Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 35 of 120
Found at i:9072323 original size:23 final size:23
Alignment explanation
Indices: 9072291--9072361 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
9072281 TATCAAATTT
9072291 TCATAATCAATCTCATTTTCT-TTC
1 TCAT-ATCAATCTCA-TTTCTATTC
*
9072315 TCATATCAATTTCATTTCTATTC
1 TCATATCAATCTCATTTCTATTC
* * *
9072338 TCATTTCAGTCTCAATTCATATTC
1 TCATATCAATCTCATTTC-TATTC
9072362 AAATCATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 5 0.12
23 26 0.65
24 9 0.22
ACGTcount: A:0.25, C:0.24, G:0.01, T:0.49
Consensus pattern (23 bp):
TCATATCAATCTCATTTCTATTC
Found at i:9086444 original size:8 final size:9
Alignment explanation
Indices: 9086424--9086448 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9086414 AAAACTAGGG
9086424 TTTTCATCT
1 TTTTCATCT
9086433 TTTTCATCT
1 TTTTCATCT
9086442 TTTTCAT
1 TTTTCAT
9086449 GGTAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTCATCT
Found at i:9087551 original size:19 final size:19
Alignment explanation
Indices: 9087527--9087597 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
9087517 TGATGGTGAA
9087527 AAATTATAAAAATTTATTG
1 AAATTATAAAAATTTATTG
*
9087546 AAATTATAAAAAACTTATTAG
1 AAATTAT-AAAAATTTATT-G
*
9087567 AAA-TAGAAAAATATT-TAT-
1 AAATTATAAAAAT-TTAT-TG
9087585 AAATTATAAAAAT
1 AAATTATAAAAAT
9087598 ATAATTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 3 0.07
19 21 0.49
20 15 0.35
21 4 0.09
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (19 bp):
AAATTATAAAAATTTATTG
Found at i:9087563 original size:20 final size:20
Alignment explanation
Indices: 9087527--9087596 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
9087517 TGATGGTGAA
9087527 AAATTAT-AAAAATTTATTG
1 AAATTATAAAAAATTTATTG
*
9087546 AAATTATAAAAAACTTATTAG
1 AAATTATAAAAAATTTATT-G
*
9087567 AAA-TAGAAAAATATTTA-T-
1 AAATTATAAAAA-ATTTATTG
9087585 AAATTATAAAAA
1 AAATTATAAAAA
9087597 TATAATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.07
19 14 0.33
20 18 0.42
21 8 0.19
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (20 bp):
AAATTATAAAAAATTTATTG
Found at i:9087638 original size:37 final size:36
Alignment explanation
Indices: 9087579--9087706 Score: 122
Period size: 34 Copynumber: 3.6 Consensus size: 36
9087569 ATAGAAAAAT
* *
9087579 ATTTATAAATTATAAAAATATAATTTTATCATTATTA
1 ATTTA-AAATTTTAAAATTATAATTTTATCATTATTA
9087616 ATTTAAAATTTTATAAATTATAATTTT-T--TTATTA
1 ATTTAAAATTTTA-AAATTATAATTTTATCATTATTA
* * * * * *
9087650 TTTTTAGA-GTCAAAA-TAAAATTTTATCATTATTA
1 ATTTAAAATTTTAAAATTATAATTTTATCATTATTA
9087684 ATTTAAAATTTTATAAATTATAA
1 ATTTAAAATTTTA-AAATTATAA
9087707 AAAATTTAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
31 8 0.11
32 4 0.06
33 2 0.03
34 22 0.31
35 2 0.03
36 11 0.16
37 21 0.30
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (36 bp):
ATTTAAAATTTTAAAATTATAATTTTATCATTATTA
Found at i:9087639 original size:22 final size:22
Alignment explanation
Indices: 9087574--9087641 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
9087564 TAGAAATAGA
**
9087574 AAAATATTTATAAATTATAAAAAT
1 AAAAT-TTTATAAATTAT-AATTT
* *
9087598 ATAATTTTAT-CATTATTAATTT
1 AAAATTTTATAAATTA-TAATTT
9087620 AAAATTTTATAAATTATAATTT
1 AAAATTTTATAAATTATAATTT
9087642 TTTTATTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 22 0.61
23 10 0.28
24 4 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATTTTATAAATTATAATTT
Found at i:9088050 original size:16 final size:17
Alignment explanation
Indices: 9088031--9088065 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9088021 TTTTTAAAAA
*
9088031 TTATGATTTT-TATCAT
1 TTATAATTTTCTATCAT
9088047 TTATAATTTTCTATCAT
1 TTATAATTTTCTATCAT
9088064 TT
1 TT
9088066 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.63
Consensus pattern (17 bp):
TTATAATTTTCTATCAT
Found at i:9088192 original size:21 final size:21
Alignment explanation
Indices: 9088158--9088216 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
9088148 GGAATTACTA
*
9088158 TTTTTAAAATTTTT-TAAATTT
1 TTTTTATAATTTTTAT-AATTT
*
9088179 TTTTTTTACATTTTTATAATTT
1 TTTTTATA-ATTTTTATAATTT
9088201 TTTTTATAATTTTTAT
1 TTTTTATAATTTTTAT
9088217 GACTAAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 14 0.42
22 18 0.55
23 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTATAATTTTTATAATTT
Found at i:9088204 original size:12 final size:12
Alignment explanation
Indices: 9088189--9088214 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9088179 TTTTTTTACA
9088189 TTTTTATAATTT
1 TTTTTATAATTT
9088201 TTTTTATAATTT
1 TTTTTATAATTT
9088213 TT
1 TT
9088215 ATGACTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:9088214 original size:31 final size:32
Alignment explanation
Indices: 9088152--9088214 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
9088142 TTTTTAGGAA
**
9088152 TTACTATTTTTAAAATTTTTTAAATTTTTTTT
1 TTACTATTTTTAAAATTTTTTAAATAATTTTT
* **
9088184 TTAC-ATTTTTATAATTTTTTTTATAATTTTT
1 TTACTATTTTTAAAATTTTTTAAATAATTTTT
9088215 ATGACTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (32 bp):
TTACTATTTTTAAAATTTTTTAAATAATTTTT
Found at i:9090026 original size:3 final size:3
Alignment explanation
Indices: 9090020--9090044 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9090010 TTTTTTCCTT
9090020 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
9090045 TCAATCAATA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9098158 original size:17 final size:18
Alignment explanation
Indices: 9098133--9098166 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9098123 GTGACATGTG
9098133 TATAAATAAA-TAATTTT
1 TATAAATAAATTAATTTT
*
9098150 TATATATAAATTAATTT
1 TATAAATAAATTAATTT
9098167 AATAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAAATAAATTAATTTT
Found at i:9102009 original size:21 final size:24
Alignment explanation
Indices: 9101985--9102039 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 24
9101975 CCTAAAACTT
*
9101985 CTACTGATACAAGTAT-C-CT-AA
1 CTACTGATACAAGCATACACTGAA
9102006 CTACTGATACAAGCATACACTGAA
1 CTACTGATACAAGCATACACTGAA
9102030 CTACTGATAC
1 CTACTGATAC
9102040 CTATCATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 15 0.50
22 1 0.03
23 2 0.07
24 12 0.40
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.25
Consensus pattern (24 bp):
CTACTGATACAAGCATACACTGAA
Found at i:9102740 original size:52 final size:52
Alignment explanation
Indices: 9102678--9102910 Score: 333
Period size: 52 Copynumber: 4.5 Consensus size: 52
9102668 ATTTCATTTA
* ** * *
9102678 ATACTCACGATGATACATAGTCATCCAACCTCACAATCCATAAAGTATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
* * *
9102730 ATACTCACGATGACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
** *
9102782 ATACTCACGATGACATGTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
* * *
9102834 ATACTCACGATGACATATAGTCATCGGACCTTATAATCCATAAGGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
9102886 A-ACTCACGATGACACATAGTCATCG
1 ATACTCACGATGACACATAGTCATCG
9102911 AACTTTTTAC
Statistics
Matches: 166, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 23 0.14
52 143 0.86
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
Found at i:9108296 original size:59 final size:60
Alignment explanation
Indices: 9108219--9108335 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 60
9108209 ATCAATTTAA
* * * *
9108219 TATTAAATTAACATAATATTTATCT-TGATAAATATTATATTAAATTTAATATTAAATCT
1 TATTAAAATAACAAAATATTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATCT
* *
9108278 TATTAAAATAATAAAATATTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAAATAACAAAATATTTATCT--AAGATAAATATTAAATTAAATTTAATATTAA
9108336 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 22 0.45
62 27 0.55
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (60 bp):
TATTAAAATAACAAAATATTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:9108374 original size:25 final size:25
Alignment explanation
Indices: 9108320--9108374 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
9108310 AAATATTAAA
*
9108320 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
9108345 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
9108369 TATTAA
1 T-TTAA
9108375 AATAAGTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:9113247 original size:38 final size:38
Alignment explanation
Indices: 9113195--9113273 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
9113185 CACGGGCTTT
*
9113195 TTTTTTATTAGTCTAATGACAAATGT-AGCCCTCAAATG
1 TTTTTTATTAGTCTAATAACAAAT-TCAGCCCTCAAATG
* *
9113233 TTTTTTATTGGTCTAATAACAAATTCAGCCCTCTAATG
1 TTTTTTATTAGTCTAATAACAAATTCAGCCCTCAAATG
9113271 TTT
1 TTT
9113274 ACATATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.43
Consensus pattern (38 bp):
TTTTTTATTAGTCTAATAACAAATTCAGCCCTCAAATG
Found at i:9114801 original size:25 final size:27
Alignment explanation
Indices: 9114766--9114817 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
9114756 ATTCAATACT
*
9114766 TTAATTCGATT-ATTTT-TTAATTCGG
1 TTAATTCGATTAATTTTGGTAATTCGG
*
9114791 TTAATTTGATTAATTTTGGTAATTCGG
1 TTAATTCGATTAATTTTGGTAATTCGG
9114818 GAAATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 10 0.43
26 5 0.22
27 8 0.35
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (27 bp):
TTAATTCGATTAATTTTGGTAATTCGG
Found at i:9120166 original size:22 final size:21
Alignment explanation
Indices: 9120141--9120188 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
9120131 ATAATCGGTT
*
9120141 TCATCTCAATTCTATTTTCATA
1 TCATCTC-ATTCTAGTTTCATA
* *
9120163 TCATTCTCATTTTAGTTTCATT
1 TCA-TCTCATTCTAGTTTCATA
9120185 TCAT
1 TCAT
9120189 AATCAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 17 0.77
23 4 0.18
ACGTcount: A:0.23, C:0.21, G:0.02, T:0.54
Consensus pattern (21 bp):
TCATCTCATTCTAGTTTCATA
Found at i:9124171 original size:39 final size:38
Alignment explanation
Indices: 9124098--9124217 Score: 143
Period size: 39 Copynumber: 3.1 Consensus size: 38
9124088 GATTGGGTTG
* * *
9124098 TGGTT-CAATCTGCCCCACGATCGGGGTAAAAGATTGGA
1 TGGTTGCAATCT-ACCCATGATCGGGGTAAGAGATTGGA
*
9124136 TGGTTGCGATCTACCTCATGATCGGGGTAAGAGATTGGA
1 TGGTTGCAATCTACC-CATGATCGGGGTAAGAGATTGGA
* * *
9124175 TGGTTTTCAATCTGCCCATTATCGGGGTAAGAGATTGGA
1 TGG-TTGCAATCTACCCATGATCGGGGTAAGAGATTGGA
9124214 TGGT
1 TGGT
9124218 GATGTAGCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
38 8 0.11
39 54 0.76
40 9 0.13
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (38 bp):
TGGTTGCAATCTACCCATGATCGGGGTAAGAGATTGGA
Found at i:9124488 original size:49 final size:49
Alignment explanation
Indices: 9124435--9124987 Score: 436
Period size: 49 Copynumber: 11.3 Consensus size: 49
9124425 CGATTTCAAT
* * *
9124435 CTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCATTGCGACTTCAAC
1 CTTTCCCTTCATATTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
* * * * * * *
9124484 CTTTCCCTTCATATATTC-GTGGTACCAGATTCGTCGTTGCGGCTTCAAT
1 CTTTCCCTTCATAT-TTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
** * * *
9124533 CTTTCCCAACATGTTTCTGAGGTACCAGGTTCGCCGTTGCAACTTAAAC
1 CTTTCCCTTCATATTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
* * * * * * * *
9124582 CTTTCCCTCCATATCTTC-GTGGTACCAGATTCACCGTTACGGCTTCAATC
1 CTTTCCCTTCATAT-TTCTGAGGTACAAGGTTCGCCGTTGCGACTT-AAAC
* * * *
9124632 C-TTCCCTTCATGTTTCTGAGGTACAAGGTTTGCCATTACGACTTAAAC
1 CTTTCCCTTCATATTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
* * * * * * *
9124680 CTTTCACTCCATATCTTC-GTGGTACTAGATTCACCGTTGCGACTTAAAT
1 CTTTCCCTTCATAT-TTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
* ** * * ** *
9124729 ATTTTTCTTCATGTTTCTGAGGTATAAGGTTCATCATTGCGACTTAAAC
1 CTTTCCCTTCATATTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
* * * * * *
9124778 CTTTCCCTCCATATCTTC-GTGGTACTAGATTCGCCATTGCAGA-TTAAAT
1 CTTTCCCTTCATAT-TTCTGAGGTACAAGGTTCGCCGTTGC-GACTTAAAC
* *
9124827 CTTTCCCTTCATATTTCTGAGGTACAAGGTTCACCGTTGCGGCTTAAAC
1 CTTTCCCTTCATATTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
* * * * * * * *
9124876 CTTTCCCTCCATATCTTC-GTGGTACTAGATTTGTCGTTGCGGCTTAAAT
1 CTTTCCCTTCATAT-TTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
* *
9124925 CTTTCCCTTCATGTTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
1 CTTTCCCTTCATATTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
* *
9124974 TTTTCCCTCCATAT
1 CTTTCCCTTCATAT
9124988 CTTTGTGGTA
Statistics
Matches: 388, Mismatches: 102, Indels: 28
0.75 0.20 0.05
Matches are distributed among these distances:
48 19 0.05
49 348 0.90
50 21 0.05
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (49 bp):
CTTTCCCTTCATATTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
Found at i:9124583 original size:98 final size:98
Alignment explanation
Indices: 9124432--9124997 Score: 772
Period size: 98 Copynumber: 5.8 Consensus size: 98
9124422 TTACGATTTC
* *
9124432 AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCATTGCGACTTCAACCTTTCCCTTCATA
1 AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATA
* * * *
9124497 TATTCGTGGTACCAGATTCGTCGTTGCGGCTTC
66 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTA
** * * *
9124530 AATCTTTCCCAACATGTTTCTGAGGTACCAGGTTCGCCGTTGCAACTTAAACCTTTCCCTCCATA
1 AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATA
* * * *
9124595 TCTTCGTGGTACCAGATTCACCGTTACGGCTTC
66 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTA
* * * *
9124628 AATCCTTCCCTTCATGTTTCTGAGGTACAAGGTTTGCCATTACGACTTAAACCTTTCACTCCATA
1 AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATA
* *
9124693 TCTTCGTGGTACTAGATTCACCGTTGCGACTTA
66 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTA
* ** * **
9124726 AATATTTTTCTTCATGTTTCTGAGGTATAAGGTTCATCATTGCGACTTAAACCTTTCCCTCCATA
1 AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATA
* * *
9124791 TCTTCGTGGTACTAGATTCGCCATTGCAGATTA
66 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTA
* * * *
9124824 AATCTTTCCCTTCATATTTCTGAGGTACAAGGTTCACCGTTGCGGCTTAAACCTTTCCCTCCATA
1 AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATA
* *
9124889 TCTTCGTGGTACTAGATTTGTCGTTGCGGCTTA
66 TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTA
* * *
9124922 AATCTTTCCCTTCATGTTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACTTTTCCCTCCATA
1 AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATA
*
9124987 TCTTTGTGGTA
66 TCTTCGTGGTA
9124998 ATGAAACCTG
Statistics
Matches: 410, Mismatches: 58, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 410 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (98 bp):
AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATA
TCTTCGTGGTACTAGATTCGCCGTTGCGGCTTA
Found at i:9125928 original size:14 final size:15
Alignment explanation
Indices: 9125909--9125937 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9125899 CCTCGACCTC
9125909 TCTTTTTT-TTTTTT
1 TCTTTTTTCTTTTTT
9125923 TCTTTTTTCTTTTTT
1 TCTTTTTTCTTTTTT
9125938 GAGGGGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TCTTTTTTCTTTTTT
Found at i:9131327 original size:20 final size:18
Alignment explanation
Indices: 9131302--9131340 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
9131292 AAACAATTTA
9131302 TAAAGTATAAAGGATTAAAT
1 TAAAGTATAAA--ATTAAAT
*
9131322 TAAAGTTTAAAATTAAAT
1 TAAAGTATAAAATTAAAT
9131340 T
1 T
9131341 TCAAACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (18 bp):
TAAAGTATAAAATTAAAT
Found at i:9135107 original size:19 final size:20
Alignment explanation
Indices: 9135083--9135124 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
9135073 AAGGAAAAAT
*
9135083 GGGAAAGTAAAA-ATTTTGA
1 GGGAAAATAAAAGATTTTGA
*
9135102 GGGAAAATAAAAGGTTTTGA
1 GGGAAAATAAAAGATTTTGA
9135122 GGG
1 GGG
9135125 TTTTTGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (20 bp):
GGGAAAATAAAAGATTTTGA
Found at i:9143399 original size:180 final size:180
Alignment explanation
Indices: 9143097--9143460 Score: 710
Period size: 180 Copynumber: 2.0 Consensus size: 180
9143087 CCTCAAATGG
9143097 TGTAAGCAGCTTCATCCGATCTCGAAGTAGCATATGGTCTATCCCATCAGAGATGTCCTCTTCAC
1 TGTAAGCAGCTTCATCCGATCTCGAAGTAGCATATGGTCTATCCCATCAGAGATGTCCTCTTCAC
9143162 ACTTCACTGATACCATGTTACCAAAAGTGCTCCTTTCTGGGTTTTGCAAATTACTATAATCTAAT
66 ACTTCACTGATACCATGTTACCAAAAGTGCTCCTTTCTGGGTTTTGCAAATTACTATAATCTAAT
9143227 GGTTCAACTTTCACTTTGACAGAAGTATTCAAAGCTGAACTGCATATATT
131 GGTTCAACTTTCACTTTGACAGAAGTATTCAAAGCTGAACTGCATATATT
9143277 TGTAAGCAGCTTCATCCGATCTCGAAGTAGCATATGGTCTATCCCATCAGAGATGTCCTCTTCAC
1 TGTAAGCAGCTTCATCCGATCTCGAAGTAGCATATGGTCTATCCCATCAGAGATGTCCTCTTCAC
*
9143342 ACTTCACTGATACCATGTTACCAAAAGTGCTCCTTTCTGGGTTTTGCAAGTTACTATAATCTAAT
66 ACTTCACTGATACCATGTTACCAAAAGTGCTCCTTTCTGGGTTTTGCAAATTACTATAATCTAAT
*
9143407 GGTTCAACTTTCACTTTGACAGAAGTATTCAAAGTTGAACTGCATATATT
131 GGTTCAACTTTCACTTTGACAGAAGTATTCAAAGCTGAACTGCATATATT
9143457 TGTA
1 TGTA
9143461 CTTGCAGAAA
Statistics
Matches: 182, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 182 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (180 bp):
TGTAAGCAGCTTCATCCGATCTCGAAGTAGCATATGGTCTATCCCATCAGAGATGTCCTCTTCAC
ACTTCACTGATACCATGTTACCAAAAGTGCTCCTTTCTGGGTTTTGCAAATTACTATAATCTAAT
GGTTCAACTTTCACTTTGACAGAAGTATTCAAAGCTGAACTGCATATATT
Found at i:9147149 original size:24 final size:24
Alignment explanation
Indices: 9147096--9147149 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
9147086 AGTTTAATTT
*
9147096 TTTTTAATTATAATATCATTGTTG
1 TTTTTAATTATAATATCATTGTTA
* * *
9147120 TATTTAATTTTATTATCATTGTTA
1 TTTTTAATTATAATATCATTGTTA
9147144 TTTTTA
1 TTTTTA
9147150 TGTTAATAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTTTAATTATAATATCATTGTTA
Found at i:9152600 original size:19 final size:20
Alignment explanation
Indices: 9152573--9152615 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
9152563 AATAAATTAC
* *
9152573 AATTTAAAATTATATTAA-A
1 AATTCAAAATAATATTAATA
9152592 AATTCAAAATAATATTAATA
1 AATTCAAAATAATATTAATA
9152612 AATT
1 AATT
9152616 ATTTGTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTCAAAATAATATTAATA
Found at i:9159420 original size:21 final size:21
Alignment explanation
Indices: 9159388--9159443 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
9159378 GGAGTTTTTA
*
9159388 GTATCAGTAGAAGTAAG-ACTT
1 GTATCGGTAGAAGT-AGCACTT
*
9159409 GTTTCGGTAGAAG-AGTCACTT
1 GTATCGGTAGAAGTAG-CACTT
9159430 GTATCGGTAGAAGT
1 GTATCGGTAGAAGT
9159444 CTGCACTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.07
21 27 0.93
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (21 bp):
GTATCGGTAGAAGTAGCACTT
Found at i:9166473 original size:30 final size:29
Alignment explanation
Indices: 9166447--9166597 Score: 173
Period size: 28 Copynumber: 5.2 Consensus size: 29
9166437 ATATTTTAAC
*
9166447 CCTCAAATTTTTCCAAAATTACATTTTGA
1 CCTCAAACTTTTCCAAAATTACATTTTGA
*
9166476 CC-CAAACTTTTTCAAAATTACATTTTGA
1 CCTCAAACTTTTCCAAAATTACATTTTGA
*
9166504 TC-CAAACTTTTCCAAAATTACATTTTGA
1 CCTCAAACTTTTCCAAAATTACATTTTGA
* * **
9166532 CCCTCGAACTTATCTGAAATTACATTTTGA
1 -CCTCAAACTTTTCCAAAATTACATTTTGA
* * *
9166562 CCTCTGAACTTCTCCAAAATTATATTTTGA
1 CCTC-AAACTTTTCCAAAATTACATTTTGA
9166592 CC-CAAA
1 CCTCAAA
9166598 ATTCTCTGAA
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
28 52 0.50
29 8 0.08
30 45 0.43
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (29 bp):
CCTCAAACTTTTCCAAAATTACATTTTGA
Found at i:9166606 original size:58 final size:55
Alignment explanation
Indices: 9166458--9166617 Score: 169
Period size: 58 Copynumber: 2.8 Consensus size: 55
9166448 CTCAAATTTT
* * *
9166458 TCCAAAATTACATTTTGACCCAAACTTTTTCAAAATTACATTTTGATCCAAACTTT
1 TCCAAAATTACATTTTGACCCAAACTTTCT-GAAATTACATTTTGATCCAAACTTC
* **
9166514 TCCAAAATTACATTTTGACCCTCGAACTTATCTGAAATTACATTTTGACCTCTGAACTTC
1 TCCAAAATTACATTTTGA-CC-CAAACTT-TCTGAAATTACATTTTGA--TCCAAACTTC
* *
9166574 TCCAAAATTATATTTTGACCCAAAATTCTCTGAAACTT-CATTTT
1 TCCAAAATTACATTTTGACCCAAACTT-TCTGAAA-TTACATTTT
9166618 TCGACCCCTT
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
56 18 0.20
57 2 0.02
58 38 0.43
59 6 0.07
60 24 0.27
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.39
Consensus pattern (55 bp):
TCCAAAATTACATTTTGACCCAAACTTTCTGAAATTACATTTTGATCCAAACTTC
Found at i:9175701 original size:85 final size:85
Alignment explanation
Indices: 9175537--9175703 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
9175527 TAAACCCCCA
* * *
9175537 CCTTCTTGATGAGATAAAGAAAAGTGGGTTAAAGCAATAAGGCAGTCATCTTCCTGATGAGACAC
1 CCTTCCTGATGAGATAAAGAAAAGTGGATTAAAGCAATAAGGCAGTCATCTTCCTGATAAGACAC
*
9175602 AGAGATGTGAACCAAATTCG
66 AGAGAAGTGAACCAAATTCG
* * * *
9175622 CCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAA-GC-GATCATCTTCCTGATAAGAT
1 CCTTCCTGATGAGATAAAGAAAAGTGGATTAAAGCAAT-AAGGCAG-TCATCTTCCTGATAAGAC
*
9175685 ATAGAGAAGT-AGACCAAAT
64 ACAGAGAAGTGA-ACCAAAT
9175704 CAATGAAGCA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 2 0.03
85 66 0.94
86 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (85 bp):
CCTTCCTGATGAGATAAAGAAAAGTGGATTAAAGCAATAAGGCAGTCATCTTCCTGATAAGACAC
AGAGAAGTGAACCAAATTCG
Found at i:9175827 original size:209 final size:210
Alignment explanation
Indices: 9175458--9176194 Score: 1101
Period size: 209 Copynumber: 3.5 Consensus size: 210
9175448 CTTCAATCAG
* * *
9175458 TCATCTTCCTGATGAGATACAGAGAAGTAAACCAAAAT-AATGAAGCGAAGCGCAATGTGAGTGA
1 TCATCTTCCTGATGAGATACAGAGAAGTAGACC-AAATCAATGAAGCAAAGCTCAATGTGAGTGA
* * * * * * *
9175522 AACTTTAAACCCCCA-CCTTCTTGATGAGATAAAGAAAAGTGGGTTAAAGCAATAAGGCAGTCAT
65 AACTTCAAACCCCCATCTTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCAT
* * * *
9175586 CTTCCTGATGAGACACAGAGATGTGAACCAAATTCGCCTTCCTGATGAGATACAGAGAAGTGGAT
130 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGAT
9175651 TAAATCAATGAAGCGA
195 TAAATCAATGAAGCGA
* *
9175667 TCATCTTCCTGATAAGATATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAA
1 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAA
* * *
9175732 ACTTCAAACCCCTATCTTTC-TGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGTGGTCATC
66 ACTTCAAACCCCCATCTTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
* * * *
9175796 TTCCTAATAAGATATAGAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGTGGATT
131 TTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATT
9175861 AAATCAATGAAGCGA
196 AAATCAATGAAGCGA
* *
9175876 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAGGCTTAATGTGAGTGAA
1 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAA
*
9175941 ACTTCAAACCCCCATC-TTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATA
66 ACTTCAAACCCCCATCTTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
* *
9176005 TTCTTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAAAGAAGTGGATT
131 TTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATT
*
9176070 AAATCAATGAAGCGG
196 AAATCAATGAAGCGA
* * * *
9176085 TCATCTTCTTGATGAGATACAAAGAAGTAGACCATATCAATGAAGCAAAGCTCAATGTAAGTGAA
1 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAA
* *
9176150 ACTTCAAA-CCCCATCTTTC-TGATGAGATATAGAGGAGTGGG-CAAA
66 ACTTCAAACCCCCATCTTTCTTGATGAGATACAGAGAAGTGGGTCAAA
9176195 ATCTGTCTTC
Statistics
Matches: 478, Mismatches: 46, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
207 4 0.01
208 34 0.07
209 436 0.91
210 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (210 bp):
TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAA
ACTTCAAACCCCCATCTTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
TTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATT
AAATCAATGAAGCGA
Found at i:9175894 original size:85 final size:85
Alignment explanation
Indices: 9175751--9175913 Score: 227
Period size: 85 Copynumber: 1.9 Consensus size: 85
9175741 CCCTATCTTT
* * * *
9175751 CTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGTGGTCATCTTCCTAATAAGATATAGAGA
1 CTGATGAGATACAGAGAAGTGGATCAAAGAAATAAAGCGATCATCTTCCTAATAAGATACAGAGA
*
9175816 AGTGGACCAAATCCACCTTC
66 AGTAGACCAAATCCACCTTC
* ** * * *
9175836 CTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGA
1 CTGATGAGATACAGAGAAGTGGATCAAAGAAATAAAGCGATCATCTTCCTAATAAGATACAGAGA
9175901 AGTAGACCAAATC
66 AGTAGACCAAATC
9175914 AATGAAGCAA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (85 bp):
CTGATGAGATACAGAGAAGTGGATCAAAGAAATAAAGCGATCATCTTCCTAATAAGATACAGAGA
AGTAGACCAAATCCACCTTC
Found at i:9176104 original size:85 final size:85
Alignment explanation
Indices: 9175956--9176118 Score: 245
Period size: 85 Copynumber: 1.9 Consensus size: 85
9175946 AAACCCCCAT
* * *
9175956 CTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATATTCTTGATGAGATACA
1 CTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGGTCATATTCTTGATGAGATACA
* *
9176021 GAGAAGTGGACCAAATCCGC
66 AAGAAGTAGACCAAATCCGC
* * * *
9176041 CTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCTTGATGAGATACA
1 CTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGGTCATATTCTTGATGAGATACA
9176106 AAGAAGTAGACCA
66 AAGAAGTAGACCA
9176119 TATCAATGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (85 bp):
CTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGGTCATATTCTTGATGAGATACA
AAGAAGTAGACCAAATCCGC
Found at i:9176240 original size:160 final size:157
Alignment explanation
Indices: 9176009--9176515 Score: 572
Period size: 160 Copynumber: 3.1 Consensus size: 157
9175999 GTCATATTCT
* * * * *
9176009 TGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAAAGAAGTGGATTAAAT
1 TGATGAGATACAGAGAAGTGGGCAAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAT
* *
9176074 CAATGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCATATCAATGAAGCAAAGCTCA
66 CAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCA-ATCAATGAAG--AAGCTCA
* *
9176139 ATGTAAGTGAAACTTCAAACCCCATCTTTC
128 ATGTGAGTGAAACTTCAAACCCCATCTTCC
* * * *
9176169 TGATGAGATATAGAGGAGTGGGCAAAATCTGTCTTCC-GAATGAGATACAGAGAAGTGAATCAAA
1 TGATGAGATACAGAGAAGTGGGCAAAATCTGTCTTCCTG-ATGAGATACAGAGAAGTGGATTAAA
* * * *
9176233 ACAATGAAGTGGTCATCTTCCGGATGAGATACAGAGAAGTATACCAAGTCAATGAAGTGAAGCTC
65 TCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAA-TCAATGAA--GAAGCTC
* *
9176298 AATGTGAGTGAAATTTTAAACTCCCATCTTCC
127 AATGTGAGTGAAACTTCAAAC-CCCATCTTCC
*
9176330 TGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTTATCTTCCTGATGAGATACAGAGAA
1 TGATGAGATACAGAGAAGTGGG-C-AA--AAT----C---TGTCTTCCTGATGAGATACAGAGAA
* * *
9176395 GTGGATTAAATCAATGAAACGGTCGTCTTCCTGATGAGATACAGAGAAGTAGACCAATGAAGTG-
55 GTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAATCAA-TGA
*
9176459 AG--GCTCAATGTGAGTGAAACTTCAAACCTCATCTTCC
119 AGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCC
* *
9176496 TGATAAGATACAAAGAAGTG
1 TGATGAGATACAGAGAAGTG
9176516 AACCAAAAGA
Statistics
Matches: 293, Mismatches: 36, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
159 2 0.01
160 125 0.43
161 29 0.10
162 2 0.01
163 2 0.01
165 3 0.01
166 27 0.09
167 23 0.08
169 2 0.01
171 4 0.01
172 73 0.25
173 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (157 bp):
TGATGAGATACAGAGAAGTGGGCAAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAT
CAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAATCAATGAAGAAGCTCAATG
TGAGTGAAACTTCAAACCCCATCTTCC
Found at i:9176286 original size:48 final size:48
Alignment explanation
Indices: 9176200--9176291 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
9176190 GCAAAATCTG
*
9176200 TCTTCCGAATGAGATACAGAGAAGTGAATCAAAACAATGAAGTGGTCA
1 TCTTCCGAATGAGATACAGAGAAGTGAACCAAAACAATGAAGTGGTCA
* **
9176248 TCTTCCGGATGAGATACAGAGAAGT-ATACCAAGTCAATGAAGTG
1 TCTTCCGAATGAGATACAGAGAAGTGA-ACCAAAACAATGAAGTG
9176292 AAGCTCAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.03
48 38 0.97
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (48 bp):
TCTTCCGAATGAGATACAGAGAAGTGAACCAAAACAATGAAGTGGTCA
Found at i:9176394 original size:48 final size:48
Alignment explanation
Indices: 9176322--9176444 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
9176312 TTTAAACTCC
*
9176322 CATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAAT-AAAGCGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATGAAA-CGGT
* * *
9176370 TATCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAACGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATGAAACGGT
*
9176418 CGTCTTCCTGATGAGATACAGAGAAGT
1 CATCTTCCTGATGAGATACAGAGAAGT
9176445 AGACCAATGA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 65 0.96
49 3 0.04
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATGAAACGGT
Found at i:9178440 original size:30 final size:29
Alignment explanation
Indices: 9178396--9178626 Score: 187
Period size: 30 Copynumber: 7.7 Consensus size: 29
9178386 TTTTATTTAC
* * * *
9178396 AAATCACATCTTGACTCTCGAATTTTTCTA
1 AAATTACATTTTGAC-CTCAAACTTTTCTA
*
9178426 AAATTACATTTTGACCCCTAAACTTTTCTA
1 AAATTACATTTTGACCTC-AAACTTTTCTA
* * *
9178456 AAATTACATTTTAACCCTTAAACTTTTTCCA
1 AAATTACATTTTGA-CCTCAAAC-TTTTCTA
*
9178487 AAATTATATTTTGACCTCTAAACTTTTCTA
1 AAATTACATTTTGACCTC-AAACTTTTCTA
* * * * *
9178517 AAATCACATTTTAATCCTTAAACTTCTCCA
1 AAATTACATTTTGA-CCTCAAACTTTTCTA
* *
9178547 AAATTACATTTTAACC-CGTAAACTTCTCTA
1 AAATTACATTTTGACCTC--AAACTTTTCTA
* * * *
9178577 AAATTACATTTTAACCCCTAAATTTTTCCA
1 AAATTACATTTTGACCTC-AAACTTTTCTA
9178607 AAATTACATTTTGACC-CAAA
1 AAATTACATTTTGACCTCAAA
9178627 ATTCTCTGAA
Statistics
Matches: 167, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
28 3 0.02
29 5 0.03
30 131 0.78
31 28 0.17
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (29 bp):
AAATTACATTTTGACCTCAAACTTTTCTA
Found at i:9178513 original size:61 final size:60
Alignment explanation
Indices: 9178418--9178623 Score: 299
Period size: 60 Copynumber: 3.4 Consensus size: 60
9178408 GACTCTCGAA
*
9178418 TTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCCTTAAAC
1 TTTTTCCAAAATTACATTTTGA-CCCTAAACTTTTCTAAAATTACATTTTAACCCTTAAAC
* * *
9178479 TTTTTCCAAAATTATATTTTGACCTCTAAACTTTTCTAAAATCACATTTTAATCCTTAAAC
1 TTTTTCCAAAATTACATTTTGACC-CTAAACTTTTCTAAAATTACATTTTAACCCTTAAAC
* * * *
9178540 -TTCTCCAAAATTACATTTTAACCCGTAAACTTCTCTAAAATTACATTTTAACCCCTAAA-
1 TTTTTCCAAAATTACATTTTGACCC-TAAACTTTTCTAAAATTACATTTTAACCCTTAAAC
9178599 TTTTTCCAAAATTACATTTTGACCC
1 TTTTTCCAAAATTACATTTTGACCC
9178624 AAAATTCTCT
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
59 1 0.01
60 74 0.57
61 54 0.42
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.41
Consensus pattern (60 bp):
TTTTTCCAAAATTACATTTTGACCCTAAACTTTTCTAAAATTACATTTTAACCCTTAAAC
Found at i:9178887 original size:19 final size:19
Alignment explanation
Indices: 9178859--9178897 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9178849 TGCCAATAAA
* *
9178859 TTACATATTCGTGTTTAAT
1 TTACACATTCATGTTTAAT
*
9178878 TTACACATTCATTTTTAAT
1 TTACACATTCATGTTTAAT
9178897 T
1 T
9178898 AAATTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (19 bp):
TTACACATTCATGTTTAAT
Found at i:9191725 original size:3 final size:3
Alignment explanation
Indices: 9191717--9191767 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
9191707 TTCACATATT
9191717 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
9191765 TTC
1 TTC
9191768 ACATGGCCAA
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:9196484 original size:428 final size:428
Alignment explanation
Indices: 9195687--9197400 Score: 3171
Period size: 428 Copynumber: 4.0 Consensus size: 428
9195677 CAACCGAAAA
*
9195687 TTCAAGAACAAAAAGATCAAGCAGAGCAATAGAAAAGGAAATTCCAAGATGGTCAAGCTCAAGAG
1 TTCAAGAACAAAAAGATCAAGTAGAGCAATAGAAAAGGAAATTCCAAGATGGTCAAGCTCAAGAG
* * * *
9195752 AATGGCATAAAAGGAGAATTGCTAGAGAGTAAAGTTAAGAATGCTGAGCTGAAAGCCCAGATAAC
66 AATGGCATAAAAGGAGAATTGCTAGAGAGTAAAGTTGAGAAGGCTGAGCTAAAAGCCCGGATAAC
* * **
9195817 CGAGCTAGAAGAATCACTATGTAGACATCGTAGTTTAAATTCTATTACAGAACTTAAAGCAAGCC
131 CAAGCTAGAAGAATCACTACGTAGACATCGTAGTCGAAATTCTATTACAGAACTTAAAGCAAGCC
9195882 AAGAACAGAACGAGGAATTAAAGAAAATGGTAGAAGAACTTGAGGCTTCGTTACAAAATTGTGAG
196 AAGAACAGAACGAGGAATTAAAGAAAATGGTAGAAGAACTTGAGGCTTCGTTACAAAATTGTGAG
* *
9195947 ATGAGGATTGATGTTCTAGAAAGGACATTGGAGAAAAATGAAGGACAACTCTAACTTGCTCGAAG
261 ATAAGGATTGATGTTCTAGAAAGGACATTGGAGAAAAATGAAGGACAACTCCAACTTGCTCGAAG
* *
9196012 ACAAGTTAGTGATAGGGATTACATCATGGGTGAAGCCTTGACTCAAGTACGAGAACTAGCCGATC
326 ACAAGTTAGTGATAGGGATAACATCATGGGTGAAGCCTTGACTCAAGTACGAGAACTAACCGATC
*
9196077 ACCTG-CAATCATTAGCCATTCAAGCTGACGTGATAAGT
391 ACC-GACAATCATTAGCCATTCAAGCTGAAGTGATAAGT
9196115 TTCAAGAACAAAAAGATCAAGTAGAGCAATAGAAAAGGAAATTCCAAGATGGTCAAGCTCAAGAG
1 TTCAAGAACAAAAAGATCAAGTAGAGCAATAGAAAAGGAAATTCCAAGATGGTCAAGCTCAAGAG
* *
9196180 AATGGCATAAAAGGAGAATTGCTAGAGAGTAAAGTTGAGAAGGCTGAGCTGAAAGCCCGGATAAT
66 AATGGCATAAAAGGAGAATTGCTAGAGAGTAAAGTTGAGAAGGCTGAGCTAAAAGCCCGGATAAC
*
9196245 CGAGCTAGAAGAATCACTACGTAGACATCGTAGTCGAAATTCTATTACAGAACTTAAAGCAAGCC
131 CAAGCTAGAAGAATCACTACGTAGACATCGTAGTCGAAATTCTATTACAGAACTTAAAGCAAGCC
9196310 AAGAACAGAACGAGGAATTAAAGAAAATGGTAGAAGAACTTGAGGCTTCGTTACAAAATTGTGAG
196 AAGAACAGAACGAGGAATTAAAGAAAATGGTAGAAGAACTTGAGGCTTCGTTACAAAATTGTGAG
9196375 ATAAGGATTGATGTTCTAGAAAGGACATTGGAGAAAAATGAAGGACAACTCCAACTTGCTCGAAG
261 ATAAGGATTGATGTTCTAGAAAGGACATTGGAGAAAAATGAAGGACAACTCCAACTTGCTCGAAG
*
9196440 ATAAGTTAGTGATAGGGATAACATCATGGGTGAAGCCTTGACTCAAGTACGAGAACTAACCGATC
326 ACAAGTTAGTGATAGGGATAACATCATGGGTGAAGCCTTGACTCAAGTACGAGAACTAACCGATC
9196505 ACCGACAATCATTAGCCATTCAAGCTGAAGTGATAAGT
391 ACCGACAATCATTAGCCATTCAAGCTGAAGTGATAAGT
9196543 TTCAAGAACAAAAAGATCAAGTAGAGCAATAGAAAAGGAAATTCCAAGATGGTCAAGCTCAAGAG
1 TTCAAGAACAAAAAGATCAAGTAGAGCAATAGAAAAGGAAATTCCAAGATGGTCAAGCTCAAGAG
9196608 AATGGCATAAAAGGAGAATTGCTAGAGAGTAAAGTTGAGAAGGCTGAGCTAAAAGCCCGGATAAC
66 AATGGCATAAAAGGAGAATTGCTAGAGAGTAAAGTTGAGAAGGCTGAGCTAAAAGCCCGGATAAC
9196673 CAAGCTAGAAGAATCACTACGTAGACATCGTAGTCGAAATTCTATTACAGAACTTAAAGCAAGCC
131 CAAGCTAGAAGAATCACTACGTAGACATCGTAGTCGAAATTCTATTACAGAACTTAAAGCAAGCC
9196738 AAGAACAGAACGAGGAATTAAAGAAAATGGTAGAAGAACTTGAGGCTTCGTTACAAAATTGTGAG
196 AAGAACAGAACGAGGAATTAAAGAAAATGGTAGAAGAACTTGAGGCTTCGTTACAAAATTGTGAG
9196803 ATAAGGATTGATGTTCTAGAAAGGACATTGGAGAAAAATGAAGGACAACTCCAACTTGCTCGAAG
261 ATAAGGATTGATGTTCTAGAAAGGACATTGGAGAAAAATGAAGGACAACTCCAACTTGCTCGAAG
*
9196868 ATAAGTTAGTGATAGGGATAACATCATGGGTGAAGCCTTGACTCAAGTACGAGAACTAACCGATC
326 ACAAGTTAGTGATAGGGATAACATCATGGGTGAAGCCTTGACTCAAGTACGAGAACTAACCGATC
9196933 ACCGACAATCATTAGCCATTCAAGCTGAAGTGATAAGT
391 ACCGACAATCATTAGCCATTCAAGCTGAAGTGATAAGT
9196971 TTCAAGAACAAAAAGATCAAGTAGAGCAATAGAAAAGGAAATTCCAAGATGGTCAAGCTCAAGAG
1 TTCAAGAACAAAAAGATCAAGTAGAGCAATAGAAAAGGAAATTCCAAGATGGTCAAGCTCAAGAG
9197036 AATGGCATAAAAGGAGAATTGCTAGAGAGTAAAGTTGAGAAGGCTGAGCTAAAAGCCCGGATAAC
66 AATGGCATAAAAGGAGAATTGCTAGAGAGTAAAGTTGAGAAGGCTGAGCTAAAAGCCCGGATAAC
*
9197101 CAAGCTAGAAGAATCACTACATAGACATCGTAGTCGAAATTCTATTACAGAACTTAAAGCAAGCC
131 CAAGCTAGAAGAATCACTACGTAGACATCGTAGTCGAAATTCTATTACAGAACTTAAAGCAAGCC
9197166 AAGAACAGAACGAGGAATTAAAGAAAATGGTAGAAGAACTTGAGGCTTCGTTACAAAATTGTGAG
196 AAGAACAGAACGAGGAATTAAAGAAAATGGTAGAAGAACTTGAGGCTTCGTTACAAAATTGTGAG
*
9197231 ATAAGGATTGATGTTCTAGAAAGGACATTGGAGAAAAATGAAGGATAACTCCAACTTGCTCGAAG
261 ATAAGGATTGATGTTCTAGAAAGGACATTGGAGAAAAATGAAGGACAACTCCAACTTGCTCGAAG
* * *
9197296 ACAAGTTAGTGATAGGGATTACATCATGGGTGAAACCTTGACTCAAGTACGAGAACTAGCCGATC
326 ACAAGTTAGTGATAGGGATAACATCATGGGTGAAGCCTTGACTCAAGTACGAGAACTAACCGATC
*
9197361 ACCTG-CAATCATTAGCCATTCAAGCTGACGTGATAAGT
391 ACC-GACAATCATTAGCCATTCAAGCTGAAGTGATAAGT
9197399 TT
1 TT
9197401 GAAGTATGAA
Statistics
Matches: 1260, Mismatches: 24, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
427 1 0.00
428 1258 1.00
429 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (428 bp):
TTCAAGAACAAAAAGATCAAGTAGAGCAATAGAAAAGGAAATTCCAAGATGGTCAAGCTCAAGAG
AATGGCATAAAAGGAGAATTGCTAGAGAGTAAAGTTGAGAAGGCTGAGCTAAAAGCCCGGATAAC
CAAGCTAGAAGAATCACTACGTAGACATCGTAGTCGAAATTCTATTACAGAACTTAAAGCAAGCC
AAGAACAGAACGAGGAATTAAAGAAAATGGTAGAAGAACTTGAGGCTTCGTTACAAAATTGTGAG
ATAAGGATTGATGTTCTAGAAAGGACATTGGAGAAAAATGAAGGACAACTCCAACTTGCTCGAAG
ACAAGTTAGTGATAGGGATAACATCATGGGTGAAGCCTTGACTCAAGTACGAGAACTAACCGATC
ACCGACAATCATTAGCCATTCAAGCTGAAGTGATAAGT
Found at i:9205837 original size:81 final size:81
Alignment explanation
Indices: 9205702--9206118 Score: 557
Period size: 81 Copynumber: 5.1 Consensus size: 81
9205692 AGGCAAAGCT
* *
9205702 ACCATCCAATCTCTTACCCCGACCATGGGGCAGATTAAAG-CTATCTAATCTTTTACCCTAACCA
1 ACCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGTC-ATCCAATCTTTTACCCTAACCA
*
9205766 GAGGGCAGATTGGAGAC
65 GAGGGCAGATTGAAGAC
* * * * * * * *
9205783 ACCATCCAATCTCTTACACCGACCATAGGGCAAATTAAAGTCATCTAATCTTTTACCTTAGCCAA
1 ACCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAG
* *
9205848 AGGGCAAATTAAAGAC
66 AGGGCAGATTGAAGAC
* * * *
9205864 ACCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGCCATCCAATCTTTTACCTTAACCAA
1 ACCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAG
*
9205929 AGGGCATATTGAAGAC
66 AGGGCAGATTGAAGAC
* **
9205945 ATCATCCAATCTCTTACCTGGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAG
1 ACCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAG
* * *
9206010 ATGACAGATTAAAGAC
66 AGGGCAGATTGAAGAC
* * * *
9206026 ACCATCTAATCTCTTACCCCGACTATGGGGTAGATTGAAGTCATCCAATCTTTTACCCTAACTAG
1 ACCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAG
*
9206091 AGGGTAGATTGAAGAC
66 AGGGCAGATTGAAGAC
9206107 ACCATCCAATCT
1 ACCATCCAATCT
9206119 TTTATCCTTA
Statistics
Matches: 293, Mismatches: 42, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
81 292 1.00
82 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (81 bp):
ACCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAG
AGGGCAGATTGAAGAC
Found at i:9206096 original size:39 final size:40
Alignment explanation
Indices: 9205702--9206150 Score: 263
Period size: 39 Copynumber: 11.0 Consensus size: 40
9205692 AGGCAAAGCT
* ** *
9205702 ACCATCCAATCTCTTACCCCGACCATG-GGGCAGATTAAAG
1 ACCATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAG
* * *
9205742 -CTATCTAATCTTTTACCCTAACCAGAGGGCAGATTGGAGAC
1 ACCATCCAATCTTTTACCCTAACCAGAGGGCAGATT-GA-AG
* * * * *
9205783 ACCATCCAATCTCTTACACC-GACCATAGGGCAAATTAAAG
1 ACCATCCAATCTTTTAC-CCTAACCAGAGGGCAGATTGAAG
* * * * * * *
9205823 -TCATCTAATCTTTTACCTTAGCCAAAGGGCAAATTAAAG
1 ACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG
* **
9205862 ACACCATCCAATCTCTTACCCCGACCATGA-GGCAGATTGAAG
1 --ACCATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAG
* * *
9205904 -CCATCCAATCTTTTACCTTAACCAAAGGGCATATTGAAG
1 ACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG
* *
9205943 ACATCATCCAATCTCTTA-CCTGGACCATG-GGGCAGATTGAAG
1 AC--CATCCAATCTTTTACCCT-AACCA-GAGGGCAGATTGAAG
* * * *
9205985 -TCATCCAATCTTTTACCCTAACCAGATGACAGATTAAAG
1 ACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG
* * ** * *
9206024 ACACCATCTAATCTCTTACCCCGACTATG-GGGTAGATTGAAG
1 --ACCATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAG
* * *
9206066 -TCATCCAATCTTTTACCCTAACTAGAGGGTAGATTGAAG
1 ACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG
* *
9206105 ACACCATCCAATCTTTTATCCTTAAATCAAGAGGGGCAGATTGAAG
1 --ACCATCCAATCTTTTA-CCCT-AA-CCAGA-GGGCAGATTGAAG
9206151 CTATAGAAGC
Statistics
Matches: 311, Mismatches: 68, Indels: 54
0.72 0.16 0.12
Matches are distributed among these distances:
38 5 0.02
39 148 0.48
40 6 0.02
41 4 0.01
42 123 0.40
43 7 0.02
44 2 0.01
45 4 0.01
46 12 0.04
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
ACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG
Found at i:9208721 original size:14 final size:14
Alignment explanation
Indices: 9208704--9208733 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9208694 TTGAGTTTCT
9208704 TTTATTTTCAACAA
1 TTTATTTTCAACAA
9208718 TTTATTTTCAACAA
1 TTTATTTTCAACAA
9208732 TT
1 TT
9208734 AAGACCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTATTTTCAACAA
Found at i:9211420 original size:16 final size:16
Alignment explanation
Indices: 9211383--9211421 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
9211373 GCGTGAAAAA
9211383 CCCAAAGCAAAATCAAT
1 CCCAAAGCAAAA-CAAT
9211400 CCCAAAGCAAAA-AAGT
1 CCCAAAGCAAAACAA-T
9211416 CCCAAA
1 CCCAAA
9211422 CCACAATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.10
16 7 0.33
17 12 0.57
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (16 bp):
CCCAAAGCAAAACAAT
Found at i:9212277 original size:44 final size:43
Alignment explanation
Indices: 9212147--9212279 Score: 178
Period size: 43 Copynumber: 3.1 Consensus size: 43
9212137 TTTTATATAT
* * * * *
9212147 TCATTCGATCACATACTTCCAATATTAGAAAATAGTGTTCCAC
1 TCATTCGATCACATACTTACAATATTAGGAAACAATGTTCCTC
* *
9212190 ACATTCGATCACATACTTTCAATATTAGGAAACAATGTTCCTC
1 TCATTCGATCACATACTTACAATATTAGGAAACAATGTTCCTC
9212233 TCATTC-AGTCACATACTTACAATATTTAGGAAACAATGTTCCTC
1 TCATTCGA-TCACATACTTACAATA-TTAGGAAACAATGTTCCTC
9212277 TCA
1 TCA
9212280 ATGTCATTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 57 0.71
44 22 0.28
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (43 bp):
TCATTCGATCACATACTTACAATATTAGGAAACAATGTTCCTC
Found at i:9212797 original size:2 final size:2
Alignment explanation
Indices: 9212790--9212817 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9212780 AGATAGGGGA
9212790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9212818 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9212822 original size:2 final size:2
Alignment explanation
Indices: 9212817--9212870 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
9212807 TATATATATA
9212817 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9212859 TG TG TG TG TG TG
1 TG TG TG TG TG TG
9212871 AACATTCCAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:9223946 original size:28 final size:28
Alignment explanation
Indices: 9223902--9223970 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
9223892 TAGTTTTCTG
*
9223902 CTATTAAGTTTTGCTCAAGCCAATCTAC
1 CTATGAAGTTTTGCTCAAGCCAATCTAC
* **
9223930 CTATGAAGTTTTTCTCAAGTTAATCTAC
1 CTATGAAGTTTTGCTCAAGCCAATCTAC
*
9223958 CTTTGAAGTTTTG
1 CTATGAAGTTTTG
9223971 GGGTTATGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (28 bp):
CTATGAAGTTTTGCTCAAGCCAATCTAC
Found at i:9230668 original size:2 final size:2
Alignment explanation
Indices: 9230661--9230702 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
9230651 GCCAAACCTT
9230661 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9230703 ATTTCTAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9231377 original size:21 final size:21
Alignment explanation
Indices: 9231336--9231378 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9231326 ATGTTCATCC
*
9231336 ATTATGACTTTTATTAGTTTT
1 ATTATGACTTTTATTAATTTT
*
9231357 ATTATTAC-TTTATTATATTTT
1 ATTATGACTTTTATTA-ATTTT
9231378 A
1 A
9231379 ATCAATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
ATTATGACTTTTATTAATTTT
Found at i:9235690 original size:26 final size:26
Alignment explanation
Indices: 9235654--9235709 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
9235644 AAAAAGAGGT
9235654 GAGTCATTAAGACTGCTTAAATACCA
1 GAGTCATTAAGACTGCTTAAATACCA
9235680 GAGTCATTAAGACTGCTTAAATACCA
1 GAGTCATTAAGACTGCTTAAATACCA
9235706 -AGTC
1 GAGTC
9235710 TTTCTTAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (26 bp):
GAGTCATTAAGACTGCTTAAATACCA
Found at i:9242466 original size:75 final size:75
Alignment explanation
Indices: 9242348--9242499 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
9242338 TAACGTGTAG
9242348 GTTTATGCAAGTGTACACAGTCGTTATCAAGTAATAAGTAAGTATCGAGTTATCGTCTCCACAGG
1 GTTTATGCAAGTGTACACAGTCGTTATCAAGTAATAAGTAAGTATCGAGTTATCGTCTCCACAGG
9242413 GATTGTATTT
66 GATTGTATTT
* * *
9242423 GTTTGTGCAAGTGTACATAGTCGTTATCAAGTAATAAGTAAGTATCGAGTTATTGTCTCCACAGG
1 GTTTATGCAAGTGTACACAGTCGTTATCAAGTAATAAGTAAGTATCGAGTTATCGTCTCCACAGG
9242488 GATTGTATTT
66 GATTGTATTT
9242498 GT
1 GT
9242500 GTTAAATCAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (75 bp):
GTTTATGCAAGTGTACACAGTCGTTATCAAGTAATAAGTAAGTATCGAGTTATCGTCTCCACAGG
GATTGTATTT
Found at i:9250591 original size:40 final size:40
Alignment explanation
Indices: 9250507--9250595 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
9250497 GAACTAGCGG
* * * * *
9250507 TGACATTGTAAACATTGTGATATTATTACTGAACTGGAAG
1 TGACACTGTAAACACTGTGATATTACTACTGAACTCGAAA
9250547 TGACACTGTAAACACTGTGATATTACTACTGAAC-CGACAA
1 TGACACTGTAAACACTGTGATATTACTACTGAACTCGA-AA
9250587 TGACACTGT
1 TGACACTGT
9250596 GAATACTACA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.05
40 41 0.95
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (40 bp):
TGACACTGTAAACACTGTGATATTACTACTGAACTCGAAA
Found at i:9256838 original size:8 final size:9
Alignment explanation
Indices: 9256825--9256854 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9256815 TTCTTCCTAT
9256825 TTTTTTC-C
1 TTTTTTCTC
9256833 TTTTTTCTC
1 TTTTTTCTC
9256842 TTTTTTCTC
1 TTTTTTCTC
9256851 TTTT
1 TTTT
9256855 GATAATCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:9280365 original size:43 final size:43
Alignment explanation
Indices: 9280296--9280421 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
9280286 ACACGAGCTA
* * * * * * *
9280296 GACACACGACCGTGTGCCAAATCATGTGTGAATATTGTTTTGT
1 GACACACGAGCGTGTGGCAGACCATGTGTGCATACTGTTTAGT
*
9280339 GACACACGAGCGTGTGGCAGACCATGTGTGCATACTATTTAGT
1 GACACACGAGCGTGTGGCAGACCATGTGTGCATACTGTTTAGT
* *
9280382 GACACACG-GATGTGTGGTAGACCATGTGTGCATACTGTTT
1 GACACACGAG-CGTGTGGCAGACCATGTGTGCATACTGTTT
9280422 CGGGAATTGG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
GACACACGAGCGTGTGGCAGACCATGTGTGCATACTGTTTAGT
Found at i:9280871 original size:40 final size:40
Alignment explanation
Indices: 9280816--9280986 Score: 173
Period size: 40 Copynumber: 4.3 Consensus size: 40
9280806 TATAATTGGT
* *
9280816 AGTGACACTGTAAACACTACGATAATATTACTGAACTGGC
1 AGTGACACTGTAAACACTACGATATTACTACTGAACTGGC
* * * ** * * *
9280856 AGTGACACTGTAAACAGTGCAATGCTA-TCAGTAAACTGAC
1 AGTGACACTGTAAACACTACGATATTACT-ACTGAACTGGC
* *
9280896 AATGACACTGTAAACACTACGATATTACTACTGAACTGGT
1 AGTGACACTGTAAACACTACGATATTACTACTGAACTGGC
* ** **
9280936 ATTGACACTGTAAACACTGTGATATTACTACTGAACCAGC
1 AGTGACACTGTAAACACTACGATATTACTACTGAACTGGC
9280976 AGTGACACTGT
1 AGTGACACTGT
9280987 GAATAATTCA
Statistics
Matches: 104, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (40 bp):
AGTGACACTGTAAACACTACGATATTACTACTGAACTGGC
Found at i:9280968 original size:23 final size:22
Alignment explanation
Indices: 9280902--9280968 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 22
9280892 TGACAATGAC
*
9280902 ACTGTAAACACTACGATATTACT
1 ACTGTAAACACT-GGATATTACT
9280925 ACTG---A-ACTGG-TATTGAC-
1 ACTGTAAACACTGGATATT-ACT
9280942 ACTGTAAACACTGTGATATTACT
1 ACTGTAAACACTG-GATATTACT
9280965 ACTG
1 ACTG
9280969 AACCAGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 16
0.67 0.02 0.31
Matches are distributed among these distances:
17 8 0.23
18 3 0.09
19 3 0.09
20 2 0.06
21 4 0.11
22 3 0.09
23 12 0.34
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (22 bp):
ACTGTAAACACTGGATATTACT
Found at i:9285200 original size:15 final size:15
Alignment explanation
Indices: 9285180--9285208 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9285170 TTAGATATAT
9285180 TATTCATTTAACATC
1 TATTCATTTAACATC
9285195 TATTCATTTAACAT
1 TATTCATTTAACAT
9285209 TCCACATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTCATTTAACATC
Found at i:9294899 original size:24 final size:25
Alignment explanation
Indices: 9294867--9294914 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
9294857 TATCCTTAGA
*
9294867 ATAATCAGAG-TTAGACTGGGAAAAT
1 ATAATCAGAGCTTA-ACTAGGAAAAT
9294892 ATAA-CAGAGCTTAACTAGGAAAA
1 ATAATCAGAGCTTAACTAGGAAAA
9294915 AACCTGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (25 bp):
ATAATCAGAGCTTAACTAGGAAAAT
Found at i:9297717 original size:30 final size:30
Alignment explanation
Indices: 9297683--9297755 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
9297673 TACCTTTATC
*
9297683 AAATAAAATATTATTTGTATA-TTT-AAATTT
1 AAATAAAATATTATTT-TATAGTTTCAAA-AT
9297713 AAATAAAATATT-TTTTATAGTTTCAAAAT
1 AAATAAAATATTATTTTATAGTTTCAAAAT
*
9297742 AAATAAAAAATTAT
1 AAATAAAATATTAT
9297756 GTCAAGCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 4 0.11
29 18 0.47
30 16 0.42
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATAAAATATTATTTTATAGTTTCAAAAT
Found at i:9298275 original size:31 final size:30
Alignment explanation
Indices: 9298233--9298291 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
9298223 GAAAAATGCT
* *
9298233 TTTTTTTAAAAAATTATTGGATTAAGTTGG
1 TTTTTTTGAAAAATTATGGGATTAAGTTGG
*
9298263 TTTTTTTGAAAAATTATGGGATTGAGTTG
1 TTTTTTTGAAAAATTATGGGATTAAGTTG
9298292 AAATAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (30 bp):
TTTTTTTGAAAAATTATGGGATTAAGTTGG
Found at i:9298897 original size:49 final size:50
Alignment explanation
Indices: 9298806--9298900 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 50
9298796 AATAATTTTT
* * * * * *
9298806 AAAATTAAAAATATTTAATAAAAATTTAAAATTTATATTTATAAAATATA
1 AAAATTAAAAATACTTAATAAAAAATAAAAAATTAAAATTATAAAATATA
*
9298856 AAAATTTAAAAT-CTTAATAAAAAATAAAAAATTAAAATTATAAAA
1 AAAATTAAAAATACTTAATAAAAAATAAAAAATTAAAATTATAAAA
9298901 AATTATGGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 27 0.71
50 11 0.29
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (50 bp):
AAAATTAAAAATACTTAATAAAAAATAAAAAATTAAAATTATAAAATATA
Found at i:9301556 original size:65 final size:63
Alignment explanation
Indices: 9301443--9301571 Score: 231
Period size: 65 Copynumber: 2.0 Consensus size: 63
9301433 GGAAACTAAA
*
9301443 ATCTCCCCCAATAGTTATAATTATTGTCAAAAATTAAATGACATAACTTTTTGACTAATGACC
1 ATCTCCCCCAATAGTTATAATTATTGTCAAAAATTAAACGACATAACTTTTTGACTAATGACC
9301506 ATCTCCTCCCAAATAGTTATAATTATTGTCAAAAATTAAACGACATAACTTTTTGACTAATGACC
1 ATCTCC-CCC-AATAGTTATAATTATTGTCAAAAATTAAACGACATAACTTTTTGACTAATGACC
9301571 A
1 A
9301572 AAAGATTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
63 6 0.10
64 3 0.05
65 54 0.86
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (63 bp):
ATCTCCCCCAATAGTTATAATTATTGTCAAAAATTAAACGACATAACTTTTTGACTAATGACC
Found at i:9301682 original size:39 final size:40
Alignment explanation
Indices: 9301627--9301714 Score: 142
Period size: 39 Copynumber: 2.2 Consensus size: 40
9301617 TGGAGCACTA
9301627 AAAATATTTGAAAATGTTCCAACAATCTCCCCCCATTTTC
1 AAAATATTTGAAAATGTTCCAACAATCTCCCCCCATTTTC
* * *
9301667 -AAATATTTGAAAATGTTCCAACGATCTTCCCCTATTTTC
1 AAAATATTTGAAAATGTTCCAACAATCTCCCCCCATTTTC
9301706 AAAATATTT
1 AAAATATTT
9301715 TAGATTTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 36 0.82
40 8 0.18
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (40 bp):
AAAATATTTGAAAATGTTCCAACAATCTCCCCCCATTTTC
Found at i:9303670 original size:186 final size:186
Alignment explanation
Indices: 9303304--9304544 Score: 1564
Period size: 186 Copynumber: 6.7 Consensus size: 186
9303294 AAGTCTACTA
* * * *
9303304 TAACCTCA-AGGAGATTGAGTTCTGTTACTCATTTTAATTTGATCCACTATAACTTCAGAGGATA
1 TAACCTCAGA-GAGATTGAGATCCGTTACTCATTTTAATTCGATCCACTACAACTTCAG-GGATA
* * *
9303368 TAGGATTTGGTGCTTTACTCCATTCCATTGTAACCTCAGGGAGATTGAGATATGCTTTTGTAACT
64 TAGGATTTGGTGCTTCACTCCATTCCACTATAACCTCAGGGAGATTGAGATATGC---T-T---T
* * * *
9303433 TTAATCCAACCCATTGTAATTTTAGGGGTATAAGATTTGGTGTTGTACTTCACTCCATTCCACTG
122 TTAATCCAACCCACTGCAACTTTAAGGGTATAAGATTTGGTGTTGTACTTCACTCCATTCCACTG
* * *
9303498 TAACCTCAGAGAGATTGAGATCCATTACTCATTATAATTCGATCCACTACAACTTTAGGGATATA
1 TAACCTCAGAGAGATTGAGATCCGTTACTCATTTTAATTCGATCCACTACAACTTCAGGGATATA
* ** * * *
9303563 GGATTTGGTGCTTCAGTCTGTTCCACTATAACCTCAAGGAGATTGAGATATGGTTTTTAATCCGA
66 GGATTTGGTGCTTCACTCCATTCCACTATAACCTCAGGGAGATTGAGATATGCTTTTTAATCCAA
* *
9303628 CCCATTGCAACTTTAAGGGTATAAGATTTGGTGTTGTACTTCACTCCATTCCACTA
131 CCCACTGCAACTTTAAGGGTATAAGATTTGGTGTTGTACTTCACTCCATTCCACTG
* * * *
9303684 TAACCTCAGGGAGATTGAGATCCGTTACTCATTTTAATCCAATCCACTGCAACTTCAGGGATATA
1 TAACCTCAGAGAGATTGAGATCCGTTACTCATTTTAATTCGATCCACTACAACTTCAGGGATATA
* * * * *
9303749 GGATTTAGTGCTTCACTGCATTCCACTATAACCTCAGGGAGATTGACATTTGCTTTTTAATTCAA
66 GGATTTGGTGCTTCACTCCATTCCACTATAACCTCAGGGAGATTGAGATATGCTTTTTAATCCAA
* * * *
9303814 CCCACTGCAACTTCAAGGGTATAGGATTTGGTATTGTACTTCACTCCATTCCACTC
131 CCCACTGCAACTTTAAGGGTATAAGATTTGGTGTTGTACTTCACTCCATTCCACTG
* * * **
9303870 TAACCTCAGGGAGATTGAGATCCGTTACTC-TTTTAATTCGATCCACTGCAACTTTAAAGATATA
1 TAACCTCAGAGAGATTGAGATCCGTTACTCATTTTAATTCGATCCACTACAACTTCAGGGATATA
* * * *
9303934 GGATTTGGTGTTTCATTCCA-TCCACTGTAACCT-AGGGAGATTGAGATATGCTTTTTAATTCAA
66 GGATTTGGTGCTTCACTCCATTCCACTATAACCTCAGGGAGATTGAGATATGCTTTTTAATCCAA
* * * *
9303997 CCCACTGCAAC-TTCAGGGTTATAGGATTTGGTATTGTACTTCACTCCATTCCATTG
131 CCCACTGCAACTTTAAGGG-TATAAGATTTGGTGTTGTACTTCACTCCATTCCACTG
* *
9304053 TAACCTCAGAGAGATTGAGATCCGTTACTCATTTT-ATCCGATCCACTACAACTTCAAGGATATA
1 TAACCTCAGAGAGATTGAGATCCGTTACTCATTTTAATTCGATCCACTACAACTTCAGGGATATA
** * * * * * *
9304117 ATATTTGGTGCTTCAGTCCATTCCACTATAACCTTAGGAAAATTGAGATCTGCTTTTTAATCCGA
66 GGATTTGGTGCTTCACTCCATTCCACTATAACCTCAGGGAGATTGAGATATGCTTTTTAATCCAA
* *
9304182 CCCACTACAACTTTAAGGGTATAAGATTTGGTGTTGTACTTCACTCCATTCCACTA
131 CCCACTGCAACTTTAAGGGTATAAGATTTGGTGTTGTACTTCACTCCATTCCACTG
* *
9304238 TAACCTCATG-GAGATTGAGATCCGTTACTCATTTTAATTTGATCCACCACAACTTCAGGGATAT
1 TAACCTCA-GAGAGATTGAGATCCGTTACTCATTTTAATTCGATCCACTACAACTTCAGGGATAT
* * * * *
9304302 AGGATTTAGTGCTTCACTCCATTCCACTATAACTTTAGGGAGATTGAGATCTGCTTTTTAATCCG
65 AGGATTTGGTGCTTCACTCCATTCCACTATAACCTCAGGGAGATTGAGATATGCTTTTTAATCCA
* * * * *
9304367 ACCCACTGTAACTTT-AGAGGTATAGGATTTGGTGTTTTACTTTACTCCATTCTACTG
130 ACCCACTGCAACTTTAAG-GGTATAAGATTTGGTGTTGTACTTCACTCCATTCCACTG
* * * * *
9304424 TAACCTTACAGAGATTGAGATCCGTTACTCATTTTAATCCGATCCACTACAATTTTAGGGATATA
1 TAACCTCAGAGAGATTGAGATCCGTTACTCATTTTAATTCGATCCACTACAACTTCAGGGATATA
* * * * **
9304489 AGATTTGGTGCTTCATTCCA-TCCATTGTAACCTCAAAGAGATTGAGATATGCTTTT
66 GGATTTGGTGCTTCACTCCATTCCACTATAACCTCAGGGAGATTGAGATATGCTTTT
9304545 GTAACTTTAA
Statistics
Matches: 922, Mismatches: 115, Indels: 29
0.86 0.11 0.03
Matches are distributed among these distances:
182 5 0.01
183 144 0.16
184 28 0.03
185 177 0.19
186 464 0.50
189 1 0.00
190 1 0.00
193 52 0.06
194 49 0.05
195 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (186 bp):
TAACCTCAGAGAGATTGAGATCCGTTACTCATTTTAATTCGATCCACTACAACTTCAGGGATATA
GGATTTGGTGCTTCACTCCATTCCACTATAACCTCAGGGAGATTGAGATATGCTTTTTAATCCAA
CCCACTGCAACTTTAAGGGTATAAGATTTGGTGTTGTACTTCACTCCATTCCACTG
Found at i:9323528 original size:37 final size:37
Alignment explanation
Indices: 9323478--9323548 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
9323468 TGAATATGAG
9323478 AGCACTACAGGAAAACAGTTTTTTAGCGGCGCTTATA
1 AGCACTACAGGAAAACAGTTTTTTAGCGGCGCTTATA
9323515 AGCACTACAGGAAAACAGTTTTTTAGCGGCGCTT
1 AGCACTACAGGAAAACAGTTTTTTAGCGGCGCTT
9323549 TCTAAAGCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (37 bp):
AGCACTACAGGAAAACAGTTTTTTAGCGGCGCTTATA
Found at i:9323661 original size:42 final size:43
Alignment explanation
Indices: 9323612--9323710 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
9323602 GTTTATGCGA
9323612 AAAAGCGCCGCTAAAGAAC-ATGGCCTTTA-CGGCGCTTTCTCC
1 AAAAGCGCCGCTAAAG-ACTATGGCCTTTAGCGGCGCTTTCTCC
* * ** *
9323654 ACAAGCGCCGCTAAAGGCTATGTTCTTTAGCGGCGTTTTCTCC
1 AAAAGCGCCGCTAAAGACTATGGCCTTTAGCGGCGCTTTCTCC
9323697 AAAAGCGCCGCTAA
1 AAAAGCGCCGCTAA
9323711 TATAACAGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
41 1 0.02
42 23 0.47
43 25 0.51
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGACTATGGCCTTTAGCGGCGCTTTCTCC
Found at i:9324018 original size:21 final size:21
Alignment explanation
Indices: 9323993--9324049 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
9323983 CTTGTAGCCT
* *
9323993 CTGCTTCCTTCACTTGCCTCG
1 CTGCTGCCTCCACTTGCCTCG
*
9324014 CTGCTGCCTCCGCTTGCCTCG
1 CTGCTGCCTCCACTTGCCTCG
9324035 CTGCTGCCTCCACTT
1 CTGCTGCCTCCACTT
9324050 TAAGTTGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.04, C:0.46, G:0.18, T:0.33
Consensus pattern (21 bp):
CTGCTGCCTCCACTTGCCTCG
Found at i:9324023 original size:11 final size:11
Alignment explanation
Indices: 9324007--9324044 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
9323997 TTCCTTCACT
9324007 TGCCTCGCTGC
1 TGCCTCGCTGC
9324018 TGCCTC-C-GC
1 TGCCTCGCTGC
9324027 TTGCCTCGCTGC
1 -TGCCTCGCTGC
9324039 TGCCTC
1 TGCCTC
9324045 CACTTTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.08
10 7 0.29
11 13 0.54
12 2 0.08
ACGTcount: A:0.00, C:0.47, G:0.24, T:0.29
Consensus pattern (11 bp):
TGCCTCGCTGC
Found at i:9324117 original size:66 final size:66
Alignment explanation
Indices: 9324035--9324188 Score: 236
Period size: 66 Copynumber: 2.3 Consensus size: 66
9324025 GCTTGCCTCG
* * * *
9324035 CTGCTGCCTCCACTTTAAGTTGTAGATGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTC
1 CTGCAGCCTCCTCTTTAAGTTGTAAATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTC
9324100 A
66 A
* * *
9324101 CTGCAGCCTCCTCTTTAAGTTTTAAATGGAGTTCATCATATTTTTTTTGAGCCTTTGCTTCTCTC
1 CTGCAGCCTCCTCTTTAAGTTGTAAATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTC
*
9324166 G
66 A
9324167 CTGCAGCCTCCTCTTTAAGTTG
1 CTGCAGCCTCCTCTTTAAGTTG
9324189 AGCAATTTGC
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 79 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (66 bp):
CTGCAGCCTCCTCTTTAAGTTGTAAATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTC
A
Found at i:9329690 original size:8 final size:8
Alignment explanation
Indices: 9329677--9329756 Score: 67
Period size: 8 Copynumber: 9.8 Consensus size: 8
9329667 TTGTTTTCAT
9329677 TAATTAAA
1 TAATTAAA
9329685 TAATTAAA
1 TAATTAAA
*
9329693 T-ATTTAA
1 TAATTAAA
*
9329700 T--TTAGTA
1 TAATTA-AA
9329707 TAATTAAA
1 TAATTAAA
9329715 TAATTAAA
1 TAATTAAA
9329723 TAATTAATTA
1 TAATTAA--A
*
9329733 AAATTAAA
1 TAATTAAA
9329741 TAATTATATA
1 TAATTA-A-A
9329751 TAATTA
1 TAATTA
9329757 TTTACGAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
6 2 0.03
7 8 0.14
8 31 0.53
9 4 0.07
10 14 0.24
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (8 bp):
TAATTAAA
Found at i:9329732 original size:4 final size:4
Alignment explanation
Indices: 9329675--9329756 Score: 51
Period size: 4 Copynumber: 20.0 Consensus size: 4
9329665 GGTTGTTTTC
* * * * * *
9329675 ATTA ATTA AATA ATTA AATA TTTA ATTTA GTATA ATTA AATA ATTA AATA
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA AT-TA ATTA ATTA ATTA ATTA
*
9329725 ATTA ATTA A--A ATTA AATA ATTA TATATA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA -AT-TA ATTA
9329757 TTTACGAAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
2 2 0.03
4 44 0.76
5 10 0.17
6 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (4 bp):
ATTA
Found at i:9329799 original size:22 final size:22
Alignment explanation
Indices: 9329676--9329811 Score: 79
Period size: 22 Copynumber: 6.3 Consensus size: 22
9329666 GTTGTTTTCA
9329676 TTAATT-AA-ATAATTAAATAT
1 TTAATTAAATATAATTAAATAT
* * *
9329696 TTAATTTAGTATAATTAAATAA
1 TTAATTAAATATAATTAAATAT
*
9329718 TTAAAT-AAT-TAATTAAA-A-
1 TTAATTAAATATAATTAAATAT
* * *
9329736 TTAAATAATTAT-ATATAATTAT
1 TTAATTAAATATAAT-TAAATAT
***
9329758 TTACGAAAATATTTTAAATTAAATAT
1 TTAATTAAATA---T-AATTAAATAT
*
9329784 TTAATTAAATATAATTAAATAA
1 TTAATTAAATATAATTAAATAT
9329806 TTAATT
1 TTAATT
9329812 GATACTGTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
18 6 0.07
19 5 0.06
20 18 0.20
21 4 0.04
22 38 0.43
23 1 0.01
25 1 0.01
26 14 0.16
27 2 0.02
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (22 bp):
TTAATTAAATATAATTAAATAT
Found at i:9329857 original size:18 final size:18
Alignment explanation
Indices: 9329834--9330226 Score: 99
Period size: 18 Copynumber: 21.6 Consensus size: 18
9329824 AATTAAATAC
*
9329834 ATAATTAAACATAATTAA
1 ATAATTAAATATAATTAA
* *
9329852 ATAATTTAATATAATTAT
1 ATAATTAAATATAATTAA
* * *
9329870 TTACTTTAATATAAATTAA
1 ATAATTAAATAT-AATTAA
*
9329889 ATAATTAAATCTTTTAATTAA
1 ATAATTAAA---TATAATTAA
*
9329910 AT-ATTTAAT-TAATTGATA
1 ATAATTAAATATAATT-A-A
* ** * *
9329928 CTGTTTACAAT-TAAATAC
1 ATAATTA-AATATAATTAA
*
9329946 ATAATTAAACATAATTAA
1 ATAATTAAATATAATTAA
* * * *
9329964 TTGATTTAATATAATTAT
1 ATAATTAAATATAATTAA
* * *
9329982 TTACTTTAATATAATTAA
1 ATAATTAAATATAATTAA
*
9330000 ATAATTAAATAT-TTTAA
1 ATAATTAAATATAATTAA
9330017 ATTAATTATTTAAT-TAATTGATA
1 A-TAATTA---AATATAATT-A-A
* ** * *
9330040 CTGTTTATAAT-TAAATAC
1 ATAATTA-AATATAATTAA
*
9330058 ATAATTAAACATAATTAA
1 ATAATTAAATATAATTAA
* *
9330076 ATAATTTAATATAATTAT
1 ATAATTAAATATAATTAA
* * * *
9330094 TTACTTTAATATAACTAA
1 ATAATTAAATATAATTAA
* *
9330112 ATATTTTAAAT-TAATTAT
1 ATA-ATTAAATATAATTAA
* **
9330130 TTAATT-AAT-T-GGT-A
1 ATAATTAAATATAATTAA
* ** * *
9330144 CTGTTTATAATTTAA-TAC
1 ATAATTA-AATATAATTAA
*
9330162 ATAATTAAACATAATTAA
1 ATAATTAAATATAATTAA
* *
9330180 ATAATTTAATATAATTAT
1 ATAATTAAATATAATTAA
* * *
9330198 TTACTTTAATATAAATTAA
1 ATAATTAAATAT-AATTAA
9330217 ATAATTAAAT
1 ATAATTAAAT
9330227 CTTTTAAATT
Statistics
Matches: 267, Mismatches: 83, Indels: 49
0.67 0.21 0.12
Matches are distributed among these distances:
14 3 0.01
15 1 0.00
16 12 0.04
17 20 0.07
18 157 0.59
19 32 0.12
20 21 0.08
21 13 0.05
22 7 0.03
23 1 0.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
ATAATTAAATATAATTAA
Found at i:9329871 original size:112 final size:110
Alignment explanation
Indices: 9329734--9330581 Score: 901
Period size: 113 Copynumber: 7.7 Consensus size: 110
9329724 AATTAATTAA
*
9329734 AATTAAATAA-TTATATATAATTATTTACGAAAATATTTTAAATTAAATATTTAATTAAATATAA
1 AATTAAATAATTTA-ATATAATTATTTACTAAAATA-TTTAAATTAAATATTTAATTAAAT-TAA
**
9329798 TTAAATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
63 TTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
** * *
9329846 AATTAAATAATTTAATATAATTATTTACTTTAATA--TAAATTAAATAATTAAATCTTTTAATTA
1 AATTAAATAATTTAATATAATTATTTACTAAAATATTTAAATTAAAT-ATTTAA---TTAAATTA
*
9329909 AATATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
62 ATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* * * *
9329958 AATTAATTGATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATA-TT--TTAAATT
1 AATTAAATAATTTAATATAATTATTTAC--TAAAAT-ATT-TA-AATTAAATATTTAATTAAATT
*
9330020 AATTATTTAATTAATTGATACTGTTTATAATTAAATACATAATTAAACAT
61 AATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
** *
9330070 AATTAAATAATTTAATATAATTATTTACTTTAATA--T-AACTAAATA-TT--TTAAATTAATTA
1 AATTAAATAATTTAATATAATTATTTACTAAAATATTTAAATTAAATATTTAATTAAATTAATTA
* * *
9330129 TTTAATTAATTGGTACTGTTTATAATTTAATACATAATTAAACAT
66 TTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
** *
9330174 AATTAAATAATTTAATATAATTATTTACTTTAATA--TAAATTAAATAATTAAATCTTTTAAATT
1 AATTAAATAATTTAATATAATTATTTACTAAAATATTTAAATTAAAT-ATTTAA----TTAAATT
*
9330237 AAATATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
61 AATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* * ** *
9330287 AATTAATTGATTTAATATAATTATTTACTTTAATA--TAAATTAAATAATTAAATCTTTTAAATT
1 AATTAAATAATTTAATATAATTATTTACTAAAATATTTAAATTAAAT-ATTTAA----TTAAATT
*
9330350 AAATATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
61 AATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* * * ** * * *
9330400 AATTAATTGATTTAATATAATTATTTAGTTTAATATTT-AATTAAAT-CTT--TCAAATTAAATA
1 AATTAAATAATTTAATATAATTATTTACTAAAATATTTAAATTAAATATTTAATTAAATTAATTA
* * * *
9330461 TTTAATTAACTAATTA-TGTTTATAATTAAATATATAATTAAACAT
66 TTTAATTAATTGA-TACTGTTTACAATTAAATACATAATTAAACAT
* * * *
9330506 AATTAAATAATTAAATATAATTATTTAATTAAATATTTCAAAATAAATATTTAATTAAATATAAT
1 AATTAAATAATTTAATATAATTATTTACTAAAATATTT-AAATTAAATATTTAATTAAAT-TAAT
**
9330571 TAAATAATTAA
64 TATTTAATTAA
9330582 ATCTTTCAAA
Statistics
Matches: 652, Mismatches: 54, Indels: 60
0.85 0.07 0.08
Matches are distributed among these distances:
104 101 0.15
105 7 0.01
106 83 0.13
107 3 0.00
108 7 0.01
109 13 0.02
110 8 0.01
111 5 0.01
112 195 0.30
113 206 0.32
114 11 0.02
115 2 0.00
117 1 0.00
118 2 0.00
119 8 0.01
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (110 bp):
AATTAAATAATTTAATATAATTATTTACTAAAATATTTAAATTAAATATTTAATTAAATTAATTA
TTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
Found at i:9329906 original size:13 final size:12
Alignment explanation
Indices: 9329685--9329921 Score: 82
Period size: 12 Copynumber: 19.6 Consensus size: 12
9329675 ATTAATTAAA
9329685 TAATTAAATATT
1 TAATTAAATATT
* *
9329697 TAATTTAGTA--
1 TAATTAAATATT
*
9329707 TAATTAAATAAT
1 TAATTAAATATT
* *
9329719 TAAATAATTAATT
1 TAATTAAAT-ATT
* *
9329732 AAAATTAAATAAT
1 -TAATTAAATATT
*
9329745 TATATATAATTATT
1 TA-AT-TAAATATT
***
9329759 TACGAAAATATTT
1 TAATTAAATA-TT
9329772 TAAATTAAATATT
1 T-AATTAAATATT
9329785 TAATTAAATA--
1 TAATTAAATATT
*
9329795 TAATTAAATAAT
1 TAATTAAATATT
* *
9329807 TAATTGATACTGTT
1 TAATT-A-AATATT
**
9329821 TACAATTAAATACA
1 T--AATTAAATATT
*
9329835 TAATTAAACA--
1 TAATTAAATATT
9329845 TAATTAAATAATT
1 TAATTAAAT-ATT
*
9329858 TAATATAATTATT
1 TAAT-TAAATATT
* *
9329871 TACTTTAATA-T
1 TAATTAAATATT
*
9329882 AAATT-AA-A--
1 TAATTAAATATT
*
9329890 TAATTAAATCTTT
1 TAATTAAAT-ATT
9329903 TAATTAAATATT
1 TAATTAAATATT
9329915 TAATTAA
1 TAATTAA
9329922 TTGATACTGT
Statistics
Matches: 163, Mismatches: 39, Indels: 46
0.66 0.16 0.19
Matches are distributed among these distances:
8 4 0.02
9 3 0.02
10 28 0.17
11 5 0.03
12 55 0.34
13 32 0.20
14 31 0.19
15 1 0.01
16 4 0.02
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (12 bp):
TAATTAAATATT
Found at i:9330193 original size:10 final size:10
Alignment explanation
Indices: 9330149--9330222 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
9330139 TGGTACTGTT
9330149 TATAATTTAA
1 TATAATTTAA
*
9330159 TACATAATTAAA
1 T--ATAATTTAA
*
9330171 CATAA-TTAA
1 TATAATTTAA
9330180 -ATAATTTAA
1 TATAATTTAA
9330189 TATAA-TT-A
1 TATAATTTAA
* *
9330197 TTTACTTTAA
1 TATAATTTAA
*
9330207 TATAAATTAA
1 TATAATTTAA
9330217 -ATAATT
1 TATAATT
9330223 AAATCTTTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
8 8 0.16
9 16 0.33
10 17 0.35
12 8 0.16
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (10 bp):
TATAATTTAA
Found at i:9330244 original size:45 final size:48
Alignment explanation
Indices: 9330053--9330245 Score: 123
Period size: 45 Copynumber: 3.9 Consensus size: 48
9330043 TTTATAATTA
*
9330053 AATACATAATTAAACATAATTAAATAATTTAATATAATTATTTACTTT
1 AATACATAATTAAACATAATTAAATAATTTAATATAAATATTTACTTT
* * * * *
9330101 AAT--ATAACTAAATATTTTAAATT-AATTATTTAAT-TAATTGGTACTGTTTATAATTT
1 AATACATAATTAAACA---T-AATTAAATAATTTAATATAA-----A-T-ATT-TACTTT
*
9330157 AATACATAATTAAACATAATTAAATAATTTAATATAATTATTTACTTT
1 AATACATAATTAAACATAATTAAATAATTTAATATAAATATTTACTTT
* **
9330205 AATATA-AATT-AA-ATAATTAAATCTTTTAA-ATTAAATATTTA
1 AATACATAATTAAACATAATTAAATAATTTAATA-TAAATATTTA
9330246 ATTAATTGAT
Statistics
Matches: 112, Mismatches: 16, Indels: 37
0.68 0.10 0.22
Matches are distributed among these distances:
44 1 0.01
45 24 0.21
46 11 0.10
47 4 0.04
48 16 0.14
49 13 0.12
50 5 0.04
54 5 0.04
55 13 0.12
56 11 0.10
58 9 0.08
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (48 bp):
AATACATAATTAAACATAATTAAATAATTTAATATAAATATTTACTTT
Found at i:9330308 original size:18 final size:19
Alignment explanation
Indices: 9330285--9330329 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
9330275 ATAATTAAAC
9330285 ATAATTAATTGA-TTTAAT
1 ATAATTAATTGACTTTAAT
*
9330303 ATAATT-ATTTACTTTAAT
1 ATAATTAATTGACTTTAAT
9330321 ATAAATTAA
1 AT-AATTAA
9330330 ATAATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 4 0.17
20 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAATTAATTGACTTTAAT
Found at i:9330421 original size:18 final size:18
Alignment explanation
Indices: 9330398--9330435 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9330388 ATAATTAAAC
9330398 ATAATTAATTGA-TTTAAT
1 ATAATT-ATTGAGTTTAAT
*
9330416 ATAATTATTTAGTTTAAT
1 ATAATTATTGAGTTTAAT
9330434 AT
1 AT
9330436 TTAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
ATAATTATTGAGTTTAAT
Found at i:9330425 original size:13 final size:12
Alignment explanation
Indices: 9330399--9330469 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 12
9330389 TAATTAAACA
9330399 TAATTAATTGATT
1 TAATTAATT-ATT
9330412 TAATATAATTATT
1 TAAT-TAATTATT
*
9330425 TAGTTTAA-TATT
1 TA-ATTAATTATT
* *
9330437 TAATTAAATCTT
1 TAATTAATTATT
*
9330449 TCAAATTAAATATT
1 T--AATTAATTATT
9330463 TAATTAA
1 TAATTAA
9330470 CTAATTATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
11 4 0.08
12 16 0.33
13 12 0.24
14 17 0.35
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (12 bp):
TAATTAATTATT
Found at i:9330502 original size:44 final size:45
Alignment explanation
Indices: 9330437--9330634 Score: 125
Period size: 44 Copynumber: 4.3 Consensus size: 45
9330427 GTTTAATATT
* *
9330437 TAATTAAATCTTTCAAATTAAATATTTAATTAACTAATTATGTTTA
1 TAATTAAATATAT-AAATTAAATATTTAATTAACTAATTATGTTTA
* * * * * *
9330483 TAATTAAATATAT-AATTAAACATAATTAAATAATTAAATATAATTATT
1 TAATTAAATATATAAATT-AA-ATATTTAATTAACTAATTAT-GTT-TA
* * * * **
9330531 TAATTAAATATTTCAAAATAAATATTTAATTAAAT-ATAAT-TAAA
1 TAATTAAATATAT-AAATTAAATATTTAATTAACTAATTATGTTTA
* * *
9330575 TAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTGTTTA
1 TAATTAAATATAT-AAATTAAATATTTAATTAACTAAT--TA-TGTTTA
9330624 -AATTAAATATA
1 TAATTAAATATA
9330635 ATTATTTACT
Statistics
Matches: 114, Mismatches: 27, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
44 35 0.31
45 5 0.04
46 27 0.24
47 6 0.05
48 34 0.30
49 4 0.04
50 3 0.03
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (45 bp):
TAATTAAATATATAAATTAAATATTTAATTAACTAATTATGTTTA
Found at i:9330507 original size:10 final size:9
Alignment explanation
Indices: 9330494--9330582 Score: 53
Period size: 8 Copynumber: 10.0 Consensus size: 9
9330484 AATTAAATAT
9330494 ATAATTAAA
1 ATAATTAAA
9330503 CATAATT-AA
1 -ATAATTAAA
9330512 ATAATTAAA
1 ATAATTAAA
*
9330521 TATAATT-AT
1 -ATAATTAAA
*
9330530 TTAATT-AA
1 ATAATTAAA
*
9330538 ATATTTCAAA
1 ATAATT-AAA
* *
9330548 ATAAAT-AT
1 ATAATTAAA
*
9330556 TTAATTAAA
1 ATAATTAAA
9330565 TATAATT-AA
1 -ATAATTAAA
9330574 ATAATTAAA
1 ATAATTAAA
9330583 TCTTTCAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
8 27 0.45
9 10 0.17
10 23 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAATTAAA
Found at i:9330519 original size:62 final size:61
Alignment explanation
Indices: 9330452--9330583 Score: 167
Period size: 62 Copynumber: 2.1 Consensus size: 61
9330442 AAATCTTTCA
* * *
9330452 AATTAAATAT-TTAATTAACTAATTATGTTTATAATTAAATATATAATTAAACATAATTAAAT
1 AATTAAATATATTAATTAACTAAATAT-TTCA-AAATAAATATATAATTAAACATAATTAAAT
* * * *
9330514 AATTAAATATAATTATTTAATTAAATATTTCAAAATAAATATTTAATTAAATATAATTAAAT
1 AATTAAATAT-ATTAATTAACTAAATATTTCAAAATAAATATATAATTAAACATAATTAAAT
9330576 AATTAAAT
1 AATTAAAT
9330584 CTTTCAAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
62 45 0.74
63 3 0.05
64 13 0.21
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (61 bp):
AATTAAATATATTAATTAACTAAATATTTCAAAATAAATATATAATTAAACATAATTAAAT
Found at i:9330539 original size:18 final size:18
Alignment explanation
Indices: 9330494--9330583 Score: 74
Period size: 18 Copynumber: 5.6 Consensus size: 18
9330484 AATTAAATAT
*
9330494 ATAATTAAACATAATTAA
1 ATAATTAAATATAATTAA
*
9330512 ATAATTAAATATAATTAT
1 ATAATTAAATATAATTAA
* *
9330530 TTAATTAAATAT--TTCA
1 ATAATTAAATATAATTAA
9330546 A-AA-T-AA-AT-ATT--
1 ATAATTAAATATAATTAA
9330557 -TAATTAAATATAATTAA
1 ATAATTAAATATAATTAA
9330574 ATAATTAAAT
1 ATAATTAAAT
9330584 CTTTCAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
11 2 0.04
12 3 0.05
13 6 0.11
14 3 0.05
15 5 0.09
16 2 0.04
18 36 0.63
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAATTAAATATAATTAA
Found at i:9330539 original size:26 final size:26
Alignment explanation
Indices: 9330505--9330604 Score: 96
Period size: 26 Copynumber: 3.7 Consensus size: 26
9330495 TAATTAAACA
*
9330505 TAATTAAATAATTAAATATAATTATT
1 TAATTAAATAATTAAATATAAATATT
*
9330531 TAATTAAATATTTCAAA-ATAAATATT
1 TAATTAAATAATT-AAATATAAATATT
*
9330557 TAATTAAATATAATTAAATAATTAAATCTT
1 TAATT-AA-ATAATTAAAT-A-TAAATATT
9330587 TCAAATTAAAT-ATTAAAT
1 T--AATTAAATAATTAAAT
9330605 TAACTAATAC
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
26 25 0.40
27 8 0.13
28 5 0.08
29 8 0.13
30 10 0.16
31 2 0.03
32 4 0.06
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATTAAATAATTAAATATAAATATT
Found at i:9330891 original size:18 final size:18
Alignment explanation
Indices: 9330870--9330919 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
9330860 TAAATTAAAC
9330870 ATAATTAAATAATTTAAT
1 ATAATTAAATAATTTAAT
** *
9330888 ATAATTATTTACTTTAAT
1 ATAATTAAATAATTTAAT
9330906 ATAATTAAATAATT
1 ATAATTAAATAATT
9330920 AAATCTTTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAATTAAATAATTTAAT
Found at i:9330943 original size:7 final size:8
Alignment explanation
Indices: 9330870--9331075 Score: 58
Period size: 8 Copynumber: 26.2 Consensus size: 8
9330860 TAAATTAAAC
9330870 ATAATTAA
1 ATAATTAA
9330878 ATAATTTAA
1 ATAA-TTAA
*
9330887 TATAATTAT
1 -ATAATTAA
* *
9330896 TTACTTTAA
1 ATA-ATTAA
9330905 TATAATTAA
1 -ATAATTAA
9330914 ATAATTAA
1 ATAATTAA
* **
9330922 AT-CTTTC
1 ATAATTAA
9330929 A-AATTAA
1 ATAATTAA
9330936 AT-ATTAA
1 ATAATTAA
*
9330943 ATTAACT-A
1 A-TAATTAA
* **
9330951 ATACTGTTT
1 ATAAT-TAA
9330960 ATAATTAA
1 ATAATTAA
*
9330968 ATATTTAA
1 ATAATTAA
* *
9330976 TTAA--AC
1 ATAATTAA
9330982 ATAATTAA
1 ATAATTAA
9330990 ATAATTAA
1 ATAATTAA
* **
9330998 AT-CTTTT
1 ATAATTAA
9331005 A-AATTAA
1 ATAATTAA
9331012 AT-ATTAA
1 ATAATTAA
*
9331019 ATTAACTAA
1 A-TAATTAA
* *
9331028 TATTATT-T
1 -ATAATTAA
9331036 ATAATTAA
1 ATAATTAA
*
9331044 ATATTTAA
1 ATAATTAA
* *
9331052 TTAA--AC
1 ATAATTAA
9331058 ATAATTAA
1 ATAATTAA
9331066 ATAATTAA
1 ATAATTAA
9331074 AT
1 AT
9331076 CTTTTAAATT
Statistics
Matches: 135, Mismatches: 43, Indels: 40
0.62 0.20 0.18
Matches are distributed among these distances:
6 8 0.06
7 31 0.23
8 62 0.46
9 27 0.20
10 7 0.05
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (8 bp):
ATAATTAA
Found at i:9330963 original size:54 final size:51
Alignment explanation
Indices: 9330905--9331121 Score: 132
Period size: 54 Copynumber: 4.2 Consensus size: 51
9330895 TTTACTTTAA
9330905 TATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTT
1 TATAATTAAATAATTAAAT-TTTCAAATTAAATATTAAA-TAACTAATACT-TT
* * * *
9330959 TATAATTAAAT-ATTTAA--TT-AAA-CATA-ATTAAATAATTAA-ATCTTT
1 TATAATTAAATAATTAAATTTTCAAATTAAATATTAAATAACTAATA-CTTT
** * ** **
9331004 TA-AATTAAAT-ATTAAATTAACTAATATTATTTATAATTAAATATTTAAT--TAAA
1 TATAATTAAATAATTAAATTTTC-AA-ATTA--AAT-ATTAAATAACTAATACT-TT
* *
9331057 CATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATAACTAATACTGTT
1 TATAATTAAATAATTAAAT-TTTCAAATTAAATATTAAATAACTAATACT-TT
9331110 TATAATTAAATA
1 TATAATTAAATA
9331122 TATAATTAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 37
0.68 0.12 0.20
Matches are distributed among these distances:
44 13 0.11
45 5 0.04
46 8 0.07
47 6 0.05
48 4 0.03
49 4 0.03
50 3 0.02
51 12 0.10
52 5 0.04
53 18 0.15
54 35 0.28
55 9 0.07
56 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (51 bp):
TATAATTAAATAATTAAATTTTCAAATTAAATATTAAATAACTAATACTTT
Found at i:9330986 original size:76 final size:76
Alignment explanation
Indices: 9330906--9331420 Score: 478
Period size: 76 Copynumber: 7.2 Consensus size: 76
9330896 TTACTTTAAT
*
9330906 ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAATA
1 ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTTATAATTAAATA
9330971 TTTAATTAAAC
66 TTTAATTAAAC
* *
9330982 ATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATTAACTAATATTATTTATAATTAAATA
1 ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTTATAATTAAATA
9331047 TTTAATTAAAC
66 TTTAATTAAAC
* *
9331058 ATAATTAAATAATTAAATCTTTTAAATTAAATATTAAA-TAACTAATACTGTTTATAATTAAATA
1 ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTTATAATTAAATA
*
9331122 TATAATTAAAC
66 TTTAATTAAAC
* * ** ** *
9331133 ATAGTTAAATAATTAAA--TAT--AATT--AT-TTACTTTAA-T-ATTTTAATTT-T-ATT-CAT
1 ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACT-ATTTATAATTAAAT
*
9331186 -TTAAATAT----
65 ATTTAAT-TAAAC
* *
9331194 --AATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTGATACTATTTATAATTAAATA
1 ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTTATAATTAAATA
*
9331257 TATAATTAAAC
66 TTTAATTAAAC
* * ** ** *
9331268 ATAGTTAAATAATTAAA--TAT--AATT--AT-TTACTTTAA-T-ATTTTAATTT-T-ATT-CAT
1 ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACT-ATTTATAATTAAAT
*
9331321 -TTAAATAT----
65 ATTTAAT-TAAAC
* *
9331329 --AATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTGATACTATTTATAATTAAATA
1 ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTTATAATTAAATA
9331392 TTTAATTAAAC
66 TTTAATTAAAC
9331403 ATAATTAAATAATTAAAT
1 ATAATTAAATAATTAAAT
9331421 ATAATTAAAT
Statistics
Matches: 351, Mismatches: 45, Indels: 86
0.73 0.09 0.18
Matches are distributed among these distances:
59 28 0.08
61 4 0.01
63 8 0.02
64 8 0.02
65 10 0.03
66 18 0.05
67 18 0.05
68 20 0.06
69 17 0.05
70 8 0.02
71 13 0.04
72 4 0.01
73 2 0.01
74 2 0.01
75 50 0.14
76 141 0.40
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (76 bp):
ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTTATAATTAAATA
TTTAATTAAAC
Found at i:9331272 original size:135 final size:135
Alignment explanation
Indices: 9331052--9331427 Score: 682
Period size: 135 Copynumber: 2.8 Consensus size: 135
9331042 AAATATTTAA
* * * * *
9331052 TTAAACATAATTAAATAATTAAATCTTTTAAATTAAATA-TTAAATAACTAATACTGTTTATAAT
1 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTGATACTATTTATAAT
9331116 TAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTTAATTTTA
66 TAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTTAATTTTA
9331181 TTCAT
131 TTCAT
9331186 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTGATACTATTTATAAT
1 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTGATACTATTTATAAT
9331251 TAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTTAATTTTA
66 TAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTTAATTTTA
9331316 TTCAT
131 TTCAT
9331321 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTGATACTATTTATAAT
1 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTGATACTATTTATAAT
* *
9331386 TAAATATTTAATTAAACATAATTAAATAATTAAATATAATTA
66 TAAATATATAATTAAACATAGTTAAATAATTAAATATAATTA
9331428 AATAATTAAA
Statistics
Matches: 234, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
134 37 0.16
135 197 0.84
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (135 bp):
TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTGATACTATTTATAAT
TAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTTAATTTTA
TTCAT
Found at i:9331414 original size:8 final size:8
Alignment explanation
Indices: 9331381--9331438 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
9331371 GATACTATTT
9331381 ATAATTAA
1 ATAATTAA
*
9331389 ATATTTAA
1 ATAATTAA
* *
9331397 TTAA--AC
1 ATAATTAA
9331403 ATAATTAA
1 ATAATTAA
9331411 ATAATTAAA
1 ATAATT-AA
9331420 TATAATTAA
1 -ATAATTAA
9331429 ATAATTAA
1 ATAATTAA
9331437 AT
1 AT
9331439 CTTTCAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
6 4 0.10
8 26 0.65
9 4 0.10
10 6 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATTAA
Found at i:9331417 original size:18 final size:18
Alignment explanation
Indices: 9331394--9331521 Score: 82
Period size: 18 Copynumber: 6.9 Consensus size: 18
9331384 ATTAAATATT
9331394 TAATTAAACATAATTAAA
1 TAATTAAACATAATTAAA
*
9331412 TAATTAAATATAATTAAA
1 TAATTAAACATAATTAAA
*
9331430 TAATTAAATCTTTCAAATTAAA
1 TAATTAAA-C-AT--AATTAAA
* *
9331452 T-ATTAAA-TTAACTAATA
1 TAATTAAACATAATTAA-A
** * * *
9331469 CTGTTTATAA-TTAAATATA
1 -TAATTA-AACATAATTAAA
9331488 TAATTAAACATAATTAAA
1 TAATTAAACATAATTAAA
*
9331506 TAATTAAATATAATTA
1 TAATTAAACATAATTA
9331522 TTTACTTTAA
Statistics
Matches: 88, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
16 5 0.06
17 3 0.03
18 53 0.60
19 4 0.05
20 9 0.10
21 6 0.07
22 8 0.09
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (18 bp):
TAATTAAACATAATTAAA
Found at i:9331419 original size:94 final size:94
Alignment explanation
Indices: 9331321--9331521 Score: 366
Period size: 94 Copynumber: 2.1 Consensus size: 94
9331311 TTTTATTCAT
* *
9331321 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTGATACTATTTATAAT
1 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTTATAAT
*
9331386 TAAATATTTAATTAAACATAATTAAATAA
66 TAAATATATAATTAAACATAATTAAATAA
*
9331415 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAAT
1 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTTATAAT
9331480 TAAATATATAATTAAACATAATTAAATAA
66 TAAATATATAATTAAACATAATTAAATAA
9331509 TTAAATATAATTA
1 TTAAATATAATTA
9331522 TTTACTTTAA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 103 1.00
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (94 bp):
TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTATTTATAAT
TAAATATATAATTAAACATAATTAAATAA
Found at i:9331481 original size:32 final size:31
Alignment explanation
Indices: 9331351--9331516 Score: 105
Period size: 32 Copynumber: 5.3 Consensus size: 31
9331341 AAATCTTTCA
* * *
9331351 AATTAAATATTTAATTAACTGATACTATTTAT
1 AATTAAATATTAAATTAACTAATAAT-TTTAT
* **
9331383 AATTAAATATTTAATTAA--ACATAATTAAAT
1 AATTAAATATTAAATTAACTA-ATAATTTTAT
*
9331413 AATTAAATA-T-AATTAAATAATTAAATCTTTCA-
1 AATTAAATATTAAATTAACTAA-T-AAT-TTT-AT
*
9331445 AATTAAATATTAAATTAACTAATACTGTTTAT
1 AATTAAATATTAAATTAACTAATAAT-TTTAT
**
9331477 AATTAAATA-TATAATTAA--ACATAATTAAAT
1 AATTAAATATTA-AATTAACTA-ATAATTTTAT
9331507 AATTAAATAT
1 AATTAAATAT
9331517 AATTATTTAC
Statistics
Matches: 109, Mismatches: 12, Indels: 27
0.74 0.08 0.18
Matches are distributed among these distances:
28 6 0.06
29 2 0.02
30 27 0.25
31 14 0.13
32 48 0.44
33 3 0.03
34 9 0.08
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (31 bp):
AATTAAATATTAAATTAACTAATAATTTTAT
Found at i:9334037 original size:13 final size:13
Alignment explanation
Indices: 9334021--9334046 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9334011 TTTTCCTCAG
9334021 ATTTTGGCTGATT
1 ATTTTGGCTGATT
9334034 ATTTTGGCTGATT
1 ATTTTGGCTGATT
9334047 TTGGTACGTA
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:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
ATTTTGGCTGATT
Found at i:9334212 original size:16 final size:16
Alignment explanation
Indices: 9334186--9334218 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9334176 TTTTTTGTTT
9334186 TTTTCTTTTAAATCTAA
1 TTTTCTTTTAAAT-TAA
9334203 TTTT-TTTTAAATTAA
1 TTTTCTTTTAAATTAA
9334218 T
1 T
9334219 CAAACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTCTTTTAAATTAA
Found at i:9335381 original size:42 final size:41
Alignment explanation
Indices: 9335309--9335548 Score: 288
Period size: 41 Copynumber: 5.9 Consensus size: 41
9335299 GCTTATGGGA
* * *
9335309 AAGCGCCGCTAAT--TCACACCTTTAGTGGCGCTTTTCTAAT
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTTTCT-AT
* * * *
9335349 AAGCGCCGCTAAAGACCTGACCTTTAGCGGCGCTTATTATAA
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTT-TTCTAT
* * * *
9335391 AAGCACCGCTAATGACAAGACCTCTAGCGGCGCATTT-TAT
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTTTCTAT
* *
9335431 AAGCGCCGCTAATGACAAGACCTTTAGCGGTGCTTTTCTAT
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTTTCTAT
* * *
9335472 AAGCGCCGCTAATAACCCGACCTTTAGCGGTGCTTTTCTAT
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTTTCTAT
*
9335513 AAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTT
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTT
9335549 GTGGAAAGCG
Statistics
Matches: 172, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
40 47 0.27
41 76 0.44
42 46 0.27
43 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (41 bp):
AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTTTCTAT
Found at i:9335558 original size:41 final size:41
Alignment explanation
Indices: 9335326--9335588 Score: 257
Period size: 41 Copynumber: 6.4 Consensus size: 41
9335316 GCTAATTCAC
* *
9335326 ACCTTTAGTGGCGCTTTTCTAATAAGCGCCGCTAAAGACCTG
1 ACCTTTAGCGGCGCTTTTC-AATAAGCGCCGCTAATGACCTG
* * **
9335368 ACCTTTAGCGGCGCTTATT-ATAAAAGCACCGCTAATGACAAG
1 ACCTTTAGCGGCGCTT-TTCA-ATAAGCGCCGCTAATGACCTG
* **
9335410 ACCTCTAGCGGCGCATTTT--ATAAGCGCCGCTAATGACAAG
1 ACCTTTAGCGGCGC-TTTTCAATAAGCGCCGCTAATGACCTG
* * * *
9335450 ACCTTTAGCGGTGCTTTTCTATAAGCGCCGCTAATAACCCG
1 ACCTTTAGCGGCGCTTTTCAATAAGCGCCGCTAATGACCTG
* *
9335491 ACCTTTAGCGGTGCTTTTCTATAAGCGCCGCTAATGACCTG
1 ACCTTTAGCGGCGCTTTTCAATAAGCGCCGCTAATGACCTG
** * * *
9335532 ACCTTTAGCGGCGCTTTGTGGA-AAGCGCCGCGAATG-CTTT
1 ACCTTTAGCGGCGCTTT-TCAATAAGCGCCGCTAATGACCTG
*
9335572 ACCTTTTGCGGCGCTTT
1 ACCTTTAGCGGCGCTTT
9335589 GTTTCCAAAC
Statistics
Matches: 192, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
39 4 0.02
40 49 0.26
41 87 0.45
42 48 0.25
43 4 0.02
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTTCAATAAGCGCCGCTAATGACCTG
Found at i:9335558 original size:82 final size:81
Alignment explanation
Indices: 9335291--9335562 Score: 309
Period size: 82 Copynumber: 3.3 Consensus size: 81
9335281 GTTAAATAAA
* * *
9335291 TTAGCGGCGCTTATGGGAAAGCGCCGCTAATTCAC-ACCTTTAGTGGCGCTTTTCTAATAAGCGC
1 TTAGCGGCGCTTATTGGAAAGCGCCGCTAATACACGACCTTTAGCGGCGCTTTTCT-ATAAGCGC
*
9335355 CGCTAAAGACCTGACCT
65 CGCTAATGACCTGACCT
** * * * *
9335372 TTAGCGGCGCTTATTATAAAAGCACCGCTAATGACAAGACCTCTAGCGGCGCATTT-TATAAGCG
1 TTAGCGGCGCTTATT-GGAAAGCGCCGCTAAT-ACACGACCTTTAGCGGCGCTTTTCTATAAGCG
**
9335436 CCGCTAATGACAAGACCT
64 CCGCTAATGACCTGACCT
* ** * *
9335454 TTAGCGGTGCTT-TTCTATAAGCGCCGCTAATAACCCGACCTTTAGCGGTGCTTTTCTATAAGCG
1 TTAGCGGCGCTTATTGGA-AAGCGCCGCTAAT-ACACGACCTTTAGCGGCGCTTTTCTATAAGCG
9335518 CCGCTAATGACCTGACCT
64 CCGCTAATGACCTGACCT
9335536 TTAGCGGCGCTT-TGTGGAAAGCGCCGC
1 TTAGCGGCGCTTAT-TGGAAAGCGCCGC
9335563 GAATGCTTTA
Statistics
Matches: 158, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
80 1 0.01
81 46 0.29
82 91 0.58
83 5 0.03
84 15 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TTAGCGGCGCTTATTGGAAAGCGCCGCTAATACACGACCTTTAGCGGCGCTTTTCTATAAGCGCC
GCTAATGACCTGACCT
Found at i:9335586 original size:40 final size:41
Alignment explanation
Indices: 9335291--9335590 Score: 156
Period size: 41 Copynumber: 7.4 Consensus size: 41
9335281 GTTAAATAAA
* *
9335291 TTAGCGGCGCTTATG-GGAAAGCGCCGCTAAT-TCAC--ACCT
1 TTAGCGGCGCTT-TGTGGAAAGCGCCGCGAATGAC-CTGACCT
* ** * *
9335330 TTAGTGGCGCTTT-TCTAATAAGCGCCGCTAAAGACCTGACCT
1 TTAGCGGCGCTTTGT-GGA-AAGCGCCGCGAATGACCTGACCT
** * * **
9335372 TTAGCGGCGCTTAT-TATAAAAGCACCGCTAATGACAAGACCT
1 TTAGCGGCGCTT-TGT-GGAAAGCGCCGCGAATGACCTGACCT
* * **
9335414 CTAGCGGCGCATTT-T--ATAAGCGCCGCTAATGACAAGACCT
1 TTAGCGGCGC-TTTGTGGA-AAGCGCCGCGAATGACCTGACCT
* ** * * *
9335454 TTAGCGGTGCTTT-TCTATAAGCGCCGCTAATAACCCGACCT
1 TTAGCGGCGCTTTGTGGA-AAGCGCCGCGAATGACCTGACCT
* ** *
9335495 TTAGCGGTGCTTT-TCTATAAGCGCCGCTAATGACCTGACCT
1 TTAGCGGCGCTTTGTGGA-AAGCGCCGCGAATGACCTGACCT
* *
9335536 TTAGCGGCGCTTTGTGGAAAGCGCCGCGAATG-CTTTACCT
1 TTAGCGGCGCTTTGTGGAAAGCGCCGCGAATGACCTGACCT
*
9335576 TTTGCGGCGCTTTGT
1 TTAGCGGCGCTTTGT
9335591 TTCCAAACGC
Statistics
Matches: 222, Mismatches: 27, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.00
39 17 0.08
40 63 0.28
41 87 0.39
42 47 0.21
43 7 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (41 bp):
TTAGCGGCGCTTTGTGGAAAGCGCCGCGAATGACCTGACCT
Found at i:9344285 original size:11 final size:11
Alignment explanation
Indices: 9344264--9344292 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9344254 TTTGTTAATT
9344264 TAGTT-CACTG
1 TAGTTGCACTG
9344274 TAGTTGCACTG
1 TAGTTGCACTG
9344285 TAGTTGCA
1 TAGTTGCA
9344293 TTTCCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (11 bp):
TAGTTGCACTG
Found at i:9344886 original size:13 final size:13
Alignment explanation
Indices: 9344864--9344902 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
9344854 TGTCAATGAG
9344864 GAAAAG-AAAAGA
1 GAAAAGAAAAAGA
*
9344876 AAAAGAGAAAAAGA
1 GAAA-AGAAAAAGA
9344890 GAAAAGAAAAAGA
1 GAAAAGAAAAAGA
9344903 AATATTGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 3 0.13
13 11 0.48
14 9 0.39
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAAAGA
Found at i:9348714 original size:8 final size:8
Alignment explanation
Indices: 9348697--9348727 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9348687 CAGAAAAGCT
*
9348697 AAAACTAG
1 AAAACAAG
9348705 AAAACAAG
1 AAAACAAG
9348713 AAAACAAG
1 AAAACAAG
9348721 AAAACAA
1 AAAACAA
9348728 TTAGAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.74, C:0.13, G:0.10, T:0.03
Consensus pattern (8 bp):
AAAACAAG
Found at i:9354522 original size:80 final size:80
Alignment explanation
Indices: 9354386--9354689 Score: 421
Period size: 80 Copynumber: 3.8 Consensus size: 80
9354376 CCGATAGCCA
* * **
9354386 TGGCACCTAGTGCTTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAATGA
1 TGGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
*
9354451 ATATCTGTCAAATCC
66 ATATCCGTCAAATCC
* * * * *
9354466 TGGCACCCAGTGCTTAGTGGATAAACCGCAAATGTGAGCCCAACTCTTGTTTGATTAACCAACAA
1 TGGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
*
9354531 ATATCCATCAAATCC
66 ATATCCGTCAAATCC
* *
9354546 TGGCACCCAGTGCCTAGCGGATAAACCACAAATGTGAGCCTAGCTCTAGTTGGATTAACCAACAA
1 TGGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
9354611 ATATCCGTCAAATCC
66 ATATCCGTCAAATCC
* ** * * * *
9354626 TGGCACCCAGTGCCTAGCGGTTAAA-CTTAAATGTGAGCCTAGCTCTAGTCGGTTTAACCGACAA
1 TGGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
9354690 CATAAATCAA
Statistics
Matches: 201, Mismatches: 23, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
79 34 0.17
80 167 0.83
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (80 bp):
TGGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
ATATCCGTCAAATCC
Found at i:9362187 original size:80 final size:79
Alignment explanation
Indices: 9362062--9362343 Score: 361
Period size: 80 Copynumber: 3.5 Consensus size: 79
9362052 CATGGCACAC
*
9362062 AGTGCCTAGCAGATAAA-TCGTAAATGTGAG-TGCAGCTCCAGTTGGATTAACCAACAAATATCC
1 AGTGCCTAGCAGATAAACT-GTAAATGTGAGCT-CAGCTCTAGTTGGATTAACCAACAAATATCC
9362125 GTCAAATCCTGGCAGCT
64 GTCAAATCCTGGCA-CT
* * * *
9362142 AGTGCCTAGCGGATAAACTGCAAATGTGAGCTTAGCTCTAGTTGGATTAACCAACAAATATCCTT
1 AGTGCCTAGCAGATAAACTGTAAATGTGAGCTCAGCTCTAGTTGGATTAACCAACAAATATCCGT
* *
9362207 CAACTCCTGCCACT
66 CAAATCCTGGCACT
* * * *
9362221 CAGTGCCTAGCGGATAAACCGTAAATGTGAGCTCAGCTCTAGTTAGATTATCCAACAAATATCCG
1 -AGTGCCTAGCAGATAAACTGTAAATGTGAGCTCAGCTCTAGTTGGATTAACCAACAAATATCCG
* *
9362286 TCAAATCCGGGCACCC
65 TCAAATCCTGGCA-CT
* * *
9362302 AGTGCCTAGCAGATAAACAGTAAATGTTAGCCCAGCTCTAGT
1 AGTGCCTAGCAGATAAACTGTAAATGTGAGCTCAGCTCTAGT
9362344 CTGTTAAACT
Statistics
Matches: 177, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.01
80 172 0.97
81 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (79 bp):
AGTGCCTAGCAGATAAACTGTAAATGTGAGCTCAGCTCTAGTTGGATTAACCAACAAATATCCGT
CAAATCCTGGCACT
Found at i:9368874 original size:30 final size:32
Alignment explanation
Indices: 9368830--9368888 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
9368820 TCATTTGAGA
* *
9368830 GAAAAGAACTAAAGAGAAAA-GAATTTTTTTT
1 GAAAAAAACTAAAGACAAAATGAATTTTTTTT
9368861 GAAAAAAAC-AAAGACAAAATGAATTTTT
1 GAAAAAAACTAAAGACAAAATGAATTTTT
9368889 GTCAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.25
Consensus pattern (32 bp):
GAAAAAAACTAAAGACAAAATGAATTTTTTTT
Found at i:9369452 original size:15 final size:14
Alignment explanation
Indices: 9369389--9369458 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
9369379 TAGCCTTTTC
*
9369389 TTTTTTTTTCATTTA
1 TTTTTATTT-ATTTA
*
9369404 -TTTTA-GTATTTAA
1 TTTTTATTTATTT-A
9369417 TTTTTATTTATTGT-
1 TTTTTATTTATT-TA
9369431 TTTTTATTTATTTA
1 TTTTTATTTATTTA
*
9369445 TTTGTTATTCATTT
1 TTT-TTATTTATTT
9369459 TTTATGCCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
12 4 0.09
13 3 0.07
14 24 0.53
15 13 0.29
16 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:9369462 original size:18 final size:19
Alignment explanation
Indices: 9369419--9369463 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
9369409 GTATTTAATT
* *
9369419 TTTATTTA-TTGTTTTTTA
1 TTTATTTATTTGTTATTCA
9369437 TTTATTTATTTGTTATTCA
1 TTTATTTATTTGTTATTCA
9369456 TTT-TTTAT
1 TTTATTTAT
9369464 GCCATTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTATTTATTTGTTATTCA
Found at i:9369751 original size:19 final size:18
Alignment explanation
Indices: 9369724--9369771 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
9369714 TTCATTTTGT
* *
9369724 TATTAATTGTATTTAATTG
1 TATTCATTGTATTT-ATTC
*
9369743 TATTCATTGAATTTATTC
1 TATTCATTGTATTTATTC
9369761 TATTCA-TGTAT
1 TATTCATTGTAT
9369772 GTTTTTAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 4 0.16
18 9 0.36
19 12 0.48
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.56
Consensus pattern (18 bp):
TATTCATTGTATTTATTC
Found at i:9373940 original size:20 final size:20
Alignment explanation
Indices: 9373893--9373948 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
9373883 ATCCTTAATT
9373893 AATGTTTGCTATTTTTTACC
1 AATGTTTGCTATTTTTTACC
**
9373913 AACATTTG-TCATTTTTTACC
1 AATGTTTGCT-ATTTTTTACC
*
9373933 AATGTTTGCGATTTTT
1 AATGTTTGCTATTTTT
9373949 GGCCATTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (20 bp):
AATGTTTGCTATTTTTTACC
Found at i:9374714 original size:100 final size:100
Alignment explanation
Indices: 9374536--9375076 Score: 608
Period size: 100 Copynumber: 5.5 Consensus size: 100
9374526 TAAATCAAAC
* * *
9374536 CCAAATCCTATACCCTTAAAGTTGTAAAAGAGCGGATTAAAACTAACAATAGCAGATCTCAATCT
1 CCAAATCCTATACCCCTAAAATTGTAAAAGGGCGGATTAAAACTAACAATAGCAGATCTCAATCT
*
9374601 CCACTGAAGTTGCAGTGGAATGGAGTGAAGCCACA
66 CCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACA
* * *
9374636 CCAATTCCTATACCCCTAAAATTGTAAAAGGGCAGATTAAAACTAACAATAGCATATCTCAATCT
1 CCAAATCCTATACCCCTAAAATTGTAAAAGGGCGGATTAAAACTAACAATAGCAGATCTCAATCT
* * * *
9374701 CCACTGAGGTTGCAGTAGAATGGAGTGAAGTCACA
66 CCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACA
* * * * * * *
9374736 CCAAATCTTATACCCTTAAAATTGT-AGAGGAGCGAATTAAAACTAACAATAGTAGATCTTAATT
1 CCAAATCCTATACCCCTAAAATTGTAAAAGG-GCGGATTAAAACTAACAATAGCAGATCTCAATC
* *
9374800 TCCACTAAAGTTGCAATGGAATGGACTGAAGCCACA
65 TCCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACA
* * * * *
9374836 CCAAATCCTATACCCCT-AAAGT-TATAA-GG-GGATTAAAACTAATAGTAGTAGATCTCAATCT
1 CCAAATCCTATACCCCTAAAATTGTAAAAGGGCGGATTAAAACTAACAATAGCAGATCTCAATCT
* * *
9374897 CCACTAAAGTTGTAGTGTAATAGAGTGAAGCCACA
66 CCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACA
** * * * * * * * * *
9374932 CCAAATTTTATACCCTTAAAGTTGT-AGAGGGTGGATTAAAATTAATAGTAGCAAATCTCAAACT
1 CCAAATCCTATACCCCTAAAATTGTAAAAGGGCGGATTAAAACTAACAATAGCAGATCTCAATCT
* * *
9374996 CCACTAAAGTTGCAATGGAACGGACTGAAGCCACA
66 CCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACA
* * * * *
9375031 CCAAATCCTATACACCTAAAGTTGCAGAGGGGCGGATTAAAACTAA
1 CCAAATCCTATACCCCTAAAATTGTAAAAGGGCGGATTAAAACTAA
9375077 TCGTAGTGGA
Statistics
Matches: 367, Mismatches: 67, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
96 71 0.19
97 5 0.01
98 5 0.01
99 86 0.23
100 200 0.54
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (100 bp):
CCAAATCCTATACCCCTAAAATTGTAAAAGGGCGGATTAAAACTAACAATAGCAGATCTCAATCT
CCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACA
Found at i:9375260 original size:17 final size:17
Alignment explanation
Indices: 9375238--9375272 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9375228 TCACACCAAA
9375238 TCCTATACCCCTGAAGT
1 TCCTATACCCCTGAAGT
9375255 TCCTATACCCCTGAAGT
1 TCCTATACCCCTGAAGT
9375272 T
1 T
9375273 GCAGTGGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.34, G:0.11, T:0.31
Consensus pattern (17 bp):
TCCTATACCCCTGAAGT
Found at i:9375674 original size:34 final size:34
Alignment explanation
Indices: 9375631--9375710 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
9375621 GCAGTTATAC
9375631 AAGCCCAATTTCGTTCAGGCCTATATTCTCATAA
1 AAGCCCAATTTCGTTCAGGCCTATATTCTCATAA
9375665 AAGCCCAATTTCGTTCAGGCCTATATTCTCATAA
1 AAGCCCAATTTCGTTCAGGCCTATATTCTCATAA
9375699 AAGCCCAATTTC
1 AAGCCCAATTTC
9375711 TATTTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (34 bp):
AAGCCCAATTTCGTTCAGGCCTATATTCTCATAA
Found at i:9377150 original size:19 final size:21
Alignment explanation
Indices: 9377128--9377231 Score: 65
Period size: 22 Copynumber: 4.9 Consensus size: 21
9377118 TAATTTAGCC
9377128 TTTTTTA-TTATTTTTA-TTA
1 TTTTTTATTTATTTTTATTTA
*
9377147 -TTTTCATTTATTTTAATATTTA
1 TTTTTTATTTATTTT--TATTTA
*
9377169 ATTTTTATTTATTTATTTATTTA
1 TTTTTTATTTA-TT-TTTATTTA
9377192 TTTTTCT-TTCT-TTCTTTATTTA
1 TTTTT-TATT-TATT-TTTATTTA
* * *
9377214 TTTGTAATTCATTTTTAT
1 TTTTTTATTTATTTTTAT
9377232 GCTATTCATA
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
18 5 0.07
19 7 0.10
21 7 0.10
22 21 0.31
23 21 0.31
24 4 0.06
25 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (21 bp):
TTTTTTATTTATTTTTATTTA
Found at i:9377181 original size:4 final size:4
Alignment explanation
Indices: 9377163--9377216 Score: 51
Period size: 4 Copynumber: 14.2 Consensus size: 4
9377153 TTTATTTTAA
* * * *
9377163 TATT TAAT T-TT TATT TATT TATT TATT TA-T T-TT TCTT TCTT TCTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
9377208 TATT TATT T
1 TATT TATT T
9377217 GTAATTCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
3 6 0.14
4 38 0.86
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:9377189 original size:23 final size:22
Alignment explanation
Indices: 9377129--9377213 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 22
9377119 AATTTAGCCT
9377129 TTTTTA-TTA-TTTTTA-TT-A
1 TTTTTATTTATTTTTTATTTAA
* *
9377147 TTTTCATTTATTTTAATATTTAA
1 TTTTTATTTATTTT-TTATTTAA
9377170 TTTTTATTTATTTATTTATTT-A
1 TTTTTATTTATTT-TTTATTTAA
* *
9377192 TTTTTCTTTCTTTCTTTATTTA
1 TTTTTATTTATTT-TTTATTTA
9377214 TTTGTAATTC
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.09
19 3 0.06
20 3 0.06
21 2 0.04
22 21 0.40
23 18 0.34
24 1 0.02
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTATTTATTTTTTATTTAA
Done.