Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 13 of 150
Found at i:3708255 original size:12 final size:12
Alignment explanation
Indices: 3708240--3708270 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
3708230 ACTACCGCAA
3708240 CCACCACCACAG
1 CCACCACCACAG
3708252 CCACCACCACAG
1 CCACCACCACAG
3708264 CCACCAC
1 CCACCAC
3708271 TCTTCACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.61, G:0.06, T:0.00
Consensus pattern (12 bp):
CCACCACCACAG
Found at i:3708255 original size:24 final size:24
Alignment explanation
Indices: 3708210--3708270 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
3708200 CACTATGCTT
* * *
3708210 CCACAACCACCCCCGCACCCACTA
1 CCACAACCACCACCACACCCACCA
* *
3708234 CCGCAACCACCACCACAGCCACCA
1 CCACAACCACCACCACACCCACCA
*
3708258 CCACAGCCACCAC
1 CCACAACCACCAC
3708271 TCTTCACCAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.61, G:0.07, T:0.02
Consensus pattern (24 bp):
CCACAACCACCACCACACCCACCA
Found at i:3708277 original size:75 final size:75
Alignment explanation
Indices: 3708198--3708382 Score: 190
Period size: 75 Copynumber: 2.5 Consensus size: 75
3708188 ACTGCCGCTA
* * * * * *
3708198 TTCACTATGCTTCCACAACCACCCCCGCACCCACTACCGCAACCACCACCACAGCCACCACCACA
1 TTCACCATGCTTCCACAACCACCACCACAACCACCACCACAACCACCACCACAGCCACCACCACA
*
3708263 GCCACCACTC
66 ACCACCACTC
* * * * * ** * *
3708273 TTCACCATGTTTCCACATCCAGCACCACAACCACCCCCACATCCACTGCCGCAGCCACTACCACA
1 TTCACCATGCTTCCACAACCACCACCACAACCACCACCACAACCACCACCACAGCCACCACCACA
3708338 ACCACCACTC
66 ACCACCACTC
* * * *
3708348 TTCACCACGTTTCCACATCCAGCACCACAACCACC
1 TTCACCATGCTTCCACAACCACCACCACAACCACC
3708383 GCAGCCACCA
Statistics
Matches: 93, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 93 1.00
ACGTcount: A:0.28, C:0.52, G:0.06, T:0.14
Consensus pattern (75 bp):
TTCACCATGCTTCCACAACCACCACCACAACCACCACCACAACCACCACCACAGCCACCACCACA
ACCACCACTC
Found at i:3709741 original size:20 final size:20
Alignment explanation
Indices: 3709716--3709785 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 20
3709706 GCATGTATAT
3709716 ACCTCATTTGGAGTCTTATG
1 ACCTCATTTGGAGTCTTATG
* * *
3709736 ACCTCAGCTT-GAGTTTCATCAATT
1 ACCTCA-TTTGGAG--TC-T-TATG
3709760 ACCTCATTTGGAGTCTTATG
1 ACCTCATTTGGAGTCTTATG
3709780 ACCTCA
1 ACCTCA
3709786 GCTTGAGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 17 0.45
21 3 0.08
22 4 0.11
23 3 0.08
24 11 0.29
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (20 bp):
ACCTCATTTGGAGTCTTATG
Found at i:3709778 original size:44 final size:44
Alignment explanation
Indices: 3709715--3709802 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
3709705 TGCATGTATA
3709715 TACCTCATTTGGAGTCTTATGACCTCAGCTTGAGTTTCATCAAT
1 TACCTCATTTGGAGTCTTATGACCTCAGCTTGAGTTTCATCAAT
3709759 TACCTCATTTGGAGTCTTATGACCTCAGCTTGAGTTTCATCAAT
1 TACCTCATTTGGAGTCTTATGACCTCAGCTTGAGTTTCATCAAT
3709803 GACACGGGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (44 bp):
TACCTCATTTGGAGTCTTATGACCTCAGCTTGAGTTTCATCAAT
Found at i:3709793 original size:20 final size:20
Alignment explanation
Indices: 3709726--3709793 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
3709716 ACCTCATTTG
3709726 GAGTCTTATGACCTCAGCTT
1 GAGTCTTATGACCTCAGCTT
* * *
3709746 GAGTTTCATCAATTACCTCA-TTT
1 GAG--TC-T-TATGACCTCAGCTT
3709769 GGAGTCTTATGACCTCAGCTT
1 -GAGTCTTATGACCTCAGCTT
3709790 GAGT
1 GAGT
3709794 TTCATCAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 15 0.42
21 3 0.08
22 4 0.11
23 3 0.08
24 11 0.31
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (20 bp):
GAGTCTTATGACCTCAGCTT
Found at i:3713976 original size:14 final size:14
Alignment explanation
Indices: 3713940--3713976 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3713930 TGCAACCATT
*
3713940 TTATTATTATGTTG
1 TTATTATTTTGTTG
*
3713954 CTATTATTTTGTTG
1 TTATTATTTTGTTG
3713968 TTATTATTT
1 TTATTATTT
3713977 AGATATTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (14 bp):
TTATTATTTTGTTG
Found at i:3714259 original size:18 final size:18
Alignment explanation
Indices: 3714236--3714273 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3714226 TCTAGTTAGT
3714236 ATTTT-ATATTTACATTTG
1 ATTTTAATATTTA-ATTTG
*
3714254 ATTTTAATGTTTAATTTG
1 ATTTTAATATTTAATTTG
3714272 AT
1 AT
3714274 ATAAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTTAATATTTAATTTG
Found at i:3717093 original size:98 final size:97
Alignment explanation
Indices: 3716956--3717163 Score: 251
Period size: 98 Copynumber: 2.1 Consensus size: 97
3716946 TACGAAAAAG
* * *
3716956 AAAAAAAATTTTGGGTGCCGGCCTTTGACAGGCCAGCACCCAATAGTAA-AAAAAAATTTTACTT
1 AAAAAAAATTTTGGGTGCCGGCCTGTCACAGGCCAGCACCCAATA-CAATAAAAAAATTTTACTT
3717020 TTTTTTT-GTGTCAGAATCAGATATAAATATAC
65 TTTTTTTCGTGTCAGAATCAGATATAAATATAC
* * * *** *
3717052 GAAAAAAAAATTTTGGGTGCTGGCCTGTCA-ATGGCCGGCACCCAGTACAATTAAAATTTTTTTT
1 --AAAAAAAATTTTGGGTGCCGGCCTGTCACA-GGCCAGCACCCAATACAA-TAAAAAAATTTTA
*
3717116 CTTTTTTTTTCGTGTCAGAGTCAGATATAAATATAC
62 CTTTTTTTTTCGTGTCAGAATCAGATATAAATATAC
3717152 AAAAAAAATTTT
1 AAAAAAAATTTT
3717164 AAAAAAAAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
97 3 0.03
98 50 0.53
99 18 0.19
100 24 0.25
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Consensus pattern (97 bp):
AAAAAAAATTTTGGGTGCCGGCCTGTCACAGGCCAGCACCCAATACAATAAAAAAATTTTACTTT
TTTTTTCGTGTCAGAATCAGATATAAATATAC
Found at i:3717274 original size:106 final size:107
Alignment explanation
Indices: 3717123--3717318 Score: 322
Period size: 106 Copynumber: 1.8 Consensus size: 107
3717113 TTTCTTTTTT
**
3717123 TTTCGTGTCAGAGTCAGATATAAATATACAAAAAAAATTTTAAAAAA-AAATTTAGGTGCTGGCC
1 TTTCGTGTCAGAGTCAGATATAAATATACAAAAAAAATTAAAAAAAATAAATTTAGGTGCTGGCC
3717187 TGTCAATGGCCGGCACCCAGTACAAATTTTTAAAAAAAAAAA
66 TGTCAATGGCCGGCACCCAGTACAAATTTTTAAAAAAAAAAA
* *** *
3717229 TTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAATTTTTTTGGGTGCTGGCC
1 TTTCGTGTCAGAGTCAGATATAAATATACAAAAAAAATTAAAAAAAATAAATTTAGGTGCTGGCC
3717294 TGTCAATGGCCGGCACCCAGTACAA
66 TGTCAATGGCCGGCACCCAGTACAA
3717319 TTTNNNNNNN
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
106 44 0.54
107 38 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (107 bp):
TTTCGTGTCAGAGTCAGATATAAATATACAAAAAAAATTAAAAAAAATAAATTTAGGTGCTGGCC
TGTCAATGGCCGGCACCCAGTACAAATTTTTAAAAAAAAAAA
Found at i:3717321 original size:106 final size:105
Alignment explanation
Indices: 3717123--3717318 Score: 322
Period size: 107 Copynumber: 1.8 Consensus size: 105
3717113 TTTCTTTTTT
3717123 TTTCGTGTCAGAGTCAGATATAAATATACAAAAAAAATTTTAAAAAAAAATTTAGGTGCTGGCCT
1 TTTCGTGTCAGAGTCAGATATAAATATACAAAAAAAA-TTTAAAAAAAAATTTAGGTGCTGGCCT
3717188 GTCAATGGCCGGCACCCAGTACAAATTTTTAAAAAAAAAAA
65 GTCAATGGCCGGCACCCAGTACAAATTTTTAAAAAAAAAAA
* * *
3717229 TTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAA-TTAAAAAAAATTTTTTTGGGTGCTGGC
1 TTTCGTGTCAGAGTCAGATATAAATATACAAAAAAAATTTAAAAAAAA---ATTTAGGTGCTGGC
3717293 CTGTCAATGGCCGGCACCCAGTACAA
63 CTGTCAATGGCCGGCACCCAGTACAA
3717319 TTTNNNNNNN
Statistics
Matches: 84, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
104 10 0.12
106 36 0.43
107 38 0.45
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (105 bp):
TTTCGTGTCAGAGTCAGATATAAATATACAAAAAAAATTTAAAAAAAAATTTAGGTGCTGGCCTG
TCAATGGCCGGCACCCAGTACAAATTTTTAAAAAAAAAAA
Found at i:3718553 original size:18 final size:20
Alignment explanation
Indices: 3718508--3718554 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
3718498 TATGACAGCT
3718508 TTTATTTGCAGCTCTAATTAG
1 TTTATTTGCAGCTCTAA-TAG
3718529 TTTTATTTGCAGCTCTAA-A-
1 -TTTATTTGCAGCTCTAATAG
3718548 TTTATTT
1 TTTATTT
3718555 CAATTTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.28
20 1 0.04
22 17 0.68
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTATTTGCAGCTCTAATAG
Found at i:3724286 original size:3 final size:3
Alignment explanation
Indices: 3724230--3724267 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
3724220 TAAATGGGTA
3724230 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3724268 AACTGATTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3726914 original size:19 final size:19
Alignment explanation
Indices: 3726890--3726947 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
3726880 TTTATTACTA
3726890 TATTATTATTAGCATT-TAT
1 TATTATTATTA-CATTATAT
* *
3726909 TATTATTGTTATATTATAT
1 TATTATTATTACATTATAT
3726928 TATTATTA-TACA-TATAT
1 TATTATTATTACATTATAT
3726945 TAT
1 TAT
3726948 ATGCGCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 8 0.24
18 6 0.18
19 20 0.59
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TATTATTATTACATTATAT
Found at i:3733929 original size:44 final size:43
Alignment explanation
Indices: 3733749--3733930 Score: 117
Period size: 44 Copynumber: 4.2 Consensus size: 43
3733739 NNNNGGTTGG
*
3733749 CAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATT
1 CAGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCT-GG-ATT
* * * * * *
3733794 -AGTGGAGCT-GATCGAAGATGGCAGATTTTACCTCCCTGTGGTT
1 CAGTGGA-ATAGATTGAAGATGTCAGATCTTATCTCCCTG-GATT
* * **
3733837 ACAGTGGAGTACATTGAAGCCGT-A-AT-TCTATCTCCCTGG-TT
1 -CAGTGGAATAGATTGAAGATGTCAGATCT-TATCTCCCTGGATT
*
3733878 GGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATT
1 --CAGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCT-GG-ATT
3733925 -AGTGGA
1 CAGTGGA
3733931 GCAGATCTTG
Statistics
Matches: 104, Mismatches: 20, Indels: 27
0.69 0.13 0.18
Matches are distributed among these distances:
41 2 0.02
42 19 0.18
43 15 0.14
44 49 0.47
45 17 0.16
47 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CAGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCTGGATT
Found at i:3734171 original size:132 final size:132
Alignment explanation
Indices: 3733977--3734733 Score: 1241
Period size: 132 Copynumber: 5.8 Consensus size: 132
3733967 TCGAAGATAC
*
3733977 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
** * * * * *
3734042 TAGTAAAGTAGATCAAATATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCA
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
3734107 AG
131 AG
*
3734109 TAATTCTATCTCCCTGGTTGGCAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
* *
3734174 TAGTGGAGCAGATCTAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
3734239 -G
131 AG
3734240 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
* * *
3734305 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCT
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
3734370 AG
131 AG
3734372 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
*
3734437 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCCGAGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
3734502 AG
131 AG
* * * **
3734504 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTTAGATC-TATCTCCTTAAGCGG
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
*
3734568 TAGTGGAGCAGATCGAAGATGGC-GAATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGC
66 TAGTGGAGCAGATCGAAGATGGCAG-ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
3734632 CAG
130 CAG
* * * *
3734635 TAATTCTATCCCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATTTCCCTAAGCAG
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
* *
3734700 TAGTGGAGCAGATTGAAGATGGCGGATTTTACCT
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCT
3734734 NNNNNNNNNN
Statistics
Matches: 590, Mismatches: 31, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
130 1 0.00
131 248 0.42
132 340 0.58
133 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (132 bp):
TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
AG
Found at i:3734399 original size:43 final size:43
Alignment explanation
Indices: 3734087--3734675 Score: 191
Period size: 44 Copynumber: 13.5 Consensus size: 43
3734077 CCTGAGGTTA
*
3734087 CAGTGGAGTACATTGAAGCA-AGTAATTCTATCTCCCTGGTTGG
1 CAGTGGAGTAGATTGAAG-ATAGTAATTCTATCTCCCTGGTTGG
* * *
3734130 CAGTAGAATAGATTGAAGAT-TTCAGA-TCTTATCTCCCTAGGCATT--
1 CAGTGGAGTAGATTGAAGATAGT-A-ATTC-TATCTCCCT-GG--TTGG
* * * * * *
3734175 -AGTGGAGCAGATCT-AAGATGGCAGATTTTACCTCCCTGTGGTT-A
1 CAGTGGAGTAGAT-TGAAGATAGTA-ATTCTATCTCCC--TGGTTGG
* **
3734219 CAGTGGAGTACATTGAAG-CCGTAATTCTATCTCCCTGGTTGG
1 CAGTGGAGTAGATTGAAGATAGTAATTCTATCTCCCTGGTTGG
* *
3734261 CAGTGGAATAGATTGAAGAT-TTCAGA-TCTTATCTCCCTAGGCATT--
1 CAGTGGAGTAGATTGAAGATAGT-A-ATTC-TATCTCCCT-GG--TTGG
* * * * * ** *
3734306 -AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCTCTGTGGTT-A
1 CAGTGGAGTAGATTGAAGATAGTA-ATTCTA--TCTCCCTGGTTGG
* *
3734350 CAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTGGTTGG
1 CAGTGGAGTAGATTGAAGATAGTAATTCTATCTCCCTGGTTGG
* *
3734393 CAGTGGAATAGATTGAAGAT-TTCAGA-TCTTATCTCCCTAGGCATT--
1 CAGTGGAGTAGATTGAAGATAGT-A-ATTC-TATCTCCCT-GG--TTGG
* * * * * * * *
3734438 -AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCCGAGGTT-A
1 CAGTGGAGTAGATTGAAGATAGTA-ATTCTATCT-CCC-TGGTTGG
* **
3734482 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTGG
1 CAGTGGAGTAGATTGAAGATAGTAATTCTATCTCCCTGGTTGG
* ** * * *
3734525 CAGTGGAATAGATTGAAGATTTTAGA-TCTATCTCCTTAAG-CGG
1 CAGTGGAGTAGATTGAAGATAGTA-ATTCTATCTCCCT-GGTTGG
* * * * * * * *
3734568 TAGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGGGGTT-A
1 CAGTGGAGTAGATTGAAGATAG-TAATTCTATCTCCCT--GGTTGG
* ** *
3734613 CAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGTTGG
1 CAGTGGAGTAGATTGAAGATAGTAATTCTATCTCCCTGGTTGG
*
3734656 CAGTGGAATAGATTGAAGAT
1 CAGTGGAGTAGATTGAAGAT
3734676 TTCAGATCTT
Statistics
Matches: 393, Mismatches: 103, Indels: 100
0.66 0.17 0.17
Matches are distributed among these distances:
41 5 0.01
42 37 0.09
43 123 0.31
44 135 0.34
45 81 0.21
46 6 0.02
47 6 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
CAGTGGAGTAGATTGAAGATAGTAATTCTATCTCCCTGGTTGG
Found at i:3734444 original size:263 final size:264
Alignment explanation
Indices: 3733977--3734733 Score: 1243
Period size: 263 Copynumber: 2.9 Consensus size: 264
3733967 TCGAAGATAC
3733977 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCAT
** * * * *
3734042 TAGTAAAGTAGATCAAATATGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCA
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCA
*
3734107 AGTAATTCTATCTCCCTGGTTGGCAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGC
131 AGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGC
* *
3734172 ATTAGTGGAGCAGATCTAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
196 ATTAGTGGAGCAGATCTAAGATGGCAGATTTTACCTCCCCGAGGTTACAGTGGAGTACATTGAAG
3734237 CC-G
261 CCAG
*
3734240 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCAT
* * *
3734305 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCT
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCA
3734370 AGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGC
131 AGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGC
*
3734435 ATTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCCGAGGTTACAGTGGAGTACATTGAAG
196 ATTAGTGGAGCAGATCTAAGATGGCAGATTTTACCTCCCCGAGGTTACAGTGGAGTACATTGAAG
3734500 CCAG
261 CCAG
* * **
3734504 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTTAGATC-TATCTCCTTAAGCGG
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCAT
*
3734568 TAGTGGAGCAGATCGAAGATGGC-GAATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGC
66 TAGTGGAGCAGATCGAAGATGGCAG-ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
* * * *
3734632 CAGTAATTCTATCCCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATTTCCCTAAG
130 AAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGG
* *
3734697 CAGTAGTGGAGCAGAT-TGAAGATGGCGGATTTTACCT
195 CATTAGTGGAGCAGATCT-AAGATGGCAGATTTTACCT
3734734 NNNNNNNNNN
Statistics
Matches: 463, Mismatches: 28, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
262 1 0.00
263 413 0.89
264 49 0.11
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (264 bp):
TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCAT
TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCA
AGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGC
ATTAGTGGAGCAGATCTAAGATGGCAGATTTTACCTCCCCGAGGTTACAGTGGAGTACATTGAAG
CCAG
Found at i:3740764 original size:9 final size:9
Alignment explanation
Indices: 3740750--3740800 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
3740740 TTAAAATACT
3740750 TTTTTTAAA
1 TTTTTTAAA
*
3740759 TTTTTTTAA
1 TTTTTTAAA
*
3740768 -TTTTAAAA
1 TTTTTTAAA
*
3740776 TTTTTTTAAT
1 -TTTTTTAAA
*
3740786 TTTTTTTAA
1 TTTTTTAAA
3740795 TTTTTT
1 TTTTTT
3740801 TTAATTTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
8 6 0.18
9 21 0.64
10 6 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:3740764 original size:10 final size:10
Alignment explanation
Indices: 3740749--3740857 Score: 71
Period size: 10 Copynumber: 10.5 Consensus size: 10
3740739 TTTAAAATAC
3740749 TTTTTTTAAA
1 TTTTTTTAAA
3740759 TTTTTTT-AA
1 TTTTTTTAAA
*
3740768 --TTTTAAAA
1 TTTTTTTAAA
*
3740776 TTTTTTTAAT
1 TTTTTTTAAA
*
3740786 TTTTTTTAAT
1 TTTTTTTAAA
*
3740796 TTTTTTTAATT
1 TTTTTTTAA-A
3740807 TTTATTTTAAAA
1 TTT-TTTT-AAA
*
3740819 TATTTTTAAAA
1 T-TTTTTTAAA
*
3740830 TACTTTTTTAAT
1 T--TTTTTTAAA
*
3740842 TTTTATTTTAA
1 TTTT-TTTAAA
3740853 TTTTT
1 TTTTT
3740858 AAAATAAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 2 0.03
10 36 0.45
11 16 0.20
12 16 0.20
13 4 0.05
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:3740798 original size:17 final size:17
Alignment explanation
Indices: 3740751--3740810 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
3740741 TAAAATACTT
3740751 TTTTTAAATTTTTTTAA
1 TTTTTAAATTTTTTTAA
*
3740768 TTTTAAAATTTTTTTAA
1 TTTTTAAATTTTTTTAA
*
3740785 TTTTTTTTAATTTTTTTTAA
1 ---TTTTTAAATTTTTTTAA
3740805 TTTTTA
1 TTTTTA
3740811 TTTTAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 22 0.59
20 15 0.41
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTAAATTTTTTTAA
Found at i:3740827 original size:43 final size:47
Alignment explanation
Indices: 3740761--3740858 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 47
3740751 TTTTTAAATT
* *
3740761 TTTTTAATTTTAAAAT-TTTTTTAAT-TTTTTTTAA-TTTT-TTTTAA
1 TTTTT-ATTTTAAAATATTTTTAAATACTTTTTTAATTTTTATTTTAA
3740805 TTTTTATTTTAAAATATTTTTAAAATACTTTTTTAATTTTTATTTTAA
1 TTTTTATTTTAAAATATTTTT-AAATACTTTTTTAATTTTTATTTTAA
3740853 TTTTTA
1 TTTTTA
3740859 AAATAAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
43 10 0.21
44 10 0.21
45 3 0.06
46 8 0.17
47 4 0.09
48 12 0.26
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (47 bp):
TTTTTATTTTAAAATATTTTTAAATACTTTTTTAATTTTTATTTTAA
Found at i:3740879 original size:32 final size:32
Alignment explanation
Indices: 3740820--3740881 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
3740810 ATTTTAAAAT
** *
3740820 ATTTTTAAAATACTTTTTTAATTTTTATTTTA
1 ATTTTTAAAATAAATTTTTAATATTTATTTTA
**
3740852 ATTTTTAAAATAAATTTTTGGTATTTATTT
1 ATTTTTAAAATAAATTTTTAATATTTATTT
3740882 AAAAACGGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (32 bp):
ATTTTTAAAATAAATTTTTAATATTTATTTTA
Found at i:3741094 original size:16 final size:16
Alignment explanation
Indices: 3741073--3741112 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
3741063 AGAATTAAGG
3741073 GCAAAATTGGAATATT
1 GCAAAATTGGAATATT
3741089 GCAAAATTGGAATATT
1 GCAAAATTGGAATATT
3741105 GCAAAATT
1 GCAAAATT
3741113 TACTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (16 bp):
GCAAAATTGGAATATT
Found at i:3742935 original size:38 final size:39
Alignment explanation
Indices: 3742883--3742965 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
3742873 ATTTGCCGGC
*
3742883 TTACTGATTAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTAGGCACTTTATGTGCCGAATACTGTTACTG
* * *
3742921 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTAGGCACTTTATGTGCCGAATACTGTTACTG
3742960 TTACTG
1 TTACTG
3742966 TTACCGATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 14 0.35
39 26 0.65
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (39 bp):
TTACTGATTAGGCACTTTATGTGCCGAATACTGTTACTG
Found at i:3742964 original size:39 final size:39
Alignment explanation
Indices: 3742883--3743049 Score: 147
Period size: 45 Copynumber: 4.0 Consensus size: 39
3742873 ATTTGCCGGC
* * * *
3742883 TTACTGATTAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
3742921 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
*
3742960 TTACTGTTACCGATTCGGCACTTTGTGTGTTGAATACTGTTACCGTTACTG
1 TTAC---T---GATTCGGCACTTTGTGTGTCGAATAC---T---GTTACTG
* * *
3743011 TTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
3743050 CTACCGTTAC
Statistics
Matches: 109, Mismatches: 7, Indels: 25
0.77 0.05 0.18
Matches are distributed among these distances:
38 14 0.13
39 31 0.28
42 2 0.02
45 50 0.46
48 1 0.01
51 11 0.10
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.40
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:3742975 original size:45 final size:45
Alignment explanation
Indices: 3742910--3743064 Score: 247
Period size: 45 Copynumber: 3.4 Consensus size: 45
3742900 ATGTGCCGAC
*
3742910 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTTGAATACTGT
*
3742955 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTTGAATACTGT
* * *
3743000 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTTGAATACTGT
* *
3743045 TACTGCTACCGTTACTGATT
1 TACTGTTACTGTTACTGATT
3743065 ACTGTATACT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 101 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTTGAATACTGT
Found at i:3743539 original size:23 final size:22
Alignment explanation
Indices: 3743489--3743535 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
3743479 TAAATTGATT
*
3743489 ATGAAAAAAAAATGAATTGACA
1 ATGAAAAAAAAACGAATTGACA
3743511 ATGAAAAAAAAACGAATTGACA
1 ATGAAAAAAAAACGAATTGACA
3743533 ATG
1 ATG
3743536 GAAATTGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.17
Consensus pattern (22 bp):
ATGAAAAAAAAACGAATTGACA
Found at i:3746260 original size:2 final size:2
Alignment explanation
Indices: 3746253--3746289 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3746243 ATAATTTTCT
*
3746253 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3746290 GTAAAACCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3753827 original size:3 final size:3
Alignment explanation
Indices: 3753819--3753905 Score: 129
Period size: 3 Copynumber: 29.0 Consensus size: 3
3753809 ATTCCCACTC
3753819 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
3753867 ATA ATA ATG ATA ATA CTA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3753906 CTTACCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3755004 original size:5 final size:5
Alignment explanation
Indices: 3754996--3755057 Score: 69
Period size: 5 Copynumber: 13.2 Consensus size: 5
3754986 TATTTAATTT
* * *
3754996 ATATA ATATA AAACA ATATA ATATA ATATA ATAT- ATATT ATATA ATA-A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
3755044 A-ATA ATAT- ATATA A
1 ATATA ATATA ATATA A
3755058 AACATAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
3 1 0.02
4 12 0.25
5 35 0.73
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:3755031 original size:17 final size:17
Alignment explanation
Indices: 3754995--3755057 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
3754985 TTATTTAATT
3754995 TATATA-ATATAA-AACA
1 TATATATATATAATAA-A
3755011 -ATATA-ATATAATATAA
1 TATATATATATAATA-AA
3755027 TATATATTATATAATAAA
1 TATATA-TATATAATAAA
3755045 -ATAATATATATAA
1 TAT-ATATATATAA
3755058 AACATAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.27
16 2 0.05
17 15 0.37
18 5 0.12
19 8 0.20
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TATATATATATAATAAA
Found at i:3755037 original size:22 final size:21
Alignment explanation
Indices: 3754995--3755055 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
3754985 TTATTTAATT
* *
3754995 TATATAATATAA-A-ACAATA
1 TATATAATATAATATATATTA
3755014 TAATATAATATAATATATATTA
1 T-ATATAATATAATATATATTA
*
3755036 TATAATAAAATAATATATAT
1 TAT-ATAATATAATATATAT
3755056 AAAACATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 3 0.09
22 20 0.57
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TATATAATATAATATATATTA
Found at i:3755038 original size:24 final size:22
Alignment explanation
Indices: 3755011--3755055 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3755001 ATATAAAACA
3755011 ATATAATATAATATAATATATATT
1 ATATAATA-AA-ATAATATATATT
3755035 ATATAATAAAATAATATATAT
1 ATATAATAAAATAATATATAT
3755056 AAAACATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.52
23 2 0.10
24 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATAATAAAATAATATATATT
Found at i:3755039 original size:34 final size:31
Alignment explanation
Indices: 3754990--3755057 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 31
3754980 GTCATTTATT
*
3754990 TAATTTATATAATATAAAACAATATAATATAATA
1 TAATATATATAATATAAAA-AA-ATAATAT-ATA
* *
3755024 TAATATATATTATATAATAAAATAATATATA
1 TAATATATATAATATAAAAAAATAATATATA
3755055 TAA
1 TAA
3755058 AACATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 6 0.19
32 7 0.23
33 2 0.06
34 16 0.52
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
TAATATATATAATATAAAAAAATAATATATA
Found at i:3755056 original size:24 final size:24
Alignment explanation
Indices: 3755011--3755056 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3755001 ATATAAAACA
*
3755011 ATATAATATAATATAATATATATT
1 ATATAATAAAATATAATATATATT
3755035 ATATAATAAAATA-ATATATATA
1 ATATAATAAAATATA-ATATATA
3755057 AAACATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATAATAAAATATAATATATATT
Found at i:3759752 original size:3 final size:3
Alignment explanation
Indices: 3759744--3759793 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
3759734 CAATTGTTGC
3759744 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3759792 TA
1 TA
3759794 AGTTATGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3759916 original size:44 final size:44
Alignment explanation
Indices: 3759868--3759962 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
3759858 ACATCTCAAG
*
3759868 GTCCATGTTTATAACATGGCAATTAAGGAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
3759912 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
*
3759956 GACCATG
1 GTCCATG
3759963 GTTGGACCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
Found at i:3759974 original size:44 final size:44
Alignment explanation
Indices: 3759870--3759976 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
3759860 ATCTCAAGGT
* * * *
3759870 CCATGTTTATAACATGGCAATTAAGGAAGAATTGACGGAAAAGT
1 CCATGGTTAGAACATGGCAATTAAGAAAGAATTGACGGAAAAGA
* *
3759914 CCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAAGA
1 CCATGGTTAGAACATGGCAATTAAGAAAGAATTGACGGAAAAGA
* *
3759958 CCATGGTTGGACCATGGCA
1 CCATGGTTAGAACATGGCA
3759977 GTAAGTGTGC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (44 bp):
CCATGGTTAGAACATGGCAATTAAGAAAGAATTGACGGAAAAGA
Found at i:3761310 original size:29 final size:29
Alignment explanation
Indices: 3761268--3761330 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
3761258 ATTCTGAAAT
* *
3761268 TTTTATGATAATAATATATATGAGTATTG
1 TTTTATAATAATAATATATATGAGTATAG
3761297 TTTTATAATAATAATATATATGAGTATAG
1 TTTTATAATAATAATATATATGAGTATAG
3761326 TTTTA
1 TTTTA
3761331 GGTAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (29 bp):
TTTTATAATAATAATATATATGAGTATAG
Found at i:3763180 original size:20 final size:20
Alignment explanation
Indices: 3763155--3763205 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3763145 CACACTTCGC
3763155 TGCCCCTGTTTGCACATCAG
1 TGCCCCTGTTTGCACATCAG
** **
3763175 TGCCCCTGACTGCACATTTG
1 TGCCCCTGTTTGCACATCAG
3763195 TGCCCCTGTTT
1 TGCCCCTGTTT
3763206 TGCATCTATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.12, C:0.35, G:0.20, T:0.33
Consensus pattern (20 bp):
TGCCCCTGTTTGCACATCAG
Found at i:3763809 original size:3 final size:3
Alignment explanation
Indices: 3763801--3763889 Score: 178
Period size: 3 Copynumber: 29.7 Consensus size: 3
3763791 GTTCAAAATG
3763801 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3763849 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3763890 TGGTTAGTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3764159 original size:10 final size:9
Alignment explanation
Indices: 3764125--3764157 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
3764115 GTGACACCTG
3764125 TTTTTCAAA
1 TTTTTCAAA
3764134 -TTTTCAAA
1 TTTTTCAAA
3764142 TTTTTCTAAA
1 TTTTTC-AAA
3764152 TTTTTC
1 TTTTTC
3764158 TATTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTCAAA
Found at i:3765925 original size:12 final size:12
Alignment explanation
Indices: 3765910--3765953 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
3765900 TATTTTAAAA
3765910 ATTTTAAAAAGT
1 ATTTTAAAAAGT
*
3765922 ATTTAAAAAAGT
1 ATTTTAAAAAGT
3765934 ATTTTAAAAA-T
1 ATTTTAAAAAGT
3765945 ATTTTAAAA
1 ATTTTAAAA
3765954 TTAAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (12 bp):
ATTTTAAAAAGT
Found at i:3765928 original size:11 final size:11
Alignment explanation
Indices: 3765900--3766029 Score: 71
Period size: 12 Copynumber: 11.9 Consensus size: 11
3765890 ACCAAAAATT
3765900 TATTTT-AAAA
1 TATTTTAAAAA
3765910 -ATTTTAAAAA
1 TATTTTAAAAA
*
3765920 GTATTTAAAAAA
1 -TATTTTAAAAA
3765932 GTATTTTAAAAA
1 -TATTTTAAAAA
3765944 TATTTTAAAATTAA
1 TATTTT-AAA--AA
* **
3765958 AAAATTAAATTAA
1 TATTTTAAA--AA
* *
3765971 -A-ATTAAAAG
1 TATTTTAAAAA
3765980 TA-TTTAAAAA
1 TATTTTAAAAA
3765990 TATTTT--AAA
1 TATTTTAAAAA
3765999 -A-TTTAAAAA
1 TATTTTAAAAA
3766008 GTATTTTAAAAA
1 -TATTTTAAAAA
3766020 TATTTTAAAA
1 TATTTTAAAA
3766030 TTAAAAAATA
Statistics
Matches: 99, Mismatches: 8, Indels: 25
0.75 0.06 0.19
Matches are distributed among these distances:
7 3 0.03
8 1 0.01
9 12 0.12
10 13 0.13
11 26 0.26
12 32 0.32
13 7 0.07
14 5 0.05
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:3765986 original size:29 final size:27
Alignment explanation
Indices: 3765954--3766035 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 27
3765944 TATTTTAAAA
3765954 TTAAAAAATTAAATTAAAATTAAAAGTAT
1 TTAAAAAATT--ATTAAAATTAAAAGTAT
3765983 TTAAAAATATT-TTAAAATTTAAAAAGTATT
1 TTAAAAA-ATTATTAAAA-TT-AAAAGTA-T
3766013 TTAAAAATATT-TTAAAATTAAAA
1 TTAAAAA-ATTATTAAAATTAAAA
3766036 AATAAATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
27 6 0.12
28 6 0.12
29 16 0.33
30 21 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
TTAAAAAATTATTAAAATTAAAAGTAT
Found at i:3765988 original size:10 final size:11
Alignment explanation
Indices: 3765973--3766029 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
3765963 TAAATTAAAA
*
3765973 TTAAAAGTA-T
1 TTAAAAATATT
3765983 TTAAAAATATT
1 TTAAAAATATT
3765994 TT--AAA-A-T
1 TTAAAAATATT
3766001 TTAAAAAGTATT
1 TTAAAAA-TATT
3766013 TTAAAAATATT
1 TTAAAAATATT
3766024 TTAAAA
1 TTAAAA
3766030 TTAAAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 6 0.15
10 8 0.20
11 14 0.35
12 8 0.20
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:3766004 original size:18 final size:19
Alignment explanation
Indices: 3765981--3766018 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3765971 AATTAAAAGT
3765981 ATTTAAAAA-TATTTTAAA
1 ATTTAAAAAGTATTTTAAA
3765999 ATTTAAAAAGTATTTTAAA
1 ATTTAAAAAGTATTTTAAA
3766018 A
1 A
3766019 ATATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTTAAAAAGTATTTTAAA
Found at i:3766017 original size:46 final size:44
Alignment explanation
Indices: 3765900--3766019 Score: 138
Period size: 46 Copynumber: 2.7 Consensus size: 44
3765890 ACCAAAAATT
3765900 TATTTTAAAAATTTTAAAAAGTATTT--AAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTTAAAAAGTATTTAAAAAAAAGTATTTTAAAAA
* * *
3765944 TATTTTAAAATTAAAAAATTAAATTAAAATTAAAAGTA-TTTAAAAA
1 TATTTTAAAATTTAAAAAGT-ATTTAAAA--AAAAGTATTTTAAAAA
*
3765990 TATTTTAAAATTTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAGTATTTAAAAAA
3766020 TATTTTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
42 8 0.12
43 9 0.14
44 6 0.09
45 8 0.12
46 26 0.41
47 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (44 bp):
TATTTTAAAATTTAAAAAGTATTTAAAAAAAAGTATTTTAAAAA
Found at i:3766036 original size:29 final size:28
Alignment explanation
Indices: 3765967--3766036 Score: 115
Period size: 30 Copynumber: 2.5 Consensus size: 28
3765957 AAAAATTAAA
3765967 TTAAAATT-AAAAGTATTTAAAAATATT
1 TTAAAATTAAAAAGTATTTAAAAATATT
3765994 TTAAAATTTAAAAAGTATTTTAAAAATATT
1 TTAAAA-TTAAAAAGTA-TTTAAAAATATT
3766024 TTAAAATTAAAAA
1 TTAAAATTAAAAA
3766037 ATAAATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
27 6 0.15
28 2 0.05
29 14 0.35
30 18 0.45
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (28 bp):
TTAAAATTAAAAAGTATTTAAAAATATT
Found at i:3767435 original size:4 final size:4
Alignment explanation
Indices: 3767426--3767461 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
3767416 CTAGGTAAAT
*
3767426 TTTC TTTC TTGC TTTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTT
3767462 GAAGTCGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:3767443 original size:13 final size:13
Alignment explanation
Indices: 3767425--3767460 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
3767415 TCTAGGTAAA
3767425 TTTTCTTTCTTGC
1 TTTTCTTTCTTGC
*
3767438 TTTTCTTTCTTTC
1 TTTTCTTTCTTGC
3767451 -TTTCTTTCTT
1 TTTTCTTTCTT
3767461 TGAAGTCGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTTCTTTCTTGC
Found at i:3771857 original size:21 final size:20
Alignment explanation
Indices: 3771824--3771863 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3771814 GTCCCGCTCT
3771824 AAAAAATTACAAAAATTTCA
1 AAAAAATTACAAAAATTTCA
*
3771844 AAAAAATCTTCAAAAATTTC
1 AAAAAAT-TACAAAAATTTC
3771864 TATAATAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAATTACAAAAATTTCA
Found at i:3786601 original size:11 final size:11
Alignment explanation
Indices: 3786585--3786609 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3786575 TATTATATGA
3786585 GTTAATTTTGT
1 GTTAATTTTGT
3786596 GTTAATTTTGT
1 GTTAATTTTGT
3786607 GTT
1 GTT
3786610 GATGATGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (11 bp):
GTTAATTTTGT
Found at i:3792847 original size:41 final size:41
Alignment explanation
Indices: 3792790--3792939 Score: 237
Period size: 41 Copynumber: 3.7 Consensus size: 41
3792780 TTTAACATAT
* *
3792790 TCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
3792831 TCACCGGCACTTAGCCTGCTAGGTTTATAACTTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
3792872 TCACCAGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
3792913 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
3792940 AAGTCCGAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:3792970 original size:82 final size:82
Alignment explanation
Indices: 3792789--3792988 Score: 237
Period size: 82 Copynumber: 2.4 Consensus size: 82
3792779 ATTTAACATA
* * * *
3792789 TTCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGA
* *
3792854 TTTATAACTTGATTCAG
66 CTTATAACTCGATTCAG
* *
3792871 ATCACCAGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGA
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGA
* *
3792936 CTTA-AAGTCCGAATT-AT
66 CTTATAACT-CG-ATTCAG
*
3792953 TTCACCGGC-CTTAAGCCTGCTATGTTT-TAAACCTGA
1 TTCACCGGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
3792989 ACATTTCAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
81 7 0.07
82 91 0.90
83 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGA
CTTATAACTCGATTCAG
Found at i:3799561 original size:4 final size:4
Alignment explanation
Indices: 3799521--3799546 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3799511 TATATATATA
3799521 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
3799547 CTATGTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:3800778 original size:40 final size:41
Alignment explanation
Indices: 3800681--3800779 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
3800671 TTGATCTCGG
* * *
3800681 TTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTAA
1 TTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTAA
*
3800722 TTTCGCACACTTAGTGCTCGTTATTCAACCTCATCATTTAA
1 TTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTAA
3800763 -TTCGCACACTTAGTGCT
1 TTTCGCACACTTAGTGCT
3800780 AATCATATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
40 17 0.31
41 37 0.69
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.39
Consensus pattern (41 bp):
TTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTAA
Found at i:3807830 original size:36 final size:36
Alignment explanation
Indices: 3807708--3808030 Score: 130
Period size: 36 Copynumber: 8.7 Consensus size: 36
3807698 TATTTTTCGG
* *
3807708 TTTATCCGACTAGCGCTAGGCGCAAATCATTGTTGA
1 TTTATCCGACTAGCGCTGGGCGCAAATCATTGTCGA
* * * ** * *
3807744 TTTATCCGACTAGTGTTGGGCACATTTGATATCGTCAA
1 TTTATCCGACTAGCGCTGGGCGCAAATCAT-T-GTCGA
** * * *
3807782 TTTATCTAACTAGCGCTGGGCGTAACTCATTGTCGG
1 TTTATCCGACTAGCGCTGGGCGCAAATCATTGTCGA
* * * ** *
3807818 TTTATCCGACTAGTGTTGGGTACACATTTGATATCGTCGA
1 TTTATCCGACTAGCGCTGGG--CGCAAATCAT-T-GTCGA
* * * * *
3807858 TTTATCTGACTAACGCTGGGAGCAAAACATTGTCGG
1 TTTATCCGACTAGCGCTGGGCGCAAATCATTGTCGA
* * * * * *
3807894 TTTATCTGACTAGTGTTGGGCACACATTTGATATCGTC-A
1 TTTATCCGACTAGCGCTGGGCGCA-A-ATCAT-T-GTCGA
* * *
3807933 GTTTATCCGACTAGCGTTGGGCGCAAAACATTGTCGG
1 -TTTATCCGACTAGCGCTGGGCGCAAATCATTGTCGA
* * * * * * *
3807970 TTTATTCAACTAGTGC-AGG-GCACATCTATCGTCGG
1 TTTATCCGACTAGCGCTGGGCGCAAATC-ATTGTCGA
* *
3808005 TTTATCCGACTAGTGTTGGGCGCAAA
1 TTTATCCGACTAGCGCTGGGCGCAAA
3808031 ACTTTGTTAC
Statistics
Matches: 202, Mismatches: 70, Indels: 29
0.67 0.23 0.10
Matches are distributed among these distances:
34 5 0.02
35 22 0.11
36 82 0.41
37 9 0.04
38 37 0.18
39 3 0.01
40 44 0.22
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (36 bp):
TTTATCCGACTAGCGCTGGGCGCAAATCATTGTCGA
Found at i:3807862 original size:40 final size:39
Alignment explanation
Indices: 3807742--3807953 Score: 136
Period size: 40 Copynumber: 5.6 Consensus size: 39
3807732 AATCATTGTT
*
3807742 GATTTATCCGACTAGTGTTGGG-CACATTTGATATCGTC
1 GATTTATCCGACTAGCGTTGGGACACATTTGATATCGTC
* ** * ** ** *
3807780 AATTTATCTAACTAGCGCTGGG-CGTAACTCAT-T-GTC
1 GATTTATCCGACTAGCGTTGGGACACATTTGATATCGTC
* *
3807816 GGTTTATCCGACTAGTGTTGGGTACACATTTGATATCGTC
1 GATTTATCCGACTAGCGTTGGG-ACACATTTGATATCGTC
* * * * * *
3807856 GATTTATCTGACTAACGCTGGGAGCA-A---AACATTGTC
1 GATTTATCCGACTAGCGTTGGGA-CACATTTGATATCGTC
* * *
3807892 GGTTTATCTGACTAGTGTTGGGCACACATTTGATATCGTC
1 GATTTATCCGACTAGCGTTGGG-ACACATTTGATATCGTC
3807932 -AGTTTATCCGACTAGCGTTGGG
1 GA-TTTATCCGACTAGCGTTGGG
3807954 CGCAAAACAT
Statistics
Matches: 124, Mismatches: 39, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
36 45 0.36
37 3 0.02
38 27 0.22
39 3 0.02
40 46 0.37
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (39 bp):
GATTTATCCGACTAGCGTTGGGACACATTTGATATCGTC
Found at i:3807875 original size:76 final size:74
Alignment explanation
Indices: 3807708--3808047 Score: 366
Period size: 76 Copynumber: 4.6 Consensus size: 74
3807698 TATTTTTCGG
* * * *
3807708 TTTATCCGACTAGCGCTAGGCGCAAATCATTGTTGATTTATCCGACTAGTGTTGGG-CACATTTG
1 TTTATCCGACTAGCGCTGGGCGCAAAACATTGTCGGTTTATCCGACTAGTGTTGGGACACATTTG
3807772 ATATCGTCAA
66 ATATCGTC-A
** * **
3807782 TTTATCTAACTAGCGCTGGGCGTAACTCATTGTCGGTTTATCCGACTAGTGTTGGGTACACATTT
1 TTTATCCGACTAGCGCTGGGCGCAAAACATTGTCGGTTTATCCGACTAGTGTTGGG-ACACATTT
3807847 GATATCGTCGA
65 GATATCGTC-A
* * * *
3807858 TTTATCTGACTAACGCTGGGAGCAAAACATTGTCGGTTTATCTGACTAGTGTTGGGCACACATTT
1 TTTATCCGACTAGCGCTGGGCGCAAAACATTGTCGGTTTATCCGACTAGTGTTGGG-ACACATTT
3807923 GATATCGTCA
65 GATATCGTCA
* * * **
3807933 GTTTATCCGACTAGCGTTGGGCGCAAAACATTGTCGGTTTATTCAACTAGTGCAGGG-CACA--T
1 -TTTATCCGACTAGCGCTGGGCGCAAAACATTGTCGGTTTATCCGACTAGTGTTGGGACACATTT
* *
3807995 -CTATCGTCGG
65 GATATCGTC-A
* * *
3808005 TTTATCCGACTAGTGTTGGGCGCAAAACTTTGTTACGGTTTAT
1 TTTATCCGACTAGCGCTGGGCGCAAAACATTG-T-CGGTTTAT
3808048 TTGTCGGGCA
Statistics
Matches: 231, Mismatches: 29, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
71 37 0.16
72 2 0.01
73 8 0.03
74 53 0.23
75 1 0.00
76 130 0.56
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (74 bp):
TTTATCCGACTAGCGCTGGGCGCAAAACATTGTCGGTTTATCCGACTAGTGTTGGGACACATTTG
ATATCGTCA
Found at i:3808142 original size:24 final size:24
Alignment explanation
Indices: 3808109--3808166 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
3808099 AACAATCCAT
3808109 TGAAGAAGGTTGAAAAGGATATAAA
1 TGAA-AAGGTTGAAAAGGATATAAA
*
3808134 TGAAAAGGTTGAAAAGGATATCAA
1 TGAAAAGGTTGAAAAGGATATAAA
*
3808158 CGAAAAGGT
1 TGAAAAGGT
3808167 CGGTATCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.50, C:0.03, G:0.28, T:0.19
Consensus pattern (24 bp):
TGAAAAGGTTGAAAAGGATATAAA
Found at i:3808492 original size:30 final size:31
Alignment explanation
Indices: 3808458--3808525 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
3808448 TTGCCCAAGA
** * **
3808458 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
3808488 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
3808519 GTAAATA
1 GTAAATA
3808526 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:3813396 original size:13 final size:13
Alignment explanation
Indices: 3813378--3813403 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3813368 GGTTCTTCCT
3813378 TAATCTCTTCTCC
1 TAATCTCTTCTCC
3813391 TAATCTCTTCTCC
1 TAATCTCTTCTCC
3813404 CCACCCCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATCTCTTCTCC
Found at i:3814477 original size:47 final size:47
Alignment explanation
Indices: 3814408--3814498 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
3814398 ATTTTATTGC
*
3814408 TTTAGGAACTAATTTAAAATTTTAACGATAATTTGAGGTTGTCATGT
1 TTTAGGAACTAATTTAAAATTTTAACGATAATTTGAGATTGTCATGT
*
3814455 TTTAGGAACTAATTTAAAATTTTAACTATAATTTGAGATTGTCA
1 TTTAGGAACTAATTTAAAATTTTAACGATAATTTGAGATTGTCA
3814499 AGTGGAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (47 bp):
TTTAGGAACTAATTTAAAATTTTAACGATAATTTGAGATTGTCATGT
Found at i:3815615 original size:14 final size:15
Alignment explanation
Indices: 3815583--3815616 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3815573 TAAATTTTAG
3815583 TTTTGGTTCCTCTAT
1 TTTTGGTTCCTCTAT
**
3815598 TTTTGGTTTTTCTAT
1 TTTTGGTTCCTCTAT
3815613 TTTT
1 TTTT
3815617 ATATTCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (15 bp):
TTTTGGTTCCTCTAT
Found at i:3815802 original size:11 final size:11
Alignment explanation
Indices: 3815786--3815811 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3815776 AAACTCTTAA
3815786 TTTTTTTTATT
1 TTTTTTTTATT
3815797 TTTTTTTTATT
1 TTTTTTTTATT
3815808 TTTT
1 TTTT
3815812 ACTATTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:3824957 original size:10 final size:9
Alignment explanation
Indices: 3824947--3824978 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
3824937 CAATCAAATA
3824947 TTTTTTTAT
1 TTTTTTTAT
*
3824956 ATTTTTTAT
1 TTTTTTTAT
3824965 TTTTTTTAT
1 TTTTTTTAT
3824974 TTTTT
1 TTTTT
3824979 ATTTTTTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:3824962 original size:9 final size:8
Alignment explanation
Indices: 3824945--3824985 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
3824935 TTCAATCAAA
3824945 TATTTTTT
1 TATTTTTT
3824953 TATATTTTT
1 TAT-TTTTT
3824962 TATTTTTT
1 TATTTTTT
3824970 T-TATTTTT
1 TAT-TTTTT
3824978 TATTTTTT
1 TATTTTTT
3824986 CCTCCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 1 0.03
8 20 0.67
9 9 0.30
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TATTTTTT
Found at i:3824969 original size:16 final size:16
Alignment explanation
Indices: 3824948--3824985 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
3824938 AATCAAATAT
3824948 TTTTTTATATTTTTTA
1 TTTTTTATATTTTTTA
*
3824964 TTTTTTTTATTTTTTA
1 TTTTTTATATTTTTTA
3824980 TTTTTT
1 TTTTTT
3824986 CCTCCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTATATTTTTTA
Found at i:3824981 original size:23 final size:23
Alignment explanation
Indices: 3824949--3825011 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
3824939 ATCAAATATT
*
3824949 TTTTTATATTTTTTATTTTTTTTA
1 TTTTT-TATTTTTTATTCTTTTTA
* *
3824973 TTTTTTATTTTTTCCTCCTTTTTA
1 TTTTTTATTTTTT-ATTCTTTTTA
*
3824997 -TTTTGATTTTTTATT
1 TTTTTTATTTTTTATT
3825012 GATTTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 1 0.03
23 19 0.59
24 12 0.38
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTTATTTTTTATTCTTTTTA
Found at i:3825835 original size:30 final size:30
Alignment explanation
Indices: 3825795--3825851 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
3825785 TAGGCATTTC
*
3825795 CACACGGGCTGGCCACACGCCCGTGTGAGA
1 CACACGGGCTGGCCACACGCCCATGTGAGA
* *
3825825 CACACTGGCTGGCCACATGCCCATGTG
1 CACACGGGCTGGCCACACGCCCATGTG
3825852 CCAACCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (30 bp):
CACACGGGCTGGCCACACGCCCATGTGAGA
Found at i:3833708 original size:20 final size:19
Alignment explanation
Indices: 3833683--3833727 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
3833673 TATTATATTT
*
3833683 TTTTTCTTTATTTCTTTTTA
1 TTTTTCTTTATTT-TGTTTA
3833703 TTTTTC-TTATTTTGTTTA
1 TTTTTCTTTATTTTGTTTA
3833721 TTTTTCT
1 TTTTTCT
3833728 AGTATCTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 6 0.26
20 6 0.26
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTCTTTATTTTGTTTA
Found at i:3835369 original size:6 final size:6
Alignment explanation
Indices: 3835358--3835411 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
3835348 AGCTTATTTG
* * *
3835358 TTTTAT TTTTAT TTTTAT TTTTAC TTTTAT GTTTT-T GTTTAT TGTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT
3835406 TTTTAT
1 TTTTAT
3835412 AGACTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 3 0.08
6 33 0.82
7 4 0.10
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:3839678 original size:12 final size:12
Alignment explanation
Indices: 3839663--3839687 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3839653 AAAATAAAAC
3839663 TGATAATAATAA
1 TGATAATAATAA
3839675 TGATAATAATAA
1 TGATAATAATAA
3839687 T
1 T
3839688 AGTCAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TGATAATAATAA
Found at i:3844179 original size:121 final size:121
Alignment explanation
Indices: 3844028--3844269 Score: 396
Period size: 121 Copynumber: 2.0 Consensus size: 121
3844018 ATTAACAGAT
**
3844028 AATGAAAGGGTGAATGTTGGTGAGAATGTATCCGCAGTGTTATTGCGGAAAATGCCAGCAAAATG
1 AATGAAAGGGTGAATGTTGGTGAGAATGTATCCGCAGTGTTACAGCGGAAAATGCCAGCAAAATG
3844093 AAAGGAT-AGGAGCATGTTTGCAATACCATGCAAAATAGGCCATCTGGCAATTAAGA
66 AAAGGATAAGG-GCATGTTTGCAATACCATGCAAAATAGGCCATCTGGCAATTAAGA
* ***
3844149 AATGAAAGGGTGAATGTTGGTGAGAATGTATCTGCAGTGTTACAGCGGAAAATGTTGGCAAAATG
1 AATGAAAGGGTGAATGTTGGTGAGAATGTATCCGCAGTGTTACAGCGGAAAATGCCAGCAAAATG
* *
3844214 CAAGGATAAGGGCATGTTTGCAATACCATGCAAAATAGGCCATCTGGGAATTAAGA
66 AAAGGATAAGGGCATGTTTGCAATACCATGCAAAATAGGCCATCTGGCAATTAAGA
3844270 GGGCTATGTG
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
121 109 0.97
122 3 0.03
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (121 bp):
AATGAAAGGGTGAATGTTGGTGAGAATGTATCCGCAGTGTTACAGCGGAAAATGCCAGCAAAATG
AAAGGATAAGGGCATGTTTGCAATACCATGCAAAATAGGCCATCTGGCAATTAAGA
Found at i:3845194 original size:4 final size:4
Alignment explanation
Indices: 3845181--3845248 Score: 61
Period size: 4 Copynumber: 16.5 Consensus size: 4
3845171 CAACCCAATT
*
3845181 TTTA -TTA TTTA TTTA TTTA TTTA TTTTC TTTA CTTTA TTTA -TTA CTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA -TTTA
3845230 TTTTA TTT- TATTA TTTA TT
1 -TTTA TTTA T-TTA TTTA TT
3845249 ACTTATTTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
3 7 0.13
4 32 0.59
5 15 0.28
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:3845220 original size:22 final size:21
Alignment explanation
Indices: 3845185--3845248 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
3845175 CCAATTTTTA
3845185 TTATTTATTTATTTATTTATT
1 TTATTTATTTATTTATTTATT
* *
3845206 TTCTTTACTTTATTTA-TTACT
1 TTATTTA-TTTATTTATTTATT
3845227 TTATTTTATTT-TATTATTTATT
1 TTA-TTTATTTAT-TTATTTATT
3845249 ACTTATTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.03
21 18 0.51
22 16 0.46
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (21 bp):
TTATTTATTTATTTATTTATT
Found at i:3846282 original size:102 final size:102
Alignment explanation
Indices: 3846091--3846283 Score: 234
Period size: 102 Copynumber: 1.9 Consensus size: 102
3846081 AAGAACATGT
* * *
3846091 TGGGCTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATCCTATTTCACGTCAAAAGGTTCGATTT
1 TGGGCTGAGTAACCGGGGTAGGGTGCTTGGGCTGTCATCCTACTTCACGTCAAAAGGTTCGATAT
* * *
3846156 GTCTTTAAGAAAAAATTATAATAAATTAAGAGTCTGC
66 GTCCTAAAGAAAAAATAATAATAAATTAAGAGTCTGC
* *
3846193 TGGGCTGAGTAACCGGGGTGGGGTGCTT-GGCTGTTATCTCT-CTTCACGTCAAAAGGTTCAGTA
1 TGGGCTGAGTAACCGGGGTAGGGTGCTTGGGCTGTCATC-CTACTTCACGTCAAAAGGTTC-G-A
3846256 TAT-TCCTAAAGGATAAAAA-AAT-ATAAAT
63 TATGTCCTAAA-GA-AAAAATAATAATAAAT
3846284 AATAAAAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
101 25 0.32
102 41 0.53
103 7 0.09
104 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (102 bp):
TGGGCTGAGTAACCGGGGTAGGGTGCTTGGGCTGTCATCCTACTTCACGTCAAAAGGTTCGATAT
GTCCTAAAGAAAAAATAATAATAAATTAAGAGTCTGC
Found at i:3846288 original size:17 final size:17
Alignment explanation
Indices: 3846268--3846307 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3846258 TTCCTAAAGG
*
3846268 ATAAAAAAATATAAATA
1 ATAAAAAAATAAAAATA
3846285 ATAAAAAAATAAAAATA
1 ATAAAAAAATAAAAATA
3846302 A-AAAAA
1 ATAAAAA
3846308 TAATTTGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
ATAAAAAAATAAAAATA
Found at i:3846297 original size:8 final size:8
Alignment explanation
Indices: 3846268--3846310 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
3846258 TTCCTAAAGG
3846268 ATAAAAAA
1 ATAAAAAA
*
3846276 ATATAAATA
1 ATA-AAAAA
3846285 ATAAAAAA
1 ATAAAAAA
3846293 AT--AAAA
1 ATAAAAAA
3846299 ATAAAAAA
1 ATAAAAAA
3846307 ATAA
1 ATAA
3846311 TTTGGGGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.20
8 17 0.57
9 7 0.23
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
ATAAAAAA
Found at i:3846307 original size:14 final size:15
Alignment explanation
Indices: 3846271--3846310 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
3846261 CTAAAGGATA
3846271 AAAAAATATAAATAAT
1 AAAAAA-ATAAATAAT
3846287 AAAAAAATAAA-AAT
1 AAAAAAATAAATAAT
3846301 AAAAAAATAA
1 AAAAAAATAA
3846311 TTTGGGGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.54
15 5 0.21
16 6 0.25
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAATAAATAAT
Found at i:3846884 original size:15 final size:15
Alignment explanation
Indices: 3846859--3846893 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3846849 GACTCTATTT
*
3846859 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
3846873 TAATTAATATTAAGA
1 TAATTAATATTAAGA
3846888 TAATTA
1 TAATTA
3846894 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:3848503 original size:6 final size:6
Alignment explanation
Indices: 3848492--3848518 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3848482 ATAAATACAA
3848492 TTTCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTT
3848519 TTACTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCAT
Found at i:3849072 original size:8 final size:8
Alignment explanation
Indices: 3849032--3849074 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
3849022 TCTAACTTGA
3849032 ATTTTTTT
1 ATTTTTTT
*
3849040 ATATTTTT
1 ATTTTTTT
*
3849048 ATTTTGTAAT
1 ATTTT-T-TT
3849058 ATTTTTTT
1 ATTTTTTT
3849066 ATTTTTTT
1 ATTTTTTT
3849074 A
1 A
3849075 GTTACATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 21 0.72
9 2 0.07
10 6 0.21
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (8 bp):
ATTTTTTT
Found at i:3849136 original size:11 final size:11
Alignment explanation
Indices: 3849120--3849154 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
3849110 CATTTTAAAA
3849120 TTTTAGATATT
1 TTTTAGATATT
3849131 TTTTAGATATT
1 TTTTAGATATT
3849142 TTTTAGATATT
1 TTTTAGATATT
3849153 TT
1 TT
3849155 CTTTTCAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (11 bp):
TTTTAGATATT
Found at i:3849813 original size:23 final size:23
Alignment explanation
Indices: 3849769--3849815 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3849759 ATACTACCTA
* *
3849769 TTTTCTTTTCTTTCTTAGATTTC
1 TTTTCTTTCCTTTCTTACATTTC
3849792 TTTTCTTTCCTTTCTCT-CATTTC
1 TTTTCTTTCCTTTCT-TACATTTC
3849815 T
1 T
3849816 CATCATCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTCTTTCCTTTCTTACATTTC
Found at i:3850506 original size:28 final size:28
Alignment explanation
Indices: 3850475--3850539 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
3850465 ACCAAAAAAA
3850475 GCCCATTTTTTTA-AATTTACCGAAATGG
1 GCCC-TTTTTTTATAATTTACCGAAATGG
* * * *
3850503 GCCCGGTATTTTATTATTTACCGGAATGG
1 GCCC-TTTTTTTATAATTTACCGAAATGG
3850532 GCCCTTTT
1 GCCCTTTT
3850540 ACCTGAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (28 bp):
GCCCTTTTTTTATAATTTACCGAAATGG
Found at i:3851250 original size:123 final size:123
Alignment explanation
Indices: 3850896--3851328 Score: 655
Period size: 123 Copynumber: 3.5 Consensus size: 123
3850886 GATAAAATCA
* * *
3850896 AAGCAGGATGCTTTATCAAAAGAATTTCTGAAATCGTGCCCACGTGGACGCGTTTTTGCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGT-CCCACGTGGACGCGCTTTTGCTACAGT
*
3850961 TGGTCCTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAATGCTTC
65 AGGTCCTG-AAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAA-GCTTC
* *
3851022 AAGCAGGATGCTTTATCAGAAGAATTTC-G----CG-CCTACGTGGACGCGCTTTTGCTACAGTT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGTCCCACGTGGACGCGCTTTTGCTACAGTA
*
3851081 GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAACGCTTC
66 GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAAGCTTC
* *
3851139 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCTCCCACGTGGACGGGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCG-TCCCACGTGGACGCGCTTTTGCTACAGT
3851204 AGGTCCTG-AAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAAGCTTC
65 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAAGCTTC
* * * *
3851262 AAGTAGGATGCTTTATCAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCG-TCCCACGTGGACGCGCTTTTGCTACAGT
3851327 AG
65 AG
3851329 CATGTTTGGT
Statistics
Matches: 284, Mismatches: 16, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
117 33 0.12
118 46 0.16
119 32 0.11
121 2 0.01
122 2 0.01
123 110 0.39
124 31 0.11
125 1 0.00
126 27 0.10
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (123 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGTCCCACGTGGACGCGCTTTTGCTACAGTA
GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAAGCTTC
Found at i:3851532 original size:21 final size:21
Alignment explanation
Indices: 3851508--3851553 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
3851498 ATTAGTTTAG
*
3851508 GGTTTTTAAGTTAAGGGTTAC
1 GGTTTTTAAGTTAAGGGTTAA
3851529 GGTTTTTAAGTTAAGGGTTAA
1 GGTTTTTAAGTTAAGGGTTAA
3851550 GGTT
1 GGTT
3851554 AAGGTTAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.43
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAA
Found at i:3852127 original size:17 final size:19
Alignment explanation
Indices: 3852095--3852137 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
3852085 GACTCGAAAA
* *
3852095 AGGAAACATATAA-GGGTT
1 AGGATACATATAAGGGGCT
3852113 AGGATACAT-TAAGGGGCT
1 AGGATACATATAAGGGGCT
3852131 AGGATAC
1 AGGATAC
3852138 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (19 bp):
AGGATACATATAAGGGGCT
Found at i:3854000 original size:11 final size:11
Alignment explanation
Indices: 3853984--3854049 Score: 64
Period size: 11 Copynumber: 5.9 Consensus size: 11
3853974 TTAAATATGG
3853984 ATTTGAGAGAA
1 ATTTGAGAGAA
*
3853995 ATTTGAAAGGAA
1 ATTTGAGA-GAA
*
3854007 A-TTGAGAGCA
1 ATTTGAGAGAA
3854017 ATTTGAGAGAA
1 ATTTGAGAGAA
*
3854028 AATTGAGA-AA
1 ATTTGAGAGAA
3854038 ATAATTGAGAGA
1 AT--TTGAGAGA
3854050 GGATTAGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 6 0.14
11 27 0.61
12 10 0.23
13 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.26, T:0.24
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:3854011 original size:22 final size:22
Alignment explanation
Indices: 3853986--3854039 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3853976 AAATATGGAT
*
3853986 TTGAGAGAAATTTGAAAGGAAA
1 TTGAGAGAAATTTGAAAGAAAA
* *
3854008 TTGAGAGCAATTTGAGAGAAAA
1 TTGAGAGAAATTTGAAAGAAAA
3854030 TTGAGA-AAAT
1 TTGAGAGAAAT
3854040 AATTGAGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.48, C:0.02, G:0.26, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTTGAAAGAAAA
Found at i:3854602 original size:18 final size:18
Alignment explanation
Indices: 3854581--3854623 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3854571 ATGATATCGG
*
3854581 TATTGATGATTGTGACGA
1 TATTGATGATAGTGACGA
* *
3854599 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
3854617 TATTGAT
1 TATTGAT
3854624 CGTGTCCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:3855317 original size:31 final size:29
Alignment explanation
Indices: 3855239--3855319 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 29
3855229 TAGTTGACGG
3855239 AGAAAAAGTTCAAGTACCAATCTGAGACA
1 AGAAAAAGTTCAAGTACCAATCTGAGACA
* * *
3855268 AAAAAAACCTT-AAATACCAATCTAGGAGA-A
1 AGAAAAA-GTTCAAGTACCAATCT--GAGACA
3855298 ATGAAAAAGTTCAAGTACCAAT
1 A-GAAAAAGTTCAAGTACCAAT
3855320 TTATATTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
29 17 0.41
30 6 0.15
31 18 0.44
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.19
Consensus pattern (29 bp):
AGAAAAAGTTCAAGTACCAATCTGAGACA
Found at i:3855860 original size:14 final size:15
Alignment explanation
Indices: 3855841--3855881 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
3855831 GTAATTTGAC
3855841 AAAGAAAAGAGAAA-
1 AAAGAAAAGAGAAAT
* *
3855855 AAAGAATAGAAAAAT
1 AAAGAAAAGAGAAAT
3855870 AAAG-AAAGAGAA
1 AAAGAAAAGAGAA
3855882 GTAGTTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (15 bp):
AAAGAAAAGAGAAAT
Found at i:3860418 original size:3 final size:3
Alignment explanation
Indices: 3860410--3860434 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3860400 AGTTGTTTTC
3860410 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
3860435 TTTCACTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:3863816 original size:190 final size:190
Alignment explanation
Indices: 3863493--3863873 Score: 566
Period size: 190 Copynumber: 2.0 Consensus size: 190
3863483 TTATATTGTG
* * * ** *
3863493 GTTACTAAGTGGAATTGTAACGCCCCATACCCGACCCAATCGTTGGGTCTAGGTACCGAATGCTA
1 GTTACTAAGCGGAATTGTAACACCCCATACCCAACCCAATCCCTGAGTCTAGGTACCGAATGCTA
* * *
3863558 CAAGAACCCGTTTAATTTTACTATACATTCATAATTAATTCAGTTACATGTCAGAACAACTTGAA
66 CAAGAACCCATTTAATTTTACTATACATTCATAATTAATTCAATTACATGTAAGAACAACTTGAA
3863623 AACATAGGCCTAATTGCCACTAATCTCATACACTAAAGAAAGACCGTAATGATTTCTTAT
131 AACATAGGCCTAATTGCCACTAATCTCATACACTAAAGAAAGACCGTAATGATTTCTTAT
* * * *
3863683 GTTACTAAGCGGAATTGTAACACCCCATACCCAACTCTATCCCTGAGTC-AGAGTACTGGATGCT
1 GTTACTAAGCGGAATTGTAACACCCCATACCCAACCCAATCCCTGAGTCTAG-GTACCGAATGCT
* * * *
3863747 ACAAGAACCTATTTAATTTTATTCTGCATTCATAATTAATTCAATTACATGTAAGAACAACTTGA
65 ACAAGAACCCATTTAATTTTACTATACATTCATAATTAATTCAATTACATGTAAGAACAACTTGA
* * *
3863812 AAACATATGCCTAATTTCCACTAATCTCATACACTAAAGAAATACCGTAATGATTTCTTAT
130 AAACATAGGCCTAATTGCCACTAATCTCATACACTAAAGAAAGACCGTAATGATTTCTTAT
3863873 G
1 G
3863874 ACCTTAGTTT
Statistics
Matches: 170, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
189 2 0.01
190 168 0.99
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (190 bp):
GTTACTAAGCGGAATTGTAACACCCCATACCCAACCCAATCCCTGAGTCTAGGTACCGAATGCTA
CAAGAACCCATTTAATTTTACTATACATTCATAATTAATTCAATTACATGTAAGAACAACTTGAA
AACATAGGCCTAATTGCCACTAATCTCATACACTAAAGAAAGACCGTAATGATTTCTTAT
Found at i:3867975 original size:2 final size:2
Alignment explanation
Indices: 3867968--3868011 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3867958 TTATAAAACT
3867968 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3868010 TA
1 TA
3868012 ATACATAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3868378 original size:3 final size:3
Alignment explanation
Indices: 3868370--3868409 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
3868360 ATATGTAGGT
3868370 ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
3868410 CAAAATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:3868385 original size:24 final size:21
Alignment explanation
Indices: 3868369--3868409 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3868359 TATATGTAGG
3868369 TATAATAATAATAATATATAA
1 TATAATAATAATAATATATAA
3868390 TATAATAATAATAATA-ATAA
1 TATAATAATAATAATATATAA
3868410 CAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATAATAATAATAATATATAA
Found at i:3868419 original size:24 final size:24
Alignment explanation
Indices: 3868370--3868425 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
3868360 ATATGTAGGT
* *
3868370 ATAATAATAATAATATATAATATA
1 ATAATAATAATAATACAAAATATA
3868394 ATAATAATAATAATAACAAAAT-TA
1 ATAATAATAATAAT-ACAAAATATA
3868418 ATAA-AATA
1 ATAATAATA
3868426 GACTAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAATAATAATAATACAAAATATA
Found at i:3868667 original size:19 final size:21
Alignment explanation
Indices: 3868629--3868667 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
3868619 CCTTTTTTAA
*
3868629 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
3868650 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
3868668 AAGAAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:3868746 original size:51 final size:53
Alignment explanation
Indices: 3868691--3868794 Score: 185
Period size: 51 Copynumber: 2.0 Consensus size: 53
3868681 GCCACCTTTA
3868691 AAAAACTGCCAATCGTTCTCCCTTTTTTTATTC-TTTCTTTTCTT-TTTTTTT
1 AAAAACTGCCAATCGTTCTCCCTTTTTTTATTCTTTTCTTTTCTTCTTTTTTT
*
3868742 AAAAACTGCCAATCGTTCTCCCTTTTTTTATTCTTTTCTTTTTTTCTTTTTTT
1 AAAAACTGCCAATCGTTCTCCCTTTTTTTATTCTTTTCTTTTCTTCTTTTTTT
3868795 TTCGACAATG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 33 0.66
52 10 0.20
53 7 0.14
ACGTcount: A:0.15, C:0.21, G:0.04, T:0.60
Consensus pattern (53 bp):
AAAAACTGCCAATCGTTCTCCCTTTTTTTATTCTTTTCTTTTCTTCTTTTTTT
Found at i:3868788 original size:13 final size:13
Alignment explanation
Indices: 3868764--3868796 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3868754 TCGTTCTCCC
3868764 TTTTTTTATTCTT
1 TTTTTTTATTCTT
3868777 TTCTTTTT-TTCTT
1 TT-TTTTTATTCTT
3868790 TTTTTTT
1 TTTTTTT
3868797 CGACAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.26
13 9 0.47
14 5 0.26
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTATTCTT
Found at i:3868951 original size:21 final size:21
Alignment explanation
Indices: 3868925--3869021 Score: 153
Period size: 21 Copynumber: 4.7 Consensus size: 21
3868915 AATCATATCT
*
3868925 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
3868946 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
3868967 TCTAAGATTACATATATCATA
1 TCTAAGATTGCATATATCATA
3868988 TCTAAGATTG--TATATCATA
1 TCTAAGATTGCATATATCATA
*
3869007 TCTAAGATTGTATAT
1 TCTAAGATTGCATAT
3869022 CCTCGAAAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 19 0.27
21 52 0.73
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:3868960 original size:19 final size:20
Alignment explanation
Indices: 3868902--3869016 Score: 124
Period size: 21 Copynumber: 5.5 Consensus size: 20
3868892 AAATTAAATC
* *
3868902 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
*
3868922 TCTTCTAAGATTGTATATATCATA
1 ---TCTAAGATTGCA-ATATCATA
3868946 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
*
3868967 TCTAAGATTACATATATCATA
1 TCTAAGATTGCA-ATATCATA
*
3868988 TCTAAGATTG-TATATCATA
1 TCTAAGATTGCAATATCATA
3869007 TCTAAGATTG
1 TCTAAGATTG
3869017 TATATCCTCG
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
19 18 0.21
21 49 0.58
23 10 0.12
24 7 0.08
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:3870008 original size:48 final size:48
Alignment explanation
Indices: 3869890--3870206 Score: 259
Period size: 48 Copynumber: 6.6 Consensus size: 48
3869880 ATATATAAGG
* * * * * ** *
3869890 AAAAAATTGGGTGCTGGCTTGTTAATGACCCGTACCACCAGCATGAAAA
1 AAAAAATTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAATACG-AAA
* *
3869939 AAAAAATTTGGGTGCTGGCCTGTTAATGGCCGGCACCACTAATACGAAA
1 AAAAAA-TTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAATACGAAA
* * *
3869988 AAAAAATTGGGTGCTGGCCTGTCAATGGCTGGCATCACCAGTAC-AAA
1 AAAAAATTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAATACGAAA
* * * *
3870035 AAAAATTTGGGTGCCGGCCTATCAATGGCCGTCACCA--ATATACGAAA
1 AAAAAATTGGGTGCTGGCCTGTCAATGGCCGGCACCACCA-ATACGAAA
* ** * **
3870082 AAAAAATTTGGGTGCTGGCCTGTCAATAGTTGGCACTA-GGATACGAAAA
1 AAAAAA-TTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAATACG-AAA
* * ** * *
3870131 AAAAAATTAGGTGC-GAACCTGTCAATGGCTAGCACCAACAGTAC-AAA
1 AAAAAATTGGGTGCTG-GCCTGTCAATGGCCGGCACCACCAATACGAAA
* *
3870178 AAAAAATTTGGTGCTGGCGTGTCAATGGC
1 AAAAAATTGGGTGCTGGCCTGTCAATGGC
3870207 TGACACCAAA
Statistics
Matches: 218, Mismatches: 41, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.00
46 3 0.01
47 70 0.32
48 86 0.39
49 27 0.12
50 31 0.14
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (48 bp):
AAAAAATTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAATACGAAA
Found at i:3870062 original size:95 final size:95
Alignment explanation
Indices: 3869936--3870208 Score: 297
Period size: 95 Copynumber: 2.9 Consensus size: 95
3869926 ACCAGCATGA
* *
3869936 AAAAAAAAATTTGGGTGCTGGCCTGTTAATGGCCGGCACCACTAATACGAAAAAAAAATTGGGTG
1 AAAAAAAAATTTGGGTGCCGGCCTGTCAATGGCCGGCACCACTAATACGAAAAAAAAATTGGGTG
3870001 CTGGCCTGTCAATGGCTGGCA-TCACCAGTAC
66 CTGGCCTGTCAATGGCTGGCACT-ACCA-TAC
* * *
3870032 -AAAAAAAATTTGGGTGCCGGCCTATCAATGGCCGTCACCAAT-ATACGAAAAAAAAATTTGGGT
1 AAAAAAAAATTTGGGTGCCGGCCTGTCAATGGCCGGCACCACTAATACGAAAAAAAAA-TTGGGT
* * **
3870095 GCTGGCCTGTCAATAGTTGGCACTAGGATAC
65 GCTGGCCTGTCAATGGCTGGCACTACCATAC
* * * ** * *
3870126 GAAAAAAAAAATTAGGTG-CGAACCTGTCAATGGCTAGCACCAAC-AGTAC-AAAAAAAAATTTG
1 -AAAAAAAAATTTGGGTGCCG-GCCTGTCAATGGCCGGCACC-ACTAATACGAAAAAAAAATTGG
*
3870188 GTGCTGGCGTGTCAATGGCTG
63 GTGCTGGCCTGTCAATGGCTG
3870209 ACACCAAATT
Statistics
Matches: 148, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
94 17 0.11
95 88 0.59
96 39 0.26
97 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (95 bp):
AAAAAAAAATTTGGGTGCCGGCCTGTCAATGGCCGGCACCACTAATACGAAAAAAAAATTGGGTG
CTGGCCTGTCAATGGCTGGCACTACCATAC
Found at i:3870096 original size:143 final size:143
Alignment explanation
Indices: 3869936--3870215 Score: 359
Period size: 143 Copynumber: 2.0 Consensus size: 143
3869926 ACCAGCATGA
* * * *
3869936 AAAAAAAAATTTGGGTGCTGGCCTGTTAATGGCCGGCACCACTAATACG-AAAAAAAAATTGGGT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATAGCCGGCACCA-GAATACGAAAAAAAAAATTAGGT
* * * *
3870000 GCTG-GCCTGTCAATGGCTGGCATCACCAGTAC-AAAAAAAATTTGGGTGCCGGCCTATCAATGG
65 GC-GAACCTGTCAATGGCTAGCACCAACAGTACAAAAAAAAATTT-GGTGCCGGCCTATCAATGG
*
3870063 CCGTCACCAATATACG
128 CCGACACCAATATACG
** * *
3870079 AAAAAAAAATTTGGGTGCTGGCCTGTCAATAGTTGGCACTAGGATACGAAAAAAAAAATTAGGTG
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATAGCCGGCACCAGAATACGAAAAAAAAAATTAGGTG
* * * *
3870144 CGAACCTGTCAATGGCTAGCACCAACAGTACAAAAAAAAATTTGGTGCTGGCGTGTCAATGGCTG
66 CGAACCTGTCAATGGCTAGCACCAACAGTACAAAAAAAAATTTGGTGCCGGCCTATCAATGGCCG
3870209 ACACCAA
131 ACACCAA
3870216 ATTTATCAAA
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
142 6 0.05
143 100 0.85
144 11 0.09
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (143 bp):
AAAAAAAAATTTGGGTGCTGGCCTGTCAATAGCCGGCACCAGAATACGAAAAAAAAAATTAGGTG
CGAACCTGTCAATGGCTAGCACCAACAGTACAAAAAAAAATTTGGTGCCGGCCTATCAATGGCCG
ACACCAATATACG
Found at i:3875568 original size:49 final size:49
Alignment explanation
Indices: 3875507--3875689 Score: 224
Period size: 48 Copynumber: 3.7 Consensus size: 49
3875497 TTCCGTGCAC
* * *
3875507 TGGTGCCGGCCATTGGCAGGCCAACACCAAAAAAAAAAATTCGTACAGG
1 TGGTGCCAGCCATTGACAAGCCAACACCAAAAAAAAAAATTCGTACAGG
* * * *
3875556 TGGTGCCAGCCATTGACAAGCCAGCACCCAAAAAAAAAATTTTCATACCGG
1 TGGTGCCAGCCATTGACAAGCCAACA-CCAAAAAAAAAA-ATTCGTACAGG
* * *
3875607 TTGTGCCAGTCATTGACAAGCCAACACCAAAAAAAAAAATT-GTACTGG
1 TGGTGCCAGCCATTGACAAGCCAACACCAAAAAAAAAAATTCGTACAGG
* * *
3875655 TGGTGTCAGCCATTGACAAGCCAGCACCCAAAAAA
1 TGGTGCCAGCCATTGACAAGCCAACACCAAAAAAA
3875690 TATTTTTTTT
Statistics
Matches: 114, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
48 35 0.31
49 24 0.21
50 24 0.21
51 31 0.27
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (49 bp):
TGGTGCCAGCCATTGACAAGCCAACACCAAAAAAAAAAATTCGTACAGG
Found at i:3875614 original size:51 final size:51
Alignment explanation
Indices: 3875507--3876198 Score: 479
Period size: 50 Copynumber: 13.6 Consensus size: 51
3875497 TTCCGTGCAC
* * * * *
3875507 TGGTGCCGGCCATTGGCAGGCCAACA-CCAAAAAAAAAA-ATTCGTACAGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCGTACTGG
* * *
3875556 TGGTGCCAGCCATTGACAAGCCAGCACCCAAAAAAAAAATTTTCATACCGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCGTACTGG
* * * * *
3875607 TTGTGCCAGTCATTGACAAGCCAACA-CCAAAAAAAAAA-ATT-GTACTGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCGTACTGG
* * *** *
3875655 TGGTGTCAGCCATTGACAAGCCAGCACCCAAAAAATATTTTTTTTCCTACTGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAA-A-AAATTTTCGTACTGG
* * * * * *
3875708 TGGTGCTAGCCATTAATAGGCTAGCTCCAAAAAAAAAAATTTT-GTACTGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCGTACTGG
* * * ** *
3875758 AGTTACC-GACCATTGACAGGCCAGCACCCAAAAAAATTATTTTTTTTTCGTACTGC
1 TGGTGCCAG-CCATTGACAGGCCAGCACCCAAAAAAA--A---AATTTTCGTACTGG
* * ** * * *
3875814 TCGTGTCAGCGGTTCACAGGCCAACACCC-AAAAAAAATTTTTCGTATACTGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCG--TACTGG
* * *
3875866 TGCTG--A-CCATTGACAGGCCAGCA--CAAAAAAAAAATTTTCATACTGC
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCGTACTGG
* * ** **
3875912 TGGTG-CAGGCCATTAACAGGCCAACACCCAAAAAAAACTTTTTTTTCGTA-TAA
1 TGGTGCCA-GCCATTGACAGGCCAGCACCCAAAAAAAA---AATTTTCGTACTGG
* * * * *
3875965 TGGTACCGGCCATTGACAGGCCAGAACCC-CAAAAAAAA-TTTCGTATTGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCGTACTGG
* * **
3876014 TGATGCC-GACCATTGATAGGCCATTACCC-AAAAAAAAATTTTCGTACTGG
1 TGGTGCCAG-CCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCGTACTGG
* **
3876064 TGGTGCC-GACCATTGACAAGCCAGCACCCAAAAAAAAAATTTTCGTACTAC
1 TGGTGCCAG-CCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCGTACTGG
** * * * *
3876115 TGGTGCTGGTCATTGACAGGTCAGCACCCAAAAAAAAAATTTTTTGTACTGC
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAAAAA-TTTTCGTACTGG
* * *
3876167 TGGTGTCAGCTATTGACAGGCTAGCACCCAAA
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAA
3876199 TTTTTTTTGT
Statistics
Matches: 499, Mismatches: 111, Indels: 63
0.74 0.16 0.09
Matches are distributed among these distances:
46 9 0.02
47 2 0.00
48 48 0.10
49 92 0.18
50 98 0.20
51 96 0.19
52 54 0.11
53 57 0.11
54 8 0.02
55 10 0.02
56 24 0.05
57 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (51 bp):
TGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAAAAATTTTCGTACTGG
Found at i:3875740 original size:99 final size:100
Alignment explanation
Indices: 3875507--3875804 Score: 271
Period size: 101 Copynumber: 2.9 Consensus size: 100
3875497 TTCCGTGCAC
* ** * * *
3875507 TGGTGCCGGCCATTGGCAGGCCAACACCAAAAAAAAAAATTCGTACAGGTGGTGCCAGCCATTGA
1 TGGTGCCAGCCATTAACAAGCCAACACC-AAAAAAAAAATT-GTACTGGTGGTGTCAGCCATTGA
***
3875572 CAAGCCAGCACCCAAAAAA-A-AAATTTTCATACCGG
64 CAAGCCAGCACCCAAAAAATATTTTTTTTCATACCGG
* * *
3875607 TTGTGCCAGTCATTGACAAGCCAACACCAAAAAAAAAAATTGTACTGGTGGTGTCAGCCATTGAC
1 TGGTGCCAGCCATTAACAAGCCAACACC-AAAAAAAAAATTGTACTGGTGGTGTCAGCCATTGAC
* *
3875672 AAGCCAGCACCCAAAAAATATTTTTTTTCCTACTGG
65 AAGCCAGCACCCAAAAAATATTTTTTTTCATACCGG
* * * * * * * *
3875708 TGGTGCTAGCCATTAATAGGCTAGCTCCAAAAAAAAAAATTTTGTACTGG-AGT-TACCGACCAT
1 TGGTGCCAGCCATTAACAAGCCAACACC-AAAAAAAAAA--TTGTACTGGTGGTGT-CAG-CCAT
*
3875771 TGACAGGCCAGCACCCAAAAAAATTATTTTTTTT
61 TGACAAGCCAGCACCC-AAAAAA-TATTTTTTTT
3875805 TCGTACTGCT
Statistics
Matches: 166, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
99 40 0.24
100 37 0.22
101 41 0.25
102 4 0.02
103 28 0.17
104 6 0.04
105 10 0.06
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (100 bp):
TGGTGCCAGCCATTAACAAGCCAACACCAAAAAAAAAATTGTACTGGTGGTGTCAGCCATTGACA
AGCCAGCACCCAAAAAATATTTTTTTTCATACCGG
Found at i:3875896 original size:49 final size:50
Alignment explanation
Indices: 3875506--3876194 Score: 380
Period size: 49 Copynumber: 13.6 Consensus size: 50
3875496 TTTCCGTGCA
* * * * *
3875506 CTGGTGCCGGCCATTGGCAGGCCAACACCAAAAAAAAAA-ATTCGTACAG
1 CTGGTGCCGACCATTGACAGGCCAGCACCAAAAAAAAAATTTTCGTACTG
* * * *
3875555 GTGGTGCC-AGCCATTGACAAGCCAGCACCCAAAAAAAAAATTTTCATACCG
1 CTGGTGCCGA-CCATTGACAGGCCAGCA-CCAAAAAAAAAATTTTCGTACTG
* * * * * *
3875606 GTTGTGCC-AGTCATTGACAAGCCAACACCAAAAAAAAAA-ATT-GTACTG
1 CTGGTGCCGA-CCATTGACAGGCCAGCACCAAAAAAAAAATTTTCGTACTG
* * * *** *
3875654 GTGGTGTC-AGCCATTGACAAGCCAGCACCCAAAAAATATTTTTTTTCCTACTG
1 CTGGTGCCGA-CCATTGACAGGCCAGCA-CCAAAAAA-A-AAATTTTCGTACTG
* * * * * *
3875707 GTGGTG-CTAGCCATTAATAGGCTAGCTCCAAAAAAAAAAATTTT-GTACTG
1 CTGGTGCCGA-CCATTGACAGGCCAGCACC-AAAAAAAAAATTTTCGTACTG
** * * **
3875757 GAGTTACCGACCATTGACAGGCCAGCACCCAAAAAAATTATTTTTTTTTCGTACTG
1 CTGGTGCCGACCATTGACAGGCCAGCA-CCAAAAAAA--A---AATTTTCGTACTG
* * ** * * * * *
3875813 CTCGTGTC-AGCGGTTCACAGGCCAACACCCAAAAAAAATTTTTCGTA-TA
1 CTGGTGCCGA-CCATTGACAGGCCAGCACCAAAAAAAAAATTTTCGTACTG
* *
3875862 CTGGTGCTGACCATTGACAGGCCAGCA-CAAAAAAAAAATTTTCATACTG
1 CTGGTGCCGACCATTGACAGGCCAGCACCAAAAAAAAAATTTTCGTACTG
* * * * ** *
3875911 CTGGTGCAGGCCATTAACAGGCCAACACCCAAAAAAAACTTTTTTTTCGTA-TA
1 CTGGTGCCGACCATTGACAGGCCAGCA-CCAAAAAAAA---AATTTTCGTACTG
* * * * ** *
3875964 ATGGTACCGGCCATTGACAGGCCAGAACCCCAAAAAAAA-TTTCGTATTG
1 CTGGTGCCGACCATTGACAGGCCAGCACCAAAAAAAAAATTTTCGTACTG
* * * ** *
3876013 GTGATGCCGACCATTGATAGGCCATTACCCAAAAAAAAATTTTCGTACTG
1 CTGGTGCCGACCATTGACAGGCCAGCACCAAAAAAAAAATTTTCGTACTG
* * *
3876063 GTGGTGCCGACCATTGACAAGCCAGCACCCAAAAAAAAAATTTTCGTACTA
1 CTGGTGCCGACCATTGACAGGCCAGCA-CCAAAAAAAAAATTTTCGTACTG
* ** * *
3876114 CTGGTGCTGGTCATTGACAGGTCAGCACCCAAAAAAAAAATTTTTTGTACTG
1 CTGGTGCCGACCATTGACAGGCCAGCA-CCAAAAAAAAAA-TTTTCGTACTG
* * *
3876166 CTGGTGTC-AGCTATTGACAGGCTAGCACC
1 CTGGTGCCGA-CCATTGACAGGCCAGCACC
3876195 CAAATTTTTT
Statistics
Matches: 493, Mismatches: 116, Indels: 60
0.74 0.17 0.09
Matches are distributed among these distances:
48 50 0.10
49 106 0.22
50 94 0.19
51 105 0.21
52 43 0.09
53 54 0.11
54 7 0.01
55 13 0.03
56 21 0.04
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (50 bp):
CTGGTGCCGACCATTGACAGGCCAGCACCAAAAAAAAAATTTTCGTACTG
Found at i:3875897 original size:152 final size:152
Alignment explanation
Indices: 3875737--3876100 Score: 380
Period size: 152 Copynumber: 2.4 Consensus size: 152
3875727 GCTAGCTCCA
* * * *
3875737 AAAAAAAAAATTTT-GTACTGGAGTTACCGACCATTGACAGGCCAGCACCCAAAAAAATTATTTT
1 AAAAAAAAAATTTTCGTACTGGTGGTGCCGACCATTGACAGGCCAGCACCCAAAAAAA--ACTTT
** ** **
3875801 TTTTTCGTACTGCTCGTGTCAGCGGTTCACAGGCC--AACACCCAAAAAAAATTTTTCGTA-TAC
64 TTTTTCGTA-TAATCGTACCAGCCATTCACAGGCCAGAAC-CCCAAAAAAAA--TTTCGTATTAC
* * *
3875863 TGGTGCTGACCATTGACAGGCCA-GCAC
125 TGATGCCGACCATTGACAGGCCATACAC
* * * * * *
3875890 AAAAAAAAAATTTTCATACTGCTGGTGCAGGCCATTAACAGGCCAACACCCAAAAAAAACTTTTT
1 AAAAAAAAAATTTTCGTACTGGTGGTGCCGACCATTGACAGGCCAGCACCCAAAAAAAACTTTTT
* * * **
3875955 TTTCGTATAATGGTACCGGCCATTGACAGGCCAGAACCCCAAAAAAAATTTCGTATTGGTGATGC
66 TTTCGTATAATCGTACCAGCCATTCACAGGCCAGAACCCCAAAAAAAATTTCGTATTACTGATGC
*
3876020 CGACCATTGATAGGCCATTAC-C
131 CGACCATTGACAGGCCA-TACAC
* *
3876042 CAAAAAAAAATTTTCGTACTGGTGGTGCCGACCATTGACAAGCCAGCACCCAAAAAAAA
1 AAAAAAAAAATTTTCGTACTGGTGGTGCCGACCATTGACAGGCCAGCACCCAAAAAAAA
3876101 AATTTTCGTA
Statistics
Matches: 172, Mismatches: 33, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
150 7 0.04
151 37 0.22
152 76 0.44
153 18 0.10
154 34 0.20
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (152 bp):
AAAAAAAAAATTTTCGTACTGGTGGTGCCGACCATTGACAGGCCAGCACCCAAAAAAAACTTTTT
TTTCGTATAATCGTACCAGCCATTCACAGGCCAGAACCCCAAAAAAAATTTCGTATTACTGATGC
CGACCATTGACAGGCCATACAC
Found at i:3876027 original size:102 final size:101
Alignment explanation
Indices: 3875829--3876151 Score: 264
Period size: 102 Copynumber: 3.2 Consensus size: 101
3875819 TCAGCGGTTC
* * * *
3875829 ACAGGCCAACACCCAAAAAAAA---TTTTTCGTATACTGGTGCTGACCATTGACAGGCCAGCACA
1 ACAGGCCAACACCCAAAAAAAATTTTTTTTCGTATAATGGTACCGACCATTGACAGGCCAGAACA
* *
3875891 AAAAAAAAATTTTCATACTGCTGGTGCAGGCCATTA
66 AAAAAAAAATTTTCATACTGCTGATGCAGACCATTA
*
3875927 ACAGGCCAACACCCAAAAAAAACTTTTTTTTCGTATAATGGTACCGGCCATTGACAGGCCAGAAC
1 ACAGGCCAACACCCAAAAAAAA-TTTTTTTTCGTATAATGGTACCGACCATTGACAGGCCAGAA-
** * * * * *
3875992 CCCAAAAAAAA-TTTCGTATTGGTGATGCCGACCATTG
64 CAAAAAAAAAATTTTCATACTGCTGATGCAGACCATTA
* ** * ** * *
3876029 ATAGGCCATTACCCAAAAAAAA---ATTTTCGTACTGGTGGTGCCGACCATTGACAAGCCAGCAC
1 ACAGGCCAACACCCAAAAAAAATTTTTTTTCGTA-TAATGGTACCGACCATTGACAGGCCAG-A-
* * * * * ** *
3876091 CCAAAAAAAAAATTTTCGTACTACTGGTGCTGGTCATTG
63 ACAAAAAAAAAATTTTCATACTGCTGATGCAGACCATTA
* *
3876130 ACAGGTCAGCACCCAAAAAAAA
1 ACAGGCCAACACCCAAAAAAAA
3876152 AATTTTTTGT
Statistics
Matches: 179, Mismatches: 37, Indels: 15
0.77 0.16 0.06
Matches are distributed among these distances:
98 30 0.17
99 22 0.12
100 10 0.06
101 37 0.21
102 71 0.40
103 9 0.05
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (101 bp):
ACAGGCCAACACCCAAAAAAAATTTTTTTTCGTATAATGGTACCGACCATTGACAGGCCAGAACA
AAAAAAAAATTTTCATACTGCTGATGCAGACCATTA
Found at i:3877772 original size:19 final size:21
Alignment explanation
Indices: 3877748--3877789 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
3877738 ATTAAATTAG
3877748 ATAATATA-TA-AAATTAAAA
1 ATAATATATTAGAAATTAAAA
3877767 ATAATATATTATGAAATTAAAA
1 ATAATATATTA-GAAATTAAAA
3877789 A
1 A
3877790 AGGTGTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 2 0.10
22 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAATATATTAGAAATTAAAA
Found at i:3878567 original size:100 final size:101
Alignment explanation
Indices: 3878462--3878646 Score: 286
Period size: 100 Copynumber: 1.8 Consensus size: 101
3878452 CCCCCCCTTT
**
3878462 TTTTTGCACTCAATT-AGGTATTTGAACTTTCAAAATGCATCAAAAAGG-CCCTCAAACTTTCTC
1 TTTTTGCACTCAATTGA-GTATTTGAACTGCCAAAATGCAT-AAAAAGGACCCTCAAACTTTCTC
*
3878525 AAAAAA-GCAATTAAGCCCCTGTTTCTTCTTCTTCTTC
64 AAAAAATGCAATTAAACCCCTGTTTCTTCTTCTTCTTC
* *
3878562 TTTTTGCACTCAATTGAGTATTTGAACTGCCAAAATGCATTAAAAGGACCCTCAAACTTTTTCAA
1 TTTTTGCACTCAATTGAGTATTTGAACTGCCAAAATGCATAAAAAGGACCCTCAAACTTTCTCAA
3878627 AAAATGCAATTAAACCCCTG
66 AAAATGCAATTAAACCCCTG
3878647 CTCCTTTTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
99 6 0.08
100 56 0.73
101 15 0.19
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.34
Consensus pattern (101 bp):
TTTTTGCACTCAATTGAGTATTTGAACTGCCAAAATGCATAAAAAGGACCCTCAAACTTTCTCAA
AAAATGCAATTAAACCCCTGTTTCTTCTTCTTCTTC
Found at i:3879036 original size:20 final size:20
Alignment explanation
Indices: 3879011--3879061 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
3879001 AAAAGGCCCT
*
3879011 TTGACCGTTAACTTTAACGA
1 TTGACCATTAACTTTAACGA
*
3879031 TTGACCATTAACTTTAACGG
1 TTGACCATTAACTTTAACGA
3879051 TTGACCATTAA
1 TTGACCATTAA
3879062 AGTTAGTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
TTGACCATTAACTTTAACGA
Found at i:3879208 original size:27 final size:27
Alignment explanation
Indices: 3879147--3879216 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
3879137 TAAAAATAAA
*
3879147 TAAAAATTATTAAATTTTAATAAAAATG
1 TAAAAAATA-TAAATTTTAATAAAAATG
*
3879175 TAAAAAATATAAATTTT-ATTAAAATAG
1 TAAAAAATATAAATTTTAATAAAAAT-G
3879202 TACAAAAATTATAAA
1 TA-AAAAA-TATAAA
3879217 AAATTGTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
26 7 0.19
27 11 0.30
28 13 0.35
29 6 0.16
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (27 bp):
TAAAAAATATAAATTTTAATAAAAATG
Done.