTCATAAT-
** * * * ** *
47898391 TGAGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTTCGATT---TTT--GTTTTTCGAA
257 ACAGAGGTGAGTTGAGCCT-TGGG-TCATGCCGAGGTA-TTTCTTTTAAATTTCCGTTTTTCAAA
* * *
47898451 GATCAACTCATAATCCAAGAGGTGAGTTGAGTCTCGGGTCGGATGCCGAG
319 AATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTC--ATGCCGAG
47898501 CTGTTCTCAA
Statistics
Matches: 1715, Mismatches: 116, Indels: 143
0.87 0.06 0.07
Matches are distributed among these distances:
371 4 0.00
372 68 0.04
373 195 0.11
374 8 0.00
375 2 0.00
376 39 0.02
377 15 0.01
378 27 0.02
379 52 0.03
380 23 0.01
381 12 0.01
382 53 0.03
383 57 0.03
384 7 0.00
385 14 0.01
386 198 0.12
387 416 0.24
388 35 0.02
389 13 0.01
390 60 0.03
391 79 0.05
392 166 0.10
393 100 0.06
394 66 0.04
396 6 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (385 bp):
TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
TTAAATTTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCC
GAGGTATTTCTTTTAAATTTCTGCTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGC
CTCGGGTCACGCCGAGGTATTTCTTTTAAATTTCTGCTTTTTTCAAAAATCAACTCATAATACAG
AGGTGAGTTGAGCCTTGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAATCAAC
TCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCG
Found at i:47897914 original size:34 final size:34
Alignment explanation
Indices: 47897871--47897972 Score: 204
Period size: 34 Copynumber: 3.0 Consensus size: 34
47897861 CATAATACAG
47897871 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
1 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
47897905 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
1 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
47897939 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
1 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
47897973 TCTTTTAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (34 bp):
AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
Found at i:47898718 original size:30 final size:31
Alignment explanation
Indices: 47898684--47898818 Score: 138
Period size: 30 Copynumber: 4.5 Consensus size: 31
47898674 ATTTCTTTTG
**
47898684 CATTTTAACCCCTGTACTTTTC-AAAATTTA
1 CATTTTAACCCCTAAACTTTTCTAAAATTTA
*
47898714 CATTTTAACCCC-AAAATTTTCTAAAATTTA
1 CATTTTAACCCCTAAACTTTTCTAAAATTTA
*
47898744 CATTTTAACCCCAAAAC-TTTCTAAAA-TTA
1 CATTTTAACCCCTAAACTTTTCTAAAATTTA
* * *
47898773 CATTTCAACCCTTATAC-TTTCTCAAAATTT-
1 CATTTTAACCCCTAAACTTTTCT-AAAATTTA
* *
47898803 CACTTTGACCCCTAAA
1 CATTTTAACCCCTAAA
47898819 TTCTTAAGAA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
29 27 0.31
30 56 0.64
31 5 0.06
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (31 bp):
CATTTTAACCCCTAAACTTTTCTAAAATTTA
Found at i:47899463 original size:19 final size:20
Alignment explanation
Indices: 47899431--47899481 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
47899421 AGAAGAGAAG
47899431 AAGAAAA-AAGAAAG-AAAAA
1 AAGAAAATAA-AAAGTAAAAA
**
47899450 AAGAAAATAAAAAGTAATTA
1 AAGAAAATAAAAAGTAAAAA
47899470 AA-AAAATAAAAA
1 AAGAAAATAAAAA
47899482 CAGCAGCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAGAAAATAAAAAGTAAAAA
Found at i:47899931 original size:20 final size:20
Alignment explanation
Indices: 47899906--47899943 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
47899896 AAAAATATTC
47899906 AAAAATTCTCGTATTTTAAT
1 AAAAATTCTCGTATTTTAAT
47899926 AAAAATTCTCGTATTTTA
1 AAAAATTCTCGTATTTTA
47899944 TTAGAATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (20 bp):
AAAAATTCTCGTATTTTAAT
Found at i:47900081 original size:17 final size:17
Alignment explanation
Indices: 47900061--47900276 Score: 141
Period size: 17 Copynumber: 12.4 Consensus size: 17
47900051 TAAAAAAAAA
47900061 TCGTGTTTCAAAAATTC
1 TCGTGTTTCAAAAATTC
* ** *
47900078 TCGTGAATAAAAAAAAT-
1 TCGTG-TTTCAAAAATTC
47900095 TCGTGTTTTCAAAAATTC
1 TCGTG-TTTCAAAAATTC
* * *
47900113 CCGTGTTTCAAAAAAATG
1 TCGTGTTTC-AAAAATTC
* * *
47900131 TCATGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTC
*
47900148 TCGTGTTTCTAAAATT-
1 TCGTGTTTCAAAAATTC
* *
47900164 TCCCTGTTTTAAAAATTC
1 T-CGTGTTTCAAAAATTC
* * *
47900182 CCGTGTTTCAAAAAAAAATG
1 TCGTGTTTC---AAAAATTC
* *
47900202 TCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTC
* *
47900219 TCGTGTTTCTAAAATTT
1 TCGTGTTTCAAAAATTC
*
47900236 TCGTGTTT-ACAAATTC
1 TCGTGTTTCAAAAATTC
*
47900252 TCGTGTTTTCAAAAATAC
1 TCGTG-TTTCAAAAATTC
47900270 TCGTGTT
1 TCGTGTT
47900277 AAAAAAAAAC
Statistics
Matches: 150, Mismatches: 39, Indels: 20
0.72 0.19 0.10
Matches are distributed among these distances:
16 11 0.07
17 92 0.61
18 34 0.23
20 13 0.09
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTC
Found at i:47900105 original size:35 final size:35
Alignment explanation
Indices: 47900051--47900152 Score: 118
Period size: 35 Copynumber: 2.9 Consensus size: 35
47900041 CGGTATTTGT
*
47900051 TAAAAAAAAATCGTG-TTTCAAAAATTCTCGTGAA
1 TAAAAAAAATTCGTGTTTTCAAAAATTCTCGTGAA
* **
47900085 TAAAAAAAATTCGTGTTTTCAAAAATTCCCGTGTT
1 TAAAAAAAATTCGTGTTTTCAAAAATTCTCGTGAA
* * *
47900120 TCAAAAAAATGTCATGTTTT-AAAAATTTTCGTG
1 TAAAAAAAAT-TCGTGTTTTCAAAAATTCTCGTG
47900153 TTTCTAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
34 14 0.24
35 36 0.62
36 8 0.14
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (35 bp):
TAAAAAAAATTCGTGTTTTCAAAAATTCTCGTGAA
Found at i:47900108 original size:18 final size:18
Alignment explanation
Indices: 47900087--47900155 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
47900077 CTCGTGAATA
47900087 AAAAAAATTCGTGTTTTC
1 AAAAAAATTCGTGTTTTC
47900105 --AAAAATTCCCGTG-TTTC
1 AAAAAAATT--CGTGTTTTC
*
47900122 AAAAAAATGTCATGTTTT-
1 AAAAAAAT-TCGTGTTTTC
**
47900140 AAAAATTTTCGTGTTT
1 AAAAAAATTCGTGTTT
47900156 CTAAAATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
16 7 0.17
17 11 0.27
18 13 0.32
19 9 0.22
20 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (18 bp):
AAAAAAATTCGTGTTTTC
Found at i:47900217 original size:71 final size:71
Alignment explanation
Indices: 47900098--47900266 Score: 254
Period size: 71 Copynumber: 2.4 Consensus size: 71
47900088 AAAAAATTCG
47900098 TGTTTTCAAAAATTCCCGTGTTTC--AAAAAAATGTCATGTTTTAAAAATTTTCGTGTTTCTAAA
1 TGTTTT-AAAAATTCCCGTGTTTCAAAAAAAAATGTCATGTTTTAAAAATTTTCGTGTTTCTAAA
47900161 ATTTCCC
65 ATTTCCC
*
47900168 TGTTTTAAAAATTCCCGTGTTTCAAAAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAA
1 TGTTTTAAAAATTCCCGTGTTTCAAAAAAAAATGTCATGTTTTAAAAATTTTCGTGTTTCTAAAA
* *
47900233 TTTTCG
66 TTTCCC
* *
47900239 TG-TTTACAAATTCTCGTGTTTTCAAAAA
1 TGTTTTAAAAATTCCCGTG-TTTCAAAAA
47900267 TACTCGTGTT
Statistics
Matches: 91, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
69 17 0.19
70 20 0.22
71 54 0.59
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (71 bp):
TGTTTTAAAAATTCCCGTGTTTCAAAAAAAAATGTCATGTTTTAAAAATTTTCGTGTTTCTAAAA
TTTCCC
Found at i:47900912 original size:15 final size:15
Alignment explanation
Indices: 47900892--47900923 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47900882 TTACTTCTTT
47900892 TCAAATCATCAATCA
1 TCAAATCATCAATCA
*
47900907 TCAAATCATTAATCA
1 TCAAATCATCAATCA
47900922 TC
1 TC
47900924 CTAACACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
TCAAATCATCAATCA
Found at i:47901510 original size:71 final size:71
Alignment explanation
Indices: 47901394--47901537 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
47901384 ACTATCCTCT
47901394 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
1 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
47901459 AAGTAG
66 AAGTAG
47901465 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
1 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
*
47901530 ATGTAG
66 AAGTAG
47901536 TT
1 TT
47901538 GTTTCCTTGA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (71 bp):
TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
AAGTAG
Found at i:47903590 original size:16 final size:18
Alignment explanation
Indices: 47903569--47903606 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
47903559 TTTTTTTTAG
47903569 ATTTTAAGA-TTA-TTTT
1 ATTTTAAGATTTATTTTT
*
47903585 ATTTTAATATTTATTTTT
1 ATTTTAAGATTTATTTTT
47903603 ATTT
1 ATTT
47903607 GGAAAGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTAAGATTTATTTTT
Found at i:47905810 original size:36 final size:36
Alignment explanation
Indices: 47905763--47906129 Score: 156
Period size: 36 Copynumber: 10.1 Consensus size: 36
47905753 ATATCGTCAG
* *
47905763 TTTATCTGACTAGTGCTGGGCGTAAATCTTTGTCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
* * * ** * *
47905799 TTTATTCGACTAGTGCAGGGCACATTTACTGT-TAG-
1 TTTATCCGACTAGTGCTGGGCGCAAAT-CTTTGTCGA
* * * * *
47905834 TTTATCCAACTAGCGCTGGGAGCAAATCTACTATCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCT-TTGTCGA
* * *
47905871 TTTATCCGATTAGCGCTGGGCACAAATCTTTGTCTG-
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTC-GA
* * * * * * *
47905907 TTAATTCGACTAGTGCTAGGCACACATTTAATATCATCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCT--T-T-GTCGA
* *
47905947 TTTATCCGACTAGCGTTGGGCGCAAATCTTTGTCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
* * * * * *
47905983 TTTATTCGACTAGTG-TAGG-ACACATCTACTGTCGG
1 TTTATCCGACTAGTGCTGGGCGCAAATCT-TTGTCGA
* * * * * * *
47906018 TTTACCCGACTAGCGGTAGGCACAAATATTTATCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
** * * * *
47906054 TTTATTTGACTAGTGC-AGG-GCACATCTACTGTCGG
1 TTTATCCGACTAGTGCTGGGCGCAAATCT-TTGTCGA
* * *
47906089 TTTA-CTGGACTAGTGCTGGGCGCAAATTTTTATCGA
1 TTTATC-CGACTAGTGCTGGGCGCAAATCTTTGTCGA
47906125 TTTAT
1 TTTAT
47906130 TTAACTAGTG
Statistics
Matches: 237, Mismatches: 76, Indels: 35
0.68 0.22 0.10
Matches are distributed among these distances:
34 13 0.05
35 60 0.25
36 95 0.40
37 42 0.18
38 2 0.01
39 2 0.01
40 23 0.10
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (36 bp):
TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
Found at i:47905950 original size:76 final size:74
Alignment explanation
Indices: 47905866--47906078 Score: 218
Period size: 71 Copynumber: 2.9 Consensus size: 74
47905856 CAAATCTACT
*
47905866 ATCGATTTATCCGATTAGCGCTGGGCACAAATCTTTGTCTG-TTAATTCGACTAGTGCTAGGCAC
1 ATCGATTTATCCGACTAGCGCTGGGCACAAATCTTTGTC-GATTAATTCGACTAGTG-TAGG-AC
47905930 ACATTTAATATC
63 ACATTTAATATC
* * *
47905942 ATCGATTTATCCGACTAGCGTTGGGCGCAAATCTTTGTCGATTTATTCGACTAGTGTAGGACACA
1 ATCGATTTATCCGACTAGCGCTGGGCACAAATCTTTGTCGATTAATTCGACTAGTGTAGGACACA
* *
47906007 TCT-A-CT-
66 TTTAATATC
* * * * * * * * * * *
47906013 GTCGGTTTACCCGACTAGCGGTAGGCACAAATATTTATCGATTTATTTGACTAGTGCAGGGCACA
1 ATCGATTTATCCGACTAGCGCTGGGCACAAATCTTTGTCGATTAATTCGACTAGTGTAGGACACA
47906078 T
66 T
47906079 CTACTGTCGG
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
71 55 0.46
72 1 0.01
73 1 0.01
74 7 0.06
75 5 0.04
76 50 0.42
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (74 bp):
ATCGATTTATCCGACTAGCGCTGGGCACAAATCTTTGTCGATTAATTCGACTAGTGTAGGACACA
TTTAATATC
Found at i:47906028 original size:35 final size:34
Alignment explanation
Indices: 47905977--47906103 Score: 101
Period size: 35 Copynumber: 3.6 Consensus size: 34
47905967 CGCAAATCTT
* *
47905977 TGTCGATTTATTCGACTAGTGTAGGACACATCTAC
1 TGTCGGTTTACTCGACTAGTGTAGG-CACATCTAC
* * ** *
47906012 TGTCGGTTTACCCGACTAGCGGTAGGCACAAATATT
1 TGTCGGTTTACTCGACTAG-TGTAGGCACATCTA-C
* * * * *
47906048 TATCGATTTATTTGACTAGTGCAGGGCACATCTAC
1 TGTCGGTTTACTCGACTAGTGTA-GGCACATCTAC
*
47906083 TGTCGGTTTACTGGACTAGTG
1 TGTCGGTTTACTCGACTAGTG
47906104 CTGGGCGCAA
Statistics
Matches: 68, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
35 41 0.60
36 27 0.40
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (34 bp):
TGTCGGTTTACTCGACTAGTGTAGGCACATCTAC
Found at i:47906056 original size:71 final size:70
Alignment explanation
Indices: 47905947--47906173 Score: 292
Period size: 71 Copynumber: 3.2 Consensus size: 70
47905937 ATATCATCGA
* * * * * *
47905947 TTTATCCGACTAGCGTTGGGCGCAAATCTTTGTCGATTTATTCGACTAGTGTAGGACACATCTAC
1 TTTACCCGACTAGCGCTGGGCGCAAATATTTATCGATTTATTTGACTAGTGAAGG-CACATCTAC
47906012 TGTCGG
65 TGTCGG
* * * *
47906018 TTTACCCGACTAGCGGTAGGCACAAATATTTATCGATTTATTTGACTAGTGCAGGGCACATCTAC
1 TTTACCCGACTAGCGCTGGGCGCAAATATTTATCGATTTATTTGACTAGTG-AAGGCACATCTAC
47906083 TGTCGG
65 TGTCGG
** * * *
47906089 TTTACTGGACTAGTGCTGGGCGCAAATTTTTATCGATTTATTTAACTAGTGCAAGGCACATCTAC
1 TTTACCCGACTAGCGCTGGGCGCAAATATTTATCGATTTATTTGACTAGTG-AAGGCACATCTAC
47906154 TGTCGG
65 TGTCGG
47906160 TTTACCCGACTAGC
1 TTTACCCGACTAGC
47906174 ACTAAGCACA
Statistics
Matches: 134, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
71 132 0.99
72 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (70 bp):
TTTACCCGACTAGCGCTGGGCGCAAATATTTATCGATTTATTTGACTAGTGAAGGCACATCTACT
GTCGG
Found at i:47907044 original size:22 final size:21
Alignment explanation
Indices: 47906999--47907044 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
47906989 ATTGACATAT
*
47906999 TTTGAGTTGTTTTAAAGTGTA
1 TTTGAGTTGTTTTAAAATGTA
47907020 TTTGATGTTGTTTATAAAATG-A
1 TTTGA-GTTGTTT-TAAAATGTA
47907042 TTT
1 TTT
47907045 TAGGCTTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 11 0.50
23 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTTGAGTTGTTTTAAAATGTA
Found at i:47910959 original size:19 final size:18
Alignment explanation
Indices: 47910954--47910999 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
47910944 ATATTTATTC
47910954 TTTTTATAAATTTTATATA
1 TTTTTA-AAATTTTATATA
*
47910973 TTTTTAAATAATTT-TA-A
1 TTTTTAAA-ATTTTATATA
47910990 TTTTTAAAAT
1 TTTTTAAAAT
47911000 GGTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 9 0.38
18 4 0.17
19 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTAAAATTTTATATA
Found at i:47914302 original size:29 final size:28
Alignment explanation
Indices: 47914256--47914313 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
47914246 CTGAACATAT
47914256 TATGTTATAAAAATATTATATTAATTATA
1 TATGTTATAAAAATATTATA-TAATTATA
* *
47914285 TATGTTA-AATAATAATTATATATTTATA
1 TATGTTATAAAAAT-ATTATATAATTATA
47914313 T
1 T
47914314 TTATATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
TATGTTATAAAAATATTATATAATTATA
Found at i:47914512 original size:38 final size:38
Alignment explanation
Indices: 47914431--47914511 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
47914421 TATTTAATGC
* *
47914431 AATAAAATATTTATTATATTTATTTGTGTTTTTAATAT
1 AATAAAATATTTATTATATTTATTAGTATTTTTAATAT
47914469 AATAAAATATTTATTATATTTATGGTAGTATTTTTTAATAT
1 AATAAAATATTTATTATATTTAT--TAGTA-TTTTTAATAT
47914510 AA
1 AA
47914512 ATACTATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 23 0.61
40 3 0.08
41 12 0.32
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (38 bp):
AATAAAATATTTATTATATTTATTAGTATTTTTAATAT
Found at i:47916635 original size:21 final size:21
Alignment explanation
Indices: 47916609--47916662 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
47916599 ACAACTCAAA
*
47916609 ATTATTATTATTGTTGGTAAT
1 ATTATTATTATTGTTGATAAT
* *
47916630 ATTATTACTGTTGTTGATAAT
1 ATTATTATTATTGTTGATAAT
* *
47916651 AATATTGTTATT
1 ATTATTATTATT
47916663 AGTATTTACA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.56
Consensus pattern (21 bp):
ATTATTATTATTGTTGATAAT
Found at i:47917525 original size:29 final size:29
Alignment explanation
Indices: 47917468--47917529 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
47917458 ACAGCAAATT
*
47917468 TAAACCATATTTATGAGTGTATATATATA
1 TAAACCATATTTATGAATGTATATATATA
* *
47917497 TAAACCATATTTAT-AATTTATAATTTATA
1 TAAACCATATTTATGAATGTAT-ATATATA
47917526 TAAA
1 TAAA
47917530 TAAGAGACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (29 bp):
TAAACCATATTTATGAATGTATATATATA
Found at i:47930105 original size:12 final size:12
Alignment explanation
Indices: 47930072--47930108 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
47930062 AATTACAGTT
*
47930072 AAATATTTTTAA
1 AAATATATTTAA
47930084 AAAT-TA-TTAA
1 AAATATATTTAA
47930094 AAATATATTTAA
1 AAATATATTTAA
47930106 AAA
1 AAA
47930109 AAATAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 8 0.36
11 3 0.14
12 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAATATATTTAA
Found at i:47936979 original size:18 final size:19
Alignment explanation
Indices: 47936940--47936979 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
47936930 TTCAACAATG
* *
47936940 ACAATATCTAAAATCTTGA
1 ACAATATCTAAAAACTTCA
47936959 ACAATA-CTAAAAACTTCA
1 ACAATATCTAAAAACTTCA
47936977 ACA
1 ACA
47936980 TGAGCCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.25
Consensus pattern (19 bp):
ACAATATCTAAAAACTTCA
Found at i:47939374 original size:3 final size:3
Alignment explanation
Indices: 47939366--47939412 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
47939356 TAAATCTTTA
* * *
47939366 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
47939413 AGAATCGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:47942473 original size:41 final size:41
Alignment explanation
Indices: 47942424--47942532 Score: 155
Period size: 41 Copynumber: 2.6 Consensus size: 41
47942414 GACTTTAAGT
* *
47942424 CTAGCAGGCTACGTGCCGGTGATCTGAATTAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
*
47942465 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* * *
47942506 CTAGCAGGCCAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
47942533 TTTAAATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 56 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:47944058 original size:25 final size:25
Alignment explanation
Indices: 47944029--47944077 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
47944019 ATATAGTTTT
*
47944029 TATATTA-ATTATAAATGTTATAATA
1 TATATTATATTAT-AATATTATAATA
47944054 TATATTATATTATAATATTATAAT
1 TATATTATATTATAATATTATAAT
47944078 TAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTATATTATAATATTATAATA
Found at i:47945757 original size:41 final size:41
Alignment explanation
Indices: 47945694--47945814 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 41
47945684 ACTAATCTGA
* * * *
47945694 TTTATTGCCAGTGAAATAATTCAGACTTTATGTCTAGCAGGC
1 TTTA-TGCCGGTGAAATAATTCAGACTATACGTCTAGCAAGC
*
47945736 TTTATGCCGGTGAAATTATTCAGACTATACGTCTAGCAAGC
1 TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAAGC
* * * * * *
47945777 TTAATGCCGGTGATACATTTCGGACTATAAGTCTAGCA
1 TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCA
47945815 GGCTAAAAGC
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 63 0.94
42 4 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (41 bp):
TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAAGC
Found at i:47948481 original size:24 final size:25
Alignment explanation
Indices: 47948444--47948538 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 25
47948434 TATATGGCTA
* *
47948444 TTTGGTGCTTCCCGTTA-AGTGCTC
1 TTTGGAGCTACCCGTTATAGTGCTC
*
47948468 TTTGGAGCTACCCGTTA-ATTGCTC
1 TTTGGAGCTACCCGTTATAGTGCTC
*
47948492 TTCGGAG--ACCCGTTATAG-GCTC
1 TTTGGAGCTACCCGTTATAGTGCTC
* *
47948514 TTTGTGAGATTCCCGTTATAGTGCT
1 TTTG-GAGCTACCCGTTATAGTGCT
47948539 TGAGAGAGAG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
22 15 0.25
23 4 0.07
24 27 0.46
25 10 0.17
26 3 0.05
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (25 bp):
TTTGGAGCTACCCGTTATAGTGCTC
Found at i:47949941 original size:7 final size:6
Alignment explanation
Indices: 47949898--47949948 Score: 75
Period size: 6 Copynumber: 8.2 Consensus size: 6
47949888 TGGTTTTCTC
*
47949898 AAAATG AAAATG GAAATG AAAATG AAAATG AAAATG AGAAATG AGAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG A-AAATG
47949948 A
1 A
47949949 TTCATTTGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
6 29 0.69
7 13 0.31
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:47965527 original size:126 final size:126
Alignment explanation
Indices: 47965220--47965671 Score: 728
Period size: 126 Copynumber: 3.6 Consensus size: 126
47965210 TTTTTAAGAT
*
47965220 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTT
1 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
* *
47965285 GCTATAGTTGGTCCTGGAAAAAATAATTTCGAGTTGATGTTTCTGAGCGAATAGTAT-AAA
66 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGATGTTTCTGAGCGAATAGTATAAAA
* * *
47965345 AACGCTTCTAGCAGGATGCATTATGAGAACAATTTGTGAAATCGCGCCCATGTGGACGCGCTTTT
1 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
* *
47965410 GCTACAGTAGGTCTTGAAAAAAATAATTTCGAGTTGATGTTTCTGAGCGAATAGTATAAAA
66 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGATGTTTCTGAGCGAATAGTATAAAA
* * * * *
47965471 AACGCTTCTACCAGGATGCGTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACTCACTTTT
1 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
* *
47965536 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA
66 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGATGTTTCTGAGCGAATAGTATAAAA
* *
47965597 AACGCTTCCT-GCAGGGTGCTTTATGAAAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTT
1 AACGCTT-CTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTT
47965661 TGCTACAGTAG
65 TGCTACAGTAG
47965672 CATGTTCGGG
Statistics
Matches: 299, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
125 114 0.38
126 183 0.61
127 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (126 bp):
AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGATGTTTCTGAGCGAATAGTATAAAA
Found at i:47968765 original size:53 final size:53
Alignment explanation
Indices: 47968704--47968996 Score: 466
Period size: 53 Copynumber: 5.5 Consensus size: 53
47968694 TGATGGTTAG
*
47968704 TCAAATTATATCTAATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTTA
1 TCAAATTATATCAAATTATTAATTGATAATTGTATTAATTGTTAGTAAAA-TTA
* *
47968758 T-AAATTATATCAAATTATTAATTGATCATTGTAGTAATTGTTAGTAAAATTA
1 TCAAATTATATCAAATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTA
* *
47968810 TCAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATT-
1 TCAAATTATATCAAATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTA
* *
47968862 TACAAATTATATCAAATTATTAATTGATAATTGTAGTAATGGTTAGTAAAATTA
1 T-CAAATTATATCAAATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTA
*
47968916 TCAAATTATATCAAATTATTAGTTGATAATTGTATTAATAT-TTAGTAAAATTA
1 TCAAATTATATCAAATTATTAATTGATAATTGTATTAAT-TGTTAGTAAAATTA
47968969 TCAAATTATATCAAATTATTAATTGATA
1 TCAAATTATATCAAATTATTAATTGATA
47968997 GTACCGGTCA
Statistics
Matches: 222, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
52 5 0.02
53 215 0.97
54 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (53 bp):
TCAAATTATATCAAATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTA
Found at i:47969138 original size:15 final size:14
Alignment explanation
Indices: 47969117--47969179 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
47969107 TAGAGTTTTT
47969117 AGGTTTAGGGTTTA
1 AGGTTTAGGGTTTA
** *
47969131 AGGTTTTATAGTTAA
1 AGG-TTTAGGGTTTA
*
47969146 AGGTTTAGGGGTTTT
1 AGGTTTA-GGGTTTA
*
47969161 AGGTTTAAGG-TTA
1 AGGTTTAGGGTTTA
47969174 AGGTTT
1 AGGTTT
47969180 TTTATTTTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
13 8 0.21
14 9 0.24
15 21 0.55
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (14 bp):
AGGTTTAGGGTTTA
Found at i:47969167 original size:29 final size:28
Alignment explanation
Indices: 47969117--47969179 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
47969107 TAGAGTTTTT
47969117 AGGTTTAGGGTTTAAGGTTTTATA-GTTAA
1 AGGTTTAGGGTTTAAGGTTTTA-AGGTT-A
*
47969146 AGGTTTAGGGGTTTTAGG-TTTAAGGTTA
1 AGGTTTA-GGGTTTAAGGTTTTAAGGTTA
47969174 AGGTTT
1 AGGTTT
47969180 TTTATTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 8 0.26
29 14 0.45
30 9 0.29
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (28 bp):
AGGTTTAGGGTTTAAGGTTTTAAGGTTA
Found at i:47969217 original size:22 final size:22
Alignment explanation
Indices: 47969093--47969355 Score: 80
Period size: 22 Copynumber: 11.9 Consensus size: 22
47969083 TCAAATTATA
* *
47969093 TTTAAGTTAAG-GGTTAGAGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * * *
47969114 TTTAGGTTTAGGGTTTAAGG-T
1 TTTAAGTTAAGAGTTTAGGGTT
*
47969135 TTTATAGTTAA-AGGTTTAGGGGT
1 TTTA-AGTTAAGA-GTTTAGGGTT
* * *
47969158 TTTAGGTTTAAG-GTTAAGGTTT
1 TTTAAG-TTAAGAGTTTAGGGTT
** *
47969180 TTTATTTTATGA-TTTAGGGTT
1 TTTAAGTTAAGAGTTTAGGGTT
*
47969201 TTTAAGTTAAGAGTTTAGAGTTT
1 TTTAAGTTAAGAGTTTAG-GGTT
* * *
47969224 AAGGTTTAAAATTTAGAATTT-GGGTT
1 ----TTT-AAGTTAAGAGTTTAGGGTT
* * * *
47969250 TTTAGGTTTAG-GATTAGTGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * *
47969271 TTTAATTTAAAAGTTT-GAGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* *
47969292 TTAAAAGTTTACG-GTTTAGGGTT
1 TT-TAAG-TTAAGAGTTTAGGGTT
* *
47969315 TTTTAGTTAA-AGGTTTATGGTT
1 TTTAAGTTAAGA-GTTTAGGGTT
47969337 TTTAAGTTTAA-AGTTTAGG
1 TTTAAG-TTAAGAGTTTAGG
47969356 ATTTAGAGTT
Statistics
Matches: 172, Mismatches: 48, Indels: 43
0.65 0.18 0.16
Matches are distributed among these distances:
20 2 0.01
21 60 0.35
22 67 0.39
23 26 0.15
26 3 0.02
27 4 0.02
28 10 0.06
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (22 bp):
TTTAAGTTAAGAGTTTAGGGTT
Found at i:47969259 original size:21 final size:21
Alignment explanation
Indices: 47969235--47969274 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47969225 AGGTTTAAAA
*
47969235 TTTAGAATTTGGGTTTTTAGG
1 TTTAGAATTAGGGTTTTTAGG
* *
47969256 TTTAGGATTAGTGTTTTTA
1 TTTAGAATTAGGGTTTTTA
47969275 ATTTAAAAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (21 bp):
TTTAGAATTAGGGTTTTTAGG
Found at i:47969407 original size:21 final size:21
Alignment explanation
Indices: 47969383--47969664 Score: 98
Period size: 22 Copynumber: 13.4 Consensus size: 21
47969373 TTAGGTTGAG
*
47969383 GGTTTAAGGTTTTTAGTTTAT
1 GGTTTAAGGTTTTTAGTTTAA
* *
47969404 GGTTTAGGGTTTTTA-ATTAA
1 GGTTTAAGGTTTTTAGTTTAA
* *
47969424 GGGTTAAGGGTTTTAAGTTTAA
1 GGTTTAA-GGTTTTTAGTTTAA
* *
47969446 GG-TT-AGTTTTTTTAATTTAA
1 GGTTTAAG-GTTTTTAGTTTAA
* * *
47969466 GGGTTAGGGTTTTAAAGGTTTAA
1 GGTTTAAGGTTTT-TA-GTTTAA
* * *
47969489 GATTTAGGGTTTTTTAGTTAAA
1 GGTTTAAGG-TTTTTAGTTTAA
**
47969511 GGTTT-A--TGATT--TTT-A
1 GGTTTAAGGTTTTTAGTTTAA
* * *
47969526 GGTTTAAAGTTTTAGAATTTAA
1 GGTTTAAGGTTTT-TAGTTTAA
* * *** * *
47969548 GGTTTATGTTTTCAGGATAAGA
1 GGTTTAAGGTTTTTAGTTTA-A
* * *
47969570 GG-TTAGGGTTTTTTAATTTAT
1 GGTTTAAGG-TTTTTAGTTTAA
* *
47969591 GGTTTAGGGTTTTTAGGTTAA
1 GGTTTAAGGTTTTTAGTTTAA
*
47969612 GAGTTTAAAGTTTTTAGTTTAA
1 G-GTTTAAGGTTTTTAGTTTAA
*
47969634 GGGTTTATGGTTTTTAAGTTTAA
1 -GGTTTAAGGTTTTT-AGTTTAA
*
47969657 GATTTAAG
1 GGTTTAAG
47969665 ATTTATAATT
Statistics
Matches: 186, Mismatches: 54, Indels: 41
0.66 0.19 0.15
Matches are distributed among these distances:
15 6 0.03
16 3 0.02
18 5 0.03
19 1 0.01
20 21 0.11
21 50 0.27
22 75 0.40
23 21 0.11
24 4 0.02
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (21 bp):
GGTTTAAGGTTTTTAGTTTAA
Found at i:47969427 original size:42 final size:42
Alignment explanation
Indices: 47969381--47969502 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
47969371 TTTTAGGTTG
* *
47969381 AGGGTTTAAGGTTTTTA-GTTTATGGTTTAGGGTTTTTAATTA
1 AGGG-TTAAGGTTTTAAGGTTTAAGGTTTAGGGTTTTTAATTA
**
47969423 AGGGTTAAGGGTTTTAA-GTTTAAGG-TTAGTTTTTTTAATTTA
1 AGGGTTAA-GGTTTTAAGGTTTAAGGTTTAGGGTTTTTAA-TTA
* *
47969465 AGGGTTAGGGTTTTAAAGGTTTAAGATTTAGGGTTTTT
1 AGGGTTAAGGTTTT-AAGGTTTAAGGTTTAGGGTTTTT
47969503 TAGTTAAAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
41 21 0.31
42 30 0.45
43 7 0.10
44 9 0.13
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (42 bp):
AGGGTTAAGGTTTTAAGGTTTAAGGTTTAGGGTTTTTAATTA
Found at i:47969497 original size:185 final size:187
Alignment explanation
Indices: 47969249--47969605 Score: 492
Period size: 185 Copynumber: 1.9 Consensus size: 187
47969239 GAATTTGGGT
* * * *
47969249 TTTTAGGTTTAGGATTAGTGTTTTTAATTTAAAAGTTTGAGTTTTAAAAGTTTACGGTTTAGGGT
1 TTTTAAGTTTAGGATTAGTGTTTTTAATTTAAAAGTTAGAGTTTTAAAAGTTTAAGATTTAGGGT
* *
47969314 TTTTTAGTTAAAGGTTTATGGTTTTTAAGTTTAAAG-TTTAGGATTT-AGAGTTTATGATTTT-A
66 TTTTTAGTTAAAGGTTTATGATTTTTAAGTTTAAAGTTTTAGAATTTAAG-GTTTATG-TTTTCA
* * *
47969376 GGTTGAG-GGTTTAAGG-TTTTTAGTTTATGGTTTAGGGTTTTTAATTAAGGGTTAAGGG
129 GGATAAGAGG-TTAAGGTTTTTTAATTTATGGTTTAGGGTTTTTAATTAAGGGTTAAGGG
* ** * *
47969434 TTTTAAGTTTAAGG-TTAGTTTTTTTAATTTAAGGGTTAGGGTTTTAAAGGTTTAAGATTTAGGG
1 TTTTAAGTTT-AGGATTAGTGTTTTTAATTTAAAAGTTAGAGTTTTAAAAGTTTAAGATTTAGGG
*
47969498 TTTTTTAGTTAAAGGTTTATGATTTTTAGGTTTAAAGTTTTAGAATTTAAGGTTTATGTTTTCAG
65 TTTTTTAGTTAAAGGTTTATGATTTTTAAGTTTAAAGTTTTAGAATTTAAGGTTTATGTTTTCAG
*
47969563 GATAAGAGGTTAGGGTTTTTTAATTTATGGTTTAGGGTTTTTA
130 GATAAGAGGTTAAGGTTTTTTAATTTATGGTTTAGGGTTTTTA
47969606 GGTTAAGAGT
Statistics
Matches: 150, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
185 90 0.60
186 30 0.20
187 30 0.20
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.50
Consensus pattern (187 bp):
TTTTAAGTTTAGGATTAGTGTTTTTAATTTAAAAGTTAGAGTTTTAAAAGTTTAAGATTTAGGGT
TTTTTAGTTAAAGGTTTATGATTTTTAAGTTTAAAGTTTTAGAATTTAAGGTTTATGTTTTCAGG
ATAAGAGGTTAAGGTTTTTTAATTTATGGTTTAGGGTTTTTAATTAAGGGTTAAGGG
Found at i:47969532 original size:44 final size:44
Alignment explanation
Indices: 47969383--47969532 Score: 121
Period size: 41 Copynumber: 3.5 Consensus size: 44
47969373 TTAGGTTGAG
* * *
47969383 GGTTTAAGGTTTTTA-GTTTATGGTTTAGGG-TTTTTAATT-AA
1 GGTTTATGGTTTTTAGGTTTAAGATTTAGGGTTTTTTAATTAAA
* * * * * * *
47969424 GGGTTAAGGGTTTTAAGTTTAAG-GTTA-GTTTTTTTAATTTAA
1 GGTTTATGGTTTTTAGGTTTAAGATTTAGGGTTTTTTAATTAAA
* * * *
47969466 GGGTTAGGGTTTTAAAGGTTTAAGATTTAGGGTTTTTTAGTTAAA
1 GGTTTATGGTTTT-TAGGTTTAAGATTTAGGGTTTTTTAATTAAA
*
47969511 GGTTTATGATTTTTAGGTTTAA
1 GGTTTATGGTTTTTAGGTTTAA
47969533 AGTTTTAGAA
Statistics
Matches: 86, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.01
41 25 0.29
42 19 0.22
43 8 0.09
44 11 0.13
45 22 0.26
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (44 bp):
GGTTTATGGTTTTTAGGTTTAAGATTTAGGGTTTTTTAATTAAA
Found at i:47969648 original size:44 final size:43
Alignment explanation
Indices: 47969527--47969663 Score: 127
Period size: 44 Copynumber: 3.1 Consensus size: 43
47969517 TGATTTTTAG
* *
47969527 GTTTAAAG-TTTTAGAATTTAAGGTTTAT-GTTTTCAGGATAAGA
1 GTTTAAAGTTTTTAG--TTTAAGGTTTATGGTTTTTAGGTTAAGA
* ** * * *
47969570 GGTTAGGGTTTTTTAATTTATGGTTTAGGGTTTTTAGGTTAAGA
1 GTTTAAAG-TTTTTAGTTTAAGGTTTATGGTTTTTAGGTTAAGA
*
47969614 GTTTAAAGTTTTTAGTTTAAGGGTTTATGGTTTTTAAGTTTAAGA
1 GTTTAAAGTTTTTAGTTTAA-GGTTTATGGTTTTT-AGGTTAAGA
47969659 -TTTAA
1 GTTTAA
47969664 GATTTATAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
43 25 0.34
44 36 0.49
45 13 0.18
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (43 bp):
GTTTAAAGTTTTTAGTTTAAGGTTTATGGTTTTTAGGTTAAGA
Found at i:47969684 original size:50 final size:50
Alignment explanation
Indices: 47969623--47969718 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
47969613 AGTTTAAAGT
*
47969623 TTTTAGTTTAAGGGTTTATGG-TTTTTAAGTTTAAGATTTAAGATTTATAA
1 TTTTAGGTTAAGGGTTTA-GGTTTTTTAAGTTTAAGATTTAAGATTTATAA
* * *
47969673 TTTTAGGTTAAGGGTTTAGGTTTTTTTAGTTTATGATTTAGGATTT
1 TTTTAGGTTAAGGGTTTAGGTTTTTTAAGTTTAAGATTTAAGATTT
47969719 TTAAGTTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (50 bp):
TTTTAGGTTAAGGGTTTAGGTTTTTTAAGTTTAAGATTTAAGATTTATAA
Found at i:47969698 original size:22 final size:21
Alignment explanation
Indices: 47969673--47969749 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
47969663 AGATTTATAA
47969673 TTTTAGGTTAAGGGTTTAGGTTT
1 TTTTA-GTTAAGGGTTTAGG-TT
* * *
47969696 TTTTAGTTTATGATTTAGGATT
1 TTTTAGTTAAGGGTTTAGG-TT
* * *
47969718 TTTAAGTTAAGAGTTTCGGTTT
1 TTTTAGTTAAGGGTTTAGG-TT
47969740 TTTTAGTTAA
1 TTTTAGTTAA
47969750 AAGTTAGGGG
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 37 0.88
23 5 0.12
ACGTcount: A:0.22, C:0.01, G:0.22, T:0.55
Consensus pattern (21 bp):
TTTTAGTTAAGGGTTTAGGTT
Found at i:47969849 original size:37 final size:35
Alignment explanation
Indices: 47969808--47969879 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
47969798 GGGTTAGGGT
* *
47969808 TTTAAGAGTT-TATGGTTTATAATTTTTAGGTTTAAGG
1 TTTAAG-GTTGTAGGGTTTAT-ATTTTTAAG-TTAAGG
47969845 TTTAAGGTTGTAGGGTTTATATTTTTAAGTTAAGG
1 TTTAAGGTTGTAGGGTTTATATTTTTAAGTTAAGG
47969880 AATAAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 6 0.19
36 11 0.34
37 15 0.47
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (35 bp):
TTTAAGGTTGTAGGGTTTATATTTTTAAGTTAAGG
Found at i:47973568 original size:19 final size:20
Alignment explanation
Indices: 47973530--47973568 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
47973520 TATACTTTAA
*
47973530 TTTTAAAAAATTATTTAATTT
1 TTTTAAAAAA-TATTAAATTT
47973551 TTTTAAAAAA-ATTAAATT
1 TTTTAAAAAATATTAAATT
47973569 ATTTAAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTAAAAAATATTAAATTT
Found at i:47976600 original size:15 final size:16
Alignment explanation
Indices: 47976582--47976611 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47976572 TTTTTCTAAA
47976582 CTCTAATTTT-AATTT
1 CTCTAATTTTCAATTT
47976597 CTCTAATTTTCAATT
1 CTCTAATTTTCAATT
47976612 CAATATTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57
Consensus pattern (16 bp):
CTCTAATTTTCAATTT
Found at i:48000028 original size:3 final size:3
Alignment explanation
Indices: 48000020--48000056 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
48000010 TGTTCTCGAT
48000020 TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
48000057 GCTTTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:48005438 original size:16 final size:16
Alignment explanation
Indices: 48005414--48005457 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
48005404 TCAATTTTTT
* *
48005414 TTTATTTTTAATTTAA
1 TTTAATTTTAACTTAA
*
48005430 TTTAATTTTTACTTAA
1 TTTAATTTTAACTTAA
48005446 TGTTAATTTTAA
1 T-TTAATTTTAA
48005458 ATATTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTAATTTTAACTTAA
Found at i:48007933 original size:23 final size:23
Alignment explanation
Indices: 48007897--48007940 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48007887 TGGTTATGTC
48007897 AATGCAGTATTTTCAAAAAACAT
1 AATGCAGTATTTTCAAAAAACAT
*
48007920 AATGCAG-ATGTTTCAGAAAAC
1 AATGCAGTAT-TTTCAAAAAAC
48007941 TTCCTACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (23 bp):
AATGCAGTATTTTCAAAAAACAT
Found at i:48015876 original size:61 final size:60
Alignment explanation
Indices: 48015780--48015957 Score: 198
Period size: 62 Copynumber: 2.9 Consensus size: 60
48015770 ATTGCGAGGT
* * *
48015780 CAATGGTGTTTGGTTGATATGGGCATCATAGAAATGGCTTTGTGTAGTAGGCTGCTGGGC
1 CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGCTTTGTGTAGTAGGCTGCCGAGC
* * *
48015840 ATAATGGTGCTTGGTTGATATGGGCATCATAGAAATGG-TTTCTTGGTTAATAGGCTGCCGAGC
1 -CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGCTTT-GT-G-TAGTAGGCTGCCGAGC
* * *
48015903 CAATGGTGCTTGGTTAAAATGGGCA-CTATACAAATGGTTCTTTGTGTAGTAGGCT
1 CAATGGTGCTTGGTTGATATGGGCATC-ATAGAAATGG--CTTTGTGTAGTAGGCT
48015958 TCACTAAGCA
Statistics
Matches: 98, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
60 3 0.03
61 37 0.38
62 40 0.41
63 14 0.14
64 1 0.01
65 3 0.03
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (60 bp):
CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGCTTTGTGTAGTAGGCTGCCGAGC
Found at i:48015956 original size:62 final size:63
Alignment explanation
Indices: 48015780--48015957 Score: 222
Period size: 61 Copynumber: 2.9 Consensus size: 63
48015770 ATTGCGAGGT
* * *
48015780 CAATGGTGTTTGGTTGATATGGGCATCATAGAAATGG--CTTTGTGTAGTAGGCTGCTGGGCA
1 CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGTTCTTTGTGTAGTAGGCTGCCGAGCA
* * *
48015841 TAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGTTTCTTGGT-TAATAGGCTGCCGAGC-
1 CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGG-TTCTTTGTGTAGTAGGCTGCCGAGCA
* * *
48015903 CAATGGTGCTTGGTTAAAATGGGCA-CTATACAAATGGTTCTTTGTGTAGTAGGCT
1 CAATGGTGCTTGGTTGATATGGGCATC-ATAGAAATGGTTCTTTGTGTAGTAGGCT
48015958 TCACTAAGCA
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
61 43 0.43
62 39 0.39
63 13 0.13
64 5 0.05
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (63 bp):
CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGTTCTTTGTGTAGTAGGCTGCCGAGCA
Found at i:48021238 original size:12 final size:12
Alignment explanation
Indices: 48021221--48021253 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
48021211 AGTCCACGGT
48021221 GGAGGAAGAGGA
1 GGAGGAAGAGGA
48021233 GGAGGAAGAGGA
1 GGAGGAAGAGGA
*
48021245 GGATGAAGA
1 GGAGGAAGA
48021254 AGAAGAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (12 bp):
GGAGGAAGAGGA
Found at i:48022977 original size:24 final size:24
Alignment explanation
Indices: 48022949--48022997 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
48022939 AGATATGTCA
*
48022949 TCATTGTTTATAATTTTAATTTTT
1 TCATTGTTTATAAATTTAATTTTT
*
48022973 TCATTTTTTATAAATTTAATTTTT
1 TCATTGTTTATAAATTTAATTTTT
48022997 T
1 T
48022998 TTCTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TCATTGTTTATAAATTTAATTTTT
Found at i:48025826 original size:29 final size:29
Alignment explanation
Indices: 48025746--48025825 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
48025736 ATCTCAAATA
* * *
48025746 TATACATGAACTTTGGTCTAATGTTCAATTC
1 TATACATGAACTTTGAT-T-TTGTGCAATTC
*
48025777 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTTGTGCAATTC
48025806 TATACATGAAACTTTGATTT
1 TATACATG-AACTTTGATTT
48025826 GATCCAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 16 0.36
30 12 0.27
31 16 0.36
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTGCAATTC
Found at i:48025834 original size:30 final size:29
Alignment explanation
Indices: 48025746--48025836 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 29
48025736 ATCTCAAATA
* * *
48025746 TATACATGAACTTTGGTCTAATGTTCAATTC
1 TATACATGAACTTTGAT-T-TTGTCCAATTC
* *
48025777 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTTGTCCAATTC
48025806 TATACATGAAACTTTGA-TTTGATCCAATTC
1 TATACATG-AACTTTGATTTTG-TCCAATTC
48025836 T
1 T
48025837 CACAAATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
29 20 0.38
30 16 0.31
31 16 0.31
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTCCAATTC
Found at i:48026641 original size:14 final size:14
Alignment explanation
Indices: 48026622--48026652 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48026612 TGAATTGTTT
*
48026622 TAATCTAAATTTAC
1 TAATCTAAATTAAC
48026636 TAATCTAAATTAAC
1 TAATCTAAATTAAC
48026650 TAA
1 TAA
48026653 GAACGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:48027532 original size:30 final size:30
Alignment explanation
Indices: 48027475--48027532 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
48027465 CACGAGCTGG
* * * *
48027475 CACATGGGCATGTGGCCAGCCCGTGTGGCT
1 CACACGGGCATGTGCCCAGCACATGTGGCT
*
48027505 CACACGGGCGTGTGCCCAGCACATGTGG
1 CACACGGGCATGTGCCCAGCACATGTGG
48027533 AAATGCCCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.17
Consensus pattern (30 bp):
CACACGGGCATGTGCCCAGCACATGTGGCT
Found at i:48028706 original size:7 final size:7
Alignment explanation
Indices: 48028696--48028721 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48028686 ATTTAAAATA
48028696 TATATAT
1 TATATAT
48028703 TATATAT
1 TATATAT
48028710 TATATAT
1 TATATAT
48028717 TATAT
1 TATAT
48028722 TATTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATAT
Found at i:48029880 original size:25 final size:25
Alignment explanation
Indices: 48029852--48029956 Score: 144
Period size: 25 Copynumber: 4.3 Consensus size: 25
48029842 ACTTTAGCGC
**
48029852 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTCAGT
48029877 GCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACGTCAGT
*
48029902 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACGTCAGT
* *
48029927 GCTCTCTG--T-TTAGCACATCTGT
1 GCTCTCTGATTATTAGCACGTCAGT
48029949 GCTCTCTG
1 GCTCTCTG
48029957 TATAGCACTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.24
23 1 0.01
25 55 0.74
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTCAGT
Found at i:48029929 original size:50 final size:47
Alignment explanation
Indices: 48029852--48029980 Score: 138
Period size: 50 Copynumber: 2.7 Consensus size: 47
48029842 ACTTTAGCGC
* ** *
48029852 GCTCTCTGATTATTAGCACGTTGGTGCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTGATTACTAGCACGTCAGTGCTCTCTG--T-TTAGCACATCAGT
*
48029902 GCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGT
1 GCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTTTAGCACATCAGT
* * *
48029949 GCTCTCTG--TA-TAGCACTTTACTGCTCTCTGTT
1 GCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTT
48029981 CATTAGTGCA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 19 0.27
45 2 0.03
47 19 0.27
48 1 0.01
50 30 0.42
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (47 bp):
GCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTTTAGCACATCAGT
Found at i:48029950 original size:22 final size:23
Alignment explanation
Indices: 48029852--48029978 Score: 114
Period size: 25 Copynumber: 5.3 Consensus size: 23
48029842 ACTTTAGCGC
**
48029852 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGA-T-TTAGCACGTCAGT
48029877 GCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTGA-T-TTAGCACGTCAGT
48029902 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATT--TAGCACGTCAGT
* *
48029927 GCTCTCTG-TTTAGCACATCTGT
1 GCTCTCTGATTTAGCACGTCAGT
* * * *
48029949 GCTCTCTG-TATAGCACTTTACT
1 GCTCTCTGATTTAGCACGTCAGT
48029971 GCTCTCTG
1 GCTCTCTG
48029979 TTCATTAGTG
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
22 35 0.38
23 1 0.01
24 3 0.03
25 52 0.57
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.38
Consensus pattern (23 bp):
GCTCTCTGATTTAGCACGTCAGT
Found at i:48029979 original size:22 final size:22
Alignment explanation
Indices: 48029926--48029979 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
48029916 AGCACGTCAG
* *
48029926 TGCTCTCTGTTTAGCACATCTG
1 TGCTCTCTGTATAGCACATCTC
*
48029948 TGCTCTCTGTATAGCAC-TTTAC
1 TGCTCTCTGTATAGCACATCT-C
48029970 TGCTCTCTGT
1 TGCTCTCTGT
48029980 TCATTAGTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.43
Consensus pattern (22 bp):
TGCTCTCTGTATAGCACATCTC
Found at i:48032937 original size:13 final size:13
Alignment explanation
Indices: 48032919--48032951 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
48032909 TGGTTATCTA
*
48032919 TATTTTTTGTTTT
1 TATTTTTTATTTT
48032932 TA-TTTTTATTTT
1 TATTTTTTATTTT
48032944 TATTTTTT
1 TATTTTTT
48032952 TATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:48034271 original size:21 final size:23
Alignment explanation
Indices: 48034231--48034272 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
48034221 GGTTATTAGA
48034231 ATTTTACAAATTAAAAAATATTT
1 ATTTTACAAATTAAAAAATATTT
*
48034254 ATTTTA-AAA-TAAATAATAT
1 ATTTTACAAATTAAAAAATAT
48034273 AAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 3 0.17
23 6 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTACAAATTAAAAAATATTT
Found at i:48044140 original size:36 final size:37
Alignment explanation
Indices: 48044100--48044200 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 37
48044090 CGTGATCCGA
*
48044100 TTGAAACGCGAGAATTTTTTTT-AAAACAC-GAGAA-TT
1 TTGAAACAC-AGAATTTTTTTTGAAAACACGGA-AATTT
* * *
48044136 TTGAAATAACATAATTTTTTTTGAAAAAACGGAAATTT
1 TTGAAA-CACAGAATTTTTTTTGAAAACACGGAAATTT
48044174 TTGAAACAC-GAATTTTTTTTGAAAACA
1 TTGAAACACAGAATTTTTTTTGAAAACA
48044201 AGAAATATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
36 33 0.61
37 11 0.20
38 10 0.19
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGAAACACAGAATTTTTTTTGAAAACACGGAAATTT
Found at i:48044930 original size:15 final size:15
Alignment explanation
Indices: 48044907--48044943 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
48044897 CAGAATGTAG
48044907 TTTTT-TTTCTCTTT-
1 TTTTTCTTTC-CTTTC
48044921 TTTTTCTTTCCTTTC
1 TTTTTCTTTCCTTTC
48044936 TTTTTCTT
1 TTTTTCTT
48044944 CTTCTCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTCCTTTC
Found at i:48044939 original size:18 final size:19
Alignment explanation
Indices: 48044916--48044956 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
48044906 GTTTTTTTTC
* *
48044916 TCTTTTTTTTCTT-TCCTT
1 TCTTTTTCTTCTTCTCCCT
48044934 TCTTTTTCTTCTTCTCCCT
1 TCTTTTTCTTCTTCTCCCT
48044953 TCTT
1 TCTT
48044957 CTTCCTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
TCTTTTTCTTCTTCTCCCT
Found at i:48044955 original size:19 final size:18
Alignment explanation
Indices: 48044916--48044967 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
48044906 GTTTTTTTTC
* *
48044916 TCTTTTTTTTCTTTCCTT
1 TCTTTTTCTTCTTTCCCT
48044934 TCTTTTTCTTCTTCTCCCT
1 TCTTTTTCTTCTT-TCCCT
* *
48044953 TCTTCTTCCTCTTTC
1 TCTTTTTCTTCTTTC
48044968 AGCCCTACCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTTTCTTCTTTCCCT
Found at i:48045079 original size:15 final size:15
Alignment explanation
Indices: 48045057--48045116 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
48045047 CTTTCTCTTC
48045057 TCTCTTTCTTTATCT
1 TCTCTTTCTTTATCT
* *
48045072 TTTCTTTCTTTTTCT
1 TCTCTTTCTTTATCT
*
48045087 TCT-TTTCTTTCTTCT
1 TCTCTTTCTTT-ATCT
48045102 T-TCTTT-TTT-TCT
1 TCTCTTTCTTTATCT
48045114 TCT
1 TCT
48045117 TTCTTCCTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 4 0.10
13 1 0.03
14 11 0.28
15 23 0.59
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (15 bp):
TCTCTTTCTTTATCT
Found at i:48045086 original size:29 final size:29
Alignment explanation
Indices: 48045037--48045121 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 29
48045027 TCACCGATGC
* *
48045037 TTATCCTTTCCTTTC-TCTTCTCTCTTTCT
1 TTAT-CTTTTCTTTCTTTTTCTCTCTTTCT
48045066 TTATCTTTTCTTTCTTTTTCT-TCTTT-T
1 TTATCTTTTCTTTCTTTTTCTCTCTTTCT
*
48045093 CTT-TC--TTCTTTCTTTTTTTCTTCTTTCT
1 -TTATCTTTTCTTTCTTTTTCTC-TCTTTCT
48045121 T
1 T
48045122 CCTCCTCCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
25 13 0.27
27 9 0.19
28 17 0.35
29 9 0.19
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (29 bp):
TTATCTTTTCTTTCTTTTTCTCTCTTTCT
Done.