Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 96 of 199
Found at i:26979410 original size:38 final size:36
Alignment explanation
Indices: 26979368--26979444 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 36
26979358 GAATTCTCTC
26979368 ATTTAATAACTCTATTTTAA-TTTAATAAACTATTAAGT
1 ATTTAATAACTCTATTTTAATTTTAA-AAA--ATTAAGT
26979406 ATTTAATAACTCTATTTTAATTTTAAAAAATTAAGT
1 ATTTAATAACTCTATTTTAATTTTAAAAAATTAAGT
26979442 ATT
1 ATT
26979445 ACTTAATAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 10 0.26
38 23 0.61
39 5 0.13
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (36 bp):
ATTTAATAACTCTATTTTAATTTTAAAAAATTAAGT
Found at i:26979491 original size:37 final size:37
Alignment explanation
Indices: 26979449--26979519 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
26979439 AGTATTACTT
26979449 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
*
26979486 AATAGTTTATTAAATTAAAATAGATTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
26979520 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:26979497 original size:18 final size:19
Alignment explanation
Indices: 26979449--26979523 Score: 102
Period size: 18 Copynumber: 4.1 Consensus size: 19
26979439 AGTATTACTT
26979449 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
* * *
26979467 AATAGAGTTATTAAATGAG
1 AATAGATTTATTAAATTAA
26979486 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
26979504 AATAGATTTATTAAA-TAA
1 AATAGATTTATTAAATTAA
26979522 AA
1 AA
26979524 AAATGAGTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
18 25 0.51
19 24 0.49
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
AATAGATTTATTAAATTAA
Found at i:26979782 original size:37 final size:37
Alignment explanation
Indices: 26979740--26979810 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
26979730 AGTATTACTT
26979740 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
26979777 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
26979811 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:26979815 original size:19 final size:19
Alignment explanation
Indices: 26979746--26979814 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
26979736 ACTTAATAGT
26979746 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
26979765 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
26979783 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
26979802 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
26979815 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:26980479 original size:24 final size:25
Alignment explanation
Indices: 26980426--26980479 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 25
26980416 AAGTTACAAT
* *
26980426 TATTTTAGCGTTATTTATTTTAATA
1 TATTTTAGCGTTATTTAATGTAATA
* *
26980451 T-TTTTAGTG-TATTTAATGTATTA
1 TATTTTAGCGTTATTTAATGTAATA
26980474 TATTTT
1 TATTTT
26980480 TTAAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 12 0.50
24 11 0.46
25 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (25 bp):
TATTTTAGCGTTATTTAATGTAATA
Found at i:26980803 original size:24 final size:23
Alignment explanation
Indices: 26980763--26980808 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
26980753 AACATACCCA
*
26980763 CATATTTATAATAATAAATAATAT
1 CATATTTACAATAATAAA-AATAT
26980787 CATATTCTACAAT-ATAAAAATA
1 CATATT-TACAATAATAAAAATA
26980809 ATGGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (23 bp):
CATATTTACAATAATAAAAATAT
Found at i:26981721 original size:18 final size:18
Alignment explanation
Indices: 26981680--26981721 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
26981670 TATATTATTT
*
26981680 TTAAATATATATAATACA
1 TTAAAAATATATAATACA
*
26981698 TCAAAAATACTATAA-ACA
1 TTAAAAATA-TATAATACA
26981716 TTAAAA
1 TTAAAA
26981722 TAAATATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAATATATAATACA
Found at i:26981910 original size:11 final size:11
Alignment explanation
Indices: 26981873--26981923 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
26981863 ACAATAACAA
26981873 CAAAATAGTAG
1 CAAAATAGTAG
* * *
26981884 TAACATAATAG
1 CAAAATAGTAG
*
26981895 TAAAATAGTAG
1 CAAAATAGTAG
26981906 CAAAATAGTGAG
1 CAAAATAGT-AG
26981918 -AAAATA
1 CAAAATA
26981924 ACAATAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 31 0.94
12 2 0.06
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.22
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:26981932 original size:11 final size:11
Alignment explanation
Indices: 26981918--26981960 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
26981908 AAATAGTGAG
26981918 AAAATAACAAT
1 AAAATAACAAT
*
26981929 AAAATAACATT
1 AAAATAACAAT
** *
26981940 AAAGCAACAAA
1 AAAATAACAAT
26981951 AAAATAACAA
1 AAAATAACAA
26981961 ATCGTTTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.72, C:0.12, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAATAACAAT
Found at i:26984734 original size:20 final size:20
Alignment explanation
Indices: 26984711--26984749 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26984701 AAATTTGGAA
* *
26984711 TTTAATCTTTTTATTTTTAT
1 TTTAATCTCTCTATTTTTAT
26984731 TTTAATCTCTCTATTTTTA
1 TTTAATCTCTCTATTTTTA
26984750 AGAAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTAATCTCTCTATTTTTAT
Found at i:26987699 original size:3 final size:3
Alignment explanation
Indices: 26987691--26987738 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
26987681 TTTAGGCAGT
*
26987691 AGA AGA AGA TGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
26987738 A
1 A
26987739 ATGGAGATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:26990540 original size:20 final size:20
Alignment explanation
Indices: 26990515--26990555 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26990505 ACTTAATGCT
26990515 CTTGCAAATAAAAAAACAAA
1 CTTGCAAATAAAAAAACAAA
26990535 CTTGCAAATAAAAAAACAAA
1 CTTGCAAATAAAAAAACAAA
26990555 C
1 C
26990556 ATAAACCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.63, C:0.17, G:0.05, T:0.15
Consensus pattern (20 bp):
CTTGCAAATAAAAAAACAAA
Found at i:26992892 original size:35 final size:35
Alignment explanation
Indices: 26992853--26992922 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
26992843 TGGCTATGAG
* *
26992853 ATGCTTAAATGAACCAGACCAACTAACACACCAGA
1 ATGCTCAAATGAACCAGACCAACCAACACACCAGA
** * *
26992888 ATGCTCGTATGAGCCAGACCAGCCAACACACCAGA
1 ATGCTCAAATGAACCAGACCAACCAACACACCAGA
26992923 GTACACTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.40, C:0.31, G:0.16, T:0.13
Consensus pattern (35 bp):
ATGCTCAAATGAACCAGACCAACCAACACACCAGA
Found at i:26994164 original size:7 final size:7
Alignment explanation
Indices: 26994152--26994180 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
26994142 AATGACCTCA
26994152 TAAATAT
1 TAAATAT
26994159 TAAATAT
1 TAAATAT
26994166 TAAATAT
1 TAAATAT
26994173 TAAATAT
1 TAAATAT
26994180 T
1 T
26994181 TAAAAACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAATAT
Found at i:26995188 original size:24 final size:24
Alignment explanation
Indices: 26995142--26995191 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
26995132 TTATCAATGA
26995142 TATTTAAAAATAATAAAAAATAAAT
1 TATTTAAAAAT-ATAAAAAATAAAT
*
26995167 TATTTAAAAAT-TAAATACATAAAT
1 TATTTAAAAATATAAA-AAATAAAT
26995191 T
1 T
26995192 TACATGCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 8 0.35
25 11 0.48
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TATTTAAAAATATAAAAAATAAAT
Found at i:27009135 original size:62 final size:62
Alignment explanation
Indices: 27009047--27009263 Score: 190
Period size: 62 Copynumber: 3.5 Consensus size: 62
27009037 GACCACAGAT
* * *
27009047 CCAGGGACACAGG-GTGTGCCCAGGCCGTGTAACTCATTGTTTGTGGTATAAGACCACACGG
1 CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCATTGTTTGTGGTATAAGACCACACGG
* * *
27009108 CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCACTT-TTTGTGGTACAAGATCACACAG
1 CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCA-TTGTTTGTGGTATAAGACCACACGG
** * * * * * * * * *
27009170 ATAGGGACACGGGCATGTGTCCAAGCTGTGTAACTTACTGTTTATGCT-TCAAAACCACACGG
1 CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCATTGTTTGTGGTAT-AAGACCACACGG
* * *
27009232 GCA-AGACACATGGGCGTGTGACCTGGCCGTGT
1 CCAGAGACAC--GGGCGTGTGTCCAGGCCGTGT
27009264 GGCGAGTTAT
Statistics
Matches: 122, Mismatches: 28, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
61 17 0.14
62 87 0.71
63 18 0.15
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (62 bp):
CCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCATTGTTTGTGGTATAAGACCACACGG
Found at i:27010397 original size:26 final size:26
Alignment explanation
Indices: 27010368--27010468 Score: 111
Period size: 26 Copynumber: 3.9 Consensus size: 26
27010358 GGATTCACGA
27010368 ATGGTTAGACAAGAATAAATTCATAG
1 ATGGTTAGACAAGAATAAATTCATAG
* * *
27010394 ATGGTCATTATAAAAGATATGAA---ATAG
1 ATGG---TTAGACAAGA-ATAAATTCATAG
27010421 A-GGTTAGACAAGAATAAATTCATAG
1 ATGGTTAGACAAGAATAAATTCATAG
27010446 ATGGTTAGACAAGAATAAATTCA
1 ATGGTTAGACAAGAATAAATTCA
27010469 CGAAATAGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
22 4 0.07
23 8 0.13
25 5 0.08
26 27 0.44
27 5 0.08
29 8 0.13
30 4 0.07
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.27
Consensus pattern (26 bp):
ATGGTTAGACAAGAATAAATTCATAG
Found at i:27026506 original size:33 final size:32
Alignment explanation
Indices: 27026434--27026510 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
27026424 TATATACATG
* * **
27026434 TGTAAGACCATAGCTGGGCTATGACATTCTGA
1 TGTAAGACCATAACTGGGCTATGACATACAAA
* *
27026466 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGACA-TACAAA
27026500 TGTAAGACCAT
1 TGTAAGACCAT
27026511 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGACATACAAA
Found at i:27031289 original size:41 final size:41
Alignment explanation
Indices: 27031244--27031402 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 41
27031234 ATCTTCGAGT
* * *
27031244 ATTAGCGGCGCTTTTTTAGAAACGCCTCTAAAACCTTGAGC
1 ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCCTGAGC
* * * *
27031285 ATTAGCGGTGCTTTTTTAAAAACG-CTACTAAAGCCCTAAGC
1 ATTAGCGGCGCTTTTTAAAAAACGCCT-CTAAAACCCTGAGC
* *
27031326 ATTAGCGGCGCTTGTTAAAAAACGCCGCTAAAACCCTGAGC
1 ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCCTGAGC
*
27031367 ATTAGCGGCGCTTTTTAAAAAACGCCACTAAAACCC
1 ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCC
27031403 ACGAAAACTA
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.02
41 100 0.97
42 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTAAAAAACGCCTCTAAAACCCTGAGC
Found at i:27031290 original size:82 final size:81
Alignment explanation
Indices: 27031196--27031398 Score: 212
Period size: 82 Copynumber: 2.5 Consensus size: 81
27031186 CCACTATTGG
* ** * * * * *
27031196 CCTGAGCATTAGCTGCGTTTCTTTAAAAATGCCGGTAAA-TCTTCGAGTATTAGCGGCGCTTTTT
1 CCTGAGCATTAGCTGCGTTT-TTTAAAAACGCCACTAAAGCCCT-AAGCATTAGCGGCGCTTGTT
* * *
27031260 TAGAAACGCCTCTAAAAC
64 AAAAAACGCCGCTAAAAC
* *
27031278 CTTGAGCATTAGCGGTGC-TTTTTTAAAAACGCTACTAAAGCCCTAAGCATTAGCGGCGCTTGTT
1 CCTGAGCATTAGC--TGCGTTTTTTAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGCTTGTT
27031342 AAAAAACGCCGCTAAAAC
64 AAAAAACGCCGCTAAAAC
* *
27031360 CCTGAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAA
1 CCTGAGCATTAGCTGCG-TTTTTTAAAAACGCCACTAAA
27031399 ACCCACGAAA
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
80 2 0.02
82 89 0.90
83 5 0.05
84 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (81 bp):
CCTGAGCATTAGCTGCGTTTTTTAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGCTTGTTAA
AAAACGCCGCTAAAAC
Found at i:27031506 original size:39 final size:39
Alignment explanation
Indices: 27031458--27031533 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
27031448 GCACTTTTTG
* * *
27031458 AAAAACGCCGCTAATGCTC-ATTTTTAGCGGTGTTTTCC
1 AAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTCC
27031496 AAAAAGCGCCGCTAATACTCAATCTTTAGCGGCGTTTT
1 AAAAA-CGCCGCTAATACTCAATCTTTAGCGGCGTTTT
27031534 TTTAAAGCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 13 0.39
40 15 0.45
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (39 bp):
AAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTCC
Found at i:27031541 original size:39 final size:38
Alignment explanation
Indices: 27031463--27031577 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 38
27031453 TTTTGAAAAA
* * ***
27031463 CGCCGCTAATGCTCATTTTTAGCGGTGTTTTCCAAAAAG
1 CGCCGCTAATACTCATTTTTAGCGGCGTTTT-TTTAAAG
*
27031502 CGCCGCTAATACTCAATCTTTAGCGGCGTTTTTTTAAAG
1 CGCCGCTAATACTC-ATTTTTAGCGGCGTTTTTTTAAAG
* * * *
27031541 CGCTGCTAATTCTTGATTTTTAGCGGCATTTTTTTAA
1 CGCCGCTAATAC-TCATTTTTAGCGGCGTTTTTTTAA
27031578 TCAAAATGCC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 47 0.75
40 16 0.25
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (38 bp):
CGCCGCTAATACTCATTTTTAGCGGCGTTTTTTTAAAG
Found at i:27038075 original size:20 final size:20
Alignment explanation
Indices: 27038045--27038082 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27038035 TTGAAAAGAA
27038045 AACTCAAAGAGAA-TTTATT
1 AACTCAAAGAGAAGTTTATT
27038064 AACTCAAAAGAGAAGTTTA
1 AACTC-AAAGAGAAGTTTA
27038083 ATATTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (20 bp):
AACTCAAAGAGAAGTTTATT
Found at i:27039077 original size:14 final size:15
Alignment explanation
Indices: 27039008--27039078 Score: 69
Period size: 14 Copynumber: 5.0 Consensus size: 15
27038998 ATCCCACCCC
* *
27039008 ATATACTGATATAGA
1 ATATACAGATACAGA
*
27039023 A-ATACATATACA-A
1 ATATACAGATACAGA
*
27039036 ATATACGGATACA-A
1 ATATACAGATACAGA
27039050 ATATACAGATACAGA
1 ATATACAGATACAGA
*
27039065 A-ATATAGATACAGA
1 ATATACAGATACAGA
27039079 TACTCATACA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.04
14 42 0.89
15 3 0.06
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (15 bp):
ATATACAGATACAGA
Found at i:27043184 original size:28 final size:27
Alignment explanation
Indices: 27043135--27043199 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
27043125 TACGGTATGC
* *
27043135 AGAAACAGATTGGGCCTGAGCCCATTAA
1 AGAAACAG-TTGGACCTAAGCCCATTAA
*
27043163 TAGAACCAGTTGGACCTAAGCCCATTAA
1 -AGAAACAGTTGGACCTAAGCCCATTAA
*
27043191 AGAATCAGT
1 AGAAACAGT
27043200 ATCAAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 8 0.25
28 17 0.53
29 7 0.22
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
AGAAACAGTTGGACCTAAGCCCATTAA
Found at i:27043635 original size:27 final size:26
Alignment explanation
Indices: 27043605--27043667 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 26
27043595 AGGGCTAAAA
*
27043605 TGGTAATTTTACCC-CATAGGGGTATTT
1 TGGTCATTTTACCCTCA-A-GGGTATTT
27043632 TGGTCATTTTACCCTTCAAGGGTATTT
1 TGGTCATTTTACCC-TCAAGGGTATTT
27043659 TGGTCATTT
1 TGGTCATTT
27043668 AAAAACCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 30 0.91
28 1 0.03
29 2 0.06
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (26 bp):
TGGTCATTTTACCCTCAAGGGTATTT
Found at i:27048701 original size:56 final size:56
Alignment explanation
Indices: 27048610--27048841 Score: 437
Period size: 56 Copynumber: 4.1 Consensus size: 56
27048600 ACAAGGGATG
27048610 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
27048666 ATGGACAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
27048722 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
27048778 ATGGGCAAAACAGGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
27048834 ATGGGCAA
1 ATGGGCAA
27048842 TAAACTAATA
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 172 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:27050054 original size:40 final size:39
Alignment explanation
Indices: 27049970--27050154 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
27049960 TCGAATGATG
* * *
27049970 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
27050009 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
*
27050050 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
*
27050089 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27050128 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
27050155 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 36 0.29
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27050106 original size:79 final size:81
Alignment explanation
Indices: 27049970--27050154 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
27049960 TCGAATGATG
* *
27049970 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
27050034 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
27050049 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
27050111 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
27050129 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
27050155 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:27050176 original size:79 final size:79
Alignment explanation
Indices: 27050023--27050187 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
27050013 GGACTAAGAT
* **
27050023 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
27050088 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
27050102 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
27050165 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
27050181 CCGAAGG
1 CCGAAGG
27050188 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:27066199 original size:27 final size:26
Alignment explanation
Indices: 27066013--27066212 Score: 184
Period size: 27 Copynumber: 7.4 Consensus size: 26
27066003 GGGTATAACA
* *
27066013 GTCATTTTACCCTATAGGGGTACTTCT
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
27066040 GTCGTTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
27066067 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
27066094 ATCATTCTACCTTATGGGAGTATTTCG
1 GTCATTTTACCCTATGGG-GTATTTCG
* *
27066121 GTCATTCTACTCTATGGGGCTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
* ** *
27066148 GTCATTCTATTCTATGGTGGTATTTCA
1 GTCATTTTACCCTATGG-GGTATTTCG
* * *
27066175 ATCATTTTACCCTATGGGGACATTTTG
1 GTCATTTTACCCTATGGGG-TATTTCG
*
27066202 GTCCTTTTACC
1 GTCATTTTACC
27066213 TACTATTTTG
Statistics
Matches: 144, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
26 7 0.05
27 134 0.93
28 3 0.02
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:27075870 original size:22 final size:22
Alignment explanation
Indices: 27075845--27075887 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27075835 AACTTAATTC
27075845 ACATTTATTGA-TTGAATGTAAT
1 ACATTTATT-ACTTGAATGTAAT
27075867 ACATTTATTACTTGAATGTAA
1 ACATTTATTACTTGAATGTAA
27075888 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTACTTGAATGTAAT
Found at i:27084814 original size:50 final size:50
Alignment explanation
Indices: 27084739--27084931 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
27084729 ATTTGGGTAA
*
27084739 AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** *
27084789 AGAGGTCCCGTGTAAGACCATGTCTGGGACATGGTGTTGGCAGCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
27084839 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
27084889 AGAACATCCCATGTAAGACCATGTCTGGAACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
27084932 TGTTATTATT
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 89 0.74
51 32 0.26
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:27086917 original size:3 final size:3
Alignment explanation
Indices: 27086909--27087098 Score: 60
Period size: 3 Copynumber: 63.7 Consensus size: 3
27086899 TTACCCTCTT
* * *
27086909 TTA TTA TTA ATA TTTA TTA TTCA TTA CT- TTA TTA TTT TTA TT- TTA
1 TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* *
27086954 TT- TT- TTGA TTA TTTA TTTA TTTA TTCC TTA TTA CTA TTA TTA TT-
1 TTA TTA TT-A TTA -TTA -TTA -TTA TT-A TTA TTA TTA TTA TTA TTA
* * * * * *
27086998 TTA TTC TT- TGTT TTA GTA TTA TTC TTT TTAA TT- GTA TTTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT-A TTA TTA -TTA TTA TTA
* * * * * *
27087044 ATA TGA TTA TTA CTA TTA TT- TTA TT- TTC TT- CTA TTA TTC TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27087089 TTA TT- TTA TT
1 TTA TTA TTA TT
27087099 TGGCTATAGA
Statistics
Matches: 140, Mismatches: 29, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
2 18 0.13
3 97 0.69
4 25 0.18
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27086934 original size:7 final size:7
Alignment explanation
Indices: 27086908--27086998 Score: 69
Period size: 7 Copynumber: 12.4 Consensus size: 7
27086898 TTTACCCTCT
27086908 TTTATTA
1 TTTATTA
*
27086915 -TTAATA
1 TTTATTA
27086921 TTTATTA
1 TTTATTA
*
27086928 TTCATTA
1 TTTATTA
27086935 CTTTATTA
1 -TTTATTA
27086943 TTT-TTA
1 TTTATTA
*
27086949 TTTTATTT
1 -TTTATTA
27086957 TTTGATTA
1 TTT-ATTA
27086965 TTTATTTA
1 TTTA-TTA
*
27086973 TTTATTC
1 TTTATTA
*
27086980 CTTATTA
1 TTTATTA
27086987 CTATTATTA
1 -T-TTATTA
27086996 TTT
1 TTT
27086999 TATTCTTTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
6 8 0.12
7 30 0.45
8 22 0.33
9 6 0.09
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:27087259 original size:20 final size:20
Alignment explanation
Indices: 27087236--27087273 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27087226 GTTTTATTTA
*
27087236 TTTATTATTATTATTATTAT
1 TTTATTAGTATTATTATTAT
*
27087256 TTTATTCGTATTATTATT
1 TTTATTAGTATTATTATT
27087274 CTTTATATAT
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:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTATTAGTATTATTATTAT
Found at i:27087260 original size:17 final size:17
Alignment explanation
Indices: 27087240--27087273 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27087230 TATTTATTTA
*
27087240 TTATTATTATTATTATT
1 TTATTAGTATTATTATT
*
27087257 TTATTCGTATTATTATT
1 TTATTAGTATTATTATT
27087274 CTTTATATAT
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:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTATTAGTATTATTATT
Found at i:27088625 original size:12 final size:11
Alignment explanation
Indices: 27088610--27088692 Score: 66
Period size: 11 Copynumber: 7.4 Consensus size: 11
27088600 TTTGTTTTCT
27088610 TTTTAGTTTTA
1 TTTTAGTTTTA
27088621 GTTTTAGTTTTA
1 -TTTTAGTTTTA
*
27088633 TTTTATTTTTA
1 TTTTAGTTTTA
27088644 TTTTA-TGTTTA
1 TTTTAGT-TTTA
27088655 TGTTTA-TTATTA
1 T-TTTAGTT-TTA
*
27088667 TTTTTAGTTCT-
1 -TTTTAGTTTTA
27088678 TTTTA-TTCTTA
1 TTTTAGTT-TTA
27088689 TTTT
1 TTTT
27088693 CTTAGACTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
9 2 0.03
10 7 0.11
11 25 0.41
12 24 0.39
13 3 0.05
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.73
Consensus pattern (11 bp):
TTTTAGTTTTA
Found at i:27088654 original size:6 final size:5
Alignment explanation
Indices: 27088610--27088692 Score: 60
Period size: 6 Copynumber: 14.8 Consensus size: 5
27088600 TTTGTTTTCT
27088610 TTTTA GTTTTA GTTTTA GTTTTA TTTTA TTTTTA TTTTA TGTTTA TGTTTA
1 TTTTA -TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA T-TTTA T-TTTA
*
27088661 TTATTA TTTTTA GTTCT- TTTTA TTCTTA TTTT
1 TT-TTA -TTTTA -TTTTA TTTTA TT-TTA TTTT
27088693 CTTAGACTTA
Statistics
Matches: 68, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
4 3 0.04
5 16 0.24
6 47 0.69
7 2 0.03
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:27091218 original size:56 final size:50
Alignment explanation
Indices: 27091147--27091342 Score: 203
Period size: 50 Copynumber: 3.8 Consensus size: 50
27091137 ATTTGGGTAA
* * *
27091147 AGAGATCCCATGTAAGACCATGTCTTGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* **
27091203 AGAGGTCCCGTGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
27091253 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
27091303 AGAACTCCCATGTAAGACCATATCTGGGATATGGAATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
27091343 TAGTACAAGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 80 0.66
53 3 0.02
55 1 0.01
56 37 0.31
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:27095902 original size:10 final size:10
Alignment explanation
Indices: 27095889--27095952 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
27095879 TTTTACATAC
27095889 TTTTTTTAAT
1 TTTTTTTAAT
27095899 TTTTTTTAA-
1 TTTTTTTAAT
**
27095908 -TTTTAAAAT
1 TTTTTTTAAT
**
27095917 ATTTTTAAAAT
1 -TTTTTTTAAT
27095928 ACTTTTTTTAAT
1 --TTTTTTTAAT
27095940 TTTTTTTAAT
1 TTTTTTTAAT
27095950 TTT
1 TTT
27095953 AAAATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
8 6 0.13
10 22 0.49
11 9 0.20
12 8 0.18
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:27095913 original size:41 final size:41
Alignment explanation
Indices: 27095858--27096051 Score: 286
Period size: 41 Copynumber: 4.7 Consensus size: 41
27095848 AATATATTTA
* *
27095858 TTTTTTTAATTTTAAAATATTTTTTACATACTTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
27095899 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
*
27095940 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
* **
27095981 ATTTTTTAATTTTAAAATA-TTTTAAAATA-TTTTTAAAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
27096020 ACTTTTTTTAATTTTTAAAA-ATTTTTAAAATA
1 --TTTTTTTAA-TTTTAAAATATTTTTAAAATA
27096052 AAACCGGGCC
Statistics
Matches: 141, Mismatches: 8, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
39 7 0.05
40 10 0.07
41 106 0.75
42 18 0.13
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
Found at i:27095961 original size:10 final size:11
Alignment explanation
Indices: 27095949--27096051 Score: 82
Period size: 10 Copynumber: 9.9 Consensus size: 11
27095939 TTTTTTTTAA
27095949 TTTTAAAATAT
1 TTTTAAAATAT
27095960 TTTTAAAATACTTT
1 TTTTAAAATA---T
27095974 TTTTAAAAT-T
1 TTTTAAAATAT
27095984 TTTT---A-A-
1 TTTTAAAATAT
27095990 TTTTAAAATA-
1 TTTTAAAATAT
27096000 TTTTAAAATAT
1 TTTTAAAATAT
27096011 TTTTAAAATACT
1 TTTTAAAATA-T
**
27096023 TTTT-TTA-AT
1 TTTTAAAATAT
27096032 TTTTAAAA-AT
1 TTTTAAAATAT
27096042 TTTTAAAATA
1 TTTTAAAATA
27096052 AAACCGGGCC
Statistics
Matches: 76, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
6 4 0.05
7 1 0.01
9 6 0.08
10 28 0.37
11 22 0.29
12 5 0.07
14 10 0.13
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:27095962 original size:16 final size:16
Alignment explanation
Indices: 27095960--27096005 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
27095950 TTTAAAATAT
*
27095960 TTTTAAAATACTTT--
1 TTTTAAAATATTTTAA
*
27095974 TTTTAAAATTTTTTAA
1 TTTTAAAATATTTTAA
27095990 TTTTAAAATATTTTAA
1 TTTTAAAATATTTTAA
27096006 AATATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 12 0.44
16 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAAATATTTTAA
Found at i:27095987 original size:13 final size:14
Alignment explanation
Indices: 27095918--27096030 Score: 66
Period size: 14 Copynumber: 8.5 Consensus size: 14
27095908 TTTTAAAATA
27095918 TTTTTAAAATACTT
1 TTTTTAAAATACTT
** **
27095932 TTTTTAATTTTTTT
1 TTTTTAAAATACTT
27095946 TAATTTTAAAATA---
1 T--TTTTAAAATACTT
27095959 TTTTTAAAATACTT
1 TTTTTAAAATACTT
**
27095973 TTTTTAAAATTTTT
1 TTTTTAAAATACTT
27095987 TAATTTTAAAATA---
1 T--TTTTAAAATACTT
27096000 -TTTTAAAATA---
1 TTTTTAAAATACTT
27096010 TTTTTAAAATACTT
1 TTTTTAAAATACTT
27096024 TTTTTAA
1 TTTTTAA
27096031 TTTTTAAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
10 10 0.13
11 20 0.26
13 1 0.01
14 31 0.40
16 16 0.21
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAAAATACTT
Found at i:27096015 original size:21 final size:21
Alignment explanation
Indices: 27095989--27096051 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
27095979 AAATTTTTTA
27095989 ATTTTAAAATA-TTTTAAAAT
1 ATTTTAAAATATTTTTAAAAT
**
27096009 ATTTTTAAAATACTTTTTTTAAT
1 A-TTTTAAAATA-TTTTTAAAAT
27096032 -TTTTAAAA-ATTTTTAAAAT
1 ATTTTAAAATATTTTTAAAAT
27096051 A
1 A
27096052 AAACCGGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 8 0.23
20 2 0.06
21 18 0.51
23 7 0.20
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTAAAATATTTTTAAAAT
Found at i:27096043 original size:51 final size:51
Alignment explanation
Indices: 27095948--27096051 Score: 158
Period size: 51 Copynumber: 2.0 Consensus size: 51
27095938 ATTTTTTTTA
*
27095948 ATTTTAAAATATTTTTAAAATACTTTTTTTAAAATTTTTTAA-TTTTAAAAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTT-AAATTTTTAAATTTTTAAAAT
27095999 ATTTTAAAATATTTTTAAAATACTTTTTTT-AATTTTTAAAAATTTTTAAAAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTT--AAATTTTTAAAAT
27096051 A
1 A
27096052 AAACCGGGCC
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
49 7 0.14
51 32 0.65
52 10 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (51 bp):
ATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTAAATTTTTAAAAT
Found at i:27096310 original size:22 final size:22
Alignment explanation
Indices: 27096282--27096324 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27096272 AACTTAATAC
*
27096282 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
27096304 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
27096325 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:27098683 original size:19 final size:20
Alignment explanation
Indices: 27098636--27098684 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
27098626 TGTCAGTACT
* * *
27098636 ATGAATAGTGGGGTCAAGTC
1 ATGAACAGTGGAGTCAAATC
27098656 ATGAACAGTGGAGTCAAATC
1 ATGAACAGTGGAGTCAAATC
27098676 AT-AACAGTG
1 ATGAACAGTG
27098685 ATAATATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (20 bp):
ATGAACAGTGGAGTCAAATC
Found at i:27105043 original size:70 final size:70
Alignment explanation
Indices: 27104596--27105079 Score: 491
Period size: 70 Copynumber: 6.9 Consensus size: 70
27104586 TCCCTTTCAA
* * * **
27104596 AAAATAGGTAGCGCGAGCTCAAGCTCCCAATTGTAACCTTAAGGCTCGTAGGTTCAATATTGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
27104661 CCCCC
66 CCCCC
* * * * * * * *
27104666 AAAATAGTTAACGCGAACTCAAGCTCCCAATTGTAACCTTATGACTTGCAGGTTCAATACCGTAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
27104731 CCCCC
66 CCCCC
* * * * ** *
27104736 AAAATAGTTAGCGCGAGCTCAAGCTCACAATTGTAGCTTTAAGGCTCTCATGTTCAATACTACAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
* *
27104801 CCTCT
66 CCCCC
* * * * * * *
27104806 AAAATAGTTAGTGCAAGCTCAAGCTCTCAACTATAACTGTAAGGCTCGCGGGTTCAATACCGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
27104871 CCCCC
66 CCCCC
* ** * * * * * *
27104876 AAAATAGTTAGTGTAAGCTCAAGCTCCCAGTTGTAGCTTTAAGGCTCTCAGGTTTAATACTGCAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
27104941 CCCCC
66 CCCCC
* * * * * *
27104946 AAAAGAGTTAGCGTGAGCTCAATCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATACCGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
27105011 CCCCC
66 CCCCC
* * * * * * * * *
27105016 AAAATAGTTAGCGTGAGCTCAAGCTCCTAACTATAGCTTTAAGGTTTGTAGGTTTAATACCGCA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCA
27105080 GTCTCCAAAG
Statistics
Matches: 339, Mismatches: 75, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
70 339 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (70 bp):
AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
CCCCC
Found at i:27105095 original size:140 final size:140
Alignment explanation
Indices: 27104596--27105059 Score: 563
Period size: 140 Copynumber: 3.3 Consensus size: 140
27104586 TCCCTTTCAA
* * * *
27104596 AAAATAGGTAGCGCGAGCTCAAGCTCCCAATTGTAACCTTAAGGCTCGT-AGGTTCAATATTGCA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGGCTC-TCAGGTTCAATACTGCA
* * * * * * * *
27104660 ACCCCCAAAATAGTTAACGCGAACTCAAGCTCCCAATTGTAACCTTATGACTTGCAGGTTCAATA
65 GCCCCCAAAATAGTTAGCGCGAGCTCAAGCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATA
* *
27104725 CCGTAGCCCCC
130 CCGCAACCCCC
* * *
27104736 AAAATAGTTAGCGCGAGCTCAAGCTCACAATTGTAGCTTTAAGGCTCTCATGTTCAATACTACAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGGCTCTCAGGTTCAATACTGCAG
* * * * * * * *
27104801 CCTCTAAAATAGTTAGTGCAAGCTCAAGCT-CTCAACTATAACTGTAAGGCTCGCGGGTTCAATA
66 CCCCCAAAATAGTTAGCGCGAGCTCAAGCTCCT-AACTGTAACTTTAAGACTCGCAGGTTCAATA
27104865 CCGCAACCCCC
130 CCGCAACCCCC
* ** * *
27104876 AAAATAGTTAGTGTAAGCTCAAGCTCCCAGTTGTAGCTTTAAGGCTCTCAGGTTTAATACTGCAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGGCTCTCAGGTTCAATACTGCAG
* * *
27104941 CCCCCAAAAGAGTTAGCGTGAGCTCAATCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATAC
66 CCCCCAAAATAGTTAGCGCGAGCTCAAGCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATAC
27105006 CGCAACCCCC
131 CGCAACCCCC
* * * *
27105016 AAAATAGTTAGCGTGAGCTCAAGCTCCTAACTATAGCTTTAAGG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGG
27105060 TTTGTAGGTT
Statistics
Matches: 271, Mismatches: 50, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
139 2 0.01
140 267 0.99
141 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (140 bp):
AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAGCTTTAAGGCTCTCAGGTTCAATACTGCAG
CCCCCAAAATAGTTAGCGCGAGCTCAAGCTCCTAACTGTAACTTTAAGACTCGCAGGTTCAATAC
CGCAACCCCC
Found at i:27108308 original size:24 final size:26
Alignment explanation
Indices: 27108281--27108335 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
27108271 ATAATTGGAG
*
27108281 TAAAAAC-AATA-ACAAACCTGATTA
1 TAAAAACAAATAGACAAACATGATTA
* *
27108305 T-AAAACAAATAGACACATATGATTA
1 TAAAAACAAATAGACAAACATGATTA
27108330 TAAAAA
1 TAAAAA
27108336 GAATCTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 5 0.20
24 5 0.20
25 11 0.44
26 4 0.16
ACGTcount: A:0.60, C:0.13, G:0.05, T:0.22
Consensus pattern (26 bp):
TAAAAACAAATAGACAAACATGATTA
Found at i:27114590 original size:3 final size:3
Alignment explanation
Indices: 27114582--27114622 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
27114572 CGCTACCCCT
* *
27114582 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCT TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
27114623 TGCTTCTGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.34, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:27117739 original size:17 final size:16
Alignment explanation
Indices: 27117718--27117760 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
27117708 TCTTTTTTAG
*
27117718 CTTTTTTTATGCCTTT
1 CTTTTTTTTTGCCTTT
* *
27117734 CTTTTTCTTTTTCTTTT
1 CTTTTT-TTTTGCCTTT
27117751 CTTTTTTTTT
1 CTTTTTTTTT
27117761 TTAGTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (16 bp):
CTTTTTTTTTGCCTTT
Found at i:27124015 original size:15 final size:15
Alignment explanation
Indices: 27123991--27124039 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
27123981 ATTAATTGTG
*
27123991 ATTAATTTTTAGTTA
1 ATTAAATTTTAGTTA
*
27124006 ATTAAATTTTAATTA
1 ATTAAATTTTAGTTA
* *
27124021 ATTTAA-TTAAGTTA
1 ATTAAATTTTAGTTA
27124035 ATTAA
1 ATTAA
27124040 GTAATTAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
ATTAAATTTTAGTTA
Found at i:27124027 original size:9 final size:9
Alignment explanation
Indices: 27123977--27124039 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
27123967 TTCCGCTAAT
27123977 TTTAATTAA
1 TTTAATTAA
*
27123986 TTGTGATTAA
1 TT-TAATTAA
27123996 TTT--TT-A
1 TTTAATTAA
*
27124002 GTTAATTAAA
1 TTTAATT-AA
27124012 TTTTAATTAA
1 -TTTAATTAA
27124022 TTTAATTAA
1 TTTAATTAA
*
27124031 GTTAATTAA
1 TTTAATTAA
27124040 GTAATTAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
6 3 0.07
7 2 0.05
8 2 0.05
9 20 0.45
10 11 0.25
11 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (9 bp):
TTTAATTAA
Found at i:27124040 original size:9 final size:9
Alignment explanation
Indices: 27124014--27124047 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
27124004 TAATTAAATT
*
27124014 TTAATTAAT
1 TTAATTAAG
27124023 TTAATTAAG
1 TTAATTAAG
27124032 TTAATTAAG
1 TTAATTAAG
27124041 -TAATTAA
1 TTAATTAA
27124048 AGATTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (9 bp):
TTAATTAAG
Found at i:27124960 original size:28 final size:28
Alignment explanation
Indices: 27124920--27124975 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
27124910 GATTAACATG
27124920 CCAATAAGGTTCTGTGTGGGCTTGTATA
1 CCAATAAGGTTCTGTGTGGGCTTGTATA
27124948 CCAATAAGGTTCTGTGTGGGCTTGTATA
1 CCAATAAGGTTCTGTGTGGGCTTGTATA
27124976 GGATTGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (28 bp):
CCAATAAGGTTCTGTGTGGGCTTGTATA
Found at i:27127966 original size:18 final size:19
Alignment explanation
Indices: 27127939--27127976 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
27127929 TGAAATGCAA
*
27127939 TAAAACAAAATTTTC-TTT
1 TAAAAAAAAATTTTCATTT
27127957 TAAAAAAAAATTTTCATTT
1 TAAAAAAAAATTTTCATTT
27127976 T
1 T
27127977 TCATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAAAAAATTTTCATTT
Found at i:27131904 original size:17 final size:17
Alignment explanation
Indices: 27131884--27131935 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
27131874 GGCAAGCACC
27131884 AACAGAGAAAAAACAAA
1 AACAGAGAAAAAACAAA
*
27131901 AACAGAGCAAAATAA-AGA
1 AACAGAG-AAAA-AACAAA
*
27131919 AACAAAGAAACAAACAA
1 AACAGAGAAA-AAACAA
27131936 TCAAATGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 12 0.43
18 14 0.50
19 2 0.07
ACGTcount: A:0.73, C:0.13, G:0.12, T:0.02
Consensus pattern (17 bp):
AACAGAGAAAAAACAAA
Found at i:27141869 original size:44 final size:46
Alignment explanation
Indices: 27141821--27141934 Score: 118
Period size: 45 Copynumber: 2.7 Consensus size: 46
27141811 AGTTTTTTCC
*
27141821 ATTATGCTATTACACCTCTATTCCATT-CAACCAAAC--ACA-AT-
1 ATTATGCTATTACACCTCTATTCCATTACAACCAAACAAACAGTTG
** ** *
27141862 ATTAT--TATTATGCCTCTATTCCATTACATTCAACCAAACAGTTG
1 ATTATGCTATTACACCTCTATTCCATTACAACCAAACAAACAGTTG
27141906 ATT-TGCTATTACACCTCTATTCCATTACA
1 ATTATGCTATTACACCTCTATTCCATTACA
27141935 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
39 18 0.31
40 6 0.10
41 5 0.09
42 3 0.05
43 2 0.03
44 3 0.05
45 21 0.36
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.37
Consensus pattern (46 bp):
ATTATGCTATTACACCTCTATTCCATTACAACCAAACAAACAGTTG
Found at i:27141934 original size:16 final size:16
Alignment explanation
Indices: 27141913--27141950 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27141903 TTGATTTGCT
*
27141913 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
27141929 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
27141945 AATACA
1 ATTACA
27141951 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:27142636 original size:23 final size:25
Alignment explanation
Indices: 27142604--27142665 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 25
27142594 TTTTAGTCAC
27142604 TATTATTAAATATGTTTAT-TAATT-T
1 TATTA-TAAATATGTTT-TGTAATTGT
* *
27142629 T-TTATAAATATCTTTTGTATTTGT
1 TATTATAAATATGTTTTGTAATTGT
27142653 TATTATAAATATG
1 TATTATAAATATG
27142666 GTATGTTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 14 0.45
24 5 0.16
25 11 0.35
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (25 bp):
TATTATAAATATGTTTTGTAATTGT
Found at i:27144398 original size:40 final size:40
Alignment explanation
Indices: 27144345--27144421 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
27144335 AAGTCAGAGA
* * *
27144345 ACGTGTCAGCAAATCGCGTCCACGTCAGAGCGCTTTGCTG
1 ACGTGGCAACAAATCGCGTCCACGTAAGAGCGCTTTGCTG
* *
27144385 ACGTGGCAACAAATCGCGTCCATGTAAGCGCGCTTTG
1 ACGTGGCAACAAATCGCGTCCACGTAAGAGCGCTTTG
27144422 TTGCAGCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (40 bp):
ACGTGGCAACAAATCGCGTCCACGTAAGAGCGCTTTGCTG
Found at i:27144986 original size:127 final size:127
Alignment explanation
Indices: 27144675--27145249 Score: 888
Period size: 127 Copynumber: 4.5 Consensus size: 127
27144665 AAGATAAAAA
* * * * * *
27144675 TCAACGCAGGATGCTTTATCAGAAGAATTTCT-AAAGCCGCGCCCACGTGTACGCGTTTTTGCTA
1 TCAA-GCAGGATGCTTTATGAGAAGAATTTGTGAAA-TCGCGCCCTCGTGGACGCGCTTTTGCTA
* * * *
27144739 CAGTAGATCTTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAATAT-AAAAAACGCT
64 CAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
27144802 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
1 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
27144867 GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
66 GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
* * * *
27144929 TCAAGCAAGATGTTTTATGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGTGCTTTTGCTACA
1 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
*
27144994 GCAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
66 GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
*
27145056 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACA
1 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
* * * * *
27145121 GTAGGTCCTGGAAAAAATAATTTCAACTTGACGTTTCTGAGAAAATAG--TATAAAAATGCT
66 GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
* * *
27145181 TCAAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATA
1 TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
27145246 GTAG
66 GTAG
27145250 CATGTTTGGG
Statistics
Matches: 416, Mismatches: 30, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
125 75 0.18
126 98 0.24
127 243 0.58
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (127 bp):
TCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
GTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCT
Found at i:27146014 original size:20 final size:20
Alignment explanation
Indices: 27145977--27146014 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27145967 ATTATTTTTA
*
27145977 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
27145997 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
27146015 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:27146994 original size:11 final size:11
Alignment explanation
Indices: 27146980--27147079 Score: 50
Period size: 11 Copynumber: 9.4 Consensus size: 11
27146970 GAGAAATTTA
27146980 AGAGGAAATTG
1 AGAGGAAATTG
*
27146991 AGAGCAAATTG
1 AGAGGAAATTG
**
27147002 AGATTAAA-T-
1 AGAGGAAATTG
* *
27147011 A-TGG-ATTTG
1 AGAGGAAATTG
27147020 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
27147031 -GAAGGAATTTG
1 AG-AGGAAATTG
* * *
27147042 AGAGCAATTTA
1 AGAGGAAATTG
27147053 AGAGGAAATTG
1 AGAGGAAATTG
27147064 AGAGGAAATTTG
1 AGAGGAAA-TTG
27147076 AGAG
1 AGAG
27147080 AGGATTAGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 46 0.71
12 11 0.17
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.25
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:27147040 original size:22 final size:23
Alignment explanation
Indices: 27147015--27147083 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
27147005 TTAAATATGG
*
27147015 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGAAGAGGA
*
27147037 ATTTGAGAGCAATTT-AAGAGGA
1 ATTTGAGAGAAATTTGAAGAGGA
*
27147059 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTGA-AGAGGA
27147084 TTAGTTTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 25 0.64
23 6 0.15
24 1 0.03
25 6 0.15
ACGTcount: A:0.42, C:0.01, G:0.32, T:0.25
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGAAGAGGA
Found at i:27149321 original size:18 final size:18
Alignment explanation
Indices: 27149298--27149333 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27149288 TAAAAATAAA
27149298 TATATTATTAGGAGATAT
1 TATATTATTAGGAGATAT
*
27149316 TATATTATTATGAGATAT
1 TATATTATTAGGAGATAT
27149334 AATCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (18 bp):
TATATTATTAGGAGATAT
Found at i:27153099 original size:18 final size:18
Alignment explanation
Indices: 27153076--27153111 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27153066 TGAAGGTGAT
27153076 CATATTAATCATTAAGAA
1 CATATTAATCATTAAGAA
27153094 CATATTAATCATTAAGAA
1 CATATTAATCATTAAGAA
27153112 GACACGGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
CATATTAATCATTAAGAA
Found at i:27154103 original size:12 final size:12
Alignment explanation
Indices: 27154074--27154172 Score: 54
Period size: 12 Copynumber: 8.6 Consensus size: 12
27154064 TTATTTTAAT
27154074 ATATTTAATTTTA
1 ATATTTAA-TTTA
27154087 A-ATTTAATTTA
1 ATATTTAATTTA
27154098 ATATTT-ATCTTA
1 ATATTTAAT-TTA
*
27154110 ATA-GT-ATTT-
1 ATATTTAATTTA
27154119 -TA-TTAATTTA
1 ATATTTAATTTA
**
27154129 ATA-TTAAAGTA
1 ATATTTAATTTA
27154140 ATTATCTTAATATTA
1 A-TAT-TTAAT-TTA
*
27154155 A-ATTTAATATA
1 ATATTTAATTTA
27154166 ATATTTA
1 ATATTTA
27154173 TCTTGTAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 2 0.03
11 22 0.32
12 28 0.41
13 3 0.04
14 4 0.06
15 3 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (12 bp):
ATATTTAATTTA
Found at i:27154168 original size:68 final size:72
Alignment explanation
Indices: 27154070--27154203 Score: 188
Period size: 68 Copynumber: 1.9 Consensus size: 72
27154060 AATATTATTT
* * * *
27154070 TAATATATTTAATTTTAAATTTAATTTAATATTTATC-T-TA-AT-AGTATTTTATTAATTTAAT
1 TAATATATTTAATATTAAATTTAATATAATATTTATCTTGTAGATAAATATTCTATTAATTTAAT
27154131 ATTAAAG
66 ATTAAAG
27154138 TAAT-TATCTTAATATTAAATTTAATATAATATTTATCTTGTAGATAAATATTCTATTAATTTAA
1 TAATATAT-TTAATATTAAATTTAATATAATATTTATCTTGTAGATAAATATTCTATTAATTTAA
27154202 TA
65 TA
27154204 AATTTAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
67 3 0.05
68 31 0.54
69 1 0.02
70 2 0.04
71 2 0.04
72 18 0.32
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (72 bp):
TAATATATTTAATATTAAATTTAATATAATATTTATCTTGTAGATAAATATTCTATTAATTTAAT
ATTAAAG
Found at i:27161447 original size:43 final size:44
Alignment explanation
Indices: 27161386--27161503 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 44
27161376 ACAAGCACAG
* *
27161386 AAAAAA-GCCACTATAGAACATGATCTTTAGCGACAATTTTA-T-
1 AAAAAACGCCACTAAAGAACATGATCTTTAGCGAC-ACTTTACTC
* * * *
27161428 AAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACTC
1 AAAAAACGCCACTAAAGAACATGATCTTTAGCGACACTTTACTC
* *
27161472 ACAAATC-CCACTAAAGAACATGATCTTTAGCG
1 AAAAAACGCCACTAAAGAACATGATCTTTAGCG
27161504 GCGCTTTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 10 0.16
43 48 0.76
44 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (44 bp):
AAAAAACGCCACTAAAGAACATGATCTTTAGCGACACTTTACTC
Found at i:27161529 original size:43 final size:43
Alignment explanation
Indices: 27161400--27161537 Score: 154
Period size: 43 Copynumber: 3.2 Consensus size: 43
27161390 AAGCCACTAT
* ** * *
27161400 AGAACATGATCTTTAGCGACAATTTTATAAAAAACGCCGCTAA
1 AGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
* *
27161443 AGAACATGACCTTTAGCGGCGC-TTTACTCACAAATC-CCACTAA
1 AGAACATGATCTTTAGCGGCGCTTTTA-TCACAAA-CGCCGCTAA
* *
27161486 AGAACATGATCTTTAGCGGCGCTTTTTTCACAAACGCTGCTAA
1 AGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
*
27161529 AGAGCATGA
1 AGAACATGA
27161538 CCTGTGTTTG
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 5 0.06
43 70 0.89
44 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (43 bp):
AGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
Found at i:27163576 original size:21 final size:21
Alignment explanation
Indices: 27163550--27163595 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
27163540 GCATGTAAAA
27163550 AAACCAGATCAATACTAAGCT
1 AAACCAGATCAATACTAAGCT
27163571 AAACCAGATCAATACTAAGCT
1 AAACCAGATCAATACTAAGCT
27163592 AAAC
1 AAAC
27163596 ATATATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.17
Consensus pattern (21 bp):
AAACCAGATCAATACTAAGCT
Found at i:27165794 original size:21 final size:21
Alignment explanation
Indices: 27165770--27165819 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
27165760 CTCTATCACC
27165770 TAAACCCTAAAT-CATAAACTA
1 TAAACCCT-AATCCATAAACTA
* *
27165791 TAAACCCCTAATCCCTAAACTT
1 TAAA-CCCTAATCCATAAACTA
27165813 TAAACCC
1 TAAACCC
27165820 CAACCCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCCTAATCCATAAACTA
Found at i:27165881 original size:21 final size:21
Alignment explanation
Indices: 27165856--27165899 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
27165846 ATAATCCCTA
27165856 AACCTTAAAATAGTAACTCCT
1 AACCTTAAAATAGTAACTCCT
27165877 AACCTTAAAATAGTAACTCCT
1 AACCTTAAAATAGTAACTCCT
27165898 AA
1 AA
27165900 ACTTTAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.27
Consensus pattern (21 bp):
AACCTTAAAATAGTAACTCCT
Found at i:27165912 original size:14 final size:14
Alignment explanation
Indices: 27165895--27165934 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
27165885 AATAGTAACT
*
27165895 CCTAAACTTTAAAC
1 CCTAAACTATAAAC
* *
27165909 CCTAAACCATATAC
1 CCTAAACTATAAAC
27165923 CCTAAACTATAA
1 CCTAAACTATAA
27165935 TGATAATTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (14 bp):
CCTAAACTATAAAC
Found at i:27166362 original size:40 final size:40
Alignment explanation
Indices: 27166318--27166421 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
27166308 TTTTTCGGTG
* * * *
27166318 TTTTTTAAAAAGCGCCGCTAATGGTCGACCTATAGTGGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCA
* *
27166358 TTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCA
27166398 TTTTTCAAAAAGCGCCGCTAATGC
1 TTTTTCAAAAAGCGCCGCTAATGC
27166422 CACTAAAGCG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCA
Found at i:27166504 original size:41 final size:40
Alignment explanation
Indices: 27166458--27166556 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
27166448 GCGGTGCTTT
*
27166458 CTAATGGTCGACCTATAGCTTCGT-TTTTTCAAAAAGCGCCG
1 CTAATGGTCGACCTATA--ATCGTGTTTTTCAAAAAGCGCCG
* * * *
27166499 TTAATGGTCGACTTATAATGGTGTTTTTCAAAAAGCGCTG
1 CTAATGGTCGACCTATAATCGTGTTTTTCAAAAAGCGCCG
* *
27166539 CTAATGCTCGATCTATAA
1 CTAATGGTCGACCTATAA
27166557 ACGCCGCTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.06
40 30 0.62
41 15 0.31
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (40 bp):
CTAATGGTCGACCTATAATCGTGTTTTTCAAAAAGCGCCG
Found at i:27169017 original size:68 final size:68
Alignment explanation
Indices: 27168908--27169174 Score: 345
Period size: 68 Copynumber: 3.9 Consensus size: 68
27168898 GGGCTTCCTA
* * * *
27168908 GTTTACTGTCCTAGCAGACTTTGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
27168973 CAT
66 CAT
* * * * *
27168976 GTTTACTATCCTGGTAGACTTCGTATGTTGCCATAGCCCAACTATTGTCTTACACATTATGATAT
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
27169041 CAT
66 CAT
* * **
27169044 GTTTACTGTCCTAACGGACTTCGTATGTTTTCATAGCCCAACTATGGTCTTACACATTATGATCT
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
*
27169109 TAT
66 CAT
* * * * * * *
27169112 GTTTAATGTCCTGGCGGACTTCGTATGTTGCCATAGTCTAGCTATGGTCTTAAACATTATGAT
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGAT
27169175 GACATGTACC
Statistics
Matches: 171, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 171 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (68 bp):
GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
CAT
Found at i:27169181 original size:136 final size:136
Alignment explanation
Indices: 27168908--27169174 Score: 381
Period size: 136 Copynumber: 2.0 Consensus size: 136
27168898 GGGCTTCCTA
* *
27168908 GTTTACTGTCCTAGCAGACTTTGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
1 GTTTACTGTCCTAACAGACTTCGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
* * * *
27168973 CATGTTTACTATCCTGGTAGACTTCGTATGTTGCCATAGCCCAACTATTGTCTTACACATTATGA
66 CATGTTTAATATCCTGGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTAAACATTATGA
27169038 TATCAT
131 TATCAT
* ** * *
27169044 GTTTACTGTCCTAACGGACTTCGTATGTTTTCATAGCCCAACTATGGTCTTACACATTATGATCT
1 GTTTACTGTCCTAACAGACTTCGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
* * * * * *
27169109 TATGTTTAATGTCCTGGCGGACTTCGTATGTTGCCATAGTCTAGCTATGGTCTTAAACATTATGA
66 CATGTTTAATATCCTGGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTAAACATTATGA
27169174 T
131 T
27169175 GACATGTACC
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
136 114 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (136 bp):
GTTTACTGTCCTAACAGACTTCGTATGTTCCCATAGCCCAACTATGGTCTTACACATTATAATCC
CATGTTTAATATCCTGGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTAAACATTATGA
TATCAT
Found at i:27175423 original size:14 final size:14
Alignment explanation
Indices: 27175400--27175438 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27175390 TTAAATTTAT
27175400 TTAAAATAAAAATA
1 TTAAAATAAAAATA
*
27175414 TTAAATTAAAAATA
1 TTAAAATAAAAATA
27175428 --AAAATAAAAAT
1 TTAAAATAAAAAT
27175439 TATCATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TTAAAATAAAAATA
Found at i:27175459 original size:27 final size:26
Alignment explanation
Indices: 27175388--27175460 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
27175378 GTCATATAGC
*
27175388 AATTAAATTTATTTAAAATAAAAATATTA
1 AATTAAA--TATTT-AAATAAAAATATCA
* **
27175417 AATTAAAAATAAAAATAAAAATTATCA
1 AATTAAATATTTAAATAAAAA-TATCA
*
27175444 TATTAAATATTTAAATA
1 AATTAAATATTTAAATA
27175461 TTAAAAATAC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 9 0.26
27 19 0.54
29 7 0.20
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (26 bp):
AATTAAATATTTAAATAAAAATATCA
Found at i:27175699 original size:19 final size:20
Alignment explanation
Indices: 27175677--27175733 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
27175667 ATTCTAAAAC
27175677 TTAAAAAAAAT-TAAAAATT
1 TTAAAAAAAATATAAAAATT
*
27175696 TTAAAAAATATATAAAAA-T
1 TTAAAAAAAATATAAAAATT
* *
27175715 TGAAAAAAAGTTATAAAAA
1 TTAAAAAAA-ATATAAAAA
27175734 ACGAAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
TTAAAAAAAATATAAAAATT
Found at i:27175711 original size:20 final size:20
Alignment explanation
Indices: 27175677--27175733 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
27175667 ATTCTAAAAC
*
27175677 TTAAAAAAAAT-TAAAAATT
1 TTAAAAAATATATAAAAATT
27175696 TTAAAAAATATATAAAAATT
1 TTAAAAAATATATAAAAATT
**
27175716 GAAAAAAAGT-TATAAAAA
1 TTAAAAAA-TATATAAAAA
27175734 ACGAAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.30
20 22 0.67
21 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
TTAAAAAATATATAAAAATT
Found at i:27175825 original size:15 final size:16
Alignment explanation
Indices: 27175788--27175826 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
27175778 AATTTAATTT
*
27175788 TTTTATAATTTTAGAA
1 TTTTATAATTTGAGAA
*
27175804 TTATATAATTTGA-AA
1 TTTTATAATTTGAGAA
27175819 TTTTATAA
1 TTTTATAA
27175827 AAAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
TTTTATAATTTGAGAA
Found at i:27175843 original size:21 final size:22
Alignment explanation
Indices: 27175818--27175886 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
27175808 ATAATTTGAA
27175818 ATTTTATAAAA-AATATTTTTAC
1 ATTTT-TAAAATAATATTTTTAC
* * *
27175840 TTTTTTAAAATACTTTTTTTAC
1 ATTTTTAAAATAATATTTTTAC
*
27175862 ATTTTTAAAATAATATTATTA-
1 ATTTTTAAAATAATATTTTTAC
27175883 ATTT
1 ATTT
27175887 CAAATAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 9 0.23
22 30 0.77
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTTAAAATAATATTTTTAC
Found at i:27175961 original size:19 final size:19
Alignment explanation
Indices: 27175948--27175991 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
27175938 TTTTTATGTG
*
27175948 TTTTTTTAGATTTTATATA
1 TTTTTTCAGATTTTATATA
*
27175967 TTTTTTCAGAATTTATAATA
1 TTTTTTCAGATTTTAT-ATA
27175987 TTTTT
1 TTTTT
27175992 ATGTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTCAGATTTTATATA
Found at i:27175971 original size:20 final size:20
Alignment explanation
Indices: 27175929--27175991 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
27175919 GTTAATTTTA
* * *
27175929 TTTTTATATTTTTTATGTGTT
1 TTTTTAGATTTTATATAT-TT
27175950 TTTTTAGATTTTATATA-TT
1 TTTTTAGATTTTATATATTT
* *
27175969 TTTTCAGAATTTATAATATTT
1 TTTTTAGATTTTAT-ATATTT
27175990 TT
1 TT
27175992 ATGTTTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 14 0.40
20 3 0.09
21 18 0.51
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTTTAGATTTTATATATTT
Found at i:27177014 original size:14 final size:13
Alignment explanation
Indices: 27176974--27177026 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
27176964 TCAAAATGAA
27176974 TAATTAATTTAATT
1 TAATT-ATTTAATT
27176988 TAATT-TTTGAATT
1 TAATTATTT-AATT
27177001 TCAATTATTTAATT
1 T-AATTATTTAATT
*
27177015 GTAATTAATTAA
1 -TAATTATTTAA
27177027 ATAAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 3 0.09
13 5 0.15
14 22 0.65
15 4 0.12
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (13 bp):
TAATTATTTAATT
Found at i:27178454 original size:20 final size:20
Alignment explanation
Indices: 27178429--27178482 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
27178419 ATTACTCTAC
* *
27178429 TATTATAGTATATGATATAG
1 TATTATAGTATATGAAATAA
27178449 TATTATA-TATAATGAAATAA
1 TATTATAGTAT-ATGAAATAA
*
27178469 TATGTTTAGTATAT
1 TAT-TATAGTATAT
27178483 TAAAATGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.11
20 17 0.61
21 5 0.18
22 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (20 bp):
TATTATAGTATATGAAATAA
Found at i:27178896 original size:5 final size:5
Alignment explanation
Indices: 27178803--27178881 Score: 158
Period size: 5 Copynumber: 15.8 Consensus size: 5
27178793 TTCAATTGCC
27178803 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
27178853 AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATA
27178882 ATGAACAATA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 74 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:27184495 original size:18 final size:18
Alignment explanation
Indices: 27184472--27184509 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27184462 ATACTTAATC
*
27184472 ATGCAAATTAACATGAAT
1 ATGCAAATAAACATGAAT
*
27184490 ATGCAAATAAACATGTAT
1 ATGCAAATAAACATGAAT
27184508 AT
1 AT
27184510 TGATCTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
ATGCAAATAAACATGAAT
Found at i:27186396 original size:30 final size:31
Alignment explanation
Indices: 27186360--27186444 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
27186350 GAGTGAATAA
* *
27186360 GTTGCTCACACAAGCTAACATTATAT-CAGG
1 GTTGCTCACACAAGCTGACATTATATAAAGG
* * *
27186390 GTTGCTCACATAAGTTGACATTATGTAAAGG
1 GTTGCTCACACAAGCTGACATTATATAAAGG
*
27186421 TTTG-TCACACAAGCTGAC-TTATAT
1 GTTGCTCACACAAGCTGACATTATAT
27186445 TAGGTTACCC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 5 0.11
30 34 0.76
31 6 0.13
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (31 bp):
GTTGCTCACACAAGCTGACATTATATAAAGG
Found at i:27190010 original size:19 final size:19
Alignment explanation
Indices: 27189963--27190010 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
27189953 ATTTTGGGCA
27189963 TTTGGTTTTGGATCGTGTT
1 TTTGGTTTTGGATCGTGTT
** *
27189982 TTTGAATTTGGTTC-TGTT
1 TTTGGTTTTGGATCGTGTT
27190000 TTTGGGTTTTG
1 TTT-GGTTTTG
27190011 ATTTGTTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.06, C:0.04, G:0.29, T:0.60
Consensus pattern (19 bp):
TTTGGTTTTGGATCGTGTT
Found at i:27192814 original size:47 final size:47
Alignment explanation
Indices: 27192732--27193041 Score: 467
Period size: 47 Copynumber: 6.6 Consensus size: 47
27192722 TTAAACCCAT
*
27192732 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27192781 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27192828 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
27192875 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
27192922 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
27192969 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
27193016 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
27193042 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 233 0.95
49 11 0.05
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:27195197 original size:42 final size:43
Alignment explanation
Indices: 27195054--27195195 Score: 259
Period size: 43 Copynumber: 3.3 Consensus size: 43
27195044 TTGGTTTTCA
*
27195054 GCACTAAGTGTGCGAGCAATAAGTGTTCAAGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
27195097 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
*
27195140 GCACTAAGTGTGCG-GGAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
27195182 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27195196 GGTTGTGAGA
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
42 41 0.42
43 56 0.58
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:27195202 original size:27 final size:27
Alignment explanation
Indices: 27195169--27195224 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
27195159 AAGTGTTCAC
27195169 GGTTGTGAGATTGGCACTAAGTGTGCG
1 GGTTGTGAGATTGGCACTAAGTGTGCG
27195196 GGTTGTGAGATTGGCACTAAGTGTGCG
1 GGTTGTGAGATTGGCACTAAGTGTGCG
27195223 GG
1 GG
27195225 CAATAAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.11, G:0.43, T:0.29
Consensus pattern (27 bp):
GGTTGTGAGATTGGCACTAAGTGTGCG
Found at i:27195242 original size:70 final size:69
Alignment explanation
Indices: 27195127--27195294 Score: 275
Period size: 70 Copynumber: 2.4 Consensus size: 69
27195117 AAGTGTTCAC
27195127 GGTTGTGAGATTGGCACTAAGTGTGCGGGAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTG
1 GGTTGTGAGATTGGCACTAAGTGTGCGGGAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTG
27195192 TGCG
66 TGCG
27195196 GGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGT
1 GGTTGTGAGATTGGCACTAAGTGTGCGGG-AATAAGTGTTCACGGTTGTGAGATTGGCACTAAGT
27195261 GTGCG
65 GTGCG
* *
27195266 GGCT-TGAAATGCATGGCACTAAGTGTGCG
1 GGTTGTGAGAT---TGGCACTAAGTGTGCG
27195295 AGTTTAAAGT
Statistics
Matches: 93, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
69 34 0.37
70 43 0.46
72 16 0.17
ACGTcount: A:0.22, C:0.13, G:0.37, T:0.28
Consensus pattern (69 bp):
GGTTGTGAGATTGGCACTAAGTGTGCGGGAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTG
TGCG
Found at i:27195285 original size:29 final size:29
Alignment explanation
Indices: 27195250--27195323 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
27195240 GTTGTGAGAT
* *
27195250 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
27195279 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
27195308 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27195324 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:27195856 original size:39 final size:39
Alignment explanation
Indices: 27195716--27195872 Score: 131
Period size: 40 Copynumber: 4.0 Consensus size: 39
27195706 TGCAAGTTGA
* *
27195716 TATATCCGGGCTAAGACCCGAAG-GCATTGGTGC-GAGTT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTG-GTT
* * * * *
27195754 ACTAAATCCGGGCTAAATTCCGAAGAGCATTCGTACTAG-T
1 --TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTT
* * *
27195794 GAGGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTT
1 TA--TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTT
* * *
27195835 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
27195873 GACATGTATT
Statistics
Matches: 93, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.33
40 50 0.54
41 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTT
Found at i:27198764 original size:47 final size:47
Alignment explanation
Indices: 27198682--27198944 Score: 391
Period size: 47 Copynumber: 5.6 Consensus size: 47
27198672 TTAAACCCAT
27198682 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
27198731 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGA
27198778 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGA
** *
27198825 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCTGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* * ** * * *
27198872 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* *
27198919 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
27198945 TCCCGAAGGG
Statistics
Matches: 195, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 184 0.94
49 11 0.06
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:27202076 original size:28 final size:28
Alignment explanation
Indices: 27201992--27202076 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 28
27201982 CCTTCAACGG
* * *
27201992 TTGTCTTATGT-GAAGGTCTACTAAGGG
1 TTGTCTTATGTGGAAAGTCAACTAAGGA
* * * * *
27202019 CTATCTTATGCGGAAAGTCCA-TCAATGA
1 TTGTCTTATGTGGAAAGTCAACT-AAGGA
27202047 TTGTCTTATGTGGAAAGTCAACTAAGGA
1 TTGTCTTATGTGGAAAGTCAACTAAGGA
27202075 TT
1 TT
27202077 ATCATATGCG
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
27 9 0.21
28 33 0.77
29 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (28 bp):
TTGTCTTATGTGGAAAGTCAACTAAGGA
Found at i:27202127 original size:28 final size:28
Alignment explanation
Indices: 27202019--27202145 Score: 87
Period size: 28 Copynumber: 4.5 Consensus size: 28
27202009 CTACTAAGGG
* *
27202019 CTATCTTATGCGGAAAGTCCATCAATG-A
1 CTATCTTATGTGGAAAGTCCACCAA-GAA
* * * * *
27202047 TTGTCTTATGTGGAAAGTCAACTAAGGA
1 CTATCTTATGTGGAAAGTCCACCAAGAA
* * * * * *
27202075 TTATCATATGCGGGAACTCCGCCAAGAA
1 CTATCTTATGTGGAAAGTCCACCAAGAA
27202103 CTATCTTATGTGGAAAGTCCACCAA-AGA
1 CTATCTTATGTGGAAAGTCCACCAAGA-A
* *
27202131 CTATCTCATATGGAA
1 CTATCTTATGTGGAA
27202146 TGCTTGCCAA
Statistics
Matches: 74, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
27 2 0.03
28 72 0.97
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (28 bp):
CTATCTTATGTGGAAAGTCCACCAAGAA
Found at i:27206113 original size:27 final size:26
Alignment explanation
Indices: 27206082--27206150 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
27206072 CCCACAATTT
* * *
27206082 GTAAAATAACTGTAATGCCCTTGTAGG
1 GTAAAATGACTGTAATGCCCCTATA-G
* *
27206109 GTAAAATGACCGTGATGCCCCTATAG
1 GTAAAATGACTGTAATGCCCCTATAG
27206135 GTAAAATGACTGTAAT
1 GTAAAATGACTGTAAT
27206151 ACCTTTGTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
26 15 0.43
27 20 0.57
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (26 bp):
GTAAAATGACTGTAATGCCCCTATAG
Found at i:27206172 original size:53 final size:53
Alignment explanation
Indices: 27206082--27206198 Score: 123
Period size: 53 Copynumber: 2.2 Consensus size: 53
27206072 CCCACAATTT
* * * *
27206082 GTAAAATAACTGTAATGCCCTTGTAGGGTAAAATGACCG-TGATGCCCCTATA-G
1 GTAAAATGACTGTAATACCCTTGTAGGGTAAAATGACCGAT-ATACCCC-AAAGG
* * *
27206135 GTAAAATGACTGTAATACCTTTGTTA-GGTGAATTGACCGATATACCCCAAAGG
1 GTAAAATGACTGTAATACCCTTG-TAGGGTAAAATGACCGATATACCCCAAAGG
27206188 GTAAAATGACT
1 GTAAAATGACT
27206199 ATTTTGCCCC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
52 2 0.04
53 49 0.91
54 3 0.06
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (53 bp):
GTAAAATGACTGTAATACCCTTGTAGGGTAAAATGACCGATATACCCCAAAGG
Found at i:27206275 original size:24 final size:24
Alignment explanation
Indices: 27206219--27206277 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
27206209 TCGATTTTAA
27206219 ATGACTGATTTGTCTGTGATTGGT
1 ATGACTGATTTGTCTGTGATTGGT
* *
27206243 ATAAATGATTTGTCTGTGAATT-GT
1 ATGACTGATTTGTCTGTG-ATTGGT
27206267 ATGACTGATTT
1 ATGACTGATTT
27206278 TGAGCATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.46
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGATTGGT
Found at i:27206423 original size:26 final size:26
Alignment explanation
Indices: 27206393--27206448 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
27206383 TGGCCACACA
*
27206393 TACTATTACTGGCAGCTTTGTTGTGG
1 TACTATTACTGGCAGCTTTGCTGTGG
*
27206419 TACTATTACTTGCAGCTTTGCTGTGG
1 TACTATTACTGGCAGCTTTGCTGTGG
27206445 TACT
1 TACT
27206449 GTTGCTAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.43
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGCTGTGG
Found at i:27206459 original size:26 final size:26
Alignment explanation
Indices: 27206393--27206459 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
27206383 TGGCCACACA
* *
27206393 TACTATTACTGGCAGCTTTGTTGTGG
1 TACTATTACTAGCAGCTTTGCTGTGG
*
27206419 TACTATTACTTGCAGCTTTGCTGTGG
1 TACTATTACTAGCAGCTTTGCTGTGG
* *
27206445 TACTGTTGCTAGCAG
1 TACTATTACTAGCAG
27206460 GTTTACTGCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.40
Consensus pattern (26 bp):
TACTATTACTAGCAGCTTTGCTGTGG
Found at i:27206523 original size:32 final size:32
Alignment explanation
Indices: 27206473--27206566 Score: 100
Period size: 32 Copynumber: 2.9 Consensus size: 32
27206463 TACTGCGATG
* *
27206473 CTACTAATGGCT-TGGTGCCAATCATATTACCG
1 CTACTGATGGCTGT-GTGCCAATCATATTACCA
* * * **
27206505 TTACTGTTGGCTGTGTGCCGATCATATTAATA
1 CTACTGATGGCTGTGTGCCAATCATATTACCA
*
27206537 CTACTGATGGCTTTGTGCCAATCATATTAC
1 CTACTGATGGCTGTGTGCCAATCATATTAC
27206567 TATACTTGTG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
32 48 0.98
33 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (32 bp):
CTACTGATGGCTGTGTGCCAATCATATTACCA
Found at i:27214117 original size:23 final size:23
Alignment explanation
Indices: 27214091--27214139 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
27214081 TAGCGGCTTA
27214091 ATTATATACATAAAATTTTAATT
1 ATTATATACATAAAATTTTAATT
27214114 ATTATATACATAAAATTTTAATT
1 ATTATATACATAAAATTTTAATT
27214137 ATT
1 ATT
27214140 GTTGATATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATATACATAAAATTTTAATT
Found at i:27219215 original size:18 final size:18
Alignment explanation
Indices: 27219187--27219222 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
27219177 TTTTAGCTTC
27219187 TCCCTAAAAGTTCTTTTTT
1 TCCCTAAAAGTT-TTTTTT
27219206 TCCC-AAAAGTTTTTTTT
1 TCCCTAAAAGTTTTTTTT
27219223 AGAAGCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (18 bp):
TCCCTAAAAGTTTTTTTT
Found at i:27225109 original size:27 final size:26
Alignment explanation
Indices: 27225075--27225408 Score: 380
Period size: 27 Copynumber: 12.4 Consensus size: 26
27225065 CCCTAAAATA
** *
27225075 GGTAAAATGATTGAAATATCTCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
*
27225102 GATAAAATGACCGAAATACTCCCATAG
1 GGTAAAATGACCGAAATAC-CCCATAG
*
27225129 GATAAAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
* *
27225156 GATAGAATGACCGAAATAACCCCATAG
1 GGTAAAATGACCGAAAT-ACCCCATAG
* *
27225183 GGTAGAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
* **
27225210 GGTAGAATGATAGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
*
27225237 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
** *
27225264 GGTAAAATGATAGAAATACCCCGTAG
1 GGTAAAATGACCGAAATACCCCATAG
* *
27225290 GGTAAAATGACCAAAATACCCTCACAG
1 GGTAAAATGACCGAAATACCC-CATAG
*
27225317 GGTAAAATGACCGAAATACCTTCATAG
1 GGTAAAATGACCGAAATACC-CCATAG
*
27225344 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATA-CCCCATAG
*
27225371 GGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCC-CATAG
27225398 GGTAAAATGAC
1 GGTAAAATGAC
27225409 TATTATACCC
Statistics
Matches: 271, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
26 33 0.12
27 231 0.85
28 7 0.03
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.19
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCATAG
Found at i:27228575 original size:4 final size:4
Alignment explanation
Indices: 27228537--27228617 Score: 51
Period size: 4 Copynumber: 20.2 Consensus size: 4
27228527 TCCTAATTGG
* * * * *
27228537 TTTA TTGA TTTA TTTTG TTTG TTTA -TT- TTTC TTTA TTTA TTTCT TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA
* *
27228585 GTTA TTTA TTTA TTT- TTTA TCTA TTTAA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA T
27228618 ATGGTTTATA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
3 7 0.12
4 43 0.72
5 10 0.17
ACGTcount: A:0.19, C:0.04, G:0.05, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:27235344 original size:20 final size:20
Alignment explanation
Indices: 27235319--27235362 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
27235309 AAAAGGTAAT
*
27235319 GATACTAAGC-CTACAGTACC
1 GATACTAACCTCTA-AGTACC
*
27235339 GATACTTACCTCTAAGTACC
1 GATACTAACCTCTAAGTACC
27235359 GATA
1 GATA
27235363 ACGATACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (20 bp):
GATACTAACCTCTAAGTACC
Found at i:27237652 original size:43 final size:43
Alignment explanation
Indices: 27237604--27237773 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
27237594 TTCTGTAAAA
*
27237604 AAACACCGCTAAAGAACATGATTTTTAGCGACGCTTTACCCAC
1 AAACACCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCAC
* *** * ** *
27237647 AAACACTGCTAAAGGTTATGATCTTTAGGGGAACTTTTATCACAAACGCCGC
1 AAACACCGCTAAAGAACATGATCTTTA-GCG-ACGCTT-T-----AC-CCAC
* *
27237699 TAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
1 --AAACACCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCAC
* *
27237744 AAATACCGCTAAAGAACATGACCTTTAGCG
1 AAACACCGCTAAAGAACATGATCTTTAGCG
27237774 GCACTTTTAT
Statistics
Matches: 94, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
43 49 0.52
44 2 0.02
45 7 0.07
46 3 0.03
51 3 0.03
52 6 0.06
53 2 0.02
54 22 0.23
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACACCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCAC
Found at i:27237770 original size:97 final size:97
Alignment explanation
Indices: 27237603--27237788 Score: 273
Period size: 97 Copynumber: 1.9 Consensus size: 97
27237593 TTTCTGTAAA
* * ***
27237603 AAAACACCGCTAAAGAACATGATTTTTAGCGACGCTTTACCCACAAACACTGCTAAAGGTTATGA
1 AAAACACCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACACCGCTAAAGAACATGA
* *
27237668 TCTTTAGGGGAACTTTTATCACAAACGCCGCT
66 CCTTTAGCGGAACTTTTATCACAAACGCCGCT
* * *
27237700 AAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAATACCGCTAAAGAACATGA
1 AAAACACCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACACCGCTAAAGAACATGA
*
27237765 CCTTTAGCGGCACTTTTATCACAA
66 CCTTTAGCGGAACTTTTATCACAA
27237789 CCATCGCTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 78 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (97 bp):
AAAACACCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACACCGCTAAAGAACATGA
CCTTTAGCGGAACTTTTATCACAAACGCCGCT
Found at i:27241527 original size:46 final size:46
Alignment explanation
Indices: 27241460--27241556 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
27241450 TTGACAACTC
*
27241460 TACTTCTGACTTCACCAATGCTAAACCCTAATCTGGAAACACCCAA
1 TACTTCTGACTTCACCAATGCTAAACCCTAATCTAGAAACACCCAA
*
27241506 TACTTCTGACTTCGCCAATGCTAAACCCTAATCTAGAAACACCCAA
1 TACTTCTGACTTCACCAATGCTAAACCCTAATCTAGAAACACCCAA
27241552 TACTT
1 TACTT
27241557 TAATGCCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (46 bp):
TACTTCTGACTTCACCAATGCTAAACCCTAATCTAGAAACACCCAA
Done.