Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 303 of 318
Found at i:96133058 original size:98 final size:98
Alignment explanation
Indices: 96132889--96133157 Score: 439
Period size: 98 Copynumber: 2.7 Consensus size: 98
96132879 TTTGAGTACT
*
96132889 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
96132954 GAAAGTGATAAGTAATAGCTTCGCCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGCCTATACTTA
** *
96132987 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTGCACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
96133052 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGCCTATACTTA
* *
96133085 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
96133150 GATAAGTG
65 GAAAAGTG
96133158 GCTACACTTA
Statistics
Matches: 157, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
98 146 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGCCTATACTTA
Found at i:96133165 original size:37 final size:37
Alignment explanation
Indices: 96133121--96133266 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
96133111 GATAGCTTTA
*
96133121 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
96133158 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
96133195 GATACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
96133232 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
96133267 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:96135595 original size:21 final size:21
Alignment explanation
Indices: 96135569--96135609 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96135559 AGACGAGCAA
* *
96135569 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
96135590 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
96135610 TTGAGTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:96140124 original size:12 final size:12
Alignment explanation
Indices: 96140099--96140135 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
96140089 TAATTATAAA
96140099 TTTTTAA-A-TT
1 TTTTTAATATTT
96140109 TTTTTAATATTT
1 TTTTTAATATTT
96140121 TTTTTAATAATTT
1 TTTTTAAT-ATTT
96140134 TT
1 TT
96140136 AATTTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 7 0.29
11 1 0.04
12 10 0.42
13 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTAATATTT
Found at i:96158594 original size:44 final size:45
Alignment explanation
Indices: 96158429--96159093 Score: 650
Period size: 44 Copynumber: 15.2 Consensus size: 45
96158419 TGAAGTCATT
* * *
96158429 AAAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * * *
96158473 ATA-CAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * *
96158516 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* *
96158560 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * * * *
96158604 ATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * *
96158648 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* *
96158692 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * * * *
96158736 ATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * *
96158780 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* *
96158824 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * * * *
96158868 ATATCAGATCCTATCTTCCTATATTGGT--AGAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * *
96158911 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG-AG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* *
96158954 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * * *
96158998 ATAGCAGATCCTATCTTCCTATATT-GTAG-GAAGTGGATCG-AG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
* * * *
96159040 -ATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
*
96159084 AAAGCCGATC
1 AAAGCAGATC
96159094 GACGATGGCA
Statistics
Matches: 497, Mismatches: 104, Indels: 39
0.78 0.16 0.06
Matches are distributed among these distances:
41 18 0.04
42 26 0.05
43 145 0.29
44 233 0.47
45 75 0.15
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
AAAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAG
Found at i:96158670 original size:132 final size:132
Alignment explanation
Indices: 96158429--96159093 Score: 1250
Period size: 132 Copynumber: 5.1 Consensus size: 132
96158419 TGAAGTCATT
*
96158429 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA-CAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
96158493 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
96158558 AG
131 AG
96158560 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
96158625 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
96158690 AG
131 AG
96158692 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
96158757 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
96158822 AG
131 AG
96158824 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
96158889 TATTGGTA-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG-
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
96158952 AG
131 AG
*
96158954 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* *
96159019 TATT-GTAGGAAGTGGATCG-AGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
96159082 AG
131 AG
*
96159084 AAAGCCGATC
1 AAAGCAGATC
96159094 GACGATGGCA
Statistics
Matches: 526, Mismatches: 5, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
129 44 0.08
130 92 0.17
131 101 0.19
132 289 0.55
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:96161298 original size:18 final size:20
Alignment explanation
Indices: 96161273--96161316 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
96161263 CTACTTAAAC
96161273 ATATTTTT-TCACACTT-CAT
1 ATATTTTTAT-ACACTTACAT
96161292 A-ATTTTTATACACTTACAT
1 ATATTTTTATACACTTACAT
96161311 ATATTT
1 ATATTT
96161317 ATGCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTTTATACACTTACAT
Found at i:96163760 original size:37 final size:37
Alignment explanation
Indices: 96163696--96163852 Score: 199
Period size: 37 Copynumber: 4.0 Consensus size: 37
96163686 TACGTATGAT
*
96163696 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
96163732 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
96163769 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
96163812 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
96163852 C
1 C
96163853 GAAGCTATCA
Statistics
Matches: 107, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
36 10 0.09
37 54 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 30 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:96163822 original size:46 final size:46
Alignment explanation
Indices: 96163769--96164135 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
96163759 TAAGTGTAGC
* **
96163769 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
96163815 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
96163861 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
96163913 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
96163965 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
96164011 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
96164057 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
96164109 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
96164136 AGTACTCAAA
Statistics
Matches: 290, Mismatches: 18, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:96163888 original size:52 final size:52
Alignment explanation
Indices: 96163812--96164129 Score: 417
Period size: 52 Copynumber: 6.3 Consensus size: 52
96163802 TAGCTAAAGC
* *
96163812 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
96163865 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
96163917 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
96163969 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
96164015 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
96164061 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
96164113 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
96164130 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 83 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:96164077 original size:196 final size:196
Alignment explanation
Indices: 96163769--96164121 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
96163759 TAAGTGTAGC
* * * * * *
96163769 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
96163834 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
96163899 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
96163964 T
196 T
*
96163965 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
96164030 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
96164095 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
96164122 ATCACTTGAT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:96164125 original size:98 final size:97
Alignment explanation
Indices: 96163769--96164135 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
96163759 TAAGTGTAGC
* * * *
96163769 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
96163834 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
96163868 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
96163933 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
96163972 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
96164032 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
96164064 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
96164129 GATCAGA
65 GATCAGA
96164136 AGTACTCAAA
Statistics
Matches: 238, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 148 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:96166981 original size:87 final size:88
Alignment explanation
Indices: 96166873--96167036 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 88
96166863 TTCACAAGCC
* *
96166873 TTAACCCCCTAAGCACTAGGGTAACAGGCTGAAGAT-ATATATCTTATCACCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCACTAGGGTAACAAGCTGAAGATGATAGATCTTATCACCCTAAGCAGTAGGG
96166937 AAACAGATCAAAGGTAACGAGCT
66 AAACAGATCAAAGGTAACGAGCT
* * *
96166960 TTAACCCCCTAAGCAGTAGGGTAACAAGTTGAAGTTGATAGATCTTATCACCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCACTAGGGTAACAAGCTGAAGATGATAGATCTTATCACCCTAAGCAGTAGGG
*
96167025 AAGCAGATCAAA
66 AAACAGATCAAA
96167037 AGACGGTGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 32 0.46
88 38 0.54
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (88 bp):
TTAACCCCCTAAGCACTAGGGTAACAAGCTGAAGATGATAGATCTTATCACCCTAAGCAGTAGGG
AAACAGATCAAAGGTAACGAGCT
Found at i:96167014 original size:44 final size:43
Alignment explanation
Indices: 96166829--96167024 Score: 148
Period size: 43 Copynumber: 4.5 Consensus size: 43
96166819 CCCCCTAAAC
* * * *
96166829 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAA-TTCACA-AGC
1 CTTAACACCCTAAGCAGTAGGGTAACAAGTTGAAGTT-ATAGA-T
* * * * * *
96166872 CTTAACCCCCTAAGCACTAGGGTAACAGGCTGAAGATATATAT
1 CTTAACACCCTAAGCAGTAGGGTAACAAGTTGAAGTTATAGAT
* * ** * *
96166915 CTTATCACCCTAAGCAGTAGGGAAAC-AGATCAAAGGTA-ACGAG
1 CTTAACACCCTAAGCAGTAGGGTAACAAG-TTGAAGTTATA-GAT
*
96166958 CTTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAAGTTGATAGAT
1 C-TTAACACCCTAAGCAGTAGGGTAACAAGTTGAAGTT-ATAGAT
*
96167003 CTTATCACCCTAAGCAGTAGGG
1 CTTAACACCCTAAGCAGTAGGG
96167025 AAGCAGATCA
Statistics
Matches: 120, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
42 2 0.02
43 63 0.52
44 48 0.40
45 6 0.05
46 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (43 bp):
CTTAACACCCTAAGCAGTAGGGTAACAAGTTGAAGTTATAGAT
Found at i:96167481 original size:43 final size:42
Alignment explanation
Indices: 96167408--96167514 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 42
96167398 GGGCTTCAAC
* * *
96167408 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGGCCAAATTTACAAACC-TAAA
*** * *
96167451 CCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTAAA
1 CCCCTAAGCAGTAGGGTAACAGGCCAAATTTACAAACCTAAA
** *
96167493 CCCCTAAATAGTAGGGAAACAG
1 CCCCTAAGCAGTAGGGTAACAG
96167515 ATCAATGATG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 23 0.43
43 30 0.57
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (42 bp):
CCCCTAAGCAGTAGGGTAACAGGCCAAATTTACAAACCTAAA
Found at i:96169162 original size:11 final size:12
Alignment explanation
Indices: 96169141--96169173 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
96169131 AATTTAATAT
96169141 TATTATTTTATG
1 TATTATTTTATG
96169153 TATT-TTTTATG
1 TATTATTTTATG
*
96169164 TATTCTTTTA
1 TATTATTTTA
96169174 ATATACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (12 bp):
TATTATTTTATG
Found at i:96169285 original size:21 final size:22
Alignment explanation
Indices: 96169247--96169298 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
96169237 TAGACATTAC
*
96169247 ATATATTTTACGTATATTATGT
1 ATATATTTTACATATATTATGT
96169269 ATATATTTTA-ATATATTATGT
1 ATATATTTTACATATATTATGT
*
96169290 GTATATTTT
1 ATATATTTT
96169299 GTTTTGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
ATATATTTTACATATATTATGT
Found at i:96176205 original size:20 final size:20
Alignment explanation
Indices: 96176156--96176207 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
96176146 TTATGCCACA
* *
96176156 TCAGTATTCTTATTCTGAATT
1 TCAGTATT-TTATCCTAAATT
96176177 TCAAG-ATTTTATCCTAAATT
1 TC-AGTATTTTATCCTAAATT
96176197 TCAGTATTTTA
1 TCAGTATTTTA
96176208 ATTTGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.07
20 18 0.67
21 5 0.19
22 2 0.07
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTAAATT
Found at i:96180856 original size:21 final size:21
Alignment explanation
Indices: 96180832--96180874 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
96180822 AAAAATACTT
96180832 TAGTATGATAAACTTGAATCA
1 TAGTATGATAAACTTGAATCA
96180853 TAGTATGATAAACTTGAATCA
1 TAGTATGATAAACTTGAATCA
96180874 T
1 T
96180875 TATTAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (21 bp):
TAGTATGATAAACTTGAATCA
Found at i:96181368 original size:28 final size:29
Alignment explanation
Indices: 96181323--96181383 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
96181313 TCTAAATTTG
* *
96181323 ATATTTAATTTCTATCTTTTAATTTT-TA
1 ATATATAATTTCTATCTTATAATTTTATA
* * *
96181351 ATATATAATTTGTTTCTTATACTTTTATA
1 ATATATAATTTCTATCTTATAATTTTATA
96181380 ATAT
1 ATAT
96181384 TATTAATTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (29 bp):
ATATATAATTTCTATCTTATAATTTTATA
Found at i:96185584 original size:25 final size:25
Alignment explanation
Indices: 96185556--96185605 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
96185546 TGGTGAAAGT
96185556 TGGTGAAATATTTAAAAATGATATA
1 TGGTGAAATATTTAAAAATGATATA
96185581 TGGTGAAATATTTAAAAATGATATA
1 TGGTGAAATATTTAAAAATGATATA
96185606 CGAGTAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (25 bp):
TGGTGAAATATTTAAAAATGATATA
Found at i:96185819 original size:15 final size:15
Alignment explanation
Indices: 96185801--96185841 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
96185791 TAATAATGCA
* * *
96185801 AATAATAATGATATC
1 AATAATAATAACAAC
96185816 AATAATAATAACAAC
1 AATAATAATAACAAC
96185831 AATAATAATAA
1 AATAATAATAA
96185842 ATCTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (15 bp):
AATAATAATAACAAC
Found at i:96185874 original size:27 final size:28
Alignment explanation
Indices: 96185836--96185890 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
96185826 ACAACAATAA
96185836 TAATAAATCTAAA-TTTGAAAGTACATG
1 TAATAAATCTAAATTTTGAAAGTACATG
*
96185863 TAATATATCTAAATTTTGAAAGTACATG
1 TAATAAATCTAAATTTTGAAAGTACATG
96185891 AAAAGTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (28 bp):
TAATAAATCTAAATTTTGAAAGTACATG
Found at i:96192763 original size:16 final size:16
Alignment explanation
Indices: 96192731--96192780 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
96192721 AATCTTATTG
*
96192731 AAAATAAACATGTAAA
1 AAAATAAAAATGTAAA
*
96192747 AAAACTAAAAATGAAAA
1 AAAA-TAAAAATGTAAA
*
96192764 AAAATGCAAAATGTAAA
1 AAAAT-AAAAATGTAAA
96192781 TATAAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.16
Consensus pattern (16 bp):
AAAATAAAAATGTAAA
Found at i:96193185 original size:34 final size:35
Alignment explanation
Indices: 96193140--96193223 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 35
96193130 TTTTTATAAA
*
96193140 TATTT-TAATTAATTATATAATCGTTTTAAA-TTATT
1 TATTTATAATTAATTATA-AAT-ATTTTAAATTTATT
*
96193175 TA-TTAT-ATTAAATGATAAATATTTTAAATTTATT
1 TATTTATAATT-AATTATAAATATTTTAAATTTATT
96193209 TATTTATAATTAATT
1 TATTTATAATTAATT
96193224 CAATTTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
33 7 0.17
34 15 0.37
35 16 0.39
36 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (35 bp):
TATTTATAATTAATTATAAATATTTTAAATTTATT
Found at i:96194367 original size:42 final size:46
Alignment explanation
Indices: 96194307--96194414 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 46
96194297 GCACTGGGTG
* *
96194307 CACAAGATATTTTACATGGCTGTGAGT-C-TAT-CTCCTT-GATCC
1 CACAAGATATTTTTCATGGCTGCGAGTACATATCCTCCTTGGATCC
* * * *
96194349 CACAAGATATTTTTCATGGCAGCGTGTACATCTCCTCCTTGGTTCC
1 CACAAGATATTTTTCATGGCTGCGAGTACATATCCTCCTTGGATCC
96194395 C-CAAGATATTTTTCATGGCT
1 CACAAGATATTTTTCATGGCT
96194415 CCTGGATCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
42 23 0.42
43 1 0.02
44 2 0.04
45 24 0.44
46 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (46 bp):
CACAAGATATTTTTCATGGCTGCGAGTACATATCCTCCTTGGATCC
Found at i:96204517 original size:43 final size:43
Alignment explanation
Indices: 96204456--96204600 Score: 157
Period size: 43 Copynumber: 3.4 Consensus size: 43
96204446 TTTTCAGAAA
* * * *
96204456 AAAAAATGCCACTAAAGACCAAGACTTTTAGCGGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCT
*
96204499 AAAAAACGCCGCTAAAGACCAGGACTTTTAGTGGCGCTTTTCT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCT
* * * * * *
96204542 -AAAAACACTGCTAAAGTCCAGGACTTTTCGCGGCACTTTTCC
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCT
***
96204584 CGCAAACGCCGCTAAAG
1 AAAAAACGCCGCTAAAG
96204601 GTCATAAAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 35 0.41
43 50 0.59
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTCT
Found at i:96204563 original size:42 final size:43
Alignment explanation
Indices: 96204467--96204582 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 43
96204457 AAAAATGCCA
* * *
96204467 CTAAAGACCAAGACTTTTAGCGGCGCTTTTTTAAAAAACGCCG
1 CTAAAGACCAGGACTTTTAGCGGCGCTTTTCTAAAAAACACCG
* *
96204510 CTAAAGACCAGGACTTTTAGTGGCGCTTTTCT-AAAAACACTG
1 CTAAAGACCAGGACTTTTAGCGGCGCTTTTCTAAAAAACACCG
* * *
96204552 CTAAAGTCCAGGACTTTTCGCGGCACTTTTC
1 CTAAAGACCAGGACTTTTAGCGGCGCTTTTC
96204583 CCGCAAACGC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 35 0.55
43 29 0.45
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
CTAAAGACCAGGACTTTTAGCGGCGCTTTTCTAAAAAACACCG
Found at i:96208419 original size:16 final size:16
Alignment explanation
Indices: 96208387--96208430 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
96208377 AACTAAAATA
*
96208387 TTAAATTTTTAAGTTTT
1 TTAAATTTTTTA-TTTT
96208404 TT--ATTTTTTATTTT
1 TTAAATTTTTTATTTT
96208418 TTAAATTTTTTAT
1 TTAAATTTTTTAT
96208431 GAAGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.25
15 7 0.29
16 9 0.38
17 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TTAAATTTTTTATTTT
Found at i:96209100 original size:7 final size:7
Alignment explanation
Indices: 96209090--96209121 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
96209080 CTAAAACATA
96209090 AACCATG
1 AACCATG
96209097 AACCATG
1 AACCATG
96209104 AACCATG
1 AACCATG
*
96209111 AACCTTG
1 AACCATG
96209118 AACC
1 AACC
96209122 CCTCACCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.31, G:0.12, T:0.16
Consensus pattern (7 bp):
AACCATG
Found at i:96209135 original size:14 final size:14
Alignment explanation
Indices: 96209113--96209175 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
96209103 GAACCATGAA
*
96209113 CCTTGAACCCCTCAC
1 CCTT-AACCCCTAAC
96209128 CCTTAACCCCTAAC
1 CCTTAACCCCTAAC
* * *
96209142 CCCTAACACCTAAA
1 CCTTAACCCCTAAC
96209156 CCTTAAACCCC-AAC
1 CCTT-AACCCCTAAC
96209170 CCTTAA
1 CCTTAA
96209176 ACTACCTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 2 0.05
14 29 0.73
15 9 0.22
ACGTcount: A:0.32, C:0.48, G:0.02, T:0.19
Consensus pattern (14 bp):
CCTTAACCCCTAAC
Found at i:96209208 original size:15 final size:14
Alignment explanation
Indices: 96209183--96209218 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
96209173 TAAACTACCT
96209183 ATAAACCATAATCC
1 ATAAACCATAATCC
*
96209197 CTAAATCCATAATCC
1 ATAAA-CCATAATCC
96209212 ATAAACC
1 ATAAACC
96209219 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAACCATAATCC
Found at i:96209359 original size:40 final size:40
Alignment explanation
Indices: 96209258--96209424 Score: 192
Period size: 41 Copynumber: 4.1 Consensus size: 40
96209248 AGTTGGTATC
*
96209258 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTT
*
96209299 TTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTT
* * * *
96209339 TTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCAGTT
1 TTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGTT
* ** * *
96209380 TTTAGCGGAGTTTTTGTCAAAA-CGCTGCTATTGCTCTGTGT
1 TTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTGT-T
96209421 TTTA
1 TTTA
96209425 CAATTTTTGC
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 31 0.28
41 75 0.68
42 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (40 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTT
Found at i:96209415 original size:81 final size:82
Alignment explanation
Indices: 96209258--96209424 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 82
96209248 AGTTGGTATC
* * * *
96209258 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGCA
1 TTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTCTAGTCTTTAGCGGAGTTTTACCAAAAGCA
96209323 CCGCTAATGCTCTGT-T
66 CCGCTAATGCTCTGTGT
* * **
96209339 TTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTC-AGTTTTTAGCGGAGTTTTTGTCAAAA-
1 TTTAGCGGCGTTTT-ACAAAAAACGCCGCTAATGCTCTAGTCTTTAGCGGAG-TTTTACCAAAAG
* * *
96209402 CGCTGCTATTGCTCTGTGT
64 CACCGCTAATGCTCTGTGT
96209421 TTTA
1 TTTA
96209425 CAATTTTTGC
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 39 0.54
82 33 0.46
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (82 bp):
TTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTCTAGTCTTTAGCGGAGTTTTACCAAAAGCA
CCGCTAATGCTCTGTGT
Found at i:96209845 original size:22 final size:22
Alignment explanation
Indices: 96209817--96209898 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 22
96209807 TATATATATT
96209817 TATATATTATGTATATTTTTAA
1 TATATATTATGTATATTTTTAA
* *
96209839 TATATATTATGTACATACTTGTAA
1 TATATATTATGT--ATATTTTTAA
96209863 TATCATCATGTAT-T-TATTTTTAA
1 TAT-AT-AT-TATGTATATTTTTAA
*
96209886 AATATA-TATGTAT
1 TATATATTATGTAT
96209899 GTATACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
19 3 0.06
20 1 0.02
21 2 0.04
22 14 0.29
23 9 0.19
24 11 0.23
25 2 0.04
26 3 0.06
27 3 0.06
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (22 bp):
TATATATTATGTATATTTTTAA
Found at i:96209863 original size:24 final size:22
Alignment explanation
Indices: 96209817--96209915 Score: 63
Period size: 25 Copynumber: 4.1 Consensus size: 22
96209807 TATATATATT
* *
96209817 TATATATTATGTATATTTTTAA
1 TATATATTATGTATACTTGTAA
96209839 TATATATTATGTACATACTTGTAA
1 TATATATTATGT--ATACTTGTAA
* ** **
96209863 TATCATCATGTATTTATTTTTAAAA
1 TAT-AT-AT-TATGTATACTTGTAA
96209888 TATATATGTATGTATACTTATGTAA
1 TATATAT-TATGTATAC-T-TGTAA
96209913 TAT
1 TAT
96209916 CATTAATGGT
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
22 12 0.21
23 9 0.16
24 14 0.24
25 17 0.29
26 2 0.03
27 4 0.07
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
TATATATTATGTATACTTGTAA
Found at i:96212848 original size:46 final size:46
Alignment explanation
Indices: 96212778--96212952 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
96212768 TGTAACCCGC
* *
96212778 CCATAAGTGAACTCGGACTTAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
96212824 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
96212874 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
96212917 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
96212953 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.58
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:96212914 original size:93 final size:93
Alignment explanation
Indices: 96212786--96212956 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
96212776 GCCCATAAGT
* * ** *
96212786 GAACTCGGACTTAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
96212851 TGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
96212879 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
96212944 CGAGTTCGGATGC
66 CGAGCTCGGATGC
96212957 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:96216442 original size:46 final size:46
Alignment explanation
Indices: 96216346--96216599 Score: 329
Period size: 46 Copynumber: 5.6 Consensus size: 46
96216336 AGACAGGTCT
* *
96216346 TGCATGTCCTAGACATGTCTTACACTAGC--ACATCTCGTA-GCCGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACATCTCG-AGGCCGA
* *
96216390 CGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACATCTCGAGGCCGA
** * *
96216436 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACAT-CTCGAGGCCGA
*
96216482 TGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACATCTCGAGGCCGA
** * *
96216528 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACAT-CTCGAGGCCGA
96216574 TGCATGTCCCAGACATGTCTTACACT
1 TGCATGTCCCAGACATGTCTTACACT
96216600 AGCCCTCGTC
Statistics
Matches: 184, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
44 25 0.14
45 3 0.02
46 152 0.83
47 4 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (46 bp):
TGCATGTCCCAGACATGTCTTACACTGGCTAACATCTCGAGGCCGA
Found at i:96216592 original size:138 final size:136
Alignment explanation
Indices: 96216346--96216599 Score: 377
Period size: 138 Copynumber: 1.9 Consensus size: 136
96216336 AGACAGGTCT
* *
96216346 TGCATGTCCTAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
1 TGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
96216411 ACACTGGCTAACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGT
66 ACACTGGCTAACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGT
96216476 GGCTGA
131 GGCTGA
* *
96216482 TGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCG-AGGCCGATGCATGTCCCAGACATGT
1 TGCATGTCCCAGACATGTCTGACACTAGC--ACATCTCGTA-GCCGACGCATGTCCCAGACATGT
* ** * *
96216546 CTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGTCTTACACT
63 CTGACACTGGCTAACAT-CTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
96216600 AGCCCTCGTC
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
136 26 0.25
137 1 0.01
138 76 0.72
139 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (136 bp):
TGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
ACACTGGCTAACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGT
GGCTGA
Found at i:96216622 original size:92 final size:92
Alignment explanation
Indices: 96216346--96216599 Score: 415
Period size: 92 Copynumber: 2.8 Consensus size: 92
96216336 AGACAGGTCT
* * * * * *
96216346 TGCATGTCCTAGACATGTCTTACACTAG--CACAT-CTCGTAGCCGACGCATGTCCCAGACATGT
1 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGT
96216408 CTGACACTGGCTAACATCTCGAGGCCGA
65 CTGACACTGGCTAACATCTCGAGGCCGA
96216436 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
1 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
96216501 TGACACTGGCTAACATCTCGAGGCCGA
66 TGACACTGGCTAACATCTCGAGGCCGA
96216528 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
1 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
*
96216593 TTACACT
66 TGACACT
96216600 AGCCCTCGTC
Statistics
Matches: 154, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
90 26 0.17
92 126 0.82
93 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (92 bp):
TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
TGACACTGGCTAACATCTCGAGGCCGA
Found at i:96228961 original size:30 final size:31
Alignment explanation
Indices: 96228925--96228993 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
96228915 TGATTTCAAT
96228925 TCAATCACTCAAC-TT-TCGAAAAATAACAAA
1 TCAATCACT-AACGTTATCGAAAAATAACAAA
* *
96228955 TCAATCACTAACGTTATCGAAAAGTGACAAA
1 TCAATCACTAACGTTATCGAAAAATAACAAA
*
96228986 TCAGTCAC
1 TCAATCAC
96228994 CCATTAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 20 0.59
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (31 bp):
TCAATCACTAACGTTATCGAAAAATAACAAA
Found at i:96233012 original size:30 final size:30
Alignment explanation
Indices: 96232971--96233030 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
96232961 CATTTATTGT
*
96232971 TAACATTAATGGCAGACAAACAATAATGGC
1 TAACATTAATGGCAAACAAACAATAATGGC
*
96233001 TAACGTTAATGGCAAACAAACAATAATGGC
1 TAACATTAATGGCAAACAAACAATAATGGC
96233031 AGCCATCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (30 bp):
TAACATTAATGGCAAACAAACAATAATGGC
Found at i:96235836 original size:21 final size:21
Alignment explanation
Indices: 96235797--96235836 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96235787 CAGACAAGCG
* * *
96235797 ATACTCCACAGCAGGTGGAAT
1 ATACTCCAAAACAGATGGAAT
96235818 ATACTCCAAAACAGATGGA
1 ATACTCCAAAACAGATGGA
96235837 GTTTGAGCAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (21 bp):
ATACTCCAAAACAGATGGAAT
Found at i:96237813 original size:30 final size:30
Alignment explanation
Indices: 96237749--96237820 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
96237739 AGATTGTTAA
* * *
96237749 CATTAATTGCAGACAAACAATAATGGTTAG
1 CATTAATGGCAAACAAACAATAATGGTCAG
96237779 CATTAATGGCAAACAAACAATAATGG-CAG
1 CATTAATGGCAAACAAACAATAATGGTCAG
96237808 CCATTAATGGCAA
1 -CATTAATGGCAA
96237821 CCATCAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 2 0.05
30 36 0.95
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (30 bp):
CATTAATGGCAAACAAACAATAATGGTCAG
Found at i:96240525 original size:21 final size:21
Alignment explanation
Indices: 96240499--96240539 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96240489 ATCTGCTCAA
* *
96240499 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
96240520 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
96240540 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:96248194 original size:44 final size:44
Alignment explanation
Indices: 96248114--96248212 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
96248104 TTTTTATTTC
* * *
96248114 TTTTTCATTTTGAGAAAACCACATTTATTTTCAAATG-ATTCCA
1 TTTTTCATTTCGAGAAAACCACAATCATTTTCAAATGTATTCCA
* *
96248157 TTTTTCATTTCGAAGAAAACCATAATCA-TTTCTAAATGTCTTCCA
1 TTTTTCATTTCG-AGAAAACCACAATCATTTTC-AAATGTATTCCA
*
96248202 TTTTCCATTTC
1 TTTTTCATTTC
96248213 TATTCCTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 15 0.32
44 17 0.36
45 15 0.32
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.44
Consensus pattern (44 bp):
TTTTTCATTTCGAGAAAACCACAATCATTTTCAAATGTATTCCA
Found at i:96269368 original size:46 final size:46
Alignment explanation
Indices: 96269296--96269472 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
96269286 TGTAACCCAC
*
96269296 CCATAAGTGAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
96269342 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
96269392 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
96269435 CCAATTAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CC-A-TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
96269473 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
46 35 0.33
47 28 0.26
48 29 0.27
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:96269418 original size:93 final size:95
Alignment explanation
Indices: 96269304--96269476 Score: 269
Period size: 93 Copynumber: 1.8 Consensus size: 95
96269294 ACCCATAAGT
* ** * *
96269304 GAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCGCATCC-A-TAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCAATTAAGTGAACTCGAACTCAACTC
96269367 AACGAGCTCGGATGCCTAGTTACATCTCAC
66 AACGAGCTCGGATGCCTAGTTACATCTCAC
*
96269397 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAATTAAGTGAACTCGAACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCAATTAAGTGAACTCGAACTCAACTC
*
96269462 AACGAGTTCGGATGC
66 AACGAGCTCGGATGC
96269477 TCAACCATCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 35 0.49
94 1 0.01
95 35 0.49
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (95 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCAATTAAGTGAACTCGAACTCAACTC
AACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:96272909 original size:45 final size:45
Alignment explanation
Indices: 96272795--96272950 Score: 173
Period size: 44 Copynumber: 3.5 Consensus size: 45
96272785 GTGTCAATGC
* *
96272795 CATGTCCCAGACATGTCTTACACTAGC-ACATCTCGTA-GCCGACG
1 CATGTCCCAGACATGTCTTACACTGGCTACATCTCG-AGGCCGATG
*
96272839 CATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-ACATCTCGAGGCCGATG
* * *
96272885 CATGT-CCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-ACAT-CTCGAGGCCGATG
96272930 C-TGT-CCAGACATGTCTT-CACT
1 CATGTCCCAGACATGTCTTACACT
96272951 AGCCCTCGTC
Statistics
Matches: 100, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
43 4 0.04
44 41 0.41
45 34 0.34
46 21 0.21
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTACATCTCGAGGCCGATG
Found at i:96296035 original size:20 final size:21
Alignment explanation
Indices: 96296010--96296049 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
96296000 ATCTGCTCAA
*
96296010 ACTCCACCTG-TTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
96296030 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
96296050 TGCTGTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.28
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:96302058 original size:31 final size:30
Alignment explanation
Indices: 96302005--96302062 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
96301995 AATAATTTAT
* *
96302005 CTTTTTTTAAAGGTTGATAATCAAATTCGA
1 CTTTTTTTAAAGGTTAAGAATCAAATTCGA
*
96302035 CTTTTTTTAAAATGTTAAGAATCAAATT
1 CTTTTTTT-AAAGGTTAAGAATCAAATT
96302063 TAGCTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (30 bp):
CTTTTTTTAAAGGTTAAGAATCAAATTCGA
Found at i:96302657 original size:23 final size:24
Alignment explanation
Indices: 96302607--96302658 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
96302597 TCAAATTGTT
* *
96302607 AAATATAATTACAATTTTTTATTC
1 AAATATAATTACAATATTTTATTA
96302631 AAATATAA-TACAAATATTTT-TTA
1 AAATATAATTAC-AATATTTTATTA
96302654 AAATA
1 AAATA
96302659 ACTTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATATAATTACAATATTTTATTA
Found at i:96303867 original size:45 final size:45
Alignment explanation
Indices: 96303785--96303886 Score: 109
Period size: 45 Copynumber: 2.3 Consensus size: 45
96303775 TTTTTATTTC
* * *
96303785 TTTTTTCATTTTGAGAAAACCACATTTATTTTCAAATG-ATTCCA
1 TTTTTTCATTTCGAGAAAACCACAATCATTTTCAAATGTATTCCA
* *
96303829 TTTTTTCATTTCGAAGAAAACCATAATCA-TTTCTAAATGTCTTCCA
1 TTTTTTCATTTCG-AGAAAACCACAATCATTTTC-AAATGTATTCCA
* *
96303875 TTTCTCCATTTC
1 TTTTTTCATTTC
96303887 TATTCCTTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 16 0.33
45 17 0.35
46 15 0.31
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (45 bp):
TTTTTTCATTTCGAGAAAACCACAATCATTTTCAAATGTATTCCA
Found at i:96305208 original size:33 final size:33
Alignment explanation
Indices: 96305171--96305235 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
96305161 TATAAAGGGC
96305171 TTGTTTTTGCTAATTTGAATACCCGGGATTTGA
1 TTGTTTTTGCTAATTTGAATACCCGGGATTTGA
*
96305204 TTGTTTTTTCTAATTTGAATACCCGGGATTTG
1 TTGTTTTTGCTAATTTGAATACCCGGGATTTG
96305236 TGCTGACTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGTTTTTGCTAATTTGAATACCCGGGATTTGA
Found at i:96306917 original size:31 final size:31
Alignment explanation
Indices: 96306879--96306940 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
96306869 TGAACTTCAA
*
96306879 AAAAAAAACTT-AATAGCATAGTGACTTAAAT
1 AAAAAAAA-TTCAATAACATAGTGACTTAAAT
**
96306910 AAAAAAAATTCAATAATTTAGTGACTTAAAT
1 AAAAAAAATTCAATAACATAGTGACTTAAAT
96306941 GATAACTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (31 bp):
AAAAAAAATTCAATAACATAGTGACTTAAAT
Found at i:96310553 original size:18 final size:16
Alignment explanation
Indices: 96310517--96310559 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
96310507 AATTAACAAT
*
96310517 TAATTTAATTATAAAA
1 TAATTTAATTACAAAA
96310533 TAATTTATATTACATAAA
1 TAATTTA-ATTACA-AAA
96310551 TAATTTAAT
1 TAATTTAAT
96310560 AAAAACCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTAATTACAAAA
Found at i:96312631 original size:13 final size:13
Alignment explanation
Indices: 96312613--96312638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96312603 AGACATTCAT
96312613 TAAAATTAAGCCC
1 TAAAATTAAGCCC
96312626 TAAAATTAAGCCC
1 TAAAATTAAGCCC
96312639 AAACTTATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
TAAAATTAAGCCC
Found at i:96322951 original size:26 final size:26
Alignment explanation
Indices: 96322915--96323020 Score: 169
Period size: 26 Copynumber: 4.1 Consensus size: 26
96322905 TGAAATTCTC
96322915 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
96322941 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
96322967 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
96322993 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
96323019 AT
1 AT
96323021 TAATTTGTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 71 0.96
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:96334400 original size:19 final size:19
Alignment explanation
Indices: 96334376--96334473 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
96334366 AATCTTTAAG
96334376 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
96334395 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
96334414 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
96334431 GATATCCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
96334450 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
96334471 GAT
1 GAT
96334474 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:96334407 original size:36 final size:35
Alignment explanation
Indices: 96334366--96334473 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
96334356 ATGAAAATAT
*
96334366 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATCC
96334402 AATC-TT-AGATATGATACAATCTTAGATATGATATCC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATCC
*
96334438 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
96334474 CTTGTAATCT
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.45
37 1 0.02
38 7 0.12
40 10 0.17
41 6 0.10
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATCC
Found at i:96336472 original size:25 final size:25
Alignment explanation
Indices: 96336439--96336495 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
96336429 GTAACAAAAT
**
96336439 TAATAATAAAATAACAATTATATAA
1 TAATAATAAAATAACAACAATATAA
*
96336464 TAATAATAAAATAATAACAATATAA
1 TAATAATAAAATAACAACAATATAA
96336489 TAA-AATA
1 TAATAATA
96336496 CTAATAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
TAATAATAAAATAACAACAATATAA
Found at i:96336476 original size:11 final size:11
Alignment explanation
Indices: 96336422--96336508 Score: 79
Period size: 11 Copynumber: 7.8 Consensus size: 11
96336412 TAAATAAATC
*
96336422 TAAAATAGTAA
1 TAAAATAATAA
*
96336433 CAAAATTAATAA
1 TAAAA-TAATAA
*
96336445 TAAAATAACAA
1 TAAAATAATAA
* *
96336456 TTATATAATAA
1 TAAAATAATAA
96336467 TAATAA-AATAA
1 TAA-AATAATAA
96336478 TAACAAT-ATAA
1 TAA-AATAATAA
*
96336489 TAAAATACTAA
1 TAAAATAATAA
96336500 TAAAATAAT
1 TAAAATAAT
96336509 GAAAAAAACT
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
10 3 0.05
11 47 0.78
12 10 0.17
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.29
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:96336507 original size:19 final size:19
Alignment explanation
Indices: 96336434--96336513 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
96336424 AAATAGTAAC
96336434 AAAATTAATAATAAAAT-A-
1 AAAA-TAATAATAAAATAAT
* *
96336452 ACAATTAT-ATAATAATAAT
1 AAAATAATAATAA-AATAAT
* *
96336471 AAAATAATAACAATATAAT
1 AAAATAATAATAAAATAAT
*
96336490 AAAATACTAATAAAATAAT
1 AAAATAATAATAAAATAAT
96336509 GAAAA
1 -AAAA
96336514 AAACTAAGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.08
17 6 0.12
18 4 0.08
19 27 0.56
20 7 0.15
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.28
Consensus pattern (19 bp):
AAAATAATAATAAAATAAT
Found at i:96339513 original size:28 final size:28
Alignment explanation
Indices: 96339473--96339528 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
96339463 GGATATTTTC
96339473 TTCAAGGTATAGCTAAAGATGCATTGAA
1 TTCAAGGTATAGCTAAAGATGCATTGAA
96339501 TTCAAGGTATAGCTAAAGATGCATTGAA
1 TTCAAGGTATAGCTAAAGATGCATTGAA
96339529 CTTGTTCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (28 bp):
TTCAAGGTATAGCTAAAGATGCATTGAA
Found at i:96339719 original size:13 final size:13
Alignment explanation
Indices: 96339701--96339726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96339691 GCACAACATG
96339701 GACATTAAAGGTT
1 GACATTAAAGGTT
96339714 GACATTAAAGGTT
1 GACATTAAAGGTT
96339727 TATGTAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
GACATTAAAGGTT
Found at i:96339806 original size:26 final size:26
Alignment explanation
Indices: 96339770--96339824 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
96339760 CCTTCTTACA
96339770 TACGATCAATTTTGAGGATTAATTGT
1 TACGATCAATTTTGAGGATTAATTGT
96339796 TACGATCAATTTTGAGGATTAATTGT
1 TACGATCAATTTTGAGGATTAATTGT
96339822 TAC
1 TAC
96339825 ACCTCAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (26 bp):
TACGATCAATTTTGAGGATTAATTGT
Found at i:96339819 original size:13 final size:13
Alignment explanation
Indices: 96339777--96339819 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
96339767 ACATACGATC
96339777 AATTTTGAGGATT
1 AATTTTGAGGATT
* *
96339790 AATTGTT-ACGATC
1 AATT-TTGAGGATT
96339803 AATTTTGAGGATT
1 AATTTTGAGGATT
96339816 AATT
1 AATT
96339820 GTTACACCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (13 bp):
AATTTTGAGGATT
Found at i:96342483 original size:19 final size:19
Alignment explanation
Indices: 96342455--96342492 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
96342445 TTTCCAAGTG
*
96342455 CATAACTAGTATTACACCA
1 CATAACTAGTACTACACCA
*
96342474 CATAATTAGTACTACACCA
1 CATAACTAGTACTACACCA
96342493 TATTAAAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
CATAACTAGTACTACACCA
Found at i:96344232 original size:4 final size:4
Alignment explanation
Indices: 96344225--96344296 Score: 58
Period size: 4 Copynumber: 17.2 Consensus size: 4
96344215 GAATAAATAA
* *
96344225 AAAG AAAG AAAG ATAG AAACG AAACAG AAAG -AA- AAAG AAAG AAAG AAAA
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG AAAG
*
96344274 AAAA AAAGG AAAG AAATG AAAG A
1 AAAG AAA-G AAAG AAA-G AAAG A
96344297 GAAAGCCACG
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
3 4 0.07
4 39 0.68
5 10 0.18
6 3 0.05
7 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:96344261 original size:25 final size:23
Alignment explanation
Indices: 96344224--96344301 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 23
96344214 AGAATAAATA
*
96344224 AAAAGAAAG--AAAGATAGAAACG
1 AAAAGAAAGAAAAAGAAAGAAA-G
96344246 AAACAGAAAGAAAAAGAAAGAAAG
1 AAA-AGAAAGAAAAAGAAAGAAAG
*
96344270 AAAA-AAA-AAAAGGAAAGAAATG
1 AAAAGAAAGAAAAAGAAAGAAA-G
96344292 AAAGAGAAAG
1 AAA-AGAAAG
96344302 CCACGGCCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
21 12 0.26
22 10 0.21
23 8 0.17
24 7 0.15
25 10 0.21
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.03
Consensus pattern (23 bp):
AAAAGAAAGAAAAAGAAAGAAAG
Found at i:96345009 original size:24 final size:24
Alignment explanation
Indices: 96344965--96345012 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
96344955 ATTTAAATGG
96344965 ATTGATTTAGTATGTGATGAATTT
1 ATTGATTTAGTATGTGATGAATTT
96344989 ATTGAATTTA-TAT-TGATTGAATTT
1 ATTG-ATTTAGTATGTGA-TGAATTT
96345013 GTATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.14
24 14 0.64
25 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (24 bp):
ATTGATTTAGTATGTGATGAATTT
Found at i:96345475 original size:46 final size:46
Alignment explanation
Indices: 96345424--96345516 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
96345414 GTGAAATATG
96345424 TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
1 TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
96345470 TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
1 TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
96345516 T
1 T
96345517 GGAATGGATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (46 bp):
TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
Found at i:96345510 original size:22 final size:22
Alignment explanation
Indices: 96345439--96345510 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
96345429 AATATATGGA
96345439 AAATATCAGTTATATATTCATG
1 AAATATCAGTTATATATTCATG
*
96345461 AAATGA-CTA-TTGCAAATA-T-ATGG
1 AAAT-ATC-AGTT--ATATATTCAT-G
96345484 AAAATATCAGTTATATATTCATG
1 -AAATATCAGTTATATATTCATG
96345507 AAAT
1 AAAT
96345511 GACTATGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 20
0.63 0.03 0.33
Matches are distributed among these distances:
22 17 0.45
23 8 0.21
24 13 0.34
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (22 bp):
AAATATCAGTTATATATTCATG
Found at i:96351530 original size:19 final size:20
Alignment explanation
Indices: 96351495--96351534 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
96351485 AATTTTGCAT
96351495 AAATAAAAATCCTAATCTAA
1 AAATAAAAATCCTAATCTAA
96351515 AAAT-AAAA-CCTAAATCTAA
1 AAATAAAAATCCT-AATCTAA
96351534 A
1 A
96351535 TCTTGTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 12 0.63
20 4 0.21
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAAAAATCCTAATCTAA
Found at i:96354885 original size:19 final size:20
Alignment explanation
Indices: 96354850--96354889 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
96354840 AATCTTGCAT
96354850 AAATAAAAATCCTAATCTAA
1 AAATAAAAATCCTAATCTAA
96354870 AAAT-AAAA-CCTAAATCTAA
1 AAATAAAAATCCT-AATCTAA
96354889 A
1 A
96354890 TCTTACATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 12 0.63
20 4 0.21
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAAAAATCCTAATCTAA
Found at i:96355275 original size:21 final size:21
Alignment explanation
Indices: 96355249--96355289 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96355239 TAACGGGAGC
*
96355249 GCTGACGTGGCAAGTTAACTA
1 GCTGACGTGACAAGTTAACTA
*
96355270 GCTGACGTGACCAGTTAACT
1 GCTGACGTGACAAGTTAACT
96355290 TCCCACGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (21 bp):
GCTGACGTGACAAGTTAACTA
Found at i:96356470 original size:6 final size:6
Alignment explanation
Indices: 96356461--96356508 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
96356451 TCTCCTCCTC
* * *
96356461 TTCTTT TTC-TT CTCTAT TTC-TT TTCTTT TTCTTT TTTTTT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
96356507 TT
1 TT
96356509 TTCTTCTACT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 8 0.24
6 26 0.76
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTT
Found at i:96356489 original size:22 final size:19
Alignment explanation
Indices: 96356461--96356513 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 19
96356451 TCTCCTCCTC
96356461 TTCTTTTTCTTCTCTATTTCTT
1 TTCTTTTTCTTCT-T-TTT-TT
96356483 TTCTTTTTCTT-TTTTTTT
1 TTCTTTTTCTTCTTTTTTT
96356501 TTCTTTTT-TTCTT
1 TTCTTTTTCTTCTT
96356514 CTACTGTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.07
18 12 0.40
19 3 0.10
20 1 0.03
21 1 0.03
22 11 0.37
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (19 bp):
TTCTTTTTCTTCTTTTTTT
Found at i:96356494 original size:11 final size:11
Alignment explanation
Indices: 96356461--96356507 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
96356451 TCTCCTCCTC
96356461 TTCTTTTTCTT
1 TTCTTTTTCTT
* *
96356472 CTCTATTTCTT
1 TTCTTTTTCTT
96356483 TTCTTTTTCTTT
1 TTCTTTTTC-TT
*
96356495 TTTTTTTTCTT
1 TTCTTTTTCTT
96356506 TT
1 TT
96356508 TTTCTTCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:96356508 original size:11 final size:11
Alignment explanation
Indices: 96356477--96356515 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
96356467 TTCTTCTCTA
*
96356477 TTTCTTTTCTT
1 TTTCTTTTTTT
96356488 TTTCTTTTTTTT
1 TTTC-TTTTTTT
96356500 TTTCTTTTTTT
1 TTTCTTTTTTT
*
96356511 CTTCT
1 TTTCT
96356516 ACTGTCCAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:96357631 original size:21 final size:21
Alignment explanation
Indices: 96357607--96357670 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
96357597 AATCTAACTA
96357607 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACGG
** *
96357628 AAGC-CCGAAG-GCT-AACTG
1 AAGCACATAAGTGCTAAACGG
96357646 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACGG
96357667 AAGC
1 AAGC
96357671 TCAAAGGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 7 0.21
21 12 0.35
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
AAGCACATAAGTGCTAAACGG
Found at i:96357650 original size:39 final size:39
Alignment explanation
Indices: 96357600--96357688 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
96357590 AACCCGAAAT
* *
96357600 CTAACTAAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAAAGG
*
96357639 CTAACTGAAGCACATAAGTGCTAAACGGAAGCTCAAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAAAGG
96357678 CTAACTGAAGC
1 CTAACTGAAGC
96357689 TCATCAGAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (39 bp):
CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAAAGG
Found at i:96357706 original size:21 final size:19
Alignment explanation
Indices: 96357635--96357707 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 19
96357625 CGGAAGCCCG
*
96357635 AAGGCTAACTGAAGCACAT
1 AAGGCTAACTGAAGCTCAT
*
96357654 AAGTGCTAAACGGAAGCTCA-
1 AAG-GCT-AACTGAAGCTCAT
96357674 AAGGCTAACTGAAGCTCAT
1 AAGGCTAACTGAAGCTCAT
*
96357693 CAGAGCTGAACTGAA
1 AAG-GCT-AACTGAA
96357708 ACCCCAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.24
19 8 0.18
20 9 0.20
21 17 0.38
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (19 bp):
AAGGCTAACTGAAGCTCAT
Found at i:96362396 original size:46 final size:50
Alignment explanation
Indices: 96362346--96362458 Score: 144
Period size: 53 Copynumber: 2.3 Consensus size: 50
96362336 TAGCCCTGCC
* *
96362346 ATGGTCTTACACGG-ATCACA-TAT-CAT-ACCGATGCCATATCCCAAAT
1 ATGGTCTTATACGGAATCACATTATACATCACCGATGCCATAGCCCAAAT
*
96362392 ATGGTCTTATACGGAATCACATTATCACATCACACCGATGCCATAGCCCAACT
1 ATGGTCTTATACGGAATCACATTAT-ACAT--CACCGATGCCATAGCCCAAAT
96362445 ATGGTCTTATACGG
1 ATGGTCTTATACGG
96362459 GAACGCGAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
46 13 0.23
47 6 0.11
48 3 0.05
50 3 0.05
53 32 0.56
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (50 bp):
ATGGTCTTATACGGAATCACATTATACATCACCGATGCCATAGCCCAAAT
Found at i:96362442 original size:53 final size:51
Alignment explanation
Indices: 96362367--96362526 Score: 178
Period size: 52 Copynumber: 3.1 Consensus size: 51
96362357 CGGATCACAT
* *
96362367 ATCATACCGATGCCATATCCCAAATATGGTCTTATACGGAATCACATTATCAC
1 ATCATACCGATGCCATAGCCCAACTATGGTCTTATACGGAA-CACA-TATCAC
* * *
96362420 ATCACACCGATGCCATAGCCCAACTATGGTCTTATACGGGAACGCGA-ATCGC
1 ATCATACCGATGCCATAGCCCAACTATGGTCTTATAC-GGAACAC-ATATCAC
** * * *
96362472 ATTGTACCAATGCCATAGCCCAGCTATGGTCTTATACGGAAGCATATATCAC
1 ATCATACCGATGCCATAGCCCAACTATGGTCTTATACGGAA-CACATATCAC
96362524 ATC
1 ATC
96362527 TTTTCCATCA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
51 5 0.06
52 43 0.48
53 36 0.40
54 5 0.06
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
ATCATACCGATGCCATAGCCCAACTATGGTCTTATACGGAACACATATCAC
Found at i:96367305 original size:20 final size:20
Alignment explanation
Indices: 96367280--96367319 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
96367270 GGTCAAATTT
96367280 GGAATATTACAATGGTTATC
1 GGAATATTACAATGGTTATC
96367300 GGAATATTACAATGGTTATC
1 GGAATATTACAATGGTTATC
96367320 TGATTATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
GGAATATTACAATGGTTATC
Found at i:96373800 original size:22 final size:23
Alignment explanation
Indices: 96373775--96373820 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
96373765 CAACCAAACC
96373775 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
96373797 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
96373820 A
1 A
96373821 CGCCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:96374823 original size:42 final size:42
Alignment explanation
Indices: 96374762--96374885 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 42
96374752 CTTTTTCTCG
** * * *
96374762 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-ATCA
* *
96374804 ATGCCATAGCCCAGTTATGGTCTTACACATATTCATATATCA
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCA
**
96374846 ATGCCATAGCTTAGCTATGGTCTTACACGA-A-TCACATATC
1 ATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATATC
96374886 TCACTGATGC
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 10 0.14
42 58 0.84
43 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCA
Found at i:96375020 original size:31 final size:31
Alignment explanation
Indices: 96374985--96375102 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
96374975 CTTGTCACTT
*
96374985 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
96375016 GTAGCTGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
96375047 GTAGCAGAAGCTACCACTTTTCACTGAACAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
96375078 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
96375103 TGTCATTTGT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:96375183 original size:50 final size:50
Alignment explanation
Indices: 96375078--96375254 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
96375068 CACTGAACAG
* * *
96375078 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
96375129 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
96375179 GTAGCCGAAGCTATTACTTATCACTTTTATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
96375229 GTAGTCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
96375255 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 93 0.79
51 24 0.21
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:96378595 original size:14 final size:14
Alignment explanation
Indices: 96378576--96378604 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
96378566 GACTCACTCA
96378576 AGATTCTAGAAATT
1 AGATTCTAGAAATT
96378590 AGATTCTAGAAATT
1 AGATTCTAGAAATT
96378604 A
1 A
96378605 ATTATATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
AGATTCTAGAAATT
Found at i:96384733 original size:22 final size:23
Alignment explanation
Indices: 96384708--96384753 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
96384698 CAACCAAACC
96384708 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
96384730 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
96384753 A
1 A
96384754 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:96384759 original size:23 final size:23
Alignment explanation
Indices: 96384715--96384759 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
96384705 ACCAATTCAA
*
96384715 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
96384738 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
96384760 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:96395083 original size:26 final size:25
Alignment explanation
Indices: 96395039--96395094 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
96395029 AAATTTATAT
*
96395039 TAATAATATTAATATTAAATAAATA
1 TAATAATATTAATACTAAATAAATA
* **
96395064 TAATTATATTAATTACTAAATTGATA
1 TAATAATATTAA-TACTAAATAAATA
96395090 TAATA
1 TAATA
96395095 TGTTGAGGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
TAATAATATTAATACTAAATAAATA
Found at i:96399049 original size:6 final size:6
Alignment explanation
Indices: 96399038--96399075 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
96399028 AATTTTAAAT
96399038 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
96399076 ATTAATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:96409858 original size:30 final size:30
Alignment explanation
Indices: 96409822--96409881 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
96409812 GGATATTCGA
96409822 TTATTTTAAGCAAACGCGAAATTGCAACCC
1 TTATTTTAAGCAAACGCGAAATTGCAACCC
96409852 TTATTTTAAGCAAACGCGAAATTGCAACCC
1 TTATTTTAAGCAAACGCGAAATTGCAACCC
96409882 AACACATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (30 bp):
TTATTTTAAGCAAACGCGAAATTGCAACCC
Found at i:96410309 original size:14 final size:14
Alignment explanation
Indices: 96410290--96410319 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96410280 AACACGACAC
96410290 AAAAATAATGGACT
1 AAAAATAATGGACT
*
96410304 AAAAATGATGGACT
1 AAAAATAATGGACT
96410318 AA
1 AA
96410320 CAATCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (14 bp):
AAAAATAATGGACT
Found at i:96411241 original size:19 final size:19
Alignment explanation
Indices: 96411206--96411248 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
96411196 TTAATATAAA
*
96411206 GTTTAAAATAACTAAAATG
1 GTTTAAAATAACTAAAAAG
*
96411225 GTTTGAAATAAAC-AAAAAG
1 GTTTAAAAT-AACTAAAAAG
96411244 GTTTA
1 GTTTA
96411249 TATCACATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (19 bp):
GTTTAAAATAACTAAAAAG
Found at i:96413138 original size:75 final size:73
Alignment explanation
Indices: 96413027--96413198 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
96413017 GGTTTTCCTC
* * * * **
96413027 ATTGAAATACCATACCTACATTTTACAACTCGGTATGGGA-AATGCGATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
96413091 TCAGTATGG
65 TCAGTATGG
* *
96413100 ATTTGATAATACCATACCTACATATCACAACTCAGTATGGATGATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
96413165 CTCAGTATGG
64 CTCAGTATGG
96413175 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
96413199 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
70 20 0.23
73 3 0.03
74 7 0.08
75 57 0.66
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:96413210 original size:35 final size:35
Alignment explanation
Indices: 96413033--96413198 Score: 199
Period size: 35 Copynumber: 4.6 Consensus size: 35
96413023 CCTCATTGAA
* * *
96413033 ATACCATACCTACATTTTACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
* * **
96413068 ATGCGATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
*
96413105 ATAATACCATACCTACATATCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
96413143 ATACCATACCTACATTTCACAACTCAGTATGGATG
1 ATACCATACCTACATTTCACAACTCAGTATGGATG
96413178 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
96413199 CTTTGCCATG
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 3 0.03
35 79 0.71
38 2 0.02
40 28 0.25
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.30
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:96415323 original size:3 final size:3
Alignment explanation
Indices: 96415315--96415365 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
96415305 ACAATACATT
96415315 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
96415363 TTC
1 TTC
96415366 ATGACCAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:96417542 original size:43 final size:43
Alignment explanation
Indices: 96417465--96417612 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
96417455 TATTGAGATG
* ** * *
96417465 TGATTACATGTAAGACCCTGTGTGAAATAGTGGCATTGTACTA
1 TGATTACATGTAAGACCATGTGTGGGACAGTGGCATCGTACTA
* *
96417508 TGATTACGTGTAAGACCATGTGTGGGACATTGGCATCGT--TAA
1 TGATTACATGTAAGACCATGTGTGGGACAGTGGCATCGTACT-A
* * * * *
96417550 TCGATTTCGTATAAGACCCTGTGTGGGACAGTGGCATCGATAC-G
1 T-GATTACATGTAAGACCATGTGTGGGACAGTGGCATCG-TACTA
*
96417594 TGATAACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
96417613 ATCAAGGATA
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 78 0.94
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTGTGGGACAGTGGCATCGTACTA
Found at i:96425535 original size:49 final size:49
Alignment explanation
Indices: 96425482--96425713 Score: 277
Period size: 49 Copynumber: 4.7 Consensus size: 49
96425472 CTATTACGCA
*
96425482 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
* * **
96425531 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAACCATCT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTAG-TACACG
* * * ** * *
96425581 TAGTAGCCTGCGCTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTAGTACACG
* *
96425632 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
* *
96425681 TAGTAACCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
96425714 TCATAATAGA
Statistics
Matches: 154, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 36 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
Found at i:96425656 original size:101 final size:98
Alignment explanation
Indices: 96425482--96425713 Score: 286
Period size: 100 Copynumber: 2.3 Consensus size: 98
96425472 CTATTACGCA
* * * *
96425482 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACATAGTAGCCTGCACTTA
* * *
96425547 GTATTACACACGTGACCTAACCAT-CTGATACACG
66 GTACTACACACGCGACC-AACCATCCAG-TACACG
* * * *
96425581 TAGTAGCCTGCGCTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGAGTACACATAGTAGCCTGCACT
* **
96425646 TAGTACTACACATGCGACCAATTATCCAGTACACG
64 TAGTACTACACACGCGACCAACCATCCAGTACACG
*
96425681 TAGTAACCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
96425714 TCATAATAGA
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
99 29 0.26
100 42 0.37
101 42 0.37
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCAGTACACG
Found at i:96429485 original size:27 final size:28
Alignment explanation
Indices: 96429452--96429511 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
96429442 TGTAATAATG
* *
96429452 ATATATACACAATATGGCA-TTAAGAAT
1 ATATATACACAATATAGCATTTAAAAAT
* *
96429479 ATATATATACAATATAGTATTTAAAAAT
1 ATATATACACAATATAGCATTTAAAAAT
96429507 ATATA
1 ATATA
96429512 CATAAGATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (28 bp):
ATATATACACAATATAGCATTTAAAAAT
Found at i:96429876 original size:28 final size:30
Alignment explanation
Indices: 96429845--96429910 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 30
96429835 AAAATATGGT
* *
96429845 ATTAAGAGTATATATAT-A-AAAATATAAA
1 ATTAAAAGTATATACATAATAAAATATAAA
96429873 ATTAAAAGTATATACATAATAAAATATAGAA
1 ATTAAAAGTATATACATAATAAAATATA-AA
*
96429904 AATAAAA
1 ATTAAAA
96429911 AAAATACATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 15 0.47
29 1 0.03
30 8 0.25
31 8 0.25
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.29
Consensus pattern (30 bp):
ATTAAAAGTATATACATAATAAAATATAAA
Found at i:96430082 original size:3 final size:3
Alignment explanation
Indices: 96430076--96430121 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
96430066 CATATACTAG
*
96430076 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA -CA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96430122 CATAAAGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:96430103 original size:11 final size:11
Alignment explanation
Indices: 96430076--96430120 Score: 72
Period size: 11 Copynumber: 4.0 Consensus size: 11
96430066 CATATACTAG
96430076 TAATAATAATAA
1 TAATAATAAT-A
96430088 TAATAATAATA
1 TAATAATAATA
*
96430099 TAATAATAACA
1 TAATAATAATA
96430110 TAATAATAATA
1 TAATAATAATA
96430121 ACATAAAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAATAATA
Found at i:96430122 original size:14 final size:14
Alignment explanation
Indices: 96430048--96430126 Score: 69
Period size: 14 Copynumber: 5.7 Consensus size: 14
96430038 ATTCAAGATA
96430048 AATACACAT-ATAAT
1 AATA-ACATAATAAT
*
96430062 AA-AACATATACTAGT
1 AATAACATA-A-TAAT
96430077 AAT-A-ATAATAAT
1 AATAACATAATAAT
*
96430089 AATAATA-ATATAAT
1 AATAACATA-ATAAT
96430103 AATAACATAATAAT
1 AATAACATAATAAT
96430117 AATAACATAA
1 AATAACATAA
96430127 AGTAATGGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
12 10 0.19
13 4 0.07
14 33 0.61
15 7 0.13
ACGTcount: A:0.62, C:0.08, G:0.01, T:0.29
Consensus pattern (14 bp):
AATAACATAATAAT
Found at i:96432632 original size:19 final size:18
Alignment explanation
Indices: 96432594--96432632 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
96432584 TCCGACTTAT
*
96432594 AAAAAAAAGAAGAGGAAA
1 AAAAAAAAGAAAAGGAAA
96432612 AAAAACAAAGAAAAGGGAAA
1 AAAAA-AAAGAAAA-GGAAA
96432632 A
1 A
96432633 GGAGAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.77, C:0.03, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAAAGGAAA
Found at i:96433759 original size:27 final size:26
Alignment explanation
Indices: 96433696--96433838 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 26
96433686 CAGCATGGCT
* *
96433696 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
*
96433722 ACCGGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
96433750 ACCAAAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
96433777 ACCAGATCAGATATTTGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
96433804 ACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
96433831 ACCAGAAC
1 ACCAGAAC
96433839 GCTTCCTCCA
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
26 5 0.05
27 84 0.81
28 15 0.14
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:96433788 original size:54 final size:55
Alignment explanation
Indices: 96433696--96433836 Score: 187
Period size: 54 Copynumber: 2.6 Consensus size: 55
96433686 CAGCATGGCT
* * *
96433696 ACCAGAACAGATA-ATGTGACAGAGTCACCGGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
* * *
96433750 ACCAAAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
* * *
96433804 ACCAGATCAGATATTTGTGGCATAGCCACCAGA
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGA
96433837 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (55 bp):
ACCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
Found at i:96434660 original size:54 final size:54
Alignment explanation
Indices: 96434578--96434685 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
96434568 ATAACTGGAG
96434578 CTACGAAACTCCAAATCAAGTGCCGTTAATTTTCCCTGAAAATAGACTCATATA
1 CTACGAAACTCCAAATCAAGTGCCGTTAATTTTCCCTGAAAATAGACTCATATA
96434632 CTACGAAACTCCAAATCAAGTGCCGTTAATTTTCCCTGAAAATAGACTCATATA
1 CTACGAAACTCCAAATCAAGTGCCGTTAATTTTCCCTGAAAATAGACTCATATA
96434686 TCTTTTATCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (54 bp):
CTACGAAACTCCAAATCAAGTGCCGTTAATTTTCCCTGAAAATAGACTCATATA
Found at i:96435530 original size:26 final size:26
Alignment explanation
Indices: 96435494--96435603 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
96435484 CATGAAATTC
96435494 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
96435520 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
96435546 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
96435572 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
96435598 TTATCA
1 TTATCA
96435604 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:96435614 original size:10 final size:10
Alignment explanation
Indices: 96435599--96435623 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
96435589 CCTAACCTAT
96435599 TATCAATTTG
1 TATCAATTTG
96435609 TATCAATTTG
1 TATCAATTTG
96435619 TATCA
1 TATCA
96435624 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:96440410 original size:26 final size:26
Alignment explanation
Indices: 96440361--96440411 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
96440351 ATAATTAAAA
*
96440361 ATTATATAATATATATAATGTTTATG
1 ATTATATAATATATAGAATGTTTATG
96440387 ATTATATAATATATAAGAAT-TTTAT
1 ATTATATAATATAT-AGAATGTTTAT
96440412 AAATATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (26 bp):
ATTATATAATATATAGAATGTTTATG
Found at i:96440418 original size:26 final size:26
Alignment explanation
Indices: 96440363--96440418 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
96440353 AATTAAAAAT
* * *
96440363 TATATAATATATATAATGTTTATGAT
1 TATATAATATATAGAATGTTTATAAA
96440389 TATATAATATATAAGAAT-TTTATAAA
1 TATATAATATAT-AGAATGTTTATAAA
96440415 TATA
1 TATA
96440419 ATTAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (26 bp):
TATATAATATATAGAATGTTTATAAA
Found at i:96441623 original size:15 final size:15
Alignment explanation
Indices: 96441603--96441633 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96441593 AGGTGAATGG
96441603 TTGATTAAGTTAAAT
1 TTGATTAAGTTAAAT
*
96441618 TTGATTAAGTTTAAT
1 TTGATTAAGTTAAAT
96441633 T
1 T
96441634 GATATGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (15 bp):
TTGATTAAGTTAAAT
Found at i:96443013 original size:131 final size:130
Alignment explanation
Indices: 96442784--96443291 Score: 502
Period size: 131 Copynumber: 3.9 Consensus size: 130
96442774 GTGAAATTTC
* * * * * *
96442784 GAAGAGATATTCGATTGTTTAGAACAAACGAGAGATTGCAACCCAGCGCGA-TAGGGCACGATTC
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACAC-ATTAGGGCACGATTC
* * * * * **
96442848 TCGAATTGCCAAACATCGAACATAGCTTTTGTTTTAAAGGGTTTTTAATAAACATGAGTGAAAAT
65 CCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAA-AAACATGAGTGAAAAT
96442913 CT
129 CT
* * ** ** * *
96442915 AAAGGAATATTCGATCGTTTTGAACAAACGAGAAATTATAACCCAGCACGA-TAGGGCATGATTC
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACAC-ATTAGGGCACGATTC
* ** * * * * * *
96442979 CCGAATTGTCAAACGCCGAATATTGCCTTCGTTTTAGAGGATTTTTAGAAGACCTGAATG-GAAT
65 CCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTA-AAAACATGAGTGAAAAT
96443043 CT
129 CT
* * *
96443045 CGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACATTAGGGTACGATTC
1 -GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTC
* * *
96443110 TGCGAATTGCCAAATATCGAACT-TTGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAA
65 -CCGAATTGCCAAACATCGAA-TATTGCCTTCGTTTTAAAGAATTTTTAAAA-ACATGAGTGAAA
* *
96443174 GTTT
127 ATCT
* * * *
96443178 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACATTAGGGCACTATTCC
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCC
* * *
96443243 GCGAATTGCCAAATATCGAATCTTGTCTTCGTTTTAAAGAATTTTTAAA
66 -CGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAA
96443292 TGTATAATCA
Statistics
Matches: 312, Mismatches: 56, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
130 6 0.02
131 153 0.49
132 149 0.48
133 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (130 bp):
GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCC
CGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAAAACATGAGTGAAAATCT
Done.