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 386 of 438
Found at i:120428249 original size:26 final size:26
Alignment explanation
Indices: 120428219--120428300 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
120428209 TGAAATTCCC
120428219 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
120428245 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
120428271 ATCATGAAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
120428297 ATCA
1 ATCA
120428301 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:120429750 original size:9 final size:9
Alignment explanation
Indices: 120429738--120429798 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
120429728 GTTTGCTTTG
120429738 TTTT-TTTC
1 TTTTATTTC
120429746 TTTTTCATTTC
1 -TTTT-ATTTC
120429757 TTTTATTTC
1 TTTTATTTC
*
120429766 ATTTATTTC
1 TTTTATTTC
120429775 -TTTATTTC
1 TTTTATTTC
* * *
120429783 ATTTCTTTA
1 TTTTATTTC
120429792 TTTTATT
1 TTTTATT
120429799 ATTAAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.18
9 28 0.64
10 4 0.09
11 4 0.09
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTATTTC
Found at i:120429778 original size:17 final size:18
Alignment explanation
Indices: 120429752--120429798 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
120429742 TTTCTTTTTC
120429752 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
120429770 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
120429787 CTTTATTTTATT
1 ATTTCTTTTATT
120429799 ATTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:120429788 original size:13 final size:13
Alignment explanation
Indices: 120429752--120429794 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
120429742 TTTCTTTTTC
* *
120429752 ATTTCTTTTATTT
1 ATTTCATTTCTTT
120429765 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
120429778 ATTTCATTTCTTT
1 ATTTCATTTCTTT
120429791 ATTT
1 ATTT
120429795 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:120435524 original size:19 final size:19
Alignment explanation
Indices: 120435502--120435547 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
120435492 ATTACTTTCT
120435502 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
120435521 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
*
120435540 TGTGCATT
1 TTTGCATT
120435548 AAACTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:120440052 original size:64 final size:64
Alignment explanation
Indices: 120439971--120440098 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
120439961 TCATTTATGA
*
120439971 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTT-GACATAAGCAT
1 CACATCTAGTTAAGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTAG-CATAAGCAT
* *
120440035 CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGTATCCTAATTATTTAGCATAAGCAT
1 CACATCTAGTTAAGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTAGCATAAGCAT
120440099 AGATACATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 59 0.98
65 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAAGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTAGCATAAGCAT
Found at i:120440320 original size:88 final size:87
Alignment explanation
Indices: 120440228--120440547 Score: 430
Period size: 88 Copynumber: 3.7 Consensus size: 87
120440218 TCTCCTAAAT
* * * * *
120440228 AGTAGGGCAACAGGCTAAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATAGAGGA
1 AGTAGGGAAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
120440293 CGGTGAGCCTTAATCCCCTAAGC
66 CGGTGAGCCTT-ATCCCCTAAGC
* * *
120440316 AGTAGGGAAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCGGATTGAAGA
1 AGTAGGGAAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
*
120440381 CGGTGAGCCTTATCTTCCTAAGC
66 CGGTGAGCCTTATC-CCCTAAGC
* * * * * *
120440404 AATAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGCAGCGGATCGAAGA
1 AGTAGGGAAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
120440469 C--T-AGCCTTATCCCCTTAAGC
66 CGGTGAGCCTTATCCCC-TAAGC
* * *
120440489 AGTAGGGAAACGGGCTGAAAATTACAAATCATATCTCCCTAAGCAGTAGCGGAGCAGAT
1 AGTAGGGAAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
120440548 TGAAACGAAA
Statistics
Matches: 206, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
84 2 0.01
85 65 0.32
86 1 0.00
87 3 0.01
88 135 0.66
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (87 bp):
AGTAGGGAAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
CGGTGAGCCTTATCCCCTAAGC
Found at i:120440356 original size:44 final size:44
Alignment explanation
Indices: 120440177--120440537 Score: 170
Period size: 44 Copynumber: 8.3 Consensus size: 44
120440167 AGCCTTAACC
* * * *
120440177 CCCTAAGCAGTAGAGAAACAGGCTGAAGATTACAGATTTTATCT
1 CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCTTATCT
** * * *
120440221 -CCTAAATAGTAGGGCAACAGGCTAAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCTTATCT
* * * ** ***** **
120440264 CCTTAAGCAGTAGTGG-AGCA-GATAGAGGACGGTGAGCCTTAATC-
1 CCCTAAGCAGTAG-GGAAACAGGCT-GAAAATTACAAATCTT-ATCT
120440308 CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCTTATCT
* * * * ***** **
120440352 CCCTAAGCAATAGTGG-AGC-GGATTGAAGACGGTGAGCCTTATCT
1 CCCTAAGCAGTAG-GGAAACAGG-CTGAAAATTACAAATCTTATCT
* * * *
120440396 TCCTAAGCAATAGGGAAACAGGCTGGAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCTTATCT
* * * * * *
120440440 CCCTAAGCAGTAGTGCAGC-GGATCGAAGACTAGC----CTTATC-
1 CCCTAAGCAGTAGGGAAACAGGCT-GAAAATTA-CAAATCTTATCT
* *
120440480 CCCTTAAGCAGTAGGGAAACGGGCTGAAAATTACAAATCATATCT
1 CCC-TAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCTTATCT
120440525 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
120440538 CGGAGCAGAT
Statistics
Matches: 222, Mismatches: 75, Indels: 40
0.66 0.22 0.12
Matches are distributed among these distances:
40 4 0.02
41 25 0.11
42 3 0.01
43 50 0.23
44 125 0.56
45 15 0.07
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCTTATCT
Found at i:120440528 original size:173 final size:175
Alignment explanation
Indices: 120440230--120440551 Score: 488
Period size: 173 Copynumber: 1.8 Consensus size: 175
120440220 TCCTAAATAG
* * * *
120440230 TAGGGCAACAGGCTAAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATAGAGGACG
1 TAGGGAAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGCAGCAGATAGAAGAC-
*
120440295 GTGAGCCTTAATCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGC
65 GTGAGCCTTAATCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCATATCTCCCTAAGC
* *
120440360 AATAGTGGAGCGGATTGAAGACGGTGAGCCTTATCTTCCTAAGCAA
130 AATAGCGGAGCAGATTGAAGACGGTGAGCCTTATCTTCCTAAGCAA
** * *
120440406 TAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGCAGCGGATCGAAGAC-
1 TAGGGAAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGCAGCAGATAGAAGACG
*
120440470 T-AGCCTT-ATCCCCTTAAGCAGTAGGGAAACGGGCTGAAAATTACAAATCATATCTCCCTAAGC
66 TGAGCCTTAATCCCC-TAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCATATCTCCCTAAGC
*
120440533 AGTAGCGGAGCAGATTGAA
130 AATAGCGGAGCAGATTGAA
120440552 ACGAAAAGTT
Statistics
Matches: 132, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
172 6 0.05
173 69 0.52
174 1 0.01
176 56 0.42
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (175 bp):
TAGGGAAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGCAGCAGATAGAAGACG
TGAGCCTTAATCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAAATCATATCTCCCTAAGCA
ATAGCGGAGCAGATTGAAGACGGTGAGCCTTATCTTCCTAAGCAA
Found at i:120441965 original size:23 final size:23
Alignment explanation
Indices: 120441939--120441983 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
120441929 TAAAATTCTC
* *
120441939 TTTTATATTATATTGTTTTAAAA
1 TTTTAGATAATATTGTTTTAAAA
* *
120441962 TTTTGGATAATATTTTTTTAAA
1 TTTTAGATAATATTGTTTTAAA
120441984 TTACCTTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTTAGATAATATTGTTTTAAAA
Found at i:120442151 original size:21 final size:21
Alignment explanation
Indices: 120442125--120442167 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
120442115 ATATTTCTTT
120442125 TCAAATCTATTATGTATATAG
1 TCAAATCTATTATGTATATAG
120442146 TCAAATCTATTATGTATATAG
1 TCAAATCTATTATGTATATAG
120442167 T
1 T
120442168 TCATTCCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (21 bp):
TCAAATCTATTATGTATATAG
Found at i:120443600 original size:26 final size:24
Alignment explanation
Indices: 120443531--120443776 Score: 90
Period size: 26 Copynumber: 9.7 Consensus size: 24
120443521 ACTCTTTAAA
* * *
120443531 AATAATTTATAAACAATTCAAAAT
1 AATAATATATAAAAAATTTAAAAT
** * *
120443555 ATATAAGGTGTAAAAGAATTTCAAAT
1 A-ATAATATATAAAA-AATTTAAAAT
120443581 ACATAATATATGAAAAAA-TTAAAAT
1 A-ATAATATAT-AAAAAATTTAAAAT
*
120443606 AATAATGTATAAAAAA-TTAAAAT
1 AATAATATATAAAAAATTTAAAAT
* ** *
120443629 GAGTCGT-TATATAAAAACTTAAAAT
1 -AATAATATATA-AAAAATTTAAAAT
* * *
120443654 AGATAATA-A-CAAAAATATAAAAA
1 A-ATAATATATAAAAAATTTAAAAT
* *
120443677 AATAACATATAAAACATTTTAAACCA-
1 AATAATATATAAAA-AATTTAAA--AT
120443703 AATAATATATATATATACATATTTAAAAT
1 AATAATATATA-A-A-A-A-ATTTAAAAT
* ** *
120443732 AGATAAAATATATATGAATTTCAAAT
1 A-ATAATATATA-AAAAATTTAAAAT
120443758 AAATAATATATATAAAAAT
1 -AATAATATATA-AAAAAT
120443777 ATTTAATGAA
Statistics
Matches: 167, Mismatches: 35, Indels: 38
0.70 0.15 0.16
Matches are distributed among these distances:
22 5 0.03
23 29 0.17
24 21 0.13
25 32 0.19
26 49 0.29
27 8 0.05
28 2 0.01
29 4 0.02
30 17 0.10
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (24 bp):
AATAATATATAAAAAATTTAAAAT
Found at i:120451345 original size:46 final size:47
Alignment explanation
Indices: 120451285--120451504 Score: 153
Period size: 46 Copynumber: 4.9 Consensus size: 47
120451275 ATAAGGAGAC
*
120451285 CAAAATTCGAATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATTCAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
* *
120451332 CAAAATTCG-ATCTGCTTCACTCCTGCTCAGTGAAGATAAGA-TC-T
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
** * ** * *
120451376 -AGTATT-TAGCCTGCTCCACTCCTGCTCAGTGAAGATAAG--GC-T
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
* * * * * * *
120451418 GATAATTGGAATCTGCTCCA-TCGCCGGT-ACGTGGAGATAA-AGTTCAT
1 CAAAATTCGAATCTGCTCCACTC-CTGCTCA-GCGAAGATAAGA-TTCAT
*
120451465 CAAAATTCG-ATCTGCTCCACT-CTG-TCAGTGAAGATAAGAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGAT
120451505 CTGGTGTTTA
Statistics
Matches: 137, Mismatches: 24, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
42 2 0.01
43 39 0.28
44 33 0.24
45 6 0.04
46 40 0.29
47 17 0.12
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (47 bp):
CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
Found at i:120451540 original size:131 final size:132
Alignment explanation
Indices: 120451319--120451814 Score: 743
Period size: 131 Copynumber: 3.8 Consensus size: 132
120451309 TGCTCAGCGA
* *
120451319 AGATAAGATTCATCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTA
1 AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTG-TCAGTGAAGATAAGATCTAGTGTTTA
*
120451384 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGGAATCTGCTCCATCGCCGGTACG
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
120451449 TGG
130 TGG
*
120451452 AGATAA-AGTTCATCAAAATTCGATCTGCTCCACT-CTGTCAGTGAAGATAAGATCTGGTGTTTA
1 AGATAAGA-TTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTGTTTA
* * ** * * * *
120451515 CCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACA
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
120451580 TGG
130 TGG
* * * * * *
120451583 AGATAAG--T-GTCAAAATTTGATCTGCTTCACTCCTGTCAGTGAAGGTAAGATCTAGTCTATAG
1 AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTGTTTAG
*
120451645 -CTGTTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGT
66 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGT
120451709 GG
131 GG
*
120451711 AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTGGTGTTTAG
1 AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTGTTTAG
*
120451776 CCTGCTCCACTCCTGCTCAGTAAAGATAAGGCTGATGAT
66 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
120451815 ATCTGTAATC
Statistics
Matches: 319, Mismatches: 37, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
128 85 0.27
129 26 0.08
130 1 0.00
131 136 0.43
132 40 0.13
133 31 0.10
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (132 bp):
AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTGTTTAG
CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGT
GG
Found at i:120451662 original size:259 final size:262
Alignment explanation
Indices: 120451331--120451809 Score: 849
Period size: 259 Copynumber: 1.8 Consensus size: 262
120451321 ATAAGATTCA
*
120451331 TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACT
1 TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACT
120451396 CCTGCTCAGTGAAGATAAGGCTGATAATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAA-AG
66 CCTGCTCAGTGAAGATAAGGCTGATAATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGA-
120451460 TTCATCAAAATTCGATCTGCTCCACT-CTGTCAGTGAAGATAAGATCTGGTGTTTACCCTGCTCC
130 TTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTGGTGTTTACCCTGCTCC
*
120451524 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
195 ACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
120451589 GTG
260 GTG
* * * *
120451592 TCAAAATTTGATCTGCTTCACTCCTG-TCAGTGAAGGTAAGATCTAGTCTATAG-CTGTTCCACT
1 TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACT
*
120451655 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGAT
66 CCTGCTCAGTGAAGATAAGGCTGATAATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGAT
*
120451720 TCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTGGTGTTTAGCCTGCTCCA
131 TCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTGGTGTTTACCCTGCTCCA
120451785 CTCCTGCTCAGTAAAGATAAGGCTG
196 CTCCTGCTCAGTAAAGATAAGGCTG
120451810 ATGATATCTG
Statistics
Matches: 208, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
259 96 0.46
260 87 0.42
261 25 0.12
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (262 bp):
TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACT
CCTGCTCAGTGAAGATAAGGCTGATAATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGAT
TCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTGGTGTTTACCCTGCTCCA
CTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAG
TG
Found at i:120465485 original size:46 final size:47
Alignment explanation
Indices: 120465417--120465637 Score: 153
Period size: 46 Copynumber: 4.9 Consensus size: 47
120465407 ATAGGGAGAC
120465417 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
* *
120465464 CAAAATTCG-ATCTGCTTCACTCCTGCTCAGTGAAGATAAGA-TC-T
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
** * ** * *
120465508 -AGTATT-TAGCCTGCTCCACTCCTGCTCAGTGAAGATAAG--GC-T
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
* ** * * * * *
120465550 GATGATTGGAATCTGCTCCA-TCGCCGGT-ACGTGGAGATAA-AGTTCAT
1 CAAAATTCGAATCTGCTCCACTC-CTGCTCA-GCGAAGATAAGA-TTCAT
* *
120465597 CAAAATTCG-ATCTGCTCCACTCTTG-TCAGTGAAGATAAGAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGAT
120465638 CTGGTGTTTA
Statistics
Matches: 137, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
42 2 0.01
43 39 0.28
44 22 0.16
45 13 0.09
46 44 0.32
47 17 0.12
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (47 bp):
CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
Found at i:120465536 original size:43 final size:43
Alignment explanation
Indices: 120465428--120465678 Score: 156
Period size: 43 Copynumber: 5.7 Consensus size: 43
120465418 AAAATTCGAA
* * * *
120465428 TCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCATCA-AAATTCG
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGA-TC-T-AGTATTTAG
*
120465473 ATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
* * * *
120465517 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCT-GATGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAG-T-ATT-TAG
* * * * * * *
120465561 TCTGCTCCA-TCGCCGGT-ACGTGGAGATAAAGTTCATCA-AAATTCG
1 TCTGCTCCACTC-CTGCTCA-GTGAAGAT-AAGATC-T-AGTATTTAG
* * *
120465606 ATCTGCTCCACTCTTG-TCAGTGAAGATAAGATCTGGTGTTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
*
120465649 CCTGCTCCACTCCTGCTCAGTGAAGATAAG
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAG
120465679 GCTGGTGGCT
Statistics
Matches: 158, Mismatches: 31, Indels: 35
0.71 0.14 0.16
Matches are distributed among these distances:
41 1 0.01
42 16 0.10
43 53 0.34
44 29 0.18
45 13 0.08
46 43 0.27
47 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
Found at i:120465669 original size:132 final size:133
Alignment explanation
Indices: 120465451--120465707 Score: 410
Period size: 132 Copynumber: 1.9 Consensus size: 133
120465441 TGCTCAGCGA
*
120465451 AGATAAGATTCATCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTA
1 AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTA
* *
120465516 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
66 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATCGCCGGTACG
120465581 TGG
131 TGG
* * *
120465584 AGATAA-AGTTCATCAAAATTCGATCTGCTCCACTCTTG-TCAGTGAAGATAAGATCTGGTGTTT
1 AGATAAGA-TTCATCAAAATTCGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTT
* * *
120465647 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCG
65 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATCGCCG
120465708 ATAAGAACAA
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
132 80 0.70
133 34 0.30
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (133 bp):
AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTA
GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATCGCCGGTACG
TGG
Found at i:120472899 original size:24 final size:25
Alignment explanation
Indices: 120472872--120472927 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
120472862 AACCTGGTTT
*
120472872 TAAATATGTGATGACA-TTATCTT-A
1 TAAATATGTCATGA-ATTTATCTTGA
120472896 TAAATATG-CATGAATTTATCTTGA
1 TAAATATGTCATGAATTTATCTTGA
120472920 -AAATATGT
1 TAAATATGT
120472928 TGAATTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 1 0.04
23 18 0.64
24 9 0.32
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (25 bp):
TAAATATGTCATGAATTTATCTTGA
Found at i:120474059 original size:11 final size:11
Alignment explanation
Indices: 120474043--120474067 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
120474033 ACTATGTCTA
120474043 ATTCAAGTTTT
1 ATTCAAGTTTT
120474054 ATTCAAGTTTT
1 ATTCAAGTTTT
120474065 ATT
1 ATT
120474068 ATTAAGGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (11 bp):
ATTCAAGTTTT
Found at i:120481457 original size:43 final size:43
Alignment explanation
Indices: 120481392--120481559 Score: 232
Period size: 43 Copynumber: 4.0 Consensus size: 43
120481382 AATGTGACAT
* *
120481392 TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGATGATA
*
120481435 TCGGGCTTCGAGCCTAGGAGGCTATAATACCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGATGATA
* * **
120481478 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGCAAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGATGATA
* * *
120481521 TTGGGTTTCGAGCCTAGCAGGCGA-AATACCGGTGA-ATGA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGATGA
120481560 GTTCAGACTT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
41 4 0.04
42 8 0.07
43 98 0.89
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGATGATA
Found at i:120482151 original size:16 final size:18
Alignment explanation
Indices: 120482119--120482152 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
120482109 CAACTCGTCA
120482119 CACTATCTATCGTTTTGG
1 CACTATCTATCGTTTTGG
120482137 CACTAT-TAT-GTTTTGG
1 CACTATCTATCGTTTTGG
120482153 AATTCGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (18 bp):
CACTATCTATCGTTTTGG
Found at i:120483343 original size:21 final size:21
Alignment explanation
Indices: 120483317--120483358 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
120483307 AAAGAGATGA
120483317 AATTGTCAGCACTTATGTTGT
1 AATTGTCAGCACTTATGTTGT
*
120483338 AATTGTCGGCACTTATGTTGT
1 AATTGTCAGCACTTATGTTGT
120483359 TGACAAGACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (21 bp):
AATTGTCAGCACTTATGTTGT
Found at i:120493738 original size:2 final size:2
Alignment explanation
Indices: 120493731--120493759 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
120493721 CAAAAACTTT
120493731 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120493760 TATTTAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120494164 original size:20 final size:20
Alignment explanation
Indices: 120494139--120494180 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
120494129 AAAATATTAA
* * *
120494139 AAATAATTTTTATACTTTTT
1 AAATAAGTTTAATAATTTTT
120494159 AAATAAGTTTAATAATTTTT
1 AAATAAGTTTAATAATTTTT
120494179 AA
1 AA
120494181 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATAAGTTTAATAATTTTT
Found at i:120494199 original size:17 final size:17
Alignment explanation
Indices: 120494174--120494210 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
120494164 AGTTTAATAA
120494174 TTTTTAA-TTTTAAAAT
1 TTTTTAATTTTTAAAAT
120494190 TTTTTGAATTTTTAAAAT
1 TTTTT-AATTTTTAAAAT
120494208 TTT
1 TTT
120494211 AAAAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 2 0.11
18 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTTAATTTTTAAAAT
Found at i:120495553 original size:15 final size:15
Alignment explanation
Indices: 120495535--120495589 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
120495525 TAATCAATTT
120495535 CTAATTAATGATGGG
1 CTAATTAATGATGGG
*
120495550 CTAATT-AGGAATTAGGG
1 CTAATTAATG-A-T-GGG
120495567 CTAATGTAATGATGGG
1 CTAAT-TAATGATGGG
120495583 CTAATTA
1 CTAATTA
120495590 GGAATTAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 2 0.06
15 9 0.27
16 9 0.27
17 9 0.27
18 2 0.06
19 2 0.06
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (15 bp):
CTAATTAATGATGGG
Found at i:120495569 original size:17 final size:17
Alignment explanation
Indices: 120495547--120495604 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
120495537 AATTAATGAT
120495547 GGGCTAATTAGGAATTA
1 GGGCTAATTAGGAATTA
* *
120495564 GGGCTAA-T-GTAATGA
1 GGGCTAATTAGGAATTA
120495579 TGGGCTAATTAGGAATTA
1 -GGGCTAATTAGGAATTA
120495597 GGGCTAAT
1 GGGCTAAT
120495605 GTACCAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 5 0.15
16 8 0.24
17 16 0.47
18 5 0.15
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (17 bp):
GGGCTAATTAGGAATTA
Found at i:120495578 original size:33 final size:33
Alignment explanation
Indices: 120495535--120495607 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
120495525 TAATCAATTT
120495535 CTAAT-TAATGATGGGCTAATTAGGAATTAGGG
1 CTAATGTAATGATGGGCTAATTAGGAATTAGGG
120495567 CTAATGTAATGATGGGCTAATTAGGAATTAGGG
1 CTAATGTAATGATGGGCTAATTAGGAATTAGGG
120495600 CTAATGTA
1 CTAATGTA
120495608 CCAAAATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 5 0.12
33 35 0.88
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (33 bp):
CTAATGTAATGATGGGCTAATTAGGAATTAGGG
Found at i:120496778 original size:15 final size:15
Alignment explanation
Indices: 120496754--120496787 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
120496744 CTTCTATTAT
*
120496754 TATA-ATTGTGTGTA
1 TATATATTGTGTATA
120496768 TATATATTGTGTATA
1 TATATATTGTGTATA
120496783 TATAT
1 TATAT
120496788 TATATGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
TATATATTGTGTATA
Found at i:120496780 original size:13 final size:13
Alignment explanation
Indices: 120496762--120496788 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
120496752 ATTATAATTG
120496762 TGTGTATATATAT
1 TGTGTATATATAT
120496775 TGTGTATATATAT
1 TGTGTATATATAT
120496788 T
1 T
120496789 ATATGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (13 bp):
TGTGTATATATAT
Found at i:120497532 original size:9 final size:9
Alignment explanation
Indices: 120497518--120497547 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
120497508 TATTGGTATG
120497518 TTTTATATA
1 TTTTATATA
120497527 TTTTATATA
1 TTTTATATA
120497536 -TTTATATA
1 TTTTATATA
120497544 TTTT
1 TTTT
120497548 TTAAAATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATATA
Found at i:120499735 original size:93 final size:93
Alignment explanation
Indices: 120499628--120499798 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
120499618 GCCCCTAAGT
* *
120499628 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
120499693 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
120499721 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
120499786 CGAGTTCGGATGC
66 CGAGTTCGGATGC
120499799 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:120499795 original size:46 final size:46
Alignment explanation
Indices: 120499623--120499795 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
120499613 AACCCGCCCC
* * *
120499623 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
120499669 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
120499717 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
120499762 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
120499796 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 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 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:120501087 original size:37 final size:37
Alignment explanation
Indices: 120501037--120501111 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
120501027 TAAGAGGTGG
120501037 AATCGTTAAAATTGCATGAGTCTAATGATCACGAAGC
1 AATCGTTAAAATTGCATGAGTCTAATGATCACGAAGC
* *
120501074 AATCGTTAAAATTGCATGAGTCTAATTATCATGAAGC
1 AATCGTTAAAATTGCATGAGTCTAATGATCACGAAGC
120501111 A
1 A
120501112 CAACATTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (37 bp):
AATCGTTAAAATTGCATGAGTCTAATGATCACGAAGC
Found at i:120504121 original size:47 final size:47
Alignment explanation
Indices: 120504017--120504109 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
120504007 GGAAGTTGAA
* *
120504017 AATATCAAATGTCATGGCCTTGACCTGTTATCTCTTTTCAATACTTC
1 AATATCAAATGTCACGGCCTTGACCTGTTATCTCTCTTCAATACTTC
120504064 AATATCAAATGTCACGGCCTTGACCTGTTATCTCTCTTCAATACTT
1 AATATCAAATGTCACGGCCTTGACCTGTTATCTCTCTTCAATACTT
120504110 GAGCTAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.39
Consensus pattern (47 bp):
AATATCAAATGTCACGGCCTTGACCTGTTATCTCTCTTCAATACTTC
Found at i:120504439 original size:26 final size:28
Alignment explanation
Indices: 120504395--120504450 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 28
120504385 TAAAATACAT
120504395 AAAGTAAATATAAATTAAAAATTTTAAAG
1 AAAGTAAATAT-AATTAAAAATTTTAAAG
*
120504424 AAAGTAAATAT-A-TAAATATTTTAAAG
1 AAAGTAAATATAATTAAAAATTTTAAAG
120504450 A
1 A
120504451 TTTTTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 14 0.54
27 1 0.04
29 11 0.42
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (28 bp):
AAAGTAAATATAATTAAAAATTTTAAAG
Found at i:120505753 original size:24 final size:26
Alignment explanation
Indices: 120505726--120505780 Score: 60
Period size: 28 Copynumber: 2.1 Consensus size: 26
120505716 AACTAAAAGT
120505726 GTTTATCT-A-AATTTATATTAATTA
1 GTTTATCTAAGAATTTATATTAATTA
* *
120505750 GTTTCTTTAAAGGAATTTATATTAATTA
1 GTTTATCT-AA-GAATTTATATTAATTA
120505778 GTT
1 GTT
120505781 GACTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 6 0.24
26 1 0.04
28 18 0.72
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.53
Consensus pattern (26 bp):
GTTTATCTAAGAATTTATATTAATTA
Found at i:120521073 original size:2 final size:2
Alignment explanation
Indices: 120521066--120521094 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
120521056 ACTCGCCAAG
120521066 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
120521095 GATTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:120532600 original size:31 final size:31
Alignment explanation
Indices: 120532565--120532625 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
120532555 ATGGTTATTA
* * *
120532565 AATTATT-GTTTTTTATTTATTTTGGTCACTT
1 AATTATTAATTTTTT-TTTAATTTAGTCACTT
120532596 AATTATTAATTTTTTTTTAATTTAGTCACT
1 AATTATTAATTTTTTTTTAATTTAGTCACT
120532626 AAACTTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.62
Consensus pattern (31 bp):
AATTATTAATTTTTTTTTAATTTAGTCACTT
Found at i:120537370 original size:20 final size:21
Alignment explanation
Indices: 120537345--120537386 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
120537335 AATTTATCAA
120537345 TTTAAAAATATTT-TAACTTT
1 TTTAAAAATATTTATAACTTT
120537365 TTTAAAAATATTTATAACTTT
1 TTTAAAAATATTTATAACTTT
120537386 T
1 T
120537387 ACAAATCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAAAAATATTTATAACTTT
Found at i:120537559 original size:23 final size:23
Alignment explanation
Indices: 120537527--120537572 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
120537517 AAACTCGAAT
* *
120537527 TCAAACCACATGGGCAGTGAACA
1 TCAAACCACATGAGCAATGAACA
*
120537550 TCAAATCACATGAGCAATGAACA
1 TCAAACCACATGAGCAATGAACA
120537573 CCTTGACCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.15
Consensus pattern (23 bp):
TCAAACCACATGAGCAATGAACA
Found at i:120540067 original size:18 final size:18
Alignment explanation
Indices: 120539997--120540055 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
120539987 TGGTGATAAC
* * *
120539997 GAAGACGAACAGGAAGTG
1 GAAGACGAAGAAGAAGAG
120540015 GAAGAGCAGAACGAAGAAGAG
1 GAAGA-C-GAA-GAAGAAGAG
120540036 GAAGACGAAGAAGAAGAG
1 GAAGACGAAGAAGAAGAG
120540054 GA
1 GA
120540056 GGAGGAGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 16 0.46
19 4 0.11
20 4 0.11
21 11 0.31
ACGTcount: A:0.51, C:0.08, G:0.39, T:0.02
Consensus pattern (18 bp):
GAAGACGAAGAAGAAGAG
Found at i:120540481 original size:15 final size:15
Alignment explanation
Indices: 120540461--120540490 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
120540451 TAAGCCATCA
120540461 TTCCTCCTCTTCTTC
1 TTCCTCCTCTTCTTC
*
120540476 TTCCTCTTCTTCTTC
1 TTCCTCCTCTTCTTC
120540491 GTCGGTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (15 bp):
TTCCTCCTCTTCTTC
Found at i:120540482 original size:12 final size:12
Alignment explanation
Indices: 120540465--120540490 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
120540455 CCATCATTCC
120540465 TCCTCTTCTTCT
1 TCCTCTTCTTCT
120540477 TCCTCTTCTTCT
1 TCCTCTTCTTCT
120540489 TC
1 TC
120540491 GTCGGTAAAA
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:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (12 bp):
TCCTCTTCTTCT
Found at i:120544818 original size:21 final size:21
Alignment explanation
Indices: 120544752--120544827 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 21
120544742 TTTTTTAAAT
120544752 ATTTTTATAA-TTTATTA-GA
1 ATTTTTATAATTTTATTATGA
* *
120544771 ATATTATATAAGTTT-TTAT-A
1 AT-TTTTATAATTTTATTATGA
*
120544791 ATATTTATAATTTTATTATGA
1 ATTTTTATAATTTTATTATGA
120544812 ATTTTTACT-ATTTTAT
1 ATTTTTA-TAATTTTAT
120544828 AAGTTTATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
19 11 0.24
20 17 0.37
21 17 0.37
22 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (21 bp):
ATTTTTATAATTTTATTATGA
Found at i:120544831 original size:48 final size:49
Alignment explanation
Indices: 120544772--120544866 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 49
120544762 TTTATTAGAA
* *
120544772 TATTATATAAGTTTTTATAATA-TTT-ATAATTTTATTATGAATTTTTAC
1 TATTATATAAGTTTATATAAAATTTTAATAATTTTATT-TGAATTTTTAC
* * *
120544820 TATTTTATAAGTTTATATAAAATTTTAATATTTTTATTTTAATTTTT
1 TATTATATAAGTTTATATAAAATTTTAATAATTTTATTTGAATTTTT
120544867 TAAAATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
48 19 0.47
49 11 0.28
50 10 0.25
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (49 bp):
TATTATATAAGTTTATATAAAATTTTAATAATTTTATTTGAATTTTTAC
Found at i:120544845 original size:28 final size:29
Alignment explanation
Indices: 120544789--120544853 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
120544779 TAAGTTTTTA
* * *
120544789 TAATA-TTTATAATTTTATTATGAATTTT
1 TAATATTTTATAAGTTTATTATAAAATTT
*
120544817 TACTATTTTATAAGTTTA-TATAAAATTT
1 TAATATTTTATAAGTTTATTATAAAATTT
120544845 TAATATTTT
1 TAATATTTT
120544854 TATTTTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
TAATATTTTATAAGTTTATTATAAAATTT
Found at i:120544875 original size:50 final size:50
Alignment explanation
Indices: 120544744--120544875 Score: 114
Period size: 50 Copynumber: 2.7 Consensus size: 50
120544734 AGATTTTATT
* * * *
120544744 TTTTAAATATTTTTA---TAATTTATTAGAATATTATATAAGTTTTTATAATA
1 TTTT-AATATTTTTATTTTAATTTTTTA-AA-ATTTTATAAGTTTATATAAAA
* * **
120544794 -TTT-ATAATTTTATTATGAA-TTTTTACTATTTTATAAGTTTATATAAAA
1 TTTTAATATTTTTATT-TTAATTTTTTAAAATTTTATAAGTTTATATAAAA
120544842 TTTTAATATTTTTATTTTAATTTTTTAAAATTTT
1 TTTTAATATTTTTATTTTAATTTTTTAAAATTTT
120544876 TAATGTTATT
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
47 8 0.13
48 18 0.29
49 9 0.14
50 26 0.41
51 2 0.03
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (50 bp):
TTTTAATATTTTTATTTTAATTTTTTAAAATTTTATAAGTTTATATAAAA
Found at i:120545096 original size:29 final size:29
Alignment explanation
Indices: 120545061--120545126 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
120545051 TTAATGATAA
120545061 TGGCTCAATTAGGTGCAAATTTAGTGTAG
1 TGGCTCAATTAGGTGCAAATTTAGTGTAG
* *
120545090 -GAGCTCAATTGGGTGCAGATTTAGTGTAG
1 TG-GCTCAATTAGGTGCAAATTTAGTGTAG
120545119 TGGCTCAA
1 TGGCTCAA
120545127 GTGATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 1 0.03
29 31 0.94
30 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (29 bp):
TGGCTCAATTAGGTGCAAATTTAGTGTAG
Found at i:120546707 original size:20 final size:21
Alignment explanation
Indices: 120546669--120546710 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
120546659 AAAAAGTTGC
*
120546669 AGGTTAAATTTAGTAAAAAAA
1 AGGTTAAATTTAATAAAAAAA
120546690 AGGTTAAA-TTAATAAAAAAA
1 AGGTTAAATTTAATAAAAAAA
120546710 A
1 A
120546711 TATAAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (21 bp):
AGGTTAAATTTAATAAAAAAA
Found at i:120553889 original size:54 final size:54
Alignment explanation
Indices: 120553807--120553915 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
120553797 AAACCTTTAC
*
120553807 AGGGGGGTATAAAAGAAAGACAGTAAAATTGTATAATTAAAGTGTAATTATTAT
1 AGGGGGGTATAAAAGAAAGACAGTAAAATTGTATAATTAAAGTGTAATTACTAT
* *
120553861 AGGGGGGTATAAAGGAAAGACAGTAAAATTGTATAATTAAAGTGTGATTACTAT
1 AGGGGGGTATAAAAGAAAGACAGTAAAATTGTATAATTAAAGTGTAATTACTAT
120553915 A
1 A
120553916 TGAACATTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.28
Consensus pattern (54 bp):
AGGGGGGTATAAAAGAAAGACAGTAAAATTGTATAATTAAAGTGTAATTACTAT
Found at i:120556065 original size:11 final size:11
Alignment explanation
Indices: 120556044--120556072 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
120556034 GATTAATATG
120556044 AAAAG-AAAAA
1 AAAAGAAAAAA
120556054 AAAAGAAAAAA
1 AAAAGAAAAAA
120556065 AAAAGAAA
1 AAAAGAAA
120556073 TCGAGATTGA
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:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:120557133 original size:19 final size:19
Alignment explanation
Indices: 120557106--120557142 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
120557096 TTGAGAGAAA
120557106 AGTTAAAAATTTTAACTTT
1 AGTTAAAAATTTTAACTTT
*
120557125 AGTTCAAAATTTTAACTT
1 AGTTAAAAATTTTAACTT
120557143 ATCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (19 bp):
AGTTAAAAATTTTAACTTT
Found at i:120565152 original size:19 final size:19
Alignment explanation
Indices: 120565130--120565178 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
120565120 ATTATTTTAG
*
120565130 TCTTATTTTTTTATTTGTT
1 TCTTATTTTTATATTTGTT
* *
120565149 TCTTGTTTTAATATTTGTT
1 TCTTATTTTTATATTTGTT
120565168 T-TTATGTTTTA
1 TCTTAT-TTTTA
120565179 AATGTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.14, C:0.04, G:0.08, T:0.73
Consensus pattern (19 bp):
TCTTATTTTTATATTTGTT
Found at i:120565177 original size:20 final size:19
Alignment explanation
Indices: 120565141--120565179 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
120565131 CTTATTTTTT
120565141 TATTTGTTTCTTGTTTTAA
1 TATTTGTTTCTTGTTTTAA
*
120565160 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTCT-TGTTTTAA
120565180 ATGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (19 bp):
TATTTGTTTCTTGTTTTAA
Found at i:120566863 original size:2 final size:2
Alignment explanation
Indices: 120566856--120566885 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
120566846 GTGAATTCAA
120566856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120566886 TTATTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120567980 original size:14 final size:14
Alignment explanation
Indices: 120567939--120567994 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
120567929 ATATAGTGAC
120567939 TAAAAATAATTAAA
1 TAAAAATAATTAAA
* * *
120567953 TTAGAGT-ATATAAA
1 TAAAAATAAT-TAAA
120567967 TAAAAATAATTAAA
1 TAAAAATAATTAAA
120567981 TTAAAATATAATTA
1 -TAAAA-ATAATTA
120567995 CACAATATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
13 2 0.06
14 16 0.50
15 7 0.22
16 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (14 bp):
TAAAAATAATTAAA
Found at i:120574972 original size:22 final size:23
Alignment explanation
Indices: 120574937--120574983 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
120574927 TAGCTAAGCA
120574937 TTATTTAAACAAAA-ACTCATAT
1 TTATTTAAACAAAATACTCATAT
** *
120574959 TTATTTAATTAAAATATTCATAT
1 TTATTTAAACAAAATACTCATAT
120574982 TT
1 TT
120574984 TTATTCTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATTTAAACAAAATACTCATAT
Found at i:120575409 original size:15 final size:15
Alignment explanation
Indices: 120575352--120575409 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
120575342 CTTTATACTA
*
120575352 TAAAACATTTATTAT
1 TAAAATATTTATTAT
* *
120575367 TAATATATTTATAATTT
1 TAAAATATTTAT--TAT
120575384 TAACGAATATTTATTAT
1 TAA--AATATTTATTAT
120575401 TAAAATATT
1 TAAAATATT
120575410 AGTATTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.47
17 10 0.29
19 8 0.24
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (15 bp):
TAAAATATTTATTAT
Found at i:120575510 original size:16 final size:16
Alignment explanation
Indices: 120575491--120575525 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
120575481 TAAAACATTA
*
120575491 AATAATTTATTAAAAT
1 AATAAATTATTAAAAT
*
120575507 AATAAATTATTAATAT
1 AATAAATTATTAAAAT
120575523 AAT
1 AAT
120575526 TTATTATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAATTATTAAAAT
Found at i:120575531 original size:16 final size:15
Alignment explanation
Indices: 120575487--120575532 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
120575477 AAATTAAAAC
120575487 ATTAAATAATTTATT
1 ATTAAATAATTTATT
**
120575502 A--AAATAATAAATT
1 ATTAAATAATTTATT
120575515 ATTAATATAATTTATT
1 ATTAA-ATAATTTATT
120575531 AT
1 AT
120575533 ATGATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
13 11 0.46
15 3 0.12
16 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAAATAATTTATT
Found at i:120580223 original size:9 final size:9
Alignment explanation
Indices: 120580209--120580238 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
120580199 CCCCTTGATA
120580209 TTTAAATAT
1 TTTAAATAT
120580218 TTTAAATAT
1 TTTAAATAT
120580227 TTTAAATAT
1 TTTAAATAT
120580236 TTT
1 TTT
120580239 TGTGTGATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAAATAT
Found at i:120583165 original size:43 final size:42
Alignment explanation
Indices: 120583115--120583216 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
120583105 TCCCGAACGT
* * ** *
120583115 GGTCTTACATGTAATTCA-ATATCGATGCCTCTGTCCCAGATAG
1 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCCAGACAG
*
120583158 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAG
*
120583200 GGTCTTATACGTAAATC
1 GGTCTTACACG-AAATC
120583217 TCAATCGAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.62
43 19 0.38
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAG
Found at i:120583194 original size:42 final size:43
Alignment explanation
Indices: 120583115--120583252 Score: 122
Period size: 43 Copynumber: 3.2 Consensus size: 43
120583105 TCCCGAACGT
* * ** *
120583115 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGATAG
1 GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
*
120583158 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCA-ATATCGATGCCGATGTCCCAGACAG
* * * * *
120583200 GGTCTTATACGTAAATCTCA-ATCGAGGCTTG-TGTCCCAGACAC
1 GGTCTTACACGTAAATC-AATATCGATGC-CGATGTCCCAGACAG
120583243 GGTCTTACAC
1 GGTCTTACAC
120583253 AATGTCTCAG
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
42 33 0.42
43 44 0.56
44 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
Found at i:120590008 original size:46 final size:46
Alignment explanation
Indices: 120589600--120590001 Score: 518
Period size: 46 Copynumber: 8.7 Consensus size: 46
120589590 TTATCTTCGA
* * * * *
120589600 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
* ***
120589646 CATGTTGCCATGGTATCTTTCAACCATTGTCTTATTCATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
120589692 CATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
** * * ** *
120589738 CACATTGTCATGATATCTTTCAACTGTGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
120589784 CATGTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * **
120589830 CACGCTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
120589876 CATGTTGCCATGGTATCTTTTAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* ** *
120589922 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
120589968 CATATTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
120590002 CACATTTTAT
Statistics
Matches: 309, Mismatches: 46, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
45 4 0.01
46 305 0.99
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:120595534 original size:22 final size:22
Alignment explanation
Indices: 120595490--120595534 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
120595480 CATTAGACAT
**
120595490 AGAAGAGTTATTACAAATGCCA
1 AGAAGAGTTATTACAAACACCA
*
120595512 AGAAGAGTTATTACAAGCACCA
1 AGAAGAGTTATTACAAACACCA
120595534 A
1 A
120595535 ATATCCCCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.20
Consensus pattern (22 bp):
AGAAGAGTTATTACAAACACCA
Found at i:120603552 original size:12 final size:12
Alignment explanation
Indices: 120603535--120603559 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
120603525 TGCCGACTAT
120603535 GTTACTGTTACC
1 GTTACTGTTACC
120603547 GTTACTGTTACC
1 GTTACTGTTACC
120603559 G
1 G
120603560 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:120603667 original size:53 final size:53
Alignment explanation
Indices: 120603598--120603710 Score: 165
Period size: 53 Copynumber: 2.1 Consensus size: 53
120603588 TACTGTTACC
* *
120603598 GTTACTGTTACTGTTTC-GAATTTGTTCCGATGAGGTACTTTGTGTACCGTACT
1 GTTACTGTTACCGTTTCAG-ATTTGTTCCGATGAGGTACTCTGTGTACCGTACT
* *
120603651 GTTATTGTTACCGTTTCAGATTTGTTCTGATGAGGTACTCTGTGTACCGTACT
1 GTTACTGTTACCGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTACT
*
120603704 GCTACTG
1 GTTACTG
120603711 CTGCTTCAGC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 52 0.98
54 1 0.02
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (53 bp):
GTTACTGTTACCGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTACT
Found at i:120603933 original size:18 final size:18
Alignment explanation
Indices: 120603902--120603973 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
120603892 ACCGATCAAT
* *
120603902 TGATTGATACTGAATAAC
1 TGATTGTTATTGAATAAC
* *
120603920 TGATTATTATTGAA-AATT
1 TGATTGTTATTGAATAA-C
**
120603938 TGATTGTTACCGAATAAC
1 TGATTGTTATTGAATAAC
*
120603956 TGACTGTTATCTGAATAA
1 TGATTGTTAT-TGAATAA
120603974 ATAATTATTC
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
17 2 0.05
18 30 0.75
19 8 0.20
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (18 bp):
TGATTGTTATTGAATAAC
Found at i:120604033 original size:28 final size:27
Alignment explanation
Indices: 120603979--120604033 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
120603969 AATAAATAAT
* *
120603979 TATTCTGATTGACTGATTGTTAATGAA
1 TATTCTGATTGACTAATTGCTAATGAA
* *
120604006 TATTACTGATTGATTAATTGCTATTGAA
1 TATT-CTGATTGACTAATTGCTAATGAA
120604034 AAATAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (27 bp):
TATTCTGATTGACTAATTGCTAATGAA
Found at i:120608503 original size:96 final size:96
Alignment explanation
Indices: 120608381--120608558 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 96
120608371 GAATTCTTTC
* * * * *
120608381 ATCGAAGGGAAGGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAACCAA
1 ATCGAAGGGAACGATGGAGCAAACAAGGAGCCCAAGAAGCTTGGTTCAAACAAAGGAAAAACCAA
* *
120608446 AGCCAATAGGGCAAAGAAGAACAAGTCTATT
66 AGCCAAGAGGGAAAAGAAGAACAAGTCTATT
* * * *
120608477 ATCGAAGGGAACGATGGAGCAAACAAGGAGTCCAAGATGCTTGGTTCAAACAAAGGAAAAGCCGA
1 ATCGAAGGGAACGATGGAGCAAACAAGGAGCCCAAGAAGCTTGGTTCAAACAAAGGAAAAACCAA
120608542 AGCCAAGAGGGAAAAGA
66 AGCCAAGAGGGAAAAGA
120608559 GGAGGAAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.43, C:0.16, G:0.30, T:0.11
Consensus pattern (96 bp):
ATCGAAGGGAACGATGGAGCAAACAAGGAGCCCAAGAAGCTTGGTTCAAACAAAGGAAAAACCAA
AGCCAAGAGGGAAAAGAAGAACAAGTCTATT
Found at i:120611525 original size:43 final size:43
Alignment explanation
Indices: 120611432--120611543 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 43
120611422 TGTGATAACA
*
120611432 TGTAAGACCATGCCTAGGACATTGGCATTGTATTGAGATTACG
1 TGTAAGACCATGCCTAGGACATTGGCATTGTAATGAGATTACG
* ** * * * *
120611475 TGAAAGACCATGTTTGGGATATTGGCATTGCTAAT-CGATTTCG
1 TGTAAGACCATGCCTAGGACATTGGCATTG-TAATGAGATTACG
* * *
120611518 TGTAAGACCCTGTCTAGGACAGTGGC
1 TGTAAGACCATGCCTAGGACATTGGC
120611544 GTCCATATGT
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
43 51 0.94
44 3 0.06
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGCCTAGGACATTGGCATTGTAATGAGATTACG
Found at i:120614177 original size:50 final size:48
Alignment explanation
Indices: 120614027--120614177 Score: 119
Period size: 50 Copynumber: 3.1 Consensus size: 48
120614017 ATAAGAGTCG
* * * *
120614027 TCGAGAAGCTCAAGAGAGCCAAAT-TCGGGAAGCTCATGTAAGCC-AATA
1 TCGAGAAGCTC-CGAGAGGCAAATAACAGGAAGCTCATG-AAGCCAAATA
* * * * * * *
120614075 TC-AGGAAGCTCCGAAAAGCCATTAATCAGGAAGCTCATAACAGACAATTA
1 TCGA-GAAGCTCCGAGAGGCAAATAA-CAGGAAGCTCATGA-AGCCAAATA
120614125 TCGAGAAGCTCCGGAGAGGCAAATAACAGGAAGCTCATGAGAGCCAAATA
1 TCGAGAAGCTCC-GAGAGGCAAATAACAGGAAGCTCATGA-AGCCAAATA
120614175 TCG
1 TCG
120614178 GGACGCTCAT
Statistics
Matches: 77, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
47 7 0.09
48 10 0.13
49 14 0.18
50 36 0.47
51 10 0.13
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (48 bp):
TCGAGAAGCTCCGAGAGGCAAATAACAGGAAGCTCATGAAGCCAAATA
Found at i:120614185 original size:25 final size:25
Alignment explanation
Indices: 120614031--120614193 Score: 77
Period size: 25 Copynumber: 6.6 Consensus size: 25
120614021 GAGTCGTCGA
* * *
120614031 GAAGCTCAAGAGAGCCAAAT-TCGG
1 GAAGCTCATGAGAGCCAAATAACAG
*
120614055 GAAGCTCATGTA-AGCC-AATATCAG
1 GAAGCTCATG-AGAGCCAAATAACAG
* * *
120614079 GAAGCTC-CGAAAAGCC-ATTAATCAG
1 GAAGCTCATG-AGAGCCAAATAA-CAG
* * * * *
120614104 GAAGCTCATAACAGACAATTATC-G
1 GAAGCTCATGAGAGCCAAATAACAG
** *
120614128 AGAAGCTCCGGAGAGGCAAATAACAG
1 -GAAGCTCATGAGAGCCAAATAACAG
* *
120614154 GAAGCTCATGAGAGCCAAATATCGG
1 GAAGCTCATGAGAGCCAAATAACAG
* *
120614179 GACGCTCATAAGAGC
1 GAAGCTCATGAGAGC
120614194 TATGGTGTAT
Statistics
Matches: 106, Mismatches: 25, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
23 5 0.05
24 31 0.29
25 65 0.61
26 5 0.05
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.15
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCAAATAACAG
Found at i:120629192 original size:25 final size:24
Alignment explanation
Indices: 120629150--120629196 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
120629140 ACTAGCTTTT
120629150 CACAATTTATTTCACATTTCATTA
1 CACAATTTATTTCACATTTCATTA
120629174 CACAATTGTATTATC-CATTTCAT
1 CACAATT-TATT-TCACATTTCAT
120629197 ATTCATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.33
25 12 0.57
26 2 0.10
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.45
Consensus pattern (24 bp):
CACAATTTATTTCACATTTCATTA
Found at i:120629521 original size:41 final size:39
Alignment explanation
Indices: 120629399--120629525 Score: 116
Period size: 37 Copynumber: 3.2 Consensus size: 39
120629389 ACCAATTTGG
* * * *
120629399 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAATGCCTCAT-TGATAATCCGAAGTAGTAAATTGA
* * * * *
120629439 CACCCAGTGTCTCATTGGCTAAACC-AA--AGTAAATTGG
1 CACCCAATGCCTCATT-GATAATCCGAAGTAGTAAATTGA
120629476 CACCCAATGCCTCATTGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAATGCCTCATTG-A-TAATCCGAAGTAGTAAATTGA
120629517 CACCCAATG
1 CACCCAATG
120629526 TCTCGTCAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
36 1 0.01
37 22 0.32
38 5 0.07
39 4 0.06
40 19 0.28
41 18 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (39 bp):
CACCCAATGCCTCATTGATAATCCGAAGTAGTAAATTGA
Found at i:120630376 original size:11 final size:10
Alignment explanation
Indices: 120630360--120630421 Score: 54
Period size: 11 Copynumber: 5.8 Consensus size: 10
120630350 GTCTTTCTCC
120630360 TTTTCTTTCAT
1 TTTTCTTTC-T
120630371 TTTTCTTTCT
1 TTTTCTTTCT
*
120630381 GTTTCGTTTCT
1 TTTTC-TTTCT
*
120630392 ATCTTTGTTTCT
1 -T-TTTCTTTCT
120630404 TTCTT-TTTCT
1 TT-TTCTTTCT
120630414 TTTTCTTT
1 TTTTCTTT
120630422 TTCTTTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
9 2 0.05
10 16 0.37
11 17 0.40
12 5 0.12
13 3 0.07
ACGTcount: A:0.03, C:0.18, G:0.05, T:0.74
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:120630414 original size:6 final size:6
Alignment explanation
Indices: 120630403--120630428 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
120630393 TCTTTGTTTC
120630403 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
120630429 ATTTAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:120631130 original size:25 final size:25
Alignment explanation
Indices: 120631102--120631174 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 25
120631092 CCCAATATAT
120631102 GGCTCCTCAGAGCTTCCCGATTAAA
1 GGCTCCTCAGAGCTTCCCGATTAAA
* * * *
120631127 GGCTCTTTTATGAGCTTCCTGATTAAT
1 GGCTC-CTCA-GAGCTTCCCGATTAAA
*
120631154 GGCT-CTCCAGTGCTTCCCGAT
1 GGCTCCT-CAGAGCTTCCCGAT
120631175 ATTGGCTTGC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
25 16 0.43
26 3 0.08
27 18 0.49
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.33
Consensus pattern (25 bp):
GGCTCCTCAGAGCTTCCCGATTAAA
Found at i:120634070 original size:20 final size:20
Alignment explanation
Indices: 120634032--120634070 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
120634022 TATTCAAACT
*
120634032 ATATTAATTGAATAGTTATA
1 ATATTAATTGAATAATTATA
120634052 ATATTAGATTG-ATAATTAT
1 ATATTA-ATTGAATAATTAT
120634071 GTCTCTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
ATATTAATTGAATAATTATA
Found at i:120635517 original size:8 final size:8
Alignment explanation
Indices: 120635504--120635532 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
120635494 CTAAATTTAA
120635504 TATTAAAC
1 TATTAAAC
120635512 TATTAAAC
1 TATTAAAC
120635520 TATTAAAC
1 TATTAAAC
120635528 TATTA
1 TATTA
120635533 TTATTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (8 bp):
TATTAAAC
Found at i:120637249 original size:38 final size:40
Alignment explanation
Indices: 120637207--120637297 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
120637197 CCATCTCCGA
* *
120637207 CCAACCCAACACACC-A-TGTGGGGATAGAATCAACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAC
* * *
120637245 CCAACCCTACACGCCAAGTATGGGGATATAATCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAC
120637285 CCAACCCTACACA
1 CCAACCCTACACA
120637298 ACAAAAGGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 13 0.29
39 1 0.02
40 31 0.69
ACGTcount: A:0.36, C:0.37, G:0.13, T:0.13
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAC
Found at i:120642095 original size:16 final size:16
Alignment explanation
Indices: 120642076--120642132 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
120642066 AAAGAAAATT
120642076 GAAATATAAGAAAGAG
1 GAAATATAAGAAAGAG
* *
120642092 GAAATATGTAA-CAAGACT
1 GAAATA--TAAGAAAGA-G
*
120642110 GAAACATAAGAAAGAG
1 GAAATATAAGAAAGAG
120642126 GAAATAT
1 GAAATAT
120642133 GTAACACCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 15 0.48
17 8 0.26
18 8 0.26
ACGTcount: A:0.58, C:0.05, G:0.21, T:0.16
Consensus pattern (16 bp):
GAAATATAAGAAAGAG
Found at i:120644375 original size:21 final size:18
Alignment explanation
Indices: 120644349--120644395 Score: 51
Period size: 21 Copynumber: 2.5 Consensus size: 18
120644339 ATAAAGAGAT
120644349 GAAAAAAAAAGAGAATATGAA
1 GAAAAAAAAAGA-AA-A-GAA
*
120644370 GAAAAACAAAGAAAAGAA
1 GAAAAAAAAAGAAAAGAA
120644388 -AAAAAAAA
1 GAAAAAAAA
120644396 GTGTTCATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 1 0.04
20 2 0.08
21 11 0.46
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (18 bp):
GAAAAAAAAAGAAAAGAA
Found at i:120644382 original size:19 final size:18
Alignment explanation
Indices: 120644347--120644394 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
120644337 GAATAAAGAG
120644347 ATGAAAAAAAAAGAGAAT
1 ATGAAAAAAAAAGAGAAT
120644365 ATGAAGAAAAACAA-AGAA-
1 ATGAA-AAAAA-AAGAGAAT
*
120644383 AAGAAAAAAAAA
1 ATGAAAAAAAAA
120644395 AGTGTTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.07
17 5 0.19
18 9 0.33
19 9 0.33
20 2 0.07
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (18 bp):
ATGAAAAAAAAAGAGAAT
Found at i:120645662 original size:31 final size:29
Alignment explanation
Indices: 120645559--120645641 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
120645549 GTGACGAGAT
120645559 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
120645588 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
120645617 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
120645642 AAAATACGGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:120645682 original size:60 final size:58
Alignment explanation
Indices: 120645555--120645691 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 58
120645545 TACGGTGACG
* * * *
120645555 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATACTCGAA
* **
120645612 ATATATGGCACTAAGTGTGCATGCTGGAAAAAAATACGGCACTGGGTGTGCGA-ACTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG--AAAAATACGGCACTAAGTGTGC-ATACTCGAA
* * *
120645672 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
120645692 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
57 3 0.05
58 22 0.34
60 39 0.60
61 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATACTCGAA
Found at i:120647329 original size:18 final size:18
Alignment explanation
Indices: 120647306--120647360 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
120647296 GAATCGAACA
*
120647306 TGAGACCTTAAGGCAAAC
1 TGAGACCTTAGGGCAAAC
120647324 TGAGACCTTAGGGCAAAC
1 TGAGACCTTAGGGCAAAC
*
120647342 TGAAACCTTAGGGCAAAC
1 TGAGACCTTAGGGCAAAC
120647360 T
1 T
120647361 AACACCTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (18 bp):
TGAGACCTTAGGGCAAAC
Found at i:120647367 original size:18 final size:17
Alignment explanation
Indices: 120647310--120647369 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
120647300 CGAACATGAG
* *
120647310 ACCTTAAGGCAAACTGAG
1 ACCTTAGGGCAAACT-AA
120647328 ACCTTAGGGCAAACTGAA
1 ACCTTAGGGCAAACT-AA
120647346 ACCTTAGGGCAAACTAA
1 ACCTTAGGGCAAACTAA
120647363 CACCTTA
1 -ACCTTA
120647370 CCACTTGAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
17 2 0.05
18 37 0.95
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (17 bp):
ACCTTAGGGCAAACTAA
Found at i:120648470 original size:22 final size:22
Alignment explanation
Indices: 120648426--120648470 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
120648416 AATAAATTAT
* *
120648426 TTTAAATTAAATTATATTTATA
1 TTTAAATTAAATTATAGTAATA
* *
120648448 TTTAAATTGAATTTTAGTAATA
1 TTTAAATTAAATTATAGTAATA
120648470 T
1 T
120648471 GATAAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTAAATTAAATTATAGTAATA
Found at i:120652713 original size:27 final size:27
Alignment explanation
Indices: 120652668--120652719 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
120652658 CCTTCACTTA
*
120652668 TTTTTTTCTTTTTAATTTTTGAATTTG
1 TTTTTTTCTTTTTAATTTTTAAATTTG
**
120652695 TTTTTTTCTTTTTTCTTTTTAAATT
1 TTTTTTTCTTTTTAATTTTTAAATT
120652720 GCCTCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (27 bp):
TTTTTTTCTTTTTAATTTTTAAATTTG
Found at i:120652830 original size:19 final size:19
Alignment explanation
Indices: 120652799--120652852 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
120652789 GTAGATGAGA
120652799 TATAAACATTTTATTAATAT
1 TATAAA-ATTTTATTAATAT
* *
120652819 TTTAAAATTTTAATAATAT
1 TATAAAATTTTATTAATAT
*
120652838 TAAAAAATATTTATT
1 TATAAAAT-TTTATT
120652853 TTATAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAAAATTTTATTAATAT
Found at i:120652872 original size:34 final size:32
Alignment explanation
Indices: 120652816--120652906 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 32
120652806 ATTTTATTAA
120652816 TATTTTAAAATTTTAATAATATTAAAAAATATT
1 TATTTTAAAATTTTAATAATATTAAAAAAT-TT
* * * *
120652849 TATTTTATAATTTTTATGCATATTAAATAATTTT
1 TATTTTAAAATTTTAAT-AATATTAAA-AAATTT
*
120652883 AGTGATTTTAAAATTTTAAAAATA
1 --T-ATTTTAAAATTTTAATAATA
120652907 ATTTTTATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
33 15 0.33
34 10 0.22
35 3 0.07
36 4 0.09
37 13 0.29
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (32 bp):
TATTTTAAAATTTTAATAATATTAAAAAATTT
Found at i:120655340 original size:2 final size:2
Alignment explanation
Indices: 120655333--120655361 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
120655323 CCAAGAAATT
120655333 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120655362 CCCAAATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120655445 original size:5 final size:5
Alignment explanation
Indices: 120655435--120655463 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
120655425 TCTTTGGATC
120655435 CCTCA CCTCA CCTCA CCTCA CCTCA CCTC
1 CCTCA CCTCA CCTCA CCTCA CCTCA CCTC
120655464 CCATTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.62, G:0.00, T:0.21
Consensus pattern (5 bp):
CCTCA
Found at i:120656429 original size:19 final size:19
Alignment explanation
Indices: 120656407--120656444 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
120656397 TCAAAATTTG
*
120656407 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
120656426 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
120656445 TAAACTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:120656795 original size:21 final size:21
Alignment explanation
Indices: 120656771--120656811 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
120656761 ACTTTTTCTA
*
120656771 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
120656792 AAGTTAAAAGGCAAAACTAT
1 AAGTTAAAAGGCAAAACTAT
120656812 GTTGTTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:120659854 original size:2 final size:2
Alignment explanation
Indices: 120659847--120659884 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
120659837 CTTAGGATTT
120659847 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
120659885 CAGTCTACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120663811 original size:2 final size:2
Alignment explanation
Indices: 120663804--120663833 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
120663794 AAGTACAAAA
120663804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120663834 TAATAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120669310 original size:21 final size:21
Alignment explanation
Indices: 120669272--120669313 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
120669262 AGGTTTATAA
** *
120669272 TTTTTAATAGTTTTTTTAATT
1 TTTTTAATAAATTGTTTAATT
120669293 TTTTTAATAAATTGTTTAATT
1 TTTTTAATAAATTGTTTAATT
120669314 AAATGAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTAATAAATTGTTTAATT
Found at i:120670315 original size:2 final size:2
Alignment explanation
Indices: 120670308--120670337 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
120670298 TAACACCTTC
120670308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120670338 TAAATGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120677600 original size:12 final size:12
Alignment explanation
Indices: 120677583--120677615 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
120677573 GACACGCGGG
120677583 CGTGTGACTGGC
1 CGTGTGACTGGC
*
120677595 CGTGTGGCTGGC
1 CGTGTGACTGGC
120677607 CGTGTGACT
1 CGTGTGACT
120677616 TAACCCAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.24, G:0.42, T:0.27
Consensus pattern (12 bp):
CGTGTGACTGGC
Found at i:120679655 original size:2 final size:2
Alignment explanation
Indices: 120679648--120679686 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
120679638 TAAATCACAA
120679648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120679687 AACATCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120679873 original size:2 final size:2
Alignment explanation
Indices: 120679866--120679897 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
120679856 TAATTTATTC
120679866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120679898 TAATAAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120684253 original size:28 final size:28
Alignment explanation
Indices: 120684213--120684269 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
120684203 CTTTGATGAA
120684213 AAAGCTGAACGCCTAATTAATTACCAAG
1 AAAGCTGAACGCCTAATTAATTACCAAG
*
120684241 AAAGTTGAACGCCTAATTAATTACCAAG
1 AAAGCTGAACGCCTAATTAATTACCAAG
120684269 A
1 A
120684270 TTTTGTATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (28 bp):
AAAGCTGAACGCCTAATTAATTACCAAG
Found at i:120685937 original size:29 final size:30
Alignment explanation
Indices: 120685881--120685937 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
120685871 AGTTACAACC
**
120685881 AACCATATACATGCCATCATAGGGAAATTT
1 AACCATATACATGCCATCATAGCAAAATTT
* *
120685911 AACC-TATACATGCCATTATATCAAAAT
1 AACCATATACATGCCATCATAGCAAAAT
120685938 AAGTTTACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (30 bp):
AACCATATACATGCCATCATAGCAAAATTT
Found at i:120687061 original size:22 final size:22
Alignment explanation
Indices: 120687005--120687061 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
120686995 TGCACAATTC
*
120687005 ATACCATATTCATTTCAATCAA
1 ATACCATATTCAATTCAATCAA
* * *
120687027 TTTCCATAATCAATTCAAGTCAA
1 ATACCATATTCAATTCAA-TCAA
120687050 ATACC-TATTCAA
1 ATACCATATTCAA
120687062 AATCTTATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (22 bp):
ATACCATATTCAATTCAATCAA
Found at i:120688456 original size:30 final size:30
Alignment explanation
Indices: 120688399--120688456 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
120688389 TAGGCCGTTA
*
120688399 TTTTCATTTATTCACACTTTTAACCCCACC
1 TTTTCATTTATTCACACATTTAACCCCACC
120688429 TTTTCATCTT-TTCACA-ATTTAATCCCCA
1 TTTTCAT-TTATTCACACATTTAA-CCCCA
120688457 ATTTGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 5 0.20
30 18 0.72
31 2 0.08
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTCATTTATTCACACATTTAACCCCACC
Found at i:120689803 original size:46 final size:44
Alignment explanation
Indices: 120689744--120689858 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
120689734 ACAGGACAGA
* *
120689744 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
120689790 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
120689834 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
120689859 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:120689839 original size:44 final size:45
Alignment explanation
Indices: 120689744--120689877 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
120689734 ACAGGACAGA
* *
120689744 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
120689790 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
120689834 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
120689878 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:120695757 original size:46 final size:44
Alignment explanation
Indices: 120695698--120695812 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
120695688 ACAGGACAGA
* *
120695698 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
120695744 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
120695788 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
120695813 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:120695793 original size:44 final size:45
Alignment explanation
Indices: 120695698--120695831 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
120695688 ACAGGACAGA
* *
120695698 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
120695744 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
120695788 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
120695832 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:120712233 original size:25 final size:25
Alignment explanation
Indices: 120712204--120712262 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
120712194 TCTTATCTCA
* * **
120712204 ATTTTACTCCAATAAAGTTTTGATT
1 ATTTTACCCCAATAAAATTTTGACG
*
120712229 ATTTTTCCCCAATAAAATTTTGACG
1 ATTTTACCCCAATAAAATTTTGACG
120712254 ATTTTACCC
1 ATTTTACCC
120712263 TTGGTAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.44
Consensus pattern (25 bp):
ATTTTACCCCAATAAAATTTTGACG
Found at i:120716208 original size:34 final size:34
Alignment explanation
Indices: 120716165--120716255 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
120716155 TTTAATACAG
* *
120716165 TACTGAAATGGGCTAAGGCCCAGACTGCCCCTGT
1 TACTGAAATGGGCTAAGGCCCAGACTGACACTGT
* * * *
120716199 TACTGAAATGGGCTCAGGCCCTGATTGATACTGT
1 TACTGAAATGGGCTAAGGCCCAGACTGACACTGT
*
120716233 TACTGAAAAAGGTGCTAAGGCCC
1 TACTG-AAATGG-GCTAAGGCCC
120716256 TAACTGGAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 33 0.70
35 5 0.11
36 9 0.19
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAGACTGACACTGT
Found at i:120719888 original size:39 final size:39
Alignment explanation
Indices: 120719808--120719912 Score: 165
Period size: 39 Copynumber: 2.6 Consensus size: 39
120719798 GTAGAGACAA
* *
120719808 GGGCGTGTGTCTTAGCCGTGTGTGCCACACGGCATAGACCAT
1 GGGCGTGTGTCTTGGCC--GTGTG-AACACGGCATAGACCAT
120719850 GGGCGTGTGTCTTGGCCGTGTGAACACGGCATAGACCAT
1 GGGCGTGTGTCTTGGCCGTGTGAACACGGCATAGACCAT
120719889 GGGCGTGTGTCTTGGCCGTGTGAA
1 GGGCGTGTGTCTTGGCCGTGTGAA
120719913 ACCTGCACCT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
39 40 0.66
40 5 0.08
42 16 0.26
ACGTcount: A:0.15, C:0.23, G:0.37, T:0.25
Consensus pattern (39 bp):
GGGCGTGTGTCTTGGCCGTGTGAACACGGCATAGACCAT
Found at i:120726064 original size:30 final size:29
Alignment explanation
Indices: 120726023--120726088 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
120726013 AAAATTTTTA
*
120726023 ATAAAAATAATTTACTCTTAAATTT-AATAT
1 ATAAAAATAATTTA-TC-TAAATTTAAATAG
* *
120726053 ATAAAACTAATTTATCTAAGTTTAAATAG
1 ATAAAAATAATTTATCTAAATTTAAATAG
120726082 ATAAAAA
1 ATAAAAA
120726089 AATACAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 6 0.19
29 12 0.39
30 13 0.42
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (29 bp):
ATAAAAATAATTTATCTAAATTTAAATAG
Found at i:120728992 original size:3 final size:3
Alignment explanation
Indices: 120728984--120729008 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
120728974 AAATCTATTG
120728984 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
120729009 TAGTATGTTC
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:120732512 original size:30 final size:30
Alignment explanation
Indices: 120732476--120732532 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
120732466 TTATTAGTAA
120732476 AAATTGACATAATTAATAAAATAATTAAAT
1 AAATTGACATAATTAATAAAATAATTAAAT
* *
120732506 AAATTGATATGATTAATAAAATAATTA
1 AAATTGACATAATTAATAAAATAATTA
120732533 GATAGTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (30 bp):
AAATTGACATAATTAATAAAATAATTAAAT
Found at i:120735016 original size:27 final size:27
Alignment explanation
Indices: 120734983--120735064 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
120734973 TAGAATACTT
* *
120734983 TAGTTTACCAAATTACCAAAATACCCT
1 TAGTTTACAAAATTACCAAAATACCCC
*
120735010 TGGTTTACAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
**
120735037 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
120735064 T
1 T
120735065 GATTTGTGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.29
Consensus pattern (27 bp):
TAGTTTACAAAATTACCAAAATACCCC
Done.