Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 415 of 427
Found at i:120696603 original size:12 final size:12
Alignment explanation
Indices: 120696586--120696618 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
120696576 ATTTTATCCG
120696586 TAAATATTTTTA
1 TAAATATTTTTA
120696598 TAAATATTTTTA
1 TAAATATTTTTA
120696610 TAAATATTT
1 TAAATATTT
120696619 ATGGAGTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAAATATTTTTA
Found at i:120700765 original size:46 final size:46
Alignment explanation
Indices: 120700695--120700958 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
120700685 GTGTGCTCTT
* *
120700695 TGATATGGAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *
120700741 TGATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAACT
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
120700787 TGATGTGAAATGTGTAAGACCA----TG---G----CATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
120700822 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
**
120700868 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *
120700914 TGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
120700959 ATGACAGAAA
Statistics
Matches: 193, Mismatches: 14, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
35 30 0.16
39 3 0.02
42 3 0.02
46 157 0.81
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:120700816 original size:35 final size:35
Alignment explanation
Indices: 120700777--120700846 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
120700767 TGAAAGATAC
* *
120700777 CATGGCAACTTGATGTGAAATGTGTAAGACCATGG
1 CATGGCAACCTGATATGAAATGTGTAAGACCATGG
120700812 CATGGCAACCTGATATGAAATGTGTAAGACCATGG
1 CATGGCAACCTGATATGAAATGTGTAAGACCATGG
120700847 TTGAAAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (35 bp):
CATGGCAACCTGATATGAAATGTGTAAGACCATGG
Found at i:120700866 original size:81 final size:84
Alignment explanation
Indices: 120700731--120700958 Score: 300
Period size: 81 Copynumber: 2.7 Consensus size: 84
120700721 TGAAAGATAC
* * *
120700731 CATGGCAACCTGATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAACTTGATGTGAA
1 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAA
**
120700796 ATGTGTAAGACCA-TG-G-
66 ATGAATAAGACCAGTGAGA
120700812 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAA
1 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAA
120700877 ATGAATAAGACCATGGTTGAAAGATA
66 ATGAATAAGACCA--G-TG--AG--A
* *
120700903 CCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 -CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
120700959 ATGACAGAAA
Statistics
Matches: 129, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
81 73 0.57
85 2 0.02
88 1 0.01
92 53 0.41
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (84 bp):
CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAA
ATGAATAAGACCAGTGAGA
Found at i:120700923 original size:127 final size:127
Alignment explanation
Indices: 120700695--120700938 Score: 398
Period size: 127 Copynumber: 1.9 Consensus size: 127
120700685 GTGTGCTCTT
* **
120700695 TGATATGGAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGA
* * ** *
120700760 TCATGGTTGAAAGATACCATGGCAACTTGATGTGAAATGTGTAAGACCATGGCATGGCAACC
66 CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGCATGGCAACC
* *
120700822 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGA
1 TGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGA
120700887 CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGG
66 CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGG
120700939 TTGAAAGATA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 107 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (127 bp):
TGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGA
CCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGCATGGCAACC
Found at i:120700964 original size:46 final size:46
Alignment explanation
Indices: 120700812--120700995 Score: 262
Period size: 46 Copynumber: 4.0 Consensus size: 46
120700802 AAGACCATGG
* *
120700812 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
1 CATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATAC
* * *
120700858 CATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATAC
1 CATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATAC
120700904 CATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATAC
1 CATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATAC
* * * * *
120700950 CATGGCAACATGACA-GAAAACGAGTAAAACTATAGTTGAAAGATAC
1 CATGGCAACCTGACATG-AAATGAGTAAGACCATGGTTGAAAGATAC
120700996 TATGACATCA
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 125 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATAC
Found at i:120701951 original size:52 final size:48
Alignment explanation
Indices: 120701829--120702066 Score: 208
Period size: 48 Copynumber: 5.0 Consensus size: 48
120701819 GCATCAGTGA
*
120701829 GATATGTGATCTGTGTAAGACCATAGCTGGGTTATGGCATCGATATGT
1 GATATGTGATCTGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
* * * *
120701877 GATATGTGATCCGTATAAGACCATAGTTGGGCT-TGGCATCGGTGTGATGT
1 GATATGTGATCTGTGTAAGACCATAGCTGGGCTATGGCATC-G-AT-ATGT
* * * * * *
120701927 GATTATGTGCTTCTGTGTAAGACCATATCTAGGATATGGCATCG--GTGA
1 GA-TATGTG-ATCTGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
* * * *
120701975 GATATGTGATCCGTCTAATACCATAGCTAGGCTATGGCATCGATATGT
1 GATATGTGATCTGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
*
120702023 GA-A--T-AT-T-TGTAAGACCATAGTTGGGCTATGGCATC-ATTATGT
1 GATATGTGATCTGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATGT
120702065 GA
1 GA
120702067 AGATTTGTAA
Statistics
Matches: 154, Mismatches: 27, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 31 0.20
44 2 0.01
45 1 0.01
46 28 0.18
47 14 0.09
48 38 0.25
49 1 0.01
50 6 0.04
51 6 0.04
52 19 0.12
53 7 0.05
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (48 bp):
GATATGTGATCTGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
Found at i:120702051 original size:42 final size:43
Alignment explanation
Indices: 120701994--120702101 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 43
120701984 TCCGTCTAAT
* * *
120701994 ACCATAGCTAGGCTATGGCATCGA-TATGTGAATATTTGTAAG
1 ACCATAGTTGGGCTATGGCATCGATTATGTGAAGATTTGTAAG
120702036 ACCATAGTTGGGCTATGGCATC-ATTATGTGAAGATTTGTAAG
1 ACCATAGTTGGGCTATGGCATCGATTATGTGAAGATTTGTAAG
* **
120702078 ACCATAATTGAACTATGGCATCGA
1 ACCATAGTTGGGCTATGGCATCGA
120702102 GAAAATGAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 56 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (43 bp):
ACCATAGTTGGGCTATGGCATCGATTATGTGAAGATTTGTAAG
Found at i:120703150 original size:13 final size:14
Alignment explanation
Indices: 120703134--120703169 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
120703124 CAATCTCATA
120703134 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
120703147 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
120703160 TCTC-ATTTCA
1 TCTCAATTTCA
120703170 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:120703159 original size:18 final size:19
Alignment explanation
Indices: 120703121--120703161 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
120703111 TGGTTCATGT
120703121 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
120703140 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
120703158 TTTC
1 TTTC
120703162 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:120703822 original size:15 final size:15
Alignment explanation
Indices: 120703802--120703848 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
120703792 TAATATATAT
*
120703802 TTCAATCAATATAAA
1 TTCAATCAAAATAAA
* *
120703817 TTCAATCAAAATGAT
1 TTCAATCAAAATAAA
*
120703832 TTCAATCAACATAAA
1 TTCAATCAAAATAAA
120703847 TT
1 TT
120703849 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (15 bp):
TTCAATCAAAATAAA
Found at i:120704196 original size:13 final size:13
Alignment explanation
Indices: 120704178--120704210 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
120704168 TTTTATTTCA
120704178 TTTATTTCTTTAT
1 TTTATTTCTTTAT
120704191 TTTATTTCTTTAT
1 TTTATTTCTTTAT
120704204 TTTATTT
1 TTTATTT
120704211 AATTAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:120704239 original size:11 final size:11
Alignment explanation
Indices: 120704212--120704244 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
120704202 ATTTTATTTA
120704212 ATTAAT-TAAT
1 ATTAATATAAT
120704222 A-TAATATAAT
1 ATTAATATAAT
120704232 ATTAATATAAT
1 ATTAATATAAT
120704243 AT
1 AT
120704245 ATTTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.19
10 6 0.29
11 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTAATATAAT
Found at i:120708500 original size:13 final size:14
Alignment explanation
Indices: 120708484--120708519 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
120708474 CAATCTCATA
120708484 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
120708497 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
120708510 TCTC-ATTTCA
1 TCTCAATTTCA
120708520 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:120708509 original size:18 final size:19
Alignment explanation
Indices: 120708471--120708511 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
120708461 TGGTTCATGT
120708471 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
120708490 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
120708508 TTTC
1 TTTC
120708512 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:120709172 original size:15 final size:15
Alignment explanation
Indices: 120709152--120709198 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
120709142 TAATATATAT
120709152 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
120709167 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
*
120709182 TTTAATCAATATAAA
1 TTCAATCAATATAAA
120709197 TT
1 TT
120709199 TGATAAATTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:120709547 original size:13 final size:13
Alignment explanation
Indices: 120709529--120709561 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
120709519 TTTTATTTCA
120709529 TTTATTTCTTTAT
1 TTTATTTCTTTAT
*
120709542 TTTATTTTTTTAT
1 TTTATTTCTTTAT
120709555 TTTATTT
1 TTTATTT
120709562 AATTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:120711595 original size:15 final size:16
Alignment explanation
Indices: 120711562--120711592 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
120711552 ATTTATTTAC
*
120711562 TTAAATAAAAAAGTAA
1 TTAAATAAAAAAATAA
120711578 TTAAATAAAAAAATA
1 TTAAATAAAAAAATA
120711593 TTATAATTGT
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:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
TTAAATAAAAAAATAA
Found at i:120712413 original size:22 final size:22
Alignment explanation
Indices: 120712388--120712430 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
120712378 TATCCAAACA
120712388 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* **
120712410 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
120712431 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:120712434 original size:11 final size:11
Alignment explanation
Indices: 120712395--120712435 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
120712385 ACAATAACAA
120712395 CAAAATAGTAG
1 CAAAATAGTAG
* *
120712406 CAATATAATAG
1 CAAAATAGTAG
*
120712417 TAAAATAGTAG
1 CAAAATAGTAG
120712428 CAAAATAG
1 CAAAATAG
120712436 AGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:120712443 original size:22 final size:22
Alignment explanation
Indices: 120712396--120712443 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
120712386 CAATAACAAC
* *
120712396 AAAATAGTAGCAATATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
120712418 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
120712440 AAAA
1 AAAA
120712444 CAATCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.60, C:0.04, G:0.17, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:120715159 original size:20 final size:22
Alignment explanation
Indices: 120715122--120715161 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
120715112 CTAAAATTAT
120715122 TATTTTATTAGATTTTTTAATA
1 TATTTTATTAGATTTTTTAATA
120715144 TATTTT-TTAG-TTTTTTAA
1 TATTTTATTAGATTTTTTAA
120715162 AATTTATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (22 bp):
TATTTTATTAGATTTTTTAATA
Found at i:120722400 original size:3 final size:3
Alignment explanation
Indices: 120722392--120722421 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
120722382 TTTCTTTTGC
120722392 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
120722422 TACAACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:120732402 original size:5 final size:6
Alignment explanation
Indices: 120732387--120732411 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
120732377 CGTATGTTGT
120732387 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
120732412 ATATACATAT
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):
TTTTTA
Found at i:120738490 original size:21 final size:23
Alignment explanation
Indices: 120738456--120738510 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
120738446 TAAATATTAT
120738456 ATTTTATCATAATTTA-TTGATTT-
1 ATTTTAT-A-AATTTATTTGATTTA
*
120738479 TTTTTATAAATTTATTTGATTTA
1 ATTTTATAAATTTATTTGATTTA
120738502 ATTTTATAA
1 ATTTTATAA
120738511 GAAAAACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
ATTTTATAAATTTATTTGATTTA
Found at i:120741441 original size:46 final size:46
Alignment explanation
Indices: 120741389--120741754 Score: 565
Period size: 46 Copynumber: 8.0 Consensus size: 46
120741379 GCTTTCTGAA
*
120741389 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
120741435 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
*
120741481 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
*
120741527 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
120741573 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
* *
120741619 ATGAAATATGTAAGGCCATGGTTGAAAGACACCATGGCAACA-GTAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATG-AT
* * * * *
120741665 ATAAAATGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
** * * *
120741711 A-GAAAATAAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATG
120741755 TCAAAGATAA
Statistics
Matches: 294, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 292 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
Found at i:120742057 original size:16 final size:17
Alignment explanation
Indices: 120742036--120742067 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
120742026 TGATGGAGCA
120742036 TGAAAT-ATTGATATAG
1 TGAAATGATTGATATAG
120742052 TGAAATGATTGATATA
1 TGAAATGATTGATATA
120742068 TACTTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (17 bp):
TGAAATGATTGATATAG
Found at i:120743256 original size:14 final size:14
Alignment explanation
Indices: 120743239--120743267 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
120743229 CATAGCTTAA
120743239 TGTTTTTATCATTT
1 TGTTTTTATCATTT
120743253 TGTTTTTATCATTT
1 TGTTTTTATCATTT
120743267 T
1 T
120743268 ATTGTTGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (14 bp):
TGTTTTTATCATTT
Found at i:120750039 original size:19 final size:20
Alignment explanation
Indices: 120749998--120750052 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
120749988 AGTTTTTATT
*
120749998 TAATTAAATTTAATTCTTTA
1 TAATTTAATTTAATTCTTTA
*
120750018 TAATTTAATTTCATTC-TTA
1 TAATTTAATTTAATTCTTTA
120750037 TAATTTAATTTTAATT
1 TAATTTAA-TTTAATT
120750053 TAAAAGTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TAATTTAATTTAATTCTTTA
Found at i:120762955 original size:7 final size:7
Alignment explanation
Indices: 120762943--120763031 Score: 65
Period size: 7 Copynumber: 11.9 Consensus size: 7
120762933 TTTATAAAAA
120762943 TATATAT
1 TATATAT
120762950 TATATAT
1 TATATAT
120762957 TATATTAAT
1 TATA-T-AT
120762966 T-TAATAT
1 TAT-ATAT
120762973 T-TAAGTAT
1 TAT-A-TAT
120762981 TAATATAT
1 T-ATATAT
*
120762989 AATATAT
1 TATATAT
120762996 TATATTAT
1 TATA-TAT
120763004 TATTATAT
1 TA-TATAT
120763012 TATATAT
1 TATATAT
* *
120763019 AATATAA
1 TATATAT
120763026 TATATA
1 TATATA
120763032 AAACATAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
7 41 0.59
8 20 0.29
9 7 0.10
10 1 0.01
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:120762960 original size:5 final size:5
Alignment explanation
Indices: 120762952--120763030 Score: 51
Period size: 5 Copynumber: 16.0 Consensus size: 5
120762942 ATATATATTA
* *
120762952 TATAT TATAT TA-AT T-TAA TAT-T TAAGTAT TA-AT ATATAA TATAT
1 TATAT TATAT TATAT TATAT TATAT T-A-TAT TATAT -TATAT TATAT
* *
120762996 TATAT TATTAT TATAT TATA- TATAA TATAA TATAT
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT
120763031 AAAACATAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
4 12 0.20
5 38 0.63
6 8 0.13
7 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:120764195 original size:29 final size:30
Alignment explanation
Indices: 120764163--120764219 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
120764153 GCGCTCTCTG
120764163 ATTATTAGCACATTAA-TGCTCTCTGTTCT
1 ATTATTAGCACATTAAGTGCTCTCTGTTCT
* *
120764192 ATTATTAGCACGTTAAGTGCTGTCTGTT
1 ATTATTAGCACATTAAGTGCTCTCTGTT
120764220 TAGCACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.44
Consensus pattern (30 bp):
ATTATTAGCACATTAAGTGCTCTCTGTTCT
Found at i:120764239 original size:22 final size:22
Alignment explanation
Indices: 120764196--120764263 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
120764186 TGTTCTATTA
* *
120764196 TTAGCACGTTAAGTGCTGTCTGT
1 TTAGCAC-TTTAGTGCTCTCTGT
*
120764219 TTAGCACATTT-GTGCTCTCTGC
1 TTAGCAC-TTTAGTGCTCTCTGT
*
120764241 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACTTTAGTGCTCTCTGT
120764263 T
1 T
120764264 CGTTTGTGCA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 3 0.08
22 25 0.68
23 9 0.24
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (22 bp):
TTAGCACTTTAGTGCTCTCTGT
Found at i:120764550 original size:19 final size:19
Alignment explanation
Indices: 120764526--120764569 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
120764516 ATTCTTGTAG
120764526 TGCTTACTAAGCCTTCACC
1 TGCTTACTAAGCCTTCACC
*
120764545 TGCTTACTAAGCCTTGACC
1 TGCTTACTAAGCCTTCACC
*
120764564 GGCTTA
1 TGCTTA
120764570 ACGCGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (19 bp):
TGCTTACTAAGCCTTCACC
Found at i:120766555 original size:18 final size:18
Alignment explanation
Indices: 120766503--120766555 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
120766493 GTTTGCTACG
* *
120766503 GAATAATTGACTGTTACT
1 GAATAAATGACTGTTATT
120766521 GAATAAATGACTGTTATT
1 GAATAAATGACTGTTATT
* *
120766539 GTATAACTGACTGTTAT
1 GAATAAATGACTGTTAT
120766556 AGAGTAACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
GAATAAATGACTGTTATT
Found at i:120766563 original size:18 final size:16
Alignment explanation
Indices: 120766505--120766566 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
120766495 TTGCTACGGA
*
120766505 ATAATTGACTGTTACTG
1 ATAACTGACTGTTA-TG
*
120766522 AATAAATGACTGTTATTG
1 -ATAACTGACTGTTA-TG
120766540 TATAACTGACTGTTATAG
1 -ATAACTGACTGTTAT-G
120766558 AGTAACTGA
1 A-TAACTGA
120766567 ATGCTACTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 2 0.05
18 36 0.95
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (16 bp):
ATAACTGACTGTTATG
Found at i:120766727 original size:66 final size:66
Alignment explanation
Indices: 120766656--120766786 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
120766646 GGTTGATAAA
* * *
120766656 TATTGATTGTTGATTGTTATGTATTAATGGATAACGAATGTAGACCGAATTAAATTGTAAAATTT
1 TATTGACTGTTGACTGTTATGTATTAATGGATAACGAATGTAGACCGAATTAAATGGTAAAATTT
120766721 T
66 T
120766722 TATTGACTGTTGACTGTTATGTATTAATGGATAACGAATGTAGACCGAATTAAATGGTAAAATTT
1 TATTGACTGTTGACTGTTATGTATTAATGGATAACGAATGTAGACCGAATTAAATGGTAAAATTT
120766787 ATAAGTTATG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (66 bp):
TATTGACTGTTGACTGTTATGTATTAATGGATAACGAATGTAGACCGAATTAAATGGTAAAATTT
T
Found at i:120779214 original size:2 final size:2
Alignment explanation
Indices: 120779207--120779236 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
120779197 AATTTAGCTA
120779207 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
120779237 TAGCTTTCTA
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:120786387 original size:13 final size:13
Alignment explanation
Indices: 120786369--120786394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
120786359 ATCATAGGAA
120786369 TTTTTATTTTTAT
1 TTTTTATTTTTAT
120786382 TTTTTATTTTTAT
1 TTTTTATTTTTAT
120786395 AAAGTTGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:120788001 original size:18 final size:20
Alignment explanation
Indices: 120787960--120787999 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
120787950 GGAACTTTAG
120787960 ATAAAAAATAATTACTGAAAA
1 ATAAAAAATAATTACT-AAAA
120787981 ATAAAAAATAATTA-TAAAA
1 ATAAAAAATAATTACTAAAA
120788000 TATTATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 1 0.05
21 14 0.74
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (20 bp):
ATAAAAAATAATTACTAAAA
Found at i:120792834 original size:32 final size:34
Alignment explanation
Indices: 120792798--120792866 Score: 115
Period size: 32 Copynumber: 2.1 Consensus size: 34
120792788 GATAAGCCCG
120792798 TTTATAATTAATGGGCTTTCT-TA-AAAAGTCCA
1 TTTATAATTAATGGGCTTTCTATACAAAAGTCCA
*
120792830 TTTATAATTAATGGGCTTTCTATACAAGAGTCCA
1 TTTATAATTAATGGGCTTTCTATACAAAAGTCCA
120792864 TTT
1 TTT
120792867 CGGATCCGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 21 0.62
33 2 0.06
34 11 0.32
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (34 bp):
TTTATAATTAATGGGCTTTCTATACAAAAGTCCA
Found at i:120794962 original size:18 final size:18
Alignment explanation
Indices: 120794920--120794961 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
120794910 TTTTAGATTT
*
120794920 AAAAAAATTACAACGAAC
1 AAAAAAATTACAACGAAA
*
120794938 AAAAAAATTAGAA-GAAA
1 AAAAAAATTACAACGAAA
120794955 AAAAAAA
1 AAAAAAA
120794962 AGGGATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (18 bp):
AAAAAAATTACAACGAAA
Found at i:120797841 original size:22 final size:21
Alignment explanation
Indices: 120797781--120797849 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 21
120797771 ACATAAAAAC
* **
120797781 AATTTTCTATTAATATTTGTAT
1 AATTTTATATTAAT-TTAATAT
120797803 AATTTTATAATTGAATTTAATAT
1 AATTTTAT-ATT-AATTTAATAT
120797826 AAATTTTATATTAA-TTAA-AT
1 -AATTTTATATTAATTTAATAT
120797846 AATT
1 AATT
120797850 ACTTAACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 4 0.10
20 2 0.05
21 4 0.10
22 9 0.22
23 11 0.27
24 11 0.27
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
AATTTTATATTAATTTAATAT
Found at i:120802052 original size:20 final size:20
Alignment explanation
Indices: 120801987--120802054 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
120801977 CATGTTAAAT
120801987 TAAAATT-TTATTATAAAATAA
1 TAAAATTATTATT-TAAAA-AA
* * **
120802008 TTAAATTATTATTT-AGATC
1 TAAAATTATTATTTAAAAAA
120802027 TCAAAATTATTATTTAAAAAA
1 T-AAAATTATTATTTAAAAAA
120802048 TAAAATT
1 TAAAATT
120802055 TAAAAAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
19 1 0.03
20 20 0.56
21 10 0.28
22 5 0.14
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (20 bp):
TAAAATTATTATTTAAAAAA
Found at i:120802105 original size:16 final size:16
Alignment explanation
Indices: 120802086--120802119 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
120802076 ATATATCTTT
120802086 ATTTTTAAAATT-TAAA
1 ATTTTT-AAATTATAAA
120802102 ATTTTTAAATTATAAA
1 ATTTTTAAATTATAAA
120802118 AT
1 AT
120802120 ATAAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTTAAATTATAAA
Found at i:120806562 original size:39 final size:39
Alignment explanation
Indices: 120806487--120806562 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 39
120806477 ACACTTCAAT
*
120806487 ATTTTATTAAATAGTATTAAAAATTATAAAATAAATTTC
1 ATTTTATTAAATAGTATTAAAAATTATAAAAAAAATTTC
120806526 ATTTTATTAAA-A-TATCTAAAAACTTA-AAATAAAAATT
1 ATTTTATTAAATAGTAT-TAAAAA-TTATAAA-AAAAATT
120806563 GCTCTTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
37 3 0.09
38 10 0.30
39 20 0.61
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (39 bp):
ATTTTATTAAATAGTATTAAAAATTATAAAAAAAATTTC
Found at i:120812921 original size:31 final size:29
Alignment explanation
Indices: 120812852--120812925 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
120812842 ACAAAATAAT
**
120812852 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATAACA
*
120812881 AACATAAGTGACTAAAATGTAACCTGAAACA
1 AACATAAGTGACTAAAATGTAACAT--AACA
*
120812912 AACAAAAGTGACTA
1 AACATAAGTGACTA
120812926 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATAACA
Found at i:120814904 original size:13 final size:13
Alignment explanation
Indices: 120814843--120814906 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
120814833 ACACTTAAAT
*
120814843 TTTTCTAAAGCAC
1 TTTTCAAAAGCAC
* *
120814856 TTCTCAAAAACAC
1 TTTTCAAAAGCAC
*
120814869 TTTTTCACAA-CAC
1 -TTTTCAAAAGCAC
120814882 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
120814895 TTTTCAAAAGCA
1 TTTTCAAAAGCA
120814907 ATGAAGAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 8 0.19
13 28 0.65
14 7 0.16
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:120817603 original size:22 final size:23
Alignment explanation
Indices: 120817578--120817636 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
120817568 CAACCAAATC
120817578 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
120817600 AATTCATGCATATTTATAAGAT-
1 AATTCATACATATTTATAAGATA
120817622 AATGTCATCACATAT
1 AAT-TCAT-ACATAT
120817637 CTAAAACCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 9 0.29
23 16 0.52
24 6 0.19
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:120820181 original size:12 final size:12
Alignment explanation
Indices: 120820164--120820195 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
120820154 ATTTTTACCC
120820164 AATTTCTTCAAT
1 AATTTCTTCAAT
120820176 AATTTCTTCAAT
1 AATTTCTTCAAT
120820188 AATTTCTT
1 AATTTCTT
120820196 TTTCTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTCTTCAAT
Found at i:120822524 original size:31 final size:31
Alignment explanation
Indices: 120822469--120822555 Score: 106
Period size: 31 Copynumber: 2.7 Consensus size: 31
120822459 TTCTCGCACC
120822469 TTTTGTTTTCTTTTTCTTTCATTTTCATATTT-T
1 TTTTGTTTT-TTTTT-TTT-ATTTTCATATTTCT
120822502 TTTTGTTTTTTTTGTTTTATTTTCATATTTCT
1 TTTTGTTTTTTTT-TTTTATTTTCATATTTCT
*
120822534 TTTT-TTTTTACTTTTTTATTTT
1 TTTTGTTTTT-TTTTTTTATTTT
120822556 GTTCCTTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
31 26 0.52
32 14 0.28
33 10 0.20
ACGTcount: A:0.09, C:0.08, G:0.03, T:0.79
Consensus pattern (31 bp):
TTTTGTTTTTTTTTTTTATTTTCATATTTCT
Found at i:120822592 original size:10 final size:9
Alignment explanation
Indices: 120822577--120822642 Score: 62
Period size: 9 Copynumber: 7.2 Consensus size: 9
120822567 AACTTTATCT
120822577 TTTTTTTTA
1 TTTTTTTTA
* *
120822586 CTTTTTTGA
1 TTTTTTTTA
120822595 TTTTTTTT-
1 TTTTTTTTA
* *
120822603 CTTATTTTA
1 TTTTTTTTA
*
120822612 TTTTGTTTA
1 TTTTTTTTA
120822621 TTTTGTTTTA
1 TTTT-TTTTA
120822631 TTTTTTATTA
1 TTTTTT-TTA
120822641 TT
1 TT
120822643 AACTTTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
8 6 0.14
9 25 0.57
10 13 0.30
ACGTcount: A:0.12, C:0.03, G:0.05, T:0.80
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:120822639 original size:17 final size:16
Alignment explanation
Indices: 120822577--120822639 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 16
120822567 AACTTTATCT
120822577 TTTTTTTTACTTTTTTGA
1 TTTTTTTTA-TTTTTT-A
*
120822595 TTTTTTTTCTTATTTTA
1 TTTTTTTTATT-TTTTA
*
120822612 TTTTGTTTATTTTGTT-
1 TTTTTTTTATTTT-TTA
120822628 TTATTTTTTATT
1 TT-TTTTTTATT
120822640 ATTAACTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.11
17 22 0.58
18 12 0.32
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.81
Consensus pattern (16 bp):
TTTTTTTTATTTTTTA
Found at i:120823429 original size:8 final size:8
Alignment explanation
Indices: 120823418--120823567 Score: 67
Period size: 8 Copynumber: 19.2 Consensus size: 8
120823408 TTAATAATAT
120823418 TTATATTA
1 TTATATTA
120823426 TTATA-T-
1 TTATATTA
120823432 TTATATTA
1 TTATATTA
*
120823440 ATATATTTCGA
1 TTATA-TT--A
*
120823451 TT-TATAAA
1 TTATAT-TA
120823459 TCTATATT-
1 T-TATATTA
120823467 TCTATATTA
1 T-TATATTA
120823476 TT-TATT-
1 TTATATTA
*
120823482 TTATTATTC
1 TTA-TATTA
*
120823491 TATCTATTA
1 T-TATATTA
120823500 TTATATTA
1 TTATATTA
*
120823508 -TCTATTA
1 TTATATTA
120823515 TTATATTA
1 TTATATTA
120823523 TCTAT-TTA
1 T-TATATTA
120823531 -TATATTA
1 TTATATTA
120823538 --ATATTA
1 TTATATTA
120823544 TT-T-TTA
1 TTATATTA
120823550 -TATATTA
1 TTATATTA
120823557 TTATATATA
1 TTATAT-TA
120823566 TT
1 TT
120823568 TTTATTTCTA
Statistics
Matches: 111, Mismatches: 9, Indels: 43
0.68 0.06 0.26
Matches are distributed among these distances:
5 1 0.01
6 20 0.18
7 19 0.17
8 45 0.41
9 18 0.16
10 6 0.05
11 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:120823534 original size:15 final size:15
Alignment explanation
Indices: 120823463--120823567 Score: 67
Period size: 15 Copynumber: 6.8 Consensus size: 15
120823453 TATAAATCTA
* *
120823463 TATTTCTATATTATT
1 TATTTATATATTATC
120823478 TATTT-TATTATTCTATC
1 TATTTATA-TA-T-TATC
120823495 TA-TTATTATATTATC
1 TATTTA-TATATTATC
120823510 TA-TTATTATATTATC
1 TATTTA-TATATTATC
*
120823525 TATTTATATATTAATAT
1 TATTTATATATT-AT-C
*
120823542 TATTTTTATA-TAT-
1 TATTTATATATTATC
120823555 TATTATATATATT
1 TATT-TATATATT
120823568 TTTATTTCTA
Statistics
Matches: 76, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
13 4 0.05
14 7 0.09
15 37 0.49
16 10 0.13
17 16 0.21
18 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTATATATTATC
Found at i:120823570 original size:23 final size:22
Alignment explanation
Indices: 120823461--120823570 Score: 77
Period size: 23 Copynumber: 4.9 Consensus size: 22
120823451 TTTATAAATC
120823461 TATATT-TCTATATTATTTATTT-
1 TATATTAT-TATATTATTT-TTTA
* * *
120823483 TATTATTCTATCTATTATTATATTA
1 TA-TATTAT-TATATTATT-TTTTA
* *
120823508 TCTATTATTATATTATCTATTTA
1 TATATTATTATATTAT-TTTTTA
120823531 TATATTA--ATATTA-TTTTTA
1 TATATTATTATATTATTTTTTA
120823550 TATATTATTATATATATTTTT
1 TATATTATTATAT-TATTTTT
120823571 ATTTCTATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
19 12 0.17
21 10 0.14
22 4 0.06
23 24 0.35
24 17 0.25
25 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TATATTATTATATTATTTTTTA
Found at i:120823592 original size:45 final size:47
Alignment explanation
Indices: 120823495--120823594 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 47
120823485 TTATTCTATC
* *
120823495 TATTATTATATTATCTATTATTATATTATCTATTTATATATTAATAT
1 TATTTTTATATTATCTATTATTATATTATCTATTTATATATTAAAAT
* *
120823542 TATTTTTATA-TAT-TATTATATATATT-TTTATTTCTAT-TTAAAAT
1 TATTTTTATATTATCTATTAT-TATATTATCTATTTATATATTAAAAT
*
120823586 TAATTTTAT
1 TATTTTTAT
120823595 TGACATATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 14 0.30
45 15 0.32
46 9 0.19
47 9 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (47 bp):
TATTTTTATATTATCTATTATTATATTATCTATTTATATATTAAAAT
Found at i:120824043 original size:28 final size:29
Alignment explanation
Indices: 120823993--120824054 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 29
120823983 AGATAAACCA
120823993 ATCATAATTAAAAAAATATATTATATTAT
1 ATCATAATTAAAAAAATATATTATATTAT
120824022 ATCATAATTAAAAAAA-ATATTATATTAT
1 ATCATAATTAAAAAAATATATTATATTAT
120824050 ATCAT
1 ATCAT
120824055 TTTAAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 17 0.52
29 16 0.48
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (29 bp):
ATCATAATTAAAAAAATATATTATATTAT
Found at i:120824127 original size:8 final size:8
Alignment explanation
Indices: 120824070--120824141 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
120824060 ATTTAATAAT
120824070 AAAAAATAA
1 AAAAAAT-A
120824079 AACAAAATA
1 AA-AAAATA
*
120824088 AACAAAATG
1 AA-AAAATA
* *
120824097 AAATAAGA
1 AAAAAATA
120824105 AAAACAATCA
1 AAAA-AAT-A
*
120824115 AAAAAGTA
1 AAAAAATA
120824123 AAAAAATA
1 AAAAAATA
*
120824131 AAAAGATA
1 AAAAAATA
120824139 AAA
1 AAA
120824142 TTTATTAAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
8 24 0.47
9 17 0.33
10 10 0.20
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:120824209 original size:17 final size:16
Alignment explanation
Indices: 120824161--120824209 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
120824151 GAACAAAATA
*
120824161 AAAAAGTAAAAAAAAG
1 AAAAAGAAAAAAAAAG
* *
120824177 AAATATGAAAATAAAAG
1 AAA-AAGAAAAAAAAAG
120824194 AAAAAGAAAACAAAAA
1 AAAAAGAAAA-AAAAA
120824210 TGTGTCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:120824490 original size:29 final size:27
Alignment explanation
Indices: 120824437--120824492 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
120824427 TTTTACTGTA
*
120824437 AAAAATGGATTATTTTTGTATTTAATT
1 AAAAATGGATTATTTTTGTAATTAATT
120824464 AAAAATGTGAGTTA-TTTTGATAATTAATT
1 AAAAATG-GA-TTATTTTTG-TAATTAATT
120824493 TATTTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 7 0.28
28 7 0.28
29 11 0.44
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (27 bp):
AAAAATGGATTATTTTTGTAATTAATT
Found at i:120824565 original size:44 final size:44
Alignment explanation
Indices: 120824509--120824593 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
120824499 TTTGAGTTAA
120824509 TTTAATAAAAAAGCCAACAAAATGATGAAATAAATAATTAATAG
1 TTTAATAAAAAAGCCAACAAAATGATGAAATAAATAATTAATAG
*
120824553 TTTAATAAAAAAGCTAACAAAATGATGAAATAAATAATTAA
1 TTTAATAAAAAAGCCAACAAAATGATGAAATAAATAATTAA
120824594 ACTATCTCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (44 bp):
TTTAATAAAAAAGCCAACAAAATGATGAAATAAATAATTAATAG
Found at i:120825048 original size:17 final size:17
Alignment explanation
Indices: 120825008--120825051 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
120824998 AAATTAATAG
*
120825008 ATTATAA-TATATTTTA
1 ATTATAATTATAATTTA
*
120825024 TTTA-AATTATAATTTA
1 ATTATAATTATAATTTA
120825040 ATTATAATTATA
1 ATTATAATTATA
120825052 GTAGTGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 2 0.09
16 14 0.61
17 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATAATTATAATTTA
Found at i:120833316 original size:30 final size:30
Alignment explanation
Indices: 120833274--120833361 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
120833264 GAAAAATGAA
*
120833274 ATAT-CAGATCTTCCCAAGATCCTAAACGAG
1 ATATCCAG-TCTTCTCAAGATCCTAAACGAG
* **
120833304 ATATCCAGTCTTCTTAA-ACTCCTAAATAAG
1 ATATCCAGTCTTCTCAAGA-TCCTAAACGAG
* *
120833334 ATATCGAGTCTTCTCAAGTTCCTAAACG
1 ATATCCAGTCTTCTCAAGATCCTAAACG
120833362 TCCTCATAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
29 1 0.02
30 42 0.91
31 3 0.07
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (30 bp):
ATATCCAGTCTTCTCAAGATCCTAAACGAG
Found at i:120837446 original size:6 final size:6
Alignment explanation
Indices: 120837425--120837464 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
120837415 CTCGGCTCCC
* *
120837425 ATTTTT AGTATT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
120837465 AATTCATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:120842547 original size:20 final size:20
Alignment explanation
Indices: 120842524--120842570 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
120842514 ATTAATATTT
120842524 AATTAATAATAT-TATTTAAA
1 AATTAATAATATATA-TTAAA
120842544 AATTTAA-AATATATATTAAA
1 AA-TTAATAATATATATTAAA
120842564 AA-TAATA
1 AATTAATA
120842571 TAAATTAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 14 0.58
21 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTAATAATATATATTAAA
Found at i:120842560 original size:21 final size:20
Alignment explanation
Indices: 120842526--120842566 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
120842516 TAATATTTAA
120842526 TTAATAATATTATTTAAAAAT
1 TTAATAATATTA-TTAAAAAT
120842547 TTAA-AATATATATTAAAAAT
1 TTAATAATAT-TATTAAAAAT
120842567 AATATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATAATATTATTAAAAAT
Found at i:120843230 original size:3 final size:3
Alignment explanation
Indices: 120843222--120843247 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
120843212 AATAATTCAT
120843222 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
120843248 TTTATCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:120849881 original size:18 final size:17
Alignment explanation
Indices: 120849840--120849881 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
120849830 GATACTATGA
* *
120849840 TAATATTTTTTTTATTT
1 TAATATATTTTTCATTT
120849857 TAA-ATATTTTTCATTT
1 TAATATATTTTTCATTT
120849873 GTAATATAT
1 -TAATATAT
120849882 AATTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 6 0.29
18 4 0.19
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TAATATATTTTTCATTT
Found at i:120852166 original size:30 final size:32
Alignment explanation
Indices: 120852132--120852190 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
120852122 TTTTATTTTA
*
120852132 TTTTTGGTCACTT-AATTAT-TTA-ATTTTGTC
1 TTTTTGATCA-TTCAATTATCTTAGATTTTGTC
120852162 TTTTTGATCATTCAATTATCTTAGATTTT
1 TTTTTGATCATTCAATTATCTTAGATTTT
120852191 TTGGTGTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 15 0.60
31 3 0.12
32 5 0.20
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (32 bp):
TTTTTGATCATTCAATTATCTTAGATTTTGTC
Found at i:120852586 original size:31 final size:31
Alignment explanation
Indices: 120852551--120852610 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
120852541 TCTTTTTTAA
* **
120852551 TTAAATTTGACCCTCAATTTTTTTAAAAAGG
1 TTAAATTTGACCATCAACCTTTTTAAAAAGG
120852582 TTAAATTTGACCATCAACCTTTTTAAAAA
1 TTAAATTTGACCATCAACCTTTTTAAAAA
120852611 TAGTCCAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (31 bp):
TTAAATTTGACCATCAACCTTTTTAAAAAGG
Found at i:120855089 original size:31 final size:31
Alignment explanation
Indices: 120855051--120855110 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
120855041 TCTCTCTTTT
120855051 ATATTAAATATCTTAAATAAAATGAAATACC
1 ATATTAAATATCTTAAATAAAATGAAATACC
*
120855082 ATATTAAATATCTTAAATAACATGAAATA
1 ATATTAAATATCTTAAATAAAATGAAATA
120855111 TTTGATTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.33
Consensus pattern (31 bp):
ATATTAAATATCTTAAATAAAATGAAATACC
Found at i:120857974 original size:5 final size:5
Alignment explanation
Indices: 120857948--120858005 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
120857938 TATGTGTTAA
* *
120857948 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
120857997 ATATT ATAT
1 ATATT ATAT
120858006 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:120857984 original size:10 final size:9
Alignment explanation
Indices: 120857949--120858006 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
120857939 ATGTGTTAAA
120857949 TATATATAT
1 TATATATAT
*
120857958 TAAAT-TAT
1 TATATATAT
120857966 TAT-TATAT
1 TATATATAT
120857974 TATAGTATAT
1 TATA-TATAT
120857984 TATAT-TA-
1 TATATATAT
120857991 TATATTATAT
1 TATA-TATAT
120858001 TATATA
1 TATATA
120858007 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:120857996 original size:12 final size:12
Alignment explanation
Indices: 120857951--120858006 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
120857941 GTGTTAAATA
*
120857951 TATATATTAAAT
1 TATATATTATAT
120857963 TAT-TATTATATT
1 TATATATTATA-T
120857975 ATAGTATATTATAT
1 -TA-TATATTATAT
120857989 TATATATTATAT
1 TATATATTATAT
120858001 TATATA
1 TATATA
120858007 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:120859342 original size:18 final size:19
Alignment explanation
Indices: 120859321--120859359 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
120859311 ATATATAGAT
120859321 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
120859339 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
120859358 AT
1 AT
120859360 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:120859709 original size:39 final size:39
Alignment explanation
Indices: 120859599--120859733 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
120859589 GACCTCGAGT
* * * *
120859599 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
120859640 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
120859678 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
120859717 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
120859734 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:120859877 original size:18 final size:19
Alignment explanation
Indices: 120859856--120859896 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
120859846 AATGAAATGA
120859856 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
120859874 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
120859893 GAAA
1 GAAA
120859897 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:120864352 original size:11 final size:12
Alignment explanation
Indices: 120864328--120864387 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 12
120864318 TTTTTATGTG
*
120864328 TTAAAATATATA
1 TTAAATTATATA
120864340 TTAAATTAT-TA
1 TTAAATTATATA
*
120864351 TTATATTATAGATA
1 TTAAATTAT--ATA
*
120864365 TTATATTATATA
1 TTAAATTATATA
*
120864377 -TATATTATATA
1 TTAAATTATATA
120864388 AATAAGTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
11 21 0.49
12 11 0.26
14 11 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TTAAATTATATA
Found at i:120864365 original size:25 final size:25
Alignment explanation
Indices: 120864337--120864385 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
120864327 GTTAAAATAT
120864337 ATATTAAATTAT-TATTATATTATAG
1 ATATTAAATTATATA-TATATTATAG
*
120864362 ATATTATATTATATATATATTATA
1 ATATTAAATTATATATATATTATA
120864386 TAAATAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATATTAAATTATATATATATTATAG
Found at i:120864368 original size:14 final size:14
Alignment explanation
Indices: 120864349--120864379 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
120864339 ATTAAATTAT
120864349 TATTATATTATAGA
1 TATTATATTATAGA
*
120864363 TATTATATTATATA
1 TATTATATTATAGA
120864377 TAT
1 TAT
120864380 ATTATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TATTATATTATAGA
Found at i:120864376 original size:16 final size:15
Alignment explanation
Indices: 120864349--120864386 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
120864339 ATTAAATTAT
120864349 TATTATA-TTATAGA
1 TATTATATTTATAGA
*
120864363 TATTATATTATATATA
1 TATTATATT-TATAGA
120864379 TATTATAT
1 TATTATAT
120864387 AAATAAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 1 0.05
16 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTATATTTATAGA
Found at i:120865717 original size:18 final size:19
Alignment explanation
Indices: 120865696--120865734 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
120865686 ATATATAGAT
120865696 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
120865714 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
120865733 AT
1 AT
120865735 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:120866249 original size:18 final size:19
Alignment explanation
Indices: 120866228--120866268 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
120866218 AATGAAATGA
120866228 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
120866246 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
120866265 GAAA
1 GAAA
120866269 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:120868014 original size:12 final size:12
Alignment explanation
Indices: 120867997--120868053 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
120867987 TCAAATACAT
120867997 TTAAAACAAATA
1 TTAAAACAAATA
*
120868009 TTAAAACAAAAAA
1 TTAAAAC-AAATA
* *
120868022 ATAAAA-ATATA
1 TTAAAACAAATA
* *
120868033 TTAAAACAATTT
1 TTAAAACAAATA
120868045 TTAAAACAA
1 TTAAAACAA
120868054 TACACAAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
11 8 0.23
12 18 0.51
13 9 0.26
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (12 bp):
TTAAAACAAATA
Found at i:120868095 original size:26 final size:27
Alignment explanation
Indices: 120868065--120868138 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 27
120868055 ACACAAATTG
*
120868065 AAAATATAATAAAAAT-TAATTAT-ATT
1 AAAATATAA-AAAAATATAAATATGATT
120868091 AAAAT-TAAAAAAATATAAATATGATT
1 AAAATATAAAAAAATATAAATATGATT
*
120868117 AAAA-ATAAAAAAATATATATAT
1 AAAATATAAAAAAATATAAATAT
120868139 ATTTAGTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.14
25 9 0.21
26 28 0.65
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (27 bp):
AAAATATAAAAAAATATAAATATGATT
Found at i:120868130 original size:20 final size:20
Alignment explanation
Indices: 120868094--120868132 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
120868084 TTATATTAAA
*
120868094 ATTAAAAAAATATAAATATG
1 ATTAAAAAAATAAAAATATG
120868114 ATTAAAAATAA-AAAAATAT
1 ATTAAAAA-AATAAAAATAT
120868133 ATATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
ATTAAAAAAATAAAAATATG
Found at i:120869662 original size:15 final size:15
Alignment explanation
Indices: 120869642--120869676 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
120869632 TTTAATCATT
*
120869642 TATAAATTATAAAAA
1 TATAAACTATAAAAA
120869657 TATAAACTATAAAAA
1 TATAAACTATAAAAA
120869672 T-TAAA
1 TATAAA
120869677 ATTTCATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:120876273 original size:13 final size:12
Alignment explanation
Indices: 120876240--120876279 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
120876230 CACGATCATT
*
120876240 AAAATATATGAA
1 AAAATATATAAA
120876252 AAAAT-TATAAA
1 AAAATATATAAA
120876263 AATAATATATAAA
1 AA-AATATATAAA
120876276 AAAA
1 AAAA
120876280 ACATACTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 7 0.28
12 10 0.40
13 8 0.32
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAATATATAAA
Found at i:120879241 original size:12 final size:13
Alignment explanation
Indices: 120879224--120879252 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
120879214 AATGATTTGC
120879224 AAAG-AAGATAAA
1 AAAGAAAGATAAA
120879236 AAAGAAAGATAAA
1 AAAGAAAGATAAA
120879249 AAAG
1 AAAG
120879253 CAAAAGACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
AAAGAAAGATAAA
Found at i:120880957 original size:2 final size:2
Alignment explanation
Indices: 120880952--120880991 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
120880942 TAATATATTT
120880952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
120880992 AAAGAGGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120884715 original size:29 final size:28
Alignment explanation
Indices: 120884683--120884737 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
120884673 GAATATGTTA
* *
120884683 TAAAAAATATTTGTATTAATTATATATGT
1 TAAAAAATAATTATATTAA-TATATATGT
* *
120884712 TAAATAATAATTATATTTATATATAT
1 TAAAAAATAATTATATTAATATATAT
120884738 TTATATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 7 0.32
29 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (28 bp):
TAAAAAATAATTATATTAATATATATGT
Found at i:120884910 original size:14 final size:14
Alignment explanation
Indices: 120884891--120884928 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
120884881 GTTTGCCAGT
*
120884891 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
120884905 AAAATGATTTCTGG
1 AAAATGATTTCCGG
120884919 AAAATGATTT
1 AAAATGATTT
120884929 ACTTTTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:120885077 original size:20 final size:20
Alignment explanation
Indices: 120885052--120885090 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
120885042 TTTATTACAT
120885052 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
120885072 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
120885091 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:120887669 original size:2 final size:2
Alignment explanation
Indices: 120887657--120887687 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
120887647 ACATACATAT
*
120887657 AC AC AC TC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
120887688 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.48, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:120887952 original size:40 final size:40
Alignment explanation
Indices: 120887908--120887993 Score: 156
Period size: 40 Copynumber: 2.1 Consensus size: 40
120887898 CCCGGATGTC
120887908 ATTCCAGCACGAAGCCTGCT-GGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTG-TGGGTCTTTAAGCCCGGATACA
120887948 ATTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACA
120887988 ATTCCA
1 ATTCCA
120887994 CATCAAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACA
Found at i:120891812 original size:33 final size:33
Alignment explanation
Indices: 120891743--120891837 Score: 93
Period size: 33 Copynumber: 2.9 Consensus size: 33
120891733 ATATTTTCAC
* * **
120891743 AGCTCACACATTACTACAGCTCACACATTA-CAT
1 AGCTCACACATTAC-ACAACTCACACATCATTGT
** *
120891776 AGCTTGCACATTACACAACTCGCACATCATTGT
1 AGCTCACACATTACACAACTCACACATCATTGT
* *
120891809 AGCTCATACATTACACAGCTCACACATCA
1 AGCTCACACATTACACAACTCACACATCA
120891838 CTATGACTCG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
32 12 0.24
33 37 0.76
ACGTcount: A:0.35, C:0.33, G:0.08, T:0.24
Consensus pattern (33 bp):
AGCTCACACATTACACAACTCACACATCATTGT
Found at i:120891830 original size:16 final size:16
Alignment explanation
Indices: 120891740--120891835 Score: 84
Period size: 16 Copynumber: 5.9 Consensus size: 16
120891730 CACATATTTT
120891740 CACAGCTCACACATTA
1 CACAGCTCACACATTA
120891756 CTACAGCTCACACATTA
1 C-ACAGCTCACACATTA
* **
120891773 CATAGCTTGCACATTA
1 CACAGCTCACACATTA
* * *
120891789 CACAACTCGCACATCA
1 CACAGCTCACACATTA
*** *
120891805 TTGTAGCTCATACATTA
1 -CACAGCTCACACATTA
120891822 CACAGCTCACACAT
1 CACAGCTCACACAT
120891836 CACTATGACT
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
16 35 0.58
17 25 0.42
ACGTcount: A:0.34, C:0.33, G:0.08, T:0.24
Consensus pattern (16 bp):
CACAGCTCACACATTA
Found at i:120898582 original size:38 final size:40
Alignment explanation
Indices: 120898528--120898694 Score: 194
Period size: 46 Copynumber: 3.9 Consensus size: 40
120898518 TCTGATATGA
120898528 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
120898568 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
120898611 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
120898652 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
120898695 ATGACAGAAA
Statistics
Matches: 111, Mismatches: 2, Indels: 22
0.82 0.01 0.16
Matches are distributed among these distances:
38 35 0.32
39 1 0.01
40 1 0.01
41 5 0.05
43 2 0.02
44 2 0.02
45 1 0.01
46 64 0.58
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:120898636 original size:46 final size:46
Alignment explanation
Indices: 120898571--120898743 Score: 240
Period size: 46 Copynumber: 3.8 Consensus size: 46
120898561 CAACCTGAGT
* *
120898571 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
*
120898617 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
** *
120898663 ACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGA
* * * *
120898709 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
120898744 TCAAAGATAA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 113 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
Found at i:120899637 original size:16 final size:16
Alignment explanation
Indices: 120899616--120899694 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 16
120899606 AGTCATAGTG
120899616 ATGTGTGAGCTGTGTA
1 ATGTGTGAGCTGTGTA
*** *
120899632 ATGTGTGAGCTACAATG
1 ATGTGTGAGCT-GTGTA
* *
120899649 ATGTGCGAGTTGTGTA
1 ATGTGTGAGCTGTGTA
** *
120899665 ATGTGCAAGCTATGTA
1 ATGTGTGAGCTGTGTA
120899681 ATGTGTGAGCTGTG
1 ATGTGTGAGCTGTG
120899695 AAAATATGTG
Statistics
Matches: 46, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
16 36 0.78
17 10 0.22
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (16 bp):
ATGTGTGAGCTGTGTA
Found at i:120899676 original size:33 final size:33
Alignment explanation
Indices: 120899614--120899676 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
120899604 CGAGTCATAG
* **
120899614 TGATGTGTGAGCTGTGTAATGTGTGAGCTACAA
1 TGATGTGCGAGCTGTGTAATGTGCAAGCTACAA
*
120899647 TGATGTGCGAGTTGTGTAATGTGCAAGCTA
1 TGATGTGCGAGCTGTGTAATGTGCAAGCTA
120899677 TGTAATGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (33 bp):
TGATGTGCGAGCTGTGTAATGTGCAAGCTACAA
Found at i:120903485 original size:40 final size:40
Alignment explanation
Indices: 120903440--120903525 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
120903430 TTATTTGATG
*
120903440 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCAGCAGGCTTCATGC
*
120903480 TGGAATTGTATCCGGGCTTAAAGACCAGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCAGCAGGCTTCATGC
120903520 TGGAAT
1 TGGAAT
120903526 GACATCCGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCAGCAGGCTTCATGC
Found at i:120903552 original size:39 final size:40
Alignment explanation
Indices: 120903440--120903540 Score: 143
Period size: 40 Copynumber: 2.5 Consensus size: 40
120903430 TTATTTGATG
* *
120903440 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGC
1 TGGAATTGCATCCGGGCTTAAAGACCAGCAGGCTTCATGC
* *
120903480 TGGAATTGTATCCGGGCTTAAAGACCAGCAGGCTTCGTGC
1 TGGAATTGCATCCGGGCTTAAAGACCAGCAGGCTTCATGC
120903520 TGGAA-TGACATCCGGG-TTAAA
1 TGGAATTG-CATCCGGGCTTAAA
120903541 AATCTGCAGG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 7 0.12
40 50 0.88
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TGGAATTGCATCCGGGCTTAAAGACCAGCAGGCTTCATGC
Found at i:120906369 original size:22 final size:20
Alignment explanation
Indices: 120906326--120906364 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
120906316 CAATTTAAAA
*
120906326 TATAAAAATTTATTAATATG
1 TATATAAATTTATTAATATG
120906346 TATATAAATTTATTAATAT
1 TATATAAATTTATTAATAT
120906365 ATGTAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATAAATTTATTAATATG
Found at i:120906424 original size:32 final size:32
Alignment explanation
Indices: 120906388--120906474 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
120906378 AACTTTTACG
120906388 GAAAATATTTTCAGAAAATC-TGCCAAACAACA
1 GAAAATATTTTCAGAAAATCAT-CCAAACAACA
* *** *
120906420 GAAAATATTTTACACAGCTTCATCCAAACACCA
1 GAAAATATTTT-CAGAAAATCATCCAAACAACA
*
120906453 GAAAATATTTTCAGTAAATCAT
1 GAAAATATTTTCAGAAAATCAT
120906475 TTTCCAGAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
32 17 0.40
33 25 0.58
34 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAGAAAATCATCCAAACAACA
Found at i:120906490 original size:20 final size:20
Alignment explanation
Indices: 120906465--120906504 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
120906455 AAATATTTTC
120906465 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
120906485 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
120906505 TCATTTTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:120906506 original size:34 final size:33
Alignment explanation
Indices: 120906455--120906519 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
120906445 AAACACCAGA
120906455 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
1 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
*
120906488 AAATCATTTTCCAG-AAATCATTTTCCGGAAAA
1 AAAT-ATTTT-CAGTAAATCATTTTCCAGAAAA
120906520 CATTTTACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.76
35 3 0.10
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (33 bp):
AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
Found at i:120906507 original size:14 final size:14
Alignment explanation
Indices: 120906488--120906525 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
120906478 CCAGAAAAGT
120906488 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
120906502 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
120906516 AAAACATTTT
1 AAATCATTTT
120906526 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:120916974 original size:11 final size:11
Alignment explanation
Indices: 120916958--120916984 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
120916948 ACCCAGAAAT
120916958 AATCCAAATGC
1 AATCCAAATGC
120916969 AATCCAAATGC
1 AATCCAAATGC
120916980 AATCC
1 AATCC
120916985 TTGAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.30, G:0.07, T:0.19
Consensus pattern (11 bp):
AATCCAAATGC
Found at i:120919561 original size:173 final size:173
Alignment explanation
Indices: 120919272--120919625 Score: 690
Period size: 173 Copynumber: 2.0 Consensus size: 173
120919262 TTTTTTAAAT
*
120919272 TAAAGAATCTTGTTAACATGAATCAATGGTTAGTAAAGATAGACATAATAATGATAAAATGCAAA
1 TAAAGAATCTTGTTAACATGAATCAATGGTTAGTAAAGATAGACATAACAATGATAAAATGCAAA
120919337 TAAAAATTTTCACATATCTATGCTTGAAACAAGTAATCATTACAATGAACCAAACCTCTTTGTAC
66 TAAAAATTTTCACATATCTATGCTTGAAACAAGTAATCATTACAATGAACCAAACCTCTTTGTAC
120919402 ATAATGTTTGCTTCAAACTAGTCTTTTGATACTCAACAAGTTA
131 ATAATGTTTGCTTCAAACTAGTCTTTTGATACTCAACAAGTTA
120919445 TAAAGAATCTTGTTAACATGAATCAATGGTTAGTAAAGATAGACATAACAATGATAAAATGCAAA
1 TAAAGAATCTTGTTAACATGAATCAATGGTTAGTAAAGATAGACATAACAATGATAAAATGCAAA
120919510 TAAAAATTTTCACATATCTATGCTTGAAACAAGTAATCATTACAATGAACCAAACCTCTTTGTAC
66 TAAAAATTTTCACATATCTATGCTTGAAACAAGTAATCATTACAATGAACCAAACCTCTTTGTAC
120919575 ATAATGTTTGCTTCAAACTAGTCTTTTGATACTCAACAAGTTA
131 ATAATGTTTGCTTCAAACTAGTCTTTTGATACTCAACAAGTTA
120919618 TAAGAGAA
1 TAA-AGAA
120919626 AGTTACAAAA
Statistics
Matches: 179, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
173 175 0.98
174 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (173 bp):
TAAAGAATCTTGTTAACATGAATCAATGGTTAGTAAAGATAGACATAACAATGATAAAATGCAAA
TAAAAATTTTCACATATCTATGCTTGAAACAAGTAATCATTACAATGAACCAAACCTCTTTGTAC
ATAATGTTTGCTTCAAACTAGTCTTTTGATACTCAACAAGTTA
Found at i:120919744 original size:10 final size:10
Alignment explanation
Indices: 120919731--120919757 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
120919721 TCAATGAATG
120919731 AAATTCGATA
1 AAATTCGATA
120919741 AAATTCGATA
1 AAATTCGATA
120919751 AAATTCG
1 AAATTCG
120919758 TGATTTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (10 bp):
AAATTCGATA
Found at i:120921657 original size:8 final size:8
Alignment explanation
Indices: 120921644--120921674 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
120921634 TTCTTATATT
120921644 TTTTTTAC
1 TTTTTTAC
120921652 TTTTTTAAC
1 TTTTTT-AC
120921661 TTTTTTAC
1 TTTTTTAC
120921669 TTTTTT
1 TTTTTT
120921675 TCTTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAC
Found at i:120921657 original size:9 final size:9
Alignment explanation
Indices: 120921643--120921675 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
120921633 GTTCTTATAT
120921643 TTTTTTTAC
1 TTTTTTTAC
*
120921652 TTTTTTAAC
1 TTTTTTTAC
120921661 -TTTTTTAC
1 TTTTTTTAC
120921669 TTTTTTT
1 TTTTTTT
120921676 CTTATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:120921738 original size:18 final size:17
Alignment explanation
Indices: 120921717--120921764 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
120921707 TTTTTTAAGT
* *
120921717 TTTATATTATTTTCTTGA
1 TTTATATTATTAT-TTAA
*
120921735 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
120921753 TTTATATTATTA
1 TTTATATTATTA
120921765 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:120921821 original size:21 final size:21
Alignment explanation
Indices: 120921772--120921839 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
120921762 TTAATTTTAA
*
120921772 AAAATTTGT-AATA-TATATTTA
1 AAAATTT-TAAATATTAT-TTTT
120921793 AAATATTTTATAATATT-TTTTT
1 AAA-ATTTTA-AATATTATTTTT
*
120921815 AAAATTTTAATTATTATTTTT
1 AAAATTTTAAATATTATTTTT
120921836 AAAA
1 AAAA
120921840 ATATTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 5 0.12
21 19 0.47
22 10 0.25
23 5 0.12
24 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
AAAATTTTAAATATTATTTTT
Found at i:120921840 original size:22 final size:23
Alignment explanation
Indices: 120921753--120921841 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
120921743 ACTTATTTAA
* *
120921753 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAAAT
* * *
120921776 TTTGTAATA-TATATTTAAAATAT
1 TTTATATTATTATTTTTAAAA-AT
*
120921799 TTTATAATATT-TTTTT-AAAAT
1 TTTATATTATTATTTTTAAAAAT
120921820 TTTA-ATTATTATTTTTAAAAAT
1 TTTATATTATTATTTTTAAAAAT
120921842 ATTTTTTAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.09
21 11 0.20
22 17 0.31
23 20 0.37
24 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAAAT
Found at i:120921902 original size:36 final size:35
Alignment explanation
Indices: 120921862--120921930 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
120921852 TTTATATATA
*
120921862 TATTTGTGAAATTAATTATTTATAAATTTTAAAATG
1 TATTTGTCAAATTAATTATTTA-AAATTTTAAAATG
* *
120921898 TATTTTTCAAATTAATTTTTTAAAATTTTAAAA
1 TATTTGTCAAATTAATTATTTAAAATTTTAAAA
120921931 AAATAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 11 0.37
36 19 0.63
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (35 bp):
TATTTGTCAAATTAATTATTTAAAATTTTAAAATG
Found at i:120922272 original size:22 final size:23
Alignment explanation
Indices: 120922247--120922296 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
120922237 CTTATTATTA
* * *
120922247 ATTTTAAAAGTT-TGTAATGTAT
1 ATTTGAAAAGTTCTATAATATAT
*
120922269 ATTTGAAATGTTCTATAATATAT
1 ATTTGAAAAGTTCTATAATATAT
120922292 ATTTG
1 ATTTG
120922297 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (23 bp):
ATTTGAAAAGTTCTATAATATAT
Found at i:120922532 original size:41 final size:42
Alignment explanation
Indices: 120922478--120922557 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
120922468 TTTTTAATAA
* *
120922478 TATAAAACATTTAAACAT-TT-AA-ATTTTTAAATAAAATTTG
1 TATAAAAAATTTAAA-ATGTTAAATATTTTTAAAAAAAATTTG
120922518 TATAAAAAATTTTAAAATGTTAAATATTTTTAAAAAAAAT
1 TATAAAAAA-TTTAAAATGTTAAATATTTTTAAAAAAAAT
120922558 AAAAATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 10 0.29
41 8 0.24
42 2 0.06
43 14 0.41
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (42 bp):
TATAAAAAATTTAAAATGTTAAATATTTTTAAAAAAAATTTG
Done.