Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 422 of 444
Found at i:122082337 original size:22 final size:22
Alignment explanation
Indices: 122082312--122082363 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
122082302 TGATAACTTA
*
122082312 AATAATATATAAAATATGA-AAG
1 AATAATA-AAAAAATATGAGAAG
122082334 AATAATAAAAAAATATGAGAAG
1 AATAATAAAAAAATATGAGAAG
122082356 ATATAATA
1 A-ATAATA
122082364 CACATAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 10 0.37
22 11 0.41
23 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (22 bp):
AATAATAAAAAAATATGAGAAG
Found at i:122084157 original size:16 final size:16
Alignment explanation
Indices: 122084132--122084174 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
122084122 CTTTTATTGG
122084132 TTTTTATTTTAATTTA
1 TTTTTATTTTAATTTA
* **
122084148 TTTTTGTTTTTGTTTA
1 TTTTTATTTTAATTTA
122084164 TTTTTTATTTT
1 -TTTTTATTTT
122084175 TGGTTTTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTAATTTA
Found at i:122086459 original size:23 final size:25
Alignment explanation
Indices: 122086433--122086482 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
122086423 CTAAGGAGGA
* *
122086433 CAATTTAACAATC-AAA-ATTAACT
1 CAATTAAACAAGCAAAAGATTAACT
122086456 CAATTAAACAAGCAAAAGATTAACT
1 CAATTAAACAAGCAAAAGATTAACT
122086481 CA
1 CA
122086483 CGTCAGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 3 0.13
25 9 0.39
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.24
Consensus pattern (25 bp):
CAATTAAACAAGCAAAAGATTAACT
Found at i:122090917 original size:14 final size:14
Alignment explanation
Indices: 122090907--122090933 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
122090897 AAATTTTGAT
122090907 GAATTAATTTTAGC
1 GAATTAATTTTAGC
122090921 GAATTAATTTTAG
1 GAATTAATTTTAG
122090934 TGATTGTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (14 bp):
GAATTAATTTTAGC
Found at i:122092165 original size:46 final size:48
Alignment explanation
Indices: 122092112--122092323 Score: 177
Period size: 48 Copynumber: 4.5 Consensus size: 48
122092102 TATGTGTGCT
* * *
122092112 AGTGTAAGACATGTCTGGGACATGCATTGACCAC-A-TTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATAT-ACAAGCC
* * *
122092158 AGTGTAAGACATGTCTTGGACATGCATCGGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATATACAAGCC
* * * ** * *
122092206 AGTGTAAGACATGTCTGGAACATGCATCG-GCATTGAGA-CGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCA-CGAGATATACAAGCC
* * * * *
122092252 AGTGTAAGACATTTCTAGGACATGCATCGGGCCTCGAGAT-TACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GACCACGAGATATACAAGCC
*
122092300 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
122092324 GCGTCAACTT
Statistics
Matches: 132, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
46 58 0.44
47 10 0.08
48 64 0.48
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATATACAAGCC
Found at i:122092219 original size:48 final size:47
Alignment explanation
Indices: 122092112--122092471 Score: 209
Period size: 49 Copynumber: 7.6 Consensus size: 47
122092102 TATGTGTGCT
* * * * *
122092112 AGTGTAAGACATGTCTGGGACATGCATTGACCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-AAAGCC
*
122092158 AGTGTAAGACATGTCTTGGACATGCATCGGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AAGCC
* * * ** * *
122092206 AGTGTAAGACATGTCTGGAACATGCATCGGCATTGAGA-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAGCC
* * *
122092252 AGTGTAAGACATTTCTAGGACATGCATCGGGCCTCGAGAT-TACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCCTCGAGATATA-AAGCC
* * ** * * * **
122092300 AGTGTAAGACCTGTCTGGGACATGGCGTC-AACTTGTTG-TGT---TTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG-AGATATAAAGCC
* * * * *
122092344 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGATAT-AAAGCC
* * * * * *
122092393 AGTGTAAGACCTGTCTGGGACATGGCATTGGCTTTGATATATGAAAGTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-AAAGCC
*
122092442 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
122092472 ACTTTGATGT
Statistics
Matches: 248, Mismatches: 49, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
44 28 0.11
45 3 0.01
46 59 0.24
47 16 0.06
48 67 0.27
49 75 0.30
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAGCC
Found at i:122092249 original size:94 final size:94
Alignment explanation
Indices: 122092151--122092323 Score: 276
Period size: 94 Copynumber: 1.8 Consensus size: 94
122092141 ACCACATTAT
*
122092151 GAGAGCCAGTGTAAGACATGTCTTGGACATGCATC-GGCCTCGAGATATACAAGCCAGTGTAAGA
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGGCCTCGAGAT-TACAAGCCAGTGTAAGA
122092215 CATGTCTGGAACATGCATCGGCATTGAGAC
65 CATGTCTGGAACATGCATCGGCATTGAGAC
* * *
122092245 GAGAGCTAGTGTAAGACATTTCTAGGACATGCATCGGGCCTCGAGATTACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGGCCTCGAGATTACAAGCCAGTGTAAGAC
* *
122092310 CTGTCTGGGACATG
66 ATGTCTGGAACATG
122092324 GCGTCAACTT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
94 61 0.85
95 11 0.15
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGGCCTCGAGATTACAAGCCAGTGTAAGAC
ATGTCTGGAACATGCATCGGCATTGAGAC
Found at i:122092415 original size:49 final size:49
Alignment explanation
Indices: 122092112--122092522 Score: 198
Period size: 49 Copynumber: 8.7 Consensus size: 49
122092102 TATGTGTGCT
* * *
122092112 AGTGTAAGACATGTCTGGGACAT-GCATTGAC-CAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
* * * * * *
122092158 AGTGTAAGACATGTCTTGGACAT-GCATCGGC-CTCGAGATAT-ACAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGA-GAGCC
* * * ** * *
122092206 AGTGTAAGACATGTCTGGAACAT-GCATCGGCATTG--AGACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
* * * * * * *
122092252 AGTGTAAGACATTTCTAGGACAT-GCATCGGGC-CTCG--AGATTACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACAC-CGATAGATGA-GAGCC
* * * * ***
122092300 AGTGTAAGACCTGTCTGGGACATGGCGTC-A-A-C--TTGTTGTGTTTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
122092344 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
* * *** * * *
122092393 AGTGTAAGACCTGTCTGGGACATGGCATTGGCTTTGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
*** **
122092442 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGTTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
* * *
122092489 AGTGTAAGACCATGTTTGGGAAATGGCGTCGACA
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACA
122092523 TCTTATCCCA
Statistics
Matches: 287, Mismatches: 61, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
44 28 0.10
45 4 0.01
46 61 0.21
47 28 0.10
48 79 0.28
49 87 0.30
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
Found at i:122103376 original size:23 final size:24
Alignment explanation
Indices: 122103343--122103400 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
122103333 CATCCTAGAA
122103343 AAAATACAAAATAATA-AAAATATG
1 AAAATA-AAAATAATATAAAATATG
* * *
122103367 AAATTAAAAATTATATAAATTATG
1 AAAATAAAAATAATATAAAATATG
122103391 AAAATAAAAA
1 AAAATAAAAA
122103401 ATGAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 8 0.28
24 21 0.72
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (24 bp):
AAAATAAAAATAATATAAAATATG
Found at i:122104793 original size:30 final size:30
Alignment explanation
Indices: 122104726--122104795 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
122104716 TAATTTTGAT
* * *
122104726 TATATTTTTATAATTTTTAAAGGATTAAAT
1 TATAATTTTATAATTTTTAAAGGATCAAAG
* * *
122104756 TAAAATTTTATTATTTTTAAAGGGTCAAAG
1 TATAATTTTATAATTTTTAAAGGATCAAAG
122104786 TATAATTTTA
1 TATAATTTTA
122104796 CTTTTCTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAGGATCAAAG
Found at i:122105257 original size:20 final size:20
Alignment explanation
Indices: 122105217--122105257 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
122105207 ATTAAACCTT
* * *
122105217 TTAACCGTTAAAGTTAGTTG
1 TTAACCATTAAAGATAATTG
122105237 TTAACCATTAAAGATAATTG
1 TTAACCATTAAAGATAATTG
122105257 T
1 T
122105258 CGTTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (20 bp):
TTAACCATTAAAGATAATTG
Found at i:122108340 original size:14 final size:14
Alignment explanation
Indices: 122108306--122108341 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
122108296 GTTTCCTACG
*
122108306 CATTTGAACAAACT
1 CATTTAAACAAACT
122108320 CATTTTAAACAAACT
1 CA-TTTAAACAAACT
122108335 CATTTAA
1 CATTTAA
122108342 TAGAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (14 bp):
CATTTAAACAAACT
Found at i:122110740 original size:19 final size:20
Alignment explanation
Indices: 122110692--122110753 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
122110682 TATTTTTTTC
*
122110692 AAAAAAATATTAAAATTTAT
1 AAAAAATTATTAAAATTTAT
* * *
122110712 ATAAACTTATTAGAA-TTAT
1 AAAAAATTATTAAAATTTAT
*
122110731 AAAAAATTA-TAAACACTTAT
1 AAAAAATTATTAAA-ATTTAT
122110751 AAA
1 AAA
122110754 TATTATAACA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 3 0.09
19 12 0.36
20 18 0.55
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAATTATTAAAATTTAT
Found at i:122111328 original size:19 final size:19
Alignment explanation
Indices: 122111304--122111353 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
122111294 ATGATTTTTT
122111304 TAATTTTTATAGGTTTATA
1 TAATTTTTATAGGTTTATA
* ** *
122111323 TAATTTTAATACTTTTTTA
1 TAATTTTTATAGGTTTATA
*
122111342 TAAATTTTATAG
1 TAATTTTTATAG
122111354 AATTTCCATA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (19 bp):
TAATTTTTATAGGTTTATA
Found at i:122111330 original size:10 final size:10
Alignment explanation
Indices: 122111304--122111470 Score: 73
Period size: 10 Copynumber: 17.0 Consensus size: 10
122111294 ATGATTTTTT
122111304 TAATTTT-TA
1 TAATTTTATA
**
122111313 TAGGTTTATA
1 TAATTTTATA
122111323 TAATTTTA-A
1 TAATTTTATA
* *
122111332 TACTTTTTTA
1 TAATTTTATA
122111342 TAAATTTTATA
1 T-AATTTTATA
* *
122111353 GAATTTCCATA
1 TAATTT-TATA
***
122111364 CGTTTTTATA
1 TAATTTTATA
* *
122111374 AAATTTTAAA
1 TAATTTTATA
*
122111384 T-ATGTTATA
1 TAATTTTATA
*
122111393 TAATTTTTTA
1 TAATTTTATA
122111403 TAA-TTTAT-
1 TAATTTTATA
122111411 TAGATTTT-TA
1 TA-ATTTTATA
*
122111421 TAATATT-TA
1 TAATTTTATA
122111430 TAATTTTATA
1 TAATTTTATA
*
122111440 TCCATTTT-TA
1 T-AATTTTATA
*
122111450 TATATTTTTTA
1 TA-ATTTTATA
122111461 -ATATTTTATA
1 TA-ATTTTATA
122111471 GTTTGATAAG
Statistics
Matches: 117, Mismatches: 29, Indels: 23
0.69 0.17 0.14
Matches are distributed among these distances:
8 2 0.02
9 37 0.32
10 58 0.50
11 20 0.17
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (10 bp):
TAATTTTATA
Found at i:122111358 original size:30 final size:31
Alignment explanation
Indices: 122111317--122111381 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
122111307 TTTTTATAGG
* * *
122111317 TTTATATAATTTTAATACTTTTTTAT-AAAT
1 TTTATAGAATTTCAATACGTTTTTATAAAAT
*
122111347 TTTATAGAATTTCCATACGTTTTTATAAAAT
1 TTTATAGAATTTCAATACGTTTTTATAAAAT
122111378 TTTA
1 TTTA
122111382 AATATGTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (31 bp):
TTTATAGAATTTCAATACGTTTTTATAAAAT
Found at i:122111410 original size:19 final size:20
Alignment explanation
Indices: 122111388--122111470 Score: 59
Period size: 19 Copynumber: 4.2 Consensus size: 20
122111378 TTTAAATATG
122111388 TTATATA-ATTTTTTATAAT
1 TTATATAGATTTTTTATAAT
122111407 TTAT-TAGA-TTTTTATAAT
1 TTATATAGATTTTTTATAAT
* *
122111425 ATT-TATA-ATTTTATATCCAT
1 -TTATATAGATTTTTTAT-AAT
* * *
122111445 TTTTATATATTTTTTAATATT
1 TTATATAGATTTTTT-ATAAT
122111466 TTATA
1 TTATA
122111471 GTTTGATAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
18 14 0.28
19 17 0.34
20 6 0.12
21 11 0.22
22 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (20 bp):
TTATATAGATTTTTTATAAT
Found at i:122112989 original size:43 final size:43
Alignment explanation
Indices: 122112924--122113020 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 43
122112914 CGCTATATGT
* * *
122112924 AACGCTGCTAAAGACCGAGACTTTTAGCTGCTCTTTTTTAAAA
1 AACGCCGCTAAAGACCGAGACTTTTAGCGGCGCTTTTTTAAAA
* *
122112967 AACGCCGCTAAAGACCGGGACTTTTCGCGGCGCTTTTTTAAAA
1 AACGCCGCTAAAGACCGAGACTTTTAGCGGCGCTTTTTTAAAA
122113010 AACGCCGCTAA
1 AACGCCGCTAA
122113021 TTTGCCCAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
AACGCCGCTAAAGACCGAGACTTTTAGCGGCGCTTTTTTAAAA
Found at i:122113337 original size:21 final size:21
Alignment explanation
Indices: 122113313--122113360 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
122113303 TTCTGTTCTG
*
122113313 CTCCGCCTCCTTG-GCTACTGC
1 CTCCGCCTCC-CGCGCTACTGC
*
122113334 CTCCGCCTCCCGCGCTGCTGC
1 CTCCGCCTCCCGCGCTACTGC
122113355 CTCCGC
1 CTCCGC
122113361 TCTAAGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.02, C:0.54, G:0.21, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTACTGC
Found at i:122118920 original size:9 final size:9
Alignment explanation
Indices: 122118906--122119006 Score: 85
Period size: 9 Copynumber: 10.6 Consensus size: 9
122118896 ATGTATTAGT
122118906 TAAGTTATG
1 TAAGTTATG
122118915 TAAGTTGTTATG
1 TAA---GTTATG
*
122118927 TACGTTATG
1 TAAGTTATG
*
122118936 TGAGTTATG
1 TAAGTTATG
122118945 TAAGTTGTTATG
1 TAA---GTTATG
*
122118957 TAAATTATG
1 TAAGTTATG
*
122118966 TAAGTTATA
1 TAAGTTATG
*
122118975 TGAGTTATG
1 TAAGTTATG
122118984 TAAGTTATG
1 TAAGTTATG
* *
122118993 TAATTTATT
1 TAAGTTATG
122119002 TAAGT
1 TAAGT
122119007 AATGATCAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
9 56 0.77
12 17 0.23
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:122118942 original size:30 final size:30
Alignment explanation
Indices: 122118906--122119006 Score: 109
Period size: 30 Copynumber: 3.5 Consensus size: 30
122118896 ATGTATTAGT
**
122118906 TAAGTTATGTAAGTTGTTATGTACGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATG
*
122118936 TGAGTTATGTAAGTTGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATG
* * *
122118966 TAAGTTA--TATG-AGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATG
* *
122118993 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
122119007 AATGATCAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
27 20 0.34
28 3 0.05
29 3 0.05
30 33 0.56
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.48
Consensus pattern (30 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATG
Found at i:122118954 original size:21 final size:21
Alignment explanation
Indices: 122118930--122118989 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
122118920 TGTTATGTAC
122118930 GTTATGTGAGTTATGTAAGTT
1 GTTATGTGAGTTATGTAAGTT
* *
122118951 GTTATGTAAATTATGTAA---
1 GTTATGTGAGTTATGTAAGTT
*
122118969 GTTATATGAGTTATGTAAGTT
1 GTTATGTGAGTTATGTAAGTT
122118990 ATGTAATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 15 0.48
21 16 0.52
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (21 bp):
GTTATGTGAGTTATGTAAGTT
Found at i:122119710 original size:10 final size:10
Alignment explanation
Indices: 122119695--122119723 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
122119685 AATAAAATTA
122119695 ATTCATACTT
1 ATTCATACTT
122119705 ATTCATACTT
1 ATTCATACTT
122119715 ATTCATACT
1 ATTCATACT
122119724 CCACTCTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTCATACTT
Found at i:122121262 original size:39 final size:39
Alignment explanation
Indices: 122121208--122121286 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
122121198 CATTGACAGA
* *
122121208 AGCAGATCTCAAATAATCATGCAGAATAACAAATTTAAG
1 AGCAGATCTCAAATAATCAAGCAAAATAACAAATTTAAG
122121247 AGCAGATCTCAAATAATCAAGCAAAATAACAAATTTAAG
1 AGCAGATCTCAAATAATCAAGCAAAATAACAAATTTAAG
122121286 A
1 A
122121287 CAGTCATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (39 bp):
AGCAGATCTCAAATAATCAAGCAAAATAACAAATTTAAG
Found at i:122121269 original size:19 final size:19
Alignment explanation
Indices: 122121207--122121269 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
122121197 ACATTGACAG
122121207 AAGCAGATCTCAAATAATC
1 AAGCAGATCTCAAATAATC
* ** * *
122121226 ATGCAGAATAACAAAT-TTA
1 AAGCAG-ATCTCAAATAATC
122121245 AGAGCAGATCTCAAATAATC
1 A-AGCAGATCTCAAATAATC
122121265 AAGCA
1 AAGCA
122121270 AAATAACAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (19 bp):
AAGCAGATCTCAAATAATC
Found at i:122123266 original size:37 final size:37
Alignment explanation
Indices: 122123219--122123299 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
122123209 TTGATATATA
*
122123219 TTATTTTAAAATAATAATTTATATATATTTATCTTAT
1 TTATATTAAAATAATAATTTATATATATTTATCTTAT
122123256 TTATATTAAAATAATAATTTATATATATTTATCTTAT
1 TTATATTAAAATAATAATTTATATATATTTATCTTAT
122123293 TTATATT
1 TTATATT
122123300 TATCTTCTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (37 bp):
TTATATTAAAATAATAATTTATATATATTTATCTTAT
Found at i:122123297 original size:15 final size:15
Alignment explanation
Indices: 122123274--122123305 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
122123264 AAATAATAAT
122123274 TTATATATATTTATC
1 TTATATATATTTATC
*
122123289 TTATTTATATTTATC
1 TTATATATATTTATC
122123304 TT
1 TT
122123306 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:122123349 original size:7 final size:7
Alignment explanation
Indices: 122123330--122123383 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
122123320 AAATTATACT
122123330 CTAAA-C
1 CTAAACC
122123336 CTGAAACC
1 CT-AAACC
122123344 CTAAA-C
1 CTAAACC
*
122123350 CTAAGATC
1 CTAA-ACC
122123358 CTAAACC
1 CTAAACC
122123365 CTAAACC
1 CTAAACC
122123372 CTAAACC
1 CTAAACC
*
122123379 ATAAA
1 CTAAA
122123384 TACAAAACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
6 7 0.17
7 27 0.64
8 8 0.19
ACGTcount: A:0.46, C:0.33, G:0.04, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:122123391 original size:28 final size:27
Alignment explanation
Indices: 122123339--122123405 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
122123329 TCTAAACCTG
* * *
122123339 AAACCCTAAACCTAAGATCCTAAACCCT
1 AAACCCTAAACCTAAGATAC-AAAACAT
122123367 AAACCCTAAACCATAA-ATACAAAACAT
1 AAACCCTAAACC-TAAGATACAAAACAT
122123394 ATAACCCTAAAC
1 A-AACCCTAAAC
122123406 TTTAAACCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.18
28 25 0.74
29 3 0.09
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.16
Consensus pattern (27 bp):
AAACCCTAAACCTAAGATACAAAACAT
Found at i:122123731 original size:23 final size:23
Alignment explanation
Indices: 122123682--122123732 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
122123672 GTATCCTTTC
*
122123682 CTTAAACCCTAAATTAATCGAAA
1 CTTAAACCCTAAATTAATAGAAA
* *
122123705 CTTACACCCTAAA-TATATAGAAT
1 CTTAAACCCTAAATTA-ATAGAAA
122123728 CTTAA
1 CTTAA
122123733 TATATATAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (23 bp):
CTTAAACCCTAAATTAATAGAAA
Found at i:122124890 original size:16 final size:16
Alignment explanation
Indices: 122124869--122124901 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
122124859 GATACTATTG
*
122124869 TGAAATGACTTTATAA
1 TGAAATGAATTTATAA
122124885 TGAAATGAATTTATAA
1 TGAAATGAATTTATAA
122124901 T
1 T
122124902 TAATAAGCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (16 bp):
TGAAATGAATTTATAA
Found at i:122127052 original size:5 final size:6
Alignment explanation
Indices: 122127037--122127077 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
122127027 AAATTATATG
*
122127037 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTT
122127078 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:122127118 original size:13 final size:13
Alignment explanation
Indices: 122127102--122127126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122127092 AATTTTTATG
122127102 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
122127115 ATTGGGTTGGGT
1 ATTGGGTTGGGT
122127127 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:122127126 original size:18 final size:18
Alignment explanation
Indices: 122127103--122127140 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
122127093 ATTTTTATGA
122127103 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
122127121 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
122127139 TT
1 TT
122127141 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:122133577 original size:35 final size:36
Alignment explanation
Indices: 122133531--122133603 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 36
122133521 TAAATCTTAA
*
122133531 TTGAAAAAAATGTTCTATCTCTTCTA-TTTTTTTAG
1 TTGAAAAAAATGTTCTATCTCCTCTATTTTTTTTAG
122133566 TTGAAAAAAATGTTCTATCTCCTCTATTTTTTTTAG
1 TTGAAAAAAATGTTCTATCTCCTCTATTTTTTTTAG
122133602 TT
1 TT
122133604 TTCTTTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 25 0.69
36 11 0.31
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.52
Consensus pattern (36 bp):
TTGAAAAAAATGTTCTATCTCCTCTATTTTTTTTAG
Found at i:122135606 original size:57 final size:57
Alignment explanation
Indices: 122135537--122135653 Score: 153
Period size: 57 Copynumber: 2.1 Consensus size: 57
122135527 AATTTGCACT
** * * * *
122135537 TGTAATTTACAGCTGTTGTCAAAATGTATCTTAATGTGCATATTTATGCTGTCCAAA
1 TGTAATTTACAGCTACTATCAAAATATATCTTAATGCGCATATTTATGCTGTCAAAA
* * *
122135594 TGTAATTTACAGCTACTATCATAATATCTCTTAATGCGCATATTTATGTTGTCAAAA
1 TGTAATTTACAGCTACTATCAAAATATATCTTAATGCGCATATTTATGCTGTCAAAA
122135651 TGT
1 TGT
122135654 GAATAATGAC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (57 bp):
TGTAATTTACAGCTACTATCAAAATATATCTTAATGCGCATATTTATGCTGTCAAAA
Found at i:122142938 original size:14 final size:15
Alignment explanation
Indices: 122142919--122143034 Score: 73
Period size: 18 Copynumber: 7.5 Consensus size: 15
122142909 TCTTAGATGT
122142919 GATATG-CAATCTTA
1 GATATGACAATCTTA
122142933 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
122142950 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
*
122142968 GATATGA-TA-C--A
1 GATATGACAATCTTA
* *
122142979 -ATCTTACAATCTTA
1 GATATGACAATCTTA
122142993 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
122143010 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
122143028 GATATGA
1 GATATGA
122143035 TATACAATCT
Statistics
Matches: 80, Mismatches: 6, Indels: 28
0.70 0.05 0.25
Matches are distributed among these distances:
10 4 0.05
11 2 0.03
12 1 0.01
13 1 0.01
14 8 0.10
15 5 0.06
17 29 0.36
18 30 0.38
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:122142947 original size:17 final size:17
Alignment explanation
Indices: 122142906--122143048 Score: 142
Period size: 17 Copynumber: 8.6 Consensus size: 17
122142896 CAATGATATG
*
122142906 CAATCTTAGATGTGATA
1 CAATCTTAGATATGATA
122142923 TGCAATCTTAGATATGATA
1 --CAATCTTAGATATGATA
*
122142942 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
122142960 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
122142977 CAATC-------T--TA
1 CAATCTTAGATATGATA
122142985 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
122143002 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
122143020 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
122143039 CAATCTTAGA
1 CAATCTTAGA
122143049 AGATATGATT
Statistics
Matches: 106, Mismatches: 5, Indels: 26
0.77 0.04 0.19
Matches are distributed among these distances:
8 7 0.07
10 1 0.01
15 1 0.01
17 38 0.36
18 31 0.29
19 27 0.25
20 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:122142968 original size:35 final size:35
Alignment explanation
Indices: 122142906--122143048 Score: 180
Period size: 35 Copynumber: 4.3 Consensus size: 35
122142896 CAATGATATG
*
122142906 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
122142942 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
122142977 CAATC-----T-T-A---CAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
122143002 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
122143039 CAATCTTAGA
1 CAATCTTAGA
122143049 AGATATGATT
Statistics
Matches: 94, Mismatches: 1, Indels: 23
0.80 0.01 0.19
Matches are distributed among these distances:
25 22 0.23
28 1 0.01
29 1 0.01
30 2 0.02
31 1 0.01
32 1 0.01
35 38 0.40
36 15 0.16
37 13 0.14
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:122142988 original size:25 final size:25
Alignment explanation
Indices: 122142960--122143009 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
122142950 GATATGATTG
122142960 CAATCTTAGATATGATACAATCTTA
1 CAATCTTAGATATGATACAATCTTA
122142985 CAATCTTAGATATGATACAATCTTA
1 CAATCTTAGATATGATACAATCTTA
122143010 GATATGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (25 bp):
CAATCTTAGATATGATACAATCTTA
Found at i:122142993 original size:60 final size:61
Alignment explanation
Indices: 122142925--122143046 Score: 228
Period size: 60 Copynumber: 2.0 Consensus size: 61
122142915 ATGTGATATG
122142925 CAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG-ATACAATCTTA
1 CAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATGAATACAATCTTA
122142985 CAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATGATATACAATCTTA
1 CAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATGA-ATACAATCTTA
122143047 GAAGATATGA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 49 0.82
62 11 0.18
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (61 bp):
CAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATGAATACAATCTTA
Found at i:122143024 original size:43 final size:43
Alignment explanation
Indices: 122142940--122143027 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 43
122142930 TTAGATATGA
*
122142940 TACAATCTTAGATATGATTGCAATCTTAGATATGATACAATCT
1 TACAATCTTAGATATGATTACAATCTTAGATATGATACAATCT
*
122142983 TACAATCTTAGATATGA-TACAATCTTAGATATGATTGCAATCT
1 TACAATCTTAGATATGATTACAATCTTAGATATGA-TACAATCT
122143026 TA
1 TA
122143028 GATATGATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 16 0.38
43 26 0.62
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (43 bp):
TACAATCTTAGATATGATTACAATCTTAGATATGATACAATCT
Found at i:122143067 original size:60 final size:57
Alignment explanation
Indices: 122142898--122143068 Score: 156
Period size: 60 Copynumber: 2.9 Consensus size: 57
122142888 ATAATTTTCA
* * **
122142898 ATGATATGCAATCTTAGATGTGATATGCAATCTT--AGATATGA-TACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATACAATCTTAAAGATATGATTGTAATCTTAGAT
**
122142953 ATGATTGCAATCTTAGATATG--ATACAATCTTACAATCTTAGATATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATACAATCTT--AA----AGATATGATTGTAATCTTAGAT
122143013 ATGATTGCAATCTTAGATATGATATACAATCTTAGAAGATATGATTTTGTAATCTT
1 ATGATTGCAATCTTAGATATGATATACAATCTTA-AAGATATGA--TTGTAATCTT
122143069 GGAGATTTAA
Statistics
Matches: 98, Mismatches: 4, Indels: 23
0.78 0.03 0.18
Matches are distributed among these distances:
52 9 0.09
54 15 0.15
55 5 0.05
57 8 0.08
60 50 0.51
61 1 0.01
62 10 0.10
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (57 bp):
ATGATTGCAATCTTAGATATGATATACAATCTTAAAGATATGATTGTAATCTTAGAT
Found at i:122143552 original size:17 final size:18
Alignment explanation
Indices: 122143525--122143575 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
122143515 TTCTAAACCA
*
122143525 ATAAATTTTATATTTTTT
1 ATAAATATTATATTTTTT
*
122143543 ATAAA-ATTAT-TATTCTT
1 ATAAATATTATAT-TTTTT
122143560 ATAAATATTATATTTT
1 ATAAATATTATATTTT
122143576 AAATTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.04
17 13 0.48
18 12 0.44
19 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
ATAAATATTATATTTTTT
Found at i:122146696 original size:13 final size:13
Alignment explanation
Indices: 122146678--122146778 Score: 89
Period size: 14 Copynumber: 7.6 Consensus size: 13
122146668 AAAATGAATG
122146678 TATG-AATCGATTA
1 TATGAAATCGA-TA
*
122146691 TATGAAAGTAGATA
1 TATGAAA-TCGATA
122146705 TATGAAATCGATA
1 TATGAAATCGATA
*
122146718 TATGAAAATAGATA
1 TATG-AAATCGATA
* *
122146732 TATGAAATGGTTA
1 TATGAAATCGATA
*
122146745 TATG-AATCAATA
1 TATGAAATCGATA
* *
122146757 TAGGGAAATAGATA
1 TA-TGAAATCGATA
122146771 TATGAAAT
1 TATGAAAT
122146779 AGAACATTGG
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
12 7 0.10
13 30 0.42
14 31 0.44
15 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.32
Consensus pattern (13 bp):
TATGAAATCGATA
Found at i:122146709 original size:27 final size:28
Alignment explanation
Indices: 122146678--122146750 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
122146668 AAAATGAATG
*
122146678 TATG-AATCGATTATATGAAAGTAGATA
1 TATGAAATCGATTATATGAAAATAGATA
122146705 TATGAAATCGA-TATATGAAAATAGATA
1 TATGAAATCGATTATATGAAAATAGATA
*
122146732 TATGAAAT-GGTTATATGAA
1 TATGAAATCGATTATATGAA
122146751 TCAATATAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 35 0.83
28 6 0.14
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.33
Consensus pattern (28 bp):
TATGAAATCGATTATATGAAAATAGATA
Found at i:122146766 original size:39 final size:40
Alignment explanation
Indices: 122146689--122146781 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 40
122146679 ATGAATCGAT
* *
122146689 TATATGAAAGTAGATATATGAAATCGATATATGAAAATAGA
1 TATATGAAA-TAGATATATGAAATCAATATAGGAAAATAGA
* * *
122146730 TATATGAAATGGTTATATG-AATCAATATAGGGAAATAGA
1 TATATGAAATAGATATATGAAATCAATATAGGAAAATAGA
122146769 TATATGAAATAGA
1 TATATGAAATAGA
122146782 ACATTGGATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 28 0.62
40 8 0.18
41 9 0.20
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.30
Consensus pattern (40 bp):
TATATGAAATAGATATATGAAATCAATATAGGAAAATAGA
Found at i:122146779 original size:13 final size:13
Alignment explanation
Indices: 122146689--122146781 Score: 100
Period size: 13 Copynumber: 7.0 Consensus size: 13
122146679 ATGAATCGAT
122146689 TATATGAAAGTAGA
1 TATATGAAA-TAGA
*
122146703 TATATGAAATCGA
1 TATATGAAATAGA
122146716 TATATGAAAATAGA
1 TATATG-AAATAGA
* *
122146730 TATATGAAATGGT
1 TATATGAAATAGA
122146743 TATATG-AATCA-A
1 TATATGAAAT-AGA
*
122146755 TATAGGGAAATAGA
1 TATA-TGAAATAGA
122146769 TATATGAAATAGA
1 TATATGAAATAGA
122146782 ACATTGGATA
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
12 7 0.11
13 30 0.45
14 29 0.44
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.30
Consensus pattern (13 bp):
TATATGAAATAGA
Found at i:122150794 original size:28 final size:28
Alignment explanation
Indices: 122150763--122150827 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
122150753 CGTGTACCTG
* * * *
122150763 GCCCATGTCGTTCACACGGCCATGACAT
1 GCCCGTGTCCTTCACAAGGCCATGACAC
122150791 GCCCGTGTCCTTCACAAGGCCATGACAC
1 GCCCGTGTCCTTCACAAGGCCATGACAC
122150819 GCCCGTGTC
1 GCCCGTGTC
122150828 TTAGCCCGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.18, C:0.38, G:0.23, T:0.20
Consensus pattern (28 bp):
GCCCGTGTCCTTCACAAGGCCATGACAC
Found at i:122151948 original size:46 final size:45
Alignment explanation
Indices: 122151854--122152061 Score: 192
Period size: 46 Copynumber: 4.5 Consensus size: 45
122151844 GTGCTAATGC
* * * *
122151854 CATGT-CCAGACATGGTCTTACACTGAC-ACATCTCGTA-ACTGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTTCGTCTCG-AGGCCGATG
*
122151898 CATGTCCCAGATATGTCTTACACTGACTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTT-CGTCTCGAGGCCGATG
* * *
122151944 CATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACT-G-ACTTCGTCTCGAGGCCGATG
* * * *
122151990 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGACT-TCGT-CTCGAGGCCGATG
122152038 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
122152062 TGCTCACAAT
Statistics
Matches: 137, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
44 18 0.13
45 8 0.06
46 58 0.42
47 31 0.23
48 21 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGACTTCGTCTCGAGGCCGATG
Found at i:122152035 original size:94 final size:91
Alignment explanation
Indices: 122151799--122152061 Score: 270
Period size: 94 Copynumber: 2.8 Consensus size: 91
122151789 GTAAGGTGCC
* * * **
122151799 GATGCCATGTGCCAGACATAGTCTTACACAGGCTCTAGCATATCTGTGCTAATGCCATGT-CCAG
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTA-CATATGTG-GCCGATG-CATGTCCCAG
122151863 ACATGGTCTTACACTGACACATCTCGTAACT
62 ACAT-GTCTTACACTGACACATCTCGTAACT
* * * * *
122151894 GATG-CATGTCCCAGATATGTCTTACACTGACT-TACGTCTCGAGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATAT-GTGGCCGATGCATGTCCCAGACA
122151957 TGTCTTACACT-AGCAC-TCGTC-TCAATGCT
65 TGTCTTACACTGA-CACATC-TCGT-AA--CT
122151986 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTACAT-ATGTGGCCGATGCATGTCCCAGAC
122152050 ATGTCTTACACT
64 ATGTCTTACACT
122152062 TGCTCACAAT
Statistics
Matches: 142, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
89 4 0.03
90 22 0.15
91 16 0.11
92 9 0.06
93 25 0.18
94 60 0.42
95 6 0.04
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (91 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATATGTGGCCGATGCATGTCCCAGACAT
GTCTTACACTGACACATCTCGTAACT
Found at i:122154299 original size:26 final size:26
Alignment explanation
Indices: 122154247--122154306 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
122154237 GCCATATCGA
*
122154247 GAAGCTCACAAAGAGCCTTTAATCAG
1 GAAGCTCACAAAGAGCCTATAATCAG
* *
122154273 GAAGCTCACGAAGATCCATATAA-CAG
1 GAAGCTCACAAAGAGCC-TATAATCAG
*
122154299 GACGCTCA
1 GAAGCTCA
122154307 TAAGAGCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCTATAATCAG
Found at i:122155466 original size:22 final size:22
Alignment explanation
Indices: 122155440--122155484 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
122155430 TGAGTAAATA
*
122155440 TTTGTTGCCTCGTATTGAAGAT
1 TTTGTTGCCTAGTATTGAAGAT
122155462 TTTGTTGCCTAGTATTGAAGAT
1 TTTGTTGCCTAGTATTGAAGAT
122155484 T
1 T
122155485 ATTTCAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (22 bp):
TTTGTTGCCTAGTATTGAAGAT
Found at i:122167417 original size:23 final size:23
Alignment explanation
Indices: 122167390--122167434 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
122167380 AAAAATATAA
*
122167390 ATTTTGGAAA-GTAGATTAAAAAT
1 ATTTTGAAAATGTAG-TTAAAAAT
*
122167413 ATTTTTAAAATGTAGTTAAAAA
1 ATTTTGAAAATGTAGTTAAAAA
122167435 ACTGACAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (23 bp):
ATTTTGAAAATGTAGTTAAAAAT
Found at i:122180623 original size:14 final size:15
Alignment explanation
Indices: 122180606--122180646 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
122180596 TTTTAATTTT
122180606 ATTTTAATAATAA-A
1 ATTTTAATAATAATA
122180620 ATTTTAA-AATAATA
1 ATTTTAATAATAATA
122180634 ATTTTAAGTAATA
1 ATTTTAA-TAATA
122180647 TTCTTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 15 0.62
16 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTTTAATAATAATA
Found at i:122181513 original size:13 final size:13
Alignment explanation
Indices: 122181495--122181519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122181485 ATTAAAAACA
122181495 ATTTTTAGGAAAT
1 ATTTTTAGGAAAT
122181508 ATTTTTAGGAAA
1 ATTTTTAGGAAA
122181520 CCTGTCAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTTTTAGGAAAT
Found at i:122186547 original size:18 final size:17
Alignment explanation
Indices: 122186503--122186548 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
122186493 TAATTAATTT
*
122186503 TTAAAAAAATTTAAAAA
1 TTAAAAAAAATTAAAAA
*
122186520 TTATATAAAAATTAAAAA
1 TTA-AAAAAAATTAAAAA
122186538 TTCAAAAAAAA
1 TT-AAAAAAAA
122186549 ACATATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 20 0.83
19 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
TTAAAAAAAATTAAAAA
Found at i:122186599 original size:16 final size:15
Alignment explanation
Indices: 122186568--122186614 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
122186558 TAAATTATAA
*
122186568 AAAATTTA-AAACAT
1 AAAATTTATAAATAT
122186582 AAAATTTATAAGATAT
1 AAAATTTATAA-ATAT
*
122186598 AAAATTTTTAAAATAT
1 AAAATTTAT-AAATAT
122186614 A
1 A
122186615 TATTAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 8 0.29
15 2 0.07
16 16 0.57
17 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
AAAATTTATAAATAT
Found at i:122187871 original size:28 final size:29
Alignment explanation
Indices: 122187809--122187882 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
122187799 GTCCCTTTTT
*
122187809 TTAGGGTTAGGG-TTTTATTATTTAATTGAT
1 TTAGGGTTAGGGTTTTTATTATTTAA-T-AG
122187839 TTAGGGTTAGGGTTTTTA-TAGTTTAA-AG
1 TTAGGGTTAGGGTTTTTATTA-TTTAATAG
122187867 TTAGGGTTAGGGTTTT
1 TTAGGGTTAGGGTTTT
122187883 GTAAAGGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
28 17 0.41
30 14 0.34
31 10 0.24
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (29 bp):
TTAGGGTTAGGGTTTTTATTATTTAATAG
Found at i:122188621 original size:126 final size:125
Alignment explanation
Indices: 122188429--122188764 Score: 546
Period size: 126 Copynumber: 2.7 Consensus size: 125
122188419 TCGGAAAATG
* *
122188429 CTTCAAGCAGGATGCACTGTCAGTAAAATTTCTGAAAAAACTCCCACGTGGATGCTCTTTTGCTA
1 CTTCAAGCAGGATGCACTGTCAGTAAAATTTCTGAAAAAGCTCCCACGTGGACGCTCTTTTGCTA
*
122188494 CAGTAGTTCATAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGCCGAAAACA
66 CAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGCCGAAAACA
* * *
122188554 CTTCAAGCAGGATGCACTGTCAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACACTCTTTTACT
1 CTTCAAGCAGGATGCACTGTCAGTAAAATTTCT-GAAAAAGCTCCCACGTGGACGCTCTTTTGCT
* * * *
122188619 ACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACGTTTTTGAACAAATAGTGCCGAAAACG
65 ACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGCCGAAAACA
*
122188680 CTTCAAGCAGGATGCACTGTCAGTAAAATTTCTAGAAAAAGCTCCCACATGGACGCTCTTTTGCT
1 CTTCAAGCAGGATGCACTGTCAGTAAAATTTCT-GAAAAAGCTCCCACGTGGACGCTCTTTTGCT
*
122188745 ACAGTAGTTCGTACAAAAAT
65 ACAGTAGTTCGTAGAAAAAT
122188765 GAGGCTATAA
Statistics
Matches: 194, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 32 0.16
126 162 0.84
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (125 bp):
CTTCAAGCAGGATGCACTGTCAGTAAAATTTCTGAAAAAGCTCCCACGTGGACGCTCTTTTGCTA
CAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGCCGAAAACA
Found at i:122192283 original size:18 final size:18
Alignment explanation
Indices: 122192260--122192297 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
122192250 GGAAAAAGAA
*
122192260 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
122192278 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
122192296 AC
1 AC
122192298 GCATCTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:122192907 original size:7 final size:7
Alignment explanation
Indices: 122192892--122192930 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
122192882 CATAATACAT
122192892 AATAC-A
1 AATACTA
122192898 AATACTA
1 AATACTA
122192905 AATACTA
1 AATACTA
122192912 AATACTA
1 AATACTA
122192919 AATACTA
1 AATACTA
122192926 AATAC
1 AATAC
122192931 GAAACGACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:122193997 original size:48 final size:47
Alignment explanation
Indices: 122193931--122194040 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 47
122193921 AAAAGAAAAG
*
122193931 TAGTATTGAAATTGTAATTATAA-TTGCATAAATGAATAA-AATATCAAA
1 TAGTATTGAAAAT-TAATTA-AATTTGCATAAATGAA-AATAATATCAAA
* *
122193979 TAGTATTGCAAAATTAATTAAATTTGCATAAATTAAAATAATATCGAA
1 TAGTATTG-AAAATTAATTAAATTTGCATAAATGAAAATAATATCAAA
*
122194027 TAATATTGAAAATT
1 TAGTATTGAAAATT
122194041 TAAAATTATC
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
47 10 0.18
48 41 0.75
49 4 0.07
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (47 bp):
TAGTATTGAAAATTAATTAAATTTGCATAAATGAAAATAATATCAAA
Found at i:122195630 original size:22 final size:22
Alignment explanation
Indices: 122195582--122195638 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
122195572 CAGGGGTTGC
*
122195582 ATGTCTCGGGACAAAAGCATGT
1 ATGTCTCGGGACAAAAGCATAT
* *
122195604 TTGTCTCGGGACAAAAGCCTAT
1 ATGTCTCGGGACAAAAGCATAT
*
122195626 ATGTCTCGAGACA
1 ATGTCTCGGGACA
122195639 TGGCCTGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (22 bp):
ATGTCTCGGGACAAAAGCATAT
Found at i:122197223 original size:21 final size:21
Alignment explanation
Indices: 122197197--122197237 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
122197187 TCGAAAGTTG
122197197 AACAGAAGCTCGTAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTT
122197218 AACAGAAGCTCGTAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
122197238 AATCCACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTT
Found at i:122198566 original size:24 final size:24
Alignment explanation
Indices: 122198521--122198566 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
122198511 GCTAAGGAAA
* *
122198521 TATGGGATAAGACTAGAGGAAATC
1 TATGGGATAAGACAAGAAGAAATC
122198545 TATGGAGATAAGA-AAGAAGAAA
1 TATGG-GATAAGACAAGAAGAAA
122198567 AAGAGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.50, C:0.04, G:0.28, T:0.17
Consensus pattern (24 bp):
TATGGGATAAGACAAGAAGAAATC
Found at i:122200902 original size:14 final size:15
Alignment explanation
Indices: 122200885--122200913 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
122200875 TTATATCACG
122200885 AATCA-TATAAAATT
1 AATCATTATAAAATT
122200899 AATCATTATAAAATT
1 AATCATTATAAAATT
122200914 CAGTAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
AATCATTATAAAATT
Found at i:122203925 original size:101 final size:101
Alignment explanation
Indices: 122203750--122203956 Score: 405
Period size: 101 Copynumber: 2.0 Consensus size: 101
122203740 AATTCTTTCA
122203750 CTTCTCGGGCTAGTATTTTAACCAATTCCTCTTCATATGACAAATCAGGTCGAATCTCAATATCC
1 CTTCTCGGGCTAGTATTTTAACCAATTCCTCTTCATATGACAAATCAGGTCGAATCTCAATATCC
122203815 TCAGTAGAAATAATATGAGATGGATCTGATCGATAT
66 TCAGTAGAAATAATATGAGATGGATCTGATCGATAT
*
122203851 CTTCTCGGGCTAGTATTTTAACCGATTCCTCTTCATATGACAAATCAGGTCGAATCTCAATATCC
1 CTTCTCGGGCTAGTATTTTAACCAATTCCTCTTCATATGACAAATCAGGTCGAATCTCAATATCC
122203916 TCAGTAGAAATAATATGAGATGGATCTGATCGATAT
66 TCAGTAGAAATAATATGAGATGGATCTGATCGATAT
122203952 CTTCT
1 CTTCT
122203957 GAGCATAGAG
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 105 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (101 bp):
CTTCTCGGGCTAGTATTTTAACCAATTCCTCTTCATATGACAAATCAGGTCGAATCTCAATATCC
TCAGTAGAAATAATATGAGATGGATCTGATCGATAT
Found at i:122208569 original size:14 final size:15
Alignment explanation
Indices: 122208552--122208580 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
122208542 TTATATCACG
122208552 AATCA-TATAAAATT
1 AATCATTATAAAATT
122208566 AATCATTATAAAATT
1 AATCATTATAAAATT
122208581 CAATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
AATCATTATAAAATT
Found at i:122210673 original size:13 final size:14
Alignment explanation
Indices: 122210657--122210692 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
122210647 CAATCTCATA
122210657 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
122210670 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
122210683 TCTC-ATTTCA
1 TCTCAATTTCA
122210693 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:122210682 original size:18 final size:19
Alignment explanation
Indices: 122210644--122210684 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
122210634 TGGTTCATGT
122210644 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
122210663 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
122210681 TTTC
1 TTTC
122210685 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:122211206 original size:18 final size:19
Alignment explanation
Indices: 122211180--122211218 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
122211170 TTTCAATTCA
122211180 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
122211199 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
122211217 AT
1 AT
122211219 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:122212547 original size:5 final size:5
Alignment explanation
Indices: 122212537--122212589 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
122212527 TTACTTATTT
* *
122212537 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
122212585 ATATA
1 ATATA
122212590 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:122212553 original size:12 final size:12
Alignment explanation
Indices: 122212536--122212591 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
122212526 TTTACTTATT
122212536 TATATAATATAA
1 TATATAATATAA
122212548 TATATAATATAATA
1 TATATAATAT-A-A
122212562 TACTATAATATAA
1 TA-TATAATATAA
*
122212575 TA-ATAATTTAA
1 TATATAATATAA
122212586 TATATA
1 TATATA
122212592 TTTTAACAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:122228485 original size:63 final size:63
Alignment explanation
Indices: 122228386--122228513 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
122228376 AATATGCACT
122228386 AGTCTAGTGTTTGATGTATTTCCATCGATCTCAGAGAACATGAGGAATATATAAAAATCATTG
1 AGTCTAGTGTTTGATGTATTTCCATCGATCTCAGAGAACATGAGGAATATATAAAAATCATTG
122228449 AGTCTAGTGTTTGATGTATTTCCATCGATCTCAGAGAACATGAGGAATATATAAAAATCATTG
1 AGTCTAGTGTTTGATGTATTTCCATCGATCTCAGAGAACATGAGGAATATATAAAAATCATTG
122228512 AG
1 AG
122228514 ATTGTTAGTC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (63 bp):
AGTCTAGTGTTTGATGTATTTCCATCGATCTCAGAGAACATGAGGAATATATAAAAATCATTG
Found at i:122230141 original size:16 final size:16
Alignment explanation
Indices: 122230120--122230188 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
122230110 TTTTTTTCTC
122230120 TTTACAGTGCAAATGT
1 TTTACAGTGCAAATGT
122230136 TTTACAGTGCAAATGAT
1 TTTACAGTGCAAATG-T
** * *
122230153 GATACTGTAAAGGAAATGT
1 TTTACAGT---GCAAATGT
122230172 TTTACAGTGCAAATGT
1 TTTACAGTGCAAATGT
122230188 T
1 T
122230189 GATACTGTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
16 23 0.56
17 6 0.15
19 6 0.15
20 6 0.15
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (16 bp):
TTTACAGTGCAAATGT
Found at i:122230177 original size:36 final size:36
Alignment explanation
Indices: 122230130--122230202 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
122230120 TTTACAGTGC
122230130 AAATGTTTTACAGTGCAAATGATGATACTGTAAAGG
1 AAATGTTTTACAGTGCAAATGATGATACTGTAAAGG
*
122230166 AAATGTTTTACAGTGCAAATGTTGATACTGTAAAGG
1 AAATGTTTTACAGTGCAAATGATGATACTGTAAAGG
122230202 A
1 A
122230203 CCTTTTTGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (36 bp):
AAATGTTTTACAGTGCAAATGATGATACTGTAAAGG
Found at i:122236956 original size:2 final size:2
Alignment explanation
Indices: 122236949--122236985 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
122236939 AGAAACAAGT
122236949 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
122236986 TTATTTAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122238733 original size:8 final size:8
Alignment explanation
Indices: 122238720--122238754 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
122238710 ATTTAAGTAA
122238720 ATATTATT
1 ATATTATT
122238728 ATATTATT
1 ATATTATT
122238736 ATATTA-T
1 ATATTATT
122238743 ACTATTATT
1 A-TATTATT
122238752 ATA
1 ATA
122238755 ATTAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 2 0.08
8 21 0.84
9 2 0.08
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (8 bp):
ATATTATT
Found at i:122241190 original size:26 final size:26
Alignment explanation
Indices: 122241161--122241296 Score: 229
Period size: 26 Copynumber: 5.2 Consensus size: 26
122241151 TGGTACAAAT
*
122241161 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATGGGTTAGGTAAATGTTTC-A
* *
122241187 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
122241213 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
122241239 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
122241265 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
122241291 TGATAA
1 TGATAA
122241297 GAATTTCATG
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
26 104 0.98
27 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:122243018 original size:27 final size:26
Alignment explanation
Indices: 122242914--122243028 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
122242904 TGGAGGAAGC
* *
122242914 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
122242941 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
122242968 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* * *
122242995 GTATCTGGTGACTCTGTCACATTATTT
1 GT-TCTGGTGGCTCTGCCACATTATCT
122243022 GTTCTGG
1 GTTCTGG
122243029 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:122243025 original size:54 final size:54
Alignment explanation
Indices: 122242914--122243028 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
122242904 TGGAGGAAGC
*
122242914 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * *
122242968 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATTT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
122243022 GTTCTGG
1 GTTCTGG
122243029 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:122244562 original size:55 final size:55
Alignment explanation
Indices: 122244498--122244615 Score: 166
Period size: 55 Copynumber: 2.1 Consensus size: 55
122244488 ACTTTTCTAG
* * *
122244498 TTTTTTTTATATTTTTACAAAAAAAT-TATTAAAGAGTATAGTGGTCATTTGAGTA
1 TTTTTTTTATACTTTCAC-AAAAAATCTATTAAAGAGTATAGTGGTCATTTGAATA
* * *
122244553 TTTTTTTTATACTTTCACAAAAAATCTATTAAAGGGTATATTTGTCATTTGAATA
1 TTTTTTTTATACTTTCACAAAAAATCTATTAAAGAGTATAGTGGTCATTTGAATA
122244608 TTTTTTTT
1 TTTTTTTT
122244616 CTTATGCTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 7 0.12
55 49 0.88
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (55 bp):
TTTTTTTTATACTTTCACAAAAAATCTATTAAAGAGTATAGTGGTCATTTGAATA
Found at i:122250844 original size:2 final size:2
Alignment explanation
Indices: 122250837--122250866 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
122250827 CATTTCATGC
122250837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
122250867 GGGTAACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122254225 original size:46 final size:46
Alignment explanation
Indices: 122254174--122254294 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
122254164 GAAGTGCCAT
*
122254174 TCACTTGCACTGTAGTGCCACTACCGCTTGCACTT-TAGTGCCTCTG
1 TCACTTGCACTGTAGTGCCACTACCACTTGCA-TTGTAGTGCCTCTG
* * *
122254220 TCACTTGCATTGTAGCT-CCA-TGATCACTTGCATTGTGGTGCCTCTG
1 TCACTTGCACTGTAG-TGCCACT-ACCACTTGCATTGTAGTGCCTCTG
* *
122254266 TCACTTGCACCGTAGTGCCACTATCACTT
1 TCACTTGCACTGTAGTGCCACTACCACTT
122254295 TTCCTATTGG
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
45 4 0.06
46 58 0.91
47 2 0.03
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.34
Consensus pattern (46 bp):
TCACTTGCACTGTAGTGCCACTACCACTTGCATTGTAGTGCCTCTG
Found at i:122254226 original size:23 final size:23
Alignment explanation
Indices: 122254166--122254294 Score: 90
Period size: 23 Copynumber: 5.7 Consensus size: 23
122254156 TTTCCACCGA
*
122254166 AGTGCCA-T-TCACTTGCACTGT
1 AGTGCCACTGTCACTTGCACTTT
** *
122254187 AGTGCCACTACCGCTTGCACTTT
1 AGTGCCACTGTCACTTGCACTTT
*
122254210 AGTGCCTCTGTCACTTGCA-TTGT
1 AGTGCCACTGTCACTTGCACTT-T
122254233 AGCT-CCA-TGATCACTTGCA-TTGT
1 AG-TGCCACTG-TCACTTGCACTT-T
* * **
122254256 GGTGCCTCTGTCACTTGCACCGT
1 AGTGCCACTGTCACTTGCACTTT
*
122254279 AGTGCCACTATCACTT
1 AGTGCCACTGTCACTT
122254295 TTCCTATTGG
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 7 0.08
22 6 0.07
23 69 0.81
24 3 0.04
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.33
Consensus pattern (23 bp):
AGTGCCACTGTCACTTGCACTTT
Found at i:122257275 original size:23 final size:23
Alignment explanation
Indices: 122257220--122257294 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
122257210 ACATGCGTAA
*
122257220 ATCACTTTGCACCGAAGTGCCA-T
1 ATCAC-TTGCACCGTAGTGCCACT
122257243 -TCACTTGCACCGTAGTGCCACT
1 ATCACTTGCACCGTAGTGCCACT
* * * *
122257265 ATCGCTTGCACCATAATGTCACT
1 ATCACTTGCACCGTAGTGCCACT
122257288 ATCACTT
1 ATCACTT
122257295 TTCCTATTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
21 15 0.34
22 5 0.11
23 24 0.55
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (23 bp):
ATCACTTGCACCGTAGTGCCACT
Found at i:122257783 original size:6 final size:6
Alignment explanation
Indices: 122257772--122257812 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
122257762 ACTCCTTTGC
122257772 CATACA CATACA CATACA CATACA CATACA CATACA CATAC
1 CATACA CATACA CATACA CATACA CATACA CATACA CATAC
122257813 TCCTTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (6 bp):
CATACA
Found at i:122264329 original size:22 final size:24
Alignment explanation
Indices: 122264295--122264338 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
122264285 TAATTTCTGT
122264295 TTTTATGATTT-AAGAAATAAATA
1 TTTTATGATTTAAAGAAATAAATA
*
122264318 TTTTAT-ATTTAAAGTAATAAA
1 TTTTATGATTTAAAGAAATAAA
122264339 AATAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (24 bp):
TTTTATGATTTAAAGAAATAAATA
Found at i:122265219 original size:30 final size:30
Alignment explanation
Indices: 122265185--122265244 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
122265175 ACTTAACAAG
*
122265185 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
122265215 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
122265245 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:122269198 original size:3 final size:3
Alignment explanation
Indices: 122269190--122269216 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
122269180 ATGTTACATG
122269190 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
122269217 TAAAAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:122270567 original size:16 final size:16
Alignment explanation
Indices: 122270543--122270585 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
122270533 CAAACCCGAT
*
122270543 AAAATCTGAACCTGAA
1 AAAACCTGAACCTGAA
*
122270559 AAGAA-CTGAATCTGAA
1 AA-AACCTGAACCTGAA
122270575 AAAACCTGAAC
1 AAAACCTGAAC
122270586 TCAAAAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (16 bp):
AAAACCTGAACCTGAA
Found at i:122277396 original size:16 final size:17
Alignment explanation
Indices: 122277365--122277398 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
122277355 ATTGAAATTT
*
122277365 AATATATTTCAAAAATA
1 AATATATTTAAAAAATA
122277382 AATATA-TTAAAAAATA
1 AATATATTTAAAAAATA
122277398 A
1 A
122277399 TAAGAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AATATATTTAAAAAATA
Found at i:122279274 original size:2 final size:2
Alignment explanation
Indices: 122279267--122279304 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
122279257 GTATGTACCT
122279267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
122279305 GGTGTGTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122283706 original size:107 final size:110
Alignment explanation
Indices: 122283507--122283713 Score: 366
Period size: 107 Copynumber: 1.9 Consensus size: 110
122283497 CTAAAATTCA
* *
122283507 TTATTAAAAATAAAATTATTATAAATTCAAAAAATATTAGACAGAAATTAAAAATAAAAAAATAA
1 TTATTAAAAATAAAATTAATATAAATTCAAAAAATATTAGAAAGAAATTAAAAATAAAAAAATAA
122283572 AATTTATAGAAGACTTAAAATTTTTATTAAAAATTTTTCTAAATT
66 AATTTATAGAAGACTTAAAATTTTTATTAAAAATTTTTCTAAATT
*
122283617 TTATTAAAAATAAAATTAATATAAATTC-AAAAA-ATTAGAAAGAAATTAAAAAT-AACAAATAA
1 TTATTAAAAATAAAATTAATATAAATTCAAAAAATATTAGAAAGAAATTAAAAATAAAAAAATAA
122283679 AATTTATAGAAGACTTAAAATTTTTATTAAAAATT
66 AATTTATAGAAGACTTAAAATTTTTATTAAAAATT
122283714 ACTAAAAAAT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
107 43 0.46
108 19 0.20
109 5 0.05
110 27 0.29
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (110 bp):
TTATTAAAAATAAAATTAATATAAATTCAAAAAATATTAGAAAGAAATTAAAAATAAAAAAATAA
AATTTATAGAAGACTTAAAATTTTTATTAAAAATTTTTCTAAATT
Found at i:122283735 original size:19 final size:19
Alignment explanation
Indices: 122283707--122283743 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
122283697 AATTTTTATT
122283707 AAAAATTACTA-AAAAATC
1 AAAAATTACTAGAAAAATC
122283725 AAAACATTACTAGAAAAAT
1 AAAA-ATTACTAGAAAAAT
122283744 ATTAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.65, C:0.11, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAAATTACTAGAAAAATC
Found at i:122285081 original size:16 final size:14
Alignment explanation
Indices: 122285052--122285086 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
122285042 GCCCTGAGTA
122285052 GAAAAGAAAAAAAG
1 GAAAAGAAAAAAAG
122285066 GAAAATGAAGAAAAAG
1 GAAAA-GAA-AAAAAG
122285082 GAAAA
1 GAAAA
122285087 AAGGTTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 3 0.16
16 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (14 bp):
GAAAAGAAAAAAAG
Found at i:122290288 original size:40 final size:40
Alignment explanation
Indices: 122290203--122290309 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
122290193 AATCGGTATT
* *
122290203 GCACACTTAGTGCC-TTCTATAGCCGAAGCTATGCCAACTC
1 GCACACTTAGTGCCATT-TATAGTCGAAGCTATGCAAACTC
* **
122290243 ACACACTTAGTGCCATTTATAGTCGAAGCTATATTAAAC-C
1 GCACACTTAGTGCCATTTATAGTCGAAGCTAT-GCAAACTC
* *
122290283 GCACACTTAGTGCCAATCATAGTCGAA
1 GCACACTTAGTGCCATTTATAGTCGAA
122290310 TATCATTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
40 52 0.91
41 5 0.09
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (40 bp):
GCACACTTAGTGCCATTTATAGTCGAAGCTATGCAAACTC
Found at i:122290628 original size:8 final size:8
Alignment explanation
Indices: 122290615--122290640 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
122290605 TTTAGTCCCT
122290615 AATTCACC
1 AATTCACC
122290623 AATTCACC
1 AATTCACC
122290631 AATTCACC
1 AATTCACC
122290639 AA
1 AA
122290641 ATACACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (8 bp):
AATTCACC
Found at i:122291188 original size:38 final size:39
Alignment explanation
Indices: 122291146--122291233 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 39
122291136 GCAATGAACT
* *
122291146 TGCTTAACATGATTTAAGTTCAACAGT-AATAGTAAACA
1 TGCTTAACATGATTTAAGTTCAAAAATAAATAGTAAACA
* * *
122291184 TGCTTAACATGTTTTCAGTTCAAAAATAAATAGTAGACA
1 TGCTTAACATGATTTAAGTTCAAAAATAAATAGTAAACA
122291223 TG-TTGAACATG
1 TGCTT-AACATG
122291234 CAATCAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 25 0.58
39 18 0.42
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (39 bp):
TGCTTAACATGATTTAAGTTCAAAAATAAATAGTAAACA
Found at i:122296364 original size:2 final size:2
Alignment explanation
Indices: 122296357--122296390 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
122296347 ATTAGGTATT
*
122296357 GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
122296391 AAGATGCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:122303610 original size:2 final size:2
Alignment explanation
Indices: 122303603--122303637 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
122303593 AAAATTACAA
*
122303603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122303638 AAATATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:122304309 original size:15 final size:15
Alignment explanation
Indices: 122304289--122304317 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
122304279 TTATTTATAT
122304289 TTTATATTATATAAA
1 TTTATATTATATAAA
122304304 TTTATATTATATAA
1 TTTATATTATATAA
122304318 TTAAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATTATATAAA
Found at i:122319280 original size:2 final size:2
Alignment explanation
Indices: 122319273--122319308 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
122319263 CATCGTTAAA
122319273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
122319309 GCTGCACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122328653 original size:32 final size:31
Alignment explanation
Indices: 122328612--122328678 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 31
122328602 TTGTCAATCG
122328612 AACTTCAAGATTCGTAATATCATTATCTCGA
1 AACTTCAAGATTCGTAATATCATTATCTCGA
122328643 CAACTTCAAGATTCGTAATATCATTATCTCGA
1 -AACTTCAAGATTCGTAATATCATTATCTCGA
122328675 AACT
1 AACT
122328679 ACTTTTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 31 0.89
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (31 bp):
AACTTCAAGATTCGTAATATCATTATCTCGA
Found at i:122332030 original size:3 final size:3
Alignment explanation
Indices: 122332024--122332049 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
122332014 TAATGATCAA
122332024 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
122332050 AATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:122332054 original size:3 final size:3
Alignment explanation
Indices: 122332048--122332096 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
122332038 GATGATGATG
122332048 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
122332096 A
1 A
122332097 GGTAATGTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:122333118 original size:2 final size:2
Alignment explanation
Indices: 122333111--122333141 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
122333101 AACTTTTCTT
122333111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
122333142 GTAATAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:122333834 original size:44 final size:44
Alignment explanation
Indices: 122333750--122334086 Score: 327
Period size: 44 Copynumber: 7.6 Consensus size: 44
122333740 TCATTCTAAC
* * * *
122333750 CCACTGGAACTTCAGGG-GTATAGGATTTGTTG-TTTCAATCTACT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTT-AATCTGCT
* * * *
122333794 CCACTACAGCTTCAGGGAGATTAGACTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
** * * *
122333838 TTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCT
* *
122333883 CCATTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
122333927 CTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
** * * ** *
122333971 CCACTATAACTTTAGGGAGATAAGATTTGCTATCTTCGATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCT
* * ** *
122334016 CCATTGCAACTTCAGGGTGATAAGATTTGTAGCTTTGGTATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
122334060 CCATTACAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
122334087 CGCCACGATG
Statistics
Matches: 236, Mismatches: 53, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
44 162 0.69
45 74 0.31
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
Found at i:122333901 original size:89 final size:88
Alignment explanation
Indices: 122333783--122334086 Score: 340
Period size: 89 Copynumber: 3.4 Consensus size: 88
122333773 GATTTGTTGT
* * * * *
122333783 TTCAATCTACTCCACTACAGCTTCAGGGAGATTAGACTTGTAGCTTTAATCTGCTTTACTGCAAC
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAAC
122333848 TTCAGAGAGATAAGATTTGCTATC
66 TTCAGAGAGATAAGATTTG-TATC
* * *
122333872 TTCAATCTGCTCCATTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAAC
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAAC
*
122333937 TTCAGAGAGATAAGATTTGTGGT-
66 TTCAGAGAGATAAGATTTGT-ATC
* * * * ** * * *
122333960 TTTAATCTGCTCCACTATAACTTTAGGGAGATAAGATTTGCTATCTTCGATCTACTCCATTGCAA
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCTACTGCAA
* * *
122334025 CTTCAGGGTGATAAGATTTGTAGC
65 CTTCAGAGAGATAAGATTTGTATC
*** * *
122334049 TTTGGTATGCTCCATTACAACTTCAGGGAGATAAGATT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
122334087 CGCCACGATG
Statistics
Matches: 183, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
88 37 0.20
89 146 0.80
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (88 bp):
TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAAC
TTCAGAGAGATAAGATTTGTATC
Found at i:122333995 original size:133 final size:133
Alignment explanation
Indices: 122333757--122334086 Score: 394
Period size: 133 Copynumber: 2.5 Consensus size: 133
122333747 AACCCACTGG
* * * * * * *
122333757 AACTTCAGGG-GTATAGGATTTGTTG-TTTCAATCTACTCCACTACAGCTTCAGGGAGATTAGAC
1 AACTTCAGGGAG-ATAAGATTTGTAGCTTT-AATATGCTCCACTACAACTTCAGGGAGATAAGAT
** * *
122333820 TTGTAGCTTTAATCTGCTTTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCC
64 TTGTAGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCC
122333885 ATTGC
129 ATTGC
* * * * *
122333890 AACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTT
1 AACTTCAGGGAGATAAGATTTGTAGCTTTAATATGCTCCACTACAACTTCAGGGAGATAAGATTT
* * * * * *
122333955 GTGGTTTTAATCTGCTCCACTATAACTTTAGGGAGATAAGATTTGCTATCTTCGATCTACTCCAT
66 GTAGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCAT
122334020 TGC
131 TGC
* ** *
122334023 AACTTCAGGGTGATAAGATTTGTAGCTTTGGTATGCTCCATTACAACTTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATTTGTAGCTTTAATATGCTCCACTACAACTTCAGGGAGATAAGATT
122334087 CGCCACGATG
Statistics
Matches: 166, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
133 162 0.98
134 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (133 bp):
AACTTCAGGGAGATAAGATTTGTAGCTTTAATATGCTCCACTACAACTTCAGGGAGATAAGATTT
GTAGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCAT
TGC
Found at i:122346502 original size:19 final size:20
Alignment explanation
Indices: 122346478--122346515 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
122346468 CAAATGTGTG
122346478 GTAATAAA-AATATACATGT
1 GTAATAAATAATATACATGT
*
122346497 GTAATAAATATTATACATG
1 GTAATAAATAATATACATG
122346516 CATTTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (20 bp):
GTAATAAATAATATACATGT
Found at i:122346892 original size:25 final size:25
Alignment explanation
Indices: 122346846--122346893 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
122346836 TGTATAAATA
*
122346846 ATAAATAAGTATTACTAATTTAAGT
1 ATAAATAAGTATTAATAATTTAAGT
*
122346871 ATAAATAA-TATATAATAGTTTAA
1 ATAAATAAGTAT-TAATAATTTAA
122346894 TGAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
ATAAATAAGTATTAATAATTTAAGT
Found at i:122348372 original size:18 final size:18
Alignment explanation
Indices: 122348245--122348372 Score: 96
Period size: 18 Copynumber: 7.1 Consensus size: 18
122348235 TAAATAAAGG
* *
122348245 TACTGAATAATTGACTGC
1 TACTGAATAACTGACTGT
*
122348263 TATTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
122348281 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
** ** *
122348299 TACTGCGTAAAAGATTGT
1 TACTGAATAACTGACTGT
* ** *
122348317 TACTGAATAATTGGTTAT
1 TACTGAATAACTGACTGT
* *
122348335 TACTGAATAATTTA-TCGT
1 TACTGAATAACTGACT-GT
122348353 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
122348371 TA
1 TA
122348373 AAGAGTGACT
Statistics
Matches: 85, Mismatches: 23, Indels: 4
0.76 0.21 0.04
Matches are distributed among these distances:
17 1 0.01
18 83 0.98
19 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:122351593 original size:15 final size:15
Alignment explanation
Indices: 122351573--122351607 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
122351563 TAGGCGTCGT
122351573 CAGTGTTGACGACGC
1 CAGTGTTGACGACGC
*
122351588 CAGTGTTGATGACGC
1 CAGTGTTGACGACGC
122351603 CAGTG
1 CAGTG
122351608 CTCTCTTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (15 bp):
CAGTGTTGACGACGC
Found at i:122352511 original size:24 final size:24
Alignment explanation
Indices: 122352484--122352533 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
122352474 ATAATGCAGA
*
122352484 AATAATGAATAAAATGGAAATAGT
1 AATAATGAACAAAATGGAAATAGT
122352508 AATAATGAACAAAATGGAAATAGT
1 AATAATGAACAAAATGGAAATAGT
122352532 AA
1 AA
122352534 GAGAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.16, T:0.22
Consensus pattern (24 bp):
AATAATGAACAAAATGGAAATAGT
Found at i:122355707 original size:12 final size:12
Alignment explanation
Indices: 122355683--122355713 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
122355673 AAAAAATAGT
122355683 AAATTAG-AATA
1 AAATTAGAAATA
122355694 AAATTAGAAATA
1 AAATTAGAAATA
122355706 AAATTAGA
1 AAATTAGA
122355714 TTGCAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (12 bp):
AAATTAGAAATA
Found at i:122362126 original size:30 final size:28
Alignment explanation
Indices: 122362075--122362130 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
122362065 AATATTATTT
122362075 TAATTTTAGTTTTTATAATTTTTATTAAA
1 TAATTTTAGTTTTTATAA-TTTTATTAAA
*
122362104 TAATTTATAGTTTCTTCT-ATTTTATTA
1 TAATTT-TAGTTT-TTATAATTTTATTA
122362131 TGAGTAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 14 0.58
30 7 0.29
31 3 0.12
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (28 bp):
TAATTTTAGTTTTTATAATTTTATTAAA
Found at i:122366263 original size:3 final size:3
Alignment explanation
Indices: 122366255--122366297 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
122366245 CTAATGTAAT
* *
122366255 TAA TAA TAA TAA TGA TAA -AA TGA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
122366298 ATAAGATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:122366278 original size:8 final size:9
Alignment explanation
Indices: 122366246--122366292 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
122366236 ATAGTAATAC
122366246 TAATG-TAA
1 TAATGATAA
*
122366254 TTAATAATAA
1 -TAATGATAA
122366264 TAATGATAA
1 TAATGATAA
122366273 -AATGATAA
1 TAATGATAA
*
122366281 TAATAATAA
1 TAATGATAA
122366290 TAA
1 TAA
122366293 AATAAATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 8 0.24
9 22 0.67
10 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (9 bp):
TAATGATAA
Done.