Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 63 of 199
Found at i:24224994 original size:228 final size:228
Alignment explanation
Indices: 24224597--24225103 Score: 960
Period size: 228 Copynumber: 2.2 Consensus size: 228
24224587 AAGGTATGTC
*
24224597 AGTTATGTAAGTTATATACTTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
1 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
* *
24224662 GTAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTATGTAAGTTTATATATAAGTTAT
66 GCAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTAGGTAAGTTTATATATAAGTTAT
24224727 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
131 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
*
24224792 AATATATATTAAAAATGTATATAAATATTTATA
196 AATATATATTAAAAATGTATAAAAATATTTATA
24224825 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
1 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
*
24224890 GCATGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTAGGTAAGTTTATATATAAGTTAT
66 GCAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTAGGTAAGTTTATATATAAGTTAT
*
24224955 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTACA
131 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
24225020 AATATATATTAAAAATGTATAAAAATATTTATA
196 AATATATATTAAAAATGTATAAAAATATTTATA
24225053 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTT
1 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTT
24225104 TACTAATAAA
Statistics
Matches: 273, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 273 1.00
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.45
Consensus pattern (228 bp):
AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
GCAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTAGGTAAGTTTATATATAAGTTAT
GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
AATATATATTAAAAATGTATAAAAATATTTATA
Found at i:24225091 original size:19 final size:19
Alignment explanation
Indices: 24225063--24225103 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
24225053 AGTTATGTAA
24225063 GTTATATAATTTAAAAATT
1 GTTATATAATTTAAAAATT
*
24225082 GTTATGTAATTTAAAAATT
1 GTTATATAATTTAAAAATT
24225101 GTT
1 GTT
24225104 TACTAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
GTTATATAATTTAAAAATT
Found at i:24226235 original size:22 final size:22
Alignment explanation
Indices: 24226210--24226255 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
24226200 AAAATTTTCT
24226210 TAAATTTAATACTGATTAAACC
1 TAAATTTAATACTGATTAAACC
*
24226232 TAAATTTTATACTGATTAAACC
1 TAAATTTAATACTGATTAAACC
24226254 TA
1 TA
24226256 CGTAGAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAATTTAATACTGATTAAACC
Found at i:24228091 original size:21 final size:21
Alignment explanation
Indices: 24228067--24228117 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
24228057 TTAACCTAGA
24228067 CCCTAAACCACAACCCTTATC
1 CCCTAAACCACAACCCTTATC
* *
24228088 CCCTAAACCATAACCTTTATC
1 CCCTAAACCACAACCCTTATC
24228109 CCCTAAACC
1 CCCTAAACC
24228118 CTAAACCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAAACCACAACCCTTATC
Found at i:24228119 original size:28 final size:28
Alignment explanation
Indices: 24228088--24228152 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
24228078 AACCCTTATC
* *
24228088 CCCTAAACCATAACCTTTATCCCCTAAA
1 CCCTAAACCATAAACTCTATCCCCTAAA
* * *
24228116 CCCTAAACCCTAAACTCTATTCCTTAAA
1 CCCTAAACCATAAACTCTATCCCCTAAA
*
24228144 CCTTAAACC
1 CCCTAAACC
24228153 CTAATCCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (28 bp):
CCCTAAACCATAAACTCTATCCCCTAAA
Found at i:24228121 original size:7 final size:7
Alignment explanation
Indices: 24228109--24228156 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
24228099 AACCTTTATC
24228109 CCCTAAA
1 CCCTAAA
24228116 CCCTAAA
1 CCCTAAA
24228123 CCCTAAA
1 CCCTAAA
* **
24228130 CTCTATT
1 CCCTAAA
*
24228137 CCTTAAA
1 CCCTAAA
*
24228144 CCTTAAA
1 CCCTAAA
24228151 CCCTAA
1 CCCTAA
24228157 TCCAGTTTAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (7 bp):
CCCTAAA
Found at i:24231188 original size:44 final size:43
Alignment explanation
Indices: 24231091--24231174 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
24231081 TGCAAATTTA
*
24231091 AGATAGCTTCGATTGAATAAATGGCACTAAGTGTGCGATACTG
1 AGATAGCTTCGATTGAATAAATGGCACTAAGTGTGCGACACTG
* * **
24231134 AGAGAGCTTCGATTTAATGTGATGGCACTAAGTGTGCGACA
1 AGATAGCTTCGATTGAAT-AAATGGCACTAAGTGTGCGACA
24231175 TCGTTATAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 16 0.46
44 19 0.54
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (43 bp):
AGATAGCTTCGATTGAATAAATGGCACTAAGTGTGCGACACTG
Found at i:24231807 original size:70 final size:70
Alignment explanation
Indices: 24231636--24231789 Score: 254
Period size: 70 Copynumber: 2.2 Consensus size: 70
24231626 GTTATATGGC
* * * * *
24231636 ATGTATAGACTAGTGCCAATCGGATACATTTTGGGATATGAAATTAGCCATGTGAGTTGACTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
24231701 AAATG
66 AAATG
*
24231706 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGGCTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
24231771 AAATG
66 AAATG
24231776 ATGTATAGGCTAGT
1 ATGTATAGGCTAGT
24231790 TTTATTATGG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.34
Consensus pattern (70 bp):
ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
AAATG
Found at i:24235266 original size:2 final size:2
Alignment explanation
Indices: 24235220--24235247 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24235210 TCACCAAACT
24235220 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24235248 ATGGATTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:24247489 original size:23 final size:23
Alignment explanation
Indices: 24247463--24247507 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24247453 ACTCTTGTAT
*
24247463 TTTTATAAT-TTTGTTCACGTTCC
1 TTTTA-AATATTTATTCACGTTCC
*
24247486 TTTTAATTATTTATTCACGTTC
1 TTTTAAATATTTATTCACGTTC
24247508 TCATCATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.58
Consensus pattern (23 bp):
TTTTAAATATTTATTCACGTTCC
Found at i:24250559 original size:21 final size:21
Alignment explanation
Indices: 24250533--24250588 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
24250523 AAAGTTTTGT
24250533 TGTTTGAATTGATTGTCTTTC
1 TGTTTGAATTGATTGTCTTTC
*
24250554 TGTTTGAATTGATTGTTTTTC
1 TGTTTGAATTGATTGTCTTTC
*
24250575 TGTTCGAATTGATT
1 TGTTTGAATTGATT
24250589 CATTTTTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.07, G:0.20, T:0.57
Consensus pattern (21 bp):
TGTTTGAATTGATTGTCTTTC
Found at i:24250594 original size:21 final size:20
Alignment explanation
Indices: 24250533--24250599 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
24250523 AAAGTTTTGT
*
24250533 TGTTTGAATTGATTGTCTTTC
1 TGTTTGAATTGATTAT-TTTC
*
24250554 TGTTTGAATTGATTGTTTTTC
1 TGTTTGAATTGATT-ATTTTC
*
24250575 TGTTCGAATTGATTCATTTT-
1 TGTTTGAATTGATT-ATTTTC
24250595 TGTTT
1 TGTTT
24250600 AAATCAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
20 4 0.10
21 35 0.88
22 1 0.03
ACGTcount: A:0.15, C:0.07, G:0.18, T:0.60
Consensus pattern (20 bp):
TGTTTGAATTGATTATTTTC
Found at i:24252280 original size:24 final size:24
Alignment explanation
Indices: 24252253--24252308 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
24252243 TTAAAATTAT
*
24252253 TAAAATTAATTTTTTTTATTCTTA
1 TAAAATTAATTTTTTTAATTCTTA
*
24252277 TAAAATTAATTTTTTTAATTTTTA
1 TAAAATTAATTTTTTTAATTCTTA
24252301 TAAAATTA
1 TAAAATTA
24252309 TCATCATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TAAAATTAATTTTTTTAATTCTTA
Found at i:24254897 original size:5 final size:5
Alignment explanation
Indices: 24254887--24254936 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
24254877 AATATATAAC
*
24254887 AATAT AATAT AACAT AAT-T AATAT AATAT ATTATAT AATA- AA-AT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT A--ATAT AATAT AATAT AATAT
24254936 A
1 A
24254937 CTAATATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 1 0.03
4 8 0.21
5 24 0.63
7 5 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:24255377 original size:27 final size:27
Alignment explanation
Indices: 24255347--24255398 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
24255337 CCATTAGAGA
*
24255347 CTCCAATTCTCTTTATTATTTTTCTGG
1 CTCCAATTCTCTTTATGATTTTTCTGG
24255374 CTCCAATTCTCTTTATGATTTTTCT
1 CTCCAATTCTCTTTATGATTTTTCT
24255399 TTGCCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (27 bp):
CTCCAATTCTCTTTATGATTTTTCTGG
Found at i:24270850 original size:14 final size:14
Alignment explanation
Indices: 24270814--24270856 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
24270804 ACACTAAAAT
*
24270814 TTTAAAAATAAAAA
1 TTTAAAAATATAAA
*
24270828 TATAAAAATATAAA
1 TTTAAAAATATAAA
*
24270842 TTTATAAATAGTAAA
1 TTTAAAAATA-TAAA
24270857 ATGACTTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
TTTAAAAATATAAA
Found at i:24275386 original size:21 final size:22
Alignment explanation
Indices: 24275348--24275389 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
24275338 AGTTTTCGTA
24275348 TTTTTATTTTTAGGAATTTAATT
1 TTTTTATTTTTA-GAATTTAATT
*
24275371 TTTTTATTTTT-TAATTTAA
1 TTTTTATTTTTAGAATTTAA
24275390 AAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTTATTTTTAGAATTTAATT
Found at i:24284723 original size:18 final size:18
Alignment explanation
Indices: 24284700--24284737 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24284690 GATAATGAAG
24284700 AATGTAGAATAAA-ATTAA
1 AATGTAGAA-AAATATTAA
*
24284718 AATGTATAAAAATATTAA
1 AATGTAGAAAAATATTAA
24284736 AA
1 AA
24284738 CAAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (18 bp):
AATGTAGAAAAATATTAA
Found at i:24285376 original size:31 final size:30
Alignment explanation
Indices: 24285341--24285426 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 30
24285331 ATTAAAAGTG
*
24285341 TATAATTGAATCAAAATTAAAGTTTCATATA
1 TATAATTGAA-CAAAATTAAAGTTTCACATA
* ** * *
24285372 TATAATTGAACCACAACCAAATTTTCACATG
1 TATAATTGAA-CAAAATTAAAGTTTCACATA
* *
24285403 TATAATTGTACCAAATTAAAGTTT
1 TATAATTGAACAAAATTAAAGTTT
24285427 AGGTATCAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
30 9 0.21
31 33 0.79
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (30 bp):
TATAATTGAACAAAATTAAAGTTTCACATA
Found at i:24297204 original size:33 final size:32
Alignment explanation
Indices: 24297153--24297414 Score: 121
Period size: 33 Copynumber: 7.8 Consensus size: 32
24297143 ACATTTGTAG
* *
24297153 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* * *
24297186 TGCCATAGCCTAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAGA-A
* * * * * * * *
24297220 CTGTCATGGTCCAACCATGGTCTTACGTTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTAC-ATCAGAA
* * * *
24297254 TGTCATAACCCAGTTATGGTCTTATCATGAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* *
24297287 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAGA-A
* * * * * *
24297321 CTGCCAT-GATCCAACCATGGTCTTACGTTCATAG
1 -TGCCATAG-CCCAGCTATGGTCTTAC-ATCAGAA
* *
24297355 TGCCATATCCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* ** **
24297388 TGCTATAATCCAGCTATGACCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
24297415 ATAAACACTG
Statistics
Matches: 166, Mismatches: 51, Indels: 25
0.69 0.21 0.10
Matches are distributed among these distances:
32 9 0.05
33 107 0.64
34 5 0.03
35 43 0.26
36 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAGAA
Found at i:24297334 original size:101 final size:101
Alignment explanation
Indices: 24297150--24297481 Score: 565
Period size: 101 Copynumber: 3.3 Consensus size: 101
24297140 TTTACATTTG
*
24297150 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
24297215 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
66 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
* *
24297251 TAGTGTCATAACCCAGTTATGGTCTTATCATGAGAATGCCATAGCCCAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
* *
24297316 AAACACTGCCATGATCCAACCATGGTCTTACGTTCA
66 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
* * ** **
24297352 TAGTGCCATATCCCAGTTATGGTCTTATCATCAGAATGCTATAATCCAGCTATGACCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
24297417 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
66 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
24297453 TAGTGCCATAACCCAGTTATGGTCTTATC
1 TAGTGCCATAACCCAGTTATGGTCTTATC
24297482 CATTCATCAT
Statistics
Matches: 215, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 215 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
Found at i:24300365 original size:11 final size:11
Alignment explanation
Indices: 24300349--24300377 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
24300339 AATTCAAGTT
24300349 TCGAGTTCTAG
1 TCGAGTTCTAG
24300360 TCGAGTTCTAG
1 TCGAGTTCTAG
24300371 TCGAGTT
1 TCGAGTT
24300378 GAATTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (11 bp):
TCGAGTTCTAG
Found at i:24300511 original size:19 final size:20
Alignment explanation
Indices: 24300474--24300527 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
24300464 ACAAAAACTA
*
24300474 TAAAAATTTAAAATAATTT-
1 TAAAAATTCAAAATAATTTG
24300493 TCAAAAATTCAAAAT-ATTTG
1 T-AAAAATTCAAAATAATTTG
24300513 TAAAAATTCTAAAAT
1 TAAAAATTC-AAAAT
24300528 TGATATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAATTCAAAATAATTTG
Found at i:24303976 original size:27 final size:27
Alignment explanation
Indices: 24303946--24304007 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
24303936 CCTATCAGGT
*
24303946 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATAAAGGTGCCTCATAGAG
* *
24303973 AGGCGCTAATAAAGGTGCCTTATAGAG
1 AGGCGCCAATAAAGGTGCCTCATAGAG
24304000 AGGCGCCA
1 AGGCGCCA
24304008 TTACTAGACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.32, T:0.16
Consensus pattern (27 bp):
AGGCGCCAATAAAGGTGCCTCATAGAG
Found at i:24304392 original size:19 final size:19
Alignment explanation
Indices: 24304370--24304407 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24304360 AATTTAATTT
*
24304370 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
24304389 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
24304408 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:24304537 original size:27 final size:27
Alignment explanation
Indices: 24304506--24304577 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
24304496 TACCGACATT
* *
24304506 CAATATTCATACAAAATTATAATATTA
1 CAATATTCATACAAAATTACAAAATTA
24304533 CAATATTCATACAAAATTACAAAATTA
1 CAATATTCATACAAAATTACAAAATTA
*
24304560 CAATATTCATATAAAATT
1 CAATATTCATACAAAATT
24304578 GCAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
CAATATTCATACAAAATTACAAAATTA
Found at i:24304679 original size:49 final size:49
Alignment explanation
Indices: 24304620--24304791 Score: 235
Period size: 49 Copynumber: 3.6 Consensus size: 49
24304610 AATTATCTAT
*
24304620 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
* *
24304669 ATTTTGTATGAATATTGCAATTTTTTTATATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
* **
24304718 ATTTTGTATGAATATTGTAA--TGTCGGTAT--ATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
*
24304763 ATTTTTTGTATGAATATTGTAATTATTTT
1 A--TTTTGTATGAATATTGTAATTTTTTT
24304792 ATAATTAATT
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
45 17 0.16
47 24 0.22
49 66 0.62
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.53
Consensus pattern (49 bp):
ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:24304681 original size:27 final size:25
Alignment explanation
Indices: 24304619--24304738 Score: 135
Period size: 27 Copynumber: 4.9 Consensus size: 25
24304609 AAATTATCTA
*
24304619 TATTTAGTATGAATATTGT-A-ATT
1 TATTTTGTATGAATATTGTAATATT
24304642 T-TTTTGTATGAATATTGTAATATT
1 TATTTTGTATGAATATTGTAATATT
*
24304666 ATAATTTTGTATGAATATTG-CA-ATT
1 -T-ATTTTGTATGAATATTGTAATATT
*
24304691 T-TTTTATATGAATATTGTAATATT
1 TATTTTGTATGAATATTGTAATATT
24304715 ATAATTTTGTATGAATATTGTAAT
1 -T-ATTTTGTATGAATATTGTAAT
24304739 GTCGGTATAT
Statistics
Matches: 82, Mismatches: 5, Indels: 16
0.80 0.05 0.16
Matches are distributed among these distances:
22 31 0.38
23 3 0.04
24 7 0.09
25 5 0.06
26 1 0.01
27 35 0.43
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (25 bp):
TATTTTGTATGAATATTGTAATATT
Found at i:24304856 original size:19 final size:19
Alignment explanation
Indices: 24304834--24304871 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24304824 TATAAATTTA
*
24304834 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
24304853 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
24304872 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:24305129 original size:27 final size:28
Alignment explanation
Indices: 24305091--24305167 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 28
24305081 CCGGCCCGGC
*
24305091 CCATTGGCGCCTCTCAGAAT-GGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
24305118 CCATTGGCGCCTCCCAG-GTAGGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
24305145 CCATTGGCGCCTCCCAG-ATAGGC
1 CCATTGGCGCCTCCCAGAATAGGC
24305168 GCCAATACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.19, C:0.39, G:0.25, T:0.17
Consensus pattern (28 bp):
CCATTGGCGCCTCCCAGAATAGGCACCA
Found at i:24312250 original size:15 final size:15
Alignment explanation
Indices: 24312230--24312260 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24312220 TTTTGTTCAA
24312230 TTTTATATATAAATT
1 TTTTATATATAAATT
*
24312245 TTTTATTTATAAATT
1 TTTTATATATAAATT
24312260 T
1 T
24312261 AATTGTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTATATATAAATT
Found at i:24315460 original size:24 final size:24
Alignment explanation
Indices: 24315395--24315460 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
24315385 TTATATAGTA
*
24315395 TATTTAAA-TTTA-ATT-TGAATC
1 TATTTAAAGTTTATATTATCAATC
*
24315416 AATTTAAAGTTT-T-TTGAATCAATC
1 TATTTAAAGTTTATATT--ATCAATC
24315440 TATTTAAAGTTTATATTATCA
1 TATTTAAAGTTTATATTATCA
24315461 TTTAAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
21 9 0.26
22 3 0.09
24 20 0.57
25 1 0.03
26 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (24 bp):
TATTTAAAGTTTATATTATCAATC
Found at i:24316090 original size:71 final size:71
Alignment explanation
Indices: 24316002--24316146 Score: 254
Period size: 71 Copynumber: 2.0 Consensus size: 71
24315992 GAGAGTAAAC
*
24316002 ATTGAGGGCTAAAAAGTACACAATTAACAGCAAAAATGGTTAGCATTATTGATTGGACCAAACTA
1 ATTGAGGGCTAAAAAGTACACAATTAACAGCAAAAATGGTTAGCATGATTGATTGGACCAAACTA
24316067 AATCAA
66 AATCAA
* **
24316073 ATTGAGGGCTAAAAAGTACACAATTAACAGCAAAAATGGTTGGCATGATTGATTGGACTGAACTA
1 ATTGAGGGCTAAAAAGTACACAATTAACAGCAAAAATGGTTAGCATGATTGATTGGACCAAACTA
24316138 AATCAA
66 AATCAA
24316144 ATT
1 ATT
24316147 AAGTGCAAAG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (71 bp):
ATTGAGGGCTAAAAAGTACACAATTAACAGCAAAAATGGTTAGCATGATTGATTGGACCAAACTA
AATCAA
Found at i:24322460 original size:27 final size:27
Alignment explanation
Indices: 24322430--24322517 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
24322420 TTTTTACATA
* *
24322430 ATATATTTATATATGCATTTTTTTTAT
1 ATATATATATATACGCATTTTTTTTAT
* * *
24322457 ATATATAGCACATACGCA-TATTTTTAT
1 ATATATA-TATATACGCATTTTTTTTAT
* *
24322484 ATATAATATATATAGGCATTTTTTTAAT
1 ATAT-ATATATATACGCATTTTTTTTAT
24322512 ATATAT
1 ATATAT
24322518 GTTTTTAAGC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
27 27 0.56
28 21 0.44
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (27 bp):
ATATATATATATACGCATTTTTTTTAT
Found at i:24324561 original size:19 final size:20
Alignment explanation
Indices: 24324517--24324561 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
24324507 AACGTCTCTT
*
24324517 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
24324536 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
24324555 TATGCAT
1 TATGCAT
24324562 CAAAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:24327286 original size:7 final size:7
Alignment explanation
Indices: 24327261--24327302 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
24327251 AGTGATGTGA
24327261 AAAAATG
1 AAAAATG
24327268 AAAAGATG
1 AAAA-ATG
24327276 -AAAATG
1 AAAAATG
24327282 AAAAATG
1 AAAAATG
24327289 AAAAA-G
1 AAAAATG
24327295 TAAAAATG
1 -AAAAATG
24327303 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:24327300 original size:21 final size:21
Alignment explanation
Indices: 24327261--24327302 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24327251 AGTGATGTGA
*
24327261 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
24327282 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
24327303 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:24328887 original size:50 final size:50
Alignment explanation
Indices: 24328833--24329307 Score: 389
Period size: 50 Copynumber: 9.5 Consensus size: 50
24328823 ACAATTAAAG
** *
24328833 AGATTGAAGCCACAACGGTAGATCTTACTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CAGTGCAGTGGAAC
* * *** * * * ** *
24328883 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAAC
* *
24328933 AGATTGAAGCCACAATGGCGGATCTTACTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CAGTGCAGTGGAAC
* * *** * * * ** *
24328983 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAAC
* *
24329033 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAAC
* *** * * * ** *
24329083 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAAC
* *
24329133 AGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGTAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CAGTGCAGTGGAAC
* * *** * * * ** *
24329183 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAAC
* * *
24329233 AGATTGAAGCCACAACGGCTGATCTTACTTCCCTGACGGTGCGGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAAC
* *
24329283 AGATTGAAGCTACGACGGCGGATCT
1 AGATTGAAGCCACAACGGCGGATCT
24329308 AGTTTCCCCG
Statistics
Matches: 313, Mismatches: 107, Indels: 10
0.73 0.25 0.02
Matches are distributed among these distances:
49 8 0.03
50 293 0.94
51 12 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAGTGGAAC
Found at i:24329315 original size:50 final size:50
Alignment explanation
Indices: 24328777--24329341 Score: 381
Period size: 50 Copynumber: 11.3 Consensus size: 50
24328767 GATTAAAGCT
* * * * * * *
24328777 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAATATTACAA
1 TGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTCCCTGACAGTGCAG
** * * ** * *
24328827 TTAAAGAGATTGAAGCCACAACGGTAGATCTTA-CTT-CCTTAGCAGTGCAG
1 TGGAACAGATTGAAGCTACAACGGCGGATC-TAGTTTCCCTGA-CAGTGCAG
* * * * *
24328877 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAA
1 TGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTCCCTGACAGTGCAG
** * * * * *
24328927 TTAAAAAGATTGAAGCCACAATGGCGGATCTTA-CTT-CCTTAGCAGTGCAG
1 TGGAACAGATTGAAGCTACAACGGCGGATC-TAGTTTCCCTGA-CAGTGCAG
* * * * *
24328977 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAA
1 TGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTCCCTGACAGTGCAG
** * * * * *
24329027 TTAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTGACGGTGCGG
1 TGGAACAGATTGAAGCTACAACGGCGGATC-TAGTTTCCCTGACAGTGCAG
* * * *
24329077 TGGAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAA
1 TGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTCCCTGACAGTGCAG
** * * * * *
24329127 TTAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTT-CCTTAGCAGTGTAG
1 TGGAACAGATTGAAGCTACAACGGCGGATC-TAGTTTCCCTGA-CAGTGCAG
* * * * *
24329177 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAA
1 TGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTCCCTGACAGTGCAG
** * * * * * *
24329227 TTAAAAAGATTGAAGCCACAACGGCTGATCTTA-CTTCCCTGACGGTGCGG
1 TGGAACAGATTGAAGCTACAACGGCGGATC-TAGTTTCCCTGACAGTGCAG
* * * *
24329277 TGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCCGGCATTGCAG
1 TGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTCCCTGACAGTGCAG
* *
24329327 TTGAACAAATTGAAG
1 TGGAACAGATTGAAG
24329342 ATTACAGATC
Statistics
Matches: 375, Mismatches: 124, Indels: 32
0.71 0.23 0.06
Matches are distributed among these distances:
49 18 0.05
50 340 0.91
51 17 0.05
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (50 bp):
TGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTCCCTGACAGTGCAG
Found at i:24329341 original size:100 final size:100
Alignment explanation
Indices: 24328777--24329315 Score: 902
Period size: 100 Copynumber: 5.4 Consensus size: 100
24328767 GATTAAAGCT
* * *
24328777 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAATATTACAATTAAAGAGATTGAAG
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
**
24328842 CCACAACGGTAGATCTTACTTCCTTAGCAGTGCAG
66 CCACAACGGCGGATCTTACTTCCTTAGCAGTGCAG
24328877 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
*
24328942 CCACAATGGCGGATCTTACTTCCTTAGCAGTGCAG
66 CCACAACGGCGGATCTTACTTCCTTAGCAGTGCAG
24328977 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
* * *
24329042 CCACAACGGCGGATCTTACTTCCCT-GACGGTGCGG
66 CCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAG
*
24329077 TGGAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
*
24329142 CCACAACGGCGGATCTTACTTCCTTAGCAGTGTAG
66 CCACAACGGCGGATCTTACTTCCTTAGCAGTGCAG
24329177 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
* * * *
24329242 CCACAACGGCTGATCTTACTTCCCT-GACGGTGCGG
66 CCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAG
*
24329277 TGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCC
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
24329316 CGGCATTGCA
Statistics
Matches: 414, Mismatches: 22, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
99 2 0.00
100 411 0.99
101 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (100 bp):
TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
CCACAACGGCGGATCTTACTTCCTTAGCAGTGCAG
Found at i:24329489 original size:44 final size:44
Alignment explanation
Indices: 24329441--24329539 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
24329431 CCAGTAACTC
* * *
24329441 TATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCT
1 TATCTCCCTGAGCAGCAGTGGAACAGATCAAAGATAACAGATCT
* * * * * *
24329485 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTT
1 TATCTCCCTGAGCAGCAGTGGAACAGATCAAAGATAACAGATCT
*
24329529 TACCTCCCTGA
1 TATCTCCCTGA
24329540 AGTTGCAGTG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAGCAGCAGTGGAACAGATCAAAGATAACAGATCT
Found at i:24329507 original size:132 final size:132
Alignment explanation
Indices: 24329339--24329580 Score: 385
Period size: 132 Copynumber: 1.8 Consensus size: 132
24329329 GAACAAATTG
* *
24329339 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCC
1 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTTTACCTCC
** * *
24329404 CTGTGGTTATAATAGAGTACATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAATAGAT
66 CTGAAGTTACAATAGAGTACATTGAAGCCAGTAACTCTACCTCCCTGGGCAGCAGTGGAATAGAT
24329469 TA
131 TA
24329471 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTTTACCTCC
1 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTTTACCTCC
* * * * *
24329536 CTGAAGTTGCAGTGGAGTATATTGAAGCCAGTAATTCTACCTCCC
66 CTGAAGTTACAATAGAGTACATTGAAGCCAGTAACTCTACCTCCC
24329581 CGGTCGGCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 99 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (132 bp):
AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTTTACCTCC
CTGAAGTTACAATAGAGTACATTGAAGCCAGTAACTCTACCTCCCTGGGCAGCAGTGGAATAGAT
TA
Found at i:24331308 original size:27 final size:26
Alignment explanation
Indices: 24331278--24331350 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
24331268 ATTTATATAT
24331278 GCATTTTTTTATATATATAGCACATAC
1 GCATTTTTTTATATATATA-CACATAC
* * * *
24331305 GCATATTTTTATATATAATATATATAG
1 GCATTTTTTTATATAT-ATACACATAC
24331332 GCATTTTTTTAATATATAT
1 GCATTTTTTT-ATATATAT
24331351 GTTTTTAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 30 0.77
28 9 0.23
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (26 bp):
GCATTTTTTTATATATATACACATAC
Found at i:24336714 original size:25 final size:23
Alignment explanation
Indices: 24336670--24336717 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
24336660 ATTTAATTAA
**
24336670 TATTTTATTAAGATTTTTAATAT
1 TATTTTATTAAGATGATTAATAT
24336693 TATTTTATTATTAGATGATTAATAT
1 TATTTTATTA--AGATGATTAATAT
24336718 AAAAGGGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (23 bp):
TATTTTATTAAGATGATTAATAT
Found at i:24346431 original size:14 final size:13
Alignment explanation
Indices: 24346393--24346433 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
24346383 TTTTATAAAC
24346393 ATTTTAATTATTT
1 ATTTTAATTATTT
*
24346406 GTTTT-A-TATTT
1 ATTTTAATTATTT
24346417 ATTTTAAATTATTT
1 ATTTT-AATTATTT
24346431 ATT
1 ATT
24346434 ATATTAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 5 0.22
14 8 0.35
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (13 bp):
ATTTTAATTATTT
Found at i:24348544 original size:29 final size:31
Alignment explanation
Indices: 24348493--24348559 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
24348483 TTGAAATTAA
* *
24348493 TTTGGTGGTAAAGGAGAGAAAATA-AAAGAT
1 TTTGGGGGTAAAGGAGAGAAAATACAAAAAT
24348523 TTTGGGGGTAAA-GAGA-AGAAATACAAAAAT
1 TTTGGGGGTAAAGGAGAGA-AAATACAAAAAT
*
24348553 TGTGGGG
1 TTTGGGG
24348560 ATTTTGATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.03
29 9 0.28
30 22 0.69
ACGTcount: A:0.43, C:0.01, G:0.33, T:0.22
Consensus pattern (31 bp):
TTTGGGGGTAAAGGAGAGAAAATACAAAAAT
Found at i:24348707 original size:23 final size:23
Alignment explanation
Indices: 24348672--24348728 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
24348662 TATTTGGTTT
*
24348672 ATTTGAATTATTTAAGTT-ATTTTA
1 ATTTGAA-AATTTAAGTTGA-TTTA
*
24348696 ATTTGAAAATTTAATTTGATTTA
1 ATTTGAAAATTTAAGTTGATTTA
24348719 ATTT-AAAATT
1 ATTTGAAAATT
24348729 CGAAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 6 0.20
23 16 0.53
24 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (23 bp):
ATTTGAAAATTTAAGTTGATTTA
Found at i:24351864 original size:34 final size:34
Alignment explanation
Indices: 24351776--24351893 Score: 152
Period size: 34 Copynumber: 3.5 Consensus size: 34
24351766 TAAAAACTAC
*
24351776 TACTTTTATAAATTTTCATGATAAACAATCAGAG
1 TACTTTTATAAATTTTCATGATAAACAATTAGAG
* * *
24351810 TAC-ATT-T-AATATTCATGATAAACAATTAGAA
1 TACTTTTATAAATTTTCATGATAAACAATTAGAG
24351841 TACTTTTATAAATTTTCATGATAAACAATTAGAG
1 TACTTTTATAAATTTTCATGATAAACAATTAGAG
* *
24351875 TACATGTAATAAATTTTCA
1 TAC-TTTTATAAATTTTCA
24351894 ACCAAACGAC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
31 24 0.34
32 3 0.04
33 3 0.04
34 28 0.39
35 13 0.18
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (34 bp):
TACTTTTATAAATTTTCATGATAAACAATTAGAG
Found at i:24352078 original size:24 final size:25
Alignment explanation
Indices: 24352035--24352084 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 25
24352025 TAGAAATCGA
24352035 TAGAATTATTATTTCAAAAA-AAAT
1 TAGAATTATTATTTCAAAAATAAAT
24352059 TAGAATT-TATATTT-AGAAAATAAAT
1 TAGAATTAT-TATTTCA-AAAATAAAT
24352084 T
1 T
24352085 CTCACTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.09
24 16 0.70
25 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
TAGAATTATTATTTCAAAAATAAAT
Found at i:24352445 original size:17 final size:17
Alignment explanation
Indices: 24352425--24352457 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24352415 TTTAAATAAA
24352425 TAAATAATTTTCTCAAT
1 TAAATAATTTTCTCAAT
24352442 TAAATAATTTTCTCAA
1 TAAATAATTTTCTCAA
24352458 CCTGATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTTCTCAAT
Found at i:24355129 original size:4 final size:4
Alignment explanation
Indices: 24355114--24355180 Score: 116
Period size: 4 Copynumber: 16.8 Consensus size: 4
24355104 TTGCAAGGTA
*
24355114 ATAC AAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
24355162 ATAC ATAC ATAA ATAC ATA
1 ATAC ATAC ATAC ATAC ATA
24355181 TATATATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:24364920 original size:14 final size:14
Alignment explanation
Indices: 24364886--24364927 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
24364876 TAATATCTAA
*
24364886 ATAATAATAATAAT
1 ATAATAGTAATAAT
* *
24364900 AAAATAGTAGTAAT
1 ATAATAGTAATAAT
24364914 ATAATAGTAA-AAT
1 ATAATAGTAATAAT
24364927 A
1 A
24364928 GTAACAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (14 bp):
ATAATAGTAATAAT
Found at i:24364924 original size:22 final size:23
Alignment explanation
Indices: 24364887--24364930 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
24364877 AATATCTAAA
24364887 TAATAATAATAATAAAATAGTAG
1 TAATAATAATAATAAAATAGTAG
*
24364910 TAAT-ATAATAGTAAAATAGTA
1 TAATAATAATAATAAAATAGTA
24364931 ACAAAATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (23 bp):
TAATAATAATAATAAAATAGTAG
Found at i:24364927 original size:39 final size:39
Alignment explanation
Indices: 24364846--24364927 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
24364836 CTAAAATAGT
* *
24364846 AATAAAAATAATAATAAAACAACAGTTATATAATATCTA
1 AATAAAAATAATAATAAAACAACAGTAATATAATATCAA
* * **
24364885 AATAATAATAATAATAAAATAGTAGTAATATAATAGT-AA
1 AATAAAAATAATAATAAAACAACAGTAATATAATA-TCAA
24364924 AATA
1 AATA
24364928 GTAACAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
39 35 0.97
40 1 0.03
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (39 bp):
AATAAAAATAATAATAAAACAACAGTAATATAATATCAA
Found at i:24364939 original size:22 final size:22
Alignment explanation
Indices: 24364891--24364939 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
24364881 TCTAAATAAT
**
24364891 AATAATAATAAAATAGTAGTAA
1 AATAATAATAAAATAGTAACAA
* *
24364913 TATAATAGTAAAATAGTAACAA
1 AATAATAATAAAATAGTAACAA
24364935 AATAA
1 AATAA
24364940 CATCAGCAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (22 bp):
AATAATAATAAAATAGTAACAA
Found at i:24365164 original size:3 final size:3
Alignment explanation
Indices: 24365156--24365198 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
24365146 AGTTATACTT
24365156 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24365199 GTGGTAAGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24365896 original size:27 final size:29
Alignment explanation
Indices: 24365866--24365920 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
24365856 ACCCACCACT
24365866 TATAAAAGG-A-AAACATATCCAGATTGA
1 TATAAAAGGAACAAACATATCCAGATTGA
*
24365893 TATAAGAGGATACAAACATATCCAGATT
1 TATAAAAGGA-ACAAACATATCCAGATT
24365921 CATTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
29 1 0.04
30 15 0.62
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.24
Consensus pattern (29 bp):
TATAAAAGGAACAAACATATCCAGATTGA
Found at i:24375923 original size:61 final size:61
Alignment explanation
Indices: 24375858--24375979 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
24375848 CCACAACCTC
24375858 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
1 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
24375919 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
1 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
24375980 ACACCTTCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.11
Consensus pattern (61 bp):
CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
Found at i:24380913 original size:126 final size:125
Alignment explanation
Indices: 24380701--24381038 Score: 525
Period size: 125 Copynumber: 2.7 Consensus size: 125
24380691 GTTTCTAATA
* *
24380701 AAATAGTATAAAATCGCTTCTAGCAGAATGCTATTTGAGAATAATTTGTGAAATCGCGCCCTCGT
1 AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGT
24380766 GGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGACATTTCTGAGC
66 GGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATT-TTTTTTTGACATTTCTGAGC
* * * * *
24380827 AAATAGTATAAAATAGCTTCTAGGAGGATCCTATTTGAGAAGAATTTGTGCAATCGCGACCTCGT
1 AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGT
* * * * *
24380892 -CAGCGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGC
66 GGA-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTTTTTTTTGACATTTCTGAGC
*
24380952 AAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGT
1 AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGT
*
24381017 GGACGCGCTTTTACTACAGTAG
66 GGACGCGCTTTTGCTACAGTAG
24381039 CATGTTTGGG
Statistics
Matches: 189, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
125 96 0.51
126 93 0.49
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (125 bp):
AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGT
GGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTTTTTTTTGACATTTCTGAGC
Found at i:24380996 original size:125 final size:126
Alignment explanation
Indices: 24380686--24381038 Score: 530
Period size: 126 Copynumber: 2.8 Consensus size: 126
24380676 TAATTTCGAG
* ** * *
24380686 TTGACGTTTCTAATAAAATAGTATAAAATCGCTTCTAGCAGAATGCTATTTGAGAATAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
24380751 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
* * * *
24380812 TTGACATTTCTGAGCAAATAGTATAAAATAGCTTCTAGGAGGATCCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * * * *
24380877 CAATCGCGACCTCGT-CAGCGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATT-TTTTT
66 AAATCGCGCCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
*
24380937 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
24381002 AAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
24381039 CATGTTTGGG
Statistics
Matches: 200, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
125 96 0.48
126 104 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
Found at i:24384277 original size:116 final size:116
Alignment explanation
Indices: 24384069--24384306 Score: 413
Period size: 116 Copynumber: 2.1 Consensus size: 116
24384059 TGATAAATTG
24384069 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
* *
24384134 TAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
* *
24384185 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
* *
24384250 TAGTATCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAACAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
*
24384301 TGTTAA
1 TATTAA
24384307 CTTAGTTTAG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:24384329 original size:23 final size:23
Alignment explanation
Indices: 24384303--24384620 Score: 214
Period size: 23 Copynumber: 12.6 Consensus size: 23
24384293 TGTAACATTG
* *
24384303 TTAACTTAGTTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
*
24384326 TTAAATTAGGTTAAGGTTAGGGTTT--
1 TTAAATTAGGTTAGGGTT----TTTAA
*
24384351 TTAAGTTAAGGGTTTAGGGTTTTTAA
1 TTAAATT-A-GG-TTAGGGTTTTTAA
24384377 TTAAACTAGGTTAGGGTTAGGGTTTTTAA
1 TT-AA--A--TTA-GGTTAGGGTTTTTAA
24384406 TTAAATTAGGTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
24384429 TTAAATTAGGTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
* * *
24384452 TTAAATTAGGTTAAGGTTAAGGTTAGGG
1 TTAAATTAGGTTAGGGTT---TTTA--A
* *
24384480 TT--TTTAAGTTAAGGGTTTAAGTTTTTTAA
1 TTAAATTAGGTT-A-GG-----G-TTTTTAA
24384509 TTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TTAAATTA------GGTTAGGGTTTTTAA
*
24384538 TTAAATTAGGTTAGAGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
24384561 TTAAATTAGGTTA-GGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
24384583 TTAAATTAGGTTAGGGGTTTTTAA
1 TTAAATTAGGTTA-GGGTTTTTAA
24384607 TTAAATTAGGTTAG
1 TTAAATTAGGTTAG
24384621 AGTTAGGGTT
Statistics
Matches: 240, Mismatches: 18, Indels: 74
0.72 0.05 0.22
Matches are distributed among these distances:
22 21 0.09
23 98 0.41
24 28 0.12
25 6 0.03
26 13 0.05
27 8 0.03
28 12 0.05
29 32 0.13
30 5 0.02
31 8 0.03
33 1 0.00
34 2 0.01
35 2 0.01
36 1 0.00
37 3 0.01
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.46
Consensus pattern (23 bp):
TTAAATTAGGTTAGGGTTTTTAA
Found at i:24384370 original size:22 final size:20
Alignment explanation
Indices: 24384335--24384380 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
24384325 ATTAAATTAG
24384335 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
24384355 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
24384377 -TTAA
1 GTTAA
24384381 ACTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:24384398 original size:29 final size:29
Alignment explanation
Indices: 24384359--24384842 Score: 460
Period size: 29 Copynumber: 17.4 Consensus size: 29
24384349 TTTTAAGTTA
*
24384359 AGGGTTTAGGGTTTTTAATTAAACTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
24384389 AGGGTTAGGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
24384413 A-GGTTAGGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
24384436 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * **** * *
24384464 AAGGTTAAGG-TTAGGGTT--TTTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
24384490 AAGGGTTTAAGTTTTTTAATTAAATTAGGTT
1 -AGGG-TTAGGGTTTTTAATTAAATTAGGTT
24384521 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
24384550 A--G--A--GTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
24384568 A-GGTTA-GGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
24384595 A--G---GGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
24384619 AGAGTTAGGGTTTTTAATTAATTTAGGTTAGGGGTT
1 AGGGTTAGGGTTTTTAATTAA---A--TTA--GGTT
*
24384655 AGGGGTTAGGGTTTTTAATTAATTTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
* *
24384685 AGGATTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
24384714 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
24384743 AGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
24384772 AGGGCTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
*
24384802 A-GGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
24384830 AGGGTTTAGGGTT
1 AGGG-TTAGGGTT
24384843 AAATTAGGTT
Statistics
Matches: 392, Mismatches: 25, Indels: 74
0.80 0.05 0.15
Matches are distributed among these distances:
18 3 0.01
19 1 0.00
20 1 0.00
21 1 0.00
22 12 0.03
23 52 0.13
24 27 0.07
25 2 0.01
26 10 0.03
27 7 0.02
28 39 0.10
29 154 0.39
30 46 0.12
31 6 0.02
32 4 0.01
34 3 0.01
36 5 0.01
37 19 0.05
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.46
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:24384744 original size:124 final size:116
Alignment explanation
Indices: 24384566--24384842 Score: 395
Period size: 117 Copynumber: 2.4 Consensus size: 116
24384556 TTTAATTAAA
*
24384566 TTAGGTTA-GGTTTTTAATTAAATTAGGTTA--G---GGGTTTTTAATTAAATTAGGTTAGAGTT
1 TTAGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTT
* *
24384625 AGGGTTTTTAATTAATTTAGGTTAGGGGTTAGGGGTTAGGGTTTTTAATTAATTTAGG
66 AGGGTTTTTAATTAA--T---TTA--GGTTAGGGCTTAGGGTTTTTAATTAAATTAGG
*
24384683 TTAGGATTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGG-TTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGT
24384748 TAGGGTTTTTAATTAATTTAGGTTAGGGCTTAGGGTTTTTAATTAAATTAGG
65 TAGGGTTTTTAATTAATTTAGGTTAGGGCTTAGGGTTTTTAATTAAATTAGG
24384800 TTAGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTTAGGGTT
1 TTAGGTTAGGGTTTTTAATTAATTTAGGTTAGGG-TTAGGGTT
24384843 AAATTAGGTT
Statistics
Matches: 148, Mismatches: 4, Indels: 16
0.88 0.02 0.10
Matches are distributed among these distances:
116 29 0.20
117 48 0.32
118 3 0.02
119 24 0.16
121 1 0.01
122 1 0.01
124 42 0.28
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (116 bp):
TTAGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTT
AGGGTTTTTAATTAATTTAGGTTAGGGCTTAGGGTTTTTAATTAAATTAGG
Found at i:24384955 original size:25 final size:25
Alignment explanation
Indices: 24384925--24384994 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
24384915 GAAATTTTTT
*
24384925 TATTTTATTACATCAAATAAATTTC
1 TATTTTATTACATCAAATAAACTTC
24384950 TATTTTATTACATCAAATAAACTTC
1 TATTTTATTACATCAAATAAACTTC
*
24384975 TATTTTATTATATCAAATAA
1 TATTTTATTACATCAAATAA
24384995 TATCAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTTTATTACATCAAATAAACTTC
Found at i:24384971 original size:94 final size:93
Alignment explanation
Indices: 24384858--24385037 Score: 279
Period size: 94 Copynumber: 1.9 Consensus size: 93
24384848 AGGTTAGGGT
* * **
24384858 TTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATATCTCGAAATTTT
1 TTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
* *
24384923 TTTATTTTATTACATCAAATAAATTTCTA
66 TCTATTTT-TTACATAAAATAAATTTCTA
* *
24384952 TTTTATTACATCAAATAAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCAAAAAATT
1 TTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
24385017 TCTATTTTTTACATAAAATAA
66 TCTATTTTTTACATAAAATAA
24385038 TATCAAAATA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 12 0.15
94 66 0.85
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.44
Consensus pattern (93 bp):
TTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
TCTATTTTTTACATAAAATAAATTTCTA
Found at i:24385773 original size:365 final size:364
Alignment explanation
Indices: 24385104--24385814 Score: 1138
Period size: 365 Copynumber: 2.0 Consensus size: 364
24385094 ATGCCCGGGG
* *
24385104 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGTGCTGGATTCCTGCTTCTCTAGCTTTCGGC
1 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGCTTCTCTAGCTTCCGGC
* *
24385169 GGCAGTTGTTGTTCCTCCGGTGGGGATTCTGGGTCTTCCGGTTCGGCATCTAGTTATCGGACTTG
66 GGCAGTTGTTGTTCCTCCGGTGGGGATTCTGGGTCTTCCAGTTCGGCATCTAGTTATCAGACTTG
* *
24385234 GGACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCGACAGTG
131 GAACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCAACAGTG
* * *
24385299 TTTGAAACCCATACGTTGGTGGGGATTGGTAAAAATGAGAGCTCCCCAACGGCCCCCTTTGCGAT
196 GTTGAAACCCATACGTTGGTGGGGATTGGTAAAAAGGAGAGCTCCCCAACGGCCCCCTTTGAGAT
* *
24385364 CCCTCGTGCGCCGTTGGCCTACACATCGGTGGTCTGCTCGGCATAACAGGAAATGGAGCTAAACC
261 CCCTCGTGCGCCGTTGGCCTACACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTAAACC
24385429 GGGCATTTGGCTCCAACCTGCTTTCTCTAGCTTTCTCTA
326 GGGCATTTGGCTCCAACCTGCTTTCTCTAGCTTTCTCTA
24385468 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGCTTTCTCTAGCTTCCGG
1 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGC-TTCTCTAGCTTCCGG
* * * * *
24385533 CGGCGGTTGTTGTTCCTCCGGTGGGGATTCTGGTTCTTCCAGTTCGGCATTTGGTTTTCAGACTT
65 CGGCAGTTGTTGTTCCTCCGGTGGGGATTCTGGGTCTTCCAGTTCGGCATCTAGTTATCAGACTT
* * *
24385598 GGAACGATGATCCATCTTCAAAGAATAGT-TCATGTGGAGTTGTTTGCATCAGGAACGGCAACGG
130 GGAACGATGATCCACCTTCAAAGAATAGTGT-ATATGGAGTTGTTTGCATCAGGAACGGCAACAG
* *
24385662 TGGTTGAAACCCATACGTTTGGTGGGGATTGGTAAAAAGGAGAGCTCTCCGACGGCCCCC-TTGA
194 TGGTTGAAACCCATACG-TTGGTGGGGATTGGTAAAAAGGAGAGCTCCCCAACGGCCCCCTTTGA
* * * *
24385726 GATCCCTCGTGTGCCGTTGGCCTATACATCGGCGGTCCGCTCGGCATAACAGGAATTGGAGCTGA
258 GATCCCTCGTGCGCCGTTGGCCTACACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTAA
* *
24385791 ATCGGGCATTTGGCTCTAACCTGC
323 ACCGGGCATTTGGCTCCAACCTGC
24385815 CATAGGACTT
Statistics
Matches: 317, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
364 49 0.15
365 229 0.72
366 39 0.12
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (364 bp):
GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGCTTCTCTAGCTTCCGGC
GGCAGTTGTTGTTCCTCCGGTGGGGATTCTGGGTCTTCCAGTTCGGCATCTAGTTATCAGACTTG
GAACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCAACAGTG
GTTGAAACCCATACGTTGGTGGGGATTGGTAAAAAGGAGAGCTCCCCAACGGCCCCCTTTGAGAT
CCCTCGTGCGCCGTTGGCCTACACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTAAACC
GGGCATTTGGCTCCAACCTGCTTTCTCTAGCTTTCTCTA
Found at i:24385857 original size:18 final size:18
Alignment explanation
Indices: 24385834--24385868 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24385824 TGGAAAAGGA
*
24385834 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
24385852 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
24385869 AAATGTACCT
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:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:24386514 original size:7 final size:7
Alignment explanation
Indices: 24386504--24386528 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24386494 TTATATACAT
24386504 AATACTA
1 AATACTA
24386511 AATACTA
1 AATACTA
24386518 AATACTA
1 AATACTA
24386525 AATA
1 AATA
24386529 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:24387341 original size:29 final size:29
Alignment explanation
Indices: 24387309--24387394 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
24387299 AAAAAGGAAA
24387309 TTGAGAGGAAATTGAAATTAAATATGGAT
1 TTGAGAGGAAATTGAAATTAAATATGGAT
** *
24387338 TTGAGA-G-AATT----TTGGA-A-GGAAA
1 TTGAGAGGAAATTGAAATTAAATATGG-AT
24387360 TTGAGAGGAAATTGAAATTAAATATGGAT
1 TTGAGAGGAAATTGAAATTAAATATGGAT
24387389 TTGAGA
1 TTGAGA
24387395 TAATTTTGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 4 0.10
24 4 0.10
27 4 0.10
28 4 0.10
29 14 0.33
30 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (29 bp):
TTGAGAGGAAATTGAAATTAAATATGGAT
Found at i:24387357 original size:51 final size:51
Alignment explanation
Indices: 24387302--24387417 Score: 223
Period size: 51 Copynumber: 2.3 Consensus size: 51
24387292 TATTTTAAAA
24387302 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
*
24387353 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGATAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
24387404 AAGGAAATTGAGAG
1 AAGGAAATTGAGAG
24387418 AATTTTGGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
Found at i:24387363 original size:22 final size:22
Alignment explanation
Indices: 24387338--24387439 Score: 89
Period size: 22 Copynumber: 4.3 Consensus size: 22
24387328 AAATATGGAT
24387338 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
* * **
24387360 TTGAGAGGAA-ATTGAAATTAAA
1 TTGAGA-GAATTTTGGAAGGAAA
24387382 TATGGATTTGAGATAATTTTGGAAGGAAA
1 T-T-GA---GAG--AATTTTGGAAGGAAA
24387411 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
24387433 TTGAGAG
1 TTGAGAG
24387440 GAAATATGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
22 37 0.59
23 4 0.06
24 5 0.08
26 1 0.02
27 4 0.06
28 3 0.05
29 9 0.14
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:24397836 original size:21 final size:24
Alignment explanation
Indices: 24397807--24397856 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
24397797 CCTTTTCAAC
24397807 TAATAA-TTTTAAA-TTAAATT-A
1 TAATAATTTTTAAAGTTAAATTGA
* *
24397828 TAATTATTTTTAAAGTTAATTTGA
1 TAATAATTTTTAAAGTTAAATTGA
24397852 TAATA
1 TAATA
24397857 TGATGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 5 0.22
22 7 0.30
23 6 0.26
24 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
TAATAATTTTTAAAGTTAAATTGA
Found at i:24405217 original size:18 final size:18
Alignment explanation
Indices: 24405178--24405223 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
24405168 AAATTTTAAA
24405178 TATT-ATTTAATAATTTT
1 TATTAATTTAATAATTTT
24405195 T-TTAATTTAA-AATTTTT
1 TATTAATTTAATAA-TTTT
*
24405212 TATTAATCTAAT
1 TATTAATTTAAT
24405224 TGATGTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 4 0.17
17 12 0.50
18 8 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTAATTTAATAATTTT
Found at i:24409665 original size:16 final size:16
Alignment explanation
Indices: 24409644--24409677 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24409634 TACACAAACA
24409644 CAGTTTACCTATTCGC
1 CAGTTTACCTATTCGC
24409660 CAGTTTACCTATTCGC
1 CAGTTTACCTATTCGC
24409676 CA
1 CA
24409678 ATACAATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (16 bp):
CAGTTTACCTATTCGC
Found at i:24421826 original size:17 final size:17
Alignment explanation
Indices: 24421806--24421838 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24421796 GTTTATGAAA
*
24421806 AAATAAAATACGAAAAG
1 AAATAAAAAACGAAAAG
24421823 AAATAAAAAACGAAAA
1 AAATAAAAAACGAAAA
24421839 TAGTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (17 bp):
AAATAAAAAACGAAAAG
Found at i:24422184 original size:155 final size:156
Alignment explanation
Indices: 24421824--24422186 Score: 538
Period size: 155 Copynumber: 2.3 Consensus size: 156
24421814 TACGAAAAGA
* ** * *
24421824 AATAAAAAACGAAAATAGTATATTTACTGAAATTAATAAAATCCAAAAA-AAAAGAAAAATAACA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAATAATAAAATCCAAAAATAAAAGAAAAAGAACA
*
24421888 AATGGCTAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACACTAAAATAATACATTTCA
66 AATGGCCAAAATAAGGGTTTTTCACTAAATTTATAT-AAAAAACACACTAAAATAATACATTTCA
*
24421953 AACATTATGTACTAAATAATATAAAAT
130 AACATTATGTAATAAATAATATAAAAT
*
24421980 AATAAAATACGAAAATAGTATAATTTTTT-AAAATAATAAAATCCGAAAATAAAA-AAATAAGAA
1 AATAAAATACGAAAATAGTAT-ATTTTTTGAAAATAATAAAATCCAAAAATAAAAGAAA-AAGAA
* *
24422043 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAA-ACACTAAATTAATACATTTC
64 CAAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATTTC
*
24422106 AAACTTTATGTAATAAAATAATATAAAAT
129 AAACATTATGTAAT-AAATAATATAAAAT
* *
24422135 AATAAAATACGAAAATAGCATATTTTTTGAAAGTAATAAAATCCAAAAATAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAATAATAAAATCCAAAAATAA
24422187 GAAATGTATT
Statistics
Matches: 188, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
154 38 0.20
155 60 0.32
156 41 0.22
157 49 0.26
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (156 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAATAATAAAATCCAAAAATAAAAGAAAAAGAACA
AATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAA
ACATTATGTAATAAATAATATAAAAT
Found at i:24422570 original size:16 final size:16
Alignment explanation
Indices: 24422515--24422573 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
24422505 TTTTTGTTTT
24422515 TTTTATTTCGTTTC-GTA
1 TTTTATTT--TTTCAGTA
24422532 TTTTATTTTTTCA-TAA
1 TTTTATTTTTTCAGT-A
***
24422548 ACATATTTTTTCAGTA
1 TTTTATTTTTTCAGTA
24422564 TTTTATTTTT
1 TTTTATTTTT
24422574 AATACTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 5 0.15
16 19 0.58
17 9 0.27
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTTATTTTTTCAGTA
Found at i:24424309 original size:11 final size:11
Alignment explanation
Indices: 24424293--24424317 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24424283 ATTTTTTAAC
24424293 TTTAAAATACT
1 TTTAAAATACT
24424304 TTTAAAATACT
1 TTTAAAATACT
24424315 TTT
1 TTT
24424318 TTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATACT
Found at i:24424330 original size:41 final size:40
Alignment explanation
Indices: 24424277--24424427 Score: 185
Period size: 42 Copynumber: 3.9 Consensus size: 40
24424267 TTTTTTTTTA
* *
24424277 TTTTTT-ATTTTTTAACTTTAAAATACTTTTAAAATACTTT
1 TTTTTTAATTTTTTAATTTTAAAAT-TTTTTAAAATACTTT
24424317 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATA-TTT
1 TTTTTTAA-TTTTTTAATTTTAAAA-TTTTTTAAAATACTTT
24424358 TTTTTTAATTTTTTAAATTTTAAAATTTTTTAAAATAC--T
1 TTTTTTAATTTTTT-AATTTTAAAATTTTTTAAAATACTTT
24424397 TTTTTTAA-TTTTT-ATTTT--AA-TTTTTAAAATA
1 TTTTTTAATTTTTTAATTTTAAAATTTTTTAAAATA
24424428 AATTTTTGGT
Statistics
Matches: 104, Mismatches: 2, Indels: 17
0.85 0.02 0.14
Matches are distributed among these distances:
33 11 0.11
34 2 0.02
36 5 0.05
38 5 0.05
39 9 0.09
40 24 0.23
41 22 0.21
42 25 0.24
43 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTAATTTTTTAATTTTAAAATTTTTTAAAATACTTT
Found at i:24424339 original size:42 final size:42
Alignment explanation
Indices: 24424277--24424427 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 42
24424267 TTTTTTTTTA
* *
24424277 TTTTTT-A-TTTTTTAACTTTAAAATACTTTTAAAATACTTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTT
*
24424317 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATA-TTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTT
*
24424358 TTTTTTAATTTTTTAAATTTTAAAAT-TTTTTAAAATAC--T
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTT
24424397 TTTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTTTAA--TTT-TTTTAA-TTTTAAAATA
24424428 AATTTTTGGT
Statistics
Matches: 98, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
39 9 0.09
40 17 0.17
41 32 0.33
42 31 0.32
43 9 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (42 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTT
Found at i:24426395 original size:158 final size:158
Alignment explanation
Indices: 24426107--24426425 Score: 485
Period size: 158 Copynumber: 2.0 Consensus size: 158
24426097 TAATTACTTT
* * ** *
24426107 TTTATTAAGTAAAGCTAAAAATCAGTATAAGATAATTTTAATGTAATTCCATAAGAGCCTCGATA
1 TTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTAATGTAATTCCATAAGAGCCTCAATA
* * * * *
24426172 TAACCCAATGCCTTTAAATATGGAGAGTGATTCTACTTGATCCTCAAGTAACCATTTTTCAAGTT
66 TAACCCAATGCCTTTAAACATGGAAAATGACTCTACTTGATCATCAAGTAACCATTTTTCAAGTT
*
24426237 TTCAACCTTAACTCAACTGGTATTCATG
131 TTCAACCTTAACTCAACTGATATTCATG
* *
24426265 TTTATAAAGTAAAACTAAAAATCAACATAGGATAATTTTGATGTAATTCCATAAGAGCCTCAATA
1 TTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTAATGTAATTCCATAAGAGCCTCAATA
* *
24426330 TAATCCAATGCCTTTAAACATGGAAAATGACTCTACTTGATTATCAAGTAACCATTTTTCAAGTT
66 TAACCCAATGCCTTTAAACATGGAAAATGACTCTACTTGATCATCAAGTAACCATTTTTCAAGTT
* *
24426395 TTCAACCTTAACTCAATTGATCTTCATG
131 TTCAACCTTAACTCAACTGATATTCATG
24426423 TTT
1 TTT
24426426 TGCGTTCTAA
Statistics
Matches: 144, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
158 144 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (158 bp):
TTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTAATGTAATTCCATAAGAGCCTCAATA
TAACCCAATGCCTTTAAACATGGAAAATGACTCTACTTGATCATCAAGTAACCATTTTTCAAGTT
TTCAACCTTAACTCAACTGATATTCATG
Found at i:24429509 original size:58 final size:58
Alignment explanation
Indices: 24429436--24429554 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
24429426 CTTTCTTTTT
* *
24429436 AGTCGAAAGAGAGAAAGATTCGTCTTTACATAGTGACTAGTCATCTTGTTCCTAAGCC
1 AGTCGAAAGAAAGAAAGATTCGTCTTTACATAGTGACTAGCCATCTTGTTCCTAAGCC
*
24429494 AGTCGAAAGAAAGAAAGATTCGTCTTTACATAGTGGCTAGCCATCTTGTTCCTAAGCC
1 AGTCGAAAGAAAGAAAGATTCGTCTTTACATAGTGACTAGCCATCTTGTTCCTAAGCC
24429552 AGT
1 AGT
24429555 AGCATATTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (58 bp):
AGTCGAAAGAAAGAAAGATTCGTCTTTACATAGTGACTAGCCATCTTGTTCCTAAGCC
Found at i:24429702 original size:13 final size:13
Alignment explanation
Indices: 24429686--24429710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24429676 TTTATTAATA
24429686 TTATTTTGTGTGT
1 TTATTTTGTGTGT
24429699 TTATTTTGTGTG
1 TTATTTTGTGTG
24429711 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:24431413 original size:41 final size:41
Alignment explanation
Indices: 24431368--24431529 Score: 200
Period size: 41 Copynumber: 4.0 Consensus size: 41
24431358 AAATTATTCA
* * *
24431368 GACTATACGTCAAGGAGGCTAAGTGCCGGTGAATTAAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
* * *
24431409 GACTATACGTCTAGCAGGATAAATACCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
*
24431450 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATC-G
* * * * *
24431492 G-CTATAAGCCTAGGAGGCTAAGTGCCAGTGAACTGAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAAT
24431530 TAAACTATAA
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 104 0.98
42 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
Found at i:24431523 original size:82 final size:82
Alignment explanation
Indices: 24431350--24431538 Score: 202
Period size: 82 Copynumber: 2.3 Consensus size: 82
24431340 TCGGATTTAT
* * *
24431350 TGCCAGTGAAATT-ATTCAGACTATACGTCAAGGAGGCTAAGTGCCGGTGAATTAAATCGGACTA
1 TGCCAGTG-AATTGAATCAGACTATACGTCAAGCAGGCTAAGTGCCGGTGAACTAAATCGGACTA
* *
24431414 TACGTCTAGCAGGATAAA
65 TAAGCCTAGCAGGATAAA
* * * * *
24431432 TACCGGTGAATTGAATCGGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGG-CTA
1 TGCCAGTGAATTGAATCAGACTATACGTCAAGCAGGCTAAGTGCCGGTGAACTAAATC-GGACTA
* * *
24431496 TAAGCCTAGGAGGCTAAG
65 TAAGCCTAGCAGGATAAA
* * *
24431514 TGCCAGTGAACTGAATTAAACTATA
1 TGCCAGTGAATTGAATCAGACTATA
24431539 AGCCTATCAA
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
81 4 0.05
82 80 0.93
83 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (82 bp):
TGCCAGTGAATTGAATCAGACTATACGTCAAGCAGGCTAAGTGCCGGTGAACTAAATCGGACTAT
AAGCCTAGCAGGATAAA
Found at i:24431538 original size:41 final size:41
Alignment explanation
Indices: 24431383--24431564 Score: 141
Period size: 41 Copynumber: 4.4 Consensus size: 41
24431373 TACGTCAAGG
* * * ** * *
24431383 AGGCTAAGTGCCGGTGAATTAAATCGGACTATACGTCTAGC
1 AGGCTAAGTGCCAGTGAACTGAATCAAACTATAAGCCTAGC
* * * * * ** * *
24431424 AGGATAAATACCGGTGAATTGAATCGGACTATACGTCTAGC
1 AGGCTAAGTGCCAGTGAACTGAATCAAACTATAAGCCTAGC
* ** *
24431465 AGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGCCTAGG
1 AGGCTAAGTGCCAGTGAACTGAATCAAACTATAAGCCTAGC
* *
24431506 AGGCTAAGTGCCAGTGAACTGAATTAAACTATAAGCCTATC
1 AGGCTAAGTGCCAGTGAACTGAATCAAACTATAAGCCTAGC
*
24431547 AAG-TGAAGTGCCAGTGAA
1 AGGCT-AAGTGCCAGTGAA
24431565 TCTGTTTAAA
Statistics
Matches: 120, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 1 0.01
41 119 0.99
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (41 bp):
AGGCTAAGTGCCAGTGAACTGAATCAAACTATAAGCCTAGC
Found at i:24435530 original size:20 final size:19
Alignment explanation
Indices: 24435491--24435530 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
24435481 AAATAGTGAG
* *
24435491 AATTTATTTTCTAAGTATA
1 AATTTATTTTCCAAGAATA
24435510 AATTCTATTTTCCAAGAATA
1 AATT-TATTTTCCAAGAATA
24435530 A
1 A
24435531 CGATTCTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (19 bp):
AATTTATTTTCCAAGAATA
Found at i:24447218 original size:22 final size:24
Alignment explanation
Indices: 24447177--24447238 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 24
24447167 TATTTATTCT
*
24447177 TTAGAATTTTT-TTAA-A-AATTA
1 TTAGAATTTTTATAAATATAATTA
* *
24447198 TTA-TATTTTT-TAAATATAATTT
1 TTAGAATTTTTATAAATATAATTA
24447220 TTAGAATTTTTATAAATAT
1 TTAGAATTTTTATAAATAT
24447239 TTTGCATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 9 0.27
21 4 0.12
22 7 0.21
23 6 0.18
24 7 0.21
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (24 bp):
TTAGAATTTTTATAAATATAATTA
Found at i:24449638 original size:4 final size:4
Alignment explanation
Indices: 24449568--24449620 Score: 54
Period size: 4 Copynumber: 12.8 Consensus size: 4
24449558 TAAGTAATAA
* *
24449568 AAAG AAAT AAAG AAAG AAAG ATAG AAATG AAACAG AAAG -AAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG
24449618 AAA
1 AAA
24449621 AAGAAAAAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
3 3 0.07
4 31 0.76
5 3 0.07
6 3 0.07
7 1 0.02
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.06
Consensus pattern (4 bp):
AAAG
Found at i:24450952 original size:34 final size:31
Alignment explanation
Indices: 24450921--24450989 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 31
24450911 GTGATGAGAA
* *
24450921 TTGAGTATGGTATGAAATGATGTATTTATGAG
1 TTGAGTAT-ATATGAAATGATGTATTCATGAG
24450953 TTGA--ATATATGAAATGATGTATTCATGAG
1 TTGAGTATATATGAAATGATGTATTCATGAG
24450982 TTGAGTAT
1 TTGAGTAT
24450990 TGAATGGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 25 0.76
30 2 0.06
31 2 0.06
32 4 0.12
ACGTcount: A:0.33, C:0.01, G:0.25, T:0.41
Consensus pattern (31 bp):
TTGAGTATATATGAAATGATGTATTCATGAG
Found at i:24450964 original size:29 final size:29
Alignment explanation
Indices: 24450931--24450993 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
24450921 TTGAGTATGG
*
24450931 TATGAAATGATGTATTTATGAGTTGAATA
1 TATGAAATGATGTATTCATGAGTTGAATA
*
24450960 TATGAAATGATGTATTCATGAGTTGAGTA
1 TATGAAATGATGTATTCATGAGTTGAATA
24450989 T-TGAA
1 TATGAA
24450994 TGGTTAATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.40
Consensus pattern (29 bp):
TATGAAATGATGTATTCATGAGTTGAATA
Found at i:24458343 original size:18 final size:18
Alignment explanation
Indices: 24458320--24458356 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24458310 AATCTTTCTT
24458320 TCTTTCTTCC-TCTGTTTC
1 TCTTTC-TCCTTCTGTTTC
24458338 TCTTTCTCCTTCTGTTTC
1 TCTTTCTCCTTCTGTTTC
24458356 T
1 T
24458357 GTTACTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.00, C:0.32, G:0.05, T:0.62
Consensus pattern (18 bp):
TCTTTCTCCTTCTGTTTC
Found at i:24466360 original size:25 final size:25
Alignment explanation
Indices: 24466331--24466471 Score: 99
Period size: 25 Copynumber: 5.7 Consensus size: 25
24466321 GAAACTCTTT
24466331 CGAGCCATGA-AACGGGAAGCTTATG
1 CGAGCCAT-ATAACGGGAAGCTTATG
* *
24466356 TGAGCCATATAACGGGAAGCTTTTG
1 CGAGCCATATAACGGGAAGCTTATG
** * *
24466381 CGAGCCA-ATTATTGGGAAGCTCATA
1 CGAGCCATA-TAACGGGAAGCTTATG
* *
24466406 CGAGCCATA-AACGGGAAGCTCAAG
1 CGAGCCATATAACGGGAAGCTTATG
* * * * *
24466430 AGAGCCAAATATCAGGAAGCTCATG
1 CGAGCCATATAACGGGAAGCTTATG
* * *
24466455 AGAGCCATGTAATGGGA
1 CGAGCCATATAACGGGA
24466472 TGCTCATAAG
Statistics
Matches: 90, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
24 20 0.22
25 69 0.77
26 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.18
Consensus pattern (25 bp):
CGAGCCATATAACGGGAAGCTTATG
Found at i:24466437 original size:49 final size:50
Alignment explanation
Indices: 24466345--24466477 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 50
24466335 CCATGAAACG
* * *** * * **
24466345 GGAAGCTTATGTGAGCCATATAACGGGAAGCTTTTGCGAGCCAATTATTG
1 GGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAGAGCCAAATATCA
24466395 GGAAGCTCAT-ACGAGCCATA-AACGGGAAGCTCAAGAGAGCCAAATATCA
1 GGAAGCTCATGA-GAGCCATATAACGGGAAGCTCAAGAGAGCCAAATATCA
* * *
24466444 GGAAGCTCATGAGAGCCATGTAATGGGATGCTCA
1 GGAAGCTCATGAGAGCCATATAACGGGAAGCTCA
24466478 TAAGAGTTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
49 39 0.57
50 29 0.43
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (50 bp):
GGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAGAGCCAAATATCA
Found at i:24466460 original size:74 final size:75
Alignment explanation
Indices: 24466331--24466479 Score: 176
Period size: 74 Copynumber: 2.0 Consensus size: 75
24466321 GAAACTCTTT
* * * * * ** * *
24466331 CGAGCCATGAAACGGGAAGCTTATGTGAGCCATATAACGGGAAGCTTTTGCGAGCCAAT-TATTG
1 CGAGCCATGAAACGGGAAGCTCAAGAGAGCCAAATAACAGGAAGCTCATGAGAGCC-ATGTAATG
24466395 GGAAGCTCATA
65 GGAAGCTCATA
*
24466406 CGAGCCAT-AAACGGGAAGCTCAAGAGAGCCAAATATCAGGAAGCTCATGAGAGCCATGTAATGG
1 CGAGCCATGAAACGGGAAGCTCAAGAGAGCCAAATAACAGGAAGCTCATGAGAGCCATGTAATGG
*
24466470 GATGCTCATA
66 GAAGCTCATA
24466480 AGAGTTAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
73 2 0.03
74 52 0.84
75 8 0.13
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (75 bp):
CGAGCCATGAAACGGGAAGCTCAAGAGAGCCAAATAACAGGAAGCTCATGAGAGCCATGTAATGG
GAAGCTCATA
Found at i:24476121 original size:14 final size:15
Alignment explanation
Indices: 24476104--24476132 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24476094 ATAATTTATT
24476104 AATTTA-TTTTAATA
1 AATTTATTTTTAATA
24476118 AATTTATTTTTAATA
1 AATTTATTTTTAATA
24476133 TAAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTATTTTTAATA
Found at i:24477602 original size:22 final size:22
Alignment explanation
Indices: 24477577--24477658 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 22
24477567 AGAAACCAAA
*
24477577 ATATTATCTCCTAAACTTTAGC
1 ATATAATCTCCTAAACTTTAGC
* *
24477599 ATATAATCTCCT-AA-TTAAACC
1 ATATAATCTCCTAAACTT-TAGC
*
24477620 AAAATATTATCTCCTAAACTTTAGC
1 ---ATATAATCTCCTAAACTTTAGC
*
24477645 ATCTAATCTCCTAA
1 ATATAATCTCCTAA
24477659 TTAAAAGAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
20 2 0.04
21 4 0.09
22 23 0.50
24 11 0.24
25 4 0.09
26 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (22 bp):
ATATAATCTCCTAAACTTTAGC
Found at i:24477621 original size:46 final size:46
Alignment explanation
Indices: 24477569--24477663 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
24477559 ACAAAGATAG
24477569 AAACCAAAATATTATCTCCTAAACTTTAGCATATAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATATAATCTCCTAATT
*
24477615 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATATAATCTCCTAATT
24477661 AAA
1 AAA
24477664 AGAAAATAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATATAATCTCCTAATT
Found at i:24487035 original size:24 final size:24
Alignment explanation
Indices: 24486972--24487048 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
24486962 AGTGGGTCTT
*
24486972 TTTTAATTAAATTATAATTTTTATGA
1 TTTTAA-TAAATTATAA-TTTTATTA
* *
24486998 TATTAA-AAAATATAATTTTATTA
1 TTTTAATAAATTATAATTTTATTA
*
24487021 TTTTAATAGATTAT-ATCTTTATTA
1 TTTTAATAAATTATAAT-TTTATTA
24487045 TTTT
1 TTTT
24487049 TAAAAAATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
23 14 0.33
24 24 0.56
26 5 0.12
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (24 bp):
TTTTAATAAATTATAATTTTATTA
Found at i:24494643 original size:28 final size:29
Alignment explanation
Indices: 24494586--24494656 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
24494576 TGCTATAAGT
24494586 TTTTATACTCTTTATTTATCTGAATTTTAG
1 TTTTATACT-TTTATTTATCTGAATTTTAG
*
24494616 TTTTATACTTTTATTT-TTTAGAA-TTTAG
1 TTTTATACTTTTATTTATCT-GAATTTTAG
*
24494644 TTTCTCTACTTTT
1 TTT-TATACTTTT
24494657 TGAATTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 10 0.27
29 18 0.49
30 9 0.24
ACGTcount: A:0.21, C:0.10, G:0.06, T:0.63
Consensus pattern (29 bp):
TTTTATACTTTTATTTATCTGAATTTTAG
Found at i:24496275 original size:3 final size:3
Alignment explanation
Indices: 24496267--24496305 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
24496257 ATAGGCGTAT
24496267 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24496306 TCAATAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24498160 original size:13 final size:14
Alignment explanation
Indices: 24498142--24498171 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24498132 AGATCGTCTG
24498142 TATTATT-TTTTTA
1 TATTATTATTTTTA
24498155 TATTATTATTTTTA
1 TATTATTATTTTTA
24498169 TAT
1 TAT
24498172 AAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:24498163 original size:16 final size:16
Alignment explanation
Indices: 24498142--24498172 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24498132 AGATCGTCTG
*
24498142 TATTATTTTTTTATAT
1 TATTATTTTTATATAT
24498158 TATTATTTTTATATA
1 TATTATTTTTATATA
24498173 AAAATAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATTTTTATATAT
Found at i:24499028 original size:22 final size:23
Alignment explanation
Indices: 24498998--24499041 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
24498988 ATATTAAATA
*
24498998 ATAATTAAACTTATATATTTATG
1 ATAATTAAACTTATAAATTTATG
*
24499021 ATAA-TAAATTTATAAATTTAT
1 ATAATTAAACTTATAAATTTAT
24499042 TAGATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATAATTAAACTTATAAATTTATG
Found at i:24501019 original size:2 final size:2
Alignment explanation
Indices: 24501012--24501036 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24501002 AGAAAGGAAA
24501012 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
24501037 TAGACCTCAT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24505458 original size:23 final size:23
Alignment explanation
Indices: 24505410--24505458 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
24505400 AATATAATTA
*
24505410 TAATATCCCGAAAATTACTACTG
1 TAATATCCCGAAAATTACTACAG
24505433 TAATATCCCGAAAATTACTACAG
1 TAATATCCCGAAAATTACTACAG
24505456 TAA
1 TAA
24505459 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (23 bp):
TAATATCCCGAAAATTACTACAG
Found at i:24511078 original size:25 final size:25
Alignment explanation
Indices: 24511044--24511155 Score: 111
Period size: 25 Copynumber: 4.4 Consensus size: 25
24511034 ATTCATATTT
*
24511044 GGGAATGCTCATATGAGCACAT-AAAC
1 GGGAA-GCTCATGTGAGC-CATGAAAC
* * *
24511070 GAGAAGCTCTCTCTCGAGCCAT-ATAAC
1 GGGAAGCTC-ATGT-GAGCCATGA-AAC
*
24511097 GGGAAGCTCATGTGAGCCATGTAAC
1 GGGAAGCTCATGTGAGCCATGAAAC
*
24511122 GGGAAGCTCATGTGAGCCATGTAAC
1 GGGAAGCTCATGTGAGCCATGAAAC
24511147 GGGAAGCTC
1 GGGAAGCTC
24511156 TAGAGAACTA
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
25 48 0.64
26 12 0.16
27 15 0.20
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (25 bp):
GGGAAGCTCATGTGAGCCATGAAAC
Found at i:24514785 original size:3 final size:3
Alignment explanation
Indices: 24514777--24514805 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24514767 AGCCAACTAG
24514777 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
24514806 GATTCTCAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:24517348 original size:15 final size:15
Alignment explanation
Indices: 24517328--24517365 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
24517318 CTAGCAGTGC
24517328 TCTGTCCCATGCCAT
1 TCTGTCCCATGCCAT
24517343 TCTGTCCCATGCCAT
1 TCTGTCCCATGCCAT
*
24517358 TCTTTCCC
1 TCTGTCCC
24517366 TTATATCGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.11, C:0.42, G:0.11, T:0.37
Consensus pattern (15 bp):
TCTGTCCCATGCCAT
Found at i:24540516 original size:18 final size:18
Alignment explanation
Indices: 24540448--24540521 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 18
24540438 TATTTTTTAA
*
24540448 TTATAACATATATTTAATT
1 TTATAATATATATTT-ATT
* *
24540467 TTAT-ATATATCTTTGTT
1 TTATAATATATATTTATT
* *
24540484 TTA-AATTTTTATTTATT
1 TTATAATATATATTTATT
*
24540501 TTATAATATATATTTAGT
1 TTATAATATATATTTATT
24540519 TTA
1 TTA
24540522 ATTTTGCCAA
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 17 0.40
18 22 0.51
19 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TTATAATATATATTTATT
Found at i:24540522 original size:35 final size:34
Alignment explanation
Indices: 24540458--24540526 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 34
24540448 TTATAACATA
*
24540458 TATTTAATTTTATATATATCTTTGTTTTAAATTTT
1 TATTTAATTTTATATATATATTTGTTTT-AATTTT
24540493 TATTT-ATTTTATAATATATATTTAG-TTTAATTTT
1 TATTTAATTTTAT-ATATATATTT-GTTTTAATTTT
24540527 GCCAAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
34 13 0.42
35 17 0.55
36 1 0.03
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (34 bp):
TATTTAATTTTATATATATATTTGTTTTAATTTT
Found at i:24543145 original size:25 final size:25
Alignment explanation
Indices: 24543077--24543130 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
24543067 TCCATAACCA
*
24543077 ATTTTAAATAATATATCAAACACTT
1 ATTTTAAATAATATATCAAACACTC
24543102 ATTTTAAATAATATATCAAACACTC
1 ATTTTAAATAATATATCAAACACTC
24543127 ATTT
1 ATTT
24543131 ATAATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTTTAAATAATATATCAAACACTC
Found at i:24543641 original size:23 final size:21
Alignment explanation
Indices: 24543603--24543675 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
24543593 CACATTAAGA
*
24543603 ATATAAAAAATGGAAATAA-AT
1 ATATAAAAAATAGAAA-AATAT
24543624 ATATAAAAAATTCAGAAAAATAT
1 ATATAAAAAA-T-AGAAAAATAT
* ** *
24543647 ATATATAATCTAGAAAAAAAT
1 ATATAAAAAATAGAAAAATAT
24543668 CATATAAA
1 -ATATAAA
24543676 TTATAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
21 19 0.45
22 10 0.24
23 13 0.31
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.26
Consensus pattern (21 bp):
ATATAAAAAATAGAAAAATAT
Found at i:24543644 original size:21 final size:21
Alignment explanation
Indices: 24543603--24543649 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24543593 CACATTAAGA
*
24543603 ATATAAAAAATGGAAATAAAT
1 ATATAAAAAATGCAAATAAAT
*
24543624 ATATAAAAAATTCAGAA-AAAT
1 ATATAAAAAATGCA-AATAAAT
24543645 ATATA
1 ATATA
24543650 TATAATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (21 bp):
ATATAAAAAATGCAAATAAAT
Found at i:24543661 original size:21 final size:21
Alignment explanation
Indices: 24543620--24543675 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
24543610 AAATGGAAAT
*
24543620 AAATATATAAAAAATTCAGAA
1 AAATATATATAAAATTCAGAA
*
24543641 AAATATATATATAA-TCTAGAA
1 AAATATATATAAAATTC-AGAA
*
24543662 AAAAATCATATAAA
1 AAATAT-ATATAAA
24543676 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 21 0.72
22 6 0.21
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (21 bp):
AAATATATATAAAATTCAGAA
Found at i:24543826 original size:14 final size:15
Alignment explanation
Indices: 24543796--24543826 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24543786 TTTTGTATAA
24543796 AATTCTAAAATTTAT
1 AATTCTAAAATTTAT
24543811 AATTCTAAAA-TTAT
1 AATTCTAAAATTTAT
24543825 AA
1 AA
24543827 AAAGGTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTCTAAAATTTAT
Found at i:24545688 original size:28 final size:28
Alignment explanation
Indices: 24545648--24545703 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24545638 GAAAAAAAGA
24545648 AAGAACTTTTTTTTGGGTTTTGTGAACT
1 AAGAACTTTTTTTTGGGTTTTGTGAACT
24545676 AAGAACTTTTTTTTGGGTTTTGTGAACT
1 AAGAACTTTTTTTTGGGTTTTGTGAACT
24545704 GAATGATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (28 bp):
AAGAACTTTTTTTTGGGTTTTGTGAACT
Found at i:24546149 original size:22 final size:22
Alignment explanation
Indices: 24546123--24546166 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24546113 TATTTTCTTT
24546123 TATTTTAT-TATTTTAAAAATAA
1 TATTTTATGT-TTTTAAAAATAA
*
24546145 TATTTTATGTTTTTAGAAATAA
1 TATTTTATGTTTTTAAAAATAA
24546167 CTTTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TATTTTATGTTTTTAAAAATAA
Done.