Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 76 of 91
Found at i:12632012 original size:3 final size:3
Alignment explanation
Indices: 12632004--12632029 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12631994 AGTTATATAT
12632004 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
12632030 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12632624 original size:20 final size:20
Alignment explanation
Indices: 12632601--12632644 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
12632591 TGCCCAGTTT
*
12632601 CCGGCGAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
12632621 CCGGCAAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
12632641 CCGG
1 CCGG
12632645 TGAATTTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.32, G:0.25, T:0.05
Consensus pattern (20 bp):
CCGGCAAAGAATCCCAGAAA
Found at i:12632678 original size:61 final size:62
Alignment explanation
Indices: 12632599--12632715 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 62
12632589 ACTGCCCAGT
* *
12632599 TTCCGGCGAAGAATCCCAGAAACCGGC-AAAGAATCCCAGAAACCGGTGAAT-TTCCGGCCAA
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAA-AATCCCAGAAACCGGTGAATCTTCCGGCCAA
** * * *
12632660 TTCCGGCGAAAAAACCCAGATTCCGGCGAAAATTTCCAGAATCCGGTGAATCTTCC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCC
12632716 ACCGGAGTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
61 40 0.85
62 7 0.15
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.17
Consensus pattern (62 bp):
TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCCGGCCAA
Found at i:12632704 original size:20 final size:20
Alignment explanation
Indices: 12632661--12632705 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12632651 TCCGGCCAAT
*
12632661 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
12632681 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
12632701 TCCGG
1 TCCGG
12632706 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:12632960 original size:14 final size:15
Alignment explanation
Indices: 12632941--12632982 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
12632931 CCGAGCCGAG
12632941 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
12632955 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
12632968 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
12632982 C
1 C
12632983 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:12632973 original size:13 final size:14
Alignment explanation
Indices: 12632941--12632977 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
12632931 CCGAGCCGAG
12632941 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
12632955 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
12632967 TCCGAGCCGTT
1 -CCGAGCCGTT
12632978 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:12633055 original size:11 final size:11
Alignment explanation
Indices: 12633041--12633070 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
12633031 TTTTTTTTTT
12633041 TTTTTTTTGAA
1 TTTTTTTTGAA
12633052 TTTTTTTTGAA
1 TTTTTTTTGAA
12633063 TTTTTTTT
1 TTTTTTTT
12633071 ATTTGACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:12633275 original size:152 final size:151
Alignment explanation
Indices: 12633101--12633549 Score: 799
Period size: 152 Copynumber: 3.0 Consensus size: 151
12633091 TTGATTTTTT
* * * *
12633101 TTTTCTTTTTTTTTAATTAATCCGACGACAGAGCCTCTACAAGTGAAACAGTAGTTTTTCTTGCA
1 TTTTGTTTTTTTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCA
12633166 TACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAAT
66 TACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAAT
12633231 TTCCAATAATTAATTGGATGA
131 TTCCAATAATTAATTGGATGA
12633252 TTTTGTATTTTTTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGT-TTTTTTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
12633317 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA
65 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
12633382 TTTCCAATAATTAATTGGATGA
130 TTTCCAATAATTAATTGGATGA
*
12633404 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
12633469 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
65 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* *
12633534 TTTCCAACAACTAATT
130 TTTCCAATAATTAATT
12633550 ACTTGGTAAA
Statistics
Matches: 286, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
151 10 0.03
152 276 0.97
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (151 bp):
TTTTGTTTTTTTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCA
TACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAAT
TTCCAATAATTAATTGGATGA
Found at i:12634194 original size:22 final size:22
Alignment explanation
Indices: 12634169--12634248 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
12634159 GGTAACCAAG
*
12634169 TTATCACTGATTTATTACTATA
1 TTATCAGTGATTTATTACTATA
* * *
12634191 TTATCGGTGTTTTATTACTATG
1 TTATCAGTGATTTATTACTATA
* * *
12634213 TTATTAGTGATTTATTATTAAA
1 TTATCAGTGATTTATTACTATA
* *
12634235 TAATCAATGATTTA
1 TTATCAGTGATTTA
12634249 CTAGTAAGTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.51
Consensus pattern (22 bp):
TTATCAGTGATTTATTACTATA
Found at i:12634265 original size:22 final size:22
Alignment explanation
Indices: 12634220--12634290 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
12634210 ATGTTATTAG
* * *
12634220 TGATTTATTATTAAATAATCAA
1 TGATTTACTATAAAATTATCAA
* *
12634242 TGATTTACTAGT-AAGTTATGAA
1 TGATTTACTA-TAAAATTATCAA
12634264 TGATTTACTATAAAATTATCAA
1 TGATTTACTATAAAATTATCAA
12634286 TGATT
1 TGATT
12634291 AATTAATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.02
22 39 0.95
23 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.44
Consensus pattern (22 bp):
TGATTTACTATAAAATTATCAA
Found at i:12634477 original size:22 final size:22
Alignment explanation
Indices: 12634449--12634531 Score: 94
Period size: 22 Copynumber: 3.7 Consensus size: 22
12634439 TAATAATTAG
12634449 TTATTAAGTTATCAATTATTTA
1 TTATTAAGTTATCAATTATTTA
*
12634471 TTATTAAGTTATCAATTGAATTA
1 TTATTAAGTTATCAATT-ATTTA
* ** *
12634494 CTATTAAGTTATTTATGATTTA
1 TTATTAAGTTATCAATTATTTA
**
12634516 TTATTACTTTATCAAT
1 TTATTAAGTTATCAAT
12634532 AAATTACAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
22 32 0.65
23 17 0.35
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (22 bp):
TTATTAAGTTATCAATTATTTA
Found at i:12634797 original size:22 final size:22
Alignment explanation
Indices: 12634772--12634964 Score: 133
Period size: 22 Copynumber: 8.8 Consensus size: 22
12634762 TATTACTATC
* * *
12634772 TTATCAATAATTTACAACTAAA
1 TTATAAATAATTTACTACTAAG
* * *
12634794 TTATCATTATTTTA-TCACTAAG
1 TTATAAATAATTTACT-ACTAAG
* * *
12634816 TTATAGATGATTTACTATTAAG
1 TTATAAATAATTTACTACTAAG
*
12634838 TTATAAATAATTTACTACTAAA
1 TTATAAATAATTTACTACTAAG
** *
12634860 TTATTGATAATTTACTATTAAG
1 TTATAAATAATTTACTACTAAG
*
12634882 TTATAAATAATTTATTA-TAAAG
1 TTATAAATAATTTACTACT-AAG
* * *
12634904 TTATTACTAATTTACT-GTGAAG
1 TTATAAATAATTTACTACT-AAG
**
12634926 TTATTCATAATTTACTA-TAAAG
1 TTATAAATAATTTACTACT-AAG
* *
12634948 TTATTAATAATTAACTA
1 TTATAAATAATTTACTA
12634965 ATTTACAATT
Statistics
Matches: 136, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
21 1 0.01
22 134 0.99
23 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (22 bp):
TTATAAATAATTTACTACTAAG
Found at i:12634873 original size:44 final size:44
Alignment explanation
Indices: 12634813--12634964 Score: 191
Period size: 44 Copynumber: 3.5 Consensus size: 44
12634803 TTTTATCACT
* *
12634813 AAGTTATAGATGATTTACTATTAAGTTATAAATAATTTACTACTA
1 AAGTTATTGATAATTTACTATTAAGTTATAAATAATTTACTA-TA
*
12634858 AA-TTATTGATAATTTACTATTAAGTTATAAATAATTTATTATA
1 AAGTTATTGATAATTTACTATTAAGTTATAAATAATTTACTATA
* * **
12634901 AAGTTATT-ACTAATTTACTGTGAAGTTATTCATAATTTACTATA
1 AAGTTATTGA-TAATTTACTATTAAGTTATAAATAATTTACTATA
* *
12634945 AAGTTATTAATAATTAACTA
1 AAGTTATTGATAATTTACTA
12634965 ATTTACAATT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
43 5 0.05
44 86 0.91
45 3 0.03
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (44 bp):
AAGTTATTGATAATTTACTATTAAGTTATAAATAATTTACTATA
Found at i:12634882 original size:66 final size:66
Alignment explanation
Indices: 12634772--12634964 Score: 194
Period size: 66 Copynumber: 2.9 Consensus size: 66
12634762 TATTACTATC
* * * * * * *
12634772 TTATCAATAATTTACAACTAAATTA-TCATTATTTTA-TCACTAAGTTATAGATGATTTACTATT
1 TTATAAATAATTTACTACTAAATTATTCA-TAATTTACT-ATTAAGTTATAAATAATTTACTATA
12634835 AAG
64 AAG
* *
12634838 TTATAAATAATTTACTACTAAATTATTGATAATTTACTATTAAGTTATAAATAATTTATTATAAA
1 TTATAAATAATTTACTACTAAATTATTCATAATTTACTATTAAGTTATAAATAATTTACTATAAA
12634903 G
66 G
* * * * * * *
12634904 TTATTACTAATTTACT-GTGAAGTTATTCATAATTTACTATAAAGTTATTAATAATTAACTA
1 TTATAAATAATTTACTACT-AAATTATTCATAATTTACTATTAAGTTATAAATAATTTACTA
12634965 ATTTACAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
65 1 0.01
66 102 0.96
67 3 0.03
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (66 bp):
TTATAAATAATTTACTACTAAATTATTCATAATTTACTATTAAGTTATAAATAATTTACTATAAA
G
Found at i:12634975 original size:22 final size:22
Alignment explanation
Indices: 12634950--12635013 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
12634940 CTATAAAGTT
12634950 ATTAATAAT-TAACTAATTTACA
1 ATTAA-AATATAACTAATTTACA
* * *
12634972 ATTAAAATATCATTAATTTATA
1 ATTAAAATATAACTAATTTACA
* *
12634994 ATTAAATTATCACTAATTTA
1 ATTAAAATATAACTAATTTA
12635014 TAGCTAAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 3 0.08
22 33 0.92
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAAAATATAACTAATTTACA
Found at i:12635014 original size:22 final size:22
Alignment explanation
Indices: 12634961--12635015 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
12634951 TTAATAATTA
*
12634961 ACTAATTTACAATTAAAATATC
1 ACTAATTTATAATTAAAATATC
* *
12634983 ATTAATTTATAATTAAATTATC
1 ACTAATTTATAATTAAAATATC
12635005 ACTAATTTATA
1 ACTAATTTATA
12635016 GCTAAGTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (22 bp):
ACTAATTTATAATTAAAATATC
Found at i:12635025 original size:22 final size:22
Alignment explanation
Indices: 12634961--12635027 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
12634951 TTAATAATTA
* * *
12634961 ACTAATTTACAATTAAAATATC
1 ACTAATTTATAACTAAATTATC
* *
12634983 ATTAATTTATAATTAAATTATC
1 ACTAATTTATAACTAAATTATC
* *
12635005 ACTAATTTATAGCTAAGTTATC
1 ACTAATTTATAACTAAATTATC
12635027 A
1 A
12635028 ATGATTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (22 bp):
ACTAATTTATAACTAAATTATC
Found at i:12635069 original size:22 final size:22
Alignment explanation
Indices: 12635044--12635496 Score: 156
Period size: 22 Copynumber: 20.6 Consensus size: 22
12635034 TTTTATGATG
* *
12635044 TTATTAGTGATTTACTACTAAA
1 TTATTATTGATTTACTATTAAA
* * *
12635066 TTATCAATAATTTACTATTAAA
1 TTATTATTGATTTACTATTAAA
**
12635088 TTATTAACGATTTACTA-TATAA
1 TTATTATTGATTTACTATTA-AA
* * * **
12635110 -TGTTA-TGCATTTGCTACTATG
1 TTATTATTG-ATTTACTATTAAA
* * * *
12635131 TTATCATTGATTTACTACTGAG
1 TTATTATTGATTTACTATTAAA
* * *
12635153 TT-TTACTGATTAACTACTAAA
1 TTATTATTGATTTACTATTAAA
* * ** *
12635174 TTATCATTGATTTATTGCTAAG
1 TTATTATTGATTTACTATTAAA
** *
12635196 TTATT-TATGA-TTACTGCTAAGT
1 TTATTAT-TGATTTACTATTAA-A
* * *
12635218 TTATAATTTAATTACTATTAAA
1 TTATTATTGATTTACTATTAAA
** ** *
12635240 TTAAAATAAATTTACTATTAAG
1 TTATTATTGATTTACTATTAAA
* * * * * *
12635262 TTATCAGTAAATTACTACTATA
1 TTATTATTGATTTACTATTAAA
* **
12635284 CTATTA-TGCATTTA-TAATTATG
1 TTATTATTG-ATTTACT-ATTAAA
*
12635306 TTATAATTGATTTACTATTAAA
1 TTATTATTGATTTACTATTAAA
* *
12635328 TTATTA-TGTATTTATTATTATA
1 TTATTATTG-ATTTACTATTAAA
*
12635350 TTATTATTGATTTACTATTAAG
1 TTATTATTGATTTACTATTAAA
*
12635372 TTATCAATT-ATTTACTATTAAA
1 TTAT-TATTGATTTACTATTAAA
* * *
12635394 TTATTATTAATATACTATTAAG
1 TTATTATTGATTTACTATTAAA
* * *
12635416 TTATTACTAATTTACTGTACTAAA
1 TTATTATTGATTTAC--TATTAAA
* * * * *
12635440 TTATCACTAATTAACTATTTAAT
1 TTATTATTGATTTACTA-TTAAA
* * *
12635463 TTATCATTGA-TTGCTATTAAC
1 TTATTATTGATTTACTATTAAA
12635484 TTA-TATTGATTTA
1 TTATTATTGATTTA
12635497 TTTTTCATTT
Statistics
Matches: 324, Mismatches: 85, Indels: 45
0.71 0.19 0.10
Matches are distributed among these distances:
20 6 0.02
21 55 0.17
22 215 0.66
23 30 0.09
24 18 0.06
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
TTATTATTGATTTACTATTAAA
Found at i:12635092 original size:44 final size:43
Alignment explanation
Indices: 12634965--12635104 Score: 102
Period size: 44 Copynumber: 3.2 Consensus size: 43
12634955 TAATTAACTA
* * * * * * *
12634965 ATTTACAATTAAAATATCATTAATTTATAATTAAATTATCACTA
1 ATTTACTACTAAATTATCAATAATTTAT-ATTAAATTATTAATG
* * * * ** *
12635009 ATTTA-TAGCTAAGTTATCAATGATTTTTTATGATGTTATTAGTG
1 ATTTACTA-CTAAATTATCAAT-AATTTATATTAAATTATTAATG
*
12635053 ATTTACTACTAAATTATCAATAATTTACTATTAAATTATTAACG
1 ATTTACTACTAAATTATCAATAATTTA-TATTAAATTATTAATG
12635097 ATTTACTA
1 ATTTACTA
12635105 TATAATGTTA
Statistics
Matches: 71, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 5 0.07
44 59 0.83
45 7 0.10
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (43 bp):
ATTTACTACTAAATTATCAATAATTTATATTAAATTATTAATG
Found at i:12635403 original size:11 final size:11
Alignment explanation
Indices: 12635321--12635421 Score: 55
Period size: 11 Copynumber: 9.2 Consensus size: 11
12635311 ATTGATTTAC
12635321 TATTAAATTAT
1 TATTAAATTAT
*
12635332 TATGT-ATTTAT
1 TAT-TAAATTAT
*
12635343 TATTATATTAT
1 TATTAAATTAT
* * *
12635354 TATTGATTTAC
1 TATTAAATTAT
*
12635365 TATTAAGTTAT
1 TATTAAATTAT
* * *
12635376 CAATT-ATTTAC
1 -TATTAAATTAT
12635387 TATTAAATTAT
1 TATTAAATTAT
*
12635398 TATT-AATATAC
1 TATTAAAT-TAT
*
12635409 TATTAAGTTAT
1 TATTAAATTAT
12635420 TA
1 TA
12635422 CTAATTTACT
Statistics
Matches: 65, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
10 7 0.11
11 52 0.80
12 6 0.09
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (11 bp):
TATTAAATTAT
Found at i:12635413 original size:66 final size:66
Alignment explanation
Indices: 12635249--12635431 Score: 180
Period size: 66 Copynumber: 2.8 Consensus size: 66
12635239 ATTAAAATAA
* * * * * *
12635249 ATTTACTATTAAGTTATCAGTAA-ATTACTACTATACTATTATGCATTTA-TAATTATGTTATAA
1 ATTTACTATTAAATTATTATTAATA-TACTATTATATTATTATG-ATTTACTAATTAAGTTATAA
12635312 TTG
64 TTG
* *
12635315 ATTTACTATTAAATTATTATGT-ATTTATTATTATATTATTATTGATTTACT-ATTAAGTTATCA
1 ATTTACTATTAAATTATTAT-TAATATACTATTATATTATTA-TGATTTACTAATTAAGTTAT-A
12635378 ATT-
63 ATTG
*
12635381 ATTTACTATTAAATTATTATTAATATACTATTA-AGTTATTACTAATTTACT
1 ATTTACTATTAAATTATTATTAATATACTATTATA-TTATTA-TGATTTACT
12635432 GTACTAAATT
Statistics
Matches: 98, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
65 2 0.02
66 88 0.90
67 8 0.08
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (66 bp):
ATTTACTATTAAATTATTATTAATATACTATTATATTATTATGATTTACTAATTAAGTTATAATT
G
Found at i:12635576 original size:22 final size:21
Alignment explanation
Indices: 12635300--12635576 Score: 103
Period size: 22 Copynumber: 12.5 Consensus size: 21
12635290 TGCATTTATA
* *
12635300 ATTATGTTATAATTGATTTACT
1 ATTAAGTTATCATT-ATTTACT
* * *
12635322 ATTAAATTATTATGTATTTATT
1 ATTAAGTTATCAT-TATTTACT
*
12635344 ATTATA-TTATTATTGATTTACT
1 ATTA-AGTTATCATT-ATTTACT
12635366 ATTAAGTTATCAATTATTTACT
1 ATTAAGTTATC-ATTATTTACT
* * *
12635388 ATTAAATTATTATTAATATACT
1 ATTAAGTTATCATT-ATTTACT
* *
12635410 ATTAAGTTATTACTAATTTACTGT
1 ATTAAGTTATCA-TTATTTAC--T
* * * *
12635434 ACTAAATTATCACTAATTAACT
1 ATTAAGTTATCA-TTATTTACT
* *
12635456 ATTTAATTTATCATTGA-TTGCT
1 A-TTAAGTTATCATT-ATTTACT
* *
12635478 ATTAACTTAT-ATTGATTTATT
1 ATTAAGTTATCATT-ATTTACT
* * *
12635499 TTTCA-TTTTCAATTATTAATTACT
1 ATTAAGTTATC-ATTA-T--TTACT
* * *
12635523 ACTAAGTTCTAAATTATTTACT
1 ATTAAGTTAT-CATTATTTACT
* * *
12635545 ACTAAATTATCATTAATTTATT
1 ATTAAGTTATCATT-ATTTACT
12635567 ATTAAGTTAT
1 ATTAAGTTAT
12635577 TTATGATTTA
Statistics
Matches: 196, Mismatches: 39, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
20 8 0.04
21 23 0.12
22 117 0.60
23 16 0.08
24 25 0.13
25 7 0.04
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTAAGTTATCATTATTTACT
Found at i:12635925 original size:22 final size:22
Alignment explanation
Indices: 12635880--12635975 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 22
12635870 TGAATCTTAC
* * *
12635880 TTACTATTAACTTATTATTAAT
1 TTACTACTAAGTTATCATTAAT
* *
12635902 TTATTACTAAGTTATCATTGAT
1 TTACTACTAAGTTATCATTAAT
* *
12635924 TTACTATTAAGTTATAACTTAAT
1 TTACTACTAAGTTATCA-TTAAT
* * *
12635947 TT--TATTAAATTATCCTTAAT
1 TTACTACTAAGTTATCATTAAT
12635967 TTACTACTA
1 TTACTACTA
12635976 TATTTTTATA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 7 0.12
21 10 0.17
22 35 0.60
23 6 0.10
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.51
Consensus pattern (22 bp):
TTACTACTAAGTTATCATTAAT
Found at i:12635954 original size:21 final size:20
Alignment explanation
Indices: 12635928--12635968 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
12635918 ATTGATTTAC
*
12635928 TATTAAGTTATAACTTAATTT
1 TATTAAATTAT-ACTTAATTT
*
12635949 TATTAAATTATCCTTAATTT
1 TATTAAATTATACTTAATTT
12635969 ACTACTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTAAATTATACTTAATTT
Found at i:12636034 original size:22 final size:22
Alignment explanation
Indices: 12636008--12636068 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
12635998 TGTATAAATG
* *
12636008 ATTTACTATTAAATTATT-TGTT
1 ATTTATTATTATATTATTATG-T
12636030 ATTTATTATTATATTATTATGT
1 ATTTATTATTATATTATTATGT
12636052 ATTTATTATTATATTAT
1 ATTTATTATTATATTAT
12636069 CACTGGCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (22 bp):
ATTTATTATTATATTATTATGT
Found at i:12636119 original size:22 final size:22
Alignment explanation
Indices: 12636094--12636156 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
12636084 ATCTTAGCAA
12636094 TTATTTACTATTAAATTATTAT
1 TTATTTACTATTAAATTATTAT
* *
12636116 TTATTTACTATTATATTGTTAT
1 TTATTTACTATTAAATTATTAT
* * *
12636138 TAATTTACTAATAAGTTAT
1 TTATTTACTATTAAATTAT
12636157 CTATAATTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (22 bp):
TTATTTACTATTAAATTATTAT
Found at i:12636163 original size:22 final size:22
Alignment explanation
Indices: 12636138--12636193 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
12636128 ATATTGTTAT
*
12636138 TAATTTACTA-ATAAGTTATCTA
1 TAATTTAATATATAA-TTATCTA
12636160 TAATTTAATATATAATTATC-A
1 TAATTTAATATATAATTATCTA
*
12636181 TTGATTTAATATA
1 -TAATTTAATATA
12636194 AAGTTATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.03
22 25 0.83
23 4 0.13
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (22 bp):
TAATTTAATATATAATTATCTA
Found at i:12637169 original size:2 final size:2
Alignment explanation
Indices: 12637164--12637191 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12637154 TTTGTGTGTG
12637164 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12637192 ATGTTATTTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12638719 original size:23 final size:24
Alignment explanation
Indices: 12638691--12638742 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
12638681 CTCTTTTTTA
12638691 ATAATTTT-T-TGATAATTTAATTT
1 ATAATTTTGTATGA-AATTTAATTT
*
12638714 ATAATTTTGTATGAACTTTAATTT
1 ATAATTTTGTATGAAATTTAATTT
12638738 -TAATT
1 ATAATT
12638743 AATCTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 13 0.50
24 10 0.38
25 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
ATAATTTTGTATGAAATTTAATTT
Found at i:12639429 original size:153 final size:158
Alignment explanation
Indices: 12639190--12639506 Score: 396
Period size: 153 Copynumber: 2.0 Consensus size: 158
12639180 ATTTTTATTT
12639190 GATTTAAATTTAAATAACTAATGAATAAAAAGCTATATATTTAATGACAAATAATCATTATGAAA
1 GATTTAAATTTAAATAACTAATGAATAAAAAGCTATATATTTAATGACAAAT-ATCATTAT---A
* * *
12639255 TAAATAAATAAATAAATAATGCTAAAAATTGAAA-TATAAATTTGTTATTTTTTAAAATTTATAA
62 TAAATAAATAAATAAAAAATGCTAAAAATTGAAAGT-TAAATTTGTTATTTCTTAAAATTCATAA
* *
12639319 GGGTATTTATGTTATTCATTTTTAACACTTTTA
126 AGGTATTTATGTTATTCACTTTTAACACTTTTA
* * *
12639352 GATTTAAATTTAAATAACTAACT-AAT-AAAAGTTATATATTTAATTACAAAT-T-ATT-T-TTA
1 GATTTAAATTTAAATAACTAA-TGAATAAAAAGCTATATATTTAATGACAAATATCATTATATAA
* * * *
12639411 TTAAATTAATAAAAAATGCTAGAAATTTAAAGTTAAATTTGTTATTTCTTAAAATTCATAAAGGT
65 ATAAATAAATAAAAAATGCTAAAAATTGAAAGTTAAATTTGTTATTTCTTAAAATTCATAAAGGT
* * *
12639476 TTTTATGTTGTTCACTTTTAATACTTTTA
130 ATTTATGTTATTCACTTTTAACACTTTTA
12639505 GA
1 GA
12639507 GTTCACACTT
Statistics
Matches: 138, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
153 84 0.61
154 1 0.01
157 1 0.01
158 3 0.02
159 1 0.01
161 23 0.17
162 24 0.17
163 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.43
Consensus pattern (158 bp):
GATTTAAATTTAAATAACTAATGAATAAAAAGCTATATATTTAATGACAAATATCATTATATAAA
TAAATAAATAAAAAATGCTAAAAATTGAAAGTTAAATTTGTTATTTCTTAAAATTCATAAAGGTA
TTTATGTTATTCACTTTTAACACTTTTA
Found at i:12643089 original size:20 final size:20
Alignment explanation
Indices: 12643066--12643175 Score: 54
Period size: 18 Copynumber: 5.3 Consensus size: 20
12643056 TTTGTATTTT
12643066 TTATATTTTATTATTTATTA
1 TTATATTTTATTATTTATTA
12643086 TTATTATATGTATATT-TTTATTTA
1 TTA-TAT-T-T-TATTATTTA-TTA
* *
12643110 TT-TA-TTTATT-TTTTTCTC
1 TTATATTTTATTATTTAT-TA
12643128 TTAGTATTTATATGTATTT-TTA
1 TTA-TATTT-TAT-TATTTATTA
*
12643150 -TATA-GTTATATATTTATTA
1 TTATATTTTAT-TATTTATTA
12643169 TTATATT
1 TTATATT
12643176 ATAATTTATT
Statistics
Matches: 69, Mismatches: 6, Indels: 29
0.66 0.06 0.28
Matches are distributed among these distances:
17 1 0.01
18 18 0.26
19 5 0.07
20 12 0.17
21 7 0.10
22 7 0.10
23 7 0.10
24 12 0.17
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTATATTTTATTATTTATTA
Found at i:12643812 original size:20 final size:20
Alignment explanation
Indices: 12643787--12643828 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
12643777 GACGAACTTT
*
12643787 CGGTGAAATTTTCCAGATTC
1 CGGTGAAATTTTCCAGAATC
*
12643807 CGGTGACATTTTCCAGAATC
1 CGGTGAAATTTTCCAGAATC
12643827 CG
1 CG
12643829 ACGAACATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (20 bp):
CGGTGAAATTTTCCAGAATC
Found at i:12643893 original size:18 final size:18
Alignment explanation
Indices: 12643863--12643906 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
12643853 AGCTTTTAAA
*
12643863 GAGAAGGGAGAGAAAAAGG
1 GAGAAGAGAGAG-AAAAGG
*
12643882 GAAGAAGAGAGAGAGAAGG
1 G-AGAAGAGAGAGAAAAGG
12643901 GAGAAG
1 GAGAAG
12643907 GTTTCTACCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 7 0.32
20 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (18 bp):
GAGAAGAGAGAGAAAAGG
Found at i:12644288 original size:21 final size:22
Alignment explanation
Indices: 12644253--12644293 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
12644243 TTTCTTTTTT
12644253 TTTTATCTTTATTTATTTTCAC
1 TTTTATCTTTATTTATTTTCAC
*
12644275 TTTTAT-TTTGTTTATTTTC
1 TTTTATCTTTATTTATTTTC
12644294 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTATCTTTATTTATTTTCAC
Found at i:12644290 original size:9 final size:9
Alignment explanation
Indices: 12644230--12644297 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
12644220 ATTTATTTAA
*
12644230 TATTTTTTT
1 TATTTTCTT
12644239 TACTTTTCTT
1 TA-TTTTCTT
12644249 T-TTTT-TT
1 TATTTTCTT
*
12644256 TATCTTTATT
1 TAT-TTTCTT
12644266 TATTTTCACTTT
1 TATTTT--C-TT
*
12644278 TATTTTGTT
1 TATTTTCTT
12644287 TATTTTCTT
1 TATTTTCTT
12644296 TA
1 TA
12644298 AATAAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
7 3 0.06
8 5 0.10
9 20 0.42
10 12 0.25
12 8 0.17
ACGTcount: A:0.13, C:0.09, G:0.01, T:0.76
Consensus pattern (9 bp):
TATTTTCTT
Found at i:12648315 original size:12 final size:12
Alignment explanation
Indices: 12648290--12648349 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
12648280 ACAATGGATG
12648290 AAAAATG-A-AA
1 AAAAATGAAGAA
*
12648300 AAAAATGATGAA
1 AAAAATGAAGAA
12648312 AAAAA-GAAAGAA
1 AAAAATG-AAGAA
*
12648324 AGAAA-GAAGAA
1 AAAAATGAAGAA
12648335 AAAAATGAA-AA
1 AAAAATGAAGAA
12648346 AAAA
1 AAAA
12648350 GATTCAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 7 0.17
11 16 0.38
12 19 0.45
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAAATGAAGAA
Found at i:12649688 original size:42 final size:42
Alignment explanation
Indices: 12649613--12649735 Score: 210
Period size: 42 Copynumber: 2.9 Consensus size: 42
12649603 TGATTGTCGG
12649613 GGAGCAATTTACTTTCCCAAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTCCC-AAAGTCGTGGTGCCTCTGTTTAGA
**
12649656 GGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGA
*
12649698 AGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTT
1 GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTT
12649736 ATTTGGCCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 59 0.79
43 16 0.21
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (42 bp):
GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGA
Found at i:12650100 original size:421 final size:421
Alignment explanation
Indices: 12649314--12650619 Score: 2053
Period size: 463 Copynumber: 3.0 Consensus size: 421
12649304 TGAATAGGAA
12649314 TTATTTGGCCAACATTTGCATAGCATGCATTGAAATTCATACGCATTCGCATAGCATACACTACT
1 TTATTTGGCCAACATTTGCATAGCATGCATTGAAATTCATACGCATTCGCATAGCATACACTACT
12649379 TTCAGGAAAGTATAGTGTATAAATTCAAGAAGCAAGGGTGTTCCAACATCCCACATGGAGAAGAC
66 TTCAGGAAAGTATAGTGTATAAATTCAAGAAGCAAGGGTGTTCCAACATCCCACATGGAGAAGAC
12649444 AGATATGAAGATATTTTGCAAAATTGAAAAA-AAAAAGCTTGTCAGGTAAGTTCCTAATCCTTGA
131 AGATATGAAGATATTTTGCAAAATTGAAAAAGAAAAAGCTTGTCAGGTAAGTTCCTAATCCTTGA
12649508 AATAGGATGTCTTTTGGTATCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAAATTCC
196 AATAGGATGTCTTTTGGTATCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAAATTCC
*
12649573 TTCAAACACAACTTTCAACTCCTTTGGACATGATTGTCGGGGAGCAATTTACTTTCCCAAAAGTC
261 TTCAAACACAACTTTCAACTCCTTTGGACATGATTGTCAGGGAGCAATTTACTTTCCCAAAAGTC
*
12649638 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAAGAG
326 GTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAG
12649702 CAATTTACTTTCCCAAAGTCGTGGTGCCTCTG
390 CAATTTACTTTCCCAAAGTCGTGGTGCCTCTG
12649734 TTATTTGGCCAACATTTGCATAGCATGCATTGAAATTCATACGCATTCGCATAGCATACACTACT
1 TTATTTGGCCAACATTTGCATAGCATGCATTGAAATTCATACGCATTCGCATAGCATACACTACT
12649799 TTCAGGAAAGTATAGTGTATAAATTCAAGAAGCAAGGGTGTTCCAACATCCCACATGGAGAAGAC
66 TTCAGGAAAGTATAGTGTATAAATTCAAGAAGCAAGGGTGTTCCAACATCCCACATGGAGAAGAC
12649864 AGATATGAAGATATTTTGCAAAATTGAAAAAGAAAAAGCTTGTCAGGTAAGTTCCTAATCCTTGA
131 AGATATGAAGATATTTTGCAAAATTGAAAAAGAAAAAGCTTGTCAGGTAAGTTCCTAATCCTTGA
*
12649929 AATAGGATGTCTTTTGGTATCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTAAAATTCC
196 AATAGGATGTCTTTTGGTATCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAAATTCC
12649994 TTCAAACACAACTTTCAACTCCTTTGGACATGATTGTCAGGGAGCAATTTACTTTCCCAAAAGTC
261 TTCAAACACAACTTTCAACTCCTTTGGACATGATTGTCAGGGAGCAATTTACTTTCCCAAAAGTC
12650059 GTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
326 GTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
12650124 AATTTACTTTCCCAAAGTCGTGGTGCCTCTG
391 AATTTACTTTCCCAAAGTCGTGGTGCCTCTG
** * * * * *
12650155 TT-TAGAGGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTATTTGGCCAACATTTGCATA
1 TTAT-TTGG-CCAA--CA-TTT-GCATAG-C---ATG---C----A-TT-G--AA-A-TT-CATA
12650219 GCATGCATT-GAAATTCATACACATTCGCATAGCATACACTACTTTCAGGAAAGTATAGTGTATA
42 -C--GCATTCG-----CAT----A---GCAT-----ACACTACTTTCAGGAAAGTATAGTGTATA
12650283 AATTCAAGAAGCAAGGGTGTTCCAACATCCCACATGGAGAAGACAGATATGAAGATATTTTGCAA
87 AATTCAAGAAGCAAGGGTGTTCCAACATCCCACATGGAGAAGACAGATATGAAGATATTTTGCAA
*
12650348 AATTGAAAAAGAAAAAGCTTGTCAGGTAAATTCCTAATCCTTGAAATAGGATGTCTTTTGGTATC
152 AATTGAAAAAGAAAAAGCTTGTCAGGTAAGTTCCTAATCCTTGAAATAGGATGTCTTTTGGTATC
*
12650413 AGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAAATTCCTTCAAACACAACTTTTAACTC
217 AGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAAATTCCTTCAAACACAACTTTCAACTC
12650478 CTTTGGACATGATTGTCAGGGAGCAATTTACTTTCCCAAAAGTCGTGGTGCCTCTGTTTAGAGGA
282 CTTTGGACATGATTGTCAGGGAGCAATTTACTTTCCCAAAAGTCGTGGTGCCTCTGTTTAGAGGA
* *
12650543 GCAATTTACTTTTCCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTACTTTCCCAAAGTCGT
347 GCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCCAAAGTCGT
12650608 GGTGCCTCTG
412 GGTGCCTCTG
12650618 TT
1 TT
12650620 TAGAGGAGCA
Statistics
Matches: 825, Mismatches: 15, Indels: 49
0.93 0.02 0.06
Matches are distributed among these distances:
420 167 0.20
421 254 0.31
422 3 0.00
424 1 0.00
425 3 0.00
426 4 0.00
427 1 0.00
430 2 0.00
433 1 0.00
437 1 0.00
438 2 0.00
439 1 0.00
441 2 0.00
442 1 0.00
443 2 0.00
444 4 0.00
445 1 0.00
446 1 0.00
447 5 0.01
451 3 0.00
455 1 0.00
458 4 0.00
463 361 0.44
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (421 bp):
TTATTTGGCCAACATTTGCATAGCATGCATTGAAATTCATACGCATTCGCATAGCATACACTACT
TTCAGGAAAGTATAGTGTATAAATTCAAGAAGCAAGGGTGTTCCAACATCCCACATGGAGAAGAC
AGATATGAAGATATTTTGCAAAATTGAAAAAGAAAAAGCTTGTCAGGTAAGTTCCTAATCCTTGA
AATAGGATGTCTTTTGGTATCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAAATTCC
TTCAAACACAACTTTCAACTCCTTTGGACATGATTGTCAGGGAGCAATTTACTTTCCCAAAAGTC
GTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
AATTTACTTTCCCAAAGTCGTGGTGCCTCTG
Found at i:12650110 original size:42 final size:42
Alignment explanation
Indices: 12650034--12650198 Score: 303
Period size: 42 Copynumber: 3.9 Consensus size: 42
12650024 TGATTGTCAG
12650034 GGAGCAATTTACTTTCCCAAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTCCC-AAAGTCGTGGTGCCTCTGTTTAGA
* *
12650077 GGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGA
12650119 GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGA
12650161 GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTT
1 GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTT
12650199 ATTTGGCCAA
Statistics
Matches: 118, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
42 102 0.86
43 16 0.14
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (42 bp):
GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGA
Found at i:12650578 original size:42 final size:42
Alignment explanation
Indices: 12650497--12650796 Score: 451
Period size: 42 Copynumber: 7.1 Consensus size: 42
12650487 TGATTGTCAG
*
12650497 GGAGCAATTTACTTTCCCAAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAGA
*
12650540 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTTTGTTTAGA
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
*
12650582 GGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
*
12650624 GGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
* *
12650666 GGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTATTTAGA
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
* * * *
12650708 AGAGCAATTTA-TTTTCAAAAGTCGTGGTGCCTATGTTTAAA
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
* *
12650749 GGAGCAATTTA-TGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGA
1 GGAGCAATTTACT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAGA
12650792 GGAGC
1 GGAGC
12650797 TTTGGTAAAA
Statistics
Matches: 235, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
41 37 0.16
42 156 0.66
43 42 0.18
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (42 bp):
GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
Found at i:12650821 original size:9 final size:9
Alignment explanation
Indices: 12650803--12650902 Score: 91
Period size: 9 Copynumber: 11.2 Consensus size: 9
12650793 GAGCTTTGGT
12650803 AAAA-AAAA
1 AAAACAAAA
12650811 AAAACAAAA
1 AAAACAAAA
* *
12650820 AAAATATAA
1 AAAACAAAA
*
12650829 AACA-AAAA
1 AAAACAAAA
*
12650837 AAAACACAA
1 AAAACAAAA
12650846 AAAACACAAA
1 AAAACA-AAA
12650856 AAAACACAAA
1 AAAACA-AAA
*
12650866 AAAACCAAA
1 AAAACAAAA
*
12650875 AAAAC--AC
1 AAAACAAAA
12650882 AAAACATAAA
1 AAAACA-AAA
12650892 AAAACAAAA
1 AAAACAAAA
12650901 AA
1 AA
12650903 TGACAATGTT
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
7 6 0.08
8 10 0.13
9 36 0.47
10 24 0.32
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAACAAAA
Found at i:12650821 original size:10 final size:10
Alignment explanation
Indices: 12650803--12650902 Score: 78
Period size: 10 Copynumber: 9.6 Consensus size: 10
12650793 GAGCTTTGGT
12650803 AAAAAAAAA-
1 AAAAAAAAAC
12650812 AAACAAAAAA-
1 AAA-AAAAAAC
* *
12650822 AATATAAAAC
1 AAAAAAAAAC
12650832 AAAAAAAAAC
1 AAAAAAAAAC
*
12650842 ACAAAAAACAC
1 A-AAAAAAAAC
*
12650853 AAAAAAACAC
1 AAAAAAAAAC
*
12650863 AAAAAAACCAAA
1 AAAAAAA--AAC
12650875 AAAACACAAAAC
1 AAAA-A-AAAAC
*
12650887 ATAAAAAAAC
1 AAAAAAAAAC
12650897 AAAAAA
1 AAAAAA
12650903 TGACAATGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 13
0.76 0.10 0.13
Matches are distributed among these distances:
9 8 0.11
10 43 0.58
11 10 0.14
12 10 0.14
13 1 0.01
14 2 0.03
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:12650830 original size:16 final size:14
Alignment explanation
Indices: 12650803--12650902 Score: 76
Period size: 17 Copynumber: 6.4 Consensus size: 14
12650793 GAGCTTTGGT
12650803 AAAAAAAAAAAACA
1 AAAAAAAAAAAACA
12650817 AAAAAAATATAAAACA
1 AAAAAAA-A-AAAACA
12650833 AAAAAAAACACAAA-A
1 AAAAAAAA-A-AAACA
*
12650848 AACACAAAAAAACACAA
1 AA-A-AAAAAAAAAC-A
12650865 AAAAACCAAAAAAACA
1 AAAAA--AAAAAAACA
12650881 CAAAACATAAAAAAACA
1 -AAAA-A-AAAAAAACA
12650898 AAAAA
1 AAAAA
12650903 TGACAATGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
14 7 0.10
15 11 0.15
16 24 0.34
17 28 0.39
18 1 0.01
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAACA
Found at i:12650894 original size:19 final size:17
Alignment explanation
Indices: 12650809--12650902 Score: 91
Period size: 19 Copynumber: 5.3 Consensus size: 17
12650799 TGGTAAAAAA
* *
12650809 AAAAAACAAAAAAAATAT
1 AAAAAA-AAAAAAAACAC
*
12650827 AAAACAAAAAAAAACAC
1 AAAAAAAAAAAAAACAC
12650844 AAAAAACACAAAAAAACAC
1 AAAAAA-A-AAAAAAACAC
12650863 AAAAAAACCAAAAAAACAC
1 AAAAAAA--AAAAAAACAC
* *
12650882 AAAACATAAAAAAACA-
1 AAAAAAAAAAAAAACAC
12650898 AAAAA
1 AAAAA
12650903 TGACAATGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
16 4 0.06
17 23 0.35
18 7 0.11
19 32 0.48
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAAAACAC
Found at i:12651178 original size:22 final size:20
Alignment explanation
Indices: 12651066--12651199 Score: 75
Period size: 22 Copynumber: 6.5 Consensus size: 20
12651056 TTTTACTTTG
*
12651066 TATTT-TTTTTGTATTTTAT-
1 TATTTATTTTT-TATATTATA
*
12651085 TATTTTTTATTATTATATGTATA
1 TATTTATT-TT-TTATAT-TATA
*
12651108 T-TTTATTTATTTAT-TTATT
1 TATTTATTT-TTTATATTATA
*
12651127 TATTTTTTTCTGTTAGTATT-TA
1 TATTTATTT-T-TTA-TATTATA
*
12651149 TATGTATTTTTATATAGTTATA
1 TATTTATTTTT-TATA-TTATA
*
12651171 TATTTA-TTATTATATTATA
1 TATTTATTTTTTATATTATA
12651190 -ATTTATTTTT
1 TATTTATTTTT
12651200 CTTGTAATAT
Statistics
Matches: 90, Mismatches: 11, Indels: 28
0.70 0.09 0.22
Matches are distributed among these distances:
18 5 0.06
19 17 0.19
20 17 0.19
21 22 0.24
22 26 0.29
23 3 0.03
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTATTTTTTATATTATA
Found at i:12652300 original size:31 final size:31
Alignment explanation
Indices: 12652242--12652308 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
12652232 TTATTTAATA
* *
12652242 TATTT-TTTTTACTTTTCTTTTTCTTTATCTT
1 TATTTATTTTCACTTTTCATTTTCTTTAT-TT
*
12652273 TATTTATTTTCACTTTT-ATTTTGTTTATTT
1 TATTTATTTTCACTTTTCATTTTCTTTATTT
*
12652303 TCTTTA
1 TATTTA
12652309 AATAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 7 0.23
31 14 0.45
32 10 0.32
ACGTcount: A:0.13, C:0.10, G:0.01, T:0.75
Consensus pattern (31 bp):
TATTTATTTTCACTTTTCATTTTCTTTATTT
Found at i:12652383 original size:57 final size:57
Alignment explanation
Indices: 12652308--12652482 Score: 183
Period size: 57 Copynumber: 2.9 Consensus size: 57
12652298 TATTTTCTTT
*
12652308 AAATAAAATTTCAAAAAAAATATTTTCAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAATTTTC--AAAAAATATTTTCAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
12652367 AAATAAATTTTCAAAAAAGGT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGA
1 AAATAAATTTTCAAAAAA--TATTTTCAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * **
12652424 AAATCAAAGTTTCCAAACAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAT-AAA-TTT----TCAAAAAATATTTTCAGGGAAAAGTTGAAAGTATCAATTTTCC
12652483 CTACACAAAA
Statistics
Matches: 99, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
57 39 0.39
58 8 0.08
59 15 0.15
62 4 0.04
63 33 0.33
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (57 bp):
AAATAAATTTTCAAAAAATATTTTCAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:12653960 original size:281 final size:281
Alignment explanation
Indices: 12653457--12654022 Score: 1078
Period size: 281 Copynumber: 2.0 Consensus size: 281
12653447 CAACAAAAAA
12653457 AATATTAGGGATTATTTAAGTTATATCATCAATATAAGTTTGATAGACTCCCAAATTCAACTCAT
1 AATATTAGGGATTATTTAAGTTATATCATCAATATAAGTTTGATAGACTCCCAAATTCAACTCAT
*
12653522 CTCAACCTTTCAAACTCATGTTTCCATGGCCAAATTCCAGTGGAGATTTCATGCGAATCAAGATT
66 CTCAACCTTTCAAACTCATGTTTCCATGGCCAAATTCCAGTGGAGATTTCATGCGAAACAAGATT
12653587 ATTAAGCGTCCAACTTAAAATCCATTGACAGTAAGTTGATAATAAGCAAAATGCATAATCAAAGA
131 ATTAAGCGTCCAACTTAAAATCCATTGACAGTAAGTTGATAATAAGCAAAATGCATAATCAAAGA
*
12653652 TTTTCCAGTTGTCTTTAACTTGTAAATATTTTATTGTAGGATATCTCTTTGTTTAGGAAATCAGT
196 TTTTCCAGTTGTCTTTAACTTGTAAATATTTTATTGTAGGATATCTCTTTGTTTAAGAAATCAGT
12653717 AATTAAACCATAATGTTAGGT
261 AATTAAACCATAATGTTAGGT
*
12653738 AATATTAGGGATTATTTAAGTTATATCATCAATATAAGTTTGATAGACTCCCAAATTTAACTCAT
1 AATATTAGGGATTATTTAAGTTATATCATCAATATAAGTTTGATAGACTCCCAAATTCAACTCAT
12653803 CTCAACCTTTCAAACTCATGTTTCCATGGCCAAATTCCAGTGGAGATTTCATGCGAAACAAGATT
66 CTCAACCTTTCAAACTCATGTTTCCATGGCCAAATTCCAGTGGAGATTTCATGCGAAACAAGATT
*
12653868 ATTAAGCGTCCAACTTAAAATCCATTGATAGTAAGTTGATAATAAGCAAAATGCATAATCAAAGA
131 ATTAAGCGTCCAACTTAAAATCCATTGACAGTAAGTTGATAATAAGCAAAATGCATAATCAAAGA
* *
12653933 TTTTCTAGTTGTCTTTAACTTGTAAATATTTTATTGTAGGATATCTCTTTGTTTAATAAATCAGT
196 TTTTCCAGTTGTCTTTAACTTGTAAATATTTTATTGTAGGATATCTCTTTGTTTAAGAAATCAGT
12653998 AATTAAACCATAATGTTAGGT
261 AATTAAACCATAATGTTAGGT
12654019 AATA
1 AATA
12654023 ATAATCTTTC
Statistics
Matches: 279, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
281 279 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (281 bp):
AATATTAGGGATTATTTAAGTTATATCATCAATATAAGTTTGATAGACTCCCAAATTCAACTCAT
CTCAACCTTTCAAACTCATGTTTCCATGGCCAAATTCCAGTGGAGATTTCATGCGAAACAAGATT
ATTAAGCGTCCAACTTAAAATCCATTGACAGTAAGTTGATAATAAGCAAAATGCATAATCAAAGA
TTTTCCAGTTGTCTTTAACTTGTAAATATTTTATTGTAGGATATCTCTTTGTTTAAGAAATCAGT
AATTAAACCATAATGTTAGGT
Found at i:12657541 original size:2 final size:2
Alignment explanation
Indices: 12657534--12657561 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12657524 ACCTTCCAAA
12657534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12657562 GAAAGATCCA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12658055 original size:13 final size:13
Alignment explanation
Indices: 12658039--12658063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12658029 CCCATATAGA
12658039 TCTCATAATTCTC
1 TCTCATAATTCTC
12658052 TCTCATAATTCT
1 TCTCATAATTCT
12658064 AAAAATTAAG
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:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (13 bp):
TCTCATAATTCTC
Found at i:12658652 original size:95 final size:95
Alignment explanation
Indices: 12658479--12658682 Score: 259
Period size: 95 Copynumber: 2.1 Consensus size: 95
12658469 ATCCCCTTTC
* * * * *
12658479 ACAATCGATGTGGGATAACTTCAACAATCTCTCTTTTTCACACATCGGGCCATAGGGTAGAGCTT
1 ACAATCGATGTGGGATAACCTCAACAATCTCCCTTTTTCACACATCAGGCCATAGGGTAAAACTT
*
12658544 TTATACCCAGCTCACGA-AGAGATGCTGGCA
66 CTATACCCAGCTCACGAGA-AGATGCTGGCA
*
12658574 ACAATTGATGTGGGATAACCTCAACAATCTCCCTTTTTCACACATCAGGCCATAAGGG-AAAACT
1 ACAATCGATGTGGGATAACCTCAACAATCTCCCTTTTTCACACATCAGGCCAT-AGGGTAAAACT
* ** * *
12658638 TCTATGCCTGGCTCATGAGAAGATGTTGGCA
65 TCTATACCCAGCTCACGAGAAGATGCTGGCA
*
12658669 ACAATCAATGTGGG
1 ACAATCGATGTGGG
12658683 TGTTGGGATT
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
95 88 0.95
96 5 0.05
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (95 bp):
ACAATCGATGTGGGATAACCTCAACAATCTCCCTTTTTCACACATCAGGCCATAGGGTAAAACTT
CTATACCCAGCTCACGAGAAGATGCTGGCA
Found at i:12662683 original size:30 final size:30
Alignment explanation
Indices: 12662647--12662705 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
12662637 GACTTCCTCC
12662647 ACTACTATCCACTGCCTTTTGACCTTCAAT
1 ACTACTATCCACTGCCTTTTGACCTTCAAT
12662677 ACTACTATCCACTGCCTTTTGACCTTCAA
1 ACTACTATCCACTGCCTTTTGACCTTCAA
12662706 CAACTTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.36
Consensus pattern (30 bp):
ACTACTATCCACTGCCTTTTGACCTTCAAT
Found at i:12669305 original size:17 final size:17
Alignment explanation
Indices: 12669281--12669313 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12669271 AAAAATTATT
12669281 ATTAAT-AAAGGTCATG
1 ATTAATAAAAGGTCATG
12669297 ATTATATAAAAGGTCAT
1 ATTA-ATAAAAGGTCAT
12669314 AACATCTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 2 0.13
18 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (17 bp):
ATTAATAAAAGGTCATG
Found at i:12670669 original size:18 final size:20
Alignment explanation
Indices: 12670630--12670671 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
12670620 TAAGTCATCA
*
12670630 TTTTCATTCTTTTTTTATAT
1 TTTTCATTCTTTTTTGATAT
12670650 TTTTC-TTCTTTTTTGA-AT
1 TTTTCATTCTTTTTTGATAT
12670668 TTTT
1 TTTT
12670672 TGGACTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTCATTCTTTTTTGATAT
Found at i:12672548 original size:22 final size:22
Alignment explanation
Indices: 12672523--12672737 Score: 159
Period size: 22 Copynumber: 9.8 Consensus size: 22
12672513 GTCATTACTA
*
12672523 ATTTATTACTACGTTATCAATG
1 ATTTATTACTAAGTTATCAATG
* * *
12672545 ATTTATTATTAAATTATTAATG
1 ATTTATTACTAAGTTATCAATG
* * *
12672567 ATTTACTATTAAGTTATGAATG
1 ATTTATTACTAAGTTATCAATG
* *
12672589 ATTTACTACTAAGTTATTAATG
1 ATTTATTACTAAGTTATCAATG
* ** *
12672611 ATTTAGTACTAAGTTATTGATA
1 ATTTATTACTAAGTTATCAATG
*
12672633 ATTTATTA-TAAAGTTAT-AACTA
1 ATTTATTACT-AAGTTATCAA-TG
12672655 ATTTATTA-TAAAGTTATCAATG
1 ATTTATTACT-AAGTTATCAATG
* * * *
12672677 ATTTACTACAAAATTATCATTG
1 ATTTATTACTAAGTTATCAATG
* **
12672699 ATATACAACTAAGTTAT-AAGTG
1 ATTTATTACTAAGTTATCAA-TG
* *
12672721 ACTTATTACTACGTTAT
1 ATTTATTACTAAGTTAT
12672738 TTATTATTAC
Statistics
Matches: 159, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
21 3 0.02
22 154 0.97
23 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.45
Consensus pattern (22 bp):
ATTTATTACTAAGTTATCAATG
Found at i:12672614 original size:66 final size:66
Alignment explanation
Indices: 12672519--12672693 Score: 201
Period size: 66 Copynumber: 2.7 Consensus size: 66
12672509 TTAAGTCATT
* * * * *
12672519 ACTAATTTATTACTACGTTATCAATGATTTATTATTAAATTATTAATGATTTACTATTAAGTTAT
1 ACTAATTTATTACTAAGTTATCAATGATTTAGTACTAAATTATTAATAATTTACTATAAAGTTAT
12672584 GA
66 -A
* * * * * *
12672586 A-TGATTTACTACTAAGTTATTAATGATTTAGTACTAAGTTATTGATAATTTATTATAAAGTTAT
1 ACTAATTTATTACTAAGTTATCAATGATTTAGTACTAAATTATTAATAATTTACTATAAAGTTAT
12672650 A
66 A
* *
12672651 ACTAATTTATTA-TAAAGTTATCAATGATTTACTACAAAATTAT
1 ACTAATTTATTACT-AAGTTATCAATGATTTAGTACTAAATTAT
12672694 CATTGATATA
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
65 3 0.03
66 85 0.96
67 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (66 bp):
ACTAATTTATTACTAAGTTATCAATGATTTAGTACTAAATTATTAATAATTTACTATAAAGTTAT
A
Found at i:12672737 original size:66 final size:63
Alignment explanation
Indices: 12672523--12672756 Score: 184
Period size: 66 Copynumber: 3.6 Consensus size: 63
12672513 GTCATTACTA
* * * *
12672523 ATTTATTACTACGTTATCAATGATTTATTATTAAATTATTAATGATTTACTATTAAGTTATGAAT
1 ATTTATTACTAAGTTATCAATGATTTACTACTAAATTA-TCATGATTTACTA-TAAGTTAT-AAT
12672588 G
63 G
* * * * * * *
12672589 ATTTACTACTAAGTTATTAATGATTTAGTACTAAGTTATTGATAATTTATTATAAAGTTATAACT
1 ATTTATTACTAAGTTATCAATGATTTACTACTAAATTA-TCATGATTTACTAT-AAGTTATAA-T
*
12672654 A
63 G
* * *
12672655 ATTTATTA-TAAAGTTATCAATGATTTACTACAAAATTATCATTGATATACAACTAAGTTATAAG
1 ATTTATTACT-AAGTTATCAATGATTTACTACTAAATTATCA-TGATTTACTA-TAAGTTATAA-
12672719 TG
62 TG
* * ** *
12672721 ACTTATTACTACGTTATTTATTA-TTACTACTAAATT
1 ATTTATTACTAAGTTATCAATGATTTACTACTAAATT
12672757 CAGTTATTTA
Statistics
Matches: 134, Mismatches: 28, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
65 18 0.13
66 114 0.85
67 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.45
Consensus pattern (63 bp):
ATTTATTACTAAGTTATCAATGATTTACTACTAAATTATCATGATTTACTATAAGTTATAATG
Found at i:12672863 original size:21 final size:22
Alignment explanation
Indices: 12672833--12672883 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
12672823 AGTTAGCTAT
*
12672833 TAAGTTATCAATT-ATTTACTAC
1 TAAGTTATC-ATTGAATTACTAC
12672855 TAA-TTATCATTGAATTACTAC
1 TAAGTTATCATTGAATTACTAC
12672876 TAAGTTAT
1 TAAGTTAT
12672884 TTATGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 16 0.62
22 7 0.27
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (22 bp):
TAAGTTATCATTGAATTACTAC
Found at i:12673153 original size:22 final size:21
Alignment explanation
Indices: 12673121--12673202 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 21
12673111 GTTACTACTA
**
12673121 ATTTACCACTATCTTATCACTG
1 ATTTACCACTAAATTATCA-TG
*
12673143 ATTTACTACTAAATTATCATG
1 ATTTACCACTAAATTATCATG
* * *
12673164 ATTTATCACTAAGTTATAGATG
1 ATTTACCACTAAATTAT-CATG
* *
12673186 ATTTACTACTAAGTTAT
1 ATTTACCACTAAATTAT
12673203 AAACAATTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.32
22 34 0.68
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (21 bp):
ATTTACCACTAAATTATCATG
Found at i:12673167 original size:21 final size:21
Alignment explanation
Indices: 12673134--12673202 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
12673124 TACCACTATC
*
12673134 TTATCACTGATTTACTACTAAA
1 TTATCA-TGATTTACTACTAAG
12673156 TTATCATGATTTA-TCACTAAG
1 TTATCATGATTTACT-ACTAAG
*
12673177 TTATAGATGATTTACTACTAAG
1 TTAT-CATGATTTACTACTAAG
12673199 TTAT
1 TTAT
12673203 AAACAATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.02
21 16 0.38
22 24 0.57
23 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (21 bp):
TTATCATGATTTACTACTAAG
Found at i:12673174 original size:43 final size:43
Alignment explanation
Indices: 12673121--12673202 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
12673111 GTTACTACTA
* *
12673121 ATTTACCACTATCTTATCA-CTGATTTACTACTAAATTATCATG
1 ATTTACCACTAACTTAT-AGATGATTTACTACTAAATTATCATG
* * *
12673164 ATTTATCACTAAGTTATAGATGATTTACTACTAAGTTAT
1 ATTTACCACTAACTTATAGATGATTTACTACTAAATTAT
12673203 AAACAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (43 bp):
ATTTACCACTAACTTATAGATGATTTACTACTAAATTATCATG
Found at i:12673203 original size:22 final size:22
Alignment explanation
Indices: 12673141--12673246 Score: 99
Period size: 22 Copynumber: 4.9 Consensus size: 22
12673131 ATCTTATCAC
* *
12673141 TGATTTACTACTAAATTAT-CA
1 TGATTTACTACTAAGTTATAGA
12673162 TGATTTA-TCACTAAGTTATAGA
1 TGATTTACT-ACTAAGTTATAGA
*
12673184 TGATTTACTACTAAGTTATAAA
1 TGATTTACTACTAAGTTATAGA
** * * *
12673206 CAATTTATTACTAAATTATTGA
1 TGATTTACTACTAAGTTATAGA
* *
12673228 TAATTTACTATTAAGTTAT
1 TGATTTACTACTAAGTTAT
12673247 TAATAATTGA
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
20 1 0.01
21 16 0.23
22 51 0.74
23 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (22 bp):
TGATTTACTACTAAGTTATAGA
Found at i:12673721 original size:22 final size:21
Alignment explanation
Indices: 12673689--12673770 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 21
12673679 GTTACTACTA
**
12673689 ATTTACCACTATCTTATCACTG
1 ATTTACCACTAAATTATCA-TG
*
12673711 ATTTACTACTAAATTATCATG
1 ATTTACCACTAAATTATCATG
* * * *
12673732 ATTTATCGCTAAGTTATAGATG
1 ATTTACCACTAAATTAT-CATG
* *
12673754 ATTTACTACTAAGTTAT
1 ATTTACCACTAAATTAT
12673771 AAACAATTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 15 0.31
22 33 0.69
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
ATTTACCACTAAATTATCATG
Found at i:12673807 original size:568 final size:565
Alignment explanation
Indices: 12672705--12673822 Score: 2148
Period size: 568 Copynumber: 2.0 Consensus size: 565
12672695 ATTGATATAC
12672705 AACTAAGTTATAAGTGACTTATTACTACGTTATTTATTATTACTACTAAATTCAGTTATTTACTA
1 AACTAAGTTATAAGTGACTTATTACTACGTTATTTATTATTACTACTAAATTCAGTTATTTACTA
*
12672770 TTATATTATTATGCATTTACTAATTACCATTGATTTCTTACTAAGGTTTTAATAGTTAGCTATTA
66 TTATATTAATATGCATTTACTAATTACCATTGATTTCTTACTAAGGTTTTAATAGTTAGCTATTA
12672835 AGTTATCAATTATTTACTACTAATTATCATTGAATTACTACTAAGTTATTTATGATATACTATTA
131 AGTTATCAATTATTTACTACTAATTATCATTGAATTACTACTAAGTTATTTATGATATACTATTA
*
12672900 ATTTTATCAATTAATTACAATATATGAGATAATTTTCTTTTTATAAAATATAAATTATTGTTTCG
196 ATTTTATCAATTAATTACAATATATGAGATAATTTTCTTTTTATAAAATATAAATTATTGTTTCA
12672965 TTCAAATTTAGAATTTTTTTACTAAATTTTTTTAATGAATAAGTTCATGGTAGGTTTATCTTAAT
261 TTCAAATTTAGAATTTTTTTACTAAATTTTTTTAATGAATAAGTTCATGGTAGGTTTATCTTAAT
*
12673030 CATTTTCTCTTTCTAGGAACCAAGGTTCAATCATTAGTAACTTTTAGTATAAAAAAAATATTATC
326 CATTTTCTCTTTCTAGGAACCAAGGTTCAATCATTAGTAACTTTAAGTATAAAAAAAATATTATC
12673095 ACTAATTAACAAATAAGTTACTACTAATTTACCACTATCTTATCACTGATTTACTACTAAATTAT
391 ACTAATTAACAAATAAGTTACTACTAATTTACCACTATCTTATCACTGATTTACTACTAAATTAT
12673160 CATGATTTATCACTAAGTTATAGATGATTTACTACTAAGTTATAAACAATTTATTACTAAATTAT
456 CATGATTTATCACTAAGTTATAGATGATTTACTACTAAGTTATAAACAATTTATTACTAAATTAT
12673225 TGATAATTTACTATTAAGTTATTAATAATTGATAACTTAATAGCT
521 TGATAATTTACTATTAAGTTATTAATAATTGATAACTTAATAGCT
12673270 AACTAAGTTATAAGTGACTTATTACTACGTTATTTATTATTACTACTAAATTCAGTTATTTACTA
1 AACTAAGTTATAAGTGACTTATTACTACGTTATTTATTATTACTACTAAATTCAGTTATTTACTA
12673335 TTATATTAATATGCATTTACTAATTACCATTGATTTCTTACTAAGGTTTTAATAGTTAGCTATTA
66 TTATATTAATATGCATTTACTAATTACCATTGATTTCTTACTAAGGTTTTAATAGTTAGCTATTA
12673400 AGTTATCAATTATTTACTACTAAATTATCATTGAATTACTACTAAGTTATTTATGATATACTATT
131 AGTTATCAATTATTTACTACT-AATTATCATTGAATTACTACTAAGTTATTTATGATATACTATT
12673465 AATTTTATCAATTAATTACAATATATGAGATAATTTTCTTTTTATAAAATATAACATTATTGTTT
195 AATTTTATCAATTAATTACAATATATGAGATAATTTTCTTTTTATAAAATATAA-ATTATTGTTT
12673530 CATTCAAATTTAGAATTTTTTTACTAAATTTTTTTAATGAATAAGTTCATGGTAGGTTTATCCTT
259 CATTCAAATTTAGAATTTTTTTACTAAATTTTTTTAATGAATAAGTTCATGGTAGGTTTAT-CTT
*
12673595 -ATCCTTTTCTCTTTCTAGGAACCAAGGTTCAATCATTAGTAACTTTAAGTATAAAAAAATATAT
323 AATCATTTTCTCTTTCTAGGAACCAAGGTTCAATCATTAGTAACTTTAAGTATAAAAAAA-ATAT
12673659 TATCACTAATTAACAAATAAGTTACTACTAATTTACCACTATCTTATCACTGATTTACTACTAAA
387 TATCACTAATTAACAAATAAGTTACTACTAATTTACCACTATCTTATCACTGATTTACTACTAAA
*
12673724 TTATCATGATTTATCGCTAAGTTATAGATGATTTACTACTAAGTTATAAACAATTTATTACTAAA
452 TTATCATGATTTATCACTAAGTTATAGATGATTTACTACTAAGTTATAAACAATTTATTACTAAA
12673789 TTATTGATAATTTACTATTAAGTTATTAATAATT
517 TTATTGATAATTTACTATTAAGTTATTAATAATT
12673823 TATTATAATG
Statistics
Matches: 544, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
565 150 0.28
566 97 0.18
567 127 0.23
568 170 0.31
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (565 bp):
AACTAAGTTATAAGTGACTTATTACTACGTTATTTATTATTACTACTAAATTCAGTTATTTACTA
TTATATTAATATGCATTTACTAATTACCATTGATTTCTTACTAAGGTTTTAATAGTTAGCTATTA
AGTTATCAATTATTTACTACTAATTATCATTGAATTACTACTAAGTTATTTATGATATACTATTA
ATTTTATCAATTAATTACAATATATGAGATAATTTTCTTTTTATAAAATATAAATTATTGTTTCA
TTCAAATTTAGAATTTTTTTACTAAATTTTTTTAATGAATAAGTTCATGGTAGGTTTATCTTAAT
CATTTTCTCTTTCTAGGAACCAAGGTTCAATCATTAGTAACTTTAAGTATAAAAAAAATATTATC
ACTAATTAACAAATAAGTTACTACTAATTTACCACTATCTTATCACTGATTTACTACTAAATTAT
CATGATTTATCACTAAGTTATAGATGATTTACTACTAAGTTATAAACAATTTATTACTAAATTAT
TGATAATTTACTATTAAGTTATTAATAATTGATAACTTAATAGCT
Found at i:12673827 original size:11 final size:11
Alignment explanation
Indices: 12673775--12673837 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
12673765 AGTTATAAAC
*
12673775 AATTTATTACT
1 AATTTATTAAT
* *
12673786 AAATTATTGAT
1 AATTTATTAAT
* *
12673797 AATTTACTATT
1 AATTTATTAAT
*
12673808 AAGTTATTAAT
1 AATTTATTAAT
12673819 AATTTATT-AT
1 AATTTATTAAT
*
12673829 AATGTATTA
1 AATTTATTA
12673838 TTGATTTACT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
10 9 0.23
11 30 0.77
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (11 bp):
AATTTATTAAT
Found at i:12673858 original size:43 final size:41
Alignment explanation
Indices: 12673745--12673873 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 41
12673735 TATCGCTAAG
* * *
12673745 TTATAGATGATTTACTACTAAGTTATAAACAATTTATTACTAAA
1 TTATTGATGATTTACTA-TAAGTTATTAATAATTTATTA-T-AA
*
12673789 TTATTGATAATTTACTATTAAGTTATTAATAATTTATTATAA
1 TTATTGATGATTTACTA-TAAGTTATTAATAATTTATTATAA
* * *
12673831 TGTATT-ATTGATTTACTATAAAGTTATTGATGATTTACTATAA
1 T-TATTGA-TGATTTACTAT-AAGTTATTAATAATTTATTATAA
12673874 AGTTATTAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 5 0.07
43 34 0.47
44 34 0.47
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (41 bp):
TTATTGATGATTTACTATAAGTTATTAATAATTTATTATAA
Found at i:12673880 original size:22 final size:22
Alignment explanation
Indices: 12673709--12673880 Score: 115
Period size: 22 Copynumber: 7.9 Consensus size: 22
12673699 ATCTTATCAC
*
12673709 TGATTTACTACTAAA-TTA-TCA
1 TGATTTACTA-TAAAGTTATTGA
** *
12673730 TGATTTATCGCT-AAGTTATAGA
1 TGATTTA-CTATAAAGTTATTGA
**
12673752 TGATTTACTACT-AAGTTATAAA
1 TGATTTACTA-TAAAGTTATTGA
** *
12673774 CAATTTATTACTAAA-TTATTGA
1 TGATTTACTA-TAAAGTTATTGA
* * *
12673796 TAATTTACTATTAAGTTATTAA
1 TGATTTACTATAAAGTTATTGA
* * *
12673818 TAATTTATTATAATG-TATT-A
1 TGATTTACTATAAAGTTATTGA
12673838 TTGATTTACTATAAAGTTATTGA
1 -TGATTTACTATAAAGTTATTGA
12673861 TGATTTACTATAAAGTTATT
1 TGATTTACTATAAAGTTATT
12673881 AATAATTAAC
Statistics
Matches: 120, Mismatches: 22, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.03
21 31 0.26
22 83 0.69
23 3 0.03
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (22 bp):
TGATTTACTATAAAGTTATTGA
Found at i:12673892 original size:22 final size:22
Alignment explanation
Indices: 12673754--12673892 Score: 131
Period size: 22 Copynumber: 6.4 Consensus size: 22
12673744 GTTATAGATG
* *
12673754 ATTTACTACT-AAGTTATAAACA
1 ATTTACTA-TAAAGTTATTAATA
* *
12673776 ATTTATTACTAAA-TTATTGATA
1 ATTTACTA-TAAAGTTATTAATA
*
12673798 ATTTACTATTAAGTTATTAATA
1 ATTTACTATAAAGTTATTAATA
* * * *
12673820 ATTTATTATAATG-TATTATTG
1 ATTTACTATAAAGTTATTAATA
* *
12673841 ATTTACTATAAAGTTATTGATG
1 ATTTACTATAAAGTTATTAATA
12673863 ATTTACTATAAAGTTATTAATA
1 ATTTACTATAAAGTTATTAATA
*
12673885 ATTAACTA
1 ATTTACTA
12673893 ATTTATAATT
Statistics
Matches: 95, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
21 20 0.21
22 73 0.77
23 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (22 bp):
ATTTACTATAAAGTTATTAATA
Found at i:12673918 original size:22 final size:22
Alignment explanation
Indices: 12673893--12673955 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
12673883 TAATTAACTA
*
12673893 ATTTATAATTAAATTATCA-TT
1 ATTTATAACTAAATTATCACTT
12673914 GATTTATAACTAAATTATCACTT
1 -ATTTATAACTAAATTATCACTT
* *
12673937 TTTTATAACTAAGTTATCA
1 ATTTATAACTAAATTATCA
12673956 ATATTTTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.48
Consensus pattern (22 bp):
ATTTATAACTAAATTATCACTT
Found at i:12673962 original size:22 final size:22
Alignment explanation
Indices: 12673894--12673963 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
12673884 AATTAACTAA
* *
12673894 TTTATAATTAAATTATCATTGA-
1 TTTATAACTAAATTATCAAT-AT
* *
12673916 TTTATAACTAAATTATCACTTT
1 TTTATAACTAAATTATCAATAT
*
12673938 TTTATAACTAAGTTATCAATAT
1 TTTATAACTAAATTATCAATAT
12673960 TTTA
1 TTTA
12673964 CTATCACATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.50
Consensus pattern (22 bp):
TTTATAACTAAATTATCAATAT
Found at i:12673992 original size:44 final size:44
Alignment explanation
Indices: 12673944--12674035 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
12673934 CTTTTTTATA
* * *
12673944 ACTAAGTTATCAATATTTTACTATCACATTATTAGTGATTTACT
1 ACTAAGTTATCAATAATTTACTATCAAATTATTAATGATTTACT
** * *
12673988 ACTAAGTTATGGATAATTTACTATTAAATTATTAATGATTTGCT
1 ACTAAGTTATCAATAATTTACTATCAAATTATTAATGATTTACT
12674032 ACTA
1 ACTA
12674036 TACTGTTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (44 bp):
ACTAAGTTATCAATAATTTACTATCAAATTATTAATGATTTACT
Found at i:12673997 original size:22 final size:22
Alignment explanation
Indices: 12673971--12674035 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
12673961 TTACTATCAC
12673971 ATTATTAGTGATTTACTACTAA
1 ATTATTAGTGATTTACTACTAA
* * * *
12673993 GTTA-TGGATAATTTACTATTAA
1 ATTATTAG-TGATTTACTACTAA
* *
12674015 ATTATTAATGATTTGCTACTA
1 ATTATTAGTGATTTACTACTA
12674036 TACTGTTATA
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
21 2 0.06
22 28 0.90
23 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (22 bp):
ATTATTAGTGATTTACTACTAA
Found at i:12674221 original size:22 final size:22
Alignment explanation
Indices: 12674196--12674564 Score: 127
Period size: 22 Copynumber: 16.8 Consensus size: 22
12674186 GCTATCACTC
* *
12674196 ATTTACTACTAAGTTTTCATTG
1 ATTTACTATTAAGTTATCATTG
* *
12674218 ATTTACTATTAAATTATCAATG
1 ATTTACTATTAAGTTATCATTG
*
12674240 ATTAACTATTAAGTTATCATT-
1 ATTTACTATTAAGTTATCATTG
* * *
12674261 -TTT-TTATGAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTG
* * * *
12674281 ATTTACAACTATGTTATTA-TG
1 ATTTACTATTAAGTTATCATTG
* * * *
12674302 CATTTACAACTATGTTATAATTG
1 -ATTTACTATTAAGTTATCATTG
* *
12674325 ATTTATTATTAAGTTATTA-TG
1 ATTTACTATTAAGTTATCATTG
* * * *
12674346 CTTTGACTATTATA-TTATTACTA
1 ATTT-ACTATTA-AGTTATCATTG
* * **
12674369 ATTTACTACTAAATTAAAATTG
1 ATTTACTATTAAGTTATCATTG
* *
12674391 ATATACTATTAAGTTAT-ATCTCTA
1 ATTTACTATTAAGTTATCA--T-TG
* * *
12674415 ATTTACTATACTAAATTATTACTG
1 ATTTACTAT--TAAGTTATCATTG
* * * *
12674439 ATTAATTATTAAATTAT-AGATG
1 ATTTACTATTAAGTTATCA-TTG
12674461 A-TTACTATTAAGTTAT-ATTG
1 ATTTACTATTAAGTTATCATTG
* * *
12674481 ATTTACTTTTAATTTCTAATTATT-
1 ATTTACTATTAA-GT-T-ATCATTG
* *
12674505 AATTACTACTT-AGTTATAAGTT-
1 ATTTACTA-TTAAGTTATCA-TTG
*
12674527 ATTTACTA-TAAATTATCATTG
1 ATTTACTATTAAGTTATCATTG
* *
12674548 ATTTATTACTAAGTTAT
1 ATTTACTATTAAGTTAT
12674565 TTATGATTTA
Statistics
Matches: 262, Mismatches: 59, Indels: 52
0.70 0.16 0.14
Matches are distributed among these distances:
19 14 0.05
20 8 0.03
21 50 0.19
22 141 0.54
23 10 0.04
24 26 0.10
25 5 0.02
26 7 0.03
27 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTG
Found at i:12674898 original size:22 final size:22
Alignment explanation
Indices: 12674873--12675209 Score: 136
Period size: 22 Copynumber: 15.8 Consensus size: 22
12674863 ACTGAATCTT
12674873 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTA
*
12674895 ATTTACTA-TAAGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
* * *
12674916 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAGTTATCATTA
* *
12674938 ATTAACTAATAAGTTATCACTT-
1 ATTTACTATTAAGTTATCA-TTA
* *
12674960 A-TTATTTATTAAGTTATCCTTA
1 ATTTA-CTATTAAGTTATCATTA
* * * *
12674982 AGTTACTAATATG-TGTCA-TA
1 ATTTACTATTAAGTTATCATTA
* * * * *
12675002 CATTTACAATTATG-TATAAATG
1 -ATTTACTATTAAGTTATCATTA
* *
12675024 ATTTACTATTAAGTTAT-TTGTT
1 ATTTACTATTAAGTTATCAT-TA
* * *
12675046 ATTTCCT-TCTATGTTATTATGT-
1 ATTTACTAT-TAAGTTATCAT-TA
* * * *
12675068 ATTAATTATCATGTTATCA-T-
1 ATTTACTATTAAGTTATCATTA
*
12675088 A--TATTATT---TTATCAATT-
1 ATTTACTATTAAGTTATC-ATTA
* * *
12675105 ATTTACTATTAAATTATTATTT
1 ATTTACTATTAAGTTATCATTA
*
12675127 ATTTACTATTAAGTTATTATTA
1 ATTTACTATTAAGTTATCATTA
* * *
12675149 TTTTACTCTTAAGTTAT-TTATA
1 ATTTACTATTAAGTTATCAT-TA
12675171 ATTTACTA-TACAGTTATCATTA
1 ATTTACTATTA-AGTTATCATTA
* *
12675193 ATTTATTATAAAGTTAT
1 ATTTACTATTAAGTTAT
12675210 TACTGATTTT
Statistics
Matches: 241, Mismatches: 50, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
15 5 0.02
16 1 0.00
17 2 0.01
18 5 0.02
19 6 0.02
20 4 0.02
21 57 0.24
22 151 0.63
23 10 0.04
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:12674973 original size:44 final size:43
Alignment explanation
Indices: 12674873--12674977 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 43
12674863 ACTGAATCTT
* * *
12674873 ATTTACTATTAAGTTATCATTAATTTACTATAAGTTATCATTG
1 ATTTATTATTAAGTTATCAATAATTAACTATAAGTTATCATTG
*
12674916 ATTTATTACTAAGTTATCAATAATTAACTAATAAGTTATCACTT-
1 ATTTATTATTAAGTTATCAATAATTAACT-ATAAGTTATCA-TTG
12674960 A-TTATTTATTAAGTTATC
1 ATTTA-TTATTAAGTTATC
12674978 CTTAAGTTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
43 28 0.52
44 24 0.44
45 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (43 bp):
ATTTATTATTAAGTTATCAATAATTAACTATAAGTTATCATTG
Found at i:12677555 original size:17 final size:17
Alignment explanation
Indices: 12677535--12677583 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
12677525 TTTAATATAG
12677535 TTTAATTTGATATAAAT
1 TTTAATTTGATATAAAT
*
12677552 TTT-ATTTG-TA-AATT
1 TTTAATTTGATATAAAT
*
12677566 TTTAATTT-ATTTAAAT
1 TTTAATTTGATATAAAT
12677582 TT
1 TT
12677584 AAATAACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
14 6 0.23
15 7 0.27
16 10 0.38
17 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTAATTTGATATAAAT
Found at i:12678941 original size:150 final size:153
Alignment explanation
Indices: 12678668--12678958 Score: 387
Period size: 150 Copynumber: 1.9 Consensus size: 153
12678658 AATTGGTTTA
**
12678668 AATTTAAATAACTAACGAATAAAAAGCTATACATTTAATGGTAAATAATCTTTATTAAATAAATA
1 AATTTAAATAACTAACGAATAAAAAGCTATACATTTAATGAAAAATAATCTTTATTAAATAAATA
12678733 AATAAATGCTAGAAATTTAAAAGTAAATTTGTTATTTTGTAAAATTCATAAGGATATTTATG-CT
66 AATAAATGCTAGAAATTTAAAAGTAAATTTGTTATTTTGTAAAATTCATAAGGATATTTATGTC-
*
12678797 ATTCACTTTTAACACTTTTGGATT
130 ATTCAATTTTAACACTTTTGGATT
* * * * * *
12678821 AATTTAAATAATTAACTAAT-AAATGCTATATATTTAATGAAAAATAATATTT-TATACATAAAT
1 AATTTAAATAACTAACGAATAAAAAGCTATACATTTAATGAAAAATAATCTTTAT-TAAATAAAT
* * ** *
12678884 AAA-AAATGCTA-AAATTTAAAGGTACATTTGTTATTTCT-TAAAATTTGTAAGGGTATTTATGT
65 AAATAAATGCTAGAAATTTAAAAGTAAATTTGTTATTT-TGTAAAATTCATAAGGATATTTATGT
12678946 CATTCAATTTTAA
129 CATTCAATTTTAA
12678959 TAGTTTTAGA
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
150 54 0.45
151 11 0.09
152 38 0.31
153 18 0.15
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (153 bp):
AATTTAAATAACTAACGAATAAAAAGCTATACATTTAATGAAAAATAATCTTTATTAAATAAATA
AATAAATGCTAGAAATTTAAAAGTAAATTTGTTATTTTGTAAAATTCATAAGGATATTTATGTCA
TTCAATTTTAACACTTTTGGATT
Found at i:12685115 original size:22 final size:23
Alignment explanation
Indices: 12685090--12685133 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
12685080 TTTTTGAATC
* *
12685090 AATGTATATATATTTT-TTTCTA
1 AATGAATAAATATTTTATTTCTA
*
12685112 AATGAATAAATGTTTTATTTCT
1 AATGAATAAATATTTTATTTCT
12685134 TTATTTTCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (23 bp):
AATGAATAAATATTTTATTTCTA
Found at i:12690232 original size:59 final size:59
Alignment explanation
Indices: 12690029--12690334 Score: 348
Period size: 60 Copynumber: 5.2 Consensus size: 59
12690019 TTTTAAGGTT
* * **
12690029 TTTTATTTTCAAGGAAAATTGGTACTTTCAACTTTTCCTTAAGAATATTTTTTCGTCAAA
1 TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT-GAAAAA
* * * * * *
12690089 TTTTATTTTTAAGAAAAATTGGTATTTTCAACTTTTCCTCAAGAAATGTTTTTTTG-AAAA
1 TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAA-AAAT-ATTTTTTGAAAAA
*
12690149 TTTTATTTTCAAGGAAAATCGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAAA
1 TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAAA
* * * * * **
12690208 TTTTATTTTTAAGGGAAGTTGATACTTTCAACTTTCCCTCAAAAATATTTTTAAAAAAA
1 TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAAA
* * * *
12690267 TTTTTATGTTCAAAGAAAATTGATACATTCAAC-TTTCCTTCAAAAATATTTTTT-CAAAA
1 -TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTGAAAAA
12690326 TTTTATTTT
1 TTTTATTTT
12690335 AAAGAGATTA
Statistics
Matches: 208, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
58 15 0.07
59 68 0.33
60 115 0.55
61 4 0.02
62 6 0.03
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (59 bp):
TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAAA
Found at i:12690285 original size:119 final size:120
Alignment explanation
Indices: 12690028--12690339 Score: 398
Period size: 119 Copynumber: 2.6 Consensus size: 120
12690018 ATTTTAAGGT
* * **
12690028 TTTTTATTTTCAAGGAAAATTGGTACTTTCAACTTTTCCTTAAGAATATTTTTTCGTCAAATTTT
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT-GAAAAATTTT
* * * * ***
12690093 ATTTTTAAGAAAAATTGGTATTTTCAACTTTTCCTCAAGAAATGTTTTTTTGAAAA
65 ATTTTTAAGAAAAATTGATACTTTCAACTTTCCCTCAAGAAATATTTTTAAAAAAA
*
12690149 -TTTTATTTTCAAGGAAAATCGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAAATTTTA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAAATTTTA
** *
12690213 TTTTTAAGGGAAGTTGATACTTTCAACTTTCCCTCAA-AAATATTTTTAAAAAAA
66 TTTTTAAGAAAAATTGATACTTTCAACTTTCCCTCAAGAAATATTTTTAAAAAAA
* * * *
12690267 TTTTTATGTTCAAAGAAAATTGATACATTCAAC-TTTCCTTCAAAAATATTTTTT-CAAAATTTT
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTGAAAAATTTT
*
12690330 ATTTTAAAGA
65 ATTTTTAAGA
12690340 GATTATTTAA
Statistics
Matches: 167, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
118 36 0.22
119 81 0.49
120 50 0.30
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (120 bp):
TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAAATTTTA
TTTTTAAGAAAAATTGATACTTTCAACTTTCCCTCAAGAAATATTTTTAAAAAAA
Found at i:12691435 original size:3 final size:3
Alignment explanation
Indices: 12691422--12691468 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
12691412 ATTTTAAATG
12691422 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12691468 T
1 T
12691469 TTAATGACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:12695979 original size:3 final size:3
Alignment explanation
Indices: 12695971--12696026 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
12695961 AAAATATTAT
12695971 ATA ATA AT- ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12696017 ATA ATTA ATA
1 ATA A-TA ATA
12696027 TACTTAAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:12696583 original size:34 final size:34
Alignment explanation
Indices: 12696544--12696648 Score: 90
Period size: 34 Copynumber: 3.1 Consensus size: 34
12696534 CAAAATTTTT
*
12696544 AAGCTTCCAGATATGCAAATTTAGAAACTTTTAA
1 AAGCTTCTAGATATGCAAATTTAGAAACTTTTAA
* * *
12696578 AAGCTTTTGGATATGC--ATTCTAGAGACTTTTTAA
1 AAGCTTCTAGATATGCAAATT-TAGAAAC-TTTTAA
** * *
12696612 GTGCTTCTAGATTTACAAATTT-GAAAACTTTTAA
1 AAGCTTCTAGATATGCAAATTTAG-AAACTTTTAA
12696646 AAG
1 AAG
12696649 TTTTCAAATT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
32 3 0.06
33 6 0.11
34 37 0.70
35 4 0.08
36 3 0.06
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (34 bp):
AAGCTTCTAGATATGCAAATTTAGAAACTTTTAA
Found at i:12702234 original size:30 final size:30
Alignment explanation
Indices: 12702198--12702256 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
12702188 TAAGAAGTTG
12702198 TTGAAGGTCAAAAGGCAGTGGATAGTAGTA
1 TTGAAGGTCAAAAGGCAGTGGATAGTAGTA
12702228 TTGAAGGTCAAAAGGCAGTGGATAGTAGT
1 TTGAAGGTCAAAAGGCAGTGGATAGTAGT
12702257 GGAGGAAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.24
Consensus pattern (30 bp):
TTGAAGGTCAAAAGGCAGTGGATAGTAGTA
Found at i:12703408 original size:3 final size:3
Alignment explanation
Indices: 12703400--12703426 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12703390 ATAAGCTTGT
12703400 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
12703427 ATATTTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:12704905 original size:74 final size:75
Alignment explanation
Indices: 12704770--12704912 Score: 182
Period size: 74 Copynumber: 1.9 Consensus size: 75
12704760 TCGAACACAG
* * *
12704770 ATGTTTCTTGTTTTGCTTTACGTATCTCATGATTCATGAAGCCACTCAAGTCTCGACGAAGACTC
1 ATGTTTCTTGCTTTGCTTTA-GTATCTCATGATTCATGAAACCACTCAAGTCTCGAAGAAGACTC
12704835 GACTCTTCAAT
65 GACTCTTCAAT
* * * * *
12704846 ATGTTTCTTGCTTTGCTTT-GTGTTTCATGATTCTTGAAACCGCTCAAGTCTC-ATAGAAGACTT
1 ATGTTTCTTGCTTTGCTTTAGTATCTCATGATTCATGAAACCACTCAAGTCTCGA-AGAAGACTC
12704909 GACT
65 GACT
12704913 TCATCAAAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
73 1 0.02
74 39 0.67
76 18 0.31
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (75 bp):
ATGTTTCTTGCTTTGCTTTAGTATCTCATGATTCATGAAACCACTCAAGTCTCGAAGAAGACTCG
ACTCTTCAAT
Found at i:12706387 original size:95 final size:95
Alignment explanation
Indices: 12706224--12706427 Score: 275
Period size: 95 Copynumber: 2.1 Consensus size: 95
12706214 AATCCCAACA
* * * * * *
12706224 CCCACATTGATTGTTGCCAACATCTTCTCATGAGCCAGGCATAGAAGTTTTCCCCTATGGCCTGA
1 CCCACATCGATTGTTGCCAACATCTTCTCATGAGCCAGGCATAAAAGCTCTACCCTATGGCCCGA
*
12706289 TGTGTGAAAAAGGAAGATTGTTGAGGTTAT
66 TGTGTGAAAAAGGAAGATTGTTGAAGTTAT
* ** *
12706319 CCCACATCAATTGTTGCCAACATC-TCTTCATGAGCTGGGTATAAAAGCTCTACCCTATGGCCCG
1 CCCACATCGATTGTTGCCAACATCTTC-TCATGAGCCAGGCATAAAAGCTCTACCCTATGGCCCG
* *
12706383 ATGTGTGAAAAGGGGAGATTGTTGAAGTTAT
65 ATGTGTGAAAAAGGAAGATTGTTGAAGTTAT
12706414 CCCACATCGATTGT
1 CCCACATCGATTGT
12706428 GAAAGGAGAT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 2 0.02
95 92 0.98
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (95 bp):
CCCACATCGATTGTTGCCAACATCTTCTCATGAGCCAGGCATAAAAGCTCTACCCTATGGCCCGA
TGTGTGAAAAAGGAAGATTGTTGAAGTTAT
Found at i:12706861 original size:13 final size:13
Alignment explanation
Indices: 12706843--12706867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12706833 CTTAATTTTT
12706843 AGAATTATGAGAG
1 AGAATTATGAGAG
12706856 AGAATTATGAGA
1 AGAATTATGAGA
12706868 TCTATATGGA
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:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (13 bp):
AGAATTATGAGAG
Found at i:12707348 original size:2 final size:2
Alignment explanation
Indices: 12707341--12707374 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
12707331 TGGATCTTTC
12707341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12707375 TGGAAGGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12709543 original size:24 final size:24
Alignment explanation
Indices: 12709516--12709561 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12709506 ATAATAGTTC
12709516 TAATAATGAAATAAAATAAAAAAT
1 TAATAATGAAATAAAATAAAAAAT
* * *
12709540 TAATAATTAAATATATTAAAAA
1 TAATAATGAAATAAAATAAAAA
12709562 TAATTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
TAATAATGAAATAAAATAAAAAAT
Found at i:12711665 original size:16 final size:16
Alignment explanation
Indices: 12711646--12711676 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12711636 TTTTATTCAG
12711646 TTTTATTTCAAATTTT
1 TTTTATTTCAAATTTT
*
12711662 TTTTATTTCATATTT
1 TTTTATTTCAAATTT
12711677 ATCATTTTTA
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:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTTCAAATTTT
Found at i:12712855 original size:21 final size:21
Alignment explanation
Indices: 12712830--12712873 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
12712820 GAAACGTGGC
12712830 AAAATCAGAAACCA-AAGATCA
1 AAAATCA-AAACCATAAGATCA
* *
12712851 AAAATGAAAAGCATAAGATCA
1 AAAATCAAAACCATAAGATCA
12712872 AA
1 AA
12712874 CAAACCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.64, C:0.14, G:0.11, T:0.11
Consensus pattern (21 bp):
AAAATCAAAACCATAAGATCA
Found at i:12713644 original size:13 final size:13
Alignment explanation
Indices: 12713610--12713668 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
12713600 TTTTTTGGTA
12713610 TTTTATTTATTATT
1 TTTTATTTA-TATT
12713624 ATTATTATTTATATT
1 -TT-TTATTTATATT
*
12713639 TTTTATTTAT-GT
1 TTTTATTTATATT
* *
12713651 GTTTACTTATATT
1 TTTTATTTATATT
12713664 TTTTA
1 TTTTA
12713669 AAGTATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 9 0.24
13 13 0.35
14 2 0.05
15 6 0.16
16 7 0.19
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTTATTTATATT
Found at i:12713813 original size:60 final size:59
Alignment explanation
Indices: 12713733--12714149 Score: 440
Period size: 60 Copynumber: 6.8 Consensus size: 59
12713723 AAATTTTCCA
* * *
12713733 AAAAAAAAAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTCT
1 AAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT-T
* * * *
12713793 CAAAAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAAATTA
1 AAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTT
* * * * *
12713852 AAAAAAAAACATTTCTTGAGGAAAAGTTGGAAGTACCAATTTTCCTTAAAAATAAAACTT
1 AAAAAAAAACATTT-TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTT
* * * *
12713912 GAAGAAAAATATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCT
1 AAAAAAAAACATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAA-TT-T
* * * *
12713974 AAAATAAAAATTTTCAAAAGCATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAA
1 AAAA-AAAAA----C---A--TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
12714039 ATTTT
56 A-TTT
* * * *
12714044 AGAAAAAAACATTTTTGAGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTAT
1 AAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATT-T
*
12714105 AAAAAAAAGCA-TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
12714150 GTATAAAAAC
Statistics
Matches: 300, Mismatches: 41, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
59 14 0.05
60 208 0.69
61 15 0.05
62 4 0.01
63 5 0.02
65 1 0.00
69 5 0.02
70 5 0.02
71 39 0.13
72 4 0.01
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (59 bp):
AAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTT
Found at i:12714017 original size:131 final size:130
Alignment explanation
Indices: 12713867--12714112 Score: 334
Period size: 131 Copynumber: 1.9 Consensus size: 130
12713857 AAAACATTTC
* *
12713867 TTGAGGAAAAGTTGGAAGTACCAATTTTCCTTAAAAATAAAA-CTT-GAAGAAAAATATTTTTAA
1 TTGAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAATCTTAGAA-AAAAACATTTTT-A
* * *
12713930 AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAATAAAAATTTTCAAAAGC
64 AGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAAATTATAAAA-AAAAATTTTCAAAAGC
12713995 ATT
128 ATT
* * * * * *
12713998 TTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTTAGAAAAAAACATTTTTGAG
1 TTGAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAATCTTAGAAAAAAACATTTTTAAG
* *
12714063 GAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATAAAAAAAA
66 GAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAAATTATAAAAAAAA
12714113 GCATTTTAAG
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
130 4 0.04
131 80 0.80
132 13 0.13
133 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (130 bp):
TTGAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAATCTTAGAAAAAAACATTTTTAAG
GAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAAATTATAAAAAAAAATTTTCAAAAGCATT
Found at i:12717295 original size:24 final size:23
Alignment explanation
Indices: 12717262--12717328 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
12717252 TGAGAAAAAA
*
12717262 GAAAAGAAGAGGATGAAAAAAGAT-
1 GAAAAAAAGAGGA-GAAAAAA-ATG
*
12717286 GAAAAAAAGAAAGAGAAAAAAATG
1 GAAAAAAAG-AGGAGAAAAAAATG
12717310 GATAAAAAA-AGGAGAAAAA
1 GA-AAAAAAGAGGAGAAAAA
12717329 GTGACAAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 11 0.30
24 17 0.46
25 9 0.24
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (23 bp):
GAAAAAAAGAGGAGAAAAAAATG
Found at i:12717304 original size:23 final size:23
Alignment explanation
Indices: 12717278--12717329 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
12717268 AAGAGGATGA
12717278 AAAAAGAT-GAAAAAAAGAAAGAG
1 AAAAAGATGGAAAAAAA-AAAGAG
* * *
12717301 AAAAAAATGGATAAAAAAAGGAG
1 AAAAAGATGGAAAAAAAAAAGAG
12717324 AAAAAG
1 AAAAAG
12717330 TGACAAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (23 bp):
AAAAAGATGGAAAAAAAAAAGAG
Found at i:12717367 original size:25 final size:25
Alignment explanation
Indices: 12717313--12717367 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
12717303 AAAAATGGAT
*
12717313 AAAAAAAGGAGAAAAAGTGACAAAG
1 AAAAAAAGGAGAAAAAATGACAAAG
*
12717338 GAAAAAAGGA-AAAAAATAGA-AAATG
1 AAAAAAAGGAGAAAAAAT-GACAAA-G
12717363 AAAAA
1 AAAAA
12717368 GTATGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (25 bp):
AAAAAAAGGAGAAAAAATGACAAAG
Found at i:12718507 original size:21 final size:21
Alignment explanation
Indices: 12718482--12718565 Score: 105
Period size: 21 Copynumber: 3.8 Consensus size: 21
12718472 AATTTTTTTA
*
12718482 AAATGAGAATTTTTAAGTCTT
1 AAATGAGAATCTTTAAGTCTT
*
12718503 AAATGAGAATCTTTAAGACGTTTT
1 AAATGAGAATCTTT-A-A-GTCTT
*
12718527 CAAATGAGAATCTTTGAGTCTT
1 -AAATGAGAATCTTTAAGTCTT
12718549 AAATGAGAATCTTTAAG
1 AAATGAGAATCTTTAAG
12718566 ACATTTTCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
21 29 0.54
22 5 0.09
23 2 0.04
24 4 0.07
25 14 0.26
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (21 bp):
AAATGAGAATCTTTAAGTCTT
Found at i:12718534 original size:46 final size:46
Alignment explanation
Indices: 12718477--12718573 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 46
12718467 ATCCTAATTT
* * *
12718477 TTTTAAAATGAGAATTTTTAAGTCTTAAATGAGAATCTTTAAGACG
1 TTTTCAAATGAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGACA
*
12718523 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACA
1 TTTTCAAATGAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGACA
12718569 TTTTC
1 TTTTC
12718574 TTTAAGACGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (46 bp):
TTTTCAAATGAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGACA
Found at i:12718537 original size:25 final size:25
Alignment explanation
Indices: 12718503--12718573 Score: 96
Period size: 21 Copynumber: 3.0 Consensus size: 25
12718493 TTTAAGTCTT
12718503 AAATGAGAATCTTTAAGACGTTTTC
1 AAATGAGAATCTTTAAGACGTTTTC
*
12718528 AAATGAGAATCTTT--GA-GTCTT-
1 AAATGAGAATCTTTAAGACGTTTTC
*
12718549 AAATGAGAATCTTTAAGACATTTTC
1 AAATGAGAATCTTTAAGACGTTTTC
12718574 TTTAAGACGA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 14 0.36
22 4 0.10
23 4 0.10
24 3 0.08
25 14 0.36
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (25 bp):
AAATGAGAATCTTTAAGACGTTTTC
Found at i:12718730 original size:65 final size:64
Alignment explanation
Indices: 12718627--12718754 Score: 211
Period size: 65 Copynumber: 2.0 Consensus size: 64
12718617 ATCTTTGAGG
* *
12718627 TGTGAAACCCAAAATTTGTCTAATGTGAATCTTTGAATTCAAATGAGAATCTTTGAATTTTAAA
1 TGTGAAACCCAAAATTTGTCGAATGTGAATCTTCGAATTCAAATGAGAATCTTTGAATTTTAAA
* *
12718691 TGTGAAATCCTAAAGTTTGTCGAATGTGAATCTTCGAATTCAAATGAGAATCTTTGAATTTTAA
1 TGTGAAA-CCCAAAATTTGTCGAATGTGAATCTTCGAATTCAAATGAGAATCTTTGAATTTTAA
12718755 GTGAGAATCT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 7 0.12
65 52 0.88
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (64 bp):
TGTGAAACCCAAAATTTGTCGAATGTGAATCTTCGAATTCAAATGAGAATCTTTGAATTTTAAA
Found at i:12718761 original size:21 final size:21
Alignment explanation
Indices: 12718648--12718768 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 21
12718638 AAATTTGTCT
* *
12718648 AATGTGAATCTTTGAA-TTCA
1 AATGAGAATCTTTGAATTTTA
12718668 AATGAGAATCTTTGAATTTTA
1 AATGAGAATCTTTGAATTTTA
* * * *
12718689 AATGTGAAATC-CTAAAGTTTGTCG
1 AATGAG-AATCTTTGAA-TTT-T-A
* * *
12718713 AATGTGAATCTTCGAA-TTCA
1 AATGAGAATCTTTGAATTTTA
12718733 AATGAGAATCTTTGAATTTTA
1 AATGAGAATCTTTGAATTTTA
*
12718754 AGTGAGAATCTTTGA
1 AATGAGAATCTTTGA
12718769 GGTATGAAAC
Statistics
Matches: 79, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
20 29 0.37
21 28 0.35
22 9 0.11
23 5 0.06
24 8 0.10
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (21 bp):
AATGAGAATCTTTGAATTTTA
Found at i:12718802 original size:79 final size:80
Alignment explanation
Indices: 12718653--12718871 Score: 264
Period size: 79 Copynumber: 2.7 Consensus size: 80
12718643 TGTCTAATGT
* * *
12718653 GAATCTTTGAA-TTCAAATGAGAATCTTTGA-ATTTTAAATGTGAAATCCTAAAGTTTGTCGAAT
1 GAATCTTTGAATTTCAAATGAGAATCTTTGAGA---T--A--TGAAACCCTAAAATTTGTTGAAT
* *
12718716 GTGAATCTTCGAATTCAAATGA
59 GTAAATCTTCGAATTCAAATAA
* * *
12718738 GAATCTTTGAATTTTAAGTGAGAATCTTTGAGGTATGAAACCC-AAAATTTGTTGAATGTAAATC
1 GAATCTTTGAATTTCAAATGAGAATCTTTGAGATATGAAACCCTAAAATTTGTTGAATGTAAATC
12718802 TTCGAATTCAAATAA
66 TTCGAATTCAAATAA
* *
12718817 GAATCTTTGAATTTCAAATGAGAATCTTTGAGATGTGAAACCCTAAAGTTTGTTG
1 GAATCTTTGAATTTCAAATGAGAATCTTTGAGATATGAAACCCTAAAATTTGTTG
12718872 GGTGTGAATC
Statistics
Matches: 118, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
79 71 0.60
80 17 0.14
82 1 0.01
84 1 0.01
85 11 0.09
86 17 0.14
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (80 bp):
GAATCTTTGAATTTCAAATGAGAATCTTTGAGATATGAAACCCTAAAATTTGTTGAATGTAAATC
TTCGAATTCAAATAA
Found at i:12718834 original size:21 final size:20
Alignment explanation
Indices: 12718798--12718847 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
12718788 GTTGAATGTA
*
12718798 AATCTTCGAATTCAAATAAG
1 AATCTTTGAATTCAAATAAG
*
12718818 AATCTTTGAATTTCAAATGAG
1 AATCTTTGAA-TTCAAATAAG
12718839 AATCTTTGA
1 AATCTTTGA
12718848 GATGTGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (20 bp):
AATCTTTGAATTCAAATAAG
Found at i:12719448 original size:44 final size:47
Alignment explanation
Indices: 12719355--12719473 Score: 163
Period size: 45 Copynumber: 2.6 Consensus size: 47
12719345 AAAGTTGTAA
*
12719355 AGCCTCTGTTTAGAGGAGCCTTATTTATTTTTTTTTCAAAAGTCATTG
1 AGCCTCTGTTTAGAGGAGCCTTATTTA-TTTTTTCTCAAAAGTCATTG
* *
12719403 AGCCTCTG-TTAGAGGAGTCTTATTTA-TTTTTCTC-AAAGTCGTTG
1 AGCCTCTGTTTAGAGGAGCCTTATTTATTTTTTCTCAAAAGTCATTG
* *
12719447 AGCCTTTGTTTAGAGGAGCCTTGTTTA
1 AGCCTCTGTTTAGAGGAGCCTTATTTA
12719474 GAGGAGTCTT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 16 0.25
45 23 0.36
47 17 0.27
48 8 0.12
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (47 bp):
AGCCTCTGTTTAGAGGAGCCTTATTTATTTTTTCTCAAAAGTCATTG
Found at i:12719472 original size:15 final size:15
Alignment explanation
Indices: 12719446--12719488 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
12719436 CAAAGTCGTT
12719446 GAGCCTTTGTTTAGAG
1 GAGCC-TTGTTTAGAG
12719462 GAGCCTTGTTTAGAG
1 GAGCCTTGTTTAGAG
*
12719477 GAGTCTTGTTTA
1 GAGCCTTGTTTA
12719489 TTTTCCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.19, C:0.12, G:0.30, T:0.40
Consensus pattern (15 bp):
GAGCCTTGTTTAGAG
Found at i:12719498 original size:60 final size:59
Alignment explanation
Indices: 12719402--12719528 Score: 182
Period size: 60 Copynumber: 2.1 Consensus size: 59
12719392 AAAAGTCATT
* * * * *
12719402 GAGCCTCTGTTAGAGGAGTCTTATTTATTTTTCTCAAAGTCGTTGAGCCTTTGTTTAGAG
1 GAGCCT-TGTTAGAGGAGTCTTATTTATTTTCCTCAAAGTCATTAAGCCTCTGCTTAGAG
*
12719462 GAGCCTTGTTTAGAGGAGTCTTGTTTATTTTCCTCAAAGTCATTAAGCCTCTGCTTAGAG
1 GAGCCTTG-TTAGAGGAGTCTTATTTATTTTCCTCAAAGTCATTAAGCCTCTGCTTAGAG
12719522 GAGCCTT
1 GAGCCTT
12719529 TATTTTTCCA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 2 0.03
60 58 0.97
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.39
Consensus pattern (59 bp):
GAGCCTTGTTAGAGGAGTCTTATTTATTTTCCTCAAAGTCATTAAGCCTCTGCTTAGAG
Found at i:12719543 original size:42 final size:39
Alignment explanation
Indices: 12719497--12719617 Score: 143
Period size: 41 Copynumber: 3.0 Consensus size: 39
12719487 TATTTTCCTC
12719497 AAAGTCATTAAGCCTCTGCTTAGAGGAGCCTTTATTTTTCCA
1 AAAGTCATT-AGCCTCTGCTTAGAGGAGCCTTTATTTTT--A
** * *
12719539 AAAGTTGTTAGCCTCTGCTTAGGGGAGTCCTTTATTTTTT
1 AAAGTCATTAGCCTCTGCTTAGAGGAG-CCTTTATTTTTA
**
12719579 AAAGTCATTGAGCCTCTATTTAGAGGAGCCTTTATTTTT
1 AAAGTCATT-AGCCTCTGCTTAGAGGAGCCTTTATTTTT
12719618 TTGAAAGTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
40 18 0.26
41 32 0.47
42 18 0.26
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (39 bp):
AAAGTCATTAGCCTCTGCTTAGAGGAGCCTTTATTTTTA
Found at i:12719560 original size:41 final size:39
Alignment explanation
Indices: 12719507--12719647 Score: 138
Period size: 41 Copynumber: 3.5 Consensus size: 39
12719497 AAAGTCATTA
12719507 AGCCTCTGCTTAGAGGAGCCTTTATTTTTCCAAAAGTTGTT
1 AGCCTCTGCTTAGAGGAGCCTTTATTTTT--AAAAGTTGTT
* * **
12719548 AGCCTCTGCTTAGGGGAGTCCTTTATTTTTTAAAGTCATT
1 AGCCTCTGCTTAGAGGAG-CCTTTATTTTTAAAAGTTGTT
** * *
12719588 GAGCCTCTATTTAGAGGAGCCTTTATTTTTTTGAAAGTTGTC
1 -AGCCTCTGCTTAGAGGAGCCTTTA--TTTTTAAAAGTTGTT
* *
12719630 AGCCTCTTCTTAGGGGAG
1 AGCCTCTGCTTAGAGGAG
12719648 TTTTGTGCCC
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
40 13 0.16
41 47 0.57
42 22 0.27
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (39 bp):
AGCCTCTGCTTAGAGGAGCCTTTATTTTTAAAAGTTGTT
Found at i:12719602 original size:82 final size:82
Alignment explanation
Indices: 12719497--12719648 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 82
12719487 TATTTTCCTC
* *
12719497 AAAGTCATTAAGCCTCTGCTTAGAGGAGCCTTTATTTTTCCAAAAGTTGTTAGCCTCTGCTTAGG
1 AAAGTCATTAAGCCTCTACTTAGAGGAGCCTTTATTTTTCCAAAAGTTGTCAGCCTCTGCTTAGG
12719562 GGAGTCCTTTATTTTTT
66 GGAGTCCTTTATTTTTT
* * *** *
12719579 AAAGTCATTGAGCCTCTATTTAGAGGAGCCTTTATTTTTTTGAAAGTTGTCAGCCTCTTCTTAGG
1 AAAGTCATTAAGCCTCTACTTAGAGGAGCCTTTATTTTTCCAAAAGTTGTCAGCCTCTGCTTAGG
12719644 GGAGT
66 GGAGT
12719649 TTTGTGCCCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 62 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.39
Consensus pattern (82 bp):
AAAGTCATTAAGCCTCTACTTAGAGGAGCCTTTATTTTTCCAAAAGTTGTCAGCCTCTGCTTAGG
GGAGTCCTTTATTTTTT
Found at i:12719858 original size:10 final size:11
Alignment explanation
Indices: 12719843--12719896 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 11
12719833 GATTGTAGGG
12719843 ATTTTTA-TTC
1 ATTTTTATTTC
12719853 ATTTTTATTTC
1 ATTTTTATTTC
12719864 ATTTTT-TTT-
1 ATTTTTATTTC
*
12719873 ATTTCATATTTATC
1 ATTT-TTA-TT-TC
12719887 ATTTTTATTT
1 ATTTTTATTT
12719897 TTATTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
9 4 0.11
10 11 0.31
11 10 0.28
12 4 0.11
13 3 0.08
14 4 0.11
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTTATTTC
Found at i:12719878 original size:25 final size:22
Alignment explanation
Indices: 12719844--12719892 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 22
12719834 ATTGTAGGGA
*
12719844 TTTTTATTCATTTTTATTTCATTT
1 TTTTTATTCATATTTA--TCATTT
12719868 TTTTTATTTCATATTTATCATTT
1 TTTTTA-TTCATATTTATCATTT
12719891 TT
1 TT
12719893 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 6 0.26
25 9 0.39
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTATTCATATTTATCATTT
Found at i:12719904 original size:20 final size:20
Alignment explanation
Indices: 12719853--12719905 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
12719843 ATTTTTATTC
* **
12719853 ATTTTTATTTCATTTTTTTT
1 ATTTTTATTTTATCATTTTT
*
12719873 A-TTTCATATTTATCATTTTT
1 ATTTTTAT-TTTATCATTTTT
12719893 ATTTTTATTTTAT
1 ATTTTTATTTTAT
12719906 GGTCTATCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 5 0.19
20 16 0.62
21 5 0.19
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTATTTTATCATTTTT
Found at i:12721877 original size:64 final size:60
Alignment explanation
Indices: 12721787--12721971 Score: 223
Period size: 60 Copynumber: 3.0 Consensus size: 60
12721777 AAAAATTTCC
*
12721787 AAAAAAAAAAAAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATT
1 AAAAAAAAAAAAAATTTTTAA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
*
12721848 AAAAAAAAAAAAAGCATTTCTTGAAGAAAAGTTGGAAGTATCAATTTTCCTTAAAAATAAAACTT
1 AAAAAAAAAAAAA--ATTT-TT-AAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA-TT
* * * *
12721913 ---GAAGAAAAATATTTTTAAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAGTAAAATT
1 AAAAAAAAAAAAAATTTTT-AAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
12721972 TCTAAAATAA
Statistics
Matches: 110, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
59 7 0.06
60 38 0.35
61 13 0.12
62 7 0.06
63 4 0.04
64 37 0.34
65 4 0.04
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (60 bp):
AAAAAAAAAAAAAATTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
Found at i:12724707 original size:14 final size:14
Alignment explanation
Indices: 12724688--12724715 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12724678 TAAACAAAAA
12724688 ATATTTGTATTTTG
1 ATATTTGTATTTTG
12724702 ATATTTGTATTTTG
1 ATATTTGTATTTTG
12724716 TTTGTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (14 bp):
ATATTTGTATTTTG
Found at i:12730237 original size:76 final size:76
Alignment explanation
Indices: 12730123--12730275 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
12730113 CTTTATTGCC
* *
12730123 ATCAATCATCATCTTCATTGCCTTCAAAGATTGAAAAAATCCAATAGGTAACTCACCTGAAAAGT
1 ATCAATCATCATCTTCATTGCCTTCAAAGATTGAAAAAATCAAATAAGTAACTCACCTGAAAAGT
12730188 TATTAGAAGCA
66 TATTAGAAGCA
12730199 ATCAATCATCATCTTCATTGCCTTCAAAGATTGAAAAAATCAAATAAGTAACTCACCTGAAAAGT
1 ATCAATCATCATCTTCATTGCCTTCAAAGATTGAAAAAATCAAATAAGTAACTCACCTGAAAAGT
12730264 TATTAGAAGCA
66 TATTAGAAGCA
12730275 A
1 A
12730276 GGTCCAATAT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.27
Consensus pattern (76 bp):
ATCAATCATCATCTTCATTGCCTTCAAAGATTGAAAAAATCAAATAAGTAACTCACCTGAAAAGT
TATTAGAAGCA
Found at i:12751916 original size:9 final size:9
Alignment explanation
Indices: 12751889--12751922 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
12751879 ACCTTAAAAT
12751889 TTTTATATA
1 TTTTATATA
12751898 TTATTAATATA
1 TT-TT-ATATA
12751909 TTTTATATA
1 TTTTATATA
12751918 TTTTA
1 TTTTA
12751923 AGAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:12752024 original size:199 final size:201
Alignment explanation
Indices: 12751768--12752175 Score: 671
Period size: 199 Copynumber: 2.0 Consensus size: 201
12751758 AAAATTCACA
* *
12751768 ATTATAAATAACATTTTTTTCAACCAAATATTTTTTCTTATTATATGTTACATGTTCTTGTTATA
1 ATTATATATAACATTTTTTTCAACCAAATATTTTTTCTTATTATATGTTACATGTTCTTATTATA
* * *
12751833 ACAATTTTTTCTTATTATAATTTTGAATTTTATTTTTATATATTGCACCTTAAA-ATTTTTATAT
66 AC-ATTTTTTCTTACTATAATTTTGAATTTTATTCTTATATATTGCACCTAAAATATTTTTATAT
* * * *
12751897 ATTATTAATATATTTTATATATTTTAAGAAAAAATTATTATTATAAATAATTATTTTATGTGAGT
130 ATTATTAATAAATTAT-TATATTTTAAGAAAAAAATATTATTAAAAATAATTATTTTATGTGAGT
12751962 ATTTGCTT
194 ATTTGCTT
12751970 ATTATATATAACATTTTTTTCAACCAAA-A-TTTTT-TTATTATATGTTACATGTTCTTATTATA
1 ATTATATATAACATTTTTTTCAACCAAATATTTTTTCTTATTATATGTTACATGTTCTTATTATA
*
12752032 ACATTTTTTCTTACTATAATTTTGAATTTTGTTCTTATATATTGCACCTAAAATTATTTTTATAT
66 ACATTTTTTCTTACTATAATTTTGAATTTTATTCTTATATATTGCACCTAAAA-TATTTTTATAT
12752097 ATTATTAATAAATTATTATATTTTAAGAAAAAAATATTATTAAAAATAATTATTTTATGTGAGTA
130 ATTATTAATAAATTATTATATTTTAAGAAAAAAATATTATTAAAAATAATTATTTTATGTGAGTA
12752162 TTTGCTT
195 TTTGCTT
12752169 ATTATAT
1 ATTATAT
12752176 GTTATAGTTT
Statistics
Matches: 194, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
198 47 0.24
199 90 0.46
200 29 0.15
201 1 0.01
202 27 0.14
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.53
Consensus pattern (201 bp):
ATTATATATAACATTTTTTTCAACCAAATATTTTTTCTTATTATATGTTACATGTTCTTATTATA
ACATTTTTTCTTACTATAATTTTGAATTTTATTCTTATATATTGCACCTAAAATATTTTTATATA
TTATTAATAAATTATTATATTTTAAGAAAAAAATATTATTAAAAATAATTATTTTATGTGAGTAT
TTGCTT
Found at i:12752190 original size:163 final size:167
Alignment explanation
Indices: 12752004--12752332 Score: 436
Period size: 163 Copynumber: 2.0 Consensus size: 167
12751994 CAAAATTTTT
* * *
12752004 TTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTACTATAATTTTGAATTTTGTTCTTA
1 TTATTATATGTTACATGTTCTTATTATAACATTTTTTCGTACTATAATTGTGAAGTTTGTTCTTA
*
12752069 TATATTGCACCT-AAAA-TTAT-T-TTTATATATTATTAATAAATTATTATAT-TTTAAGAAAAA
66 TATATTGCACCTAAAAACTTATATATATATATATTATTAATAAATT-TTATATATTTAAGAAAAA
* *
12752129 AATATTATTAAAAATAATTATTTTATGTGAGTATTTGC
130 AATATTATTAAAAATAATTATTTTATATGAATATTTGC
* * *
12752167 TTATTATATGTTATA-GTTTCTTATTATAACATTTTTTCGTATTATAATTGTGAAGTTTGTTTTT
1 TTATTATATGTTACATG-TTCTTATTATAACATTTTTTCGTACTATAATTGTGAAGTTTGTTCTT
* * ***
12752231 ATATGTTGCACCTAAAAATCTTATATATATATATATTATTAATATATTTTATATATTTTTTAAAA
65 ATATATTGCACCTAAAAA-CTTATATATATATATATTATTAATAAATTTTATATATTTAAGAAAA
** *
12752296 ATTTATTATTATAAATAATTATTTTATATGAATATTT
129 AAATATTATTAAAAATAATTATTTTATATGAATATTT
12752333 AAGGATATTG
Statistics
Matches: 142, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
162 1 0.01
163 68 0.48
164 4 0.03
166 4 0.03
167 7 0.05
168 58 0.41
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (167 bp):
TTATTATATGTTACATGTTCTTATTATAACATTTTTTCGTACTATAATTGTGAAGTTTGTTCTTA
TATATTGCACCTAAAAACTTATATATATATATATTATTAATAAATTTTATATATTTAAGAAAAAA
ATATTATTAAAAATAATTATTTTATATGAATATTTGC
Done.