Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 221 of 438
Found at i:68187759 original size:96 final size:96
Alignment explanation
Indices: 68187648--68187960 Score: 506
Period size: 96 Copynumber: 3.3 Consensus size: 96
68187638 TATTAAAATT
* *
68187648 TGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
68187713 TGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
68187744 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
68187809 TGTGATAAGGCCTAATGGTCGATGTGATGAA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
68187840 TGTGAAGGTGTATATATATGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
68187905 TGTGATAAGGCCGAGTGGCCAACGTGATGGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
68187936 TGTGGAA-GTGTATA-A-ATGTGATAAG
1 TGT-GAAGGTGTATATATATGTGATAAG
68187961 TCCCGAAGGG
Statistics
Matches: 205, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 10 0.05
95 1 0.00
96 191 0.93
97 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:68189870 original size:19 final size:18
Alignment explanation
Indices: 68189833--68189876 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
68189823 ATACATACAG
68189833 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
68189850 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
68189869 TACTAATT
1 TAATAATT
68189877 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:68194554 original size:26 final size:24
Alignment explanation
Indices: 68194525--68194594 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
68194515 ACATTGGACA
*
68194525 TGTGATATAACAATTCTCACATGAGT
1 TGTGA-AT-ACAATGCTCACATGAGT
**
68194551 TGTGAATGTAATGCTCACATGAGT
1 TGTGAATACAATGCTCACATGAGT
68194575 TGTGAATGTA-AATGCTCACA
1 TGTGAA--TACAATGCTCACA
68194595 CGAGCTATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
24 20 0.53
25 12 0.32
26 6 0.16
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (24 bp):
TGTGAATACAATGCTCACATGAGT
Found at i:68194568 original size:24 final size:25
Alignment explanation
Indices: 68194540--68194594 Score: 103
Period size: 24 Copynumber: 2.2 Consensus size: 25
68194530 TATAACAATT
68194540 CTCACATGAGTTGTGAATGT-AATG
1 CTCACATGAGTTGTGAATGTAAATG
68194564 CTCACATGAGTTGTGAATGTAAATG
1 CTCACATGAGTTGTGAATGTAAATG
68194589 CTCACA
1 CTCACA
68194595 CGAGCTATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (25 bp):
CTCACATGAGTTGTGAATGTAAATG
Found at i:68199690 original size:29 final size:29
Alignment explanation
Indices: 68199616--68199729 Score: 90
Period size: 29 Copynumber: 4.0 Consensus size: 29
68199606 AACACACATG
* *
68199616 CATATGGCCCACTAGGCCCAA-TC-TCATT
1 CATATAGCCCACTAAGCCCAATTCAT-ATT
* * * *
68199644 CATATGGTCCA-TCAGCCCAGTTCATATT
1 CATATAGCCCACTAAGCCCAATTCATATT
* * *
68199672 CTTATAGCCCACTAGGCCCAATTCACATT
1 CATATAGCCCACTAAGCCCAATTCATATT
* * *
68199701 CATATGGCCCATTAAGCCCAAATCATATT
1 CATATAGCCCACTAAGCCCAATTCATATT
68199730 ATACTCATGC
Statistics
Matches: 66, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
27 6 0.09
28 23 0.35
29 37 0.56
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (29 bp):
CATATAGCCCACTAAGCCCAATTCATATT
Found at i:68202464 original size:17 final size:17
Alignment explanation
Indices: 68202442--68202478 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
68202432 ATGCACTAAC
**
68202442 ATGAAAATGTAATGACA
1 ATGAAAATCCAATGACA
68202459 ATGAAAATCCAATGACA
1 ATGAAAATCCAATGACA
68202476 ATG
1 ATG
68202479 TATACTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (17 bp):
ATGAAAATCCAATGACA
Found at i:68202981 original size:18 final size:17
Alignment explanation
Indices: 68202929--68202982 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
68202919 TTCATTTCAG
*
68202929 CAACTTCTTCTTTAGCAA
1 CAACTTCTTC-TTAACAA
* *
68202947 CAACTTCTTCTACAACAT
1 CAACTTCTTCT-TAACAA
68202965 CAACTTCCTTCTTAACAA
1 CAACTT-CTTCTTAACAA
68202983 TAGTGTCCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.03
18 23 0.79
19 5 0.17
ACGTcount: A:0.31, C:0.31, G:0.02, T:0.35
Consensus pattern (17 bp):
CAACTTCTTCTTAACAA
Found at i:68205379 original size:8 final size:8
Alignment explanation
Indices: 68205351--68205382 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
68205341 CACTAGGGCA
68205351 ATTATGTG
1 ATTATGTG
68205359 -TTATGTG
1 ATTATGTG
68205366 -TTATGTG
1 ATTATGTG
68205373 ATTATGTG
1 ATTATGTG
68205381 AT
1 AT
68205383 CCGGGTGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.61
8 9 0.39
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (8 bp):
ATTATGTG
Found at i:68206274 original size:23 final size:22
Alignment explanation
Indices: 68206242--68206284 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
68206232 ATAATCCTTA
* *
68206242 CCAAATCATACTAAATCATAAG
1 CCAAATCATACCAAAACATAAG
68206264 CCAAAGTCATACCAAAACATA
1 CCAAA-TCATACCAAAACATA
68206285 TGTTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.51, C:0.26, G:0.05, T:0.19
Consensus pattern (22 bp):
CCAAATCATACCAAAACATAAG
Found at i:68208311 original size:40 final size:40
Alignment explanation
Indices: 68208245--68208388 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
68208235 AAATTGAATG
* ** *
68208245 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
* * ***
68208284 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
* * ** *
68208324 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCAAGAAACT
* *
68208364 CTATCCAGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
68208389 TTTGTGCACA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 16 0.19
40 70 0.81
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
Found at i:68208409 original size:40 final size:39
Alignment explanation
Indices: 68208282--68208411 Score: 143
Period size: 40 Copynumber: 3.3 Consensus size: 39
68208272 ATGCTGGAAA
* * *
68208282 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCAGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * * **
68208322 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCAGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
68208362 TTCTATCCAGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCAGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
68208402 TTATATCCAG
1 TTATATCCAG
68208412 TTATATTCCG
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 71 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TTATATCCAGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:68210300 original size:42 final size:43
Alignment explanation
Indices: 68210191--68210361 Score: 131
Period size: 43 Copynumber: 4.0 Consensus size: 43
68210181 AACTCATACA
* * *
68210191 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
68210234 ATGCCACTGTCCCATATAAGGTCTTACACGAAATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
68210276 ATGTCGA-TGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-T-G
1 ATG-CCACTGTCCCAGACATGGTCTTACACG-AAA--TCAAATATCG
* * **
68210320 ATTCCAAC-ATCCCAGATGTGGTCTTACACGAAAT-AACATATC
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAA-ATATC
68210362 AGAATCCTAT
Statistics
Matches: 103, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 27 0.26
43 41 0.40
44 24 0.23
45 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:68210311 original size:43 final size:44
Alignment explanation
Indices: 68210191--68210311 Score: 135
Period size: 43 Copynumber: 2.8 Consensus size: 44
68210181 AACTCATACA
* *
68210191 ATGCCAAC-GTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* * *
68210234 ATGCCACTGTCCCATATAAGGTCTTACACG-AAATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
*
68210276 ATGTCGA-TGTCCCAGACATGGTCTTACACGTAAATC
1 ATG-CCACTGTCCCAGACATGGTCTTACACGTAAATC
68210312 TCAAATTGAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 26 0.40
43 39 0.60
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:68215667 original size:22 final size:22
Alignment explanation
Indices: 68215642--68215685 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
68215632 TTGGAAGAGT
* *
68215642 ATGAAATTGATATGAGTTAGTA
1 ATGAAAATGATACGAGTTAGTA
68215664 ATGAAAATGATACGAGTTAGTA
1 ATGAAAATGATACGAGTTAGTA
68215686 CAGGTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.23, T:0.32
Consensus pattern (22 bp):
ATGAAAATGATACGAGTTAGTA
Found at i:68216548 original size:40 final size:39
Alignment explanation
Indices: 68216491--68216653 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 39
68216481 TGAATGATAC
* * *
68216491 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
* *
68216531 CTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * *
68216571 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* *
68216611 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
68216650 CCGG
1 CCGG
68216654 TTAAATCCTG
Statistics
Matches: 103, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.10
40 86 0.83
41 6 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:68223539 original size:40 final size:39
Alignment explanation
Indices: 68223484--68223646 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 39
68223474 TGAATGATAC
* * *
68223484 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
*
68223524 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * * *
68223564 CCGGGCTAAGACTCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* *
68223604 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
68223643 CCGG
1 CCGG
68223647 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.10
40 86 0.83
41 6 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:68228998 original size:10 final size:10
Alignment explanation
Indices: 68228983--68229011 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
68228973 GGACTTGTAT
68228983 AAACCAACAA
1 AAACCAACAA
68228993 AAACCAACAA
1 AAACCAACAA
68229003 AAACCAACA
1 AAACCAACA
68229012 TTTCATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (10 bp):
AAACCAACAA
Found at i:68229990 original size:31 final size:30
Alignment explanation
Indices: 68229925--68229994 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
68229915 ATTTGAAAAG
* * *
68229925 CCCTTA-TTGAGAACTTTTAAAAGGCTTGA
1 CCCTTATTTGAGAACTTTGAAAAGGATAGA
* *
68229954 TCCTTATTTGAGCACTTTCGAAAAGGATAGA
1 CCCTTATTTGAGAACTTT-GAAAAGGATAGA
68229985 CCCTTATTTG
1 CCCTTATTTG
68229995 TTCATTTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 5 0.15
30 10 0.30
31 18 0.55
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (30 bp):
CCCTTATTTGAGAACTTTGAAAAGGATAGA
Found at i:68230057 original size:33 final size:33
Alignment explanation
Indices: 68230019--68230086 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
68230009 TTTGGCCTTC
*
68230019 ATTTGAACACTTTTATTAATGTTAGGCCTTTAT
1 ATTTGAACACTTTTATAAATGTTAGGCCTTTAT
*
68230052 ATTTGAACACTTTTATAAATGTTAGGCTTTTAT
1 ATTTGAACACTTTTATAAATGTTAGGCCTTTAT
68230085 AT
1 AT
68230087 GACCATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (33 bp):
ATTTGAACACTTTTATAAATGTTAGGCCTTTAT
Found at i:68232210 original size:124 final size:122
Alignment explanation
Indices: 68231990--68232211 Score: 277
Period size: 124 Copynumber: 1.8 Consensus size: 122
68231980 GAATTATGTG
* * * * *
68231990 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATGCCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * **
68232055 TAAGTCCCGAAGGCGAATATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACGAATATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
68232112 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
68232176 GGCTAAGCCCCGAAGAC-AATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACGAA-TATGCTAGAAATTATA
68232212 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
122 16 0.19
123 2 0.02
124 62 0.75
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.32
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACGAATATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:68232255 original size:40 final size:40
Alignment explanation
Indices: 68232170--68232320 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
68232160 AATTGAATGA
* * * *
68232170 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
68232210 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
68232251 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
68232290 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
68232321 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:68232334 original size:40 final size:40
Alignment explanation
Indices: 68232207--68232336 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
68232197 ATGCTGGAAA
* * *
68232207 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
68232247 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
68232287 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
68232327 TTATATCCGG
1 TTATATCCGG
68232337 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:68232335 original size:80 final size:80
Alignment explanation
Indices: 68232169--68232336 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
68232159 AAATTGAATG
* *
68232169 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
68232234 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
68232249 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
68232312 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
68232329 ATATCCGG
1 ATATCCGG
68232337 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:68234400 original size:54 final size:54
Alignment explanation
Indices: 68234259--68234512 Score: 211
Period size: 54 Copynumber: 4.8 Consensus size: 54
68234249 ATTAGGGTTT
* * * *
68234259 AAGGATATCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGATT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAAG-TTCTATAAGGA
* * * * *
68234314 AAGGAAATCGTGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGA
* * * *
68234369 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-AGAA-GA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGA
* * * *
68234420 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTATG-T-T-TCA--A
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGA
* * * * *
68234470 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
68234513 GTACTATTGT
Statistics
Matches: 165, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
49 38 0.23
50 1 0.01
51 3 0.02
52 8 0.05
53 35 0.21
54 40 0.24
55 40 0.24
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGA
Found at i:68234581 original size:5 final size:5
Alignment explanation
Indices: 68234571--68234598 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
68234561 AGAGAATATC
68234571 AAGGT AAGGT AAGGT AAGGT AAGGT AAG
1 AAGGT AAGGT AAGGT AAGGT AAGGT AAG
68234599 ACGAGTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.18
Consensus pattern (5 bp):
AAGGT
Found at i:68234735 original size:16 final size:16
Alignment explanation
Indices: 68234714--68234744 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68234704 ATAAATTTGA
68234714 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
68234730 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
68234745 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:68238788 original size:25 final size:25
Alignment explanation
Indices: 68238760--68238807 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
68238750 AACAAATTTC
68238760 TCAAAAATTTATCGGGGTAAAATCG
1 TCAAAAATTTATCGGGGTAAAATCG
** * *
68238785 TCAAAGTTTTATTGGTGTAAAAT
1 TCAAAAATTTATCGGGGTAAAAT
68238808 TTGGATAAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (25 bp):
TCAAAAATTTATCGGGGTAAAATCG
Found at i:68249320 original size:23 final size:23
Alignment explanation
Indices: 68249293--68249343 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
68249283 GGCACAGCTT
68249293 AAGATACATGTAGAACGAGCAAG
1 AAGATACATGTAGAACGAGCAAG
68249316 AAGATACATGTAGAACGAGCAAG
1 AAGATACATGTAGAACGAGCAAG
68249339 AAGAT
1 AAGAT
68249344 GATATTCAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.49, C:0.12, G:0.25, T:0.14
Consensus pattern (23 bp):
AAGATACATGTAGAACGAGCAAG
Found at i:68253686 original size:27 final size:27
Alignment explanation
Indices: 68253656--68253809 Score: 155
Period size: 29 Copynumber: 5.5 Consensus size: 27
68253646 ATAGTGAATC
68253656 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * * **
68253683 CGCACACATAGTGCTATATAATAAAATT
1 CGCACACTTAGTGCTATAAAAT-CAGCT
68253711 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
68253738 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
68253767 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
68253796 TGCACACTTAGTGC
1 CGCACACTTAGTGC
68253810 CATTCTCGTC
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 39 0.37
28 26 0.25
29 40 0.38
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:68253727 original size:55 final size:55
Alignment explanation
Indices: 68253656--68253759 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
68253646 ATAGTGAATC
68253656 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATAAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATAAAATT
68253711 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
68253760 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATAAAATT
Found at i:68257340 original size:12 final size:12
Alignment explanation
Indices: 68257323--68257353 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
68257313 TTATGAAAAC
68257323 TACTTTTATTTT
1 TACTTTTATTTT
68257335 TACTTTTATTTT
1 TACTTTTATTTT
68257347 TA-TTTTA
1 TACTTTTA
68257354 GCAGATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (12 bp):
TACTTTTATTTT
Found at i:68259143 original size:40 final size:40
Alignment explanation
Indices: 68259069--68259253 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
68259059 AACCCAAGTA
* *
68259069 CCTTCGGGAT-TTAG-CCGGATATAG-CAATTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
68259108 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
* *
68259148 CCTTC-GGTACTTAGCCCGGATATAGTCAATAGCACAACTG
1 CCTTCGGGT-CTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
68259188 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCAC-CATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
*
68259227 CCTTCGGGACTTAGCCCGGATATAGTC
1 CCTTCGGGTCTTAGCCCGGATATAGTC
68259254 CGAATAATCA
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 43 0.33
40 82 0.64
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:68259201 original size:80 final size:80
Alignment explanation
Indices: 68259069--68259253 Score: 268
Period size: 80 Copynumber: 2.3 Consensus size: 80
68259059 AACCCAAGTA
* * * *
68259069 CCTTCGGGATTTAG-CCGGATATAG-CAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAATTAGCACAAATGCCTTCGGGACTTAGCCCAGATATA
68259132 GTCACTAGCACAAAAG
66 GTCACTAGCAC-AAAG
* *
68259148 CCTTCGGTACTTAGCCCGGATATAGTCAA-TAGCACAACTGCCTTCGGGACTTAGCCCAGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAATTAGCACAAATGCCTTCGGGACTTAGCCCAGATATA
* *
68259212 GTCACTAGCACCATG
66 GTCACTAGCACAAAG
68259227 CCTTCGGGACTTAGCCCGGATATAGTC
1 CCTTCGGGACTTAGCCCGGATATAGTC
68259254 CGAATAATCA
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 40 0.42
80 52 0.55
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATTAGCACAAATGCCTTCGGGACTTAGCCCAGATATA
GTCACTAGCACAAAG
Found at i:68267222 original size:40 final size:40
Alignment explanation
Indices: 68267070--68267215 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
68267060 TCGAATGATG
* * *
68267070 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
68267110 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68267150 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
68267191 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68267216 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68270863 original size:38 final size:39
Alignment explanation
Indices: 68270698--68270875 Score: 272
Period size: 39 Copynumber: 4.6 Consensus size: 39
68270688 AACCCAAGTA
* *
68270698 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAC-AATG
* *
68270737 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
*
68270776 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
68270815 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-ATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
68270853 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
68270876 CATCCGAATA
Statistics
Matches: 129, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
38 26 0.20
39 85 0.66
40 17 0.13
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
Found at i:68276464 original size:40 final size:38
Alignment explanation
Indices: 68276415--68276522 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
68276405 ATCACGATTT
*
68276415 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
68276455 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
68276495 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
68276523 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:68281657 original size:40 final size:40
Alignment explanation
Indices: 68281612--68281742 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
68281602 CGGAATATAA
68281612 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
68281652 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
68281692 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
68281732 CCGGATATAAT
1 CCGGATATAAT
68281743 TTCCTGCATA
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68281756 original size:40 final size:41
Alignment explanation
Indices: 68281628--68281779 Score: 145
Period size: 40 Copynumber: 3.8 Consensus size: 41
68281618 ATAATCACGT
* * *
68281628 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGT-CTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATGTCCTA
* *
68281668 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGT-A-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATGTC-CTA
* * *
68281708 GCGCAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCT-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATGTCCTA
* *
68281748 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
68281780 CATTCAATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 3 0.03
40 81 0.88
41 6 0.07
42 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.28
Consensus pattern (41 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATGTCCTA
Found at i:68286236 original size:40 final size:41
Alignment explanation
Indices: 68286183--68286293 Score: 133
Period size: 40 Copynumber: 2.8 Consensus size: 41
68286173 CTGGAAATTA
* * *
68286183 TATCAGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATAC
*
68286224 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
68286263 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC
68286294 ACGTGGTTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 57 0.90
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
Found at i:68287826 original size:40 final size:43
Alignment explanation
Indices: 68287780--68287872 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 43
68287770 TATTTGACAC
* *
68287780 AAGTGTGCGATTCAAAG-TAGCTTCGGCTATTTG-A-GGCACT
1 AAGTGTGCGATACAAAGATAGCTTCGGCTAATTGAATGGCACT
** *
68287820 AAGTGTGCGATACCGAGATAGCTTCGGTTAATTGAAATGGCACT
1 AAGTGTGCGATACAAAGATAGCTTCGGCTAATTG-AATGGCACT
68287864 AAGTGTGCG
1 AAGTGTGCG
68287873 GAATCATTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
40 14 0.32
41 14 0.32
43 1 0.02
44 15 0.34
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (43 bp):
AAGTGTGCGATACAAAGATAGCTTCGGCTAATTGAATGGCACT
Found at i:68290978 original size:19 final size:19
Alignment explanation
Indices: 68290956--68291013 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
68290946 TTGCACTTCA
*
68290956 GTGCCTCTGTTTGACTTTG
1 GTGCCTCTGTTTCACTTTG
* *
68290975 GTGCCTCTGTTACACTTCG
1 GTGCCTCTGTTTCACTTTG
*
68290994 GTGTCTCTGGTTTCACTTTG
1 GTGCCTCT-GTTTCACTTTG
68291014 ACGCCTCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.07, C:0.24, G:0.24, T:0.45
Consensus pattern (19 bp):
GTGCCTCTGTTTCACTTTG
Found at i:68294272 original size:39 final size:39
Alignment explanation
Indices: 68294158--68294328 Score: 220
Period size: 39 Copynumber: 4.3 Consensus size: 39
68294148 ACGACTAGCT
*
68294158 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAA-CCCGGATT-TAGTAACTCGCA
* * *
68294198 CGAATGCCTTCGAGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCG-GGCTTAACCCGGATTTAGTAACTCGCA
*
68294238 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
*
68294277 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
* *
68294316 CGAACGCCTTCGG
1 CAAATGCCTTCGG
68294329 ATCTTAGTCT
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 74 0.62
40 40 0.34
41 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
Found at i:68299913 original size:24 final size:24
Alignment explanation
Indices: 68299886--68299933 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
68299876 TCCTAAAATC
68299886 TCTCCATAATCCACTCCTTGATTT
1 TCTCCATAATCCACTCCTTGATTT
* *
68299910 TCTCCCTAATCCTCTCCTTGATTT
1 TCTCCATAATCCACTCCTTGATTT
68299934 CCTTCACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.35, G:0.04, T:0.44
Consensus pattern (24 bp):
TCTCCATAATCCACTCCTTGATTT
Found at i:68303514 original size:18 final size:18
Alignment explanation
Indices: 68303484--68303522 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
68303474 TTCGTGTGGA
68303484 GCCCACAAGCCCATTT-G
1 GCCCACAAGCCCATTTCG
68303501 GCCCACACAGCCCATTTCG
1 GCCCACA-AGCCCATTTCG
68303520 GCC
1 GCC
68303523 TATCGTGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.21, C:0.46, G:0.18, T:0.15
Consensus pattern (18 bp):
GCCCACAAGCCCATTTCG
Found at i:68305416 original size:22 final size:22
Alignment explanation
Indices: 68305385--68305429 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
68305375 ACATCAGCAT
*
68305385 CATATATGATTCCATGTAAGAC
1 CATATATGATTACATGTAAGAC
*
68305407 CATATTTGATTACATGTAAGAC
1 CATATATGATTACATGTAAGAC
68305429 C
1 C
68305430 TCGTCTGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (22 bp):
CATATATGATTACATGTAAGAC
Found at i:68309781 original size:27 final size:27
Alignment explanation
Indices: 68309765--68309818 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
68309755 AGCACCGACC
*
68309765 ATGGCTTATGCAATTAGAGCTCAAGAA
1 ATGGCTTATGCAATTAGAGCACAAGAA
* *
68309792 ATGGCTTATGCAATTAGATCTCAAGAA
1 ATGGCTTATGCAATTAGAGCACAAGAA
68309819 GACGCTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (27 bp):
ATGGCTTATGCAATTAGAGCACAAGAA
Found at i:68313982 original size:40 final size:40
Alignment explanation
Indices: 68313927--68314058 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
68313917 ATTTGATGTG
*
68313927 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAATTA
* *
68313967 TATCCGGGCTTAAAGACCCGCAAGCTATATGCTGGAATTA
1 TATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAATTA
* * ** *
68314007 TACCCAGACTT-AAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAATTA
*
68314046 TAACCGGACTTAA
1 TATCCGGACTTAA
68314059 GGTCCGTAGG
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 33 0.41
40 48 0.59
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (40 bp):
TATCCGGACTTAAAGACCCGCAGGCTATATGCTGGAATTA
Found at i:68314039 original size:39 final size:39
Alignment explanation
Indices: 68313944--68314071 Score: 166
Period size: 39 Copynumber: 3.3 Consensus size: 39
68313934 GCTTAAAGAC
* * **
68313944 CCGCAGGCTATATGCTGGAATTATATCCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
* * *
68313984 CCGCAAGCTATATGCTGGAATTATACCCAGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
68314023 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
68314062 CCGTAGGCTA
1 CCGCAGGCTA
68314072 CGCGCTGGAA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 47 0.61
40 30 0.39
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:68314079 original size:39 final size:39
Alignment explanation
Indices: 68313997--68314081 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
68313987 CAAGCTATAT
* * *
68313997 GCTGGAATTATACCCAGACTTAAGGTCCGCAGGCTATGT
1 GCTGGAATTATAACCAGACTTAAGGTCCGCAGGCTACGC
* *
68314036 GCTGGAATTATAACCGGACTTAAGGTCCGTAGGCTACGC
1 GCTGGAATTATAACCAGACTTAAGGTCCGCAGGCTACGC
68314075 GCTGGAA
1 GCTGGAA
68314082 ATATGTCCCG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
GCTGGAATTATAACCAGACTTAAGGTCCGCAGGCTACGC
Found at i:68320677 original size:39 final size:39
Alignment explanation
Indices: 68320631--68320728 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
68320621 GCTTAAAGAC
* *
68320631 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
*
68320670 CCGCAGGCTATGTGCTAGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
* *
68320709 CCGTAGGCTACGTGCTGGAA
1 CCGCAGGCTATGTGCTGGAA
68320729 ATATGTCCCG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
Found at i:68329046 original size:27 final size:26
Alignment explanation
Indices: 68329016--68329069 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
68329006 AATACCTTTA
* *
68329016 TAGGTGGAAAATTTACAAATTTACCCC
1 TAGGAGGAAAA-TTACAAATATACCCC
* *
68329043 TAGGAGTAAAATTACTAATATACCCC
1 TAGGAGGAAAATTACAAATATACCCC
68329069 T
1 T
68329070 CGGGTTAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (26 bp):
TAGGAGGAAAATTACAAATATACCCC
Found at i:68331713 original size:15 final size:15
Alignment explanation
Indices: 68331695--68331723 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
68331685 ATATTTATAA
68331695 AATTATTATTATTAT
1 AATTATTATTATTAT
68331710 AATTATTATTATTA
1 AATTATTATTATTA
68331724 GATAGGAAAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:68334669 original size:5 final size:6
Alignment explanation
Indices: 68334651--68334675 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
68334641 GGCCGCTCTA
68334651 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
68334676 GGGTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:68336903 original size:13 final size:13
Alignment explanation
Indices: 68336885--68336909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68336875 CTCGACAGGG
68336885 ACACGCCCGTGTC
1 ACACGCCCGTGTC
68336898 ACACGCCCGTGT
1 ACACGCCCGTGT
68336910 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.44, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTC
Found at i:68344474 original size:93 final size:93
Alignment explanation
Indices: 68344367--68344537 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
68344357 GCCCCTAAGT
* *
68344367 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68344432 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
68344460 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68344525 CGAGTTCGGATGC
66 CGAGTTCGGATGC
68344538 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:68344534 original size:46 final size:46
Alignment explanation
Indices: 68344362--68344534 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
68344352 AACCCGCCCC
* * *
68344362 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
68344408 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
68344456 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
68344501 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
68344535 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:68348347 original size:17 final size:18
Alignment explanation
Indices: 68348305--68348353 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
68348295 AGTTGAAAAG
68348305 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
68348324 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
68348341 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
68348354 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:68349242 original size:40 final size:39
Alignment explanation
Indices: 68349176--68349341 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
68349166 AAATTGAATG
* * *
68349176 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
68349215 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
68349254 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
68349294 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
68349334 ATATCCGG
1 ATATCCGG
68349342 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:68356323 original size:17 final size:18
Alignment explanation
Indices: 68356281--68356329 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
68356271 AGTTGAAAAG
68356281 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
68356300 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
68356317 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
68356330 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:68357216 original size:40 final size:39
Alignment explanation
Indices: 68357150--68357315 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
68357140 AAATTGAATG
* * *
68357150 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
68357189 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
68357228 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
68357268 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
68357308 ATATCCGG
1 ATATCCGG
68357316 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:68358897 original size:36 final size:38
Alignment explanation
Indices: 68358804--68359050 Score: 226
Period size: 40 Copynumber: 6.4 Consensus size: 38
68358794 ATGATGTCCG
* *
68358804 GGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGCTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTA-ATCC
68358843 GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCC
1 GG-CTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCC
68358882 -GCTAAGAT-CGAAGGCATTTGTGCGAGTTACTAATCC
1 GGCTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCC
*
68358918 GGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAATCC
1 -GGCTAAGATCCGAAGGCATTTGTGCGAGTTACT-AATCC
* *
68358956 GGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 -GGCTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCC
* **
68358996 GGGCTATG-TCCCGAAGGCATTTGAACGAG-TAGCTATATCC
1 -GGCTAAGAT-CCGAAGGCATTTGTGCGAGTTA-CTA-ATCC
*
68359036 GGTTAA-ATCCGAAGG
1 GGCTAAGATCCGAAGG
68359051 TACGTGATTC
Statistics
Matches: 183, Mismatches: 13, Indels: 25
0.83 0.06 0.11
Matches are distributed among these distances:
36 28 0.15
37 21 0.11
38 34 0.19
39 23 0.13
40 69 0.38
41 8 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (38 bp):
GGCTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCC
Found at i:68358987 original size:40 final size:40
Alignment explanation
Indices: 68358800--68359018 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
68358790 TCGAATGATG
* * *
68358800 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
68358840 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
68358879 TCC--GCTAAGAT--CGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
68358915 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68358953 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
68358994 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68359019 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 8, Indels: 20
0.85 0.04 0.11
Matches are distributed among these distances:
36 28 0.17
37 21 0.13
38 26 0.16
39 14 0.09
40 62 0.39
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68360970 original size:14 final size:14
Alignment explanation
Indices: 68360953--68360983 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
68360943 TGATTCTGCC
68360953 TACTATTGGTGGAA
1 TACTATTGGTGGAA
68360967 TACTATTGGTGGAA
1 TACTATTGGTGGAA
68360981 TAC
1 TAC
68360984 GACTTCTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (14 bp):
TACTATTGGTGGAA
Found at i:68367107 original size:79 final size:80
Alignment explanation
Indices: 68366905--68367125 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 80
68366895 TCGAATGATG
* * * *
68366905 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
68366969 TGTGCGAGTTACTAAA
65 GGTGCGAGTTACTAAA
*
68366985 T-C-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
68367045 TGGTGCGAGTTACTAAA
64 TGGTGCGAGTTACTAAA
* * * *
68367062 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
68367126 TGAACGAGTA
Statistics
Matches: 123, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
77 28 0.23
78 33 0.27
79 48 0.39
80 14 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:68367134 original size:40 final size:39
Alignment explanation
Indices: 68366906--68367127 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 39
68366896 CGAATGATGT
* * *
68366906 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
*
68366946 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
68366985 TC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
68367024 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68367062 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
68367103 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
68367128 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
38 35 0.22
39 37 0.23
40 78 0.49
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68367149 original size:79 final size:79
Alignment explanation
Indices: 68366912--68367160 Score: 278
Period size: 79 Copynumber: 3.2 Consensus size: 79
68366902 ATGTCCGGGC
* * *
68366912 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
**
68366975 AGTTACTAAAT-CGAC
64 AGTTACTAAATCCGGT
*
68366990 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
68367052 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * **
68367069 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
68367134 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
68367148 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
68367161 TACGTGATTC
Statistics
Matches: 147, Mismatches: 14, Indels: 19
0.82 0.08 0.11
Matches are distributed among these distances:
77 28 0.19
78 31 0.21
79 63 0.43
80 25 0.17
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:68370471 original size:119 final size:120
Alignment explanation
Indices: 68370238--68370504 Score: 367
Period size: 119 Copynumber: 2.2 Consensus size: 120
68370228 AGGTCTCGAC
* *
68370238 GATG-ATCCAGGATAAGCCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGATAAGTTTCGAAG
1 GATGTATCCGGGATAAGCCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGATAAGTTCCGAAG
* ***
68370302 AGCATTCGTGCTAGTGATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
66 AGCATTCGTGCTAGTGATATATCCGGGATAAACCCCGAAGAGCATTCGTGCTAGT
** *
68370357 GATGTATCCGGGATAAGTTCCG-AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
1 GATGTATCCGGGATAAGCCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGATAAGTTCCGAAG
* * *
68370421 AGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
66 AGCATTCGTGCTAGTGATATATCCGGGATAAACCCCGAAGAGCATTCGTGCTAGT
* * * * *
68370476 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGATAAGCCCCGAAGAGCA
68370505 ATCATGCTGG
Statistics
Matches: 129, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
119 109 0.84
120 20 0.16
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (120 bp):
GATGTATCCGGGATAAGCCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGATAAGTTCCGAAG
AGCATTCGTGCTAGTGATATATCCGGGATAAACCCCGAAGAGCATTCGTGCTAGT
Found at i:68370516 original size:40 final size:40
Alignment explanation
Indices: 68370238--68370504 Score: 367
Period size: 40 Copynumber: 6.7 Consensus size: 40
68370228 AGGTCTCGAC
* **
68370238 GATG-ATCCAGGATAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
*
68370277 GATGTATCCGGGATAAGTTTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
68370317 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
68370357 GATGTATCCGGGATAAGTTCCG-AGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
*
68370396 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
* * * *** *
68370436 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
* * * * *
68370476 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGATAAGTTCCGAAGAGCA
68370505 ATCATGCTGG
Statistics
Matches: 209, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 42 0.20
40 167 0.80
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
Found at i:68373998 original size:47 final size:47
Alignment explanation
Indices: 68373947--68374241 Score: 464
Period size: 47 Copynumber: 6.3 Consensus size: 47
68373937 ACAAGATATG
*
68373947 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
68373994 TATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
68374041 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* * * *
68374088 TATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGGAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
68374135 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* * * * *
68374182 TATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
68374229 TAAATGTGATAAG
1 TATATGTGATAAG
68374242 TCCCGAAGGG
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
Found at i:68381451 original size:46 final size:45
Alignment explanation
Indices: 68381384--68381553 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
68381374 AACCCGCCCC
* *
68381384 TAAGTGAACTAGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGTATCCA
* * *
68381430 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-TACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGTATCCA
* * * *
68381476 TCTCA-CGAACTCGG-CTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGTATCCA
68381522 T-AGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
68381554 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 10 0.10
45 21 0.20
46 56 0.54
47 11 0.11
48 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGTATCCA
Found at i:68381554 original size:91 final size:93
Alignment explanation
Indices: 68381389--68381557 Score: 279
Period size: 91 Copynumber: 1.8 Consensus size: 93
68381379 GCCCCTAAGT
* * *
68381389 GAACTAGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTAGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68381454 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
68381482 GAACTCGG-CTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTAGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68381545 CGAGTTCGGATGC
66 CGAGTTCGGATGC
68381558 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 35 0.49
92 29 0.41
93 7 0.10
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTAGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:68382009 original size:30 final size:30
Alignment explanation
Indices: 68381975--68382034 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
68381965 ATTTAATACG
68381975 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
68382005 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
68382035 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:68402278 original size:17 final size:17
Alignment explanation
Indices: 68402256--68402294 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
68402246 ATTCGGCTAT
68402256 AGAGGAAA-AGAAGAAG
1 AGAGGAAATAGAAGAAG
*
68402272 AAGAGGAAATAGATGAAG
1 -AGAGGAAATAGAAGAAG
68402290 AGAGG
1 AGAGG
68402295 TGTAACACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (17 bp):
AGAGGAAATAGAAGAAG
Found at i:68403698 original size:40 final size:40
Alignment explanation
Indices: 68403653--68403820 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
68403643 CGGAATATAA
* *
68403653 CCGGATATAACCA-TGTGCTCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
68403693 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
68403733 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
68403773 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
68403813 CCGGATAT
1 CCGGATAT
68403821 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 101 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68411675 original size:40 final size:40
Alignment explanation
Indices: 68411630--68411797 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
68411620 CGGAATATAA
*
68411630 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
68411670 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
68411710 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
68411750 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
68411790 CCGGATAT
1 CCGGATAT
68411798 CATTCAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68411780 original size:80 final size:80
Alignment explanation
Indices: 68411646--68411795 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
68411636 ATAACCATGT
* *
68411646 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
68411711 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
68411726 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
68411789 CCCGGAT
64 CCCGGAT
68411796 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:68416832 original size:19 final size:19
Alignment explanation
Indices: 68416796--68416834 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
68416786 TTTTCATCAT
* *
68416796 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
68416815 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
68416834 A
1 A
68416835 ATAATTAAAA
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:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:68417344 original size:28 final size:28
Alignment explanation
Indices: 68417296--68417386 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
68417286 GTGACAGAGT
*
68417296 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
68417325 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
*
68417353 CACCAGAACAAATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
68417381 CACCAG
1 CACCAG
68417387 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:68417538 original size:28 final size:28
Alignment explanation
Indices: 68417491--68417555 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
68417481 AAATTAACCC
*
68417491 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
68417519 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
68417547 TAGGGGTAT
1 TAGGGGTAT
68417556 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:68422064 original size:40 final size:39
Alignment explanation
Indices: 68421981--68422172 Score: 156
Period size: 40 Copynumber: 4.8 Consensus size: 39
68421971 TTGAATGATG
* * * * *
68421981 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
68422021 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
68422061 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* *
68422100 -CTCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TC-CGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
68422141 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
68422173 CTTTATATCC
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.01
39 32 0.25
40 85 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:68422126 original size:79 final size:81
Alignment explanation
Indices: 68421981--68422172 Score: 225
Period size: 79 Copynumber: 2.4 Consensus size: 81
68421971 TTGAATGATG
* * *
68421981 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
68422045 CGTGCGAGTTAATA-AA
65 CGTGCGAGTTAATATAA
* **
68422061 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA-CTCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATC-CGGACTAAGAT-CCGAAGGCAT
*
68422123 TCGTGCGAGTTACTATAA
64 TCGTGCGAGTTAATATAA
** *
68422141 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
68422173 CTTTATATCC
Statistics
Matches: 97, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
78 2 0.02
79 55 0.57
80 40 0.41
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:68422187 original size:79 final size:77
Alignment explanation
Indices: 68421981--68422198 Score: 208
Period size: 79 Copynumber: 2.7 Consensus size: 77
68421971 TTGAATGATG
* * * * *
68421981 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTTACTATATCCGG-TTAAG-TCCGAAGGCATT
68422045 CGTGCGAGTTAATAAA
62 CGTGCGAGTTAATAAA
* * *
68422061 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACTCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTTACTATA-TCCGGTTAAGT-CCGAAGGCATTCG
*
68422126 TGCGAGTTACTATAA
64 TGCGAGTTAATA-AA
** * *
68422141 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCT-TTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGT-TACTATATCCGGTT-AAGTCCGAAGG
68422199 TACGTGATTC
Statistics
Matches: 117, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 1 0.01
79 65 0.56
80 50 0.43
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTTACTATATCCGGTTAAGTCCGAAGGCATTCGTG
CGAGTTAATAAA
Found at i:68424878 original size:29 final size:29
Alignment explanation
Indices: 68424834--68424906 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
68424824 GTGACAAGAT
*
68424834 TGGCACTAAGTATGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
68424863 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
68424892 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
68424907 GAATTTAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:68424925 original size:29 final size:29
Alignment explanation
Indices: 68424893--68424965 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
68424883 TGAAAAGTAT
* * *
68424893 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
68424922 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
68424951 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
68424966 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:68429632 original size:208 final size:209
Alignment explanation
Indices: 68429267--68429683 Score: 728
Period size: 208 Copynumber: 2.0 Consensus size: 209
68429257 AGTATGTATG
* * *
68429267 CCCTGTTTTCAGACGACCTAAGACACGGGCGTGTCTGGAGCCGCGTGAGGCACACGGCCTATTCA
1 CCCTGCTTTCAGACGACCTAAGACAAGGGCATGTCTGGAGCCGCGTGAGGCACACGGCCTATTCA
* * *
68429332 CACGGGCGTGTGACCCTTGTATGTTTGAAATTTTTCTAAGTTTCCAAAATTATCGTATGATATCG
66 CACAGGCGTGTGACCCTTGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCA
68429397 GTTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTG
131 GTTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTG
68429462 ATTGTGTTGAATGA
196 ATTGTGTTGAATGA
* * * *
68429476 CCCTGCTTTCAGATGACCTGAGACAAGGGCATGTCTGGAGCCGTGTGAGGCATACGGCCTATTCA
1 CCCTGCTTTCAGACGACCTAAGACAAGGGCATGTCTGGAGCCGCGTGAGGCACACGGCCTATTCA
68429541 CACAGGCGTGTGACCC-TGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCA
66 CACAGGCGTGTGACCCTTGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCA
*
68429605 GTTTAGTCCTGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTG
131 GTTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTG
68429670 ATTGTGTTGAATGA
196 ATTGTGTTGAATGA
68429684 TTTATGAGAA
Statistics
Matches: 197, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
208 124 0.63
209 73 0.37
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (209 bp):
CCCTGCTTTCAGACGACCTAAGACAAGGGCATGTCTGGAGCCGCGTGAGGCACACGGCCTATTCA
CACAGGCGTGTGACCCTTGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCA
GTTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTG
ATTGTGTTGAATGA
Found at i:68437173 original size:26 final size:26
Alignment explanation
Indices: 68437137--68437246 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
68437127 CATGAAATTC
68437137 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
68437163 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
68437189 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
68437215 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
68437241 TTATCA
1 TTATCA
68437247 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:68439549 original size:40 final size:39
Alignment explanation
Indices: 68439477--68439562 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
68439467 TATATATATA
* *
68439477 TAGCCGAAGCTATCTCAAATTGCATACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCA-TTT
* * *
68439517 TAGCCGAAGCTATTTCGAATCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTT
68439556 TAGCCGA
1 TAGCCGA
68439563 TAAGTCGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTT
Found at i:68443546 original size:43 final size:43
Alignment explanation
Indices: 68443498--68443608 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
68443488 TCCTAGATAT
* * *
68443498 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCACACAG
1 GGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAACAG
* * *
68443541 GGTCTTACATGAAATCACA-ATACAATGCCAATGTCCCAAACAT
1 GGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAAACAG
68443584 GGTCTTACATGTAATCACATATCGA
1 GGTCTTACATGTAATCACATATCGA
68443609 GTCGAGTCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.03
43 54 0.93
44 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAACAG
Found at i:68443682 original size:50 final size:50
Alignment explanation
Indices: 68443620--68443738 Score: 159
Period size: 50 Copynumber: 2.4 Consensus size: 50
68443610 TCGAGTCATG
* *
68443620 TCCCAGACATGGTCTTACACTGACTCTCTTATAT-CGAGGCTGATGCCATA
1 TCCCAGACATGGTCTTACACTGACTCTCCTATATCCG-GGCCGATGCCATA
* * * * *
68443670 TCCCAGACATGGTCTTACACTGGCTCTCCTCTTTCCGTGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGACTCTCCTATATCCGGGCCGATGCCATA
68443720 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
68443739 TTAACACATA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 59 0.97
51 2 0.03
ACGTcount: A:0.20, C:0.32, G:0.18, T:0.29
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACACTGACTCTCCTATATCCGGGCCGATGCCATA
Found at i:68460413 original size:14 final size:14
Alignment explanation
Indices: 68460394--68460420 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
68460384 CACAATTGGT
68460394 AAAATTTTCATATC
1 AAAATTTTCATATC
68460408 AAAATTTTCATAT
1 AAAATTTTCATAT
68460421 AACCTTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTTTCATATC
Found at i:68467244 original size:40 final size:40
Alignment explanation
Indices: 68467199--68467328 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
68467189 CGGAATACAA
68467199 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
68467239 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
68467279 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
68467319 CCGGATATAA
1 CCGGATATAA
68467329 TTCCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:68467343 original size:40 final size:40
Alignment explanation
Indices: 68467222--68467371 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
68467212 CGTGCACGAA
* * *
68467222 TGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-GCACGAA-
1 TGCCTTCGGGTCTTAGCCCGGATATAAT-TCCCAGCAC-AAT
* *
68467262 TGCCTTCGGGTCTTAGCCCGGATGT-A-GCCACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATTCC-C-AGCACAAT
* *
68467302 TGCCTTCGGGTCTTAACCCGGATATAATTCCCAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATTCCCAGCACAAT
* * * *
68467342 TGTCTTCGGGGCTTAGCCCGGGTATCATTC
1 TGCCTTCGGGTCTTAGCCCGGATATAATTC
68467372 AATTTCTCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 3 0.03
40 82 0.90
41 2 0.02
42 2 0.02
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAATTCCCAGCACAAT
Found at i:68476103 original size:26 final size:26
Alignment explanation
Indices: 68476074--68476131 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
68476064 TGGTACAAAT
68476074 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
68476100 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
68476126 TGATAA
1 TGATAA
68476132 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:68481261 original size:40 final size:40
Alignment explanation
Indices: 68481216--68481382 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
68481206 CGGAATATAA
68481216 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
68481256 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
68481296 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
68481336 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
68481375 CCGGATAT
1 CCGGATAT
68481383 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68485002 original size:30 final size:30
Alignment explanation
Indices: 68484966--68485066 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
68484956 GACAAGATTG
* * *
68484966 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
68484996 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
68485024 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
68485053 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
68485067 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:68485078 original size:29 final size:28
Alignment explanation
Indices: 68484995--68485070 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
68484985 AAAATTGTAC
* *
68484995 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
68485023 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
68485052 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
68485071 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:68491633 original size:29 final size:28
Alignment explanation
Indices: 68491566--68491637 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
68491556 AAAATTGTAC
* * *
68491566 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
68491594 AGCACTAAGTGTGCGAG-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATAT
68491623 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68491638 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:68498883 original size:40 final size:40
Alignment explanation
Indices: 68498838--68499003 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
68498828 CGGAATATAA
68498838 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
68498878 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTA-C
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
68498917 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
68498957 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
68498996 CCGGATAT
1 CCGGATAT
68499004 TATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 46 0.43
40 60 0.57
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68498987 original size:79 final size:79
Alignment explanation
Indices: 68498854--68499003 Score: 189
Period size: 79 Copynumber: 1.9 Consensus size: 79
68498844 ATAATCACGT
*
68498854 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTA-CC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
68498918 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
68498933 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
68498996 CCGGATAT
64 CCGGATAT
68499004 TATTCAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
78 7 0.11
79 54 0.89
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:68500768 original size:40 final size:40
Alignment explanation
Indices: 68500714--68500906 Score: 280
Period size: 40 Copynumber: 4.8 Consensus size: 40
68500704 GGATGATAAT
* * *
68500714 TCCGGGCTATGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
68500753 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
68500794 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
68500834 TCCGGGCTAAGTCTCGAAGACATTTGTGCAAACTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
68500874 TCCGGGCTAAGTCCTGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
68500907 GGTTATATCC
Statistics
Matches: 137, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 136 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:68501619 original size:76 final size:76
Alignment explanation
Indices: 68501503--68501655 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
68501493 TATGTTGTTC
68501503 ATTGAGAGGTATGGAAACGTTTGGTAACGATTAGCCATTGGAATGGTTAATCATGATCATTTTGG
1 ATTGAGAGGTATGGAAACGTTTGGTAACGATTAGCCATTGGAATGGTTAATCATGATCATTTTGG
68501568 TGCTTTGTATG
66 TGCTTTGTATG
68501579 ATTGAGAGGTATGGAAACGTTTGGTAACGATTAGCCATTGGAATGGTTAATCATGATCATTTTGG
1 ATTGAGAGGTATGGAAACGTTTGGTAACGATTAGCCATTGGAATGGTTAATCATGATCATTTTGG
68501644 TGCTTTGTATG
66 TGCTTTGTATG
68501655 A
1 A
68501656 CAAATTCTAG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.37
Consensus pattern (76 bp):
ATTGAGAGGTATGGAAACGTTTGGTAACGATTAGCCATTGGAATGGTTAATCATGATCATTTTGG
TGCTTTGTATG
Found at i:68506903 original size:48 final size:49
Alignment explanation
Indices: 68506781--68506920 Score: 165
Period size: 50 Copynumber: 2.9 Consensus size: 49
68506771 GTGAGTAATG
* *
68506781 AGATCCCATATAAGACCATGTCTAGGACATGGCATTGGCATCAATATGT
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGT
* ***
68506830 AAGATCCCATGTAAGAGCATGTCTGGGACATGGCATTGGCATTGGTATGT
1 -AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGT
* * * * *
68506880 -GATCCTATGTAAGACCATATCTGGGATATGACCTTGGCATC
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
68506921 TTATTATGTG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
48 34 0.44
50 43 0.56
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (49 bp):
AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGT
Found at i:68510366 original size:46 final size:45
Alignment explanation
Indices: 68510316--68510475 Score: 153
Period size: 46 Copynumber: 3.4 Consensus size: 45
68510306 TGAATGTCCT
68510316 AGACATGTCTTACACTAGCTTACGTCTCGAGGCCGATGCATGTCTC
1 AGACATGTCTTACACTAGCTT-CGTCTCGAGGCCGATGCATGTCTC
* * * *
68510362 AGACATGTCTTACACTAGCACTCGTCTCAATGCCAATGCCATGT-TCC
1 AGACATGTCTTACACTAGC-TTCGTCTCGAGGCCGATG-CATGTCT-C
* * * * * *
68510409 AAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCC
1 AGACAT-GTCTTACACTAGCT-TCGT-CTCGAGGCCGATGCATGTCTC
68510456 AGACATGTCTTACACTAGCT
1 AGACATGTCTTACACTAGCT
68510476 CACACAAGTG
Statistics
Matches: 91, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
46 46 0.51
47 23 0.25
48 21 0.23
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
AGACATGTCTTACACTAGCTTCGTCTCGAGGCCGATGCATGTCTC
Found at i:68514758 original size:20 final size:20
Alignment explanation
Indices: 68514729--68514774 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
68514719 AGCACATGTA
* *
68514729 TTCATAAAATTTCAAAATTT
1 TTCATTAAATTTCAAAACTT
* *
68514749 TTCATTAAATTTTACAACTT
1 TTCATTAAATTTCAAAACTT
68514769 TTCATT
1 TTCATT
68514775 TTAGTCCCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
TTCATTAAATTTCAAAACTT
Found at i:68536464 original size:42 final size:42
Alignment explanation
Indices: 68536418--68536506 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
68536408 TATCCGACAT
* * *
68536418 ATGGCCTCGGTATG-TGATTGCGTATAAGACCATGTCGGGGAC
1 ATGGCCTCGATATGAT-ATTGCATATAAGACCATATCGGGGAC
* * * *
68536460 ATGGCGTCGATATGATATTTCATGTAAGACCATATCGGGGAT
1 ATGGCCTCGATATGATATTGCATATAAGACCATATCGGGGAC
68536502 ATGGC
1 ATGGC
68536507 GTTGAAACAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (42 bp):
ATGGCCTCGATATGATATTGCATATAAGACCATATCGGGGAC
Found at i:68536911 original size:31 final size:31
Alignment explanation
Indices: 68536873--68536948 Score: 152
Period size: 31 Copynumber: 2.5 Consensus size: 31
68536863 TCTTAAAGTG
68536873 TCACACGCCCGTGTAGATGGGCCGTGTGGAC
1 TCACACGCCCGTGTAGATGGGCCGTGTGGAC
68536904 TCACACGCCCGTGTAGATGGGCCGTGTGGAC
1 TCACACGCCCGTGTAGATGGGCCGTGTGGAC
68536935 TCACACGCCCGTGT
1 TCACACGCCCGTGT
68536949 GACTTGGGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.20
Consensus pattern (31 bp):
TCACACGCCCGTGTAGATGGGCCGTGTGGAC
Found at i:68536917 original size:18 final size:18
Alignment explanation
Indices: 68536894--68536949 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
68536884 TGTAGATGGG
68536894 CCGTGTGGACTCACACGC
1 CCGTGTGGACTCACACGC
* **
68536912 CCGTGTAGA-T---GGGC
1 CCGTGTGGACTCACACGC
68536926 -CGTGTGGACTCACACGC
1 CCGTGTGGACTCACACGC
68536943 CCGTGTG
1 CCGTGTG
68536950 ACTTGGGACA
Statistics
Matches: 27, Mismatches: 6, Indels: 10
0.63 0.14 0.23
Matches are distributed among these distances:
13 7 0.26
14 3 0.11
17 3 0.11
18 14 0.52
ACGTcount: A:0.14, C:0.32, G:0.34, T:0.20
Consensus pattern (18 bp):
CCGTGTGGACTCACACGC
Found at i:68549812 original size:49 final size:49
Alignment explanation
Indices: 68549747--68549875 Score: 172
Period size: 49 Copynumber: 2.6 Consensus size: 49
68549737 TGTTGTGTGT
*
68549747 CAGTGTAAGACCTGTCTGAGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGAGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * * *
68549796 CAGTGTAAGACTTGTCTGGGACATGGCATCAACCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGAGACATGGCATCGACCTCGATAGATGAAAGC
68549845 CAGTGTAAGACCTGTCT-AGGACATGGCATCG
1 CAGTGTAAGACCTGTCTGA-GACATGGCATCG
68549876 GCTTTAATGT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGAGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:68575167 original size:30 final size:30
Alignment explanation
Indices: 68575133--68575193 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
68575123 TCCTTAACTC
68575133 AAACTTTTGCAAAATTAAAATTTTGCCCCT
1 AAACTTTTGCAAAATTAAAATTTTGCCCCT
* * * *
68575163 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTAAAATTTTGCCCCT
68575193 A
1 A
68575194 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTAAAATTTTGCCCCT
Found at i:68576069 original size:5 final size:5
Alignment explanation
Indices: 68576043--68576130 Score: 58
Period size: 5 Copynumber: 16.8 Consensus size: 5
68576033 ATCCTCCTTT
*
68576043 TTTTA -TTTA TTCTTA TTTTTA TTTTA -TTTA TTTTA TTTTAA TTTTTC
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA
*
68576090 TTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
68576131 GAAAGACATA
Statistics
Matches: 67, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
3 3 0.04
4 8 0.12
5 30 0.45
6 16 0.24
7 10 0.15
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:68576069 original size:21 final size:20
Alignment explanation
Indices: 68576043--68576087 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
68576033 ATCCTCCTTT
*
68576043 TTTTATTTATTCTTATTTTTA
1 TTTTATTTATT-TTATTTTAA
68576064 TTTTATTTATTTTATTTTAA
1 TTTTATTTATTTTATTTTAA
68576084 TTTT
1 TTTT
68576088 TCTTTTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTATTTATTTTATTTTAA
Found at i:68576088 original size:21 final size:22
Alignment explanation
Indices: 68576042--68576088 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
68576032 AATCCTCCTT
*
68576042 TTTTTATTTATTCTTATTTTTA
1 TTTTTATTTATTCTTATTTTAA
68576064 -TTTTATTTATT-TTATTTTAA
1 TTTTTATTTATTCTTATTTTAA
68576084 TTTTT
1 TTTTT
68576089 CTTTTGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTATTTATTCTTATTTTAA
Found at i:68576100 original size:7 final size:6
Alignment explanation
Indices: 68576048--68576110 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
68576038 CCTTTTTTTA
* * * * *
68576048 TTTATT CTTATT TTTATT TTATTTAT TTTATT TTAATT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TT-TAT-T TTTATT TTTATT TTTATT TTTATT
*
68576098 TTTATT TTCATT T
1 TTTATT TTTATT T
68576111 CAATTTTATT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
6 37 0.84
7 4 0.09
8 3 0.07
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:68576110 original size:12 final size:11
Alignment explanation
Indices: 68576042--68576130 Score: 60
Period size: 12 Copynumber: 7.9 Consensus size: 11
68576032 AATCCTCCTT
68576042 TTTTTA-TTTA
1 TTTTTATTTTA
*
68576052 TTCTTATTTT-
1 TTTTTATTTTA
68576062 TATTTTA-TTTA
1 T-TTTTATTTTA
68576073 -TTTTATTTTAA
1 TTTTTATTTT-A
*
68576084 TTTTTCTTTTGA
1 TTTTTATTTT-A
68576096 TTTTTATTTTCA
1 TTTTTATTTT-A
**
68576108 TTTCAATTTTA
1 TTTTTATTTTA
68576119 TTATTTTATTTT
1 -T-TTTTATTTT
68576131 GAAAGACATA
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 5 0.08
10 12 0.20
11 9 0.15
12 28 0.46
13 7 0.11
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:68587020 original size:18 final size:18
Alignment explanation
Indices: 68586997--68587034 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
68586987 GTAGGTTTCC
*
68586997 AAAAATGGAAATGGAAAT
1 AAAAATGAAAATGGAAAT
68587015 AAAAATGAAAATGGAAAT
1 AAAAATGAAAATGGAAAT
68587033 AA
1 AA
68587035 TCTATTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (18 bp):
AAAAATGAAAATGGAAAT
Found at i:68588496 original size:38 final size:38
Alignment explanation
Indices: 68588453--68588529 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
68588443 CTTAAGTGGC
* *
68588453 ATCATTTTAGTGATGATAGCACTACATGATGCGTTTAT
1 ATCATTTTAGTGATGATAGCACTACATAATGCATTTAT
68588491 ATCATTTTAGTGATGATAGCACTACATAATGCATTTAT
1 ATCATTTTAGTGATGATAGCACTACATAATGCATTTAT
68588529 A
1 A
68588530 CTTATTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (38 bp):
ATCATTTTAGTGATGATAGCACTACATAATGCATTTAT
Found at i:68601451 original size:80 final size:80
Alignment explanation
Indices: 68601299--68601467 Score: 202
Period size: 80 Copynumber: 2.1 Consensus size: 80
68601289 TCGAATGATG
* *
68601299 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
**
68601364 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
68601379 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
*
68601442 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
68601459 TCC-GGTTAA
1 TCCGGGTTAA
68601468 ACTCCGAAGG
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
79 9 0.12
80 61 0.79
81 7 0.09
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:68601458 original size:40 final size:40
Alignment explanation
Indices: 68601300--68601444 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 40
68601290 CGAATGATGT
* * *
68601300 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
68601340 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
68601379 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
68601420 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
68601445 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.02
40 80 0.87
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:68609465 original size:40 final size:40
Alignment explanation
Indices: 68609382--68609527 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
68609372 TCGAATGATG
* * *
68609382 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
68609422 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
68609462 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
68609503 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68609528 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68609534 original size:80 final size:80
Alignment explanation
Indices: 68609382--68609550 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
68609372 TCGAATGATG
* * *
68609382 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTACTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
**
68609447 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
68609462 TCCGGGTTAAGTCCCGAAGGCATTTGTAC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTACTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
*
68609525 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
68609542 TCC-GGTTAA
1 TCCGGGTTAA
68609551 ACTCCAAAGG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
79 9 0.12
80 61 0.80
81 6 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTACTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Done.