Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1815
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: 178430
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:5646 original size:1 final size:1
Alignment explanation
Indices: 5640--5721 Score: 56
Period size: 1 Copynumber: 82.0 Consensus size: 1
5630 CTTTACACCC
* * * * * * ** * *
5640 AAAAAAAAATAAAAAAAAACAAAAAAAAAACAAAACAGAAAAAACAAAAAAACCAAGAAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
**
5705 AGTAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAA
5722 GAGGTCTAAA
Statistics
Matches: 60, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.04
Consensus pattern (1 bp):
A
Found at i:5668 original size:25 final size:25
Alignment explanation
Indices: 5640--5691 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
5630 CTTTACACCC
*
5640 AAAAAA-AAATAAAAAAAAACAAAA
1 AAAAAACAAAAAAAAAAAAACAAAA
* *
5664 AAAAAACAAAACAGAAAAAACAAAA
1 AAAAAACAAAAAAAAAAAAACAAAA
5689 AAA
1 AAA
5692 CCAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (25 bp):
AAAAAACAAAAAAAAAAAAACAAAA
Found at i:6996 original size:28 final size:29
Alignment explanation
Indices: 6932--7536 Score: 809
Period size: 28 Copynumber: 21.0 Consensus size: 29
6922 AATGTTCATC
*
6932 CTTTTTAAAGCCCATGCAAGTCAGTGGCACT
1 CTTTTCAAAGCCCA--CAAGTCAGTGGCACT
* * * *
6963 C-TTTCAAAACACACAAATCAATGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
6991 C-TTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
7019 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
7048 CTTTTCAAAACCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
7076 CCTTTCAAAGCCCATAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
7104 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
7133 CTTTTCAAAGCCCGCAAGTCAATGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
7162 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
7190 CCTTTCAAAGCCCACCAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
7218 CCTTTCAAAGCCCATAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
7247 C-TTTCAAAG-CCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
7274 CTTTTCAAAGCTCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
7303 CTTTTCAAAGCCCACAAGTTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
7332 C-TTTCAAAGCCCAAAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
7360 CTTTTCAAATCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
7388 CGTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
7416 CATTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
7445 CTTTTCAAAACCCACAAGCCAGTGGTAACT
1 CTTTTCAAAGCCCACAAGTCAGTGG-CACT
*
7475 CTTTTCAAAGCCCACACGAGTCGGTGGCAACT
1 CTTTTCAAAGCCCACA--AGTCAGTGGC-ACT
* *
7507 CTTTTCAATGCCCACACAGGTTAGTGGCAC
1 CTTTTCAAAGCCCACA-A-GTCAGTGGCAC
7537 CATTTTTTTT
Statistics
Matches: 512, Mismatches: 48, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
27 18 0.04
28 236 0.46
29 195 0.38
30 27 0.05
31 4 0.01
32 32 0.06
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (29 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:7117 original size:85 final size:86
Alignment explanation
Indices: 6932--7536 Score: 812
Period size: 85 Copynumber: 7.0 Consensus size: 86
6922 AATGTTCATC
* * * * *
6932 CTTTTTAAAGCCCATGCAAGTCAGTGGCACTC-TTTCAAAACACACAAATCAATGGCACTCTTTC
1 CTTTTCAAAGCCCA--CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTC
6996 AAAGCCCACAAGTCAGTGGCACT
64 AAAGCCCACAAGTCAGTGGCACT
*
7019 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAACCCACAAGTCAGTGGCA-TCCTTTCA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCA
*
7083 AAGCCCATAAGTCAGTGGCAC-
65 AAGCCCACAAGTCAGTGGCACT
* * *
7104 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCGCAAGTCAATGGCACTCTTTTCA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCA
7169 AAGCCCACAAGTCAGTGGCAC-
65 AAGCCCACAAGTCAGTGGCACT
* * * *
7190 CCTTTCAAAGCCCACCAGTCAGTGGCAC-CCTTTCAAAGCCCATAAGTCAGTGGCACTCTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAA
7254 AG-CCACAAGTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
* *
7274 CTTTTCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAA
*
7339 AGCCCAAAAGTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
* * *
7360 CTTTTCAAATCCCACAAGTTAGTGGCA-TCGTTTCAAAGCCCACAAGTCAGTGGCAC-CATTTCA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCA
7423 AAGCCCACAAGTCAGTGGCACT
65 AAGCCCACAAGTCAGTGGCACT
* * * *
7445 CTTTTCAAAACCCACAAGCCAGTGGTAACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 CTTTTCAAAGCCCACAAGTCAGTGG-CACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTC-T
* *
7510 TTCAATGCCCACACAGGTTAGTGGCAC
61 TTCAAAGCCCACA-A-GTCAGTGGCAC
7537 CATTTTTTTT
Statistics
Matches: 465, Mismatches: 37, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
83 17 0.04
84 34 0.07
85 206 0.44
86 143 0.31
87 29 0.06
89 9 0.02
90 2 0.00
91 14 0.03
92 1 0.00
93 10 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (86 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAA
AGCCCACAAGTCAGTGGCACT
Found at i:7151 original size:114 final size:113
Alignment explanation
Indices: 6932--7537 Score: 822
Period size: 114 Copynumber: 5.3 Consensus size: 113
6922 AATGTTCATC
* * * * * *
6932 CTTTTTAAAGCCCATGCAAGTCAGTGGCACTCTTTCAAAACACACAAATCAATGGCACTCTTTCA
1 CTTTTCAAAGCCCA--CAAGTCAGTGGCAC-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
6997 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
63 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
7048 CTTTTCAAAACCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* *
7113 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCGCAAGTCAATGGCACT
65 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
*
7162 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACCAGTCAGTGGCACCCTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
7227 GCCCATAAGTCAGTGGCACTC-TTTCAAAG-CCACAAGTCAGTGGCACT
65 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
7274 CTTTTCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC-C-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* * *
7339 AGCCCAAAAGTCAGTGGCACTCTTTTCAAATCCCACAAGTTAGTGGCA-T
64 AGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
7388 CGTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAA
* * * *
7453 AACCCACAAGCCAGTGGTAACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACT
64 AGCCCACAAGTCAGTGG-CACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACT
* *
7507 CTTTTCAATGCCCACACAGGTTAGTGGCACC
1 CTTTTCAAAGCCCACA-A-GTCAGTGGCACC
7538 ATTTTTTTTA
Statistics
Matches: 437, Mismatches: 40, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
111 1 0.00
112 43 0.10
113 86 0.20
114 225 0.51
115 34 0.08
116 12 0.03
117 8 0.02
118 1 0.00
119 15 0.03
120 1 0.00
121 11 0.03
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (113 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:8128 original size:20 final size:20
Alignment explanation
Indices: 8098--8172 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
8088 TTTTACCCAG
*
8098 ATGTGTCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
8118 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
8138 ATGTATCTATATATTCTTCA
1 ATGTATCGATACATTTTTCA
8158 ATGTATCGATACATT
1 ATGTATCGATACATT
8173 ATGTATTTTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:11953 original size:807 final size:794
Alignment explanation
Indices: 10599--12149 Score: 2124
Period size: 807 Copynumber: 1.9 Consensus size: 794
10589 ATCCAGACAC
* *
10599 GTCTCCAATATTGTCAATTTAGTTATTTTTTTGATAATCGAGGACAATTGTGAGATATATTTCGA
1 GTCTCCAATATTGTCAATTTAGTTATTTTTTTAATAATCAAGGACAATTGTGAGATATATTTCGA
*
10664 TCGTCCCTCTTTTTCTTTATTGTTACTTTGTGTGAATTATTTTATAACATTATTTTACCTATTGT
66 TCGTCCCTCTTTTTCTTTATTGTTACTTTGTGTGAATTATTTTATAACATTATGTTACCTATTGT
* * * **
10729 TCTACTAACATTTTTGCTGAATATTATGTTTTCCAAAATTTTCTTACAAAAATTGATAGGGCAAT
131 CCTACTAACATTTTTGATGAATATTATATTTTCCAAAATTTTCTTACAAAAATTGATAAAGCAAT
* * *
10794 GTTCCGTGTCGGTATCTCTCCAGTGCTTGATACGGAATATCCAGTTTTCAAAATGAAATCCAGAG
196 GTTCCGTGTCGGTATCTCTCCAGTACTTGACACGGAATATCCAGTTTTCAAAATAAAATCCAGAG
* *
10859 GTCATTTTATGTCTCTATGTACCCCATCTCTCCGGGGCGCATAGGAGATTAAAACTTTTATCAAA
261 GTCATTTTATGTCTCTATGTACCCCATCTCTCCGAGGCACATAGGAGATTAAAACTTTTATCAAA
* *
10924 CCTGGATTTATTTTTATACAAAATTCATGCATTCAAGGGAATCATATTGAAATAATATCGAGTCA
326 CCTAGATTTATTTTTATACAAAATTCATGCATTCAAGGGAATCATATTGAAATAATATCAAGTCA
** * *
10989 AACCAAATGAAACCAATATCAAGTCAAAATGTAGCTAGTAAGGTACCGATTTCGGGCGTCGCGAG
391 AACCAAATGAAACCAATATCAAGTCAAAA-GTAGCTAACAAGGTACCAATTTCGGGCATCGCGAG
* *
11054 GAGGTTCGTACCTCTTTACGCGTAACCAACTCCCGGACCCAATCGACGAATCTTTGAAGTACGTA
455 GAGGTTCGTACCTCTTTACGCGTAAACAACTCCCAGACCCAATCGACGAATCTTTGAAGTACGTA
*
11119 GACCACGGGATCGATGTCTCGAGTTTCGTAACTCAAGATATAGGTTTCAATAGGCATCCGATCAT
520 GACCACGGGATCGATGTCTCGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCAT
* * *
11184 GCCTAGCCCGAAATGAT-TTGGCGACTCCAAAATTTCGGTCACTTT-GTGGTGACCCTCAAAGAT
585 GCCTAGCCCAAAATGATCGTGGCGACTCCAAAATTTCAGTCA-TTTCGTGGTGACCCTCAAAGAT
* * *
11247 CGATTAGATGGGCGATTCATCTACCGATCTTCCCCCTTT-AATCAATATATTTCTCATCATGCCA
649 CGATTAGATGGGCGACTCATCTACCGATCTTCCCCCTTTCAA-C-ATATATCTCTCACCATGCCA
* * *
11311 TGGAAATCCCTAATCGCGAGGGATATTAAGTCGGGCGTGCCTCATCTGTCCCTATCGTCGAGGTC
712 TAGAAATCCCCAATCACGAGGGATATTAAGTCGGGCGTGCCTCATCTGTCCCTATCGTCGAGGTC
11376 CGAGCGCACGTTGCGATA
777 CGAGCGCACGTTGCGATA
* * *
11394 GTCTCCAATATTGTCAATTTGGTTTTTTTTTTAATAATCAAGGAGAATTGTGAGATATATTTCGA
1 GTCTCCAATATTGTCAATTTAGTTATTTTTTTAATAATCAAGGACAATTGTGAGATATATTTCGA
* * * *
11459 TCGT-CTTTTCTTTTCTTTATTGTTACTTTGTGTGAATTATTTTATATA-ACTT-TGTTACTTGT
66 TCGTCCCTCT-TTTTCTTTATTGTTACTTTGTGTGAATTATTTTATA-ACA-TTATGTTACCTAT
* * *
11521 TG-CCATACTAACAAATTTTCATTATGATGATTATTTGCATCCATATTTTCAAAATTTGT-TT-G
128 TGTCC-TACTAAC--A--TT--TT-TGATGAATA-TT--AT--AT-TTTCCAAAATTT-TCTTAC
* *
11583 AAAAATTG-TAAAAGCAATGTTTCGTGTCGGTATCTCTGCAGTACTTGACACGGAATA-CCTAGT
178 AAAAATTGAT-AAAGCAATGTTCCGTGTCGGTATCTCTCCAGTACTTGACACGGAATATCC-AGT
* * * *
11646 TTTCAAAGTAAAATCCAGAGGTCATTTTATGTCTTTATGTTCCCCATCTCTCCGAGGCATATACG
241 TTTCAAAATAAAATCCAGAGGTCATTTTATGTCTCTATGTACCCCATCTCTCCGAGGCACATA-G
*
11711 G-GATTAAAACCTTTTATCAAACCTAGATTTATTTTTATACAAAATTCATGCATTCAAGGGGATC
305 GAGATTAAAA-CTTTTATCAAACCTAGATTTATTTTTATACAAAATTCATGCATTCAAGGGAATC
* * *
11775 ATATT-AAGATAATATTAAGTCGAAACC-AATGAAACTAATGTCAAGTCAAACA-TAGCTAACAA
369 ATATTGAA-ATAATATCAAGTC-AAACCAAATGAAACCAATATCAAGTCAAA-AGTAGCTAACAA
*
11837 GGTACCAATTTTGGGCATCGCGAGGAGGTTCGTACCTCTTTACGCGTAAACAACTCCCAGACCCA
431 GGTACCAATTTCGGGCATCGCGAGGAGGTTCGTACCTCTTTACGCGTAAACAACTCCCAGACCCA
* *
11902 ATCGACGAATCTTTGAAGTATGTAGACTACGGGATCGATGTCTCGAGTTTCGTAACTCAAGACAT
496 ATCGACGAATCTTTGAAGTACGTAGACCACGGGATCGATGTCTCGAGTTTCGTAACTCAAGACAT
* * **
11967 AGGTTTCAATAGGCATCCGATCATGCCTAGCTCAAAATGATCGGTGGTGACTTTAAAATTTCAGT
561 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATC-GTGGCGACTCCAAAATTTCAGT
* * * * ** *
12032 CATTTCGTGGTGATCGTCGAGGATCGATTAGATGGGCGACTCATCTATTGATCTTCCCCTTTTCA
625 CATTTCGTGGTGACCCTCAAAGATCGATTAGATGGGCGACTCATCTACCGATCTTCCCCCTTTCA
* *
12097 ACATATATCTCTTACCATGCCGTAGAAATCCCCAATCACGAGGGATATTAAGT
690 ACATATATCTCTCACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGT
12150 TGGACGCACC
Statistics
Matches: 660, Mismatches: 67, Indels: 45
0.85 0.09 0.06
Matches are distributed among these distances:
794 4 0.01
795 117 0.18
796 3 0.00
797 1 0.00
799 2 0.00
801 2 0.00
802 7 0.01
803 2 0.00
805 2 0.00
806 3 0.00
807 288 0.44
808 151 0.23
809 76 0.12
810 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (794 bp):
GTCTCCAATATTGTCAATTTAGTTATTTTTTTAATAATCAAGGACAATTGTGAGATATATTTCGA
TCGTCCCTCTTTTTCTTTATTGTTACTTTGTGTGAATTATTTTATAACATTATGTTACCTATTGT
CCTACTAACATTTTTGATGAATATTATATTTTCCAAAATTTTCTTACAAAAATTGATAAAGCAAT
GTTCCGTGTCGGTATCTCTCCAGTACTTGACACGGAATATCCAGTTTTCAAAATAAAATCCAGAG
GTCATTTTATGTCTCTATGTACCCCATCTCTCCGAGGCACATAGGAGATTAAAACTTTTATCAAA
CCTAGATTTATTTTTATACAAAATTCATGCATTCAAGGGAATCATATTGAAATAATATCAAGTCA
AACCAAATGAAACCAATATCAAGTCAAAAGTAGCTAACAAGGTACCAATTTCGGGCATCGCGAGG
AGGTTCGTACCTCTTTACGCGTAAACAACTCCCAGACCCAATCGACGAATCTTTGAAGTACGTAG
ACCACGGGATCGATGTCTCGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCATG
CCTAGCCCAAAATGATCGTGGCGACTCCAAAATTTCAGTCATTTCGTGGTGACCCTCAAAGATCG
ATTAGATGGGCGACTCATCTACCGATCTTCCCCCTTTCAACATATATCTCTCACCATGCCATAGA
AATCCCCAATCACGAGGGATATTAAGTCGGGCGTGCCTCATCTGTCCCTATCGTCGAGGTCCGAG
CGCACGTTGCGATA
Found at i:22947 original size:11 final size:11
Alignment explanation
Indices: 22931--23025 Score: 61
Period size: 11 Copynumber: 8.3 Consensus size: 11
22921 CTTCTTACAC
22931 AAAAAAAAC-A
1 AAAAAAAACAA
*
22941 AAAAAAAACCA
1 AAAAAAAACAA
*
22952 AAAAAAGACAA
1 AAAAAAAACAA
22963 AAAAATAAA-AA
1 AAAAA-AAACAA
22974 AAAACCCTAAAA-AA
1 AAAA----AAAACAA
22988 ACAAAAAAATCAA
1 A-AAAAAAA-CAA
* *
23001 GAAAAAAATAA
1 AAAAAAAACAA
*
23012 CAAAAAAACAA
1 AAAAAAAACAA
23023 AAA
1 AAA
23026 GGGGTCCAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
10 9 0.13
11 38 0.56
12 9 0.13
13 2 0.03
14 6 0.09
15 4 0.06
ACGTcount: A:0.82, C:0.12, G:0.02, T:0.04
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:22965 original size:30 final size:29
Alignment explanation
Indices: 22929--23025 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 29
22919 TCCTTCTTAC
22929 ACAAAAAAAACAAAAAAAAACCAAAAAAA
1 ACAAAAAAAACAAAAAAAAACCAAAAAAA
* *
22958 GACAAAAAAATA-AAAAAAAACCCTAAAAAA
1 -ACAAAAAAA-ACAAAAAAAAACCAAAAAAA
* **
22988 ACAAAAAAATCAAGAAAAAAATAACAAAAAA
1 ACAAAAAAAACAA-AAAAAAACCA-AAAAAA
23019 ACAAAAA
1 ACAAAAA
23026 GGGGTCCAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
29 11 0.20
30 31 0.55
31 14 0.25
ACGTcount: A:0.81, C:0.12, G:0.02, T:0.04
Consensus pattern (29 bp):
ACAAAAAAAACAAAAAAAAACCAAAAAAA
Found at i:22972 original size:29 final size:28
Alignment explanation
Indices: 22932--23025 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 28
22922 TTCTTACACA
*
22932 AAAAAAACAAAAAAAAACCAAAAAAAGAC
1 AAAAAAATAAAAAAAAACCAAAAAAA-AC
*
22961 AAAAAAATAAAAAAAAACCCTAAAAAAAC
1 AAAAAAATAAAAAAAAA-CCAAAAAAAAC
**
22990 AAAAAAATCAAGAAAAAAATAACAAAAAAAC
1 AAAAAAAT-AA-AAAAAAACCA-AAAAAAAC
23021 AAAAA
1 AAAAA
23026 GGGGTCCAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
29 26 0.46
30 10 0.18
31 20 0.36
ACGTcount: A:0.82, C:0.12, G:0.02, T:0.04
Consensus pattern (28 bp):
AAAAAAATAAAAAAAAACCAAAAAAAAC
Found at i:23529 original size:20 final size:20
Alignment explanation
Indices: 23504--23545 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
23494 TACTCATGCC
23504 CTGGCCTCCAAGATCAGGAG
1 CTGGCCTCCAAGATCAGGAG
*
23524 CTGGCCTTCAAGATCAGGAG
1 CTGGCCTCCAAGATCAGGAG
23544 CT
1 CT
23546 TGCCACATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.19
Consensus pattern (20 bp):
CTGGCCTCCAAGATCAGGAG
Found at i:24149 original size:28 final size:28
Alignment explanation
Indices: 24117--24521 Score: 485
Period size: 28 Copynumber: 14.1 Consensus size: 28
24107 CAATCAACTC
*
24117 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
24145 TTCAAAGCCCACAAGTCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
24173 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
24202 TTCAAAGCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
24230 TTCAAAGCCCACAAGTCAGTGGTACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
24258 TTTAAAGCCCACAAGTTAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
24286 TTCAAAGCCCACAAGTTAGTGGCACTATT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
24315 TTCAAAGCCCACAAGTTAGTGGTATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
24343 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
24371 TTCAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAGCCCACAAGTCAGTGGC-ACCTT
*
24399 TTCAAAACCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* * *
24428 TTCAAAGCCCACAAGCCAGTGGTAACTATT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CTT
*
24458 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
* *
24490 TTCAAAGCCCACACAAGTTAGTGGCACTTT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCTT
24520 TT
1 TT
24522 TTTAAAAAAA
Statistics
Matches: 334, Mismatches: 26, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
27 7 0.02
28 192 0.57
29 76 0.23
30 24 0.07
31 2 0.01
32 27 0.08
33 2 0.01
34 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:24223 original size:85 final size:84
Alignment explanation
Indices: 24117--24502 Score: 495
Period size: 85 Copynumber: 4.5 Consensus size: 84
24107 CAATCAACTC
24117 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
24182 CACAAGTCAGTGGCACTCTT
66 CACAAGTCAGTGGCAC-CTT
* * * *
24202 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGTA-CCTTTTTAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGC
*
24266 CCACAAGTTAGTGGCACCTT
65 CCACAAGTCAGTGGCACCTT
* ** * *
24286 TTCAAAGCCCACAAGTTAGTGGCACTATTTTCAAAGCCCACAAGTTAGTGGTATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* *
24351 CCATAAGTCAGTGGCACCCT
65 CCACAAGTCAGTGGCACCTT
* * *
24371 TTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGC
* * *
24436 CCACAAGCCAGTGGTAACTATT
65 CCACAAGTCAGTGG-CAC-CTT
* *
24458 TTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACA
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAGCCCACA
24503 CAAGTTAGTG
Statistics
Matches: 261, Mismatches: 30, Indels: 14
0.86 0.10 0.05
Matches are distributed among these distances:
84 51 0.20
85 168 0.64
86 4 0.02
87 14 0.05
89 9 0.03
90 1 0.00
91 14 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (84 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
CACAAGTCAGTGGCACCTT
Found at i:24317 original size:113 final size:112
Alignment explanation
Indices: 24117--24516 Score: 548
Period size: 113 Copynumber: 3.5 Consensus size: 112
24107 CAATCAACTC
24117 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCC
*
24182 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCT
65 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGAATCCT
* * * *
24230 TTCAAAGCCCACAAGTCAGTGGTACCTTTTTAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCC
* * *
24295 CACAAGTTAGTGGCACTATTTTCAAAGCCCACAAGTTAGTGGTATCCT
65 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGAATCCT
* *
24343 TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAACC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACCTTTCAAAGCC
** **
24408 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGCCAGTGGTAACTATT
65 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGG-AA-TCCT
* * *
24458 TTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCAC
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCAC
24517 TTTTTTTTAA
Statistics
Matches: 253, Mismatches: 24, Indels: 13
0.87 0.08 0.04
Matches are distributed among these distances:
112 2 0.01
113 196 0.77
114 4 0.02
115 14 0.06
117 9 0.04
118 2 0.01
119 9 0.04
120 4 0.02
121 13 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (112 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCC
ACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGAATCCT
Found at i:31292 original size:15 final size:15
Alignment explanation
Indices: 31250--31297 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
31240 GCCGTGTATC
31250 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
* * **
31265 GGTAATTAGGTGGTG
1 GATGATTTTGTGGTG
*
31280 GATGATTTTGTGGCG
1 GATGATTTTGTGGTG
31295 GAT
1 GAT
31298 TTAGCGGAAT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.02, G:0.42, T:0.40
Consensus pattern (15 bp):
GATGATTTTGTGGTG
Found at i:39181 original size:51 final size:50
Alignment explanation
Indices: 39119--39351 Score: 229
Period size: 51 Copynumber: 4.8 Consensus size: 50
39109 TAACTTGATG
*
39119 TATCGATACATTGAAAAATGTATCGATACATCTGAGTAAAAGGACAGAGTA
1 TATCGATACATTGAAAAATGTATCGATACATCTGAGTAAAA-GACAGAATA
* * * * *
39170 TATCCATACATTGAAGAATGTATCGATACAT-TCAG-ATATG-C-----A
1 TATCGATACATTGAAAAATGTATCGATACATCTGAGTAAAAGACAGAATA
* * *
39212 T-T-GATACATTGAAGAATGTATCAATACATCTTG-GTAAAAGACAGAATG
1 TATCGATACATTGAAAAATGTATCGATACATC-TGAGTAAAAGACAGAATA
* *
39260 TATCGATACAATGAAAAATGTATCGATACATCT-AGGTAAAAAGACAGAATG
1 TATCGATACATTGAAAAATGTATCGATACATCTGA-GT-AAAAGACAGAATA
* *
39311 TATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAA
1 TATCGATACATTGAAAAATGTATCGATACATCTGAGTAAAA
39352 ATGTGACTTT
Statistics
Matches: 150, Mismatches: 17, Indels: 31
0.76 0.09 0.16
Matches are distributed among these distances:
40 25 0.17
41 2 0.01
42 6 0.04
43 1 0.01
47 1 0.01
48 2 0.01
49 4 0.03
50 34 0.23
51 75 0.50
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.27
Consensus pattern (50 bp):
TATCGATACATTGAAAAATGTATCGATACATCTGAGTAAAAGACAGAATA
Found at i:39198 original size:20 final size:20
Alignment explanation
Indices: 39170--39240 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
39160 GGACAGAGTA
*
39170 TATCCATACATTGAAGAATG
1 TATCGATACATTGAAGAATG
*
39190 TATCGATACATT-CAGATATG
1 TATCGATACATTGAAGA-ATG
* *
39210 CATTGATACATTGAAGAATG
1 TATCGATACATTGAAGAATG
*
39230 TATCAATACAT
1 TATCGATACAT
39241 CTTGGTAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 3 0.07
20 35 0.85
21 3 0.07
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACATTGAAGAATG
Found at i:39300 original size:24 final size:24
Alignment explanation
Indices: 39273--39355 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 24
39263 CGATACAATG
39273 AAAAATGTATCGATACATCTAGGT
1 AAAAATGTATCGATACATCTAGGT
39297 AAAAAGACAGAATGTATCGATACAT-TA---
1 ----A-A-A-AATGTATCGATACATCTAGGT
*
39324 AAAAATGTATCGATACATCTGGGT
1 AAAAATGTATCGATACATCTAGGT
39348 AAAAATGT
1 AAAAATGT
39356 GACTTTTTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 18
0.71 0.02 0.27
Matches are distributed among these distances:
20 15 0.32
21 2 0.04
22 1 0.02
23 1 0.02
24 8 0.17
28 1 0.02
29 1 0.02
30 3 0.06
31 15 0.32
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.27
Consensus pattern (24 bp):
AAAAATGTATCGATACATCTAGGT
Found at i:40539 original size:107 final size:107
Alignment explanation
Indices: 40340--40545 Score: 254
Period size: 107 Copynumber: 1.9 Consensus size: 107
40330 TGTCTACAAT
* * *
40340 ATCTATGATCAAGTTGTAACACAAGAACTCTTATTTTTATAAAGAAGCAAACTACCATTTCAAAC
1 ATCTATGATCAAGTTATAACACAAAAACTCTTATTTTTATAAAGAAGCAAACTACCATGTCAAAC
* *
40405 AACCATAGGAAATTTAATTAAAATTAAC-AAAAATGTATAAC
66 AACCATAAGAAATTTAATCAAAATTAACTAAAAATGTATAAC
* * * * *
40446 ATCTATGATCAAGTTATAACATAAAAACT-TTCGTTTTTGATAAAGAAGTAAACTTCTATGTCAA
1 ATCTATGATCAAGTTATAACACAAAAACTCTT-ATTTTT-ATAAAGAAGCAAACTACCATGTCAA
* ** *
40510 ACAACCTTAAGAAATTTGCTCAAAGTTAACTAAAAA
64 ACAACCATAAGAAATTTAATCAAAATTAACTAAAAA
40546 GCATATAAAC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
105 2 0.02
106 31 0.37
107 45 0.54
108 5 0.06
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (107 bp):
ATCTATGATCAAGTTATAACACAAAAACTCTTATTTTTATAAAGAAGCAAACTACCATGTCAAAC
AACCATAAGAAATTTAATCAAAATTAACTAAAAATGTATAAC
Found at i:41556 original size:21 final size:21
Alignment explanation
Indices: 41530--41606 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
41520 TTTTTATCCA
41530 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
41551 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
41572 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
41593 AATGTATCGATACA
1 AATGTATCGATACA
41607 AGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:41689 original size:19 final size:21
Alignment explanation
Indices: 41641--41695 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
41631 AATTCCAATA
*
41641 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
41662 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
41682 -TTTGTATCGATACA
1 ATTTGTATCGATACA
41696 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:44177 original size:51 final size:52
Alignment explanation
Indices: 44105--44227 Score: 151
Period size: 51 Copynumber: 2.4 Consensus size: 52
44095 CAATTCTCCG
* * * * * *
44105 CAATCGGAGATATTCCCACTCCGATTTTATTTTC-AAAACGCTAA-TTTTCTA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-A
*
44156 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTTCA
44209 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
44228 CCCGTAATCA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 29 0.48
53 27 0.44
54 5 0.08
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCA
Found at i:44218 original size:53 final size:51
Alignment explanation
Indices: 44105--44227 Score: 149
Period size: 53 Copynumber: 2.4 Consensus size: 51
44095 CAATTCTCCG
* * * * * *
44105 CAATCGGAGATATTCCCACTCCGATTTTATTTTCAAAACGCTAATTTTCTA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
*
44156 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAATTTTCT-A
44209 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
44228 CCCGTAATCA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 29 0.48
52 1 0.02
53 31 0.51
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
Found at i:44394 original size:76 final size:78
Alignment explanation
Indices: 44237--44412 Score: 268
Period size: 76 Copynumber: 2.3 Consensus size: 78
44227 CCCCGTAATC
* * * *
44237 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCTGCTTTATTCTTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGA-ACTCCAACCCCGGCTTTATTCTCAAAAT
44302 ATTGATTTCTCATA
65 ATTGATTTCTCATA
*
44316 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGG-A-TCCAATCCCGGCTTTATT-TCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGAACTCCAACCCCGGCTTTATTCT-CAAAAT
44378 ATTGATTTCTCATA
65 ATTGATTTCTCATA
44392 ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
44413 ATTTTATTTC
Statistics
Matches: 91, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
75 1 0.01
76 56 0.62
77 1 0.01
79 33 0.36
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGAACTCCAACCCCGGCTTTATTCTCAAAATA
TTGATTTCTCATA
Found at i:44421 original size:51 final size:51
Alignment explanation
Indices: 44364--44564 Score: 215
Period size: 51 Copynumber: 3.9 Consensus size: 51
44354 CAATCCCGGC
* *
44364 TTTATTTCCAAAATATTGA-TTTCTCATAATCGGGGATACTCCAACCCCGAT
1 TTTATTTCCAAAACATTAATTTTC-CATAATCGGGGATACTCCAACCCCGAT
* * *
44415 TTTATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCCCGGT
1 TTTATTTCCAAAACATTAATTTTCCATAATCGGGGATACTCCAACCCCGAT
* ** * **
44466 TTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAATTCCGAT
1 TTTATTTCCAAAACATTAATTTTCC-ATAATCGGGGATACTCCAACCCCGAT
* ** * * *
44518 TTTATTTCTAAAAACACCAATTTTTCACAATCGAGGATACTCCAACC
1 TTTATTTC-CAAAACATTAATTTTCCATAATCGGGGATACTCCAACC
44565 TCATTATTTC
Statistics
Matches: 125, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
51 62 0.50
52 48 0.38
53 15 0.12
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (51 bp):
TTTATTTCCAAAACATTAATTTTCCATAATCGGGGATACTCCAACCCCGAT
Found at i:44521 original size:52 final size:51
Alignment explanation
Indices: 44383--44564 Score: 222
Period size: 52 Copynumber: 3.5 Consensus size: 51
44373 AAAATATTGA
**
44383 TTTCTCATAATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACATTAAT
1 TTTC-CATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAAT
* *
44435 TTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAT
1 TTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAT
* ** *
44486 TTTCCTTTAATCGGGGATACTCCAATTCCGATTTTATTTCTAAAAACACCAAT
1 TTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTT-TCAAAACACCAAT
* * *
44539 TTTTCACAATCGAGGATACTCCAACC
1 TTTCCATAATCGGGGATACTCCAACC
44565 TCATTATTTC
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
51 43 0.39
52 52 0.47
53 16 0.14
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (51 bp):
TTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAT
Found at i:44599 original size:28 final size:29
Alignment explanation
Indices: 44547--44628 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 29
44537 ATTTTTCACA
* *
44547 ATCGAGGATACTCCAA-CCTCATTATTTC-
1 ATCGGGGATACTCCAACCCT-GTTATTTCG
44575 ATCGGGGATACTCCAACCCTGTTATCTTCG
1 ATCGGGGATACTCCAACCCTGTTAT-TTCG
*
44605 A--GGGGATACTCCAACCCCGTTATT
1 ATCGGGGATACTCCAACCCTGTTATT
44629 ATCTCCAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
27 1 0.02
28 40 0.83
29 6 0.12
30 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCTGTTATTTCG
Found at i:53662 original size:22 final size:22
Alignment explanation
Indices: 53637--53678 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
53627 AATTTTTTGA
53637 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
53659 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
53679 ATGTTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:54278 original size:13 final size:13
Alignment explanation
Indices: 54260--54286 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54250 ACATTATGCT
54260 TTGTATCGATACA
1 TTGTATCGATACA
54273 TTGTATCGATACA
1 TTGTATCGATACA
54286 T
1 T
54287 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:54301 original size:32 final size:33
Alignment explanation
Indices: 54241--54305 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
54231 CACACCCAGA
*
54241 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
*
54274 TGTATCGATACA-TATTCATTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
54306 AGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATGCATTGTATCGATACAT
Found at i:54316 original size:20 final size:19
Alignment explanation
Indices: 54270--54325 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
54260 TTGTATCGAT
*
54270 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATAG
*
54289 TCATTGTATCGATACATAG
1 ACATTGTATCGATACATAG
54308 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
54326 GAAACTGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATAG
Found at i:54389 original size:13 final size:13
Alignment explanation
Indices: 54371--54423 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
54361 TAATACATGG
54371 TACATTGTATCGA
1 TACATTGTATCGA
54384 TACATTGTATCGA
1 TACATTGTATCGA
54397 TACA-TG-AT-G-
1 TACATTGTATCGA
54406 -A-ATTGTATCGA
1 TACATTGTATCGA
54417 TACATTG
1 TACATTG
54424 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:55828 original size:129 final size:129
Alignment explanation
Indices: 55598--55857 Score: 475
Period size: 129 Copynumber: 2.0 Consensus size: 129
55588 AGATTATGTC
55598 TTTATGATATTTGTCTTTCGAGAAAAAATTGCCTATAAAGTTTCTTAACATTAGTATATATCTCT
1 TTTATGATATTTGTCTTTCGAGAAAAAATTGCCTATAAAGTTTCTTAACATTAGTATATATCTCT
* * *
55663 TCTATTCAAATTATGTCGTGTAATCACATTATTAAAAAACGTTAACTATTTAGTATCTAAACTA
66 TCTATTCAAATTATGTCGTATAATCACATTATTAAAAAAAGTCAACTATTTAGTATCTAAACTA
*
55727 TTTATGATATTTGTCTTTCGAGAAAGAATTGCCTATAAAGTTTCTTAACATTAGTATATATCTCT
1 TTTATGATATTTGTCTTTCGAGAAAAAATTGCCTATAAAGTTTCTTAACATTAGTATATATCTCT
*
55792 TCTATTCAAATTATGTCGTATAATCACATTATTAAAAAAAGTCAACTATTTATTATCTAAACTA
66 TCTATTCAAATTATGTCGTATAATCACATTATTAAAAAAAGTCAACTATTTAGTATCTAAACTA
55856 TT
1 TT
55858 AATTAGTCTT
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (129 bp):
TTTATGATATTTGTCTTTCGAGAAAAAATTGCCTATAAAGTTTCTTAACATTAGTATATATCTCT
TCTATTCAAATTATGTCGTATAATCACATTATTAAAAAAAGTCAACTATTTAGTATCTAAACTA
Found at i:56946 original size:32 final size:33
Alignment explanation
Indices: 56905--56968 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
56895 ACAATTTGTT
*
56905 GTGTATCAATACCAAG-ATCATATATCGATATA
1 GTGTATCAATACAAAGTATCATATATCGATATA
* *
56937 GTGTATCAATACAAAGTATTATGTATCGATAT
1 GTGTATCAATACAAAGTATCATATATCGATAT
56969 TTCTAGGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (33 bp):
GTGTATCAATACAAAGTATCATATATCGATATA
Found at i:58893 original size:13 final size:14
Alignment explanation
Indices: 58875--58908 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
58865 CTTCGAAGAA
58875 GGTTTGATTTT-GG
1 GGTTTGATTTTGGG
58888 GGTTTGATTTTGGG
1 GGTTTGATTTTGGG
58902 GGTTTGA
1 GGTTTGA
58909 GGACGAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.09, C:0.00, G:0.41, T:0.50
Consensus pattern (14 bp):
GGTTTGATTTTGGG
Found at i:62977 original size:570 final size:570
Alignment explanation
Indices: 61898--63041 Score: 2261
Period size: 570 Copynumber: 2.0 Consensus size: 570
61888 GCATTTTTTC
61898 TTTGTAAAGTTCATATGAAGTTTTCTTTAAAATTGGCCTAATCATAGCTCAGTTTACAATATAGC
1 TTTGTAAAGTTCATATGAAGTTTTCTTTAAAATTGGCCTAATCATAGCTCAGTTTACAATATAGC
61963 ATGCAGTATTAATGGCTTCCGCCCAAAAATATCTTGGTAAGTTATTTTTACAAAGCATGGTCCTA
66 ATGCAGTATTAATGGCTTCCGCCCAAAAATATCTTGGTAAGTTATTTTTACAAAGCATGGTCCTA
62028 GCCATTTCTTCCAAAGTCTGATTTTTCCTTTCAACAACTCCATTTTGTTGAAGAGTTCTAGGAGC
131 GCCATTTCTTCCAAAGTCTGATTTTTCCTTTCAACAACTCCATTTTGTTGAAGAGTTCTAGGAGC
62093 TGAGAAATTATGGCTAATACAGTTTTCATTACAAAAGTTATCAAAACCAAGATTCTCAAATTCTC
196 TGAGAAATTATGGCTAATACAGTTTTCATTACAAAAGTTATCAAAACCAAGATTCTCAAATTCTC
62158 TACCATGGTCACTTCTTATTCTAGATAAGGAGTAACCTTTTTCATTTTGAACAATTTTACAAAAA
261 TACCATGGTCACTTCTTATTCTAGATAAGGAGTAACCTTTTTCATTTTGAACAATTTTACAAAAA
62223 GTGATGAATTTTTCTAAAGCTTCGTTTTTTGTGCTTAAGAATAAAACCCAAGTATATCTAAAATA
326 GTGATGAATTTTTCTAAAGCTTCGTTTTTTGTGCTTAAGAATAAAACCCAAGTATATCTAAAATA
62288 ATCATCCACAAAAACAAATATGTATCTTTTAACACCTAGACTTTGCATTCTAGTTGGACTAAATA
391 ATCATCCACAAAAACAAATATGTATCTTTTAACACCTAGACTTTGCATTCTAGTTGGACTAAATA
62353 AGTCGATGTGAACTAATTGCAAAACTCTAGAGGTCGTGACAATGTTTATTGGTTTAAAAGAATTT
456 AGTCGATGTGAACTAATTGCAAAACTCTAGAGGTCGTGACAATGTTTATTGGTTTAAAAGAATTT
62418 CTTCTATGCTTACCCTTAATGCATGCATCACATACTTTATTGCAATCAAA
521 CTTCTATGCTTACCCTTAATGCATGCATCACATACTTTATTGCAATCAAA
62468 TTTGTAAAGTTCATATGAAGTTTTCTTTAAAATTGGCCTAATCATAGCTCAGTTTACAATATAGC
1 TTTGTAAAGTTCATATGAAGTTTTCTTTAAAATTGGCCTAATCATAGCTCAGTTTACAATATAGC
62533 ATGCAGTATTAATGGCTTCCGCCCAAAAATATCTTGGTAAGTTATTTTTACAAAGCATGGTCCTA
66 ATGCAGTATTAATGGCTTCCGCCCAAAAATATCTTGGTAAGTTATTTTTACAAAGCATGGTCCTA
*
62598 GCCATTTCTTCCAAAGTCTGATTTTTCTTTTCAACAACTCCATTTTGTTGAAGAGTTCTAGGAGC
131 GCCATTTCTTCCAAAGTCTGATTTTTCCTTTCAACAACTCCATTTTGTTGAAGAGTTCTAGGAGC
62663 TGAGAAATTATGGCTAATACAGTTTTCATTACAAAAGTTATCAAAACCAAGATTCTCAAATTCTC
196 TGAGAAATTATGGCTAATACAGTTTTCATTACAAAAGTTATCAAAACCAAGATTCTCAAATTCTC
62728 TACCATGGTCACTTCTTATTCTAGATAAGGAGTAACCTTTTTCATTTTGAACAATTTTACAAAAA
261 TACCATGGTCACTTCTTATTCTAGATAAGGAGTAACCTTTTTCATTTTGAACAATTTTACAAAAA
* *
62793 GTGATTAATTTTTCTAAAGCTTCGTTTTTTGTGCTTAAGAATAAAACCCAAGTATATCTAGAATA
326 GTGATGAATTTTTCTAAAGCTTCGTTTTTTGTGCTTAAGAATAAAACCCAAGTATATCTAAAATA
62858 ATCATCCACAAAAACAAATATGTATCTTTTAACACCTAGACTTTGCATTCTAGTTGGACTAAATA
391 ATCATCCACAAAAACAAATATGTATCTTTTAACACCTAGACTTTGCATTCTAGTTGGACTAAATA
62923 AGTCGATGTGAACTAATTGCAAAACTCTAGAGGTCGTGACAATGTTTATTGGTTTAAAAGAATTT
456 AGTCGATGTGAACTAATTGCAAAACTCTAGAGGTCGTGACAATGTTTATTGGTTTAAAAGAATTT
62988 CTTCTATGCTTACCCTTAATGCATGCATCACATACTTTATTGCAATCAAA
521 CTTCTATGCTTACCCTTAATGCATGCATCACATACTTTATTGCAATCAAA
63038 TTTG
1 TTTG
63042 ACCTTAGGTA
Statistics
Matches: 571, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
570 571 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (570 bp):
TTTGTAAAGTTCATATGAAGTTTTCTTTAAAATTGGCCTAATCATAGCTCAGTTTACAATATAGC
ATGCAGTATTAATGGCTTCCGCCCAAAAATATCTTGGTAAGTTATTTTTACAAAGCATGGTCCTA
GCCATTTCTTCCAAAGTCTGATTTTTCCTTTCAACAACTCCATTTTGTTGAAGAGTTCTAGGAGC
TGAGAAATTATGGCTAATACAGTTTTCATTACAAAAGTTATCAAAACCAAGATTCTCAAATTCTC
TACCATGGTCACTTCTTATTCTAGATAAGGAGTAACCTTTTTCATTTTGAACAATTTTACAAAAA
GTGATGAATTTTTCTAAAGCTTCGTTTTTTGTGCTTAAGAATAAAACCCAAGTATATCTAAAATA
ATCATCCACAAAAACAAATATGTATCTTTTAACACCTAGACTTTGCATTCTAGTTGGACTAAATA
AGTCGATGTGAACTAATTGCAAAACTCTAGAGGTCGTGACAATGTTTATTGGTTTAAAAGAATTT
CTTCTATGCTTACCCTTAATGCATGCATCACATACTTTATTGCAATCAAA
Found at i:66314 original size:20 final size:20
Alignment explanation
Indices: 66289--66340 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
66279 TGCCAGTTTC
66289 ATGTATCGATACAATTCGCT
1 ATGTATCGATACAATTCGCT
66309 ATGTATCGATACAATTCGCT
1 ATGTATCGATACAATTCGCT
*
66329 GTGTATCGATAC
1 ATGTATCGATAC
66341 CAAGATCGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCGCT
Found at i:66405 original size:20 final size:21
Alignment explanation
Indices: 66382--66420 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
66372 CAAAGCAATA
66382 TGTATCGATAC-TTCTAGGTC
1 TGTATCGATACTTTCTAGGTC
66402 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
66421 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGTC
Found at i:67859 original size:21 final size:21
Alignment explanation
Indices: 67818--67858 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
67808 ATTTTTTTAG
67818 TTTTTATCTTATAATATTATA
1 TTTTTATCTTATAATATTATA
*
67839 TTTTTATATT-T-ATATTATA
1 TTTTTATCTTATAATATTATA
67858 T
1 T
67859 AAAATACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 9 0.47
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATCTTATAATATTATA
Found at i:67889 original size:20 final size:23
Alignment explanation
Indices: 67849--67889 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
67839 TTTTTATATT
67849 TATATTATATAAAATACATAATA
1 TATATTATATAAAATACATAATA
67872 TATATT-TA-AAAATA-ATAA
1 TATATTATATAAAATACATAA
67890 ATTATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 2 0.11
23 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TATATTATATAAAATACATAATA
Found at i:67895 original size:20 final size:22
Alignment explanation
Indices: 67848--67896 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
67838 ATTTTTATAT
67848 TTATATTATATAAAATACATAA
1 TTATATTATATAAAATACATAA
67870 TATATATT-TA-AAAATA-ATAAA
1 T-TATATTATATAAAATACAT-AA
67891 TTATAT
1 TTATAT
67897 AATTGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.28
21 9 0.36
22 3 0.12
23 6 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTATATTATATAAAATACATAA
Found at i:69121 original size:33 final size:32
Alignment explanation
Indices: 69069--69142 Score: 103
Period size: 33 Copynumber: 2.3 Consensus size: 32
69059 TAAGAAATTT
* *
69069 GATCCAAGTTAACCAAAAGTGTATAATATCTAA
1 GATCAAAGTAAACCAAAAGTGTATAA-ATCTAA
**
69102 GATCAAAGTAAACCAAAAGTGTATAAATCTGT
1 GATCAAAGTAAACCAAAAGTGTATAAATCTAA
69134 GATCAAAGT
1 GATCAAAGT
69143 TAACAGCTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 13 0.35
33 24 0.65
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.26
Consensus pattern (32 bp):
GATCAAAGTAAACCAAAAGTGTATAAATCTAA
Found at i:80786 original size:14 final size:14
Alignment explanation
Indices: 80767--80801 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
80757 CTAATATGAA
80767 TATATTTTAATTTT
1 TATATTTTAATTTT
80781 TATATTTTAATTTT
1 TATATTTTAATTTT
80795 TATATTT
1 TATATTT
80802 ACACGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTTTAATTTT
Found at i:82735 original size:22 final size:21
Alignment explanation
Indices: 82710--82753 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
82700 TAATTAGTTC
82710 GAAATCAA-AAAAATCTAAAATT
1 GAAAT-AATAAAAAT-TAAAATT
82732 GAAATAATTAAAAATTAAAATT
1 GAAATAA-TAAAAATTAAAATT
82754 ACGTAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.10
22 12 0.60
23 6 0.30
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (21 bp):
GAAATAATAAAAATTAAAATT
Found at i:82785 original size:17 final size:17
Alignment explanation
Indices: 82711--82793 Score: 66
Period size: 16 Copynumber: 4.9 Consensus size: 17
82701 AATTAGTTCG
* *
82711 AAATCAAAAAAATCT-A
1 AAATTAAAATAATCTAA
*
82727 AAATTGAAATAAT-TAA
1 AAATTAAAATAATCTAA
*
82743 AAATTAAAATTA-CGT-A
1 AAATTAAAATAATC-TAA
*
82759 AACTTAAAAATAATCTAA
1 AAATT-AAAATAATCTAA
82777 AAATTAAAATAACTCTA
1 AAATTAAAATAA-TCTA
82794 TCATTGATAG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
15 1 0.02
16 26 0.50
17 15 0.29
18 10 0.19
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.28
Consensus pattern (17 bp):
AAATTAAAATAATCTAA
Found at i:83601 original size:12 final size:12
Alignment explanation
Indices: 83576--83608 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
83566 AACATTATAT
83576 TTAAAA-AT-AA
1 TTAAAATATAAA
83586 TTAAAATATAAA
1 TTAAAATATAAA
83598 TTAAAATATAA
1 TTAAAATATAA
83609 TATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.29
11 2 0.10
12 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAATATAAA
Found at i:83608 original size:23 final size:22
Alignment explanation
Indices: 83576--83628 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
83566 AACATTATAT
83576 TTAAAAATAAT-TAA-AATATAAA
1 TTAAAAATAATATAATAA-A-AAA
83598 TTAAAATATAATATAATAAAAAA
1 TTAAAA-ATAATATAATAAAAAA
83621 TTAAAAAT
1 TTAAAAAT
83629 TTACACGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.29
23 14 0.50
24 4 0.14
25 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAAATAATATAATAAAAAA
Found at i:86078 original size:2 final size:2
Alignment explanation
Indices: 86071--86109 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
86061 CCTAAAAGAA
86071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
86110 AATTGAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:86997 original size:11 final size:12
Alignment explanation
Indices: 86975--87006 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
86965 AATTTCAAAC
86975 ATAATATAAAAA
1 ATAATATAAAAA
86987 ATAAT-TAAAAA
1 ATAATATAAAAA
86998 ATAATATAA
1 ATAATATAA
87007 CATAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATATAAAAA
Found at i:87054 original size:46 final size:46
Alignment explanation
Indices: 86972--87061 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
86962 AATAATTTCA
*
86972 AACATAATATAAAAAATAATTAAAAAATAATATAACATAAAATATT
1 AACATAATATAAAAAATAAATAAAAAATAATATAACATAAAATATT
* *
87018 AACATGATATAAAAATATAAATAAATTAA-AAT-TAACATAAAATA
1 AACATAATATAAAAA-ATAAATAAA-AAATAATATAACATAAAATA
87062 AATTATTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
46 26 0.67
47 11 0.28
48 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (46 bp):
AACATAATATAAAAAATAAATAAAAAATAATATAACATAAAATATT
Found at i:90683 original size:2 final size:2
Alignment explanation
Indices: 90676--90707 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
90666 TCAATATGTG
90676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90708 CACATTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:91105 original size:2 final size:2
Alignment explanation
Indices: 91098--91128 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
91088 AAGTATTATT
*
91098 TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91129 TGATACGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:95444 original size:3 final size:3
Alignment explanation
Indices: 95436--95477 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
95426 TCAAATACAA
95436 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
95478 TTTAAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:97890 original size:183 final size:184
Alignment explanation
Indices: 97572--97914 Score: 591
Period size: 183 Copynumber: 1.9 Consensus size: 184
97562 GATAAGATGG
* *
97572 AGATTTTATGACACATTTTATATCCAACATTGAGTAAAAGTAGAGAAAGCATTAGAAGCAATATC
1 AGATTTTATGACACATTTTAAATCCAACATTGAGTAAAAGTAGACAAAGCATTAGAAGCAATATC
97637 TGTAAGTTTTGAAATATCCGAATATGCTTAATTTATCTGATATCCAAATCTGTTTACTATCTAAA
66 TGTAAGTTTTGAAATATCC--A-ATGCTTAATTTATCTGATATCCAAATCTGTTTACTATCTAAA
97702 TTTGAATCCAATTTAAATTGTAATATTCGTAAAAGTAGATATATCTGTTTACTATCT
128 TTTGAATCCAATTTAAATTGTAATATTCGTAAAAGTAGATATATCTGTTTACTATCT
* *
97759 AGATTTTATGACACATTTTAAATCCAACATTGGAGTAAAAGTAGACATAGCATTAGAAGGAATAT
1 AGATTTTATGACACATTTTAAATCCAACATT-GAGTAAAAGTAGACAAAGCATTAGAAGCAATAT
97824 CTGTAAGTTTTGAAATAT-C-ATGCTTAATTTATCTGATATCCAAATCTGTTTACTATCTAAATT
65 CTGTAAGTTTTGAAATATCCAATGCTTAATTTATCTGATATCCAAATCTGTTTACTATCTAAATT
*
97887 TGAATCCGATTTAAATTGTAATATTCGT
130 TGAATCCAATTTAAATTGTAATATTCGT
97915 CAGATATTTG
Statistics
Matches: 150, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
183 71 0.47
187 31 0.21
188 48 0.32
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (184 bp):
AGATTTTATGACACATTTTAAATCCAACATTGAGTAAAAGTAGACAAAGCATTAGAAGCAATATC
TGTAAGTTTTGAAATATCCAATGCTTAATTTATCTGATATCCAAATCTGTTTACTATCTAAATTT
GAATCCAATTTAAATTGTAATATTCGTAAAAGTAGATATATCTGTTTACTATCT
Found at i:99666 original size:18 final size:18
Alignment explanation
Indices: 99645--99694 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
99635 TTTAAAATTT
99645 ATATAATATAAATTATTA
1 ATATAATATAAATTATTA
* *
99663 ATAT-ATTTAAATT-TAA
1 ATATAATATAAATTATTA
*
99679 ATA-AATATAAAATATT
1 ATATAATATAAATTATT
99695 TTAAATATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
16 12 0.48
17 9 0.36
18 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATATAAATTATTA
Found at i:100710 original size:8 final size:8
Alignment explanation
Indices: 100699--100724 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
100689 TATTAATATA
100699 AATATTTT
1 AATATTTT
100707 AATATTTT
1 AATATTTT
100715 AATATTTT
1 AATATTTT
100723 AA
1 AA
100725 ATAATGATTC
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:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AATATTTT
Found at i:101180 original size:21 final size:20
Alignment explanation
Indices: 101146--101199 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
101136 ATAAAAATAT
*
101146 ATAAAATTAATTAATTTTAA
1 ATAAAATAAATTAATTTTAA
*
101166 ATAAATATAAATTAATTTTTA
1 ATAAA-ATAAATTAATTTTAA
* *
101187 TTAAAATATATTA
1 ATAAAATAAATTA
101200 TATAAAACCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAAAATAAATTAATTTTAA
Found at i:101193 original size:26 final size:26
Alignment explanation
Indices: 101100--101194 Score: 74
Period size: 25 Copynumber: 3.7 Consensus size: 26
101090 TATTTTAAAC
*
101100 AATTAATTTATTAAAATATTAATAATATGT
1 AATTAA-TTATTAAAATA--AATAAAAT-T
* *
101130 AA-T-ATTATAAAAATATATAAAATT
1 AATTAATTATTAAAATAAATAAAATT
101154 AATTAATT-TT-AAATAAATATAAATT
1 AATTAATTATTAAAATAAATA-AAATT
*
101179 AATT-TTTATTAAAATA
1 AATTAATTATTAAAATA
101195 TATTATATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
24 13 0.24
25 19 0.35
26 8 0.15
27 10 0.19
28 1 0.02
29 1 0.02
30 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
AATTAATTATTAAAATAAATAAAATT
Found at i:101763 original size:23 final size:23
Alignment explanation
Indices: 101735--101783 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
101725 AATCCTTAAT
101735 TTTATATTTATTT-TAATAA-TTTA
1 TTTATATTT-TTTATAA-AATTTTA
101758 TTTATATTTTTTATAAAATTTTA
1 TTTATATTTTTTATAAAATTTTA
101781 TTT
1 TTT
101784 GAATTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATATTTTTTATAAAATTTTA
Found at i:102415 original size:7 final size:7
Alignment explanation
Indices: 102405--102434 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
102395 TTTATTAATT
102405 ATAAATA
1 ATAAATA
102412 ATAAATA
1 ATAAATA
102419 ATAAAT-
1 ATAAATA
102425 ATAAATA
1 ATAAATA
102432 ATA
1 ATA
102435 TAGACTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATAAATA
Found at i:105664 original size:15 final size:16
Alignment explanation
Indices: 105629--105667 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
105619 TTTTATTTTA
105629 AATTTGAAAATATATG
1 AATTTGAAAATATATG
105645 AATTTGAAAA-ATATG
1 AATTTGAAAATATATG
*
105660 GATTTGAA
1 AATTTGAA
105668 TCTCATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (16 bp):
AATTTGAAAATATATG
Found at i:106111 original size:20 final size:19
Alignment explanation
Indices: 106075--106114 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
106065 TAATTTTATT
106075 TAAATTTAATTATAAAATA
1 TAAATTTAATTATAAAATA
106094 TAAATATTAA-TATAAAA-A
1 TAAAT-TTAATTATAAAATA
106112 TAA
1 TAA
106115 TTTTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATTTAATTATAAAATA
Found at i:106918 original size:19 final size:18
Alignment explanation
Indices: 106886--106923 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
106876 TGTTACAATT
106886 TAATTTATTAAATTTATTA
1 TAATTTATTAAATTT-TTA
106905 TAATGTTATT-AATTTTTA
1 TAAT-TTATTAAATTTTTA
106923 T
1 T
106924 TTATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TAATTTATTAAATTTTTA
Found at i:108691 original size:21 final size:21
Alignment explanation
Indices: 108634--108692 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
108624 TTATTCATGC
*
108634 AATAAAAAATTTTATTTAATATT
1 AATAAAAAA--TTATATAATATT
**
108657 AATTATGAAA-TATATAATATT
1 AA-TAAAAAATTATATAATATT
108678 AATAAAAAATTATAT
1 AATAAAAAATTATAT
108693 TTAATATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 5 0.17
21 17 0.59
23 2 0.07
24 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AATAAAAAATTATATAATATT
Found at i:110739 original size:36 final size:35
Alignment explanation
Indices: 110699--110776 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
110689 ACTCATACTT
110699 TATATTCAAAAATA-TAATAAATAAAAATATTAAATA
1 TATATTCAAAAATAGTAAT-AA-AAAAATATTAAATA
** * *
110735 TATATTTTTAAACTAGTAATAAAAAAATTTTAAATA
1 TATA-TTCAAAAATAGTAATAAAAAAATATTAAATA
110771 TATATT
1 TATATT
110777 TATAATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 2 0.06
36 21 0.58
37 9 0.25
38 4 0.11
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (35 bp):
TATATTCAAAAATAGTAATAAAAAAATATTAAATA
Found at i:110992 original size:23 final size:23
Alignment explanation
Indices: 110966--111053 Score: 61
Period size: 23 Copynumber: 3.7 Consensus size: 23
110956 ATAATTTTAA
110966 TTATTATTTAATAATATATATTT
1 TTATTATTTAATAATATATATTT
* * **
110989 TTATAATTTAATTTAAAATATATGA
1 TTATTATTTAA--TAATATATATTT
* * *
111014 ATATTAATATAAAAATA-ATATTT
1 TTATT-ATTTAATAATATATATTT
*
111037 TATATTTTTTAATAATA
1 T-TATTATTTAATAATA
111054 AAATAAATTT
Statistics
Matches: 46, Mismatches: 15, Indels: 8
0.67 0.22 0.12
Matches are distributed among these distances:
23 22 0.48
24 7 0.15
25 12 0.26
26 5 0.11
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (23 bp):
TTATTATTTAATAATATATATTT
Found at i:111065 original size:28 final size:28
Alignment explanation
Indices: 111017--111071 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
111007 TATATGAATA
*
111017 TTAATATAAAAATAATATTTTATATTTT
1 TTAATATAAAAATAATATTTTAAATTTT
111045 TTAATA-ATAAAATAA-ATTTTTAAATTT
1 TTAATATA-AAAATAATA-TTTTAAATTT
111072 AATTTTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTAATATAAAAATAATATTTTAAATTTT
Found at i:111799 original size:100 final size:100
Alignment explanation
Indices: 111686--111876 Score: 328
Period size: 100 Copynumber: 1.9 Consensus size: 100
111676 TTTTTTTTAA
* *
111686 AAAAAGTTATTTTAGCTTTCTTGTCACAAAATTTGTTAATGATTTGAGGTAATAATATTTTTATA
1 AAAAAGTTATTTTAGCTTTCTTGTCACAAAATTTGTTAATGATTTAAGGTAATAATATTTTTAAA
*
111751 ATATAACGAAATTTTATAAATAAGTTTATAGCTTT
66 ATATAACGAAATTTTATAAACAAGTTTATAGCTTT
* *
111786 AAAAAGTTATTTTAGCTTTTTTGTCATAAAATTTGTTAATGATTTAAGGTAATAATATTTTTAAA
1 AAAAAGTTATTTTAGCTTTCTTGTCACAAAATTTGTTAATGATTTAAGGTAATAATATTTTTAAA
*
111851 ATATAACGAAGTTTTATAAACAAGTT
66 ATATAACGAAATTTTATAAACAAGTT
111877 CGTAGCCAAG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (100 bp):
AAAAAGTTATTTTAGCTTTCTTGTCACAAAATTTGTTAATGATTTAAGGTAATAATATTTTTAAA
ATATAACGAAATTTTATAAACAAGTTTATAGCTTT
Found at i:112534 original size:20 final size:20
Alignment explanation
Indices: 112506--112580 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
112496 TTTTACCCAG
112506 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
112526 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
112546 ATGTATCAATATATTCTTCA
1 ATGTATCGATACATTTTTCA
112566 ATGTATCGATACATT
1 ATGTATCGATACATT
112581 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:112566 original size:40 final size:39
Alignment explanation
Indices: 112506--112583 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
112496 TTTTACCCAG
* *
112506 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCAATACATTCTTCAATATATCGATACAT-TATGA
* *
112546 ATGTATCAATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCAATACATTCTTCAATATATCGATACATTATG
112584 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (39 bp):
ATGTATCAATACATTCTTCAATATATCGATACATTATGA
Found at i:116876 original size:19 final size:20
Alignment explanation
Indices: 116839--116876 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
116829 AAGGGTCACT
*
116839 TTTTTTTTATTGATGTTCAA
1 TTTTTTTTATTGATATTCAA
*
116859 TTTTTTTT-TTGCTATTCA
1 TTTTTTTTATTGATATTCA
116877 TTCCCATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (20 bp):
TTTTTTTTATTGATATTCAA
Found at i:126564 original size:10 final size:11
Alignment explanation
Indices: 126549--126598 Score: 66
Period size: 11 Copynumber: 4.4 Consensus size: 11
126539 CCTTTACAAT
126549 AAAAAC-AAAA
1 AAAAACAAAAA
126559 AAAAACAAAAA
1 AAAAACAAAAA
126570 AAAAACCAAGAAA
1 AAAAA-CAA-AAA
126583 AAATAACAAAAA
1 AAA-AACAAAAA
126595 AAAA
1 AAAA
126599 GGCATCTAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.17
11 10 0.28
12 9 0.25
13 9 0.25
14 2 0.06
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:127850 original size:28 final size:28
Alignment explanation
Indices: 127781--128990 Score: 1512
Period size: 28 Copynumber: 42.5 Consensus size: 28
127771 TGTTCATTCT
* * *
127781 TTTCAAAGCACACGAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
127810 TTTCAAAGCCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
127838 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
127866 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
127894 TTTTCAAAGCCCACAAGTCAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
127923 TTTTAAAGCCCAAAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
127951 TTTCAAAGCCGACAACTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
127979 TTTCAAAGCCCATAAGTCAGTAGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128007 TTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128035 TTTC-AAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
128062 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128090 TTTCAGAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128118 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
128147 TTTCAAAGCCCACAATTAAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
128176 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* ** *
128204 TTTCAAAGCCCATAAGTTGGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128232 TTTC-AAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128259 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128287 TTTCAAAGCTCACACAAGTTAGTGGCATCC
1 TTTCAAAGC-C-CACAAGTCAGTGGCACCC
*
128317 TTTCAAAGCCCACACAAGTTAGTGGCACTCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCAC-CC
** *
128348 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
* * *
128380 TTTCAAAGCCCACACGTCGGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
128409 TTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
128437 TTTCAAAGCCCACGAGTCAATGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128465 TTTCAAAGCCCACAAGTCAGT-GCTATCA
1 TTTCAAAGCCCACAAGTCAGTGGC-ACCC
128493 TTTCAAAGCCCACGCAAGTCAGTGGCACCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCC
** **
128523 TTTCAAAGCCCATGAGTCAGTGGCACAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* **
128551 TTTC-AAGCCCACAAGTTAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128578 TTTCAAAGCCCATAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
128607 TTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128635 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
128664 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128692 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
**
128721 TTTCAAATTCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128749 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* ***
128778 TTTCAAAGCCCACAAGTTAGTGGCATTA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128806 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
128834 TTTCAAAGCCCACGTAAGTCAGTGGCACCC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCC
* * *
128864 TTTCAAAACCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
128893 TTTCAAAGCCCACAAGTCAGTGG-ACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128920 TTTCAAAACCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128948 TTTCAAAGCCCACAAGTCAGTGACACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
128977 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
128991 CGAGTTGGCA
Statistics
Matches: 1044, Mismatches: 114, Indels: 46
0.87 0.09 0.04
Matches are distributed among these distances:
27 95 0.09
28 532 0.51
29 269 0.26
30 104 0.10
31 32 0.03
32 12 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:127899 original size:57 final size:56
Alignment explanation
Indices: 127781--128990 Score: 1565
Period size: 57 Copynumber: 21.2 Consensus size: 56
127771 TGTTCATTCT
* * *
127781 TTTCAAAGCACACGAGTCAGTGGCACTCTTTTCAAAGCCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCC
*
127838 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
127894 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCAAAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
127951 TTTCAAAGCCGACAACTCAGTGGCACTCTTTCAAAGCCCATAAGTCAGTAGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCC
*
128007 TTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTC-AAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128062 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAGAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
128118 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAATTAAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* ** *
128176 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCATAAGTTGGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCC
*
128232 TTTC-AAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128287 TTTCAAAGCTCACACAAGTTAGTGGCA-TCCTTTCAAAGCCCACACAAGTTAGTGGCACTCC
1 TTTCAAAGC-C-CACAAGTCAGTGGCACT-CTTTCAAAG-CC-CACAAGTCAGTGGCAC-CC
** * * *
128348 TTTCAAAGCCCACACAAGTTGGTGGCAACTCATTTCAAAGCCCACACGTCGGTGGCACTCT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTC-TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * * * *
128409 TTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACGAGTCAATGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCC
128465 TTTCAAAGCCCACAAGTCAGT-GCTA-TCATTTCAAAGCCCACGCAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGC-ACTC-TTTCAAAGCCCA--CAAGTCAGTGGCACCC
** * **
128523 TTTCAAAGCCCATGAGTCAGTGGCACAT-TTTC-AAGCCCACAAGTTAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-TCTTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128578 TTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCC
*
128635 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCC
* **
128692 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAATTCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCC
* ***
128749 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATTA
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
128806 TTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCAC--AAGTCAGTGGCACCC
* *
128864 TTTCAAAACCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGG-ACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
128920 TTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGACACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC-CC
128977 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
128991 CGAGTTGGCA
Statistics
Matches: 1027, Mismatches: 94, Indels: 64
0.87 0.08 0.05
Matches are distributed among these distances:
54 1 0.00
55 165 0.16
56 245 0.24
57 382 0.37
58 127 0.12
59 28 0.03
60 17 0.02
61 48 0.05
62 5 0.00
63 9 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:127924 original size:85 final size:85
Alignment explanation
Indices: 127781--128990 Score: 1563
Period size: 85 Copynumber: 14.2 Consensus size: 85
127771 TGTTCATTCT
* * * *
127781 TTTCAAAGCACACGAGTCAGTGGCACTCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
127846 CCCACAAGTCAGTGGCACTC
66 CCCACAAGTCAGTGGCACTC
* *
127866 TTTCAAAGCCCATAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
127931 CCCAAAAGTCAGTGGCACTC
66 CCCACAAGTCAGTGGCACTC
* * * * * *
127951 TTTCAAAGCCGACAACTCAGTGGCACTC-TTTCAAAGCCCATAAGTCAGTAGCACTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
128015 CCCACAAGTCAGTGGCAC-C
66 CCCACAAGTCAGTGGCACTC
* *
128034 TTTTC-AAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAGA
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
128097 GCCCACAAGTCAGTGGCACCC
65 GCCCACAAGTCAGTGGCACTC
* * * *
128118 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAATTAAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
128183 GCCCACAAGTCAGTGGCACTC
65 GCCCACAAGTCAGTGGCACTC
* ** *
128204 TTTCAAAGCCCATAAGTTGGTGGCA-CCTTTTC-AAGCCCACAAGTCAGTGGCACTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
128267 CCCACAAGTCAGTGGCA-TCC
66 CCCACAAGTCAGTGGCACT-C
* * *
128287 TTTCAAAGCTCACACAAGTTAGTGGCATCC-TTTCAAAGCCCACACAAGTTAGTGGCACTCCTTT
1 TTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTT
**
128351 CAAAGCCCACACAAGTTGGTGGCAACTC
61 CAAAG-CC-CACAAGTCAGTGGC-ACTC
* * * *
128379 ATTTCAAAGCCCACACGTCGGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAA
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* *
128444 GCCCACGAGTCAATGGCACTC
65 GCCCACAAGTCAGTGGCACTC
* *
128465 TTTCAAAGCCCACAAGTCAGT-GCTA-TCATTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTCA
1 TTTCAAAGCCCACAAGTCAGTGGC-ACCCTTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCA
**
128528 AAGCCCATGAGTCAGTGGCACAT-
63 AAGCCCACAAGTCAGTGGCAC-TC
* * * *
128551 TTTC-AAGCCCACAAGTTAGTGGCA-CTTTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* *
128614 GCCCACAAGTCAATGGCACCC
65 GCCCACAAGTCAGTGGCACTC
* *
128635 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
128700 CCCACAAATCAGTGGCACTC
66 CCCACAAGTCAGTGGCACTC
** *
128720 TTTTCAAATTCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAA
* * *
128784 AGCCCACAAGTTAGTGGCATTA
64 AGCCCACAAGTCAGTGGCACTC
*
128806 TTTCAAAGCCCATAAGTCAGTGGCACCC-TTTCAAAGCCCACGTAAGTCAGTGGCACCCTTTCAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTCAA
* *
128870 AACCCACAAGTTAGTGGCACTC
64 AGCCCACAAGTCAGTGGCACTC
*
128892 TTTTCAAAGCCCACAAGTCAGTGG-ACCC-TTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAA
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
128955 GCCCACAAGTCAGTGACACTC
65 GCCCACAAGTCAGTGGCACTC
128976 TTTTCAAAGCCCACA
1 -TTTCAAAGCCCACA
128991 CGAGTTGGCA
Statistics
Matches: 994, Mismatches: 98, Indels: 67
0.86 0.08 0.06
Matches are distributed among these distances:
82 1 0.00
83 124 0.12
84 196 0.20
85 305 0.31
86 220 0.22
87 48 0.05
88 17 0.02
89 19 0.02
90 16 0.02
91 27 0.03
92 11 0.01
93 10 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACTC
Found at i:129563 original size:20 final size:20
Alignment explanation
Indices: 129535--129609 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
129525 TTTTAACCAG
*
129535 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * *
129555 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
129575 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
129595 ATGTATCGATACATT
1 ATGTATCGATACATT
129610 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:129602 original size:40 final size:39
Alignment explanation
Indices: 129535--129612 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
129525 TTTTAACCAG
* *
129535 ATGTATCGATACATTTTTTAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
129575 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
129613 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:133897 original size:65 final size:65
Alignment explanation
Indices: 133821--133949 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
133811 AAATGTTCTA
133821 GCAATTGTTAAATGGTCCCTAAATTATGAAAACAAC-CTATATGGCCCTAAAATTTGCATGAAAT
1 GCAATTGTTAAATGGTCCCTAAATTATGAAAACAACTC-ATATGGCCCTAAAATTTGCATGAAAT
133885 G
65 G
133886 GCAATTGTTAAATGGTCCCTAAATTATGAAAACAACTCATATGGCCCTAAAATTTGCATGAAAT
1 GCAATTGTTAAATGGTCCCTAAATTATGAAAACAACTCATATGGCCCTAAAATTTGCATGAAAT
133950 TGCTAAATAG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
65 62 0.98
66 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (65 bp):
GCAATTGTTAAATGGTCCCTAAATTATGAAAACAACTCATATGGCCCTAAAATTTGCATGAAATG
Found at i:134092 original size:12 final size:12
Alignment explanation
Indices: 134071--134099 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
134061 AAAAATGATT
134071 AAGA-TGGCCTA
1 AAGAGTGGCCTA
134082 AAGAGTGGCCTA
1 AAGAGTGGCCTA
134094 AAGAGT
1 AAGAGT
134100 ATGAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (12 bp):
AAGAGTGGCCTA
Found at i:134602 original size:13 final size:13
Alignment explanation
Indices: 134584--134610 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
134574 ACATTATGCT
134584 TTGTATCGATACA
1 TTGTATCGATACA
134597 TTGTATCGATACA
1 TTGTATCGATACA
134610 T
1 T
134611 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:134625 original size:32 final size:33
Alignment explanation
Indices: 134565--134629 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
134555 CACACCCAGA
* * *
134565 TGTATTGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGATGCATTGTATCGATACAT
134598 TGTATCGATACATGAT-CATTGTATCGATACAT
1 TGTATCGATACATGATGCATTGTATCGATACAT
134630 AGACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGATGCATTGTATCGATACAT
Found at i:134640 original size:20 final size:20
Alignment explanation
Indices: 134595--134650 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
134585 TGTATCGATA
134595 CATTGTATCGATACAT-GAT
1 CATTGTATCGATACATAGAT
134614 CATTGTATCGATACATAGA-
1 CATTGTATCGATACATAGAT
*
134633 CAATTGTATCAATACATA
1 C-ATTGTATCGATACATA
134651 AAACTAGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATAGAT
Found at i:134722 original size:20 final size:19
Alignment explanation
Indices: 134683--134731 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
134673 TACTGTTTGC
134683 ATCGATACATGGACATTGT
1 ATCGATACATGGACATTGT
134702 ATCGATACATGAGGA-ATTGT
1 ATCGATACAT--GGACATTGT
134722 ATCGATACAT
1 ATCGATACAT
134732 TGCTTCTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.36
20 15 0.54
21 3 0.11
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (19 bp):
ATCGATACATGGACATTGT
Found at i:142494 original size:20 final size:20
Alignment explanation
Indices: 142448--142494 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
142438 GTATATATGC
*
142448 ATTGTATTGATACATGATCA
1 ATTGTATCGATACATGATCA
142468 A-TGTATCGATACATGGA-CA
1 ATTGTATCGATACAT-GATCA
142487 ATTGTATC
1 ATTGTATC
142495 TATATATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGATCA
Found at i:143453 original size:57 final size:57
Alignment explanation
Indices: 143400--143529 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 57
143390 TTCCTAAGTT
*
143400 ATAAAAAATAACTAAAAT-A-CATGAAAATGCATA-AATTTACATAATAGTCCCTAATC
1 ATAAAAAATAACTAAAATGATC-TGAAAATACATACAA-TTACATAATAGTCCCTAATC
* * *
143456 ATAGAAAATAACTAAAATGATCTTAAAATACATACAATTACATAATAGTCCCTAAAAC
1 ATAAAAAATAACTAAAATGATCTGAAAATACATACAATTACATAATAGTCCCT-AATC
* *
143514 ATGAAAAATGACTAAA
1 ATAAAAAATAACTAAA
143530 GTAACTCTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
56 17 0.27
57 27 0.43
58 19 0.30
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (57 bp):
ATAAAAAATAACTAAAATGATCTGAAAATACATACAATTACATAATAGTCCCTAATC
Found at i:143716 original size:58 final size:57
Alignment explanation
Indices: 143654--143767 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 57
143644 AAAAAGTTTC
* *
143654 TAAATAATAAAAAAT-AGCTTTAATAT-CTCTAAAATGCATAAAATGATATAATAATATG
1 TAAATAATAAAAAATGA-CTTAAATATAC-CT-AAATGCATAAAATGACATAATAATATG
* * *
143712 TAAATCATAAAAAATGACTTAAATATACCTAAATGCATGAAATGACATAGTAATAT
1 TAAATAATAAAAAATGACTTAAATATACCTAAATGCATAAAATGACATAATAATAT
143768 TTAATATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
57 23 0.47
58 24 0.49
59 2 0.04
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.31
Consensus pattern (57 bp):
TAAATAATAAAAAATGACTTAAATATACCTAAATGCATAAAATGACATAATAATATG
Found at i:143755 original size:57 final size:58
Alignment explanation
Indices: 143654--143767 Score: 144
Period size: 57 Copynumber: 2.0 Consensus size: 58
143644 AAAAAGTTTC
* *
143654 TAAATAATAAAAAATAGCTTTAATATCTCTAAAATGCATAAAATGATATAATAATATG
1 TAAATAATAAAAAATAGCTTAAATATCTCTAAAATGCATAAAATGACATAATAATATG
* * *
143712 TAAATCATAAAAAAT-GACTTAAATATAC-CT-AAATGCATGAAATGACATAGTAATAT
1 TAAATAATAAAAAATAG-CTTAAATAT-CTCTAAAATGCATAAAATGACATAATAATAT
143768 TTAATATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
57 24 0.49
58 24 0.49
59 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.31
Consensus pattern (58 bp):
TAAATAATAAAAAATAGCTTAAATATCTCTAAAATGCATAAAATGACATAATAATATG
Found at i:143942 original size:38 final size:38
Alignment explanation
Indices: 143891--143967 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
143881 TAATACATGT
**
143891 TTTTTACTCTCAAAACATCACATTAATTTGAACATATC
1 TTTTTACTCTCAAAACATCACATTAACATGAACATATC
143929 TTTTTACTCTCAAAACATCACATTAACATGAACATATC
1 TTTTTACTCTCAAAACATCACATTAACATGAACATATC
143967 T
1 T
143968 AGAGTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (38 bp):
TTTTTACTCTCAAAACATCACATTAACATGAACATATC
Found at i:145239 original size:19 final size:20
Alignment explanation
Indices: 145212--145256 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
145202 ATATTTTATT
*
145212 GATAAAATA-GGCTTATATC
1 GATACAATATGGCTTATATC
*
145231 GATACAATATGGCTTGTATC
1 GATACAATATGGCTTATATC
145251 GATACA
1 GATACA
145257 TATACATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (20 bp):
GATACAATATGGCTTATATC
Found at i:146078 original size:27 final size:27
Alignment explanation
Indices: 146048--146105 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
146038 ATTTTAAAAA
*
146048 AAATTATT-TTTATATTTTTAAAAT-TTT
1 AAATT-TTATTTA-ATTTTAAAAATATTT
146075 AAATTTTAATTTAATTTTAAAAATATTT
1 AAATTTT-ATTTAATTTTAAAAATATTT
146103 AAA
1 AAA
146106 AAATGATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 2 0.07
27 15 0.56
28 10 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
AAATTTTATTTAATTTTAAAAATATTT
Found at i:146155 original size:21 final size:22
Alignment explanation
Indices: 146091--146155 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
146081 TAATTTAATT
*
146091 TTAAAAATATTTAAAA-AATGA
1 TTAAAAATATTTAAAATAATAA
*
146112 TTAAAAATATTT-ACATAATTAA
1 TTAAAAATATTTAAAATAA-TAA
*
146134 TT-ATAATATTTAAAATAATAA
1 TTAAAAATATTTAAAATAATAA
146155 T
1 T
146156 ATTAATGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 2 0.05
21 26 0.70
22 9 0.24
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TTAAAAATATTTAAAATAATAA
Found at i:146887 original size:17 final size:16
Alignment explanation
Indices: 146836--146907 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 16
146826 ATTAATTTAT
*
146836 TTATTAATATAA-ATA
1 TTATTAAAATAATATA
*
146851 TTAATAAAATAATATAA
1 TTATTAAAATAATAT-A
*
146868 TTATTAAAATATTTATA
1 TTATTAAAATA-ATATA
*
146885 TTATTTAAATAATAATA
1 TTATTAAAATAAT-ATA
146902 TT-TTAA
1 TTATTAA
146908 TTAATTTATA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
15 10 0.22
16 6 0.13
17 27 0.59
18 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATTAAAATAATATA
Found at i:147375 original size:24 final size:23
Alignment explanation
Indices: 147331--147384 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
147321 ATTCTATCAT
* *
147331 AATTTT-AATTAAAAATTTTTAA
1 AATTTTAAAGTAAAAATCTTTAA
*
147353 AATTTTAAAGTAAAAAGTCTTTAG
1 AATTTTAAAGTAAAAA-TCTTTAA
*
147377 TATTTTAA
1 AATTTTAA
147385 CTTTCAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 6 0.23
23 8 0.31
24 12 0.46
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (23 bp):
AATTTTAAAGTAAAAATCTTTAA
Found at i:147445 original size:28 final size:30
Alignment explanation
Indices: 147409--147473 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
147399 TCAACATTAC
* *
147409 CAAATATAAATAT-TTTTA-TATTTTAATT
1 CAAAAATAAATATCTTTTATTATTTAAATT
147437 CAAAAAT-AATATCTTTTATTATTTAAATT
1 CAAAAATAAATATCTTTTATTATTTAAATT
*
147466 -ATAAATAA
1 CAAAAATAA
147474 TTATAACAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.16
28 16 0.52
29 10 0.32
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (30 bp):
CAAAAATAAATATCTTTTATTATTTAAATT
Found at i:147652 original size:31 final size:31
Alignment explanation
Indices: 147614--147672 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
147604 TTATAGTGAG
147614 ATTAAATTTATATTTTAATATAAATATAGAT
1 ATTAAATTTATATTTTAATATAAATATAGAT
*
147645 ATTAAATTTATATTTTAATATAAGTATA
1 ATTAAATTTATATTTTAATATAAATATA
147673 AAAAGTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (31 bp):
ATTAAATTTATATTTTAATATAAATATAGAT
Found at i:147997 original size:13 final size:13
Alignment explanation
Indices: 147937--147997 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
147927 AAATATGTAA
147937 TAAAATAA-TAAT
1 TAAAATAATTAAT
*
147949 TTAAATAATTAAT
1 TAAAATAATTAAT
* **
147962 TAAATTAATTTTTT
1 TAAAATAA-TTAAT
147976 TAAAAAATAATTAAT
1 T--AAAATAATTAAT
147991 TAAAATA
1 TAAAATA
147998 GTAAATGTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
12 7 0.19
13 16 0.43
14 4 0.11
15 4 0.11
16 6 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAAATAATTAAT
Found at i:148685 original size:15 final size:14
Alignment explanation
Indices: 148667--148710 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
148657 ATTAAAATTC
148667 AATAATAATAACAAT
1 AATAATAATAA-AAT
*
148682 AATAATAAATTAAAT
1 AATAAT-AATAAAAT
148697 AATAAATAATAAAA
1 AAT-AATAATAAAA
148711 GTAAAGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAATAATAAAAT
Found at i:149649 original size:23 final size:24
Alignment explanation
Indices: 149581--149651 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 24
149571 TAAAAATACT
*
149581 TAAATAACTATTTAAATATAAAGAAAG
1 TAAATAA-AATTTAAATA-AAA-AAAG
*
149608 TAAATAAAA-TTAATTTAAAAAAA-
1 TAAATAAAATTTAA-ATAAAAAAAG
149631 TAAATAAAATTTAAATAAAAA
1 TAAATAAAATTTAAATAAAAA
149652 TCTCTAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 15 0.38
24 7 0.18
25 7 0.18
26 3 0.08
27 7 0.18
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (24 bp):
TAAATAAAATTTAAATAAAAAAAG
Found at i:150258 original size:22 final size:23
Alignment explanation
Indices: 150219--150265 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
150209 TAAAATTTAA
150219 ATTTTAATATATATAATTTTTTT
1 ATTTTAATATATATAATTTTTTT
*
150242 ATTTTTATAT-TATAATTTTTTT
1 ATTTTAATATATATAATTTTTTT
150264 AT
1 AT
150266 GTAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTTAATATATATAATTTTTTT
Found at i:151116 original size:17 final size:17
Alignment explanation
Indices: 151074--151124 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 17
151064 TTTTTAAAAA
151074 AATATTTTTATT-ATTT
1 AATATTTTTATTAATTT
*
151090 -A-ATCTTTATTAATTT
1 AATATTTTTATTAATTT
151105 AATATTTTTATTAAATTT
1 AATATTTTTATT-AATTT
151123 AA
1 AA
151125 AATATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 8 0.28
15 5 0.17
16 1 0.03
17 8 0.28
18 7 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
AATATTTTTATTAATTT
Found at i:151143 original size:34 final size:34
Alignment explanation
Indices: 151099--151223 Score: 127
Period size: 34 Copynumber: 3.7 Consensus size: 34
151089 TAATCTTTAT
* *
151099 TAATTTAATATTTTTATTAAATTTAAAATATAAA
1 TAATTAAATATATTTATTAAATTTAAAATATAAA
* * *
151133 TAATTAAATATAATT-TTAATATTTATACTAT-AA
1 TAATTAAATATATTTATTAA-ATTTAAAATATAAA
151166 T-ATTACAA-ATATTTATT-AATTTAAAATATAAA
1 TAATTA-AATATATTTATTAAATTTAAAATATAAA
151198 TAATTAAATATAATTT-TTAATATTTA
1 TAATTAAATAT-ATTTATTAA-ATTTA
151224 TACTATAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
31 9 0.12
32 15 0.20
33 19 0.26
34 26 0.35
35 5 0.07
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (34 bp):
TAATTAAATATATTTATTAAATTTAAAATATAAA
Found at i:151179 original size:23 final size:23
Alignment explanation
Indices: 151150--151256 Score: 80
Period size: 23 Copynumber: 4.8 Consensus size: 23
151140 ATATAATTTT
151150 AATATTTATACTATAATATTACA
1 AATATTTATACTATAATATTACA
* * * *
151173 AATATTTATTAATTTAA-AATATA
1 AATATTTA-TACTATAATATTACA
* * **
151196 AATAATTA-AATATAAT-TT-TT
1 AATATTTATACTATAATATTACA
151216 AATATTTATACTATAATATTACA
1 AATATTTATACTATAATATTACA
*
151239 AATATATTTTAC-ATAATA
1 AATAT-TTATACTATAATA
151257 ATAAAATGAG
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
20 8 0.12
21 14 0.22
22 2 0.03
23 30 0.46
24 11 0.17
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
AATATTTATACTATAATATTACA
Found at i:151188 original size:65 final size:67
Alignment explanation
Indices: 151111--151243 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 67
151101 ATTTAATATT
151111 TTTATTAAATTTAAAATATAAATAATTAAATATAA-TTTTAATATTTATACTATAATATTACAAA
1 TTTATTAAATTTAAAATATAAATAATTAAATATAATTTTTAATATTTATACTATAATATTACAAA
151175 TA
66 TA
151177 TTTATT-AATTTAAAATATAAATAATTAAATATAATTTTTAATATTTATACTATAATATTACAAA
1 TTTATTAAATTTAAAATATAAATAATTAAATATAATTTTTAATATTTATACTATAATATTACAAA
151241 TA
66 TA
151243 T
1 T
151244 ATTTTACATA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
65 28 0.42
66 38 0.58
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (67 bp):
TTTATTAAATTTAAAATATAAATAATTAAATATAATTTTTAATATTTATACTATAATATTACAAA
TA
Found at i:151242 original size:35 final size:34
Alignment explanation
Indices: 151138--151248 Score: 124
Period size: 31 Copynumber: 3.3 Consensus size: 34
151128 ATAAATAATT
*
151138 AAATATAATTTTAATATTTATACTATAATATTAC
1 AAATATATTTTTAATATTTATACTATAATATTAC
* * *
151172 AAATAT-TTATT-A-ATTTAAAATATAAATAATT--
1 AAATATATTTTTAATATTTATACTAT-AAT-ATTAC
151203 AAATATAATTTTTAATATTTATACTATAATATTAC
1 AAATAT-ATTTTTAATATTTATACTATAATATTAC
151238 AAATATATTTT
1 AAATATATTTT
151249 ACATAATAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
31 15 0.24
32 4 0.06
33 13 0.21
34 15 0.24
35 15 0.24
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (34 bp):
AAATATATTTTTAATATTTATACTATAATATTAC
Found at i:151888 original size:16 final size:16
Alignment explanation
Indices: 151864--151902 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
151854 ATTTATTACA
*
151864 ATTACATGATGAAAAT
1 ATTAAATGATGAAAAT
151880 ATTAAATGATGAAAAT
1 ATTAAATGATGAAAAT
151896 ATTAAAT
1 ATTAAAT
151903 TGAATGACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (16 bp):
ATTAAATGATGAAAAT
Found at i:152103 original size:14 final size:14
Alignment explanation
Indices: 152084--152121 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
152074 GTATAATAAG
152084 ATATTAAATAAAA-A
1 ATATTAAA-AAAATA
152098 ATATTAAAAAAATA
1 ATATTAAAAAAATA
152112 ATTATTAAAA
1 A-TATTAAAA
152122 TTCAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 10 0.45
15 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATTAAAAAAATA
Found at i:153937 original size:21 final size:21
Alignment explanation
Indices: 153911--153950 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
153901 ATTAAAAAAT
153911 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
*
153932 TATTTTTTAATTAAATTTA
1 TATTTTATAATTAAATTTA
153951 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:154125 original size:23 final size:22
Alignment explanation
Indices: 154099--154144 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
154089 TTATATATTT
154099 TTATAATTAAATTTAAATAAAAA
1 TTATAATTAAA-TTAAATAAAAA
* **
154122 TTATTATTTTATTAAATAAAAA
1 TTATAATTAAATTAAATAAAAA
154144 T
1 T
154145 GGATTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATAATTAAATTAAATAAAAA
Found at i:154578 original size:30 final size:31
Alignment explanation
Indices: 154544--154601 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
154534 AAATTTTCGA
154544 TAAGT-AAAAAAAAAATTTAAATAAAAATAT
1 TAAGTCAAAAAAAAAATTTAAATAAAAATAT
* * *
154574 TAAGTCTAAAGAAAGATTTAAATAAAAA
1 TAAGTCAAAAAAAAAATTTAAATAAAAA
154602 ATAAAATCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (31 bp):
TAAGTCAAAAAAAAAATTTAAATAAAAATAT
Found at i:154858 original size:33 final size:33
Alignment explanation
Indices: 154820--154890 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
154810 ATTAAATAAA
154820 AACAATATGTTTTTAAAAGATATATATAATTTG
1 AACAATATGTTTTTAAAAGATATATATAATTTG
154853 AACAATATGTTTTTAAAAGATATATATAATTTG
1 AACAATATGTTTTTAAAAGATATATATAATTTG
154886 AACAA
1 AACAA
154891 GTGTGAACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.39
Consensus pattern (33 bp):
AACAATATGTTTTTAAAAGATATATATAATTTG
Found at i:156436 original size:9 final size:8
Alignment explanation
Indices: 156410--156452 Score: 54
Period size: 7 Copynumber: 5.5 Consensus size: 8
156400 TTTTAAAAAT
156410 TTTATATA
1 TTTATATA
*
156418 TTTA-AAA
1 TTTATATA
156425 TTTATTATA
1 TTTA-TATA
156434 TTTA-ATA
1 TTTATATA
156441 TTTATATA
1 TTTATATA
156449 TTTA
1 TTTA
156453 AAATAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 13 0.43
8 11 0.37
9 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTTATATA
Found at i:156448 original size:15 final size:15
Alignment explanation
Indices: 156405--156456 Score: 77
Period size: 16 Copynumber: 3.3 Consensus size: 15
156395 AAAATTTTTA
156405 AAAATTTTATATATTT
1 AAAA-TTTATATATTT
156421 AAAATTTATTATATTT
1 AAAATTTA-TATATTT
*
156437 AATATTTATATATTT
1 AAAATTTATATATTT
156452 AAAAT
1 AAAAT
156457 AAAATTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 15 0.45
16 18 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AAAATTTATATATTT
Found at i:156865 original size:22 final size:21
Alignment explanation
Indices: 156840--156885 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
156830 GTTTAATCTG
*
156840 ATTTATATTTTATTAAATTTAA
1 ATTTAAATTTTATT-AATTTAA
156862 ATTTAAATTTTATTAATTTAA
1 ATTTAAATTTTATTAATTTAA
156883 ATT
1 ATT
156886 ATTATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTAAATTTTATTAATTTAA
Found at i:156879 original size:15 final size:16
Alignment explanation
Indices: 156861--156891 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
156851 ATTAAATTTA
156861 AATTTAAATT-TTATT
1 AATTTAAATTATTATT
156876 AATTTAAATTATTATT
1 AATTTAAATTATTATT
156892 TATTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTAAATTATTATT
Found at i:156892 original size:21 final size:21
Alignment explanation
Indices: 156845--156914 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 21
156835 ATCTGATTTA
156845 TATTTTATTAAATTTAAATT-T
1 TATTTTATT-AATTTAAATTAT
*
156866 AAATTTTATTAATTTAAATTAT
1 -TATTTTATTAATTTAAATTAT
* *
156888 TA-TTTATT-ATTAAAAATA-
1 TATTTTATTAATTTAAATTAT
156906 TATTTTATT
1 TATTTTATT
156915 TAAATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.05
19 14 0.33
20 6 0.14
21 11 0.26
22 9 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTATTAATTTAAATTAT
Found at i:156995 original size:29 final size:28
Alignment explanation
Indices: 156925--156983 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
156915 TAAATATATA
* *
156925 AATA-AAAATAACTTTTTAAATTTTTTT
1 AATATAAAATAAATTTTTAAATTTATTT
156952 AATAATAAAATAAATTTTTAAATTTATTT
1 AAT-ATAAAATAAATTTTTAAATTTATTT
156981 AAT
1 AAT
156984 TCAAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 3 0.11
28 1 0.04
29 24 0.86
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
AATATAAAATAAATTTTTAAATTTATTT
Found at i:157250 original size:13 final size:13
Alignment explanation
Indices: 157228--157261 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
157218 TTAAATATTA
*
157228 TTTAATTAAAAAT
1 TTTAAATAAAAAT
157241 TTTAAATAAAAAT
1 TTTAAATAAAAAT
*
157254 ATTAAATA
1 TTTAAATA
157262 TAATAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTAAATAAAAAT
Found at i:158391 original size:5 final size:5
Alignment explanation
Indices: 158384--158426 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
158374 TTTTTTTATC
*
158384 AAATC AAATT AAATT AAATT AAATTT AAATT CAAA-T AAATT AA
1 AAATT AAATT AAATT AAATT AAA-TT AAATT -AAATT AAATT AA
158427 TCAAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
4 3 0.09
5 23 0.68
6 8 0.24
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (5 bp):
AAATT
Found at i:158413 original size:16 final size:16
Alignment explanation
Indices: 158382--158451 Score: 62
Period size: 15 Copynumber: 4.6 Consensus size: 16
158372 ACTTTTTTTA
158382 TCAAATCAAA-TTAAAT
1 TCAAAT-AAATTTAAAT
158398 T-AAATTAAATTTAAAT
1 TCAAA-TAAATTTAAAT
158414 TCAAATAAA-TT-AA-
1 TCAAATAAATTTAAAT
*
158427 TCAAA-AATTTTAAAT
1 TCAAATAAATTTAAAT
158442 TCAAACTAAA
1 TCAAA-TAAA
158452 ATTCACGTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
12 2 0.05
13 7 0.16
14 4 0.09
15 13 0.30
16 13 0.30
17 5 0.11
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (16 bp):
TCAAATAAATTTAAAT
Found at i:161088 original size:26 final size:26
Alignment explanation
Indices: 161055--161107 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
161045 AGATGAATCC
161055 ATAAATTCATAAATTAATGCAAGCAT
1 ATAAATTCATAAATTAATGCAAGCAT
161081 ATAAATTCATAAATTAATGCAAGCAT
1 ATAAATTCATAAATTAATGCAAGCAT
161107 A
1 A
161108 ACTAACTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (26 bp):
ATAAATTCATAAATTAATGCAAGCAT
Done.