Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 274 of 352
Found at i:89814225 original size:78 final size:75
Alignment explanation
Indices: 89814088--89814352 Score: 253
Period size: 78 Copynumber: 3.4 Consensus size: 75
89814078 CGGCACAGAT
* * * *
89814088 CCTGACAACAAATCACCTACACGAAGCCTGACAGTAAATCACCGACACAGAG-CTAGACAGTAAA
1 CCTGACAATAAATCACCGACACAAAGCCTGACAGTAAATCACAG-CACA-AGCCT-GACAGTAAA
*
89814152 TCATCAACACGAAG
63 TCATCGACAC-AAG
* * *
89814166 CCTGACAATAAATCACCGATACGAAGCCTGATAGTAAATCATCAGCACGAAGCCTGACAGTAAAT
1 CCTGACAATAAATCACCGACACAAAGCCTGACAGTAAATCA-CAGCAC-AAGCCTGACAGTAAAT
* *
89814231 AATCGGCACAGAG
64 CATCGACACA-AG
* * * * * *
89814244 CCTGATAGTAAATCATCGGCACAAATCCTGACAGTAAATCACCAGCACAAAGCCTGACAATAAAT
1 CCTGACAATAAATCACCGACACAAAGCCTGACAGTAAATCA-CAGCAC-AAGCCTGACAGTAAAT
89814309 CATCGACACAAAG
64 CATCGACAC-AAG
* * * *
89814322 CCTAACAGTAAATCACTGGCACAAAGCCTGA
1 CCTGACAATAAATCACCGACACAAAGCCTGA
89814353 TAGAATATTT
Statistics
Matches: 156, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
77 1 0.01
78 149 0.96
79 6 0.04
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.15
Consensus pattern (75 bp):
CCTGACAATAAATCACCGACACAAAGCCTGACAGTAAATCACAGCACAAGCCTGACAGTAAATCA
TCGACACAAG
Found at i:89814980 original size:17 final size:17
Alignment explanation
Indices: 89814958--89814995 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
89814948 ACAAGTCCTT
89814958 ACATTTTTA-TCACTTTA
1 ACATTTTTAGTCA-TTTA
89814975 ACA-TTTTAGTCATTTA
1 ACATTTTTAGTCATTTA
89814991 ACATT
1 ACATT
89814996 AAAATTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (17 bp):
ACATTTTTAGTCATTTA
Found at i:89816836 original size:18 final size:18
Alignment explanation
Indices: 89816813--89816857 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
89816803 TTATTTTTTT
*
89816813 AAATTAATTTTTTTAAAAA
1 AAATTAA-TTATTTAAAAA
*
89816832 AATTATAATTATTTAAAAA
1 AAAT-TAATTATTTAAAAA
89816851 AAATTAA
1 AAATTAA
89816858 AAAATTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 3 0.14
19 16 0.73
20 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTAATTATTTAAAAA
Found at i:89816850 original size:20 final size:20
Alignment explanation
Indices: 89816817--89816856 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
89816807 TTTTTTAAAT
* *
89816817 TAATTTTTTTAAAAAAATTA
1 TAATTATTTAAAAAAAATTA
89816837 TAATTATTTAAAAAAAATTA
1 TAATTATTTAAAAAAAATTA
89816857 AAAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTATTTAAAAAAAATTA
Found at i:89821194 original size:21 final size:20
Alignment explanation
Indices: 89821170--89821218 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
89821160 ATTCTATTTG
89821170 GCCTTTGTGGAC-TTCTGATTA
1 GCCTTTGTGG-CTTTCTG-TTA
*
89821191 GCCTTGGTGGCTTTCTGTTA
1 GCCTTTGTGGCTTTCTGTTA
*
89821211 TCCTTTGT
1 GCCTTTGT
89821219 AGTGTACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.08, C:0.20, G:0.24, T:0.47
Consensus pattern (20 bp):
GCCTTTGTGGCTTTCTGTTA
Found at i:89824948 original size:67 final size:67
Alignment explanation
Indices: 89824840--89824972 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
89824830 TGAGCATATG
* *
89824840 TTACAGGGGATTTAACCTAGACTGGTAATCCTGCTATAAGAAATGAGGTTTGCGGGAGTGTGCTC
1 TTACAGGGGATTTAACCTAGACTGGTAATCCTACTATAAGAAATGAGGTTCGCGGGAGTGTGCTC
89824905 TC
66 TC
* *
89824907 TTACAGGGGATTTAGCCTAGACTGGTAATCCTACTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTACAGGGGATTTAACCTAGACTGGTAATCCTACTATAAGAAATGAGGTTCGCGGGAGTGTGCTC
89824972 T
66 T
89824973 TTGAAAAGGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (67 bp):
TTACAGGGGATTTAACCTAGACTGGTAATCCTACTATAAGAAATGAGGTTCGCGGGAGTGTGCTC
TC
Found at i:89825822 original size:32 final size:32
Alignment explanation
Indices: 89825785--89825846 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
89825775 TAGCCATTGA
89825785 TATGGCTTATATTTAGTAAGTTTTGAGTTATG
1 TATGGCTTATATTTAGTAAGTTTTGAGTTATG
89825817 TATGGCTTATATTTAGTAAGTTTTGAGTTA
1 TATGGCTTATATTTAGTAAGTTTTGAGTTA
89825847 CATATAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (32 bp):
TATGGCTTATATTTAGTAAGTTTTGAGTTATG
Found at i:89828939 original size:34 final size:34
Alignment explanation
Indices: 89828901--89828971 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
89828891 AATTTTGAGA
89828901 TAGTAAATTTTTATTTAATTTAAGGTTTCTGTTG
1 TAGTAAATTTTTATTTAATTTAAGGTTTCTGTTG
89828935 TAGTAAATTTTTATTTAATTTAAGGTTTCTGTTG
1 TAGTAAATTTTTATTTAATTTAAGGTTTCTGTTG
89828969 TAG
1 TAG
89828972 GAAGATTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (34 bp):
TAGTAAATTTTTATTTAATTTAAGGTTTCTGTTG
Found at i:89828986 original size:34 final size:33
Alignment explanation
Indices: 89828910--89828986 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 33
89828900 ATAGTAAATT
*
89828910 TTTA-TTTAATTTAAGGTTTCTGTTGTAGTAAA
1 TTTATTTTAATTTAAGGTTTCTGTTGTAGGAAA
*
89828942 TTTTTATTTAATTTAAGGTTTCTGTTGTAGGAAGA
1 TTTAT-TTTAATTTAAGGTTTCTGTTGTAGGAA-A
89828977 TTTATTTTAA
1 TTTATTTTAA
89828987 GAAATAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
32 3 0.08
34 31 0.79
35 5 0.13
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.55
Consensus pattern (33 bp):
TTTATTTTAATTTAAGGTTTCTGTTGTAGGAAA
Found at i:89848028 original size:165 final size:163
Alignment explanation
Indices: 89847839--89848154 Score: 479
Period size: 163 Copynumber: 1.9 Consensus size: 163
89847829 ATTGTGTATT
* * *
89847839 TTCTTTCTATAAATATTTGATCCTTTTGCTATCCAACCTATTAAAATTATTGTTTTATCTCTATG
1 TTCTTTCCATAAATATTTGATCCTTTTACTATCCAACCTATTAAAATTATTGTTTTATCTATATG
* *
89847904 ATAATAATTATTTAAGTAAATTAATATCACAAATTAATCGAGTAACAATTTAATTGAAAAATGGT
66 ATAATAA--ATTTAAGTAAATTAATATCACAAATTAATCGAGTAACAATTCAATTAAAAAATGGT
*
89847969 TAAAATTTTATTTTAATCAAATATTCAAATATATA
129 TAAAATCTTATTTTAATCAAATATTCAAATATATA
* * * * *
89848004 TTCTTTCCATAAATATTTGATCCTTTTATTGTCCAACCTTTTAAAATTATTGTTTTATCTATGTT
1 TTCTTTCCATAAATATTTGATCCTTTTACTATCCAACCTATTAAAATTATTGTTTTATCTATATG
* * * *
89848069 ATAATAAATTTAAGTGAATTAGTGTCACAAGTTAATCGAGTAACAATTCAATTAAAAAATGGTTA
66 ATAATAAATTTAAGTAAATTAATATCACAAATTAATCGAGTAACAATTCAATTAAAAAATGGTTA
89848134 AAATCTTATTTTAATCAAATA
131 AAATCTTATTTTAATCAAATA
89848155 ATATAGGGAT
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
163 72 0.53
165 64 0.47
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (163 bp):
TTCTTTCCATAAATATTTGATCCTTTTACTATCCAACCTATTAAAATTATTGTTTTATCTATATG
ATAATAAATTTAAGTAAATTAATATCACAAATTAATCGAGTAACAATTCAATTAAAAAATGGTTA
AAATCTTATTTTAATCAAATATTCAAATATATA
Found at i:89848447 original size:29 final size:30
Alignment explanation
Indices: 89848403--89848459 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
89848393 AAATTGAATC
89848403 AAATCAAAATATTATGTATAAAATTACACA
1 AAATCAAAATATTATGTATAAAATTACACA
* *
89848433 AAATTAAAAT-TTATGTATAATATTACA
1 AAATCAAAATATTATGTATAAAATTACA
89848460 GGTTAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (30 bp):
AAATCAAAATATTATGTATAAAATTACACA
Found at i:89849892 original size:30 final size:28
Alignment explanation
Indices: 89849858--89849919 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
89849848 TTAACAATAA
*
89849858 GAGTTTATTTTTAATTTTATTTA-TGAAAAT
1 GAGTTTATTTTT--TATTATTTACT-AAAAT
89849888 GAG-TTATTTTTTATTATTTACTAAAAT
1 GAGTTTATTTTTTATTATTTACTAAAAT
89849915 GAGTT
1 GAGTT
89849920 GAAAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
27 16 0.55
28 2 0.07
29 8 0.28
30 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (28 bp):
GAGTTTATTTTTTATTATTTACTAAAAT
Found at i:89850234 original size:34 final size:33
Alignment explanation
Indices: 89850203--89850303 Score: 132
Period size: 34 Copynumber: 3.0 Consensus size: 33
89850193 AAATAAATCG
*
89850203 AGGTTTAGAGTTTTTAAAAAAATCAATTAAATT
1 AGGTTTAGAGTTTTTAAAAAAATTAATTAAATT
*
89850236 AGGTTTTAAGAG-TTTTAAATAAATTAATTAAATT
1 AGG-TTT-AGAGTTTTTAAAAAAATTAATTAAATT
* *
89850270 AGGGTTCAGAGTTTTTAAGAAAATTAATTAAATT
1 A-GGTTTAGAGTTTTTAAAAAAATTAATTAAATT
89850304 TGGGTTTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
33 7 0.12
34 46 0.78
35 6 0.10
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.41
Consensus pattern (33 bp):
AGGTTTAGAGTTTTTAAAAAAATTAATTAAATT
Found at i:89850808 original size:127 final size:126
Alignment explanation
Indices: 89850424--89850921 Score: 647
Period size: 126 Copynumber: 4.0 Consensus size: 126
89850414 TCAGAATAAT
* ** * * *
89850424 TAATTTTGAGAAAACGGTTCTGAAATGATAATGTCAAAAACGCTTCAAGCAAGATGCACTGTCAA
1 TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* * *
89850489 CAAAATTTCT-AAAAAAACTCCCACATGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
66 CAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
* * * *
89850549 TAATTTTGAGAAGACGATTTTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCATTGTCAG
1 TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* *
89850614 CAAAATTACTGAAAAAAGTTCCCATGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
66 CAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
*
89850675 TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAG
1 TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* * **
89850740 CAAAATTACTGAAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTTTTGAAAAAA
66 CAAAATTACTG-AAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
* * ** * * ** *
89850802 TAATTTTAAGAAGACAGTAATGAAAAAATAGTGTAAAAAATACTTCAAGTAGGATGCACTGTCAA
1 TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* * * * * * * *
89850867 CCAATTTATTGGAAAAAGCTCTCACGTGAACGTTCTTTTTCTACAGTAGTTCCTG
66 CAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTG
89850922 CTTGGCCTTA
Statistics
Matches: 327, Mismatches: 44, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
125 64 0.20
126 156 0.48
127 107 0.33
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
CAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
Found at i:89850828 original size:253 final size:251
Alignment explanation
Indices: 89850424--89850921 Score: 665
Period size: 253 Copynumber: 2.0 Consensus size: 251
89850414 TCAGAATAAT
** * *
89850424 TAATTTTGAGAAAACGGTTCTGAAATGATAATGTCAAAAACGCTTCAAGCAAGATGCACTGTCAA
1 TAATTTTGAGAAAACGGTTCTGAAAAAATAATGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* *
89850489 CAAAATTTCTAAAAAAACTCCCACATGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAATAATT
66 CAAAATTACTAAAAAAACTCCCACATGGACACTCTATTTCTACAGTAGTTCCTGAAAAAATAATT
* ** * * *
89850554 TTGAGAAGACGATTTTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCATTGTCAGCAAAA
131 TTAAGAAGACGATAATGAAAAAATAGTGTAAAAAACACTTCAAACAAGATGCACTGTCAACAAAA
* * *
89850619 TTACTGAAAAAAGTTCCCATGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
196 TTACTGAAAAAAGCTCCCACGTGAACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
* * *
89850675 TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAG
1 TAATTTTGAGAAAACGGTTCTGAAAAAATAATGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* * **
89850740 CAAAATTACTGAAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTTTTGAAAAAATAA
66 CAAAATTACT-AAAAAAA-CTCCCACATGGACACTCTATTTCTACAGTAGTTCCTGAAAAAATAA
* ** * *
89850805 TTTTAAGAAGAC-AGTAATGAAAAAATAGTGTAAAAAATACTTCAAGTAGGATGCACTGTCAACC
129 TTTTAAGAAGACGA-TAATGAAAAAATAGTGTAAAAAACACTTCAAACAAGATGCACTGTCAACA
* * * * * *
89850869 AATTTATTGGAAAAAGCTCTCACGTGAACGTTCTTTTTCTACAGTAGTTCCTG
193 AAATTACTGAAAAAAGCTCCCACGTGAACGCTCTATTTCTACAGTAGTTCCTG
89850922 CTTGGCCTTA
Statistics
Matches: 211, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
251 67 0.32
252 8 0.04
253 136 0.64
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (251 bp):
TAATTTTGAGAAAACGGTTCTGAAAAAATAATGTCAAAAACACTTCAAACAAGATGCACTGTCAA
CAAAATTACTAAAAAAACTCCCACATGGACACTCTATTTCTACAGTAGTTCCTGAAAAAATAATT
TTAAGAAGACGATAATGAAAAAATAGTGTAAAAAACACTTCAAACAAGATGCACTGTCAACAAAA
TTACTGAAAAAAGCTCCCACGTGAACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
Found at i:89855061 original size:47 final size:47
Alignment explanation
Indices: 89855007--89855247 Score: 383
Period size: 47 Copynumber: 5.1 Consensus size: 47
89854997 ATAGGATTTT
** * *
89855007 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
89855054 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
89855101 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
89855148 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
89855195 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
89855242 ATGTGA
1 ATGTGA
89855248 AATATGTATG
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:89855082 original size:25 final size:25
Alignment explanation
Indices: 89855054--89855132 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
89855044 CGAATGGCCA
89855054 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
89855079 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
89855101 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
89855126 ATGTGAT
1 ATGTGAT
89855133 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 15 0.37
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:89855107 original size:22 final size:22
Alignment explanation
Indices: 89855036--89855154 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
89855026 GTATATATGA
89855036 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
89855058 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
89855083 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
89855105 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
89855130 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
89855152 GAT
1 GAT
89855155 GAATGTGAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:89855203 original size:25 final size:25
Alignment explanation
Indices: 89855128--89855203 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
89855118 ATGCATATAT
89855128 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
89855153 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
89855175 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
89855200 GTGA
1 GTGA
89855204 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:89855380 original size:52 final size:48
Alignment explanation
Indices: 89855217--89855403 Score: 295
Period size: 48 Copynumber: 3.8 Consensus size: 48
89855207 TGAACATGCA
89855217 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
89855265 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
89855313 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
*
89855365 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
89855404 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 12
0.88 0.03 0.08
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 1 0.01
50 2 0.02
51 1 0.01
52 41 0.32
53 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:89855386 original size:100 final size:96
Alignment explanation
Indices: 89855218--89855403 Score: 302
Period size: 100 Copynumber: 1.9 Consensus size: 96
89855208 GAACATGCAT
*
89855218 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
89855283 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
89855314 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATATATGAGATATGTATATGTGGTAAA
*
89855378 GCCGAATGGCTAGTGTGAAATATGTA
61 GCCGAATGGCTAATGTGAAATATGTA
89855404 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
98 1 0.01
99 1 0.01
100 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:89855657 original size:37 final size:37
Alignment explanation
Indices: 89855549--89855657 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
89855539 GGAAATATAT
*
89855549 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTGTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
89855586 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
89855623 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
89855658 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:89865764 original size:14 final size:15
Alignment explanation
Indices: 89865740--89865796 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
89865730 AGACCTTGAA
*
89865740 AAAAATCAAAAGAA-
1 AAAAATAAAAAGAAG
* *
89865754 AAAAATAAAAATAAT
1 AAAAATAAAAAGAAG
*
89865769 AAAAAAAAAGAAGAAG
1 AAAAATAAA-AAGAAG
89865785 AAAAATTAAAAA
1 AAAAA-TAAAAA
89865797 AATACAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 12 0.35
15 8 0.24
16 11 0.32
17 3 0.09
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAAGAAG
Found at i:89867084 original size:66 final size:66
Alignment explanation
Indices: 89866905--89867104 Score: 278
Period size: 66 Copynumber: 3.0 Consensus size: 66
89866895 AGATCATTCT
89866905 CATAACACATCTAGTTAGGAGCATTTGATTCATTTTTGATCATAGCATCCTAATTATTTGACATA
1 CATAACACATCTAGTTAGGAGCATTTGATTCA-TTTTGATCATAGCATCCTAATTATTTGACATA
89866970 AA
65 AA
* * * *
89866972 CAT--CACATCTAGTTAGGTGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATCA
1 CATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAA
*
89867035 G
66 A
* * * * * *
89867036 CATAATACATCTAGTTAGGAGTATTTGATTTATTTTGATCATAACATCCTAATCATTTGGCATAA
1 CATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAA
89867101 A
66 A
89867102 CAT
1 CAT
89867105 GATACATGAA
Statistics
Matches: 115, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
64 34 0.30
65 25 0.22
66 53 0.46
67 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (66 bp):
CATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAA
A
Found at i:89868232 original size:131 final size:130
Alignment explanation
Indices: 89868036--89868288 Score: 375
Period size: 131 Copynumber: 1.9 Consensus size: 130
89868026 TAAGCCTCAA
* *
89868036 AGCCTCATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGAATGAGTCTTATCTTCCTAAGATAGC
1 AGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGATAGC
* * *
89868101 AAGGAAACAGACTGAGATTTGAAGATCTTATTTCACTAAGACAGTAGTGGAGCAGATTTTATTAC
66 AAGGAAACAGACTGAGAATTGAAGATCTTATCTCACTAA-ACAGTAGCGGAGCAGATTTTATTAC
89868166 T
130 T
* * *
89868167 AGCCTCATTTCTCTGAGGTAGCAAGA-AGGCAGGTTAAAG-ATGGAGTCTTATCTTCCTGAGGTA
1 AGCCTCATCTCTCTGAGGTAGCAAGAGA-GCAGGTTAAAGAAT-GAGTCTTATCTTCCTAAGATA
* *
89868230 GCAAGGAAACAGACTGAGAATTGAAGATTTTATCTCCCTAAACAGTAGCGGAGCAGATT
64 GCAAGGAAACAGACTGAGAATTGAAGATCTTATCTCACTAAACAGTAGCGGAGCAGATT
89868289 GAAGATGGTG
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
130 20 0.18
131 90 0.82
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (130 bp):
AGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGATAGC
AAGGAAACAGACTGAGAATTGAAGATCTTATCTCACTAAACAGTAGCGGAGCAGATTTTATTACT
Found at i:89870165 original size:24 final size:24
Alignment explanation
Indices: 89870138--89870185 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
89870128 TTATTAATTT
89870138 TATG-TTATTT-TAATTTCTTTTAAA
1 TATGTTTATTTGT-ATTT-TTTTAAA
89870162 TATGTTTATTTGTATTTTTTTAAA
1 TATGTTTATTTGTATTTTTTTAAA
89870186 CAATTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.50
25 10 0.45
26 1 0.05
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (24 bp):
TATGTTTATTTGTATTTTTTTAAA
Found at i:89875532 original size:6 final size:6
Alignment explanation
Indices: 89875523--89875551 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
89875513 CTTTTACTAA
89875523 ATTTAC ATTTAC ATTTAC ATTTAC ATTTA
1 ATTTAC ATTTAC ATTTAC ATTTAC ATTTA
89875552 ATATGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAC
Found at i:89880185 original size:28 final size:28
Alignment explanation
Indices: 89880123--89880273 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
89880113 ATATTAAGTC
*
89880123 CGCACACTCAGTGCTATATAAT-AAACT
1 CGCACACTTAGTGCTATATAATCAAACT
89880150 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
89880178 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
89880206 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
89880234 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
89880263 CGCACACTTAG
1 CGCACACTTAG
89880274 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 21 0.18
28 78 0.68
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:89882278 original size:20 final size:20
Alignment explanation
Indices: 89882253--89882290 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89882243 GGTCAAGTCG
89882253 TGAACAATAAAATCATGTCA
1 TGAACAATAAAATCATGTCA
* *
89882273 TGAACAGTAAAGTCATGT
1 TGAACAATAAAATCATGT
89882291 ATAAATATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TGAACAATAAAATCATGTCA
Found at i:89885525 original size:19 final size:21
Alignment explanation
Indices: 89885485--89885525 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
89885475 TTTTTCAATG
89885485 AAATATTAAAAATATTACTTA
1 AAATATTAAAAATATTACTTA
*
89885506 AAAT-TTAAAATTATTA-TTA
1 AAATATTAAAAATATTACTTA
89885525 A
1 A
89885526 TGTTAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATATTAAAAATATTACTTA
Found at i:89886051 original size:38 final size:37
Alignment explanation
Indices: 89886019--89886737 Score: 427
Period size: 35 Copynumber: 19.7 Consensus size: 37
89886009 TAGTCAATGC
89886019 CAACCATTAAAAAAGGTTGGGATAGACCTAGTC-AAGG
1 CAACC-TTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* * * * *
89886056 CCAACCTCTGAAAAAGGTCGAGATAGA-CTCGTCTAAGA
1 -CAACCT-TAAAAAAGGTTGGGATAGACCTAGTCTAAGG
*
89886094 CAACCTT-AAAAAGGTTGGGATAGACC-AGTCTAAGA
1 CAACCTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* * *
89886129 TAACCTTTTAAAAAA-GTTGGGATAGACTTTA-TTTAAGG
1 CAACC--TTAAAAAAGGTTGGGATAGAC-CTAGTCTAAGG
* * ** * * *
89886167 CAACATTTAAAAAAAGTTATGATAAACCTTGTCTAAAG
1 CAAC-CTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* *
89886205 CAACCTTTAAAAAAGATTGGGATAGA-ATAGTCTAAGG
1 CAACC-TTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* * *
89886242 CAACCTT-AAATAGGTTGGTATAGACCTTGTCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* * *
89886278 TAACTTTTAAAAAATGG-TGGGATAGACCTTA-TCTAACG
1 CAAC-CTTAAAAAA-GGTTGGGATAGACC-TAGTCTAAGG
* * * * *
89886316 CAAACTTTTAAAATA-GTTGGGATAGACATTGTCTAAAG
1 C-AAC-CTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* * * *
89886354 AAACCTTTAAAAAGGTTAGAATAGACCTA-TCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* * * * *
89886390 CAACCTTTTAAAAATGTTAGGATAGGCCTTGT-TAAAGG
1 CAACC-TTAAAAAAGGTTGGGATAGACCTAGTCT-AAGG
* * *
89886428 CAACCTTAAAAAAAGGTTGAGATAGACTTA-TCTAATG
1 CAACCTT-AAAAAAGGTTGGGATAGACCTAGTCTAAGG
* *
89886465 CAACCTT-AAAAAGGTTGGCATAGA-TTCA-TCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGACCT-AGTCTAAGG
* ** *
89886500 TAACCTT-AAAAAGGTTGGGATAGATATTGTCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* * * *
89886536 CAACTTTTAGAAAAGGTTGGGATTGACCT-GTCTAAGA
1 CAAC-CTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* * * * *
89886573 CAACGTT-AAAAATGTTAGGATAAACC-AGTTTACA-G
1 CAACCTTAAAAAAGGTTGGGATAGACCTAGTCTA-AGG
* * ** *
89886608 CAACCCT-AAAAAGGTTAGGATAGACCTTTTCGAAGG
1 CAACCTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* * * *
89886644 CAA-CTTAAAAAAAGTTAGGATAAACC-CGTCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
* *
89886679 AAACCTT-AAAAAGGTTAGGG-TA-AAC-ACGTCTAAGG
1 CAACCTTAAAAAAGGTT-GGGATAGACCTA-GTCTAAGG
*
89886714 CAAACTT-AAAAAGGTTGGGATAGA
1 CAACCTTAAAAAAGGTTGGGATAGA
89886738 TCTTTGTCTC
Statistics
Matches: 529, Mismatches: 111, Indels: 84
0.73 0.15 0.12
Matches are distributed among these distances:
34 7 0.01
35 170 0.32
36 75 0.14
37 113 0.21
38 148 0.28
39 16 0.03
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (37 bp):
CAACCTTAAAAAAGGTTGGGATAGACCTAGTCTAAGG
Found at i:89886201 original size:111 final size:109
Alignment explanation
Indices: 89886077--89886694 Score: 360
Period size: 108 Copynumber: 5.6 Consensus size: 109
89886067 AAAAGGTCGA
*
89886077 GATAGA-CTCGTCTAAGACAACCTT-AAAAAGGTTGGGATAGACCAGTCTAAGATAACCTTTTAA
1 GATAGACCTTGTCTAAGACAACCTTAAAAAAGGTTGGGATAGACCAGTCTAAGA-AACC-TTTAA
* * * * *
89886140 AAAAGTTGGGATAGACTTTATTTAAGGCAACATTTAAAAAAAGTTAT
64 AAAGGTTGGAATAGAC-TTATCTAAGGCAACATTTAAAAAATGTTAG
* * ** *
89886187 GATAAACCTTGTCTAA-AGCAACCTTTAAAAAAGATTGGGATAGAATAGTCTAAGGCAACC-TTA
1 GATAGACCTTGTCTAAGA-CAACC-TTAAAAAAGGTTGGGATAGACCAGTCTAA-GAAACCTTTA
* * * * * * *
89886250 AATAGGTTGGTATAGACCTTGTCTAAGGTAACTTTTAAAAAATGGTGG
63 AAAAGGTTGGAATAGA-CTTATCTAAGGCAACATTTAAAAAATGTTAG
* * *
89886298 GATAGACCTTATCTAACG-CAAACTTTTAAAATA-GTTGGGATAGA-CATTGTCTAAAGAAACCT
1 GATAGACCTTGTCTAA-GAC-AAC-CTTAAAAAAGGTTGGGATAGACCA--GTCT-AAGAAACCT
* * * *
89886360 TTAAAAAGGTTAGAATAGACCTATCTAAGGCAACCTTTTAAAAATGTTAG
60 TTAAAAAGGTTGGAATAGACTTATCTAAGGCAACATTTAAAAAATGTTAG
* * * * *
89886410 GATAGGCCTTGT-TAAAGGCAACCTTAAAAAAAGGTTGAGATAGACTTA-TCTAATGCAACC-TT
1 GATAGACCTTGTCT-AAGACAACCTT-AAAAAAGGTTGGGATAGAC-CAGTCTAA-GAAACCTTT
* * * * *
89886472 AAAAAGGTTGGCATAGA-TTCATCTAAGGTAAC-CTT-AAAAAGGTTGG
62 AAAAAGGTTGGAATAGACTT-ATCTAAGGCAACATTTAAAAAATGTTAG
** * * * * * *
89886518 GATAGATATTGTCTAAGGCAACTTTTAGAAAAGGTTGGGATTGACCTGTCTAAGACAA-CGTTAA
1 GATAGACCTTGTCTAAGACAAC-CTTAAAAAAGGTTGGGATAGACCAGTCTAAGA-AACCTTTAA
* * * * ** *
89886582 AAATGTTAGG-ATAAAC-CAGTTTACA-GCAAC-CCT-AAAAAGGTTAG
64 AAAGGTT-GGAATAGACTTA-TCTA-AGGCAACATTTAAAAAATGTTAG
* * * * * * *
89886626 GATAGACCTTTTCGAAGGCAA-CTTAAAAAAAGTTAGGATAAACCCGTCTAAGGAAACC-TTAAA
1 GATAGACCTTGTCTAAGACAACCTTAAAAAAGGTTGGGATAGACCAGTCTAA-GAAACCTTTAAA
89886689 AAGGTT
65 AAGGTT
89886695 AGGGTAAACA
Statistics
Matches: 398, Mismatches: 77, Indels: 70
0.73 0.14 0.13
Matches are distributed among these distances:
106 35 0.09
107 6 0.02
108 99 0.25
109 9 0.02
110 39 0.10
111 94 0.24
112 69 0.17
113 45 0.11
114 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (109 bp):
GATAGACCTTGTCTAAGACAACCTTAAAAAAGGTTGGGATAGACCAGTCTAAGAAACCTTTAAAA
AGGTTGGAATAGACTTATCTAAGGCAACATTTAAAAAATGTTAG
Found at i:89886437 original size:149 final size:149
Alignment explanation
Indices: 89886086--89886467 Score: 368
Period size: 149 Copynumber: 2.6 Consensus size: 149
89886076 AGATAGACTC
* * * ** * *
89886086 GTCTAAGACAACCTTAAAAAGGTTGGGATAGACC-AGTCTAAGATAACCTTTTAAAAAAGTTGGG
1 GTCTAAGGCAACCTTAAAAAGGTTGGTATAGACCTTGTCTAAGGCAA-CTCTTAAAAAAGGTGGG
* * * * * *
89886150 ATAGACTTTATTTAAGGC-AACATTTAAAAAAAGTTATGATAAACCTTGTCTAAAGCAACCTTTA
65 ATAGACCTTATCTAACGCAAACATTTAAAAAAAGTTAGGATAAACATTGTCTAAAGAAACCTTTA
* *
89886214 AAAAAGATTGGGATAGAATA
130 AAAAAGATTAGAATAGAATA
* * *
89886234 GTCTAAGGCAACCTTAAATAGGTTGGTATAGACCTTGTCTAAGGTAACTTTTAAAAAATGGTGGG
1 GTCTAAGGCAACCTTAAAAAGGTTGGTATAGACCTTGTCTAAGGCAACTCTTAAAAAA-GGTGGG
* * * *
89886299 ATAGACCTTATCTAACGCAAAC-TTTTAAAATAGTTGGGATAGACATTGTCTAAAGAAACCTTT-
65 ATAGACCTTATCTAACGCAAACATTTAAAAAAAGTTAGGATAAACATTGTCTAAAGAAACCTTTA
* *
89886362 AAAAAGGTTAGAATAGACCTA
130 AAAAAGATTAGAATAGA-ATA
* *
89886383 -TCTAAGGCAACCTTTTAAAAATGTTAGG-ATAGGCCTTGT-TAAAGGCAAC-CTTAAAAAAAGG
1 GTCTAAGGCAACC--TTAAAAAGGTT-GGTATAGACCTTGTCT-AAGGCAACTCTT-AAAAAAGG
* *
89886444 TTGAGATAGA-CTTATCTAATGCAA
61 -TGGGATAGACCTTATCTAACGCAA
89886468 CCTTAAAAAG
Statistics
Matches: 197, Mismatches: 27, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
148 68 0.35
149 84 0.43
150 43 0.22
151 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (149 bp):
GTCTAAGGCAACCTTAAAAAGGTTGGTATAGACCTTGTCTAAGGCAACTCTTAAAAAAGGTGGGA
TAGACCTTATCTAACGCAAACATTTAAAAAAAGTTAGGATAAACATTGTCTAAAGAAACCTTTAA
AAAAGATTAGAATAGAATA
Found at i:89886582 original size:73 final size:71
Alignment explanation
Indices: 89886028--89886737 Score: 351
Period size: 73 Copynumber: 9.7 Consensus size: 71
89886018 CCAACCATTA
* * * * * **
89886028 AAAAAGGTTGGGATAGACCTAGTC-AAGGCCAACCTCTGAAAAAGGTCGAGATAGACTCGTCTAA
1 AAAAAGGTTGGGATAGACCT-GTCTAA-GACAA-CTTTAAAAAAGGTTGGGATAGACTTATCTAA
* *
89886092 GACAACCTT
63 GGCAACTTT
* * *
89886101 AAAAAGGTTGGGATAGACCAGTCTAAGATAACCTTTTAAAAAA-GTTGGGATAGACTTTATTTAA
1 AAAAAGGTTGGGATAGACCTGTCTAAGACAA-C-TTTAAAAAAGGTTGGGATAGAC-TTATCTAA
89886165 GGCAACATTT
63 GGCAAC-TTT
* ** * * *
89886175 AAAAAAAGTTATGATAAACCTTGTCTAA-AGCAACCTTTAAAAAAGATTGGGATAGA-ATAGTCT
1 -AAAAAGGTTGGGATAGACC-TGTCTAAGA-CAA-CTTTAAAAAAGGTTGGGATAGACTTA-TCT
*
89886238 AAGGCAACCTT
61 AAGGCAACTTT
* * **
89886249 AAATAGGTTGGTATAGACCTTGTCTAAGGTAACTTTTAAAAAATGG-TGGGATAGACCTTATCTA
1 AAAAAGGTTGGGATAGACC-TGTCTAAGACAAC-TTTAAAAAA-GGTTGGGATAGA-CTTATCTA
*
89886313 ACGCAAACTTTT
62 AGGC-AAC-TTT
* * * *
89886325 AAAATA-GTTGGGATAGACATTGTCTAAAGA-AACCTTT-AAAAAGGTTAGAATAGACCTATCTA
1 AAAA-AGGTTGGGATAGAC-CTGTCT-AAGACAA-CTTTAAAAAAGGTTGGGATAGACTTATCTA
89886387 AGGCAACCTTTT
62 AGGCAA-C-TTT
* * * * * *
89886399 AAAAATGTTAGGATAGGCCTTGT-TAAAGGCAACCTTAAAAAAAGGTTGAGATAGACTTATCTAA
1 AAAAAGGTTGGGATAGACC-TGTCT-AAGACAA-CTTTAAAAAAGGTTGGGATAGACTTATCTAA
* *
89886463 TGCAACCTT
63 GGCAACTTT
* * * ** * * *
89886472 AAAAAGGTTGGCATAGA-TTCATCTAAGGTAACCTT-AAAAAGGTTGGGATAGATATTGTCTAAG
1 AAAAAGGTTGGGATAGACCT-GTCTAAGACAACTTTAAAAAAGGTTGGGATAGA-CTTATCTAAG
89886535 GCAACTTTT
64 GCAAC-TTT
* * * * * * *
89886544 AGAAAAGGTTGGGATTGACCTGTCTAAGACAACGTT-AAAAATGTTAGGATAAAC-CAGTTTACA
1 A-AAAAGGTTGGGATAGACCTGTCTAAGACAACTTTAAAAAAGGTTGGGATAGACTTA-TCTA-A
**
89886607 -GCAACCCT
63 GGCAACTTT
* * * * * * * ***
89886615 AAAAAGGTTAGGATAGACCTTTTCGAAGGCAAC-TTAAAAAAAGTTAGGATAAACCCGTCTAAGG
1 AAAAAGGTTGGGATAGACC-TGTCTAAGACAACTTTAAAAAAGGTTGGGATAGACTTATCTAAGG
* *
89886679 AAACCTT
65 CAACTTT
* *
89886686 AAAAAGGTTAGGG-TAAACAC-GTCTAAGGCAAAC-TT-AAAAAGGTTGGGATAGA
1 AAAAAGGTT-GGGATAGAC-CTGTCTAAGAC-AACTTTAAAAAAGGTTGGGATAGA
89886738 TCTTTGTCTC
Statistics
Matches: 496, Mismatches: 100, Indels: 85
0.73 0.15 0.12
Matches are distributed among these distances:
70 56 0.11
71 71 0.14
72 41 0.08
73 143 0.29
74 56 0.11
75 78 0.16
76 46 0.09
77 5 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (71 bp):
AAAAAGGTTGGGATAGACCTGTCTAAGACAACTTTAAAAAAGGTTGGGATAGACTTATCTAAGGC
AACTTT
Found at i:89886689 original size:71 final size:70
Alignment explanation
Indices: 89886528--89886697 Score: 182
Period size: 71 Copynumber: 2.4 Consensus size: 70
89886518 GATAGATATT
* * * * *
89886528 GTCTAAGGCAACTTTTAGAAAAGGTTGGGATTGACCTGTCTAAGACAACGTTAAAAATGTTAGGA
1 GTCTAAGGCAAC-CTTA-AAAAGGTTAGGATAGACCTGTCGAAGACAACGTTAAAAAAGTTAGGA
89886593 TAAACCA
64 TAAACCA
* * * *
89886600 GTTTACA-GCAACCCTAAAAAGGTTAGGATAGACCTTTTCGAAGGCAAC-TTAAAAAAAGTTAGG
1 GTCTA-AGGCAACCTTAAAAAGGTTAGGATAGACC-TGTCGAAGACAACGTT-AAAAAAGTTAGG
*
89886663 ATAAACCC
63 ATAAACCA
*
89886671 GTCTAAGGAAACCTTAAAAAGGTTAGG
1 GTCTAAGGCAACCTTAAAAAGGTTAGG
89886698 GTAAACACGT
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
70 19 0.23
71 52 0.64
72 9 0.11
73 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (70 bp):
GTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCTGTCGAAGACAACGTTAAAAAAGTTAGGATA
AACCA
Found at i:89888230 original size:16 final size:16
Alignment explanation
Indices: 89888209--89888240 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
89888199 TTAATATGTA
89888209 ATACTTACAAACTGTG
1 ATACTTACAAACTGTG
89888225 ATACTTACAAACTGTG
1 ATACTTACAAACTGTG
89888241 CATTGAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
ATACTTACAAACTGTG
Found at i:89889795 original size:323 final size:323
Alignment explanation
Indices: 89889207--89889800 Score: 1109
Period size: 323 Copynumber: 1.8 Consensus size: 323
89889197 AAGCTTTAAC
89889207 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
1 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
* * *
89889272 ATACTGGATTACACAATGACCATTCAAGTCCTTCGACAATGTAACAGCTCCAATGCTTAGAGCTG
66 ATACGGGATTACACAATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAATGCTTAGAGCTG
89889337 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
131 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
89889402 CTATCACCGAATGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGAA
196 CTATCACCGAATGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGAA
89889467 ACAAAAAAAAACAAAACAAAACCGAATCAACCAACATACCCATGATCAACCAACAAAACCGAA
261 ACAAAAAAAAACAAAACAAAACCGAATCAACCAACATACCCATGATCAACCAACAAAACCGAA
89889530 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
1 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
* *
89889595 ATACGGGATTACACGATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAGTGCTTAGAGCTG
66 ATACGGGATTACACAATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAATGCTTAGAGCTG
89889660 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
131 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
* *
89889725 TTATCACC-AATTGAAAATATATTTGTATTTTATTTATTGAACACAAAACAACTTCTTAACCAGA
196 CTATCACCGAA-TGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGA
89889789 AACAAAAAAAAA
260 AACAAAAAAAAA
89889801 ACCGATTCAA
Statistics
Matches: 263, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
322 2 0.01
323 261 0.99
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (323 bp):
TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
ATACGGGATTACACAATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAATGCTTAGAGCTG
ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
CTATCACCGAATGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGAA
ACAAAAAAAAACAAAACAAAACCGAATCAACCAACATACCCATGATCAACCAACAAAACCGAA
Found at i:89891227 original size:31 final size:31
Alignment explanation
Indices: 89891167--89891234 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
89891157 AATAATAATG
* *
89891167 ATTTAACTTTTTTTAAAAGGATAATAATTAA
1 ATTTAACTCTTTTTAAAAGGATAAGAATTAA
* *
89891198 ATTTCACTCTTTTTAAAA-GACTAAGAATTAG
1 ATTTAACTCTTTTTAAAAGGA-TAAGAATTAA
89891229 ATTTAA
1 ATTTAA
89891235 TTAAAATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (31 bp):
ATTTAACTCTTTTTAAAAGGATAAGAATTAA
Found at i:89892761 original size:266 final size:265
Alignment explanation
Indices: 89892241--89892997 Score: 927
Period size: 266 Copynumber: 2.8 Consensus size: 265
89892231 ATCCTAAACC
* * * *
89892241 CCTTAGGAATGCATATACCAACACTTATACAAAGAGTTGGCCAAAGTGTATGTTCG-CAAGTCTA
1 CCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTATGTT-GACAAGTCTA
* * * * * * *
89892305 TCCCAACACTTAAGAAAGTGTCGGCCCAAAAGTGTAGGCATAGCG-TTGGACAAAA-CCAACTCT
65 TCCCAACACTTAGGAAA-TGTCGCCCCAAAAGTGTCGTCTTAG-GACTAGACAAAAGCCAACTCT
* * * * *
89892368 TATTTAAGCGTTACCTTAAGTATGCATATCCCAACCCTTATACAAAAAGTTGACCAAAGCGTATG
128 TATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATG
* * * * * * **
89892433 TCGGCAAGTTTGTCCCAACACTTAGGAAATTATTGTCTTAGAACTGGACAAAGCCAACTCTTATT
193 TTGGCAAGTCTATCCCAACACTTA-AAAAGTGTTGTCTTAGAACTACACAAAGCCAACTCTTATT
*
89892498 TAAGCGTTG
257 CAAGCGTTG
* *
89892507 CCTTAGGCATGCATA-CCTCAAC-CTTTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCC
1 CCTTAGGCATACATATCC-CAACTC-TTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCT
*
89892570 ATCCCAACACTTAGGAAA-GTCGCCCCAAAACTGTCGTCTTAGGACTAGACAAAAGCCAACTCTT
64 ATCCCAACACTTAGGAAATGTCGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTT
* ** * * **
89892634 ATTTAAGCATTGTTTTAGGCATACATATCTCAACCCTTACGCAAAGAGTTGGCCAAAGCGTATGT
129 ATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGT
* *
89892699 TGGCAAGTCTATCCCAACACTTACAAAAGTGTTGTCTTAGGACTACACAAAATCCAACTCTTATT
194 TGGCAAGTCTATCCCAACACTTA-AAAAGTGTTGTCTTAGAACTACAC-AAAGCCAACTCTTATT
*
89892764 CAAGTGTTG
257 CAAGCGTTG
* * *
89892773 CCTTAGGCATATATATCCCAACTCTTATACAAAGAGTTGGCCAAA-TCGTATGTTCACAACTCTA
1 CCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGT-GTATGTTGACAAGTCTA
*
89892837 TCCCAACACTTAGGAAAATGTCTCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCTT
65 TCCCAACACTTAGG-AAATGTCGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTT
* * * * *
89892901 ATGTAAGTGTTGCCTTAGTCACGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGT
129 ATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGT
*
89892966 TGGCCAGTCTATCCCAACACTTAAGAAAGTGT
194 TGGCAAGTCTATCCCAACACTTAA-AAAGTGT
89892998 CGCCCCATAA
Statistics
Matches: 423, Mismatches: 56, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
263 1 0.00
264 27 0.06
265 104 0.25
266 160 0.38
267 101 0.24
268 30 0.07
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (265 bp):
CCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCTAT
CCCAACACTTAGGAAATGTCGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTTAT
TTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTG
GCAAGTCTATCCCAACACTTAAAAAGTGTTGTCTTAGAACTACACAAAGCCAACTCTTATTCAAG
CGTTG
Found at i:89892780 original size:127 final size:126
Alignment explanation
Indices: 89892595--89892999 Score: 436
Period size: 127 Copynumber: 3.1 Consensus size: 126
89892585 AAAGTCGCCC
* ** **
89892595 CAAAACTGTCGTCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCATTGTTTTAGGCATACAT
1 CAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATACAT
* **
89892660 ATCTCAACCCTTACGCAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTA
65 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTA
* * * *
89892722 CAAAAGTGTTGTCTTAGGACTACACAAAATCCAACTCTTATTCAAGTGTTGCCTTAGGCATATAT
1 CAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTTATT-AAGTGTTGCCTTAGGCATACAT
* * ** *
89892787 ATCCCAACTCTTATACAAAGAGTTGGCCAAATCGTATGTTCACAACTCTATCCCAACACTTAGGA
65 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTT----
89892852 AAA
126 --A
89892855 TGTCTCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCTTATGTAAGTGTTGCCTTAG
1 --------CAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTTAT-TAAGTGTTGCCTTAG
* ** * *
89892919 TCACGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTGGCCAGTCTATCCCAAC
57 GCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAAC
89892984 ACTTA
122 ACTTA
89892989 -AGAAAGTGTCG
1 CA-AAAGTGTCG
89893000 CCCCATAAAT
Statistics
Matches: 230, Mismatches: 31, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
125 1 0.00
126 11 0.05
127 106 0.46
133 1 0.00
134 1 0.00
140 86 0.37
141 24 0.10
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (126 bp):
CAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTTATTAAGTGTTGCCTTAGGCATACATA
TCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTA
Found at i:89892977 original size:140 final size:141
Alignment explanation
Indices: 89892722--89893019 Score: 395
Period size: 140 Copynumber: 2.1 Consensus size: 141
89892712 CCAACACTTA
* * * *
89892722 CAAAAGTGTTGTCTTAGGACTACACAAAATCCAACTCTTATTCAAGTGTTGCCTTAGGCATATAT
1 CAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGTGTTGCCTTAGGCACACAT
* * * *
89892787 ATCCCAACTCTTATACAAAGAGTTGGCCAAATCGTATGTTCACAACTCTATCCCAACACTTAGGA
66 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTCACAACTCTATCCCAACACTTAAGA
*
89892852 AAATGTCTCCC
131 AAATGTCGCCC
* * *
89892863 CAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCTTATGT-AAGTGTTGCCTTAGTCACGCA
1 CAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTAT-TCAAGTGTTGCCTTAGGCACACA
** * *
89892926 TATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTGGCCAGTCTATCCCAACACTTAAG
65 TATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTCACAACTCTATCCCAACACTTAAG
*
89892991 AAAGTGTCGCCC
130 AAAATGTCGCCC
*
89893003 CATAAA-TGTCGTTTTAG
1 CA-AAAGTGTCGTCTTAG
89893020 CACTGTTTTG
Statistics
Matches: 137, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
140 110 0.80
141 27 0.20
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (141 bp):
CAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGTGTTGCCTTAGGCACACAT
ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTCACAACTCTATCCCAACACTTAAGA
AAATGTCGCCC
Found at i:89894395 original size:24 final size:25
Alignment explanation
Indices: 89894356--89894415 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
89894346 TTCTATTTTT
*
89894356 TAATTTTTT-AATTTATTT-GTTTA
1 TAATTTTTTAAAATTATTTAGTTTA
* *
89894379 TTATTTTTTAAAATTATTTATTTTA
1 TAATTTTTTAAAATTATTTAGTTTA
*
89894404 TAATATTTTAAA
1 TAATTTTTTAAA
89894416 TTTTTTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 8 0.27
24 8 0.27
25 14 0.47
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
TAATTTTTTAAAATTATTTAGTTTA
Found at i:89894416 original size:24 final size:24
Alignment explanation
Indices: 89894349--89894423 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
89894339 TCTTTTTTTC
* *
89894349 TATTTTTTAATTTTTTAATTTATT
1 TATTTTATAATTTTTTAAATTATT
* *
89894373 T-GTTTATTATTTTTTAAAATTATT
1 TATTTTATAATTTTTT-AAATTATT
* *
89894397 TATTTTATAATATTTTAAATTTTT
1 TATTTTATAATTTTTTAAATTATT
89894421 TAT
1 TAT
89894424 AATATTTGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 11 0.27
24 19 0.46
25 11 0.27
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (24 bp):
TATTTTATAATTTTTTAAATTATT
Found at i:89894419 original size:57 final size:59
Alignment explanation
Indices: 89894352--89894503 Score: 150
Period size: 66 Copynumber: 2.5 Consensus size: 59
89894342 TTTTTTCTAT
*
89894352 TTTTTAATTTTTTAATTTATTTGTTTATT-A-TTTTTTAA-AATTATTTATTTTATAATA
1 TTTTAAATTTTTTAA-TTATTTGTTTATTAATTTTTTTAATAATTATTTATTTTATAATA
* * *
89894409 TTTTAAATTTTTTATAATATTTGTTTATTCAAATGTTTTTTTAATTTTATTATTTGTTTTATAAT
1 TTTTAAATTTTTTA-ATTATTTGTTTATT--AA--TTTTTTTAA--TAATTATTTATTTTATAAT
89894474 A
59 A
89894475 TTTTAAATGTTTTATAA-TATTTGTTTATT
1 TTTTAAAT-TTTT-TAATTATTTGTTTATT
89894504 TATACGTTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
57 25 0.32
58 1 0.01
60 1 0.01
63 8 0.10
66 37 0.47
67 5 0.06
68 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (59 bp):
TTTTAAATTTTTTAATTATTTGTTTATTAATTTTTTTAATAATTATTTATTTTATAATA
Found at i:89894421 original size:9 final size:10
Alignment explanation
Indices: 89894397--89894430 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
89894387 TAAAATTATT
89894397 TATTTTATAA
1 TATTTTATAA
89894407 TATTTTA-AA
1 TATTTTATAA
*
89894416 TTTTTTATAA
1 TATTTTATAA
89894426 TATTT
1 TATTT
89894431 GTTTATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTTATAA
Found at i:89894430 original size:33 final size:32
Alignment explanation
Indices: 89894381--89894502 Score: 90
Period size: 33 Copynumber: 3.7 Consensus size: 32
89894371 TTTGTTTATT
*
89894381 ATTTTTTAAAATTATTTATTTTATAATATTTTAA
1 ATTTTTTATAA-TATTT-TTTTATAATATTTTAA
*
89894415 ATTTTTTATAATATTTGTTTATTCAA-ATGTTT--
1 ATTTTTTATAATATTTTTTTA-T-AATAT-TTTAA
* *
89894447 -TTTTAATTTTATTATTTGTTTTATAATATTTTAA
1 ATTTT--TTATAATATTT-TTTTATAATATTTTAA
* *
89894481 ATGTTTTATAATATTTGTTTAT
1 ATTTTTTATAATATTTTTTTAT
89894503 TTATACGTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
31 4 0.06
32 14 0.20
33 29 0.42
34 19 0.28
35 3 0.04
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (32 bp):
ATTTTTTATAATATTTTTTTATAATATTTTAA
Found at i:89894513 original size:66 final size:66
Alignment explanation
Indices: 89894391--89894514 Score: 203
Period size: 66 Copynumber: 1.9 Consensus size: 66
89894381 ATTTTTTAAA
* *
89894391 ATTATTTATTTTATAATATTTTAAATTTTTTATAATATTTGTTTATTCAAATGTTTTTTTAATTT
1 ATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAACGTTTTTTTAATTT
89894456 T
66 T
* * *
89894457 ATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTTATACGTTTTT
1 ATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAACGTTTTT
89894515 CAAAATATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (66 bp):
ATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAACGTTTTTTTAATTT
T
Found at i:89895569 original size:20 final size:20
Alignment explanation
Indices: 89895532--89895570 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
89895522 ATAAAATATT
*
89895532 ATAAAATAAATAATAAAAAA
1 ATAAAATAAATAAGAAAAAA
89895552 ATAAAATAAA-ATAGAAAAA
1 ATAAAATAAATA-AGAAAAA
89895571 GAACAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (20 bp):
ATAAAATAAATAAGAAAAAA
Found at i:89900529 original size:14 final size:14
Alignment explanation
Indices: 89900510--89900539 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89900500 TTATATCGAG
89900510 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
89900524 ACCAATCCAATTCA
1 ACCAATCCAAATCA
89900538 AC
1 AC
89900540 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:89904005 original size:56 final size:56
Alignment explanation
Indices: 89903945--89904050 Score: 212
Period size: 56 Copynumber: 1.9 Consensus size: 56
89903935 AGCCAAATCT
89903945 AATAAAATAACAAAGAAATCCAAAATTATTTTCCTTTTCCAGCTATACGAATATAA
1 AATAAAATAACAAAGAAATCCAAAATTATTTTCCTTTTCCAGCTATACGAATATAA
89904001 AATAAAATAACAAAGAAATCCAAAATTATTTTCCTTTTCCAGCTATACGA
1 AATAAAATAACAAAGAAATCCAAAATTATTTTCCTTTTCCAGCTATACGA
89904051 TTTACTGGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (56 bp):
AATAAAATAACAAAGAAATCCAAAATTATTTTCCTTTTCCAGCTATACGAATATAA
Found at i:89905112 original size:176 final size:177
Alignment explanation
Indices: 89904859--89905270 Score: 548
Period size: 176 Copynumber: 2.3 Consensus size: 177
89904849 ATGAATCTTG
* * * * **
89904859 GGCTTAAATCTACTCCATTGCCATTACATGGACATAAGATT-AAC-TCTTTCGATCTGCTCTGCT
1 GGCTAAAATCTACTCCATTGCCAATACATGGAGATAAGATTCACCATC-TTCGATCTGCTCCACT
* *
89904922 ACTGTTTAGGGAGATAAGATCTTCAAT-TCTCAGTCCGCTTCCTTGCTAACTTAGGAAGATAAGA
65 ACTGCTTAGGGAGATAAGATCTTCAATCT-TCAGTCCGCTTCCTTGCTAACTCAGGAAGATAAGA
** * **
89904986 CT-CAATCTTCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGT
129 CTACAATCACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGT
*
89905034 GGCTAAAATCTACTCCATTACCAATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTA
1 GGCTAAAATCTACTCCATTGCCAATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTA
* * * * *
89905099 TTGCTTAGGGAGATAAGATCTTTAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAATACT
66 CTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCCGCTTCCTTGCTAACTCAGGAAGATAAGACT
89905164 ACAATCACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGT
131 ACAATCACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGT
** * *
89905211 GG-TAAAATCTGTTCCATTGCCGATACATGGAGATAAGA-TCTACCATCTTTGATCTGCTCC
1 GGCTAAAATCTACTCCATTGCCAATACATGGAGATAAGATTC-ACCATCTTCGATCTGCTCC
89905271 GCTGCAATCT
Statistics
Matches: 208, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
175 39 0.19
176 123 0.59
177 46 0.22
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (177 bp):
GGCTAAAATCTACTCCATTGCCAATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCCGCTTCCTTGCTAACTCAGGAAGATAAGACT
ACAATCACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGT
Found at i:89905661 original size:64 final size:64
Alignment explanation
Indices: 89905548--89905855 Score: 465
Period size: 64 Copynumber: 4.8 Consensus size: 64
89905538 ATACTTATGC
* ** * *
89905548 CAAATAATTAGGATGCTATGATCAAAATGAACCAAAAACTCCCAACTAGATGTGATGCTGATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATGCTGATGT
* * * * * *
89905612 CAAATAATTAGGATGCAATGATCGAAATGAATCAAATGTTCCTAGCTAGATGTGATGCTTATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATGCTGATGT
89905676 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCT-ACTAGATGTAATGCTGATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATGCTGATGT
* *
89905739 CAAATAATTAGGATGCTATGATCAGAATGAATCAAATGCTCCTAACTAGATGTAATGCTAATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATGCTGATGT
* * *
89905803 CAAATAATTAGGATGCTATGATCAAAATGGATCAAATACTCCTAACAAGATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT
89905856 GTTATGAATG
Statistics
Matches: 222, Mismatches: 21, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
63 59 0.27
64 163 0.73
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (64 bp):
CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATGCTGATGT
Found at i:89905768 original size:127 final size:127
Alignment explanation
Indices: 89905541--89905855 Score: 479
Period size: 127 Copynumber: 2.5 Consensus size: 127
89905531 ATGTATCATA
* * * * *
89905541 CTTATGCCAAATAATTAGGATGCTATGATCAAAATGAACCAAAAACTCCCAACTAGATGTGATGC
1 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACT-CCTACTAGATGTAATGC
* * *
89905606 TGATGTCAAATAATTAGGATGCAATGATCGAAATGAATCAAATGTTCCTAGCTAGATGTGATG
65 TGATGTCAAATAATTAGGATGCAATGATCGAAATGAATCAAATGCTCCTAACTAGATGTAATG
*
89905669 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTACTAGATGTAATGCT
1 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTACTAGATGTAATGCT
*
89905734 GATGTCAAATAATTAGGATGCTATGATC-AGAATGAATCAAATGCTCCTAACTAGATGTAATG
66 GATGTCAAATAATTAGGATGCAATGATCGA-AATGAATCAAATGCTCCTAACTAGATGTAATG
* * *
89905796 CTAATGTCAAATAATTAGGATGCTATGATCAAAATGGATCAAATACTCCTAACAAGATGT
1 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCT-ACTAGATGT
89905856 GTTATGAATG
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
126 1 0.01
127 119 0.70
128 51 0.30
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (127 bp):
CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTACTAGATGTAATGCT
GATGTCAAATAATTAGGATGCAATGATCGAAATGAATCAAATGCTCCTAACTAGATGTAATG
Found at i:89905903 original size:127 final size:123
Alignment explanation
Indices: 89905548--89905891 Score: 354
Period size: 127 Copynumber: 2.7 Consensus size: 123
89905538 ATACTTATGC
* * * *
89905548 CAAATAATTAGGATGCTATGATCAAAATGAACCAAAAACTCCCAACTAGATGTGATGCTGATGTC
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATACT-CCTACAAGA--TGATGCTGATG--
* ** * * * *
89905613 AAATAATTAGGATGCAATGATC-GAAATGAATCAAATGTTCCTAGCTAGATGTGATGCTTATGT
61 AAATAATTAGAATGCAAAAATCAG-AATGAATCAAATGCTCCTAACTAGATGTAATGCTAATGT
* *
89905676 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTACTAGATGTAATGCTGATGTCA
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTACAAGATG--ATGCTGATG--A
* * **
89905741 AATAATTAGGATGCTATGATCAGAATGAATCAAATGCTCCTAACTAGATGTAATGCTAATGT
62 AATAATTAGAATGCAAAAATCAGAATGAATCAAATGCTCCTAACTAGATGTAATGCTAATGT
* *
89905803 CAAATAATTAGGATGCTATGATCAAAATGGATCAAATACTCCTAACAAGATG-TG-TTATG-AAT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCT-ACAAGATGATGCTGATGAAAT
* *
89905865 GATATATGAATGCAAAAATGAGAATGA
65 AAT-TA-GAATGCAAAAATCAGAATGA
89905892 TCTCTTTAAA
Statistics
Matches: 191, Mismatches: 19, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
121 5 0.03
122 2 0.01
123 15 0.08
124 4 0.02
125 4 0.02
127 116 0.61
128 45 0.24
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (123 bp):
CAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTACAAGATGATGCTGATGAAATA
ATTAGAATGCAAAAATCAGAATGAATCAAATGCTCCTAACTAGATGTAATGCTAATGT
Found at i:89908391 original size:27 final size:27
Alignment explanation
Indices: 89908361--89908422 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
89908351 ATTTACTAAA
*
89908361 ATACCCCTAAGTATG-AAAATTACTATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
89908388 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
*
89908414 ATACTCCTA
1 ATACCCCTA
89908423 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.67
27 8 0.27
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:89908567 original size:28 final size:27
Alignment explanation
Indices: 89908527--89908613 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
89908517 AGAGGAAGCG
*
89908527 TTCTGGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
89908555 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * *
89908582 ATCTGGTGACTCTGTCACAATATCTG-
1 TTCTGGTGGCTCTGCCACAATATCTGT
89908608 TTCTGG
1 TTCTGG
89908614 AAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 5 0.09
27 32 0.59
28 17 0.31
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:89909831 original size:14 final size:14
Alignment explanation
Indices: 89909809--89909856 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
89909799 TCTTTCTTCT
*
89909809 TTTTATTTTTTTAA
1 TTTTCTTTTTTTAA
89909823 TTTTCTTTTTTTAA
1 TTTTCTTTTTTTAA
*
89909837 --TTCTTTTTTTTA
1 TTTTCTTTTTTTAA
89909849 TTTT-TTTT
1 TTTTCTTTT
89909857 GGATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 11 0.37
13 4 0.13
14 15 0.50
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTTTTAA
Found at i:89909840 original size:12 final size:12
Alignment explanation
Indices: 89909814--89909856 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
89909804 CTTCTTTTTA
89909814 TTTTTTTAATTTTC
1 TTTTTTTAA--TTC
89909828 TTTTTTTAATTC
1 TTTTTTTAATTC
*
89909840 TTTTTTTTATT-
1 TTTTTTTAATTC
89909851 TTTTTT
1 TTTTTT
89909857 GGATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 6 0.21
12 13 0.46
14 9 0.32
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTAATTC
Found at i:89910443 original size:11 final size:11
Alignment explanation
Indices: 89910402--89910445 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
89910392 TATTGTTTGC
89910402 TTTTCCTTTTT
1 TTTTCCTTTTT
* *
89910413 TTTTTCTATTT
1 TTTTCCTTTTT
* *
89910424 TTGTACTTTTT
1 TTTTCCTTTTT
89910435 TTTTCCTTTTT
1 TTTTCCTTTTT
89910446 GAATGCCTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTCCTTTTT
Found at i:89915322 original size:21 final size:22
Alignment explanation
Indices: 89915275--89915332 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
89915265 AAATATAAGA
*
89915275 GAAAAGAAAAGAAAAAATATTC
1 GAAAAGAAAAGAAAAAAGATTC
*
89915297 AAAAAGAAAA-AAAAAAGA-TC
1 GAAAAGAAAAGAAAAAAGATTC
*
89915317 TGAAAACTAAAAGAAA
1 -GAAAA-GAAAAGAAA
89915333 GAAACTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.07
21 11 0.38
22 13 0.45
23 3 0.10
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.10
Consensus pattern (22 bp):
GAAAAGAAAAGAAAAAAGATTC
Found at i:89920559 original size:18 final size:19
Alignment explanation
Indices: 89920524--89920564 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
89920514 TTCATACTTT
*
89920524 CAAAAGTAAAAACTAAAAA
1 CAAAAGTAAAAACGAAAAA
*
89920543 CAAAA-TAAAACCGAAAAA
1 CAAAAGTAAAAACGAAAAA
89920561 -AAAA
1 CAAAA
89920565 AACTGAGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.76, C:0.12, G:0.05, T:0.07
Consensus pattern (19 bp):
CAAAAGTAAAAACGAAAAA
Found at i:89921986 original size:27 final size:26
Alignment explanation
Indices: 89921947--89921997 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
89921937 AACAGACGGT
89921947 TGAACTTGAGGAAACTTTGAAGGCTGG
1 TGAACTTGAGGAAACTTTG-AGGCTGG
* * *
89921974 TGAATTTGTGGAAATTTTGAGGCT
1 TGAACTTGAGGAAACTTTGAGGCT
89921998 CAAAAATCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.33
Consensus pattern (26 bp):
TGAACTTGAGGAAACTTTGAGGCTGG
Found at i:89927523 original size:35 final size:35
Alignment explanation
Indices: 89927484--89927554 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
89927474 TCTAGGATCA
* *
89927484 CATATCTTTGAAGATCCCCTTCCATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* *
89927519 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
89927554 C
1 C
89927555 TCCGGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:89932656 original size:35 final size:35
Alignment explanation
Indices: 89932617--89932687 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
89932607 TCTAGGATCA
*
89932617 CATATCTTCGAAGA-TCCTCTTCCATATTTGCCAAG
1 CATATCTTCGAAGATTACT-TTCCATATTTGCCAAG
*
89932652 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTCGAAGATTACTTTCCATATTTGCCAAG
89932687 C
1 C
89932688 TCCGGAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (35 bp):
CATATCTTCGAAGATTACTTTCCATATTTGCCAAG
Found at i:89934052 original size:13 final size:14
Alignment explanation
Indices: 89934027--89934055 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
89934017 TGATATGTTT
89934027 TAAACTAAATTTAC
1 TAAACTAAATTTAC
89934041 TAAACT-AATTTAC
1 TAAACTAAATTTAC
89934054 TA
1 TA
89934056 GGAACTCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAACTAAATTTAC
Found at i:89936682 original size:6 final size:6
Alignment explanation
Indices: 89936673--89936720 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
89936663 GTCTAAGAAG
89936673 ATAAAA ATAAAA ATAAAA ACTAAAA GA-AAAA AT-AAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA A-TAAAA -ATAAAA ATAAAA ATAAAA ATAAAA
89936721 TCAACGGTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 6 0.16
6 26 0.68
7 5 0.13
8 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:89936685 original size:26 final size:25
Alignment explanation
Indices: 89936621--89936709 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 25
89936611 AGAAACAACC
*
89936621 ATAAAAGTAAAAATATAGT-TCAAAAG
1 ATAAAAATAAAAATA-AGTCT-AAAAG
*
89936647 ATAATAAA-CAAAATAAGTCTAAGAAG
1 ATAA-AAATAAAAATAAGTCTAA-AAG
**
89936673 ATAAAAATAAAAATAAAAACTAAAAG
1 ATAAAAATAAAAAT-AAGTCTAAAAG
89936699 A-AAAAATAAAA
1 ATAAAAATAAAA
89936710 TAAAAATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
25 18 0.34
26 27 0.51
27 8 0.15
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (25 bp):
ATAAAAATAAAAATAAGTCTAAAAG
Found at i:89942139 original size:22 final size:22
Alignment explanation
Indices: 89942111--89942157 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
89942101 ACAAAAGAAA
89942111 AAAAAATTAGAATGTAAAAATT
1 AAAAAATTAGAATGTAAAAATT
89942133 AAAAAATTAGAATGTAAAAATT
1 AAAAAATTAGAATGTAAAAATT
89942155 AAA
1 AAA
89942158 CTAAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (22 bp):
AAAAAATTAGAATGTAAAAATT
Found at i:89952623 original size:48 final size:48
Alignment explanation
Indices: 89952552--89952655 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 48
89952542 TCTCTAAATC
* *
89952552 TGTTTCATCCCCTACTGCTGATGAC-TTTCTTTCTTCAGCCATTGAAGA
1 TGTTTCTTCCCCTACTGCTGATGACGCTTCTTT-TTCAGCCATTGAAGA
** * *
89952600 TGTTTCTTCCCCTGTTGCTGATGACGCTTCTTTTTCAGTCATTGAAGG
1 TGTTTCTTCCCCTACTGCTGATGACGCTTCTTTTTCAGCCATTGAAGA
*
89952648 CGTTTCTT
1 TGTTTCTT
89952656 TTTCAGCCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 42 0.88
49 6 0.12
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.43
Consensus pattern (48 bp):
TGTTTCTTCCCCTACTGCTGATGACGCTTCTTTTTCAGCCATTGAAGA
Found at i:89952705 original size:72 final size:73
Alignment explanation
Indices: 89952577--89952714 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 73
89952567 TGCTGATGAC
* * ** *
89952577 TTTCTTTCTTCAGCCATTGAAGATGTTTCTTCCCCTGTTGCTGATGACGCTTCTTTTTCAGTCAT
1 TTTCTTTCTTCAGCCATTGAAGATGTTTCTGCCCCTATTGCTGATGACGCCCCTTTTTCAGCCAT
89952642 TGAAGGCG
66 TGAAGGCG
*
89952650 TTTCTTT-TTCAGCCATTGAAGTTGTTTCTGCCCCTATTGCTGATGA-GTCCCCTTTTTCAGCCA
1 TTTCTTTCTTCAGCCATTGAAGATGTTTCTGCCCCTATTGCTGATGACG-CCCCTTTTTCAGCCA
89952713 TT
65 TT
89952715 TAAGAAGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
71 1 0.02
72 50 0.86
73 7 0.12
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.43
Consensus pattern (73 bp):
TTTCTTTCTTCAGCCATTGAAGATGTTTCTGCCCCTATTGCTGATGACGCCCCTTTTTCAGCCAT
TGAAGGCG
Found at i:89957409 original size:18 final size:18
Alignment explanation
Indices: 89957386--89957444 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
89957376 CTATGGCCAA
89957386 ATCATTTTGGTAGCGAAG
1 ATCATTTTGGTAGCGAAG
* *
89957404 ATCA--TTGGTTTGGCCAA-
1 ATCATTTTGG--TAGCGAAG
*
89957421 ATCATTTTGGTAGTGAAG
1 ATCATTTTGGTAGCGAAG
89957439 ATCATT
1 ATCATT
89957445 GGTTTCCCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
16 4 0.13
17 8 0.26
18 15 0.48
19 4 0.13
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (18 bp):
ATCATTTTGGTAGCGAAG
Found at i:89957425 original size:35 final size:35
Alignment explanation
Indices: 89957379--89957449 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
89957369 AAGCAAACTA
89957379 TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
1 TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
*
89957414 TGGCCAAATCATTTTGGTAGTGAAGATCATTGGTT
1 TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
89957449 T
1 T
89957450 CCCATGTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (35 bp):
TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
Found at i:89960859 original size:25 final size:24
Alignment explanation
Indices: 89960831--89960877 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
89960821 TAAAATTATT
*
89960831 TTATATTCATATTAAATAAAAATAA
1 TTATATTAATATTAAA-AAAAATAA
*
89960856 TTATATTAATATTTAAAAAAAT
1 TTATATTAATATTAAAAAAAAT
89960878 CCCTCTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAAAAAAATAA
Found at i:89960990 original size:27 final size:27
Alignment explanation
Indices: 89960959--89961010 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
89960949 GGAAAAATGT
*
89960959 ATTTTTTTAAATATTAATATAAAATAA
1 ATTTTTTTAAATATTAACATAAAATAA
**
89960986 ATTTTTTTGTATATTAACATAAAAT
1 ATTTTTTTAAATATTAACATAAAAT
89961011 TATGAATAAA
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:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTTTTTTAAATATTAACATAAAATAA
Found at i:89963369 original size:23 final size:23
Alignment explanation
Indices: 89963343--89963394 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
89963333 TTTAAATAAT
89963343 TAATATTTATATATTT-ATATTTA
1 TAATATTTATAT-TTTAATATTTA
**
89963366 TAATGGTTATATTTTAATATTTA
1 TAATATTTATATTTTAATATTTA
*
89963389 AAATAT
1 TAATAT
89963395 AATTTATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TAATATTTATATTTTAATATTTA
Found at i:89963400 original size:19 final size:20
Alignment explanation
Indices: 89963373--89963411 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89963363 TTATAATGGT
* *
89963373 TATATTTTA-ATATTTAAAA
1 TATAATTTATATATTCAAAA
89963392 TATAATTTATATATTCAAAA
1 TATAATTTATATATTCAAAA
89963412 CAAAATATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAATTTATATATTCAAAA
Found at i:89970528 original size:84 final size:84
Alignment explanation
Indices: 89970384--89970554 Score: 308
Period size: 84 Copynumber: 2.0 Consensus size: 84
89970374 AATAAATAGG
**
89970384 ATAGTCAGATACTGGTTTCTGATGTTGTATGGATATCAACAAATAAAAACATAATTAATACACAA
1 ATAGTCAGATACTGGTTTCTGATGTTGTAACGATATCAACAAATAAAAACATAATTAATACACAA
89970449 ATCATGAAATATAACTATA
66 ATCATGAAATATAACTATA
89970468 ATAGTCAGATACTGGTTTCTGATGTTGTAACGATATCAACAAATAAAAACAT-ATTCAATACACA
1 ATAGTCAGATACTGGTTTCTGATGTTGTAACGATATCAACAAATAAAAACATAATT-AATACACA
89970532 AATCATGAAATATAACTATA
65 AATCATGAAATATAACTATA
89970552 ATA
1 ATA
89970555 CAGGGGTTCC
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
83 3 0.04
84 81 0.96
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (84 bp):
ATAGTCAGATACTGGTTTCTGATGTTGTAACGATATCAACAAATAAAAACATAATTAATACACAA
ATCATGAAATATAACTATA
Found at i:89973243 original size:23 final size:23
Alignment explanation
Indices: 89973213--89973260 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
89973203 CTCTTCAATA
89973213 ATGATAAAATC-ATAATTTAACAT
1 ATGATAAAATCTAT-ATTTAACAT
*
89973236 ATGATAAAATCTATATTTGACAT
1 ATGATAAAATCTATATTTAACAT
89973259 AT
1 AT
89973261 CAAAAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (23 bp):
ATGATAAAATCTATATTTAACAT
Found at i:89973628 original size:21 final size:22
Alignment explanation
Indices: 89973588--89973629 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
89973578 AAAAACAGAA
*
89973588 ATAAATAATTGTCATCTTAATC
1 ATAAACAATTGTCATCTTAATC
*
89973610 ATAAACAATTG-CGTCTTAAT
1 ATAAACAATTGTCATCTTAAT
89973630 TCCTTAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (22 bp):
ATAAACAATTGTCATCTTAATC
Found at i:89976178 original size:3 final size:3
Alignment explanation
Indices: 89976170--89976204 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
89976160 TTATTTCCTT
89976170 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
89976205 TTGGCTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:89976530 original size:27 final size:27
Alignment explanation
Indices: 89976500--89976558 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
89976490 ATATACCTTG
89976500 CAACCTATTTACTTTACATCACATTGA
1 CAACCTATTTACTTTACATCACATTGA
89976527 CAACCTATTTACTTTACATCACATTGA
1 CAACCTATTTACTTTACATCACATTGA
89976554 CAACC
1 CAACC
89976559 CAATAAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (27 bp):
CAACCTATTTACTTTACATCACATTGA
Found at i:89976867 original size:17 final size:18
Alignment explanation
Indices: 89976845--89976878 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
89976835 AGTCAAATTG
89976845 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
89976862 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
89976879 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:89977634 original size:10 final size:10
Alignment explanation
Indices: 89977607--89977656 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
89977597 TTAAATTCTA
89977607 AAAGATAAAT
1 AAAGATAAAT
*
89977617 ACAA-ATAATT
1 A-AAGATAAAT
*
89977627 AAAGATAATT
1 AAAGATAAAT
89977637 AAAGATAAAT
1 AAAGATAAAT
89977647 AAAGATAAAT
1 AAAGATAAAT
89977657 GAAAAAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:89980964 original size:37 final size:37
Alignment explanation
Indices: 89980918--89981021 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
89980908 GAACTTGTCT
89980918 TCATGTTTCAAGTTATGATGGTCCGCTGGACTTGCCC
1 TCATGTTTCAAGTTATGATGGTCCGCTGGACTTGCCC
* * ** *
89980955 TCATTTTTCAAGTTATGATGATTTGCTAGACTTGCCC
1 TCATGTTTCAAGTTATGATGGTCCGCTGGACTTGCCC
* * * *
89980992 ACATGTTTCGAGTTATAATGGTCCGTTGGA
1 TCATGTTTCAAGTTATGATGGTCCGCTGGA
89981022 TGTGTCCTCA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (37 bp):
TCATGTTTCAAGTTATGATGGTCCGCTGGACTTGCCC
Found at i:89981269 original size:26 final size:26
Alignment explanation
Indices: 89981199--89981335 Score: 112
Period size: 26 Copynumber: 5.2 Consensus size: 26
89981189 CTTTATACAA
* * * *
89981199 GAGTCTGCAATGACTATCTTTTAAGCAA
1 GAGTCTGCAAGGACTA--TTTCAAGTAT
* *
89981227 GAGTCTGTAAGGGCTATTTCAAGTAT
1 GAGTCTGCAAGGACTATTTCAAGTAT
* * *
89981253 GAGTCTGCAATGACTATTCCATGTAT
1 GAGTCTGCAAGGACTATTTCAAGTAT
* * *
89981279 GACTCAGCAAGGACTATTTCAAGCAT
1 GAGTCTGCAAGGACTATTTCAAGTAT
** *
89981305 GAGTCCACAAGGACTAATATCAAGTAT
1 GAGTCTGCAAGGACT-ATTTCAAGTAT
89981332 GAGT
1 GAGT
89981336 TCGTAAGATT
Statistics
Matches: 86, Mismatches: 22, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
26 60 0.70
27 13 0.15
28 13 0.15
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (26 bp):
GAGTCTGCAAGGACTATTTCAAGTAT
Found at i:89988656 original size:3 final size:3
Alignment explanation
Indices: 89988641--89988675 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
89988631 TTTTCAATTT
*
89988641 TCA TCA CCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
89988676 TTTTTACTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.37, G:0.00, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:89997004 original size:11 final size:11
Alignment explanation
Indices: 89996990--89997028 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
89996980 ATACAAAGTC
89996990 CAAGATATTTT
1 CAAGATATTTT
89997001 CAAGATA--TT
1 CAAGATATTTT
89997010 CAAGATATTTT
1 CAAGATATTTT
*
89997021 TAAGATAT
1 CAAGATAT
89997029 ATAAGATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (11 bp):
CAAGATATTTT
Found at i:89997036 original size:20 final size:20
Alignment explanation
Indices: 89996990--89997028 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
89996980 ATACAAAGTC
89996990 CAAGATATTTTCAAGATATT
1 CAAGATATTTTCAAGATATT
*
89997010 CAAGATATTTTTAAGATAT
1 CAAGATATTTTCAAGATAT
89997029 ATAAGATAAG
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:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
CAAGATATTTTCAAGATATT
Found at i:90003794 original size:17 final size:18
Alignment explanation
Indices: 90003768--90003806 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
90003758 TTAACTGTGG
90003768 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
90003784 AAAATTGTTCTCTTATAT
1 AAAATTGTTCTCTAATAT
90003802 AAAAT
1 AAAAT
90003807 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:90003983 original size:15 final size:15
Alignment explanation
Indices: 90003963--90003993 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
90003953 AAAACAATAT
90003963 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
90003978 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
90003993 A
1 A
90003994 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:90007361 original size:15 final size:15
Alignment explanation
Indices: 90007351--90007380 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90007341 TCCCTTCTTG
90007351 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
90007366 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
90007381 TCGATCTCCA
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:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:90008148 original size:17 final size:18
Alignment explanation
Indices: 90008122--90008160 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
90008112 CAAATTGTGG
90008122 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
90008138 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
90008156 AAAAT
1 AAAAT
90008161 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:90014979 original size:31 final size:32
Alignment explanation
Indices: 90014944--90015010 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 32
90014934 ATAAAAATAT
90014944 TTTTTTATAATTTTTAAA-AGATTAAA-T-TAA
1 TTTTTTATAA-TTTTAAAGAGATTAAAGTATAA
* *
90014974 ATTTTTATTATTTTAAAGGAGATTAAAGTATAA
1 TTTTTTATAATTTTAAA-GAGATTAAAGTATAA
90015007 TTTT
1 TTTT
90015011 ACTTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 7 0.23
30 8 0.27
31 8 0.27
32 1 0.03
33 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (32 bp):
TTTTTTATAATTTTAAAGAGATTAAAGTATAA
Found at i:90014981 original size:30 final size:31
Alignment explanation
Indices: 90014945--90015010 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
90014935 TAAAAATATT
*
90014945 TTTTTATAATTTTTAAA-AGATTAAATTA-AA
1 TTTTTATAA-TTTTAAAGAGATTAAAGTATAA
*
90014975 TTTTTATTATTTTAAAGGAGATTAAAGTATAA
1 TTTTTATAATTTTAAA-GAGATTAAAGTATAA
90015007 TTTT
1 TTTT
90015011 ACTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.23
30 8 0.26
31 10 0.32
32 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTTATAATTTTAAAGAGATTAAAGTATAA
Found at i:90017888 original size:27 final size:26
Alignment explanation
Indices: 90017857--90017929 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
90017847 CCATTTTCCC
*
90017857 CAAAAAGAAAAAAAAAAGAGGAAAAC
1 CAAAAAGAAAAAAAAAAGAGGAAAAA
* *
90017883 CAAAAAGCAAAGAAAAGAGAGGAAAAA
1 CAAAAAG-AAAAAAAAAAGAGGAAAAA
90017910 CAAAAATGAGAAGAAAAAAA
1 CAAAAA-GA-AA-AAAAAAA
90017930 AGTCCAGAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
26 7 0.18
27 23 0.61
28 3 0.08
29 5 0.13
ACGTcount: A:0.74, C:0.07, G:0.18, T:0.01
Consensus pattern (26 bp):
CAAAAAGAAAAAAAAAAGAGGAAAAA
Found at i:90034763 original size:41 final size:40
Alignment explanation
Indices: 90034686--90034763 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
90034676 CCGTGTGACA
* * *
90034686 CACATGGCCTCCACATGGCCTATCACATTGTCGTATGTCG
1 CACATGGCCTCCACACGGCCTAGCACATTGACGTATGTCG
90034726 CACATGGCCTACCACACGGCCTAGCACA-TGACTGTATG
1 CACATGGCCT-CCACACGGCCTAGCACATTGAC-GTATG
90034764 GTGTCGATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 13 0.39
41 20 0.61
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (40 bp):
CACATGGCCTCCACACGGCCTAGCACATTGACGTATGTCG
Found at i:90036712 original size:58 final size:59
Alignment explanation
Indices: 90036594--90036714 Score: 172
Period size: 60 Copynumber: 2.1 Consensus size: 59
90036584 GTCACCCAAT
* * * *
90036594 TATGAAAAGTTATAAAATGGTCACTCAACTATTAATAATTTTCTTTTTAGGCCACTCAAC
1 TATGAAAAATTACAAAAAGGTCACTCAACTATT-ATAATTTACTTTTTAGGCCACTCAAC
* *
90036654 TATGAAAAATTACAAAAAGGTCACTCAACTATT-TAATTTAGTTTTTTGGCCACTCAAC
1 TATGAAAAATTACAAAAAGGTCACTCAACTATTATAATTTACTTTTTAGGCCACTCAAC
90036712 TAT
1 TAT
90036715 CTTAGATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 25 0.45
60 30 0.55
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (59 bp):
TATGAAAAATTACAAAAAGGTCACTCAACTATTATAATTTACTTTTTAGGCCACTCAAC
Found at i:90039834 original size:31 final size:30
Alignment explanation
Indices: 90039798--90039867 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
90039788 ATATAAAAAT
* *
90039798 AAATTAAAGTTTCATGTATACATTTGAACC
1 AAATTAAAGTTTCATGTATAAAATTGAACC
* * * *
90039828 ACAATTAAAATTTCGTGTGTAAAATTGCACC
1 A-AATTAAAGTTTCATGTATAAAATTGAACC
90039859 AAATTAAAG
1 AAATTAAAG
90039868 CTCGTGTATC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATAAAATTGAACC
Found at i:90044399 original size:74 final size:74
Alignment explanation
Indices: 90044312--90044479 Score: 196
Period size: 74 Copynumber: 2.3 Consensus size: 74
90044302 TTTGTGGAAG
* *
90044312 TCAAATTGTTTAACTTGATTAAAACCCTT-AAGAGATTTAACTTTA-CTGATTAAGTGCAAGCAA
1 TCAAATTGTTTAACTTGATTAAAACCCTTAAAGAG-TTTAACTCTATC-GATTAAATGCAAGCAA
90044375 ATCTATGAAAC
64 ATCTATGAAAC
* * * * **
90044386 TCAAATTGTTTAACTTGATTACATCTCTTAAAGAGTTTAGCTCTATCGATTAAATGGGAGCAAAT
1 TCAAATTGTTTAACTTGATTAAAACCCTTAAAGAGTTTAACTCTATCGATTAAATGCAAGCAAAT
* *
90044451 TTATGAAAG
66 CTATGAAAC
* *
90044460 TTAAATTGTTTGACTTGATT
1 TCAAATTGTTTAACTTGATT
90044480 TCATTTCTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
74 74 0.93
75 6 0.08
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (74 bp):
TCAAATTGTTTAACTTGATTAAAACCCTTAAAGAGTTTAACTCTATCGATTAAATGCAAGCAAAT
CTATGAAAC
Found at i:90044929 original size:59 final size:59
Alignment explanation
Indices: 90044858--90044977 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
90044848 GGCTTGAGAA
90044858 GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
1 GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
90044917 GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
1 GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
90044976 GG
1 GG
90044978 TTATACATGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (59 bp):
GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
Found at i:90045998 original size:16 final size:17
Alignment explanation
Indices: 90045979--90046011 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90045969 TGATTTCAAG
*
90045979 GTTAAA-TGATTAAATT
1 GTTAAAGTGATAAAATT
90045995 GTTAAAGTGATAAAATT
1 GTTAAAGTGATAAAATT
90046012 TAAACGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (17 bp):
GTTAAAGTGATAAAATT
Found at i:90048641 original size:48 final size:48
Alignment explanation
Indices: 90048326--90048643 Score: 433
Period size: 48 Copynumber: 6.6 Consensus size: 48
90048316 TAAAGTACCA
* * * **
90048326 ATGCCATGTCCCAGACATAGTCTTACATGAGTC-CATATATCATCGCTA
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
* *
90048374 ATGCCATGTCCCAAACATGGTCTTACA-ATGGCATATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-GGCACATATATCATCGCCG
* * *
90048422 ATGCCATATCCCAGGCATGGTCTTACATAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
90048470 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* * * * *
90048518 ATGCTATGTCCCAGACATGGTCTTACACTGGTACATATATTATCTCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* * * *
90048566 ATGTCATATCCCAGACATGGTCTTACACAGGCACATATATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
90048614 ATGCCATGTCCCAGACATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
90048644 AATCTCATTT
Statistics
Matches: 239, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.00
47 2 0.01
48 235 0.98
49 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
Found at i:90051429 original size:81 final size:81
Alignment explanation
Indices: 90051291--90051449 Score: 282
Period size: 81 Copynumber: 2.0 Consensus size: 81
90051281 AGTAAGAAAG
* *
90051291 AACTCACCAGAAAACACAACAAGTCTTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGC
1 AACTCACCAGAAAACACAACAAGTCCTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGA
90051356 TATAATATAAATAAAA
66 TATAATATAAATAAAA
* *
90051372 AACTCACCAGAAAACACAACAAGTCCTTTGCCTTTATCACGAGAACCTTCAAGAGTGTCTTGAGA
1 AACTCACCAGAAAACACAACAAGTCCTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGA
90051437 TATAATATAAATA
66 TATAATATAAATA
90051450 CTTAAACTTA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (81 bp):
AACTCACCAGAAAACACAACAAGTCCTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGA
TATAATATAAATAAAA
Found at i:90052900 original size:26 final size:26
Alignment explanation
Indices: 90052867--90052974 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
90052857 TGATACAAAT
90052867 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
90052893 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90052919 TGATAATTGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90052945 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90052971 TGAT
1 TGAT
90052975 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90055004 original size:137 final size:137
Alignment explanation
Indices: 90054758--90055044 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
90054748 GAGTAGTCTC
90054758 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
* *
90054823 TGTTATCTGAATAAGGGGCTCAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTGCC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
90054888 ACTGTTA
131 ACTGTTA
*
90054895 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
*
90054960 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
90055025 ACTGTTA
131 ACTGTTA
**
90055032 CCTGAATGGGCTT
1 CCCAAATGGGCTT
90055045 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:90057474 original size:40 final size:40
Alignment explanation
Indices: 90057416--90057593 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
90057406 TGGATGATAA
*
90057416 CCGGGCTAAGTCCTGAAGGAAATT-GTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGG-AATTGGTGCGAGTTACTATAT
*
90057456 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGAATTGGTGCGAGTTACTATAT
*
90057496 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGAATTGGTGCGAGTTACTATAT
* * * * *
90057536 CCGAGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGAATTGGTGCGAGTTA-CTATAT
* *
90057576 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
90057594 TACTTGGCTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 17 0.13
40 109 0.87
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGAATTGGTGCGAGTTACTATAT
Found at i:90063251 original size:55 final size:55
Alignment explanation
Indices: 90063188--90063420 Score: 313
Period size: 55 Copynumber: 4.2 Consensus size: 55
90063178 TTCTTAATTT
* * * * *
90063188 TTGGAATATTGCTTCTTTTGATTCAATTTTTTATATGTTGAAATCGATTGTCATG
1 TTGGAATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTCATG
* * *
90063243 TTGGAATATTGCTGCTTTTGAATGGATTTTTTATATGTTTAAATCAATTGTCATG
1 TTGGAATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTCATG
* * *
90063298 TTGGAATATTGCTTCTTTTGAATTGATTGTTTCTATGTTTAAATCAATTGTTATG
1 TTGGAATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTCATG
* * *** *
90063353 TTGGAATATTGTTTCTTTTGAATCGGTTGTTTATATGTTTAAATTGGTTGTTATG
1 TTGGAATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTCATG
90063408 TTGGAATATTGCT
1 TTGGAATATTGCT
90063421 GATAAATCTT
Statistics
Matches: 159, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 159 1.00
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.52
Consensus pattern (55 bp):
TTGGAATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTCATG
Found at i:90068144 original size:17 final size:17
Alignment explanation
Indices: 90068118--90068151 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90068108 TAAATATCAT
* *
90068118 TTTTTCAATTTTCTTCA
1 TTTTTAAATTTTATTCA
90068135 TTTTTAAATTTTATTCA
1 TTTTTAAATTTTATTCA
90068152 AAAACACCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTAAATTTTATTCA
Found at i:90071450 original size:33 final size:33
Alignment explanation
Indices: 90071401--90071472 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
90071391 GAACAAGAAG
90071401 ATAGAAAATAGAGTTCTCGAACAAGACATAGGT
1 ATAGAAAATAGAGTTCTCGAACAAGACATAGGT
* * *
90071434 ATAGAAAATGGTGTTCTTGAACAAGACATAGGT
1 ATAGAAAATAGAGTTCTCGAACAAGACATAGGT
*
90071467 AAAGAA
1 ATAGAA
90071473 GGGTTTACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (33 bp):
ATAGAAAATAGAGTTCTCGAACAAGACATAGGT
Found at i:90072977 original size:27 final size:28
Alignment explanation
Indices: 90072940--90073001 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
90072930 TGAAAAAAAT
*
90072940 AAAAATTTATTCT-AAAA-GAGAATAAA
1 AAAAATTTATTCTAAAAATAAGAATAAA
90072966 AAAAATTCTATTCTAAAAATAAGAATAAA
1 AAAAATT-TATTCTAAAAATAAGAATAAA
90072995 ATAAAAT
1 A-AAAAT
90073002 AAAAGAGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 7 0.23
27 6 0.19
28 4 0.13
29 9 0.29
30 5 0.16
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAAATTTATTCTAAAAATAAGAATAAA
Found at i:90072995 original size:26 final size:26
Alignment explanation
Indices: 90072937--90072995 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
90072927 AAATGAAAAA
*
90072937 AATAAAAATTTATTCTAAAAGAGAAT
1 AATAAAAATTTATTCTAAAAGAGAAG
* *
90072963 AAAAAAAATTCTATTCTAAAA-ATAAG
1 AATAAAAATT-TATTCTAAAAGAGAAG
90072989 AATAAAA
1 AATAAAA
90072996 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (26 bp):
AATAAAAATTTATTCTAAAAGAGAAG
Found at i:90074483 original size:21 final size:21
Alignment explanation
Indices: 90074439--90074489 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
90074429 ATTGCCTTTC
*
90074439 TCCATCTTCCATCGAATCTTTT
1 TCCATCTTCCATC-AATATTTT
90074461 TCCATCTCTCCAT-AATATTTT
1 TCCATCT-TCCATCAATATTTT
*
90074482 TCTATCTT
1 TCCATCTT
90074490 GATTATGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 13 0.50
22 7 0.27
23 5 0.19
ACGTcount: A:0.20, C:0.29, G:0.02, T:0.49
Consensus pattern (21 bp):
TCCATCTTCCATCAATATTTT
Found at i:90087625 original size:2 final size:2
Alignment explanation
Indices: 90087618--90087669 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
90087608 CCATTATCTA
90087618 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
90087660 CT CT CT CT CT
1 CT CT CT CT CT
90087670 GCCAAAAGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:90095660 original size:16 final size:18
Alignment explanation
Indices: 90095633--90095665 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
90095623 TAGAATTTGG
90095633 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
90095650 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
90095666 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:90096834 original size:29 final size:30
Alignment explanation
Indices: 90096773--90096829 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
90096763 TTAATGAAGT
*
90096773 TTAGCAAGTTCAATGGGGTAAACAAAAAGC
1 TTAGCAAGTTCAACGGGGTAAACAAAAAGC
* * *
90096803 TTAGTAAGTTCGACGGGTTAAACAAAA
1 TTAGCAAGTTCAACGGGGTAAACAAAA
90096830 TCTTACCGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (30 bp):
TTAGCAAGTTCAACGGGGTAAACAAAAAGC
Found at i:90097116 original size:19 final size:20
Alignment explanation
Indices: 90097089--90097150 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
90097079 CAAATACGCC
90097089 AACAGAAGCTCGAA-AGCTG
1 AACAGAAGCTCGAAGAGCTG
* *
90097108 AATAGAAGCTCATAAGAGCTG
1 AACAGAAGCTC-GAAGAGCTG
*
90097129 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCG-AAGAGCTG
90097150 A
1 A
90097151 TCCACCCAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 10 0.29
20 2 0.06
21 23 0.66
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (20 bp):
AACAGAAGCTCGAAGAGCTG
Found at i:90098632 original size:20 final size:20
Alignment explanation
Indices: 90098607--90098653 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
90098597 AGGGGCACAC
90098607 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
90098627 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
90098647 GCCCGTG
1 GCCCGTG
90098654 AAGGCAGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.09, C:0.32, G:0.40, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:90104159 original size:41 final size:41
Alignment explanation
Indices: 90104114--90104371 Score: 372
Period size: 41 Copynumber: 6.3 Consensus size: 41
90104104 CAGAGCAATT
*
90104114 ACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGGTAAA
1 ACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAA
**
90104155 ACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCATTAAA
1 ACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAA
* * * **
90104196 ACGCCGCTAAAAGCCAAAGCATTAGCGGCACTTTCTATAAA
1 ACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAA
* *
90104237 ACGTCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAA
1 ACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAA
* * * * *
90104278 ACACTGCTAAATACCAGAGTATTAGTGGCGCTTTCGGTAAA
1 ACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAA
*
90104319 ACGCCGCTAAAAACCAGAGCATTAGCGGCTCTTTCGGTAAA
1 ACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAA
90104360 ACGCCGCTAAAA
1 ACGCCGCTAAAA
90104372 GTCATATAAC
Statistics
Matches: 189, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 189 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (41 bp):
ACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAA
Found at i:90104559 original size:14 final size:14
Alignment explanation
Indices: 90104537--90104588 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
90104527 TTAATTATCA
*
90104537 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
90104551 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
90104565 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
90104579 TTAAGGTTTA
1 TTATGGTTTA
90104589 GGAGTTAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:90104646 original size:14 final size:14
Alignment explanation
Indices: 90104621--90104663 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
90104611 TTTATGATGA
90104621 ATTATGGGTTTAGGG
1 ATTAT-GGTTTAGGG
90104636 ATTATGGTTTAGGG
1 ATTATGGTTTAGGG
* *
90104650 TTTAGGGTTTAGGG
1 ATTATGGTTTAGGG
90104664 TTGGAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 21 0.81
15 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.42
Consensus pattern (14 bp):
ATTATGGTTTAGGG
Done.