Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 32 of 295
Found at i:8933746 original size:5 final size:5
Alignment explanation
Indices: 8933736--8933762 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
8933726 TTGTCTGTTC
8933736 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
8933763 CCACAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:8936807 original size:46 final size:46
Alignment explanation
Indices: 8936737--8937056 Score: 419
Period size: 46 Copynumber: 7.0 Consensus size: 46
8936727 GCTCTCTGAA
* * *
8936737 ATGAAAT-ATGTAAGACCGTGGTTGAAAGATACCATGGTAACATGAT
1 ATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
8936783 AAGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
8936829 ATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
8936875 GGGAAATGAGTAAGACCATGGTTGAAAGATACCATGGTAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
8936921 ATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
8936967 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
8937013 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
8937057 TCAAAGATAA
Statistics
Matches: 243, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 242 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:8937272 original size:42 final size:42
Alignment explanation
Indices: 8937225--8937310 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
8937215 ATGAAATAAT
8937225 TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
1 TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
8937267 TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
1 TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
8937309 TA
1 TA
8937311 ATTTATGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (42 bp):
TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
Found at i:8941792 original size:5 final size:5
Alignment explanation
Indices: 8941782--8941809 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8941772 TTGTGTGTTC
8941782 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
8941810 CACACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:8942851 original size:3 final size:3
Alignment explanation
Indices: 8942843--8942868 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8942833 TAAATCACTA
8942843 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
8942869 TATGAATGAT
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:8945394 original size:23 final size:22
Alignment explanation
Indices: 8945351--8945405 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
8945341 ACCAACATTT
* *
8945351 TCAAGAACATTAAGAACAATTAA
1 TCAA-AACATTAAAAAAAATTAA
*
8945374 TCAAAACATTATAAAAAAATTGA
1 TCAAAACATTA-AAAAAAATTAA
*
8945397 TTAAAACAT
1 TCAAAACAT
8945406 AAAGATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.25
Consensus pattern (22 bp):
TCAAAACATTAAAAAAAATTAA
Found at i:8949028 original size:31 final size:31
Alignment explanation
Indices: 8948993--8949054 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
8948983 TACTAAAAAA
* *
8948993 ATTACTTTTTTGTTTCTCTCATCTACTTCTT
1 ATTACATTTTAGTTTCTCTCATCTACTTCTT
8949024 ATTACATTTTAGTTTCTCTCATCTACTTCTT
1 ATTACATTTTAGTTTCTCTCATCTACTTCTT
8949055 CTCTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.16, C:0.23, G:0.03, T:0.58
Consensus pattern (31 bp):
ATTACATTTTAGTTTCTCTCATCTACTTCTT
Found at i:8957096 original size:22 final size:21
Alignment explanation
Indices: 8957061--8957154 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 21
8957051 AAAGGATATC
* *
8957061 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
8957082 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
8957105 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
8957124 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
8957142 TGC-AATCATATCT
1 TACAAATCATATCT
8957155 AAGATTGCAT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
18 24 0.38
19 11 0.17
20 1 0.02
21 3 0.05
22 15 0.23
23 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:8957104 original size:23 final size:22
Alignment explanation
Indices: 8957061--8957118 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
8957051 AAAGGATATC
* *
8957061 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
8957082 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
8957105 TGCATATCATATCT
1 TACAAATCATATCT
8957119 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:8957133 original size:18 final size:19
Alignment explanation
Indices: 8957097--8957169 Score: 132
Period size: 18 Copynumber: 3.9 Consensus size: 19
8957087 AATCATATCT
8957097 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
8957116 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
8957134 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
8957152 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
8957170 TGAAGATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 36 0.68
19 17 0.32
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:8957325 original size:21 final size:20
Alignment explanation
Indices: 8957288--8957326 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8957278 TTGGACTTTG
**
8957288 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
8957308 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
8957327 TCAGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:8957574 original size:45 final size:45
Alignment explanation
Indices: 8957519--8957792 Score: 261
Period size: 45 Copynumber: 6.1 Consensus size: 45
8957509 GGAAGGCGAT
* * *
8957519 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAA
* * * *
8957564 ATCTGTTATCTTCGATCTACTCCCCGTCTAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAA
* * * *
8957609 ATTTGCT-TCTTCAATCTGCTCCCCGTCTAATA-AAGAGATTCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAA-AGATGCCAA
* *
8957653 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAA
* * * * * * * *
8957698 ATCTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACA-AAG-ATGCCAA
*
8957743 ATCTGTTATGTCTTCAATCTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTA--TCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAA
8957790 ATC
1 ATC
8957793 ATCTTGGATC
Statistics
Matches: 181, Mismatches: 37, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
43 6 0.03
44 41 0.23
45 103 0.57
46 2 0.01
47 18 0.10
48 6 0.03
49 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAA
Found at i:8957684 original size:89 final size:89
Alignment explanation
Indices: 8957533--8957699 Score: 246
Period size: 89 Copynumber: 1.9 Consensus size: 89
8957523 GCTATCTTTG
* *
8957533 ATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTTCGATCTACTCCCCGTCTAATAT
1 ATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTCCGATCTACTCCCCGTCTAATAC
*
8957598 AGAGACGCCAAATTTGCTTCTTCA
66 AAAGACGCCAAATTTGCTTCTTCA
** * *
8957622 ATCTGCTCCCCGTCTAATA-AAGAGATTCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATA
1 ATCTGCTCCCCGTCTAATACAA-AGACGCCAAATCTGTTATCTCCGATCTACTCCCCGTCTAATA
*
8957686 CAAAGATGCCAAAT
65 CAAAGACGCCAAAT
8957700 CTGTCATCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
88 2 0.03
89 67 0.97
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTCCGATCTACTCCCCGTCTAATAC
AAAGACGCCAAATTTGCTTCTTCA
Found at i:8957863 original size:78 final size:78
Alignment explanation
Indices: 8957732--8957903 Score: 267
Period size: 78 Copynumber: 2.2 Consensus size: 78
8957722 ATGTAAACAC
*
8957732 ATGAAGGTCAGATCTGTTATGTCTTCAATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGTTATGTCTTCAATATGCTCCCCGTCTAATACAAAGATGCCAAATCATCT
*
8957797 TGGATCTGCTTCA
66 TGGATCTACTTCA
* **
8957810 ATGAAGGTCCA-ATCTGTTATGTCTTCGATATGCTCCCCGTCTAATACGGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGTTATGTCTTCAATATGCTCCCCGTCTAATACAAAGATGCCAAATCATC
8957874 TTGGATCTACTTCA
65 TTGGATCTACTTCA
8957888 AT-AATGGTCAGATCTG
1 ATGAA-GGTCAGATCTG
8957904 CTCTCAATAG
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
77 4 0.05
78 80 0.93
79 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGTTATGTCTTCAATATGCTCCCCGTCTAATACAAAGATGCCAAATCATCT
TGGATCTACTTCA
Found at i:8958090 original size:44 final size:44
Alignment explanation
Indices: 8958010--8958501 Score: 575
Period size: 44 Copynumber: 11.2 Consensus size: 44
8958000 CACGTGAAAA
* * * * * *
8958010 CCAAATCTACTATGTCTTCAATTTGCTCTCTAACAATATAGAGATG
1 CCAAATCTGCTA--TCTTCGATCTGCTCTCTGACAATACAGAGACG
*
8958056 CCAAATCTGCTATCTTCGATCTGCTTTCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
** * * * *
8958100 CCAAA--T-C-ATCTTAAATCCGCT-TCAG-CGTAA-ACACGTGAAAG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGAC--AATACA-GAG-ACG
* * * * *
8958141 CCAAATCTGCTATATCTTCAATTTTCTCTCTGAAAATACAGAGATG
1 CCAAATCTGC--TATCTTCGATCTGCTCTCTGACAATACAGAGACG
* *
8958187 CCAAATCTGCTATCTTCGATCTGCTCTTTGACAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* *
8958231 CCAAATCTGCTATCTTCAATCTGCCCTCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* *
8958275 CCAAATCTTCTATCTTCGATCTGCTCCCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* * *
8958319 CCAAATCTTCTATTTTCGATCTGCCCTCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* * *
8958363 CCAAATCTGCTATCTTCGATCTGCTCCCTGAGAATACAGAGACA
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
*
8958407 CCAAATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
*
8958451 CCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
8958495 CCAAATC
1 CCAAATC
8958502 ATCTTAGATC
Statistics
Matches: 384, Mismatches: 49, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.00
39 6 0.02
40 15 0.04
41 8 0.02
42 1 0.00
43 1 0.00
44 309 0.80
46 23 0.06
47 14 0.04
48 6 0.02
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
Found at i:8959477 original size:1 final size:1
Alignment explanation
Indices: 8959466--8959540 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
8959456 GGCCTCTCCA
* * * * * * * * * *
8959466 TTTTTTCTTTTTTCTTTTTTCTTTTTTTTCTTTTTATTTTTTTCTCTTTTTATTTTATTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
8959531 CTTTTTTTTT
1 TTTTTTTTTT
8959541 GAAATAGAAG
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:8959478 original size:7 final size:7
Alignment explanation
Indices: 8959466--8959537 Score: 67
Period size: 7 Copynumber: 9.9 Consensus size: 7
8959456 GGCCTCTCCA
8959466 TTTTTTC
1 TTTTTTC
8959473 TTTTTTC
1 TTTTTTC
8959480 TTTTTTC
1 TTTTTTC
8959487 TTTTTTTTC
1 --TTTTTTC
8959496 TTTTTAT-
1 TTTTT-TC
8959503 TTTTTTC
1 TTTTTTC
*
8959510 TCTTTTTA
1 T-TTTTTC
8959518 TTTTATT-
1 TTTT-TTC
*
8959525 TTTTTCC
1 TTTTTTC
8959532 TTTTTT
1 TTTTTT
8959538 TTTGAAATAG
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
6 2 0.04
7 37 0.67
8 9 0.16
9 7 0.13
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:8959492 original size:16 final size:16
Alignment explanation
Indices: 8959473--8959527 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
8959463 CCATTTTTTC
8959473 TTTTTTCTTTTT-TCTT
1 TTTTTTCTTTTTAT-TT
8959489 TTTTTTCTTTTTATTT
1 TTTTTTCTTTTTATTT
*
8959505 TTTTCTCTTTTTATTT
1 TTTTTTCTTTTTATTT
8959521 TATTTTT
1 T-TTTTT
8959528 TTCCTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
16 30 0.86
17 5 0.14
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTCTTTTTATTT
Found at i:8959494 original size:23 final size:22
Alignment explanation
Indices: 8959466--8959539 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 22
8959456 GGCCTCTCCA
8959466 TTTTTTCTTTTTTCTTTTTTCTT
1 TTTTTTCTTTTTT-TTTTTTCTT
8959489 TTTTTTCTTTTTATTTTTTTCTCT
1 TTTTTTCTTTTT-TTTTTTTCT-T
* * *
8959513 TTTTAT-TTTATTTTTTTCCTT
1 TTTTTTCTTTTTTTTTTTTCTT
8959534 TTTTTT
1 TTTTTT
8959540 TGAAATAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.13
22 8 0.18
23 24 0.53
24 7 0.16
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTTCTTTTTTTTTTTTCTT
Found at i:8965183 original size:23 final size:22
Alignment explanation
Indices: 8965140--8965197 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
8965130 AAAGGATATC
* *
8965140 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
8965161 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
8965184 TGCATATCATATCT
1 TACAAATCATATCT
8965198 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:8965200 original size:19 final size:19
Alignment explanation
Indices: 8965176--8965266 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
8965166 AATCATATCT
8965176 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
8965195 TCTAAGATTGCA-ATAATA
1 TCTAAGATTGCATATCATA
8965213 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
8965230 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
8965249 TTTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
8965267 TAAAGATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 34 0.53
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:8965272 original size:17 final size:18
Alignment explanation
Indices: 8965233--8965274 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
8965223 TATCATATCT
*
8965233 AAGATTGCATATCACATTT
1 AAGATTGCATAT-ACATTA
8965252 AAGATTGCATAT-CATTA
1 AAGATTGCATATACATTA
8965269 AAGATT
1 AAGATT
8965275 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
AAGATTGCATATACATTA
Found at i:8966072 original size:18 final size:18
Alignment explanation
Indices: 8966049--8966090 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8966039 AATTTGAAAT
* *
8966049 AAAACATGAACTTTTGGG
1 AAAACATGAAATTTTAGG
8966067 AAAACATGAAATTTTAGG
1 AAAACATGAAATTTTAGG
8966085 AAAACA
1 AAAACA
8966091 GTGGTCACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.24
Consensus pattern (18 bp):
AAAACATGAAATTTTAGG
Found at i:8966348 original size:85 final size:85
Alignment explanation
Indices: 8966205--8966369 Score: 312
Period size: 85 Copynumber: 1.9 Consensus size: 85
8966195 TGGGTATTTG
*
8966205 TGTAACACCCCTTACCCGTATCCGAGGCCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
1 TGTAACACCCCTTACCCGTATCCAAGGCCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
8966270 AACATTAAACTAAAACTAAA
66 AACATTAAACTAAAACTAAA
*
8966290 TGTAACACCCCTTACCCGTATCCAAGGTCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
1 TGTAACACCCCTTACCCGTATCCAAGGCCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
8966355 AACATTAAACTAAAA
66 AACATTAAACTAAAA
8966370 TACGAGCCAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (85 bp):
TGTAACACCCCTTACCCGTATCCAAGGCCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
AACATTAAACTAAAACTAAA
Found at i:8971199 original size:18 final size:18
Alignment explanation
Indices: 8971146--8971199 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
8971136 AACATTAGTC
8971146 ATCTTTTTCTAGTTTTTCTT
1 ATCTTTTT-TA-TTTTTCTT
*
8971166 TTC-TTTTTATTGTTTCTT
1 ATCTTTTTTATT-TTTCTT
8971184 ATCTTTTTTATTTTTC
1 ATCTTTTTTATTTTTC
8971200 AGGTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 2 0.07
18 14 0.47
19 12 0.40
20 2 0.07
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.74
Consensus pattern (18 bp):
ATCTTTTTTATTTTTCTT
Found at i:8974504 original size:50 final size:49
Alignment explanation
Indices: 8974429--8974665 Score: 208
Period size: 50 Copynumber: 4.8 Consensus size: 49
8974419 AGAATACACG
* * * *
8974429 TGTGTAGTACTGAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAA-TCACA
* * ** *
8974479 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC-A-GACTGTTAATCACA
* * *
8974530 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTG-TTA-ATCACA
* * * * * * *
8974580 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATTGTTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCACA
* * *
8974629 TGTGCAGTACTAAGTGCAGGCTACTATGCGTATCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA
8974666 TAGCTTCGGC
Statistics
Matches: 150, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 35 0.23
50 69 0.46
51 37 0.25
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCACA
Found at i:8980453 original size:40 final size:40
Alignment explanation
Indices: 8980386--8980642 Score: 288
Period size: 40 Copynumber: 6.5 Consensus size: 40
8980376 ACCCAAGTAT
8980386 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
*
8980425 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
8980465 CTTCGGGTCTTAGCCTGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * **
8980505 CTTCGGGACATAGCCCGGATACAACAACTTACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
8980545 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * * **
8980585 CTTCGGGACATAGCCCAGATATAGCAACTCGCATGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
8980625 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
8980643 TTATCATCCG
Statistics
Matches: 183, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.07
40 167 0.91
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:8980519 original size:80 final size:79
Alignment explanation
Indices: 8980386--8980642 Score: 347
Period size: 80 Copynumber: 3.2 Consensus size: 79
8980376 ACCCAAGTAT
* * * *
8980386 CTTCGGGAT-TTAGCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGG-TCTTAGCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
8980449 CAACTCGCACAAATGC
64 CAACTCGCACAAATGC
* *
8980465 CTTCGGGTCTTAGCCTGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATACAAC
1 CTTCGGGTCTTAGCC-GGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
**
8980530 AACTTACACAAATGC
65 AACTCGCACAAATGC
*
8980545 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCAGATATAGC
1 CTTCGGGTCTTAG-CCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
**
8980610 AACTCGCATGAATGC
65 AACTCGCACAAATGC
*
8980625 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
8980643 TTATCATCCG
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 13 0.08
80 140 0.89
81 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:8986497 original size:46 final size:46
Alignment explanation
Indices: 8986402--8986904 Score: 643
Period size: 46 Copynumber: 11.0 Consensus size: 46
8986392 TTATCTTTGA
* * * * * *
8986402 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** * *
8986448 CATGTTACCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** * *
8986494 CATGTTGCCATGGTAGCTTTCAACCATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * ** *
8986540 CACGCTGCCATGGTATCTTTCTACCATGGTCTTATTCATTTC-TCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-AT
* ** *
8986586 CTTGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** * *
8986631 CACATTGTCATGGTATCTTTTAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
8986677 CATGTTGCCATGATATTTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
8986723 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
8986769 CATGTTGCCATGGTATCTTTTAACCATGGTCATACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
8986815 CATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
8986861 CATGTTGCCATGGTATCTTCCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
8986905 TTCAGAGAGC
Statistics
Matches: 408, Mismatches: 45, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
45 41 0.10
46 367 0.90
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:8991747 original size:20 final size:20
Alignment explanation
Indices: 8991717--8991761 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
8991707 CTGTTTTATT
8991717 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
8991736 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
8991756 ATGGGC
1 ATGGGC
8991762 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:8992719 original size:18 final size:18
Alignment explanation
Indices: 8992678--8992721 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
8992668 CATCAAGAAG
*
8992678 GGTTTTCAATGAAAACAT
1 GGTTTTCGATGAAAACAT
8992696 GG-TTTCGATGAAAACAT
1 GGTTTTCGATGAAAACAT
8992713 GGTTTTCGA
1 GGTTTTCGA
8992722 AAAACACTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (18 bp):
GGTTTTCGATGAAAACAT
Found at i:8994173 original size:13 final size:13
Alignment explanation
Indices: 8994155--8994191 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
8994145 CCAACCACAC
*
8994155 GCCCGTGTGTCTA
1 GCCCGTGTGCCTA
8994168 GCCCGTGTGCCTA
1 GCCCGTGTGCCTA
8994181 GCCCGTGTGCC
1 GCCCGTGTGCC
8994192 CTTCGAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.05, C:0.38, G:0.32, T:0.24
Consensus pattern (13 bp):
GCCCGTGTGCCTA
Found at i:8996364 original size:14 final size:14
Alignment explanation
Indices: 8996345--8996375 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8996335 ATGATAACCG
8996345 TTTGTTTTCTATTA
1 TTTGTTTTCTATTA
8996359 TTTGTTTTCTATTA
1 TTTGTTTTCTATTA
8996373 TTT
1 TTT
8996376 TACTAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.74
Consensus pattern (14 bp):
TTTGTTTTCTATTA
Found at i:9001644 original size:37 final size:37
Alignment explanation
Indices: 9001597--9001674 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
9001587 CACCAAATGA
* *
9001597 AACACGCCAAATGCTCATAAGAGCTAATCCAACCAAT
1 AACACACCAAACGCTCATAAGAGCTAATCCAACCAAT
* *
9001634 AACACACCAAACGCTCATGAGAGCTAATCCAACCGAT
1 AACACACCAAACGCTCATAAGAGCTAATCCAACCAAT
9001671 AACA
1 AACA
9001675 TGCTTCGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.14
Consensus pattern (37 bp):
AACACACCAAACGCTCATAAGAGCTAATCCAACCAAT
Found at i:9002862 original size:12 final size:13
Alignment explanation
Indices: 9002845--9002873 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9002835 CTTTTAATTT
9002845 CTTTAA-TTTTAA
1 CTTTAATTTTTAA
9002857 CTTTAATTTTTAA
1 CTTTAATTTTTAA
9002870 CTTT
1 CTTT
9002874 TACTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (13 bp):
CTTTAATTTTTAA
Found at i:9006192 original size:67 final size:67
Alignment explanation
Indices: 9006084--9006217 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
9006074 TTTTTTATAA
* *
9006084 TTCATATTATTTCCTTATTCAATTTCCCTCAAAAGTTTAATATAACCATCAAACTTTCATCATTT
1 TTCATATTATTTCCTTATTCAATTTCCCTCAAAACTTTAATATAACCATCAAACTTTAATCATTT
9006149 TT
66 TT
*
9006151 TTCATATTATTTCCTTATTCAATTTCCCTCAAAACTTTAATATAACCGTCAAACTTTAATCATTT
1 TTCATATTATTTCCTTATTCAATTTCCCTCAAAACTTTAATATAACCATCAAACTTTAATCATTT
9006216 TT
66 TT
9006218 CCATAATTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.31, C:0.21, G:0.01, T:0.46
Consensus pattern (67 bp):
TTCATATTATTTCCTTATTCAATTTCCCTCAAAACTTTAATATAACCATCAAACTTTAATCATTT
TT
Found at i:9006512 original size:5 final size:5
Alignment explanation
Indices: 9006502--9006541 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
9006492 AATTTCTCCT
9006502 TTTTC TTTTC TTTTC --TTC TTTT- TTTTC TATTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC TTTTC TT
9006542 CTCTGTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
3 3 0.10
4 4 0.13
5 19 0.61
6 5 0.16
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:9006534 original size:18 final size:18
Alignment explanation
Indices: 9006502--9006536 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9006492 AATTTCTCCT
9006502 TTTTCTTTTCTTTTCTTC
1 TTTTCTTTTCTTTTCTTC
9006520 TTTT-TTTTCTATTTCTT
1 TTTTCTTTTCT-TTTCTT
9006537 TTCTTCTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTCTTTTCTTC
Found at i:9006534 original size:23 final size:22
Alignment explanation
Indices: 9006501--9006543 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
9006491 TAATTTCTCC
9006501 TTTTTCTTTTCTTTTCTTCTTT
1 TTTTTCTTTTCTTTTCTTCTTT
9006523 TTTTTCTATTTCTTTTCTTCT
1 TTTTTCT-TTTCTTTTCTTCT
9006544 CTGTAACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTCTTTTCTTTTCTTCTTT
Found at i:9006719 original size:3 final size:3
Alignment explanation
Indices: 9006711--9006735 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9006701 TTGATAAAAT
9006711 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
9006736 ATATATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9006967 original size:20 final size:21
Alignment explanation
Indices: 9006921--9006968 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
9006911 TCCTTTCTTA
*
9006921 CTAATTACTTCTAATTAAAAAT
1 CTAATT-CTCCTAATTAAAAAT
*
9006943 -AAATTCTCCTAATT-AAAAT
1 CTAATTCTCCTAATTAAAAAT
9006962 CTAATTC
1 CTAATTC
9006969 AACTTGCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
CTAATTCTCCTAATTAAAAAT
Found at i:9007457 original size:20 final size:20
Alignment explanation
Indices: 9007432--9007471 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9007422 ATCGTACAGA
9007432 GTCAACCAATCCATACCAAG
1 GTCAACCAATCCATACCAAG
9007452 GTCAACCAATCCATACCAAG
1 GTCAACCAATCCATACCAAG
9007472 AATCTCATCA
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:0.40, C:0.35, G:0.10, T:0.15
Consensus pattern (20 bp):
GTCAACCAATCCATACCAAG
Found at i:9010662 original size:41 final size:41
Alignment explanation
Indices: 9010599--9010731 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
9010589 CCAAATACAT
* * *
9010599 CCTTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTAAA
1 CCTTTTCATTTGATATCATTTTCGGATAACATCCTTTTCAA
* *
9010640 CCTTTTCATTTGATGTCATTTTCGGATAACATCATTTTCAA
1 CCTTTTCATTTGATATCATTTTCGGATAACATCCTTTTCAA
* * **
9010681 TCTTTTTATTTGATATCATTTTTAGATAACATCCTTTTCAA
1 CCTTTTCATTTGATATCATTTTCGGATAACATCCTTTTCAA
9010722 CCTTTTCATT
1 CCTTTTCATT
9010732 GATTCAAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (41 bp):
CCTTTTCATTTGATATCATTTTCGGATAACATCCTTTTCAA
Found at i:9010819 original size:20 final size:20
Alignment explanation
Indices: 9010794--9010832 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9010784 CCTTTTAGAG
9010794 TGTATTTCAATCACGGTCCA
1 TGTATTTCAATCACGGTCCA
*
9010814 TGTATTTCAATCATGGTCC
1 TGTATTTCAATCACGGTCC
9010833 TTTCCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATTTCAATCACGGTCCA
Found at i:9012839 original size:59 final size:59
Alignment explanation
Indices: 9012747--9012865 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
9012737 TAAAGCTCAA
* *
9012747 TGAGTGCACATGCATACAACACAAATATACACACCAAACATGTTAGGATTTAAACATAG
1 TGAGTACACATGCATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAG
*
9012806 TGAGTACACATGCATACAACACAAATATACACACCAAACATTTTAGGATATAAACATAG
1 TGAGTACACATGCATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAG
9012865 T
1 T
9012866 TTAAAAATTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (59 bp):
TGAGTACACATGCATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAG
Found at i:9012886 original size:59 final size:58
Alignment explanation
Indices: 9012759--9012888 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 58
9012749 AGTGCACATG
* * * *
9012759 CATACAACACAAATATACACACCAAACATGTTAGGATTTAAACATAGTGAGTACACATG
1 CATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAGT-AGTAAAAATA
* *
9012818 CATACAACACAAATATACACACCAAACATTTTAGGATATAAACATAGT-TTAAAAATTCA
1 CATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAGTAGTAAAAA-T-A
*
9012877 CATATAACACAA
1 CATACAACACAA
9012889 TTTTCATACT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 4 0.06
58 1 0.02
59 57 0.92
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.23
Consensus pattern (58 bp):
CATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAGTAGTAAAAATA
Found at i:9021875 original size:37 final size:37
Alignment explanation
Indices: 9021829--9021910 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
9021819 AAATTTGAGC
9021829 GAATTTTGCAAAAGGTGATGAAAATTTAAATCTATTT
1 GAATTTTGCAAAAGGTGATGAAAATTTAAATCTATTT
*
9021866 GAATTTTGCAAAAGGTGATGAAATTTTAAATCTATTT
1 GAATTTTGCAAAAGGTGATGAAAATTTAAATCTATTT
9021903 GAATTTTG
1 GAATTTTG
9021911 AAAGAGGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (37 bp):
GAATTTTGCAAAAGGTGATGAAAATTTAAATCTATTT
Found at i:9022356 original size:40 final size:40
Alignment explanation
Indices: 9022312--9022393 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
9022302 ATTGGATAGA
*
9022312 TTATAGATTTAATTTATTTTTAAAAACTAGATAAATACTT
1 TTATAGATTTAATTTATTCTTAAAAACTAGATAAATACTT
9022352 TTATAGATTTAATTTATTCTTAAAAACTAGATAAATACTT
1 TTATAGATTTAATTTATTCTTAAAAACTAGATAAATACTT
9022392 TT
1 TT
9022394 TTTCATAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (40 bp):
TTATAGATTTAATTTATTCTTAAAAACTAGATAAATACTT
Found at i:9022926 original size:12 final size:13
Alignment explanation
Indices: 9022904--9022933 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
9022894 CTAGCTTCGG
9022904 TTTTCAATTTTAA
1 TTTTCAATTTTAA
9022917 TTTT-AATTTTAA
1 TTTTCAATTTTAA
9022929 TTTTC
1 TTTTC
9022934 CTTTGTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTTAA
Found at i:9029339 original size:16 final size:16
Alignment explanation
Indices: 9029318--9029349 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9029308 AGATTAGGTT
9029318 GACAATGCATCAATGC
1 GACAATGCATCAATGC
9029334 GACAATGCATCAATGC
1 GACAATGCATCAATGC
9029350 CCTGACCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (16 bp):
GACAATGCATCAATGC
Found at i:9032100 original size:34 final size:34
Alignment explanation
Indices: 9032050--9032125 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
9032040 TAAAGTATCA
*
9032050 TCATCA-TATTAACCAGGTCCTTTCATCAATTTC
1 TCATCATTATCAACCAGGTCCTTTCATCAATTTC
*
9032083 TCATCATTATCAACCAGGTCCTTTCATCAGTTTC
1 TCATCATTATCAACCAGGTCCTTTCATCAATTTC
9032117 TCATCATTA
1 TCATCATTA
9032126 ACTTGAACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 6 0.15
34 34 0.85
ACGTcount: A:0.26, C:0.28, G:0.07, T:0.39
Consensus pattern (34 bp):
TCATCATTATCAACCAGGTCCTTTCATCAATTTC
Found at i:9047255 original size:220 final size:220
Alignment explanation
Indices: 9046873--9047740 Score: 1405
Period size: 220 Copynumber: 3.9 Consensus size: 220
9046863 GTAACAGGCT
9046873 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
1 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
*
9046938 CTTGCGTTTACAAGGAGCAGATTGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
66 CTTGCGTTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
* *
9047003 AGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATT
131 AGATATAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
9047068 TCCATATTCGACGGAGAGCAAATCA
196 TCCATATTCGACGGAGAGCAAATCA
*
9047093 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGTATC
1 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
* *
9047158 CTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGATTTCACGTGTTTACGCTGAAGC
66 CTTGCGTTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
* * *
9047223 AGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACTGATTTGGCATC
131 AGATATAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
* *
9047288 TCCATATTCGACGGATAGCAAATCG
196 TCCATATTCGACGGAGAGCAAATCA
* * * *
9047313 AAGACACAGTAGATCTAACCATCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATC
1 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
**
9047378 CTTGCGTTTACAAGGAGCAGATCGAAGACATAATAGATTTGGCTTTCACGTGTTTACGCTGAAGC
66 CTTGCGTTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
*
9047443 AGATATAATATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
131 AGATATAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
*
9047508 TCTATATTCGACGGAGAGCAAAT-A
196 TCCATATTCGACGGAGAGCAAATCA
*
9047532 GAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCAT
1 -AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCAT
* * *
9047597 CCTTGCGGTTACAAGGAGCAGATCGAAGACATAGTAGATTTGGCTTTCACGTGTGTACGCTGAAG
65 CCTTGCGTTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAG
* * ** *
9047662 CAGATATAAGATAGCAGATTTGGCGTCCCTGTATTGTCAGAGAGTAGATCGAAGATAACAGATTT
130 CAGATATAAGAT----GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGA-AACAGATTT
* *
9047727 GGCGTCTCTATATT
190 GGCATCTCCATATT
9047741 GTCAGAGAGC
Statistics
Matches: 602, Mismatches: 40, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
220 546 0.91
224 34 0.06
225 22 0.04
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (220 bp):
AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
CTTGCGTTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
AGATATAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
TCCATATTCGACGGAGAGCAAATCA
Found at i:9047724 original size:44 final size:44
Alignment explanation
Indices: 9047660--9047908 Score: 270
Period size: 44 Copynumber: 5.6 Consensus size: 44
9047650 TGTACGCTGA
** * *
9047660 AGCAGATATAAGATAGCAGATTTGGCGTCCCTGTATTGTCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
* *
9047704 AGTAGATCGAAGATAACAGATTTGGCGTCTCTATATTGTCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
* * * *
9047748 AGCAGATCGAAGATATAGTAGATTTGGCTTTCACGTGT-TTACG-CTGA-
1 AGCAGATCGAAGATA-A-CAGATTTGGC-GTCTC-TGTATT--GTCAGAG
* *
9047795 AGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
* * * *
9047839 AGCAAATCGAATATAGCAGATTTGGCGTCTCTGTATTGACAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
*
9047883 AGCAGATCAAAGATAACAGATTTGGC
1 AGCAGATCGAAGATAACAGATTTGGC
9047909 ATTCCTGAGT
Statistics
Matches: 170, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 119 0.70
45 10 0.06
46 9 0.05
47 19 0.11
48 5 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (44 bp):
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
Found at i:9047896 original size:135 final size:135
Alignment explanation
Indices: 9047612--9047897 Score: 455
Period size: 135 Copynumber: 2.1 Consensus size: 135
9047602 CGGTTACAAG
* *
9047612 GAGCAGATCGAAGACATAGTAGATTTGGCTTTCACGTGTGTACGCTGAAGCAGATATAAGATAGC
1 GAGCAGATCGAAGATATAGTAGATTTGGCTTTCACGTGTGTACGCTGAAGCAGATAGAAGATAGC
* *
9047677 AGATTTGGCGTCCCTGTATTGTCAGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTATATTG
66 AGATTTGGCGTCCCTGTATTGTCAGAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTATATTG
*
9047742 TCAGA
131 ACAGA
* * *
9047747 GAGCAGATCGAAGATATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCGAAGATAGC
1 GAGCAGATCGAAGATATAGTAGATTTGGCTTTCACGTGTGTACGCTGAAGCAGATAGAAGATAGC
* * * *
9047812 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCGAATATAGCAGATTTGGCGTCTCTGTATTG
66 AGATTTGGCGTCCCTGTATTGTCAGAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTATATTG
9047877 ACAGA
131 ACAGA
*
9047882 GAGCAGATCAAAGATA
1 GAGCAGATCGAAGATA
9047898 ACAGATTTGG
Statistics
Matches: 138, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
135 138 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (135 bp):
GAGCAGATCGAAGATATAGTAGATTTGGCTTTCACGTGTGTACGCTGAAGCAGATAGAAGATAGC
AGATTTGGCGTCCCTGTATTGTCAGAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTATATTG
ACAGA
Found at i:9049561 original size:2 final size:2
Alignment explanation
Indices: 9049554--9049579 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9049544 TTTGCATTTA
9049554 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
9049580 CACGCAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9055288 original size:37 final size:37
Alignment explanation
Indices: 9055247--9055347 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
9055237 AGCTTGTAAA
9055247 AGCTAATCCACCCGATAACACGCCAGATGCTCATAAG
1 AGCTAATCCACCCGATAACACGCCAGATGCTCATAAG
* * * *
9055284 AGCTAATCCACCTGCTAACAAGCTAGATGCTCATAAG
1 AGCTAATCCACCCGATAACACGCCAGATGCTCATAAG
* * *
9055321 AGCTAGTCCAACCGAAAACACGCCAGA
1 AGCTAATCCACCCGATAACACGCCAGA
9055348 ACAGGGAGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.37, C:0.31, G:0.17, T:0.16
Consensus pattern (37 bp):
AGCTAATCCACCCGATAACACGCCAGATGCTCATAAG
Found at i:9063676 original size:8 final size:8
Alignment explanation
Indices: 9063658--9063687 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
9063648 ATGCTAATTA
9063658 TGTGTATTT
1 TGTG-ATTT
9063667 TGTGATTT
1 TGTGATTT
9063675 TGTGATTT
1 TGTGATTT
9063683 TGTGA
1 TGTGA
9063688 ATTAAGGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (8 bp):
TGTGATTT
Found at i:9064057 original size:29 final size:30
Alignment explanation
Indices: 9064004--9064061 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
9063994 CGGAAGTTTT
*
9064004 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCAATTTAAACTAGCTTG
9064034 GGCACTAAGTGTGCAATTT-AACTAGCTT
1 GGCACTAAGTGTGCAATTTAAACTAGCTT
9064062 CAGCTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCAATTTAAACTAGCTTG
Found at i:9065460 original size:15 final size:16
Alignment explanation
Indices: 9065434--9065464 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9065424 AGCAAATTTT
9065434 TTTAATAATAAATGAA
1 TTTAATAATAAATGAA
9065450 TTTAA-AATAAATGAA
1 TTTAATAATAAATGAA
9065465 GAAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TTTAATAATAAATGAA
Found at i:9074076 original size:30 final size:29
Alignment explanation
Indices: 9074040--9074097 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
9074030 CAGAAGTTTT
9074040 GGCACTAAGTGTGCGATTTAAACTAGCTTA
1 GGCACTAAGTGTGCGATTT-AACTAGCTTA
9074070 GGCACTAAGTGTGCGATTTAACTAGCTT
1 GGCACTAAGTGTGCGATTTAACTAGCTT
9074098 CGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (29 bp):
GGCACTAAGTGTGCGATTTAACTAGCTTA
Found at i:9077774 original size:13 final size:13
Alignment explanation
Indices: 9077750--9077784 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9077740 ATTTTTTTAT
9077750 TATATA-ATTGTG
1 TATATATATTGTG
*
9077762 TGTATATATTGTG
1 TATATATATTGTG
9077775 TATATATATT
1 TATATATATT
9077785 ATATGCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATATATATTGTG
Found at i:9077929 original size:3 final size:3
Alignment explanation
Indices: 9077921--9077969 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
9077911 GTTGAAATTG
*
9077921 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9077969 T
1 T
9077970 GGTTATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9083136 original size:44 final size:44
Alignment explanation
Indices: 9083072--9083157 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
9083062 AAACTGGTGT
* *
9083072 TTGGTTAGTGTGGTTGGTTATCGGTCTCACATACTAACATCATA
1 TTGGTTAGTGTGGTTAGTTATCAGTCTCACATACTAACATCATA
*
9083116 TTGGTTAGTGTGGTTAGTTATTAGTCTCACATACTAACATCA
1 TTGGTTAGTGTGGTTAGTTATCAGTCTCACATACTAACATCA
9083158 CAAATTCACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (44 bp):
TTGGTTAGTGTGGTTAGTTATCAGTCTCACATACTAACATCATA
Found at i:9083752 original size:25 final size:23
Alignment explanation
Indices: 9083703--9083767 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 23
9083693 TCACATTTTT
9083703 ATTTTTT-TGTTTT-AATATTTG
1 ATTTTTTATGTTTTAAATATTTG
9083724 --TTTTTATGTTTTAAATGCATTTG
1 ATTTTTTATGTTTTAAAT--ATTTG
*
9083747 ATTTTTTATATTTTAAA-ATTT
1 ATTTTTTATGTTTTAAATATTT
9083768 TTTATTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
19 5 0.14
20 6 0.16
21 3 0.08
22 4 0.11
23 5 0.14
25 14 0.38
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (23 bp):
ATTTTTTATGTTTTAAATATTTG
Found at i:9084778 original size:45 final size:45
Alignment explanation
Indices: 9084714--9084961 Score: 487
Period size: 45 Copynumber: 5.5 Consensus size: 45
9084704 CATAGTTATC
9084714 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
1 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
9084759 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
1 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
9084804 ACCCTTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
1 ACCC-TTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
9084850 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
1 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
9084895 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
1 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
9084940 ACCCTTTTTTAGCTTTCTCCTT
1 ACCCTTTTTTAGCTTTCTCCTT
9084962 CGCCCACTTC
Statistics
Matches: 202, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
45 157 0.78
46 45 0.22
ACGTcount: A:0.07, C:0.33, G:0.12, T:0.48
Consensus pattern (45 bp):
ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGT
Found at i:9084868 original size:91 final size:90
Alignment explanation
Indices: 9084714--9084961 Score: 487
Period size: 91 Copynumber: 2.7 Consensus size: 90
9084704 CATAGTTATC
9084714 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGTACCCTTTTTTAGCTTTCTCC
1 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGTACCCTTTTTTAGCTTTCTCC
9084779 TTTGCCTTCTCTGTCGTCGCATCGT
66 TTTGCCTTCTCTGTCGTCGCATCGT
9084804 ACCCTTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGTACCCTTTTTTAGCTTTCTC
1 ACCC-TTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGTACCCTTTTTTAGCTTTCTC
9084869 CTTTGCCTTCTCTGTCGTCGCATCGT
65 CTTTGCCTTCTCTGTCGTCGCATCGT
9084895 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGTACCCTTTTTTAGCTTTCTCC
1 ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGTACCCTTTTTTAGCTTTCTCC
9084960 TT
66 TT
9084962 CGCCCACTTC
Statistics
Matches: 157, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
90 67 0.43
91 90 0.57
ACGTcount: A:0.07, C:0.33, G:0.12, T:0.48
Consensus pattern (90 bp):
ACCCTTTTTTAGCTTTCTCCTTTGCCTTCTCTGTCGTCGCATCGTACCCTTTTTTAGCTTTCTCC
TTTGCCTTCTCTGTCGTCGCATCGT
Found at i:9106698 original size:33 final size:34
Alignment explanation
Indices: 9106634--9106698 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
9106624 TTTTGGGACT
* ***
9106634 AAATTTTTAATTTTTCCCAAAGGTGTGAATGGTG
1 AAATTTTTAATTTTTACCAAAGGTCAAAATGGTG
*
9106668 AAATTTTTAATTTTTATC-AAGGTCAAAATGG
1 AAATTTTTAATTTTTACCAAAGGTCAAAATGG
9106699 CCATTTCACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
33 10 0.38
34 16 0.62
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (34 bp):
AAATTTTTAATTTTTACCAAAGGTCAAAATGGTG
Found at i:9107986 original size:50 final size:50
Alignment explanation
Indices: 9107911--9108025 Score: 212
Period size: 50 Copynumber: 2.3 Consensus size: 50
9107901 CAATCCAAAC
9107911 TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
1 TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
9107961 TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
1 TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
9108011 TGAAATATTGCTAAA
1 TGAAA-ATTG-TAAA
9108026 CTAAAACTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 55 0.87
51 4 0.06
52 4 0.06
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.30
Consensus pattern (50 bp):
TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
Found at i:9108000 original size:25 final size:25
Alignment explanation
Indices: 9107922--9108002 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
9107912 GAAAATTGTA
9107922 AAATTATAGCGAGGTAAGTAGTTAT
1 AAATTATAGCGAGGTAAGTAGTTAT
* ** * * * *
9107947 AAATTAGCAGAAATTGAAAATTG-TA-
1 AAATTA-TAGCGA-GGTAAGTAGTTAT
9107972 AAATTATAGCGAGGTAAGTAGTTAT
1 AAATTATAGCGAGGTAAGTAGTTAT
9107997 AAATTA
1 AAATTA
9108003 GCAGAAATTG
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
23 5 0.13
24 5 0.13
25 18 0.47
26 5 0.13
27 5 0.13
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.31
Consensus pattern (25 bp):
AAATTATAGCGAGGTAAGTAGTTAT
Found at i:9109568 original size:21 final size:21
Alignment explanation
Indices: 9109528--9109566 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9109518 GTTAAAAATA
9109528 ATTATCATTTTCATCATTTAG
1 ATTATCATTTTCATCATTTAG
9109549 ATTATCATTTTCAT-ATTT
1 ATTATCATTTTCATCATTT
9109567 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (21 bp):
ATTATCATTTTCATCATTTAG
Found at i:9111046 original size:20 final size:22
Alignment explanation
Indices: 9111002--9111047 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
9110992 AAAATTATTT
* *
9111002 ATTTATTTTATTTAATTAGATA
1 ATTTATTTTATTTAATTAAACA
9111024 ATTTA-TTT-TTTAATTAAACA
1 ATTTATTTTATTTAATTAAACA
9111044 ATTT
1 ATTT
9111048 TCTCAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 3 0.14
22 5 0.23
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTATTTTATTTAATTAAACA
Found at i:9116351 original size:37 final size:39
Alignment explanation
Indices: 9116299--9116461 Score: 215
Period size: 39 Copynumber: 4.2 Consensus size: 39
9116289 TTCAGTTATG
9116299 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA-
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
9116337 T-TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
** * * * *
9116375 TATATCCGGACCAAAGATCCACAGGCTATGTACTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
9116414 TATATCCGGACTTTA-GGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGAC-TTAGGGTCCGCAGGCTATGTGCTGGAAT
*
9116453 TATGTCCGG
1 TATATCCGG
9116462 GCTAAAGTCC
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
37 36 0.33
38 2 0.02
39 69 0.64
40 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:9127697 original size:28 final size:24
Alignment explanation
Indices: 9127667--9127715 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9127657 TTGAAAAGTG
9127667 ATTGATTTGACAGAGTTATATATT
1 ATTGATTTGACAGAGTTATATATT
9127691 ATTGATTTGACAGAGTTATATATT
1 ATTGATTTGACAGAGTTATATATT
9127715 A
1 A
9127716 ACGTATCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (24 bp):
ATTGATTTGACAGAGTTATATATT
Found at i:9130911 original size:24 final size:25
Alignment explanation
Indices: 9130861--9130912 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
9130851 AAATAATTTC
*
9130861 TAAAATTAAATAGAATACTTAAGAA
1 TAAAATTAAATAGAATAATTAAGAA
* *
9130886 TAAAATTAAATA-TATAATTAATAA
1 TAAAATTAAATAGAATAATTAAGAA
9130910 TAA
1 TAA
9130913 GTTTCAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
TAAAATTAAATAGAATAATTAAGAA
Found at i:9141949 original size:13 final size:13
Alignment explanation
Indices: 9141931--9141962 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
9141921 TTTCACTTGA
9141931 TCCCCTTTGAAGC
1 TCCCCTTTGAAGC
9141944 TCCCCTTTGAAGC
1 TCCCCTTTGAAGC
9141957 TCCCCT
1 TCCCCT
9141963 CGCTCCCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.44, G:0.12, T:0.31
Consensus pattern (13 bp):
TCCCCTTTGAAGC
Found at i:9143251 original size:62 final size:62
Alignment explanation
Indices: 9143192--9143319 Score: 249
Period size: 62 Copynumber: 2.1 Consensus size: 62
9143182 ATTTTTTATT
9143192 TATTTTGATCTTTGACTTGAAAATTAAATCCATTTTATTCTTTAAATTTGGATTCTTTTAAA
1 TATTTTGATCTTTGACTTGAAAATTAAATCCATTTTATTCTTTAAATTTGGATTCTTTTAAA
9143254 TATTTTGATCTTTGACTTGAAAATTAAATCCATTTTATTCTTTAAATTTGGATTCTTTTAAA
1 TATTTTGATCTTTGACTTGAAAATTAAATCCATTTTATTCTTTAAATTTGGATTCTTTTAAA
9143316 -ATTT
1 TATTT
9143320 GATGATATAA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
61 4 0.06
62 62 0.94
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.52
Consensus pattern (62 bp):
TATTTTGATCTTTGACTTGAAAATTAAATCCATTTTATTCTTTAAATTTGGATTCTTTTAAA
Found at i:9143891 original size:44 final size:44
Alignment explanation
Indices: 9143806--9143891 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
9143796 AGTAGTTACG
*
9143806 TAGGAATCAAATTGCTAAAAAAATAATATCCTATAATATATCAT
1 TAGGAATCAAATTGCTAAAAAAATAATATCCCATAATATATCAT
* * *
9143850 TAGGAATCAATTTGCT-AAAAGATAATATCCCGTAATAATATC
1 TAGGAATCAAATTGCTAAAAAAATAATATCCCATAAT-ATATC
9143892 CTAACACCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 17 0.46
44 20 0.54
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (44 bp):
TAGGAATCAAATTGCTAAAAAAATAATATCCCATAATATATCAT
Found at i:9149494 original size:34 final size:34
Alignment explanation
Indices: 9149456--9149524 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
9149446 CTTTATAGAG
9149456 ACATCTTTCATCAATAGGTGTCTTTCTGAATAAT
1 ACATCTTTCATCAATAGGTGTCTTTCTGAATAAT
* *
9149490 ACATCTTTTATCCATAGGTGTCTTTCTGAATAAT
1 ACATCTTTCATCAATAGGTGTCTTTCTGAATAAT
9149524 A
1 A
9149525 ATGTCTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (34 bp):
ACATCTTTCATCAATAGGTGTCTTTCTGAATAAT
Found at i:9152720 original size:19 final size:20
Alignment explanation
Indices: 9152686--9152723 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9152676 AGTCCTTTCA
9152686 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
*
9152706 CTAAATTTA-CTTAATTAA
1 CTAAATTAACCTTAATTAA
9152724 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:9164825 original size:4 final size:4
Alignment explanation
Indices: 9164816--9164878 Score: 58
Period size: 4 Copynumber: 15.0 Consensus size: 4
9164806 TCTTTTTCTC
9164816 CTTT CTTT CTTT CTTT CTTT C--T CGTTT GCTATT CTGTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT C-TTT -CT-TT CT-TT CTTT CTTT
*
9164862 CTTT GTTT CTTTT CTTT
1 CTTT CTTT C-TTT CTTT
9164879 TATATATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
2 2 0.04
4 33 0.66
5 12 0.24
6 3 0.06
ACGTcount: A:0.02, C:0.22, G:0.06, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:9166736 original size:15 final size:15
Alignment explanation
Indices: 9166711--9166749 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
9166701 ATTAATGTCT
9166711 ATTGAGTATTAACTCA
1 ATTG-GTATTAACTCA
*
9166727 ATTGGTATTAACTCG
1 ATTGGTATTAACTCA
9166742 ATTGGTAT
1 ATTGGTAT
9166750 CAATATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (15 bp):
ATTGGTATTAACTCA
Found at i:9167309 original size:17 final size:18
Alignment explanation
Indices: 9167287--9167324 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9167277 TTGGTTGTTA
9167287 AAATTTG-TAATTAGTTT
1 AAATTTGATAATTAGTTT
**
9167304 AAATTTGATCTTTAGTTT
1 AAATTTGATAATTAGTTT
9167322 AAA
1 AAA
9167325 ATCTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (18 bp):
AAATTTGATAATTAGTTT
Found at i:9175447 original size:14 final size:16
Alignment explanation
Indices: 9175413--9175455 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9175403 CGTGTTTCAA
*
9175413 ATAAGTAAAAATATAT
1 ATAAATAAAAATATAT
9175429 ATAAATAAAAA-ATTAT
1 ATAAATAAAAATA-TAT
*
9175445 AAAAATAAAAA
1 ATAAATAAAAA
9175456 AAAATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAATAAAAATATAT
Found at i:9175457 original size:17 final size:17
Alignment explanation
Indices: 9175419--9175456 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
9175409 TCAAATAAGT
*
9175419 AAAAATATATATAAATA
1 AAAAATATATAAAAATA
9175436 AAAAAT-TATAAAAATA
1 AAAAATATATAAAAATA
9175452 AAAAA
1 AAAAA
9175457 AAATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATATATAAAAATA
Found at i:9185224 original size:51 final size:51
Alignment explanation
Indices: 9185148--9185261 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
9185138 AGTGACAAGC
* *
9185148 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
9185199 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
9185250 GACAAGTGATAA
1 GACAAGTGATAA
9185262 ATGTGATCAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:9188813 original size:34 final size:34
Alignment explanation
Indices: 9188766--9188836 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
9188756 ACAAGTGTGA
*
9188766 ATTTTGGCTACATGAGGTTGGATTTCTAGGTCAT
1 ATTTTGGCCACATGAGGTTGGATTTCTAGGTCAT
9188800 ATTTTGGCCACATGAGGTTGGATTTCTAGGTCAT
1 ATTTTGGCCACATGAGGTTGGATTTCTAGGTCAT
9188834 ATT
1 ATT
9188837 GTTTTAGCTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.41
Consensus pattern (34 bp):
ATTTTGGCCACATGAGGTTGGATTTCTAGGTCAT
Found at i:9192004 original size:51 final size:51
Alignment explanation
Indices: 9191928--9192041 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
9191918 AGTGACAAGC
* * *
9191928 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCGGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
9191979 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
9192030 GACAAGTGATAA
1 GACAAGTGATAA
9192042 AAGTGATCAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:9193958 original size:44 final size:44
Alignment explanation
Indices: 9193895--9194070 Score: 185
Period size: 44 Copynumber: 4.0 Consensus size: 44
9193885 AATCACCATG
* * *
9193895 GCGAATCTTGTCTCCCTAAAGTTGTAGTGGAACAGATTGAAGCC
1 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCA
* *
9193939 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAGTTA
1 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAG-CA
* * *
9193984 -C-AGATCTTATCTCCCTAAAGTTGCAGTGGAATAGATCGAAGATA
1 GCGA-ATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAG-CA
** * * * *
9194028 GAAAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGC
1 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGC
9194071 TATGAGTTAC
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.01
44 79 0.70
45 32 0.28
46 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCA
Found at i:9194065 original size:89 final size:88
Alignment explanation
Indices: 9193899--9194065 Score: 217
Period size: 88 Copynumber: 1.9 Consensus size: 88
9193889 ACCATGGCGA
* * * * ** *
9193899 ATCTTGTCTCCCTAAAGTTGTAGTGGAACAGATTGAAGCCGCGAATCTTATCTCCCTAAAGTTGC
1 ATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCGAAGCAGAAAATCTCATCTCCCTAAAGTTGC
*
9193964 AGTGGAATAGATTGAAGTTACAG
66 AGTGGAACAGATTGAAGTTACAG
* * * *
9193987 ATCTTATCTCCCTAAAGTTGCAGTGGAATAGATCGAAGATAGAAAATCTCATTTCCCTGAAGTTG
1 ATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCGAAG-CAGAAAATCTCATCTCCCTAAAGTTG
9194052 CAGTGGAACAGATT
65 CAGTGGAACAGATT
9194066 AAAGCTATGA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
88 34 0.52
89 32 0.48
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (88 bp):
ATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCGAAGCAGAAAATCTCATCTCCCTAAAGTTGC
AGTGGAACAGATTGAAGTTACAG
Found at i:9194292 original size:94 final size:94
Alignment explanation
Indices: 9194174--9194410 Score: 260
Period size: 94 Copynumber: 2.5 Consensus size: 94
9194164 GCTAAAGATA
* * *
9194174 GCAAATCTTATCTTTCTGAAGTTGCAGTAGAGCATATTAAAGCTACAAATCCTATACCTC-TGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACC-CGTGAA
* * * *
9194238 GTTGCAGTAGGTCGGATCAAATTTATCATG
65 ATTGCAGTAGGACGGATCAAAGTTACCATG
* * * * * *
9194268 GCGAATCTTATCTCCCTGACGTTGCGGTAGAGCAGATTGAAGCCACTAATCCTATACCCGTGAAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCCGTGAAA
* * * *
9194333 TTGTAGTGGGACGGATTAAAGTTACCTTG
66 TTGCAGTAGGACGGATCAAAGTTACCATG
* * * * *
9194362 GCAAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTGAAGACACAAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAA
9194411 CCTTGTCTCC
Statistics
Matches: 116, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
93 1 0.01
94 115 0.99
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (94 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCCGTGAAA
TTGCAGTAGGACGGATCAAAGTTACCATG
Found at i:9197354 original size:182 final size:183
Alignment explanation
Indices: 9196969--9197387 Score: 522
Period size: 182 Copynumber: 2.3 Consensus size: 183
9196959 GTATTTTAAT
* * * * * * *
9196969 GTTTTCCTTTCTTTGTTCCATTACTCTTCTCTGAATCTTCTCTCGTTTTCTCTATTATGTTATCA
1 GTTTTTCTTTCTTTGTT-CGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATGTTATCA
9197034 CGCTCATCAAAACAAAATCAAGTAGAAAAAAAGAAAGAAAGAGGGCAACAACTTGCAATCCAAAA
65 CGCTCATCAAAACAAAATCAAGTAGAAAAAAAG-AAGAAAGA-GG--A-AACTTGCAATCCAAAA
*
9197099 TACCATAAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTCAATAGTCTAACTAGTAC
125 TACCATAAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTCAATAGTCTAACTAGTAA
* *
9197158 CTTTTTATTTCTTTGTCTCGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATGTTTATC
1 GTTTTTCTTTCTTTGT-TCGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATG-TTATC
* * * *
9197223 ATGCTCATCAAAACAAAATCAAGTA-AAAAAAAG-AGAACGA-G-AACTTTCAATCCAAAATACT
64 ACGCTCATCAAAACAAAATCAAGTAGAAAAAAAGAAGAAAGAGGAAACTTGCAATCCAAAATACC
* * * *
9197284 ATAAAAGGAAAGTTGAATGTTAGTATTCCTTTCCTAGTCAATAGTCTAATTGGTAA
129 ATAAAA-GAAAGTTGAATGTTAGTATTCCCTTCCTACTCAATAGTCTAACTAGTAA
* ** *
9197340 GTTTTTCTTTCTTTGTTTAGTTCCTCTTCTTCAACTCTACTATTGTTT
1 GTTTTTCTTTCTTTG-TTCGTTCCTCTTCTTTGACTCTACTCTTGTTT
9197388 GTTCCGTTCC
Statistics
Matches: 202, Mismatches: 24, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
181 24 0.12
182 84 0.42
183 1 0.00
185 1 0.00
187 6 0.03
189 56 0.28
190 30 0.15
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (183 bp):
GTTTTTCTTTCTTTGTTCGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATGTTATCAC
GCTCATCAAAACAAAATCAAGTAGAAAAAAAGAAGAAAGAGGAAACTTGCAATCCAAAATACCAT
AAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTCAATAGTCTAACTAGTAA
Found at i:9197565 original size:218 final size:216
Alignment explanation
Indices: 9197176--9197598 Score: 686
Period size: 218 Copynumber: 1.9 Consensus size: 216
9197166 TTCTTTGTCT
*
9197176 CGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAA
1 CGTTCCTCTTCTCTGACTCTACTCTTGTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAA
* * * *
9197241 TCAAGTAAAAAAAAGAGAACGAGAACTTTCAATCCAAAATACTATAAAAGGAAAGTTGAATGTTA
66 TCAAGTAAAAAAAAGAAAACGAGAACTTACAATCCAAAATACCATAAAAGAAAAGTTGAATGTTA
* *
9197306 GTATTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTTTAGTTCCTCTTCTT
131 GTATTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTAGTTCCTCTTCTC
9197371 CAACTCTACTATTGTTTGTTC
196 CAACTCTACTATTGTTTGTTC
* *
9197392 CGTTCCTCTTCTCTGACTCTACTTTTGTTTTCTCTATTATGTTTATCATGCTCATCTAAACAAAA
1 CGTTCCTCTTCTCTGACTCTACTCTTGTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAA
* *
9197457 TCAAGTAAAAAAAA-AAAAGGATGACAACTTACAATCCAAAATACCATAGAAGAAAAGTTGAATG
66 TCAAGTAAAAAAAAGAAAACGA-G--AACTTACAATCCAAAATACCATAAAAGAAAAGTTGAATG
* *
9197521 TTAGTATTCCTTTCCTAGTTAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTCGTTCCTCTT
128 TTAGTATTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTAGTTCCTCTT
*
9197586 CTCCGACTCTACT
193 CTCCAACTCTACT
9197599 CTCGTTTTCT
Statistics
Matches: 190, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
215 5 0.03
216 77 0.41
218 108 0.57
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (216 bp):
CGTTCCTCTTCTCTGACTCTACTCTTGTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAA
TCAAGTAAAAAAAAGAAAACGAGAACTTACAATCCAAAATACCATAAAAGAAAAGTTGAATGTTA
GTATTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTAGTTCCTCTTCTC
CAACTCTACTATTGTTTGTTC
Found at i:9199056 original size:27 final size:28
Alignment explanation
Indices: 9199004--9199056 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
9198994 TGATTTTATT
* *
9199004 AAAATAAATAAATTCAATGGATAATTAA
1 AAAATAAATAAATTAAATGGAAAATTAA
*
9199032 AAAATAAA-AAATTAAATGTAAAATT
1 AAAATAAATAAATTAAATGGAAAATT
9199057 GGAGAAATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (28 bp):
AAAATAAATAAATTAAATGGAAAATTAA
Found at i:9202372 original size:25 final size:26
Alignment explanation
Indices: 9202344--9202403 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
9202334 AAACAGAGGG
*
9202344 AGAAACAAAAAAG-AATAGAAAA-AAA
1 AGAAA-AAAAAAGTAAAAGAAAATAAA
9202369 AG-AAAAAAAAGTTAAAAGAAAATAAA
1 AGAAAAAAAAAG-TAAAAGAAAATAAA
9202395 AGAAAAAAA
1 AGAAAAAAA
9202404 TTAAATTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 7 0.23
24 2 0.07
25 10 0.33
26 5 0.17
27 6 0.20
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.07
Consensus pattern (26 bp):
AGAAAAAAAAAGTAAAAGAAAATAAA
Found at i:9204250 original size:16 final size:16
Alignment explanation
Indices: 9204229--9204297 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
9204219 TTTGGTTCGC
9204229 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
9204245 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
9204261 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
9204278 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9204294 TGTA
1 TGTA
9204298 ATAGCTAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 35 0.70
17 15 0.30
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9204275 original size:33 final size:32
Alignment explanation
Indices: 9204229--9204297 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
9204219 TTTGGTTCGC
9204229 TGTATTGGATTAGAGGTGTATTGGATTAGAGA
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGA
*
9204261 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGA
9204294 TGTA
1 TGTA
9204298 ATAGCTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGA
Found at i:9204620 original size:157 final size:157
Alignment explanation
Indices: 9204420--9204736 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
9204410 TAGAATACCC
*
9204420 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
9204485 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-A
9204550 ATATATAATTTAATAAAATTCTT-ATAA
130 ATATATAATTTAATAAAATTCTTAATAA
* *
9204577 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
9204642 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
9204707 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
9204734 TTA
1 TTA
9204737 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 24 0.16
157 128 0.84
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:9204707 original size:16 final size:16
Alignment explanation
Indices: 9204670--9204711 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9204660 TTAATCATAT
*
9204670 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9204686 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9204701 TTAAAATATAT
1 TTAAAATATAT
9204712 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9204718 original size:14 final size:15
Alignment explanation
Indices: 9204679--9204720 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9204669 TTTAAACATA
*
9204679 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9204694 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9204708 A-TATAATTTAATA
1 ATTATAATTAAATA
9204721 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:9204770 original size:61 final size:61
Alignment explanation
Indices: 9204705--9204892 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
9204695 TTATAATTAA
9204705 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
9204766 AATATATGATACT-GTAAAA-TATAAAGTAACATAAT-TT-TTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAA-TTAATATTCTTATATGAATTTACTCA-AATCAT
9204825 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
9204886 AATATAT
1 AATATAT
9204893 GATACTATAA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
58 7 0.07
59 29 0.31
60 16 0.17
61 36 0.38
62 7 0.07
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:9204808 original size:120 final size:121
Alignment explanation
Indices: 9204673--9204965 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 121
9204663 ATCATATTTA
9204673 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
9204738 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-GT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATGTG
*
9204793 AACATAATTTTTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
9204858 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
* * *
9204914 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
9204966 TAAAATAATT
Statistics
Matches: 163, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
119 3 0.02
120 158 0.97
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
Found at i:9204891 original size:59 final size:59
Alignment explanation
Indices: 9204708--9204891 Score: 164
Period size: 59 Copynumber: 3.1 Consensus size: 59
9204698 TAATTAAAAT
9204708 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * * * *
9204767 ATAT-ATGATACTGTAAAA-TATAAAGTAACATAAT-TT-TTAT-TAAATATA-TTATAATTAAA
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-TTAATATTCTTATATGAATTTACTCA-AA-TCAT
9204826 A
59 A
9204827 TATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 -ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
9204887 ATATA
1 ATATA
9204892 TGATACTATA
Statistics
Matches: 91, Mismatches: 20, Indels: 28
0.65 0.14 0.20
Matches are distributed among these distances:
58 8 0.09
59 29 0.32
60 22 0.24
61 24 0.26
62 8 0.09
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
Found at i:9209380 original size:100 final size:103
Alignment explanation
Indices: 9209202--9209495 Score: 362
Period size: 100 Copynumber: 2.8 Consensus size: 103
9209192 TGATAATAAC
* ** * *
9209202 ATGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATA
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTGGTGCCCATGCCATG
*
9209267 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
64 TCCCAGACATGGTCTTATAGGGGACCTCTCAATCTTAAGG
*
9209304 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCT-GGTGCCCATGCCATGT
9209368 CCCAGACATGGTCTTATAGGGGACCTCTCATGATCTTAAGG
65 CCCAGACATGGTCTTATAGGGGACCTCTCA--ATCTTAAGG
* * *
9209409 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T--GG-TGCCCATG
9209474 CCATGTCCCAGACATGGTCTTA
59 CCATGTCCCAGACATGGTCTTA
9209496 CATGGGATCT
Statistics
Matches: 168, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
99 1 0.01
100 50 0.30
101 35 0.21
103 3 0.02
104 1 0.01
105 2 0.01
106 41 0.24
108 1 0.01
109 2 0.01
110 1 0.01
111 2 0.01
112 29 0.17
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTGGTGCCCATGCCATGTC
CCAGACATGGTCTTATAGGGGACCTCTCAATCTTAAGG
Found at i:9209445 original size:56 final size:51
Alignment explanation
Indices: 9209203--9209507 Score: 321
Period size: 56 Copynumber: 5.8 Consensus size: 51
9209193 GATAATAACA
* * * ** *
9209203 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCG-T-GATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCGATCTA-GG
* * * *
9209254 TGCCCATGCCATATCCCAGACATGGTCTTATAGGGGACCTCTC-ATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCGATCTAGG
* * *
9209304 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCG-TCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCGATCTAGG
* *
9209354 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC--GATC-T-AGG
9209409 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC--GATC-T-AGG
* *
9209465 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
9209508 TTACCCAAAT
Statistics
Matches: 221, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
50 90 0.41
51 31 0.14
52 1 0.00
53 2 0.01
54 1 0.00
55 2 0.01
56 94 0.43
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCGATCTAGG
Found at i:9209623 original size:13 final size:13
Alignment explanation
Indices: 9209602--9209633 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9209592 GCTTGGATCA
*
9209602 TCATCAAATAAAT
1 TCATAAAATAAAT
9209615 TCATAAAATAAAT
1 TCATAAAATAAAT
9209628 TCATAA
1 TCATAA
9209634 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:9209880 original size:30 final size:30
Alignment explanation
Indices: 9209845--9209902 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
9209835 CCTCGACTCT
*
9209845 AACTTTTTCAAAATTACAATTTTT-CCCCTA
1 AACTTTTACAAAATTAC-ATTTTTGCCCCTA
*
9209875 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
9209903 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:9212413 original size:84 final size:84
Alignment explanation
Indices: 9212272--9212439 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 84
9212262 TTCTGGTCTT
9212272 AATTTTGATACTGCAACACATACAACTTAAGCATTATATATACTAAGTTTGCTTATCAATATGGA
1 AATTTTGATACTGCAACACATACAACTTAAGCATTATATATACTAAGTTTGCTTATCAATATGGA
9212337 CAGTCTTCTAGCACAATAG
66 CAGTCTTCTAGCACAATAG
*
9212356 AATTTTGATACTGCAACACATGCAACTTAAGCATTATATATACTAAGTTTGCTTATCAATATGGA
1 AATTTTGATACTGCAACACATACAACTTAAGCATTATATATACTAAGTTTGCTTATCAATATGGA
9212421 CAGTCTTCTAGCACAATAG
66 CAGTCTTCTAGCACAATAG
9212440 CTTAATTTCA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (84 bp):
AATTTTGATACTGCAACACATACAACTTAAGCATTATATATACTAAGTTTGCTTATCAATATGGA
CAGTCTTCTAGCACAATAG
Found at i:9222290 original size:21 final size:21
Alignment explanation
Indices: 9222264--9222316 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
9222254 CAACTCTTTC
*
9222264 GAGCTTCTGTTAAGCTCTTAT
1 GAGCTTCTGTTAAGCTCTTAA
* *
9222285 GTGCTTCTGTTTAGCTCTTAA
1 GAGCTTCTGTTAAGCTCTTAA
9222306 GAGCTTCTGTT
1 GAGCTTCTGTT
9222317 GGCGTGTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.45
Consensus pattern (21 bp):
GAGCTTCTGTTAAGCTCTTAA
Found at i:9223365 original size:20 final size:20
Alignment explanation
Indices: 9223328--9223366 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9223318 CCTGCAGTCC
* * *
9223328 AAAATTTTCAACTTTTTCCT
1 AAAATTTCCAAATGTTTCCT
9223348 AAAATTTCCAAATGTTTCC
1 AAAATTTCCAAATGTTTCC
9223367 GATTTAGTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (20 bp):
AAAATTTCCAAATGTTTCCT
Found at i:9224461 original size:19 final size:18
Alignment explanation
Indices: 9224437--9224472 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
9224427 ATTGCTAAGT
9224437 TGTAAAATAGTTGTAAATG
1 TGTAAAATAGTTG-AAATG
9224456 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
9224473 TATGAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:9230090 original size:25 final size:25
Alignment explanation
Indices: 9230037--9230099 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
9230027 TTATTATTTT
*
9230037 AAAATTAAAAATATATAAAAAAATTA
1 AAAATT-AAAATATATAAAAAAATAA
***
9230063 AAAATTAAAATATATAACTTAATAA
1 AAAATTAAAATATATAAAAAAATAA
9230088 AAATATTAAAAT
1 AAA-ATTAAAAT
9230100 CTTTTACATC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 18 0.56
26 14 0.44
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAATTAAAATATATAAAAAAATAA
Found at i:9230259 original size:8 final size:8
Alignment explanation
Indices: 9230248--9230289 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
9230238 TTTTTTTAAT
9230248 TTTATATA
1 TTTATATA
9230256 TTTATATA
1 TTTATATA
*
9230264 TTTATAAA
1 TTTATATA
*
9230272 TTTATGTA
1 TTTATATA
9230280 -TTATATA
1 TTTATATA
9230287 TTT
1 TTT
9230290 TAAAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TTTATATA
Found at i:9230295 original size:23 final size:24
Alignment explanation
Indices: 9230248--9230293 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
9230238 TTTTTTTAAT
9230248 TTTATATATTTATATATTTATAAA
1 TTTATATATTTATATATTTATAAA
*
9230272 TTTATGTA-TTATATATTT-TAAA
1 TTTATATATTTATATATTTATAAA
9230294 ATAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
24 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTATATATTTATATATTTATAAA
Found at i:9234255 original size:22 final size:22
Alignment explanation
Indices: 9234229--9234272 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9234219 CTTACAAAAT
9234229 TAATTATTTGGATATTAAGCCA
1 TAATTATTTGGATATTAAGCCA
*
9234251 TAATTATTTGGCTATTAAGCCA
1 TAATTATTTGGATATTAAGCCA
9234273 ATCCAATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (22 bp):
TAATTATTTGGATATTAAGCCA
Found at i:9235471 original size:19 final size:19
Alignment explanation
Indices: 9235449--9235488 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9235439 GTGATTGAAG
9235449 ATGGGTTTTAGTGACAGGA
1 ATGGGTTTTAGTGACAGGA
*
9235468 ATGGGTTTTGGTGACAGGA
1 ATGGGTTTTAGTGACAGGA
9235487 AT
1 AT
9235489 CAATCAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.38, T:0.33
Consensus pattern (19 bp):
ATGGGTTTTAGTGACAGGA
Found at i:9237610 original size:50 final size:50
Alignment explanation
Indices: 9237486--9237734 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
9237476 GATAATAACA
* * ** * *
9237486 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
9237537 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
9237587 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
9237637 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
9237692 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
9237735 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:9237664 original size:100 final size:104
Alignment explanation
Indices: 9237485--9237734 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
9237475 TGATAATAAC
**
9237485 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
9237550 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
9237587 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
9237650 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
9237692 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
9237735 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:9237850 original size:13 final size:13
Alignment explanation
Indices: 9237829--9237860 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9237819 GCTTGGATCA
*
9237829 TCATCAAATAAAT
1 TCATAAAATAAAT
9237842 TCATAAAATAAAT
1 TCATAAAATAAAT
9237855 TCATAA
1 TCATAA
9237861 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:9238107 original size:30 final size:30
Alignment explanation
Indices: 9238072--9238129 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9238062 CCTCGACTCT
*
9238072 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
9238102 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
9238130 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:9245206 original size:50 final size:50
Alignment explanation
Indices: 9245082--9245330 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
9245072 GATAATAACA
* * ** * *
9245082 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
9245133 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
9245183 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
9245233 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
9245288 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
9245331 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Done.