Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 70 of 325
Found at i:24634792 original size:21 final size:21
Alignment explanation
Indices: 24634749--24634794 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
24634739 GACCCTTTTT
* * *
24634749 ATATTATGCAACATCAGCTAC
1 ATATTATGCAACATAAACAAC
*
24634770 ATATTATGCAACCTAAACAAC
1 ATATTATGCAACATAAACAAC
24634791 ATAT
1 ATAT
24634795 ATCATGCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (21 bp):
ATATTATGCAACATAAACAAC
Found at i:24636354 original size:3 final size:3
Alignment explanation
Indices: 24636340--24636379 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
24636330 CGTCAATGCC
*
24636340 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24636380 CCTGGGATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24637584 original size:30 final size:31
Alignment explanation
Indices: 24637538--24637610 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 31
24637528 TTAATGTGTT
24637538 ATTC-TATATA-TAAATTTTAATTTTG-TCTA
1 ATTCTTATATATTAAATTTTAA-TTTGATCTA
24637567 ATT-TTATATATTAAATTTTAATTTGATCTA
1 ATTCTTATATATTAAATTTTAATTTGATCTA
*
24637597 ATTCTTATAAATTA
1 ATTCTTATATATTA
24637611 TTAACACAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
29 13 0.33
30 17 0.44
31 9 0.23
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (31 bp):
ATTCTTATATATTAAATTTTAATTTGATCTA
Found at i:24637785 original size:29 final size:30
Alignment explanation
Indices: 24637753--24637810 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
24637743 TTATGTGTAT
*
24637753 AATTACAC-TAAATCAAAATTTATATATCA
1 AATTACACATAAATCAAAATTAATATATCA
*
24637782 AATTACACATTAAATCAAAGTTAATATAT
1 AATTACACA-TAAATCAAAATTAATATAT
24637811 AATTTTGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
31 17 0.68
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (30 bp):
AATTACACATAAATCAAAATTAATATATCA
Found at i:24637814 original size:29 final size:27
Alignment explanation
Indices: 24637750--24637814 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 27
24637740 GTTTTATGTG
*
24637750 TATAATTACACTAAATCAAAATTTATA
1 TATAATTACACTAAATCAAAATTAATA
*
24637777 TATCAAATTACACATTAAATCAAAGTTAATA
1 TAT--AATTACAC--TAAATCAAAATTAATA
24637808 TATAATT
1 TATAATT
24637815 TTGAGATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 3 0.09
29 12 0.38
31 17 0.53
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (27 bp):
TATAATTACACTAAATCAAAATTAATA
Found at i:24645560 original size:74 final size:74
Alignment explanation
Indices: 24645439--24645584 Score: 283
Period size: 74 Copynumber: 2.0 Consensus size: 74
24645429 AAAGCTAGCT
24645439 CAATTACAGGTCATTGTAATCTACATAACCAGTTCACCATGGGTTATAAGGATTTAACTTCTGCT
1 CAATTACAGGTCATTGTAATCTACATAACCAGTTCACCATGGGTTATAAGGATTTAACTTCTGCT
24645504 AATTTAGGC
66 AATTTAGGC
*
24645513 CAATTACAGGTCATTGTAATCTACATAACCAGTTCATCATGGGTTATAAGGATTTAACTTCTGCT
1 CAATTACAGGTCATTGTAATCTACATAACCAGTTCACCATGGGTTATAAGGATTTAACTTCTGCT
24645578 AATTTAG
66 AATTTAG
24645585 CCTTGGCCAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (74 bp):
CAATTACAGGTCATTGTAATCTACATAACCAGTTCACCATGGGTTATAAGGATTTAACTTCTGCT
AATTTAGGC
Found at i:24653316 original size:19 final size:20
Alignment explanation
Indices: 24653282--24653336 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
24653272 TTTAAATATT
24653282 TTTTTAAATTGATTTTT-T-A
1 TTTTTAAATT-ATTTTTATAA
24653301 TTTTCTAAA-TATTTTTATAA
1 TTTT-TAAATTATTTTTATAA
24653321 TTTTTAAATTATTTTT
1 TTTTTAAATTATTTTT
24653337 GATGTGACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 6 0.19
19 10 0.31
20 16 0.50
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTAAATTATTTTTATAA
Found at i:24656202 original size:21 final size:18
Alignment explanation
Indices: 24656175--24656221 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
24656165 GGAGAGAAAC
24656175 ATAAAATAGAGAAAACAAA
1 ATAAAATAGAG-AAACAAA
*
24656194 TATGAAAATGGAGAAACAAA
1 -AT-AAAATAGAGAAACAAA
24656214 ATAAAATA
1 ATAAAATA
24656222 AAACTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 5 0.21
19 2 0.08
20 9 0.38
21 8 0.33
ACGTcount: A:0.68, C:0.04, G:0.13, T:0.15
Consensus pattern (18 bp):
ATAAAATAGAGAAACAAA
Found at i:24661209 original size:94 final size:94
Alignment explanation
Indices: 24661048--24661231 Score: 323
Period size: 94 Copynumber: 2.0 Consensus size: 94
24661038 GTGTGGAGGA
*
24661048 AGCATTGAAGGATACAAATTGGTCAAGCCCACAATGCTTCATTTGTTTTTCTTTTTGGACCACTA
1 AGCATTGAAGGATACAAATTGGTCAAGCCCACAATACTTCATTTGTTTTTCTTTTTGGACCACTA
*
24661113 AACTCCTTTTACATGTGAAAAGTCAGATT
66 AACTCCTTTTACATATGAAAAGTCAGATT
* **
24661142 AGCATTGAAGGATGCAAATTGGTCAAGCCCGTAATACTTCATTTGTTTTTCTTTTTGGACCACTA
1 AGCATTGAAGGATACAAATTGGTCAAGCCCACAATACTTCATTTGTTTTTCTTTTTGGACCACTA
24661207 AACTCCTTTTACATATGAAAAGTCA
66 AACTCCTTTTACATATGAAAAGTCA
24661232 AATTGGCTTG
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 85 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (94 bp):
AGCATTGAAGGATACAAATTGGTCAAGCCCACAATACTTCATTTGTTTTTCTTTTTGGACCACTA
AACTCCTTTTACATATGAAAAGTCAGATT
Found at i:24666198 original size:23 final size:23
Alignment explanation
Indices: 24666172--24666261 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 23
24666162 GAGCATTTGA
*
24666172 CACTTCGATGCAATTCATTCTAG
1 CACTTCGGTGCAATTCATTCTAG
* * ** *
24666195 CACTTTGTTGCAATTTGTTCTGG
1 CACTTCGGTGCAATTCATTCTAG
* **
24666218 TACTAT-GGTGTGATTCATTCTAG
1 CACT-TCGGTGCAATTCATTCTAG
24666241 CACTTCGGTGC-ATTACATTCT
1 CACTTCGGTGCAATT-CATTCT
24666262 GTGGAATGTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
22 4 0.08
23 45 0.90
24 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (23 bp):
CACTTCGGTGCAATTCATTCTAG
Found at i:24667206 original size:42 final size:42
Alignment explanation
Indices: 24667146--24667226 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
24667136 TAGTGTGCAA
24667146 AACACTAGGGGAAAATTACTCTAATTACATGTCCAATGTTGC
1 AACACTAGGGGAAAATTACTCTAATTACATGTCCAATGTTGC
* *
24667188 AACACTAGGGGCAGATTACTCTAATTACATGTCCAATGT
1 AACACTAGGGGAAAATTACTCTAATTACATGTCCAATGT
24667227 CATGACACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (42 bp):
AACACTAGGGGAAAATTACTCTAATTACATGTCCAATGTTGC
Found at i:24670115 original size:35 final size:32
Alignment explanation
Indices: 24670047--24670116 Score: 79
Period size: 35 Copynumber: 2.1 Consensus size: 32
24670037 ATATATTAGT
* *
24670047 AATTATTATATATTTACTTATAATTTAAGTAA
1 AATTATTATATATTTACTTATAAATTAAATAA
24670079 AATTATTATATTATTATA-TTATATTAATTAAATAA
1 AATTATTATA-TATT-TACTTATA--AATTAAATAA
24670114 AAT
1 AAT
24670117 AAATAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 10 0.31
33 9 0.28
34 2 0.06
35 11 0.34
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (32 bp):
AATTATTATATATTTACTTATAAATTAAATAA
Found at i:24671326 original size:40 final size:40
Alignment explanation
Indices: 24671227--24671342 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
24671217 CCTTCTCAAG
* * *
24671227 AATTAAAAGTGAATAGGATCTATTCCTAATTCACTAAAAGA
1 AATT-AAAGTGAATAGGATTTATTCTTGATTCACTAAAAGA
*
24671268 AATTAAAGTGAATAGGATTTATTCTTGATTCACTAGAA-A
1 AATTAAAGTGAATAGGATTTATTCTTGATTCACTAAAAGA
* * *
24671307 TATATAAAGTGGATAGGATTTGTT-TCTGATTCACTA
1 AAT-TAAAGTGAATAGGATTTATTCT-TGATTCACTA
24671343 TGGTAACTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 4 0.06
40 58 0.88
41 4 0.06
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (40 bp):
AATTAAAGTGAATAGGATTTATTCTTGATTCACTAAAAGA
Found at i:24679093 original size:72 final size:71
Alignment explanation
Indices: 24678959--24679160 Score: 212
Period size: 72 Copynumber: 2.8 Consensus size: 71
24678949 ATTGATCGGT
* * * *
24678959 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
24679023 CAGTC-AT
64 CAGTCTAA
* * * *
24679030 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
24679095 CAGTCTAA
64 CAGTCTAA
* * * *
24679103 TATCCAGTAACAGTCAATTA-TCTGGTAACAATCAATTATTCAGTAATAATCAATTATT
1 TATCCAGTAACAATCAATTATTC-AGTAA-AATCAATTATTCAGTAATATTCAGTTATT
24679161 TTATACTTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
71 3 0.03
72 89 0.82
73 16 0.15
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:24679153 original size:18 final size:18
Alignment explanation
Indices: 24678865--24679160 Score: 190
Period size: 18 Copynumber: 16.1 Consensus size: 18
24678855 TCATTATCTC
* *
24678865 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
24678882 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTAT
*
24678900 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * * *
24678918 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTAT
* *
24678936 TCAGTATCGATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
*
24678960 ATCCAGTAACAGTCAATTAT
1 -T-CAGTAACAATCAATTAT
24678980 TCAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
*
24678997 TCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
24679016 TCAGTAGCAGTC-ATTCAT
1 TCAGTAACAATCAATT-AT
* *
24679034 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
24679052 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
24679070 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
*
24679088 TCAGTAACAGTCTAA-TAT
1 TCAGTAACAATC-AATTAT
* *
24679106 CCAGTAACAGTCAATTA-
1 TCAGTAACAATCAATTAT
*
24679123 TCTGGTAACAATCAATTAT
1 TC-AGTAACAATCAATTAT
*
24679142 TCAGTAATAATCAATTAT
1 TCAGTAACAATCAATTAT
24679160 T
1 T
24679161 TTATACTTTT
Statistics
Matches: 215, Mismatches: 45, Indels: 37
0.72 0.15 0.12
Matches are distributed among these distances:
17 24 0.11
18 156 0.73
19 19 0.09
20 1 0.00
24 1 0.00
25 2 0.01
26 12 0.06
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:24679346 original size:47 final size:47
Alignment explanation
Indices: 24679277--24679393 Score: 155
Period size: 47 Copynumber: 2.5 Consensus size: 47
24679267 CAGTAACAGT
* * *
24679277 AACAGTAGCAGTACGGTACACAGAGTGCCTCATCGAAACAAATCCGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGAAACAAATCCGA
* **
24679324 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATTTGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGAAACAAATCCGA
*
24679371 AATAGTAACAGTAACGGTA-ACAG
1 AACAGTAACAGT-ACGGTACACAG
24679394 TAACAATATC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 56 0.90
48 6 0.10
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGAAACAAATCCGA
Found at i:24679441 original size:12 final size:12
Alignment explanation
Indices: 24679424--24679448 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24679414 AATACCGAAT
24679424 CGGTAACAGTAA
1 CGGTAACAGTAA
24679436 CGGTAACAGTAA
1 CGGTAACAGTAA
24679448 C
1 C
24679449 AGTAGTCGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:24681697 original size:42 final size:42
Alignment explanation
Indices: 24681651--24681734 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
24681641 TGGTTTATTT
*
24681651 ACTTATTTAGTCCTTTCAGTTTTCTTTATTCTATAATTAAAC
1 ACTTATTTAGTCCTTTCAATTTTCTTTATTCTATAATTAAAC
24681693 ACTTATTTAGTCCTTTCAATTTTCTTTATTCTATAATTAAAC
1 ACTTATTTAGTCCTTTCAATTTTCTTTATTCTATAATTAAAC
24681735 TTTCACACTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.04, T:0.52
Consensus pattern (42 bp):
ACTTATTTAGTCCTTTCAATTTTCTTTATTCTATAATTAAAC
Found at i:24685498 original size:14 final size:13
Alignment explanation
Indices: 24685472--24685511 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
24685462 GTTTAAAGAC
*
24685472 TTTTATTTATTAT
1 TTTTATTTTTTAT
24685485 TTTTATGTTTTTAT
1 TTTTAT-TTTTTAT
24685499 TTTTATCTTTTTA
1 TTTTAT-TTTTTA
24685512 AAACTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:24685539 original size:11 final size:11
Alignment explanation
Indices: 24685519--24685554 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
24685509 TTAAAACTAC
24685519 TTTTTATTTTA
1 TTTTTATTTTA
*
24685530 TTTTTCTTTTA
1 TTTTTATTTTA
*
24685541 TTTTAATTTTA
1 TTTTTATTTTA
24685552 TTT
1 TTT
24685555 CATCCTTAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:24690711 original size:13 final size:13
Alignment explanation
Indices: 24690687--24690721 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
24690677 TCTAATTAAA
24690687 ATAATAAATATAAT
1 ATAAT-AATATAAT
24690701 ATAATAATATAAT
1 ATAATAATATAAT
24690714 ATAATAAT
1 ATAATAAT
24690722 TTAACTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:24692703 original size:2 final size:2
Alignment explanation
Indices: 24692696--24692720 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24692686 TCAAGTTTGA
24692696 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
24692721 TTGGGGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24709536 original size:38 final size:37
Alignment explanation
Indices: 24709418--24709538 Score: 118
Period size: 38 Copynumber: 3.1 Consensus size: 37
24709408 AAACCCGAAC
* * * *
24709418 ATAACACCAGCACGAAGACTACGGGACTTTAAACTTAGAT
1 ATAATACCAGCACGAAGCCTGC-GGA-TTT-AACTCAGAT
* *
24709458 ATAATACCAGCACTAGGCCTGCGGAATTTAACTC-GAAT
1 ATAATACCAGCACGAAGCCTGCGG-ATTTAACTCAG-AT
*
24709496 ATAATACCAGCACGAAGCCTGCGAGATTTAACCCAGAT
1 ATAATACCAGCACGAAGCCTGCG-GATTTAACTCAGAT
24709534 ATAAT
1 ATAAT
24709539 TCTAGCATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
37 1 0.01
38 42 0.62
39 7 0.10
40 18 0.26
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.21
Consensus pattern (37 bp):
ATAATACCAGCACGAAGCCTGCGGATTTAACTCAGAT
Found at i:24714587 original size:18 final size:18
Alignment explanation
Indices: 24714564--24714605 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
24714554 TCAAATTAAC
*
24714564 TTTTTATATATTTTAAAT
1 TTTTTATAAATTTTAAAT
24714582 TTTTTATAAATTTTAAAT
1 TTTTTATAAATTTTAAAT
24714600 TATTTT
1 T-TTTT
24714606 TTGCATAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATAAATTTTAAAT
Found at i:24714790 original size:15 final size:15
Alignment explanation
Indices: 24714743--24714792 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
24714733 AATTTATAGC
*
24714743 TAAAAATTAAATTAAT
1 TAAAGATTAAA-TAAT
24714759 TAAAGATATAAAT-AT
1 TAAAGAT-TAAATAAT
*
24714774 TAAGGATTAAATAAT
1 TAAAGATTAAATAAT
24714789 TAAA
1 TAAA
24714793 CATCACATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 5 0.17
15 13 0.45
16 7 0.24
17 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (15 bp):
TAAAGATTAAATAAT
Found at i:24731760 original size:19 final size:18
Alignment explanation
Indices: 24731738--24731803 Score: 82
Period size: 19 Copynumber: 3.7 Consensus size: 18
24731728 AAGCTCTAAA
24731738 AAATTATAAAAGTTATTAG
1 AAATTATAAAA-TTATTAG
*
24731757 AAATTGTAAAA-TATTA-
1 AAATTATAAAATTATTAG
24731773 AAATTATAAAAATTATTAG
1 AAATTAT-AAAATTATTAG
*
24731792 AAATTGTAAAAT
1 AAATTATAAAAT
24731804 GTTTTAAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 6 0.15
17 9 0.22
18 10 0.24
19 16 0.39
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
AAATTATAAAATTATTAG
Found at i:24731777 original size:35 final size:35
Alignment explanation
Indices: 24731737--24731803 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
24731727 AAAGCTCTAA
*
24731737 AAAATTATAAAAGTTATTAGAAATTGTAAAATATT
1 AAAATTATAAAAATTATTAGAAATTGTAAAATATT
24731772 AAAATTATAAAAATTATTAGAAATTGTAAAAT
1 AAAATTATAAAAATTATTAGAAATTGTAAAAT
24731804 GTTTTAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (35 bp):
AAAATTATAAAAATTATTAGAAATTGTAAAATATT
Found at i:24732408 original size:21 final size:21
Alignment explanation
Indices: 24732384--24732425 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24732374 TTAGTAAAAA
* * *
24732384 TTTTATATTTTTTATCATTTT
1 TTTTAAATTTTTAATAATTTT
24732405 TTTTAAATTTTTAATAATTTT
1 TTTTAAATTTTTAATAATTTT
24732426 AATTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTAAATTTTTAATAATTTT
Found at i:24734738 original size:27 final size:30
Alignment explanation
Indices: 24734708--24734762 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
24734698 TAGCCTAATA
24734708 TGCAATTTTA-T-A-AAAATTTTAATTTTG
1 TGCAATTTTATTCATAAAATTTTAATTTTG
24734735 TGCAATTTTATTCATAAAATTTTAATTT
1 TGCAATTTTATTCATAAAATTTTAATTT
24734763 GATACAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.40
28 1 0.04
29 1 0.04
30 13 0.52
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (30 bp):
TGCAATTTTATTCATAAAATTTTAATTTTG
Found at i:24738669 original size:46 final size:46
Alignment explanation
Indices: 24738578--24738784 Score: 165
Period size: 47 Copynumber: 4.5 Consensus size: 46
24738568 AGAGCCAATA
* * * **
24738578 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTG
1 TAAGACCATGTCTGGGACAT-GTATCGGCCTCGAGAC-ATAGCTAGTG
24738626 TAAGA-CATGTCTGGGACATGTATCGGCCTCGAGACATAAGCTAGTG
1 TAAGACCATGTCTGGGACATGTATCGGCCTCGAGACAT-AGCTAGTG
* *
24738672 TAAGA-CATGT-TGGGACATGTATTGG-CTACGAGATGATAG-TCAGTG
1 TAAGACCATGTCTGGGACATGTATCGGCCT-CGAGA-CATAGCT-AGTG
* * * * * *
24738717 TAAGACCATGTCCGGGACATGGAATC-GACTTGAGATATGAGCCAGTG
1 TAAGACCATGTCTGGGACAT-GTATCGGCCTCGAGACAT-AGCTAGTG
* *
24738764 TAAAACCATGTCTAGGACATG
1 TAAGACCATGTCTGGGACATG
24738785 ACATCGGCAC
Statistics
Matches: 133, Mismatches: 16, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
44 3 0.02
45 31 0.23
46 40 0.30
47 49 0.37
48 10 0.08
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (46 bp):
TAAGACCATGTCTGGGACATGTATCGGCCTCGAGACATAGCTAGTG
Found at i:24738717 original size:45 final size:46
Alignment explanation
Indices: 24738578--24738737 Score: 150
Period size: 46 Copynumber: 3.4 Consensus size: 46
24738568 AGAGCCAATA
* * * **
24738578 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GGGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GTATCGGCCTCGAGAC-ATAAGCTAGTG
24738626 TAAGACATGTCTGGGACATGTATCGGCCTCGAGACATAAGCTAGTG
1 TAAGACATGTCTGGGACATGTATCGGCCTCGAGACATAAGCTAGTG
* *
24738672 TAAGACATGT-TGGGACATGTATTGG-CTACGAGATGAT-AG-TCAGTG
1 TAAGACATGTCTGGGACATGTATCGGCCT-CGAGA-CATAAGCT-AGTG
*
24738717 TAAGACCATGTCCGGGACATG
1 TAAGA-CATGTCTGGGACATG
24738738 GAATCGACTT
Statistics
Matches: 98, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
44 3 0.03
45 31 0.32
46 37 0.38
47 22 0.22
48 5 0.05
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGTATCGGCCTCGAGACATAAGCTAGTG
Found at i:24742311 original size:11 final size:12
Alignment explanation
Indices: 24742288--24742320 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
24742278 GATGTATCTA
24742288 TTAATTCAATTT
1 TTAATTCAATTT
24742300 TTAATT-AATTT
1 TTAATTCAATTT
*
24742311 TTAGTTCAAT
1 TTAATTCAAT
24742321 ATTTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
TTAATTCAATTT
Found at i:24746930 original size:30 final size:30
Alignment explanation
Indices: 24746894--24746955 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
24746884 AAAAAAATTA
24746894 ATGTGGATGTCACGTTAGCAAAGTTAACAT
1 ATGTGGATGTCACGTTAGCAAAGTTAACAT
24746924 ATGTGGATGTCACGTTAGCAAAGTTAACAT
1 ATGTGGATGTCACGTTAGCAAAGTTAACAT
24746954 AT
1 AT
24746956 ATTAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (30 bp):
ATGTGGATGTCACGTTAGCAAAGTTAACAT
Found at i:24760820 original size:21 final size:20
Alignment explanation
Indices: 24760791--24760835 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
24760781 GTCTTAACAG
24760791 AACTGCTGATGTGGCAAGTT
1 AACTGCTGATGTGGCAAGTT
*
24760811 AACTGGCTGATGTGGCCAGTT
1 AACT-GCTGATGTGGCAAGTT
24760832 AACT
1 AACT
24760836 TGCCACGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (20 bp):
AACTGCTGATGTGGCAAGTT
Found at i:24761903 original size:5 final size:5
Alignment explanation
Indices: 24761893--24761957 Score: 130
Period size: 5 Copynumber: 13.0 Consensus size: 5
24761883 AATAATTAAG
24761893 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
24761943 TATAT TATAT TATAT
1 TATAT TATAT TATAT
24761958 ATAAAAGAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 60 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:24763108 original size:45 final size:45
Alignment explanation
Indices: 24763030--24763124 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
24763020 CGACTACTGT
* *** *
24763030 TACTGTTACCGTTACTGTTATTTATTCGACACTTTGTTTGTTGAA
1 TACTGTTACCGTTAATGTTACAAATTCGACACTTTGTGTGTTGAA
*
24763075 TACTGTTACCGTTAATGTTACAAATTC-AGCACTTTGTGTGTTGAT
1 TACTGTTACCGTTAATGTTACAAATTCGA-CACTTTGTGTGTTGAA
24763120 TACTG
1 TACTG
24763125 CTACTGTTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (45 bp):
TACTGTTACCGTTAATGTTACAAATTCGACACTTTGTGTGTTGAA
Found at i:24766253 original size:19 final size:20
Alignment explanation
Indices: 24766229--24766268 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24766219 TTGCTACTGT
24766229 TTTGC-TTCGTTTCTGCTTC
1 TTTGCTTTCGTTTCTGCTTC
* *
24766248 TTTGCTTTCTTTTCTGTTTC
1 TTTGCTTTCGTTTCTGCTTC
24766268 T
1 T
24766269 GTTTTGTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.00, C:0.23, G:0.12, T:0.65
Consensus pattern (20 bp):
TTTGCTTTCGTTTCTGCTTC
Found at i:24771605 original size:22 final size:23
Alignment explanation
Indices: 24771556--24771620 Score: 114
Period size: 22 Copynumber: 2.9 Consensus size: 23
24771546 AAATGTCCAA
*
24771556 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGTATCATCCT
24771579 CCAAAACACACCAGTATCAT-CT
1 CCAAAACACACCAGTATCATCCT
24771601 CCAAAACACACCAGTATCAT
1 CCAAAACACACCAGTATCAT
24771621 ATAATCCTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
22 22 0.54
23 19 0.46
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGTATCATCCT
Found at i:24771639 original size:28 final size:28
Alignment explanation
Indices: 24771570--24771671 Score: 126
Period size: 28 Copynumber: 3.8 Consensus size: 28
24771560 AACACACCAG
24771570 TATAATCCTCCAAAACACACCAGTATC-
1 TATAATCCTCCAAAACACACCAGTATCA
24771597 ----AT-CTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGTATCA
* * *
24771620 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGTATCA
24771648 TATAATCCATCCAAAACACACCAG
1 TATAATCC-TCCAAAACACACCAG
24771672 AATAGCACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
22 20 0.31
23 2 0.03
27 2 0.03
28 26 0.41
29 14 0.22
ACGTcount: A:0.44, C:0.33, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGTATCA
Found at i:24774925 original size:21 final size:21
Alignment explanation
Indices: 24774886--24774926 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24774876 CAATGTGGCA
*
24774886 AGTTAACTGGCCACTTCAGCT
1 AGTTAACTGGCCACATCAGCT
* *
24774907 AGTTAACTTGTCACATCAGC
1 AGTTAACTGGCCACATCAGC
24774927 GGTTATGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:24775234 original size:41 final size:41
Alignment explanation
Indices: 24775177--24775258 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
24775167 AAAATACAGC
24775177 TGACTAGGTGATGTGGCAGCCTATGTTGGACAATATTTTTT
1 TGACTAGGTGATGTGGCAGCCTATGTTGGACAATATTTTTT
24775218 TGACTAGGTGATGTGGCAGCCTATGTTGGACAATATTTTTT
1 TGACTAGGTGATGTGGCAGCCTATGTTGGACAATATTTTTT
24775259 AGACAAACGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (41 bp):
TGACTAGGTGATGTGGCAGCCTATGTTGGACAATATTTTTT
Found at i:24779049 original size:8 final size:8
Alignment explanation
Indices: 24779038--24779106 Score: 50
Period size: 8 Copynumber: 7.9 Consensus size: 8
24779028 ATAAAAACTC
24779038 TATAAAAT
1 TATAAAAT
24779046 TATAAAAGT
1 TATAAAA-T
24779055 TATTAGAAAT
1 TA-TA-AAAT
*
24779065 TGTAAAA-
1 TATAAAAT
24779072 TATTAAAAT
1 TA-TAAAAT
24779081 TATAAAAAT
1 TAT-AAAAT
24779090 TATTAGAAAT
1 TA-TA-AAAT
*
24779100 TGTAAAA
1 TATAAAA
24779107 AATTTTAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
7 1 0.02
8 19 0.38
9 17 0.34
10 10 0.20
11 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (8 bp):
TATAAAAT
Found at i:24779079 original size:35 final size:35
Alignment explanation
Indices: 24779040--24779106 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
24779030 AAAAACTCTA
*
24779040 TAAAATTATAAAAGTTATTAGAAATTGTAAAATAT
1 TAAAATTATAAAAATTATTAGAAATTGTAAAATAT
24779075 TAAAATTATAAAAATTATTAGAAATTGTAAAA
1 TAAAATTATAAAAATTATTAGAAATTGTAAAA
24779107 AATTTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (35 bp):
TAAAATTATAAAAATTATTAGAAATTGTAAAATAT
Found at i:24779090 original size:9 final size:9
Alignment explanation
Indices: 24779021--24779107 Score: 54
Period size: 9 Copynumber: 9.6 Consensus size: 9
24779011 TAAAATTGTA
*
24779021 AAAAAATAT
1 AAAAATTAT
24779030 AAAAACTCTAT
1 AAAAA-T-TAT
24779041 -AAAATTAT
1 AAAAATTAT
*
24779049 AAAAGTTATT
1 AAAAATTA-T
* *
24779059 AGAAATTGT
1 AAAAATTAT
24779068 -AAAA-TAT
1 AAAAATTAT
*
24779075 TAAAATTAT
1 AAAAATTAT
24779084 AAAAATTATT
1 AAAAATTA-T
* *
24779094 AGAAATTGT
1 AAAAATTAT
24779103 AAAAA
1 AAAAA
24779108 ATTTTAAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
7 2 0.03
8 10 0.17
9 28 0.47
10 17 0.28
11 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:24779107 original size:19 final size:19
Alignment explanation
Indices: 24779042--24779107 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
24779032 AAACTCTATA
*
24779042 AAATTATAAAAGTTATTAG
1 AAATTATAAAAATTATTAG
*
24779061 AAATTGT-AAAA-TATTA-
1 AAATTATAAAAATTATTAG
24779077 AAATTATAAAAATTATTAG
1 AAATTATAAAAATTATTAG
*
24779096 AAATTGTAAAAA
1 AAATTATAAAAA
24779108 ATTTTAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.15
17 9 0.22
18 8 0.20
19 17 0.43
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (19 bp):
AAATTATAAAAATTATTAG
Found at i:24781780 original size:23 final size:23
Alignment explanation
Indices: 24781754--24781803 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
24781744 TAACTAAAAT
24781754 ATTAGTAATTTCTAATAGTTCAC
1 ATTAGTAATTTCTAATAGTTCAC
*
24781777 ATTAGTAGTTTCTAATAGTTCAC
1 ATTAGTAATTTCTAATAGTTCAC
24781800 ATTA
1 ATTA
24781804 AATGCATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (23 bp):
ATTAGTAATTTCTAATAGTTCAC
Found at i:24781883 original size:27 final size:30
Alignment explanation
Indices: 24781853--24781907 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
24781843 TAACCTAATA
24781853 TGCAATTTTA-T-A-AAAATTTTGATTTTG
1 TGCAATTTTATTCATAAAATTTTGATTTTG
24781880 TGCAATTTTATTCATAAAATTTTGATTT
1 TGCAATTTTATTCATAAAATTTTGATTT
24781908 GATACAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.40
28 1 0.04
29 1 0.04
30 13 0.52
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (30 bp):
TGCAATTTTATTCATAAAATTTTGATTTTG
Found at i:24787981 original size:11 final size:12
Alignment explanation
Indices: 24787958--24787990 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
24787948 GATGTATCTA
24787958 TTAATTCAATTT
1 TTAATTCAATTT
24787970 TTAATT-AATTT
1 TTAATTCAATTT
*
24787981 TTAGTTCAAT
1 TTAATTCAAT
24787991 ACTGACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
TTAATTCAATTT
Found at i:24796826 original size:57 final size:58
Alignment explanation
Indices: 24796750--24796867 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 58
24796740 CATTTTTAGG
** * *
24796750 TCATTTTCATTTTGGAGAAAACCA-CATTCATTTCCAAATGATTC-CATTTTTCCATTT
1 TCATTTTCATTTTACAGAAAACCATAATT-ATTTCCAAATGATTCTCATTTCTCCATTT
* *
24796807 TCATTTTTATTTTACAGAAAACCATAATTATTTCCAAATGTTTCTCATTTCTCCATTT
1 TCATTTTCATTTTACAGAAAACCATAATTATTTCCAAATGATTCTCATTTCTCCATTT
24796865 TCA
1 TCA
24796868 CAATTTCTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
57 35 0.66
58 18 0.34
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (58 bp):
TCATTTTCATTTTACAGAAAACCATAATTATTTCCAAATGATTCTCATTTCTCCATTT
Found at i:24797664 original size:5 final size:5
Alignment explanation
Indices: 24797647--24797743 Score: 185
Period size: 5 Copynumber: 19.4 Consensus size: 5
24797637 GTAACACTTA
*
24797647 ATATT ATACT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
24797697 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
24797744 TATAATAATT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 90 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:24797844 original size:20 final size:21
Alignment explanation
Indices: 24797821--24797864 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
24797811 AAGTAAAACG
*
24797821 AAAGAAAAAGAAATAGG-GAA
1 AAAGAAAAAGAAAAAGGAGAA
*
24797841 AAAGAGAAAGAAAAAGGAGAA
1 AAAGAAAAAGAAAAAGGAGAA
24797862 AAA
1 AAA
24797865 AGCTAGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAGAAAAAGGAGAA
Found at i:24798838 original size:37 final size:38
Alignment explanation
Indices: 24798737--24798840 Score: 111
Period size: 37 Copynumber: 2.7 Consensus size: 38
24798727 CAACTTCGAC
*
24798737 CCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 CCGATGAGACACTGGGTGTCAA-TT--TACTTCGGATTAAG
** * * *
24798778 TTGATGAGGCACTGGGTGCCAATTTACTTCGG-TTTAG
1 CCGATGAGACACTGGGTGTCAATTTACTTCGGATTAAG
*
24798815 CCGTTGAGACACTGGGTGTCAATTTA
1 CCGATGAGACACTGGGTGTCAATTTA
24798841 TTACTTTGAA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
37 24 0.46
38 8 0.15
40 2 0.04
41 18 0.35
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (38 bp):
CCGATGAGACACTGGGTGTCAATTTACTTCGGATTAAG
Found at i:24800896 original size:18 final size:18
Alignment explanation
Indices: 24800875--24800909 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24800865 AAAAAGCTGA
24800875 CTGAAACGAAAAAAAAAC
1 CTGAAACGAAAAAAAAAC
*
24800893 CTGAAATGAAAAAAAAA
1 CTGAAACGAAAAAAAAA
24800910 GGCTGCAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.11, G:0.11, T:0.09
Consensus pattern (18 bp):
CTGAAACGAAAAAAAAAC
Found at i:24801124 original size:18 final size:17
Alignment explanation
Indices: 24801084--24801125 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
24801074 CTCATTTAGG
24801084 GAAGAAATGAGAGAAAA
1 GAAGAAATGAGAGAAAA
24801101 GAAAGAAA-GAAGAGAAGAA
1 G-AAGAAATG-AGAGAA-AA
24801120 GAAGAA
1 GAAGAA
24801126 GGAGCAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (17 bp):
GAAGAAATGAGAGAAAA
Found at i:24801299 original size:11 final size:11
Alignment explanation
Indices: 24801267--24801299 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
24801257 TATTATTGTT
24801267 GATTTGAATTT-
1 GATTT-AATTTA
24801278 GATTTAATTTA
1 GATTTAATTTA
24801289 GATTTAATTTA
1 GATTTAATTTA
24801300 TAAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (11 bp):
GATTTAATTTA
Found at i:24802457 original size:27 final size:25
Alignment explanation
Indices: 24802411--24802496 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 25
24802401 ACTATTTTAC
*
24802411 AAAA-ATAGTATAAAAAAATATGAAA
1 AAAATATAATATAAAAAAATA-GAAA
*
24802436 AAAATATATTAATAAAAAAATACGAAA
1 AAAATATAAT-ATAAAAAAATA-GAAA
* *
24802463 AGAAATAGAATATGAAAAAAATAGAAT
1 A-AAATATAATAT-AAAAAAATAGAAA
24802490 AAAATAT
1 AAAATAT
24802497 GAAAAATAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
25 4 0.08
26 9 0.18
27 22 0.43
28 16 0.31
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.21
Consensus pattern (25 bp):
AAAATATAATATAAAAAAATAGAAA
Found at i:24802486 original size:16 final size:15
Alignment explanation
Indices: 24802422--24802490 Score: 56
Period size: 16 Copynumber: 4.7 Consensus size: 15
24802412 AAAATAGTAT
24802422 AAAA-AAATATGAAA
1 AAAATAAATATGAAA
* *
24802436 AAAAT--ATATTAAT
1 AAAATAAATATGAAA
*
24802449 AAAA-AAATACGAAA
1 AAAATAAATATGAAA
24802463 AGAAATAGAATATGAAA
1 A-AAATA-AATATGAAA
24802480 AAAATAGAATA
1 AAAATA-AATA
24802491 AAATATGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 10 0.23
14 10 0.23
15 3 0.07
16 11 0.26
17 9 0.21
ACGTcount: A:0.71, C:0.01, G:0.09, T:0.19
Consensus pattern (15 bp):
AAAATAAATATGAAA
Found at i:24802519 original size:44 final size:41
Alignment explanation
Indices: 24802411--24802524 Score: 108
Period size: 44 Copynumber: 2.7 Consensus size: 41
24802401 ACTATTTTAC
* *
24802411 AAAAATAGTATAAAAA-AATATGAAAAAAATATATTAATAA
1 AAAAATAGTATAAAAATAATATGAAAAAAATAAATAAATAA
* *
24802451 AAAAATACG-AAAAGAAATAGAATATGAAAAAAATAGAATAAAATATG
1 AAAAATA-GTATAA-AAAT--AATATGAAAAAAATA-AAT-AAATA-A
24802498 AAAAATAGTATAAAAATAATAT-AAAAA
1 AAAAATAGTATAAAAATAATATGAAAAA
24802525 TAAAATACGA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
40 10 0.17
41 4 0.07
43 5 0.08
44 20 0.33
45 2 0.03
46 9 0.15
47 10 0.17
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.21
Consensus pattern (41 bp):
AAAAATAGTATAAAAATAATATGAAAAAAATAAATAAATAA
Found at i:24802523 original size:10 final size:11
Alignment explanation
Indices: 24802471--24802527 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
24802461 AAAGAAATAG
24802471 AATATGAAAAA-
1 AATAT-AAAAAT
* *
24802482 AATAGAATAA-
1 AATATAAAAAT
24802492 AATATGAAAAAT
1 AATAT-AAAAAT
*
24802504 AGTATAAAAAT
1 AATATAAAAAT
24802515 AATATAAAAAT
1 AATATAAAAAT
24802526 AA
1 AA
24802528 AATACGAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
10 8 0.21
11 26 0.68
12 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:24802560 original size:35 final size:33
Alignment explanation
Indices: 24802477--24802544 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 33
24802467 ATAGAATATG
* *
24802477 AAAAAAATAGAATAAAATATGAAAAATAGTATA
1 AAAAAAATAAAATAAAATACGAAAAATAGTATA
24802510 AAAATAATATAAAAATAAAATACG-AAAATAGTATA
1 AAAA-AA-AT-AAAATAAAATACGAAAAATAGTATA
24802545 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 4 0.13
34 2 0.07
35 13 0.43
36 11 0.37
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.22
Consensus pattern (33 bp):
AAAAAAATAAAATAAAATACGAAAAATAGTATA
Found at i:24802664 original size:139 final size:138
Alignment explanation
Indices: 24802520--24802855 Score: 469
Period size: 139 Copynumber: 2.4 Consensus size: 138
24802510 AAAATAATAT
*
24802520 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATATAAACA
1 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAAT-CAAACA
* * **
24802585 AATG-GACAAAATTAGGGTTA-TTTAAAAACACTAAAATAATACATTTGAAACATTATGTACGGG
65 AA-GAGACAAAATCAAGGTTATTTTAAAAACACTAAAATAATACATTTGAAACATTATGTACGAA
24802648 AATAAGATAA
129 AATAAGATAA
* * ** *
24802658 ATAAAATAAAATACGAAAATAGTATATTTTAAAAATTATAATTTGAATATTTTAGAAAATCAAAC
1 A-AAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA-AAAATCAAAC
** * *
24802723 AAAGAGACAAAATCAAGGTTATTTTAAAAACTTTAGAATAATACATTTGAAACATTATGTACTAA
64 AAAGAGACAAAATCAAGGTTATTTTAAAAACACTAAAATAATACATTTGAAACATTATGTACGAA
24802788 AATAAGATAA
129 AATAAGATAA
* * *
24802798 AAAAATAAAATAAGAAAATAATATATTTTAAAAAATAGAATCCGAAAATTTTAAAAAT
1 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAAT
24802856 TTTAGAAATA
Statistics
Matches: 173, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
138 7 0.04
139 113 0.65
140 53 0.31
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (138 bp):
AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATCAAACAA
AGAGACAAAATCAAGGTTATTTTAAAAACACTAAAATAATACATTTGAAACATTATGTACGAAAA
TAAGATAA
Found at i:24804849 original size:12 final size:12
Alignment explanation
Indices: 24804816--24804849 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24804806 GCTAATATAG
*
24804816 AGCCAGATCAAC
1 AGCCAGATCCAC
*
24804828 AGCCTGATCCAC
1 AGCCAGATCCAC
24804840 AGCCAGATCC
1 AGCCAGATCC
24804850 CGAGCTTGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.38, G:0.18, T:0.12
Consensus pattern (12 bp):
AGCCAGATCCAC
Found at i:24808691 original size:16 final size:16
Alignment explanation
Indices: 24808672--24808704 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24808662 TTTACTGAAT
24808672 TTTTTTTCCTTCT-TTC
1 TTTTTTT-CTTCTCTTC
24808688 TTTTTTTCTTCTCTTC
1 TTTTTTTCTTCTCTTC
24808704 T
1 T
24808705 CCCTCCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTCTTCTCTTC
Found at i:24808849 original size:27 final size:27
Alignment explanation
Indices: 24808819--24808875 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
24808809 GTCATCAACT
* *
24808819 AGTGCCGTCTCTGGCAGAGGCAAGACC
1 AGTGCCGCCTCTGACAGAGGCAAGACC
24808846 AGTGCCGCCTCTGACAGAGGCAAGACC
1 AGTGCCGCCTCTGACAGAGGCAAGACC
24808873 AGT
1 AGT
24808876 ATTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.30, G:0.32, T:0.14
Consensus pattern (27 bp):
AGTGCCGCCTCTGACAGAGGCAAGACC
Found at i:24810075 original size:18 final size:18
Alignment explanation
Indices: 24810034--24810081 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
24810024 TTGATATTGA
* *
24810034 TTATTACAAAATATTATC
1 TTATTATAAAATATAATC
24810052 TTATTATAAAATATAAT-
1 TTATTATAAAATATAATC
24810069 TTAATTATCAAAA
1 TT-ATTAT-AAAA
24810082 GGAATTGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 2 0.08
18 20 0.77
19 4 0.15
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
TTATTATAAAATATAATC
Found at i:24810237 original size:18 final size:19
Alignment explanation
Indices: 24810201--24810240 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
24810191 ACCAAAAAAC
24810201 ATCAATTTTTCTAAAAAATA
1 ATCAATTTTTC-AAAAAATA
24810221 ATCAATTTTTC-AAAAATA
1 ATCAATTTTTCAAAAAATA
24810239 AT
1 AT
24810241 TTTTCAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (19 bp):
ATCAATTTTTCAAAAAATA
Found at i:24815902 original size:21 final size:22
Alignment explanation
Indices: 24815852--24815907 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
24815842 TGATGCTGTC
* *
24815852 TTTTG-TGCTGTTTGGTGTTAT
1 TTTTGATGTTGTTTGGTGTTAG
*
24815873 TTTTTATGTTGTTTGGTGTT-G
1 TTTTGATGTTGTTTGGTGTTAG
24815894 TTTTGATGTTGTTT
1 TTTTGATGTTGTTT
24815908 TAATGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.05, C:0.02, G:0.27, T:0.66
Consensus pattern (22 bp):
TTTTGATGTTGTTTGGTGTTAG
Found at i:24816811 original size:17 final size:17
Alignment explanation
Indices: 24816756--24816812 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
24816746 TAGAAATAAA
*
24816756 TTAAAAACCATAAAACT
1 TTAAAAACCATAAAAAT
* **
24816773 TTCAAAACC-T-AATTT
1 TTAAAAACCATAAAAAT
24816788 ATTAAAAACCATAAAAAT
1 -TTAAAAACCATAAAAAT
24816806 TTAAAAA
1 TTAAAAA
24816813 AATTAATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 3 0.10
16 9 0.29
17 16 0.52
18 3 0.10
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (17 bp):
TTAAAAACCATAAAAAT
Found at i:24816944 original size:15 final size:16
Alignment explanation
Indices: 24816915--24816944 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24816905 CTCATTTTAT
24816915 TAAAATTTATAATATA
1 TAAAATTTATAATATA
24816931 TAAAATTT-TAATAT
1 TAAAATTTATAATAT
24816945 TGGCTTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAATTTATAATATA
Found at i:24817197 original size:10 final size:10
Alignment explanation
Indices: 24817184--24817247 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
24817174 AGTAAAATAA
24817184 TTTTATAAAT
1 TTTTATAAAT
*
24817194 TTTTAT-GAT
1 TTTTATAAAT
* *
24817203 TTTCATTAAT
1 TTTTATAAAT
*
24817213 TTCTAATAAA-
1 TT-TTATAAAT
24817223 TTTTATAAAT
1 TTTTATAAAT
24817233 TATTT-TAAAT
1 T-TTTATAAAT
24817243 TTTTA
1 TTTTA
24817248 GGGTTTTTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
9 16 0.37
10 19 0.44
11 8 0.19
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:24824294 original size:32 final size:30
Alignment explanation
Indices: 24824253--24824314 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 30
24824243 TCATATTTAG
**
24824253 ATTATTAAAATGTTCATATTTATATTACATTT
1 ATTATTAAAACATTCATATTTA-ATTA-ATTT
24824285 ATTATTAAAACATTCATATTTAATTAATTT
1 ATTATTAAAACATTCATATTTAATTAATTT
24824315 CTAACAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.14
31 4 0.14
32 20 0.71
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTATTAAAACATTCATATTTAATTAATTT
Found at i:24824441 original size:9 final size:9
Alignment explanation
Indices: 24824404--24824460 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
24824394 ATTTCTAATA
24824404 TTATAATTT
1 TTATAATTT
24824413 TTAATCAATTT
1 TT-AT-AATTT
* *
24824424 TAATGATTT
1 TTATAATTT
24824433 TTATAATTT
1 TTATAATTT
*
24824442 TT-TATGTTT
1 TTATA-ATTT
24824451 TTATAATTT
1 TTATAATTT
24824460 T
1 T
24824461 AAAATGAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
8 2 0.05
9 24 0.63
10 6 0.16
11 6 0.16
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (9 bp):
TTATAATTT
Found at i:24824442 original size:18 final size:18
Alignment explanation
Indices: 24824409--24824462 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
24824399 TAATATTATA
24824409 ATTTTTAATCAATTTTAATG
1 ATTTTT-AT-AATTTTAATG
*
24824429 ATTTTTATAATTTTTTATG
1 ATTTTTATAA-TTTTAATG
24824448 -TTTTTATAATTTTAA
1 ATTTTTATAATTTTAA
24824463 AATGAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 5 0.16
18 11 0.35
19 9 0.29
20 6 0.19
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (18 bp):
ATTTTTATAATTTTAATG
Found at i:24828076 original size:4 final size:4
Alignment explanation
Indices: 24828067--24828101 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
24828057 TAGAATTAGC
24828067 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
24828102 AGTAGTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:24829314 original size:23 final size:22
Alignment explanation
Indices: 24829279--24829322 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
24829269 GAATAATTTT
* *
24829279 AAAATATATAATATGTATATGTA
1 AAAATATAAAATAAGTA-ATGTA
*
24829302 AAAATGTAAAATAAGTAATGT
1 AAAATATAAAATAAGTAATGT
24829323 GTAAATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (22 bp):
AAAATATAAAATAAGTAATGTA
Found at i:24831369 original size:47 final size:47
Alignment explanation
Indices: 24831254--24831460 Score: 209
Period size: 47 Copynumber: 4.2 Consensus size: 47
24831244 TGCACATAGT
* ** * * *
24831254 CACATATTACACACCGAAGCCATAGCCCAGCCATGGTCTTACAC-GGAT
1 CACATA-T-CACACCGATGCCATAGCCCAGATATGGTCTTATACAGAAG
* * *
24831302 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGAAG
* *
24831349 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGAAG
* *
24831396 CACATAATCACATATCTCCGATGCCATAGCCCAGCTATGGTCTTATACAGAAAT
1 CACAT-ATCAC--A---CCGATGCCATAGCCCAGATATGGTCTTATACAG-AAG
24831450 CACATATCACA
1 CACATATCACA
24831461 TGTTGCCATG
Statistics
Matches: 136, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
46 29 0.21
47 52 0.38
48 11 0.08
50 1 0.01
51 1 0.01
53 35 0.26
54 7 0.05
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (47 bp):
CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGAAG
Found at i:24831376 original size:93 final size:98
Alignment explanation
Indices: 24831236--24831460 Score: 246
Period size: 93 Copynumber: 2.3 Consensus size: 98
24831226 ATAGTAAAAC
** *
24831236 TATGGTCTTGCACA-TAGTCACATATTACACACCGAAGCCATAGCCCAGCCATGGTCTTACACGG
1 TATGGTCTTATACAGTAG-CACATA-T-CACACCGAAGCCATAGCCCAGACATGGTCTTACACGG
* *
24831300 -ATCACAT-ATCAC-A-CT-GATGCCATATCCCAGA
63 AAGCACATAATCACAATCTCGATGCCATAGCCCAGA
* * * *
24831331 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 TATGGTCTTATACAGTAGCACATATCACACCGAAGCCATAGCCCAGACATGGTCTTACACGGAAG
*
24831396 CACATAATCACATATCTCCGATGCCATAGCCCAGC
66 CACATAATCACA-ATCT-CGATGCCATAGCCCAGA
* *
24831431 TATGGTCTTATACAGAAATCACATATCACA
1 TATGGTCTTATACAG-TAGCACATATCACA
24831461 TGTTGCCATG
Statistics
Matches: 109, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
93 32 0.29
94 7 0.06
95 23 0.21
96 3 0.03
97 1 0.01
98 2 0.02
100 29 0.27
101 12 0.11
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (98 bp):
TATGGTCTTATACAGTAGCACATATCACACCGAAGCCATAGCCCAGACATGGTCTTACACGGAAG
CACATAATCACAATCTCGATGCCATAGCCCAGA
Found at i:24831429 original size:53 final size:53
Alignment explanation
Indices: 24831360--24831461 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 53
24831350 ACATATCACA
* *
24831360 CCGATGCCATATCCCAGATATGGTCTTATAC-GGAAGCACATAATCACATATCT
1 CCGATGCCATAGCCCAGATATGGTCTTATACAGAAAGCACAT-ATCACATATCT
* *
24831413 CCGATGCCATAGCCCAGCTATGGTCTTATACAGAAATCACATATCACAT
1 CCGATGCCATAGCCCAGATATGGTCTTATACAGAAAGCACATATCACAT
24831462 GTTGCCATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 36 0.82
54 8 0.18
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (53 bp):
CCGATGCCATAGCCCAGATATGGTCTTATACAGAAAGCACATATCACATATCT
Found at i:24833541 original size:11 final size:10
Alignment explanation
Indices: 24833494--24833544 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
24833484 ATAAATAAGT
24833494 AAAGAAACA-
1 AAAGAAACAG
*
24833503 TAAGAAACAG
1 AAAGAAACAG
**
24833513 AAAGAAATTG
1 AAAGAAACAG
24833523 AAACGAAACAG
1 AAA-GAAACAG
24833534 AGAAGAAACAG
1 A-AAGAAACAG
24833545 GGGAGAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 8 0.24
10 10 0.30
11 13 0.39
12 2 0.06
ACGTcount: A:0.65, C:0.10, G:0.20, T:0.06
Consensus pattern (10 bp):
AAAGAAACAG
Found at i:24834359 original size:45 final size:45
Alignment explanation
Indices: 24834281--24834391 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
24834271 CGACTACTGT
* * * **
24834281 TACTGTTACCGTTACCGTTACCTATTCGGCACTTTATGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTATGTGTCGAA
* * *
24834326 TACTGTTACTGTTACTGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTATGTGTCGAA
*
24834371 TACTGTTACTGTTATTGTTAC
1 TACTGTTACTGTTACTGTTAC
24834392 TGTTCTGGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAACACTTTATGTGTCGAA
Found at i:24834586 original size:18 final size:18
Alignment explanation
Indices: 24834565--24834747 Score: 174
Period size: 18 Copynumber: 10.2 Consensus size: 18
24834555 TAACTTATTA
24834565 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
24834583 TTACCGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
24834601 TTACTGGATAATAGACTG
1 TTACTGAATAATTGACTG
* * *
24834619 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
24834637 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
24834655 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* *
24834673 TCACTGAATAAGTGACTG
1 TTACTGAATAATTGACTG
* *
24834691 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* *
24834710 CTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
24834727 TTACTAAATAATTGACTG
1 TTACTGAATAATTGACTG
24834745 TTA
1 TTA
24834748 TTGGATAACC
Statistics
Matches: 134, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
17 13 0.10
18 108 0.81
19 13 0.10
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:24834842 original size:18 final size:18
Alignment explanation
Indices: 24834565--24834848 Score: 133
Period size: 18 Copynumber: 15.4 Consensus size: 18
24834555 TAACTTATTA
* *
24834565 TTACTGAATAATTGACTG
1 TTACTGAATAAATGATTG
* * *
24834583 TTACCGAATAATTGACTG
1 TTACTGAATAAATGATTG
* *
24834601 TTACTGGAT-AATAGACTG
1 TTACTGAATAAAT-GATTG
* * *
24834619 TTACTGAATAACTGAATA
1 TTACTGAATAAATGATTG
* **
24834637 TTACTGAATAATTGATCA
1 TTACTGAATAAATGATTG
*
24834655 TTACTGAATAACTGATTG
1 TTACTGAATAAATGATTG
* * *
24834673 TCACTGAATAAGTGACTG
1 TTACTGAATAAATGATTG
* *
24834691 TTACTGAATAACTTAATTG
1 TTACTGAATAA-ATGATTG
* **
24834710 CTACTGAATATCTGATT-
1 TTACTGAATAAATGATTG
* * *
24834727 TTACTAAATAATTGACTG
1 TTACTGAATAAATGATTG
* * *
24834745 TTATTGGATAACCGATCAATTG
1 TTACTGAATAA---AT-GATTG
* * *
24834767 ATCGATACTGAATAACTGGTTA
1 -T---TACTGAATAAATGATTG
* *
24834789 TTATTGAATAATTGATTG
1 TTACTGAATAAATGATTG
* *
24834807 TTACCGAATAAGTGATTG
1 TTACTGAATAAATGATTG
*
24834825 TTACTGAATAAATAATTG
1 TTACTGAATAAATGATTG
24834843 TT-CTGA
1 TTACTGA
24834849 TTGTTAATAA
Statistics
Matches: 202, Mismatches: 52, Indels: 25
0.72 0.19 0.09
Matches are distributed among these distances:
17 18 0.09
18 152 0.75
19 15 0.07
21 2 0.01
22 5 0.02
23 2 0.01
26 8 0.04
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAAATGATTG
Found at i:24846727 original size:21 final size:21
Alignment explanation
Indices: 24846686--24846730 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24846676 GAAAATCTAA
* *
24846686 GTTTTATAAGGAATTAATTGG
1 GTTTTACAAGGAATAAATTGG
24846707 GTTTTACAAGGAA-AAACTTGG
1 GTTTTACAAGGAATAAA-TTGG
24846728 GTT
1 GTT
24846731 ATTTTATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.38
Consensus pattern (21 bp):
GTTTTACAAGGAATAAATTGG
Found at i:24849316 original size:68 final size:67
Alignment explanation
Indices: 24849199--24849349 Score: 214
Period size: 68 Copynumber: 2.2 Consensus size: 67
24849189 TAGCCTAGCC
* * * * *
24849199 ATGGTCTTACACATTTTACACCATATTTAATGTCATGGTGGACCCTCTATGTTGTCATAGTCGAG
1 ATGGTCTTACACATTTTACACCAAATTTAATGTCATGGTGGACCCTCTATATTGCCATAATCGAA
24849264 CT
66 CT
* *
24849266 ATGGTCTCACACATTTTAC-CCAAATGCTTAATGTCCTGGTGGACCCTCTATATTGCCATAATCG
1 ATGGTCTTACACATTTTACACCAAAT--TTAATGTCATGGTGGACCCTCTATATTGCCATAATCG
24849330 AACT
64 AACT
24849334 ATGGTCTTACACATTT
1 ATGGTCTTACACATTT
24849350 AAATCTCCTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 5 0.07
67 18 0.24
68 51 0.69
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (67 bp):
ATGGTCTTACACATTTTACACCAAATTTAATGTCATGGTGGACCCTCTATATTGCCATAATCGAA
CT
Found at i:24860033 original size:8 final size:8
Alignment explanation
Indices: 24860016--24860063 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
24860006 TGAATCGGTC
24860016 TTTTTCTT
1 TTTTTCTT
*
24860024 TTTTCTTTT
1 TTTT-TCTT
*
24860033 TTTTTCTA
1 TTTTTCTT
*
24860041 TTTTTCTA
1 TTTTTCTT
24860049 TTTTTCTT
1 TTTTTCTT
*
24860057 CTTTTCT
1 TTTTTCT
24860064 ACTTATACAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 27 0.79
9 7 0.21
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:24860044 original size:19 final size:19
Alignment explanation
Indices: 24860019--24860058 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24860009 ATCGGTCTTT
*
24860019 TTCT-TTTTTCT-TTTTTT
1 TTCTATTTTTCTATTTTTC
24860036 TTCTATTTTTCTATTTTTC
1 TTCTATTTTTCTATTTTTC
24860055 TTCT
1 TTCT
24860059 TTTCTACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
19 9 0.45
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (19 bp):
TTCTATTTTTCTATTTTTC
Found at i:24860765 original size:22 final size:22
Alignment explanation
Indices: 24860727--24860783 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
24860717 ATATTTTTGC
* * *
24860727 TATTATCTATTATTATCATATT
1 TATTATATATTTTTATCATATA
*
24860749 TATTAT-TATTTTCTATCCTATA
1 TATTATATATTTT-TATCATATA
24860771 TATTTATATATTT
1 TA-TTATATATTT
24860784 CTTTTTAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 15 0.52
23 4 0.14
24 5 0.17
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATATATTTTTATCATATA
Found at i:24861267 original size:15 final size:17
Alignment explanation
Indices: 24861247--24861279 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
24861237 ATTATACGTG
24861247 TATATATA-TATT-TTT
1 TATATATAGTATTATTT
24861262 TATATATAGTATTATTT
1 TATATATAGTATTATTT
24861279 T
1 T
24861280 TCTATATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TATATATAGTATTATTT
Found at i:24861285 original size:20 final size:17
Alignment explanation
Indices: 24861247--24861286 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
24861237 ATTATACGTG
24861247 TATATATATATTTTTTA
1 TATATATATATTTTTTA
24861264 TATATAGTATTATTTTTCTA
1 TATATA-TA-TATTTTT-TA
24861284 TAT
1 TAT
24861287 CATCATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 7 0.35
20 5 0.25
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TATATATATATTTTTTA
Found at i:24861295 original size:37 final size:35
Alignment explanation
Indices: 24861247--24861316 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 35
24861237 ATTATACGTG
*
24861247 TATATATATATTTTTTATATATA-GTATTATTTTTC
1 TATATATATATTTATTAT-TATACGTATTATTTTTC
*
24861282 TATATCATCATATTTATTATTATACTTATTATTTT
1 TATAT-AT-ATATTTATTATTATACGTATTATTTT
24861317 CACTATTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 5 0.17
36 6 0.20
37 19 0.63
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (35 bp):
TATATATATATTTATTATTATACGTATTATTTTTC
Found at i:24861354 original size:26 final size:27
Alignment explanation
Indices: 24861310--24861362 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
24861300 ATTATACTTA
* * *
24861310 TTATTTTCACTATTGTTACTTATTATT
1 TTATTTTCAATATTATTACGTATTATT
24861337 TTATTTT-AATATTATTACGTATTATT
1 TTATTTTCAATATTATTACGTATTATT
24861363 CGGTATACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (27 bp):
TTATTTTCAATATTATTACGTATTATT
Found at i:24862304 original size:15 final size:16
Alignment explanation
Indices: 24862286--24862323 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
24862276 TTTAGCTCTA
24862286 AGTTTTTATGGT-TTT
1 AGTTTTTATGGTGTTT
*
24862301 AGTTTTT-TGTTGTTT
1 AGTTTTTATGGTGTTT
24862316 AGTTTTTA
1 AGTTTTTA
24862324 AATAAAACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.13, C:0.00, G:0.18, T:0.68
Consensus pattern (16 bp):
AGTTTTTATGGTGTTT
Found at i:24870329 original size:50 final size:50
Alignment explanation
Indices: 24870275--24870384 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 50
24870265 CATGTAAACA
* * *
24870275 GGAAGCTCTTCCAAGCTATATAACGGGAAGCTCATGTGAGCTAAATAACG
1 GGAAGCTCATCCAAGCTAAATAACGGGAAGCTCATGCGAGCTAAATAACG
*** * ** *
24870325 GGAAGCTCATGGGAGCTAAATAACGGGAAGCTTATGCGAGCTGTATATCG
1 GGAAGCTCATCCAAGCTAAATAACGGGAAGCTCATGCGAGCTAAATAACG
24870375 GGAAGCTCAT
1 GGAAGCTCAT
24870385 GAGAGCTGTG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (50 bp):
GGAAGCTCATCCAAGCTAAATAACGGGAAGCTCATGCGAGCTAAATAACG
Found at i:24870393 original size:25 final size:25
Alignment explanation
Indices: 24870288--24870391 Score: 136
Period size: 25 Copynumber: 4.2 Consensus size: 25
24870278 AGCTCTTCCA
*
24870288 AGCTATATAACGGGAAGCTCATGTG
1 AGCTATATAACGGGAAGCTCATGAG
* *
24870313 AGCTAAATAACGGGAAGCTCATGGG
1 AGCTATATAACGGGAAGCTCATGAG
* * *
24870338 AGCTAAATAACGGGAAGCTTATGCG
1 AGCTATATAACGGGAAGCTCATGAG
* *
24870363 AGCTGTATATCGGGAAGCTCATGAG
1 AGCTATATAACGGGAAGCTCATGAG
24870388 AGCT
1 AGCT
24870392 GTGGTGTGTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (25 bp):
AGCTATATAACGGGAAGCTCATGAG
Found at i:24872823 original size:13 final size:13
Alignment explanation
Indices: 24872801--24872840 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
24872791 TCCCGTTTTG
24872801 CCCACGGTTTCAA
1 CCCACGGTTTCAA
*
24872814 CCCACAGTTTCAA
1 CCCACGGTTTCAA
24872827 CCCACGGTTTCAA
1 CCCACGGTTTCAA
24872840 C
1 C
24872841 AAGTAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (13 bp):
CCCACGGTTTCAA
Found at i:24888884 original size:41 final size:41
Alignment explanation
Indices: 24888839--24888925 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
24888829 AATTAGTAGG
24888839 AAAGTAATTT-TAATGTTTAATATATTAAATTTTATACTTAA
1 AAAGT-ATTTCTAATGTTTAATATATTAAATTTTATACTTAA
* * * * *
24888880 AAAGTATTTCTAATGTTTGATATGTTAAGTTTTATAGTTAG
1 AAAGTATTTCTAATGTTTAATATATTAAATTTTATACTTAA
24888921 AAAGT
1 AAAGT
24888926 GTTTTTGACA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 4 0.10
41 36 0.90
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.47
Consensus pattern (41 bp):
AAAGTATTTCTAATGTTTAATATATTAAATTTTATACTTAA
Found at i:24890760 original size:21 final size:23
Alignment explanation
Indices: 24890713--24890766 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
24890703 CATTCAAGAT
**
24890713 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
24890736 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
24890757 AAAAT-ATATA
1 AAAATAATATA
24890767 ATGTGTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:24890820 original size:52 final size:49
Alignment explanation
Indices: 24890704--24890837 Score: 114
Period size: 52 Copynumber: 2.7 Consensus size: 49
24890694 ATTAGTACCC
* * * *
24890704 ATTCAAGATAAAATAATATATAAAACTCTTTAAA-A-ATAATATATAAACA
1 ATTCAAAAT-AAATAATGTATAAAAAT-TTGAAATACATAATATATAAACA
* *
24890753 ATTCAAAATATATAATGTGTGAAAAAAGTTTGAAATACATAATATATGAAA-A
1 ATTCAAAATAAATAATGTAT--AAAAA-TTTGAAATACATAATATAT-AAACA
*
24890805 TATT-AAAGTAAATAATGTATAAAAATTTGAAAT
1 -ATTCAAAATAAATAATGTATAAAAATTTGAAAT
24890838 GAGCATTCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
48 8 0.12
49 16 0.23
50 14 0.20
51 2 0.03
52 23 0.33
53 6 0.09
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.32
Consensus pattern (49 bp):
ATTCAAAATAAATAATGTATAAAAATTTGAAATACATAATATATAAACA
Found at i:24891505 original size:22 final size:22
Alignment explanation
Indices: 24891477--24891524 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
24891467 TAAATATTAT
*
24891477 TTTATTAATATTTTATGATATA
1 TTTATTAATATATTATGATATA
* * *
24891499 TTTATTATTATATTATTATTTA
1 TTTATTAATATATTATGATATA
24891521 TTTA
1 TTTA
24891525 GTATAAAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATTAATATATTATGATATA
Found at i:24891759 original size:20 final size:20
Alignment explanation
Indices: 24891722--24891759 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24891712 TGATGGGGAG
*
24891722 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
24891742 CAAGAA-ATCAAAGCTGGA
1 CAAGAATATC-AAGCTGGA
24891760 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:24893722 original size:30 final size:30
Alignment explanation
Indices: 24893699--24893762 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
24893689 ATGGCAGCCT
**
24893699 GATATGAAATGTGTAAGACCATGGTTGAAA
1 GATATGAAATGTGTAAGACCATGGCAGAAA
**
24893729 GATATGAAATGTGTAAGACCATGGTTGAAA
1 GATATGAAATGTGTAAGACCATGGCAGAAA
24893759 GATA
1 GATA
24893763 CCATGGCAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.27
Consensus pattern (30 bp):
GATATGAAATGTGTAAGACCATGGCAGAAA
Found at i:24893766 original size:46 final size:46
Alignment explanation
Indices: 24893716--24893855 Score: 156
Period size: 51 Copynumber: 2.9 Consensus size: 46
24893706 AATGTGTAAG
24893716 ACCATGGTTGAAAGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATATGAAATGTGTAAGACCATGGTTGAAAGAT
* *
24893762 ACCATGGCAGCTT-AATATGAAATGAAATGGGTAAGACCATGGTTGAAAGAT
1 ACCAT-G--G-TTGAA-A-GATATGAAATGTGTAAGACCATGGTTGAAAGAT
** ***
24893813 ACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAA
1 ACCATGGTTGAAAGATATGAAATGTGTAAGACCATGGTTGAAA
24893856 CCTGATATAA
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
46 33 0.42
47 1 0.01
48 1 0.01
49 3 0.04
50 4 0.05
51 36 0.46
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (46 bp):
ACCATGGTTGAAAGATATGAAATGTGTAAGACCATGGTTGAAAGAT
Found at i:24893780 original size:76 final size:78
Alignment explanation
Indices: 24893653--24893813 Score: 263
Period size: 76 Copynumber: 2.1 Consensus size: 78
24893643 TGTGCTCTCT
*
24893653 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATG-T-GTAAG
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAATATGAAATGATGGTAAG
24893716 ACCATGGTTGAAA
66 ACCATGGTTGAAA
*
24893729 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCTTAATATGAAATGAAATGGGT
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAATATGAAATG--AT-GGT
24893794 AAGACCATGGTTGAAA
63 AAGACCATGGTTGAAA
24893810 GATA
1 GATA
24893814 CCATGGCAGC
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
76 55 0.71
79 1 0.01
81 22 0.28
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.25
Consensus pattern (78 bp):
GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAATATGAAATGATGGTAAG
ACCATGGTTGAAA
Found at i:24893796 original size:51 final size:50
Alignment explanation
Indices: 24893732--24893855 Score: 184
Period size: 51 Copynumber: 2.5 Consensus size: 50
24893722 GTTGAAAGAT
*
24893732 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCTTAATATGAA
1 ATGAAATG-GTAAGACCATGGTTGAAAGATACCATGGCAGCCTAATATGAA
*
24893783 ATGAAATGGGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
1 ATGAAAT-GGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAATATGAA
24893834 ATG---T-GTAAGACCATGGTTGAAA
1 ATGAAATGGTAAGACCATGGTTGAAA
24893856 CCTGATATAA
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
46 18 0.26
48 1 0.01
51 50 0.71
52 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (50 bp):
ATGAAATGGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAATATGAA
Found at i:24893862 original size:33 final size:33
Alignment explanation
Indices: 24893823--24893888 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
24893813 ACCATGGCAG
*
24893823 CCTGATATGAAATGTGTAAGACCATGGTTGAAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAA
24893856 CCTGATATAAAATGTGTAAGACCATGGTTGAAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAA
24893889 GATACCATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (33 bp):
CCTGATATAAAATGTGTAAGACCATGGTTGAAA
Found at i:24893915 original size:46 final size:46
Alignment explanation
Indices: 24893858--24893982 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
24893848 GGTTGAAACC
* * *
24893858 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** *
24893904 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGTAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
24893950 TGATA-GAAAATGAGTAAGACCACAGTTGAAAGA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGA
24893983 CACTATAACA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 1 0.01
46 67 0.99
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:24893923 original size:79 final size:79
Alignment explanation
Indices: 24893786--24893934 Score: 244
Period size: 79 Copynumber: 1.9 Consensus size: 79
24893776 ATATGAAATG
* ***
24893786 AAATGGGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGT
1 AAATGGGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGT
24893851 TGAAACCTGATATA
66 TGAAACCTGATATA
* *
24893865 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACCATGGT
1 AAATGGGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGT
24893930 TGAAA
66 TGAAA
24893935 GATACCATGG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 64 1.00
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (79 bp):
AAATGGGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGT
TGAAACCTGATATA
Found at i:24894638 original size:15 final size:15
Alignment explanation
Indices: 24894620--24894672 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
24894610 ATAGTAGAAA
24894620 AATAAATAGATAAAT
1 AATAAATAGATAAAT
*
24894635 AATAATTAGATAAAT
1 AATAAATAGATAAAT
24894650 AAT-AATAGTATTAGAAT
1 AATAAATAG-A-TA-AAT
24894667 AATAAA
1 AATAAA
24894673 ATAAATAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 4 0.12
15 18 0.56
16 2 0.06
17 6 0.19
18 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (15 bp):
AATAAATAGATAAAT
Found at i:24894656 original size:29 final size:27
Alignment explanation
Indices: 24894623--24894702 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 27
24894613 GTAGAAAAAT
24894623 AAATAGATAAATAATAATTAGATAAATA-
1 AAATAGATAAATAATAA-TA-ATAAATAG
24894651 ATAATAGTATTAGAATAATAA-AATAAATAG
1 A-AATAG-A-TA-AATAATAATAATAAATAG
24894681 AAATAGA-AACATAATAATAATA
1 AAATAGATAA-ATAATAATAATA
24894703 GCAATAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 1 0.02
26 8 0.18
27 4 0.09
28 2 0.04
29 17 0.38
30 3 0.07
31 2 0.04
32 8 0.18
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATAGATAAATAATAATAATAAATAG
Found at i:24894687 original size:23 final size:23
Alignment explanation
Indices: 24894661--24894721 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
24894651 ATAATAGTAT
24894661 TAGAATAATAAAATAAATAGAAA
1 TAGAATAATAAAATAAATAGAAA
*
24894684 TAGAA-ACATAATAAT-AATAGCAA
1 TAGAATA-ATAA-AATAAATAGAAA
*
24894707 TA-ATATATTAAAATA
1 TAGA-ATAATAAAATA
24894722 GTTAATTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
22 5 0.16
23 22 0.71
24 4 0.13
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (23 bp):
TAGAATAATAAAATAAATAGAAA
Found at i:24895698 original size:9 final size:9
Alignment explanation
Indices: 24895684--24895748 Score: 60
Period size: 9 Copynumber: 7.0 Consensus size: 9
24895674 CAATAATATC
24895684 TTATAATTT
1 TTATAATTT
24895693 TTATAATTT
1 TTATAATTT
24895702 TTATAATATT
1 TTATAAT-TT
* *
24895712 CTATTATTT
1 TTATAATTT
*
24895721 TCA-AATTT
1 TTATAATTT
24895729 TTATATGATTT
1 TTATA--ATTT
*
24895740 TAATAATTT
1 TTATAATTT
24895749 ATAGACTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
8 6 0.13
9 24 0.53
10 7 0.16
11 8 0.18
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATAATTT
Found at i:24895707 original size:18 final size:18
Alignment explanation
Indices: 24895684--24895748 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
24895674 CAATAATATC
24895684 TTATAATTTTTATAATTT
1 TTATAATTTTTATAATTT
* *
24895702 TTATAATATTCTATTATTT
1 TTATAAT-TTTTATAATTT
*
24895721 TCA-AATTTTTATATGATTT
1 TTATAATTTTTATA--ATTT
*
24895740 TAATAATTT
1 TTATAATTT
24895749 ATAGACTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.14
18 10 0.27
19 17 0.46
20 5 0.14
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATAATTTTTATAATTT
Found at i:24895708 original size:28 final size:27
Alignment explanation
Indices: 24895676--24895733 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
24895666 TATTTTCACA
*
24895676 ATAATA-TCTTATAATTTTTATAATTTTT
1 ATAATATTC-TATAATTTTCA-AATTTTT
*
24895704 ATAATATTCTATTATTTTCAAATTTTT
1 ATAATATTCTATAATTTTCAAATTTTT
24895731 ATA
1 ATA
24895734 TGATTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 10 0.37
28 15 0.56
29 2 0.07
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (27 bp):
ATAATATTCTATAATTTTCAAATTTTT
Found at i:24897610 original size:34 final size:34
Alignment explanation
Indices: 24897572--24897641 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
24897562 TAATAGTAGG
24897572 TGGGGCAACAACCCTAGTTAAACAAACTAGAGTT
1 TGGGGCAACAACCCTAGTTAAACAAACTAGAGTT
24897606 TGGGGCAACAACCCTAGTTAAACAAACTAGAGTT
1 TGGGGCAACAACCCTAGTTAAACAAACTAGAGTT
24897640 TG
1 TG
24897642 TTGTCCCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (34 bp):
TGGGGCAACAACCCTAGTTAAACAAACTAGAGTT
Found at i:24899781 original size:27 final size:27
Alignment explanation
Indices: 24899742--24899793 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
24899732 TTTAGGTTAG
* *
24899742 AAAATGAAAAAAAAGTAAGGAAAAAAT
1 AAAAAGAAAAAAAAGTAAAGAAAAAAT
* *
24899769 AAAAAGAACAAAAATTAAAGAAAAA
1 AAAAAGAAAAAAAAGTAAAGAAAAA
24899794 GAAATTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.10
Consensus pattern (27 bp):
AAAAAGAAAAAAAAGTAAAGAAAAAAT
Found at i:24899798 original size:15 final size:14
Alignment explanation
Indices: 24899747--24899802 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
24899737 GTTAGAAAAT
* *
24899747 GAAAAAAAAGTAAG
1 GAAAAAAAATTAAA
24899761 GAAAAAATAA--AAA
1 GAAAAAA-AATTAAA
*
24899774 GAACAAAAATTAAA
1 GAAAAAAAATTAAA
24899788 GAAAAAGAAATTAAA
1 GAAAAA-AAATTAAA
24899803 AAAGAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 2 0.06
13 8 0.23
14 15 0.43
15 10 0.29
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (14 bp):
GAAAAAAAATTAAA
Found at i:24900446 original size:53 final size:53
Alignment explanation
Indices: 24900361--24900469 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
24900351 GTAAAATTGG
*
24900361 TCTGTTTATTGGTTAGTGAACAATAGAACCCGGCAAACCTTTTCATTTTCCTA
1 TCTGTTTATTCGTTAGTGAACAATAGAACCCGGCAAACCTTTTCATTTTCCTA
* * * *
24900414 TCTGTTTGTTCGTTAGTGAACAATAGAGCCCGGCATACCTTTTGATTTTCCTA
1 TCTGTTTATTCGTTAGTGAACAATAGAACCCGGCAAACCTTTTCATTTTCCTA
24900467 TCT
1 TCT
24900470 TCTCAGATCC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (53 bp):
TCTGTTTATTCGTTAGTGAACAATAGAACCCGGCAAACCTTTTCATTTTCCTA
Found at i:24909123 original size:43 final size:44
Alignment explanation
Indices: 24909054--24909146 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
24909044 TCCTAATTGG
*
24909054 GAAAATAGTTCCCTTATTTTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
24909097 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
24909141 -AAAATA
1 GAAAATA
24909147 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:24909190 original size:19 final size:18
Alignment explanation
Indices: 24909168--24909207 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
24909158 TGAATAAAAC
24909168 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
24909187 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
24909205 TTA
1 TTA
24909208 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:24913797 original size:43 final size:44
Alignment explanation
Indices: 24913736--24913828 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
24913726 TCCTAATTGG
*
24913736 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
24913779 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
24913823 -AAAATA
1 GAAAATA
24913829 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Done.