Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013869.1 Kokia drynarioides strain JFW-HI SEQ_128897, whole genome shotgun sequence
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: 170848
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Warning! 10 characters in sequence are not A, C, G, or T
Found at i:10496 original size:22 final size:23
Alignment explanation
Indices: 10468--10518 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
10458 TAATTTGTCA
10468 ATTTTAACTT-ATAT-TCAAAAT
1 ATTTTAACTTGATATATCAAAAT
* *
10489 CATTTTAATTTGTTATATCAAAAT
1 -ATTTTAACTTGATATATCAAAAT
10513 ATTTTA
1 ATTTTA
10519 TCAAATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 9 0.36
24 7 0.28
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTTTAACTTGATATATCAAAAT
Found at i:21319 original size:30 final size:30
Alignment explanation
Indices: 21157--21466 Score: 244
Period size: 29 Copynumber: 10.6 Consensus size: 30
21147 AAAAAAAAGA
* *
21157 GGTCAAAAATG-AAGTTTTAAAGAA-TTTGA-
1 GGTC-AAAATGTAA-TTTTAGAGAAGTTCGAG
* * * *
21186 GGTTAAAATGTAATTTTGGAAAAGTTTG-G
1 GGTCAAAATGTAATTTTAGAGAAGTTCGAG
* * **
21215 GGTTAAAATGTAATTTTAGA-AAATTTTAG
1 GGTCAAAATGTAATTTTAGAGAAGTTCGAG
* * *
21244 GGTCAAAATGTGATTTTGGAAAAGTTCGA-
1 GGTCAAAATGTAATTTTAGAGAAGTTCGAG
* *
21273 GTTTAAAATGTAATTTTAGAGAAGTTCGAG
1 GGTCAAAATGTAATTTTAGAGAAGTTCGAG
** * * *
21303 GGTCAAAACATAATTTTGGAGAAGTTTGGG
1 GGTCAAAATGTAATTTTAGAGAAGTTCGAG
* *
21333 GGTCAAAATGTAATTTTGGAGAAGTTC-AT
1 GGTCAAAATGTAATTTTAGAGAAGTTCGAG
** * * *
21362 TATCAAAATGTTATTTT-GGGAAATTTCG-G
1 GGTCAAAATGTAATTTTAGAG-AAGTTCGAG
*
21391 GGTCAAAATGTAATTTTAGAGCAGTTCGAG
1 GGTCAAAATGTAATTTTAGAGAAGTTCGAG
*
21421 GGTCAAAATGTAATTTTAGAGAAGTTC-AA
1 GGTCAAAATGTAATTTTAGAGAAGTTCGAG
* *
21450 GGTTAAAATGTTATTTT
1 GGTCAAAATGTAATTTT
21467 GAAAAAGTTT
Statistics
Matches: 225, Mismatches: 46, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
28 20 0.09
29 124 0.55
30 81 0.36
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (30 bp):
GGTCAAAATGTAATTTTAGAGAAGTTCGAG
Found at i:21370 original size:118 final size:117
Alignment explanation
Indices: 21196--21446 Score: 322
Period size: 118 Copynumber: 2.1 Consensus size: 117
21186 GGTTAAAATG
* * * * *
21196 TAATTTTGGAAAAGTTTGGGGTTAAAATGTAATTTTAGAAAATTTTAGGGTCAAAATGTGATTTT
1 TAATTTTGGAGAAGTTTGGGGTCAAAATGTAATTTTAGAAAAGTTCAGGATCAAAATGTGATTTT
* *
21261 GGAAAAGTTCGAGTTTAAAATGTAATTTTAGAGAAGTTCGAGGGTCAAAACA
66 GGAAAAGTTCGAGGTCAAAATGTAATTTTAGAGAAGTTCGAGGGTCAAAACA
* * ** *
21313 TAATTTTGGAGAAGTTTGGGGGTCAAAATGTAATTTTGGAGAAGTTCATTATCAAAATGTTATTT
1 TAATTTTGGAGAAGTTT-GGGGTCAAAATGTAATTTTAGAAAAGTTCAGGATCAAAATGTGATTT
* * * * **
21378 TGGGAAATTTCGGGGTCAAAATGTAATTTTAGAGCAGTTCGAGGGTCAAAATG
65 TGGAAAAGTTCGAGGTCAAAATGTAATTTTAGAGAAGTTCGAGGGTCAAAACA
*
21431 TAATTTTAGAGAAGTT
1 TAATTTTGGAGAAGTT
21447 CAAGGTTAAA
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
117 16 0.14
118 98 0.86
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (117 bp):
TAATTTTGGAGAAGTTTGGGGTCAAAATGTAATTTTAGAAAAGTTCAGGATCAAAATGTGATTTT
GGAAAAGTTCGAGGTCAAAATGTAATTTTAGAGAAGTTCGAGGGTCAAAACA
Found at i:23676 original size:208 final size:208
Alignment explanation
Indices: 23241--23875 Score: 792
Period size: 208 Copynumber: 3.0 Consensus size: 208
23231 CTCTCGATCT
* * ** * * *
23241 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTGCTTCGACCTACTTCTCTGTATCTCAT
1 ACTTCTCAGTATCTCATCAAGAAGATGACCATTTTATTGCTTCGACATGCTTCTCAGTATCTCAT
* * ** * * * * * * *
23306 CAAGAAGATAAAGGTTTGAAGCTTCACTCGCATCTGAACTTTGCTTCACTTGATTTGGTCTACTT
66 CAGGAAGCTGGA-GTTCGAAGTTTCGCTCACAT-TGAGCTTTGTTTCA-TTGATTTGGTATACTT
** * *
23371 CTCTGTATCTCATCAGGAAGATGACCGTC-TCATTTGTTTTAATCCACTTCTCTGTATCTCATCA
128 CTCTGTATCTCATCAGGAAGATGATTG-CATCACTTG-TTTAATTCACTTCTCTGTATCTCATCA
*
23435 GGAAGACGGATTTGGTCC
191 GGAAGACAGATTTGGTCC
* * *
23453 ACTTCTCTA-TATCTCATCAAGAAGGTGACCATTTTATTGCTTCCACATGCTTCTCAATATCTCA
1 ACTTCTC-AGTATCTCATCAAGAAGATGACCATTTTATTGCTTCGACATGCTTCTCAGTATCTCA
23517 TCAGGAAGCTGGAGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCT
65 TCAGGAAGCTGGAGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCT
* * ** *
23582 TTGTATCTCATC-GAAAAGATGATTGCATCACTTGTTTAATTTGCTTCTCTATATCTCATCAGGA
130 CTGTATCTCATCAG-GAAGATGATTGCATCACTTGTTTAATTCACTTCTCTGTATCTCATCAGGA
*
23646 AGACAGATTTAGTCC
194 AGACAGATTTGGTCC
* * *
23661 ACTTCTCAGTATCTCACCAAGAAGACG-CTCATTTTATTGCTTCGACTTGCTTCTCAGTATCTCA
1 ACTTCTCAGTATCTCATCAAGAAGATGAC-CATTTTATTGCTTCGACATGCTTCTCAGTATCTCA
* *
23725 TCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCACTGATTTGGTATACTTCT
65 TCAGGAAGCTGGAGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCT
* * *
23790 CTATATCTCATCAGGAAGATGATTACATCACTTGTCTTAATTCACTTCTCTGTATCTCATTAGGA
130 CTGTATCTCATCAGGAAGATGATTGCATCACTTGT-TTAATTCACTTCTCTGTATCTCATCAGGA
*
23855 AGACAGATTTGGTTC
194 AGACAGATTTGGTCC
23870 ACTTCT
1 ACTTCT
23876 TTGCATCTTG
Statistics
Matches: 366, Mismatches: 50, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
207 2 0.01
208 187 0.51
209 87 0.24
210 12 0.03
211 16 0.04
212 62 0.17
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (208 bp):
ACTTCTCAGTATCTCATCAAGAAGATGACCATTTTATTGCTTCGACATGCTTCTCAGTATCTCAT
CAGGAAGCTGGAGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTC
TGTATCTCATCAGGAAGATGATTGCATCACTTGTTTAATTCACTTCTCTGTATCTCATCAGGAAG
ACAGATTTGGTCC
Found at i:23954 original size:39 final size:39
Alignment explanation
Indices: 23927--24146 Score: 144
Period size: 39 Copynumber: 5.7 Consensus size: 39
23917 AACTGTAATT
*
23927 TGCCCCATGATCGGGGTAAGAGATTGGATGGCTGTGATC
1 TGCCCCATGATCGGGATAAGAGATTGGATGGCTGTGATC
* ** * *
23966 TGCCCCATGGTCGGCTTAAGAGATCGGGTGGCTGTGATC
1 TGCCCCATGATCGGGATAAGAGATTGGATGGCTGTGATC
* ** * **
24005 TGCCCCATGATCGGGATAAAAGATCAGATGGTTGCAATC
1 TGCCCCATGATCGGGATAAGAGATTGGATGGCTGTGATC
* * * *
24044 TACCCC-TG-TCGCAGGGTAAGAGATTGGCTGAC-G-GATC
1 TGCCCCATGATCG--GGATAAGAGATTGGATGGCTGTGATC
* * * * **
24081 TGCCCCATGATCGAGG-TAAAAGATCGAATGGTTGCAATC
1 TGCCCCATGATCG-GGATAAGAGATTGGATGGCTGTGATC
* * * *
24120 TGCCCCAAGCTCGGGGTAAGATATTGG
1 TGCCCCATGATCGGGATAAGAGATTGG
24147 CTGATGGTGA
Statistics
Matches: 137, Mismatches: 37, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
37 21 0.15
38 11 0.08
39 105 0.77
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGCCCCATGATCGGGATAAGAGATTGGATGGCTGTGATC
Found at i:24165 original size:39 final size:39
Alignment explanation
Indices: 24117--24338 Score: 184
Period size: 39 Copynumber: 5.7 Consensus size: 39
24107 AATGGTTGCA
* *
24117 ATCTGCCCCAAGCTCGGGGTAAGATATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * * * ***
24156 ATCTACCCCAAGCTCGAGGTAAAAGATCGGATGACT-ACA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGA-TGGTG
* * * * *
24195 ATCTACCCCAGGCTCGAGGTAATAGATTGACTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
*
24234 ATCTG-CCCTAGACTCGGGGTAAAAGATT-G--GATGGCTG
1 ATCTGCCCCAAG-CTCGGGGTAAAAGATTGGCTGATGG-TG
* *
24271 CAATCTGCCCCAAGCTCGGAGTAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * *
24312 ATTTGCCTCGAGCTCGGGGTAAAAGAT
1 ATCTGCCCCAAGCTCGGGGTAAAAGAT
24339 CGAATGGCTA
Statistics
Matches: 142, Mismatches: 31, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
36 5 0.04
37 2 0.01
38 5 0.04
39 116 0.82
40 7 0.05
41 2 0.01
42 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
Found at i:24197 original size:78 final size:78
Alignment explanation
Indices: 24057--24360 Score: 353
Period size: 78 Copynumber: 3.9 Consensus size: 78
24047 CCCTGTCGCA
* * * * *
24057 GGGTAAGAGATTGGCTGA-CG-GATCTGCCCCATGATCGAGGTAAAAGATCGAATGGTTGCAATC
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGGCTACAATC
24120 TGCCCCAAGCTCG
66 TGCCCCAAGCTCG
* * * *
24133 GGGTAAGATATTGGCTGATGGTGATCTACCCCAAGCTCGAGGTAAAAGATCGGATGACTACAATC
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGGCTACAATC
* *
24198 TACCCCAGGCTCG
66 TGCCCCAAGCTCG
* * * * * * * *
24211 AGGTAATAGATTGACTGATGGTGATCTG-CCCTAGACTCGGGGTAAAAGATTGGATGGCTGCAAT
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAG-CTCGAGGTAAAAGATCGAATGGCTACAAT
24275 CTGCCCCAAGCTCG
65 CTGCCCCAAGCTCG
* * * * * *
24289 GAGTAAGAGATTGGCTGATGGTGATTTGCCTCGAGCTCGGGGTAAAAGATCGAATGGCTACATTC
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGGCTACAATC
24354 TGCCCCA
66 TGCCCCA
24361 GGGGGTAAAG
Statistics
Matches: 190, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
76 17 0.09
77 6 0.03
78 163 0.86
79 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (78 bp):
GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGGCTACAATC
TGCCCCAAGCTCG
Found at i:24654 original size:49 final size:49
Alignment explanation
Indices: 24595--24783 Score: 200
Period size: 49 Copynumber: 3.8 Consensus size: 49
24585 TCCTTTAACT
*
24595 CTTCATGGTATCGGGTTCGCCATTACGGCCTCAACCTTTCCTATCACAG
1 CTTCATGGTATCGGATTCGCCATTACGGCCTCAACCTTTCCTATCACAG
* ** *
24644 CTTCATGGTATCGGATTCGCCATTGCAACATCAACCTTTCCTATCACAG
1 CTTCATGGTATCGGATTCGCCATTACGGCCTCAACCTTTCCTATCACAG
* * * * *
24693 CTTCATGGTATCGAATTCGCCGTCACGGCCTCAATCC-TTCCAATCACAT
1 CTTCATGGTATCGGATTCGCCATTACGGCCTCAA-CCTTTCCTATCACAG
* * * * ** *
24742 CTTCTTAGGTACCGGGTTCGCCTTTGTGGCCTTAACCTTTCC
1 CTTCAT-GGTATCGGATTCGCCATTACGGCCTCAACCTTTCC
24784 CTTCATATCT
Statistics
Matches: 114, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
49 88 0.77
50 26 0.23
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (49 bp):
CTTCATGGTATCGGATTCGCCATTACGGCCTCAACCTTTCCTATCACAG
Found at i:25742 original size:6 final size:6
Alignment explanation
Indices: 25733--25842 Score: 88
Period size: 6 Copynumber: 18.3 Consensus size: 6
25723 CGACCTCTCC
* *
25733 TTTTCT TTTTCCTT TTTTCCT TTTT-T GTTTTCT TCTT-G TTTTCT TTTTCT
1 TTTTCT TTTT-C-T TTTT-CT TTTTCT -TTTTCT TTTTCT TTTTCT TTTTCT
*
25783 TTTTCT TTTTCT TCTTT-T TCTTTCT TTTTC- -TTTCT TTTTTT TTTTCT
1 TTTTCT TTTTCT T-TTTCT T-TTTCT TTTTCT TTTTCT TTTTCT TTTTCT
*
25830 TTTT-T CTTTCT TT
1 TTTTCT TTTTCT TT
25843 ATTGAATCCG
Statistics
Matches: 86, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.05
5 8 0.09
6 55 0.64
7 12 0.14
8 7 0.08
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:25785 original size:11 final size:11
Alignment explanation
Indices: 25754--25842 Score: 80
Period size: 11 Copynumber: 8.3 Consensus size: 11
25744 CTTTTTTCCT
*
25754 TTTTTGTTTTC
1 TTTTTCTTTTC
* *
25765 TTCTTGTTTTC
1 TTTTTCTTTTC
25776 TTTTTCTTTTTC
1 TTTTTC-TTTTC
25788 TTTTTC--TTC
1 TTTTTCTTTTC
25797 TTTTTC-TTTC
1 TTTTTCTTTTC
25807 TTTTTC-TTTC
1 TTTTTCTTTTC
*
25817 TTTTTTTTTTTC
1 -TTTTTCTTTTC
25829 TTTTT-TCTTTC
1 TTTTTCT-TTTC
25840 TTT
1 TTT
25843 ATTGAATCCG
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
9 9 0.13
10 14 0.20
11 31 0.45
12 15 0.22
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:25792 original size:29 final size:27
Alignment explanation
Indices: 25735--25838 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 27
25725 ACCTCTCCTT
*
25735 TTCTTTTTCCTTTTTTCCTTTTTTGTTTTC
1 TTCTTTTTTC-TTTTT-CTTTTTT-TTTTC
25765 TTCTTGTTTTCTTTTTCTTTTTCTTTTTC
1 TTCTT-TTTTCTTTTTCTTTTT-TTTTTC
*
25794 TTCTTTTTCTTTCTTTTTCTTTCTTTTTTTTT
1 TTC--TTT-TTTCTTTTTC-TT-TTTTTTTTC
25826 TTCTTTTTTCTTT
1 TTCTTTTTTCTTT
25839 CTTTATTGAA
Statistics
Matches: 65, Mismatches: 2, Indels: 15
0.79 0.02 0.18
Matches are distributed among these distances:
29 21 0.32
30 15 0.23
31 16 0.25
32 10 0.15
33 3 0.05
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (27 bp):
TTCTTTTTTCTTTTTCTTTTTTTTTTC
Found at i:25804 original size:35 final size:33
Alignment explanation
Indices: 25733--25838 Score: 101
Period size: 35 Copynumber: 3.0 Consensus size: 33
25723 CGACCTCTCC
25733 TTTTCTTTTTCCTTTTTTCCTTTTT-TGTTTTCTTCTT
1 TTTTCTTTTT-C-TTTTT-CTTTTTCT-TTTT-TTCTT
25770 GTTTTCTTTTTCTTTTTCTTTTTCTTCTTTTTCTT
1 -TTTTCTTTTTCTTTTTCTTTTTCTT-TTTTTCTT
*
25805 TCTTT-TTCTTTCTTTTTTTTTTTC-TTTTTTCTT
1 T-TTTCTT-TTTCTTTTTCTTTTTCTTTTTTTCTT
25838 T
1 T
25839 CTTTATTGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
33 9 0.14
34 4 0.06
35 30 0.48
36 9 0.14
37 1 0.02
38 10 0.16
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (33 bp):
TTTTCTTTTTCTTTTTCTTTTTCTTTTTTTCTT
Found at i:32069 original size:170 final size:170
Alignment explanation
Indices: 31787--32132 Score: 638
Period size: 170 Copynumber: 2.0 Consensus size: 170
31777 CTTCCTTCTC
31787 CTTCTCTTCAACAAGCGTTTAATGATCTGAAGGTCTCGACGAGGATTGCTGAGACCAGAGTGACT
1 CTTCTCTTCAACAAGCGTTTAATGATCTGAAGGTCTCGACGAGGATTGCTGAGACCAGAGTGACT
*
31852 CCCTTGCTAAGCCGATCAAAAAAGATTTGCAACTTCTACATGCCCTAATGCTTTTGGGAAAATGA
66 CCCTTGCTAAGCCGATAAAAAAAGATTTGCAACTTCTACATGCCCTAATGCTTTTGGGAAAATGA
* *
31917 CTAATCCGTATATGCCTAGAGCGGAAATGTTGAAGCGTTT
131 CTAATCCATATATGCCTAGAGCGAAAATGTTGAAGCGTTT
*
31957 CTTCTCTTCAACAAGCGTTTAATGATCTGAAGGTCTCGACGAGGATTGTTGAGACCAGAGTGACT
1 CTTCTCTTCAACAAGCGTTTAATGATCTGAAGGTCTCGACGAGGATTGCTGAGACCAGAGTGACT
*
32022 CCCTTGCTAAGCCGATAAAAAAATATTTGCAACTTCTACATGCCCTAATGCTTTTGGGAAAATGA
66 CCCTTGCTAAGCCGATAAAAAAAGATTTGCAACTTCTACATGCCCTAATGCTTTTGGGAAAATGA
*
32087 CTAATCCATATATGCCTAGAGCGAAAATGTTGATGCGTTT
131 CTAATCCATATATGCCTAGAGCGAAAATGTTGAAGCGTTT
32127 CTTCTC
1 CTTCTC
32133 ATCTGGGTGT
Statistics
Matches: 170, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (170 bp):
CTTCTCTTCAACAAGCGTTTAATGATCTGAAGGTCTCGACGAGGATTGCTGAGACCAGAGTGACT
CCCTTGCTAAGCCGATAAAAAAAGATTTGCAACTTCTACATGCCCTAATGCTTTTGGGAAAATGA
CTAATCCATATATGCCTAGAGCGAAAATGTTGAAGCGTTT
Found at i:34246 original size:30 final size:30
Alignment explanation
Indices: 34191--34479 Score: 267
Period size: 29 Copynumber: 9.9 Consensus size: 30
34181 GTAAAATTTG
*
34191 ATTTTGGAGAAGTTT-AGGGTTAAAATGTA
1 ATTTTGGAGAAGTTTGAGGGTCAAAATGTA
*
34220 ATTTTGTAGAAGTTTGAGGGTCAAAATGTA
1 ATTTTGGAGAAGTTTGAGGGTCAAAATGTA
* * *
34250 ATTGTAGAGAAGTTT-AGAGTCAAAATGTA
1 ATTTTGGAGAAGTTTGAGGGTCAAAATGTA
*
34279 ATTTTGGAGAAGTTTGAGGGTTAAAATGTA
1 ATTTTGGAGAAGTTTGAGGGTCAAAATGTA
* * * * *
34309 AATTTGGTGAAGTTCGA-GGTCAAAATATG
1 ATTTTGGAGAAGTTTGAGGGTCAAAATGTA
*
34338 ATTTTGG-GAAAGTTTTA-GGTCAAAATGTA
1 ATTTTGGAG-AAGTTTGAGGGTCAAAATGTA
* * * *
34367 A-TTTGGAGAAATTCGA-GGTCGAAATGTG
1 ATTTTGGAGAAGTTTGAGGGTCAAAATGTA
* * *
34395 ATTTTGGAAAAG-TTAAGGGTCAAAATATA
1 ATTTTGGAGAAGTTTGAGGGTCAAAATGTA
** *
34424 ATTTTAAAGAAGTTT-AGAGGTCAAAATATA
1 ATTTTGGAGAAGTTTGAG-GGTCAAAATGTA
*
34454 ATTTT-GATAAAGTTTG-GGGTCAAAAT
1 ATTTTGGA-GAAGTTTGAGGGTCAAAAT
34480 ATGATTTCGG
Statistics
Matches: 212, Mismatches: 38, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
28 24 0.11
29 111 0.52
30 77 0.36
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.34
Consensus pattern (30 bp):
ATTTTGGAGAAGTTTGAGGGTCAAAATGTA
Found at i:34263 original size:59 final size:59
Alignment explanation
Indices: 34197--34479 Score: 278
Period size: 59 Copynumber: 4.9 Consensus size: 59
34187 TTTGATTTTG
* *
34197 GAGAAGTTTAG-GGTTAAAATGTAATTTTGTAGAAGTTTGAGGGTCAAAATGTAATTGTA
1 GAGAAGTTTAGAGGTCAAAATGTAATTTTGGAGAAGTTTGAGGGTCAAAATGTAATT-TA
* *
34256 GAGAAGTTTAGA-GTCAAAATGTAATTTTGGAGAAGTTTGAGGGTTAAAATGTAAATTTG
1 GAGAAGTTTAGAGGTCAAAATGTAATTTTGGAGAAGTTTGAGGGTCAAAATGT-AATTTA
* * * * * *
34315 GTGAAG-TTCGAGGTCAAAATATGATTTTGG-GAAAGTTTTA-GGTCAAAATGTAATTTG
1 GAGAAGTTTAGAGGTCAAAATGTAATTTTGGAG-AAGTTTGAGGGTCAAAATGTAATTTA
* * * * * * *
34372 GAGAA-ATTCGAGGTCGAAATGTGATTTTGGAAAAG-TTAAGGGTCAAAATATAATTTTA
1 GAGAAGTTTAGAGGTCAAAATGTAATTTTGGAGAAGTTTGAGGGTCAAAATGTAA-TTTA
* * *
34430 AAGAAGTTTAGAGGTCAAAATATAATTTT-GATAAAGTTTG-GGGTCAAAAT
1 GAGAAGTTTAGAGGTCAAAATGTAATTTTGGA-GAAGTTTGAGGGTCAAAAT
34480 ATGATTTCGG
Statistics
Matches: 189, Mismatches: 24, Indels: 22
0.80 0.10 0.09
Matches are distributed among these distances:
56 3 0.02
57 47 0.25
58 24 0.13
59 109 0.58
60 6 0.03
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (59 bp):
GAGAAGTTTAGAGGTCAAAATGTAATTTTGGAGAAGTTTGAGGGTCAAAATGTAATTTA
Found at i:34481 original size:59 final size:58
Alignment explanation
Indices: 34161--34479 Score: 263
Period size: 59 Copynumber: 5.4 Consensus size: 58
34151 AGGGTTATGC
* * * * *
34161 AATTTTAGAAAATTTTAGGGGT-AAAATTTGATTTTGGAGAAGTTTAG-GGTTAAAATGT
1 AATTTT-GAAAAGTTT-GGGGTCAAAATGTAATTTTAGAGAAGTTTAGAGGTCAAAATGT
* *
34219 AATTTTGTAGAAGTTTGAGGGTCAAAATGTAATTGTAGAGAAGTTTAGA-GTCAAAATGT
1 AATTTTG-AAAAGTTTG-GGGTCAAAATGTAATTTTAGAGAAGTTTAGAGGTCAAAATGT
* * * * * * *
34278 AATTTTGGAGAAGTTTGAGGGTTAAAATGTAAATTTGGTGAAG-TTCGAGGTCAAAATAT
1 AATTTT-GAAAAGTTTG-GGGTCAAAATGTAATTTTAGAGAAGTTTAGAGGTCAAAATGT
* * ** * * * *
34337 GATTTTGGGAAAGTTTTAGGTCAAAATGTAA-TTTGGAGAA-ATTCGAGGTCGAAATGT
1 AATTTT-GAAAAGTTTGGGGTCAAAATGTAATTTTAGAGAAGTTTAGAGGTCAAAATGT
* ** * * *
34394 GATTTTGGAAAAGTTAAGGGTCAAAATATAATTTTAAAGAAGTTTAGAGGTCAAAATAT
1 AATTTT-GAAAAGTTTGGGGTCAAAATGTAATTTTAGAGAAGTTTAGAGGTCAAAATGT
34453 AATTTTGATAAAGTTTGGGGTCAAAAT
1 AATTTTGA-AAAGTTTGGGGTCAAAAT
34480 ATGATTTCGG
Statistics
Matches: 214, Mismatches: 37, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
57 50 0.23
58 41 0.19
59 122 0.57
60 1 0.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (58 bp):
AATTTTGAAAAGTTTGGGGTCAAAATGTAATTTTAGAGAAGTTTAGAGGTCAAAATGT
Found at i:36465 original size:17 final size:17
Alignment explanation
Indices: 36443--36479 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
36433 AAGTCGTTTG
36443 TTTATTTTTC-TTATTTA
1 TTTA-TTTTCGTTATTTA
36460 TTTATTTTCGTTATTTA
1 TTTATTTTCGTTATTTA
36477 TTT
1 TTT
36480 TTTATCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTATTTTCGTTATTTA
Found at i:37872 original size:38 final size:38
Alignment explanation
Indices: 37821--37898 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
37811 AACAATATAA
37821 TCACACAAATCTAAAAGTTATGCAAGGTAATGGAACTC
1 TCACACAAATCTAAAAGTTATGCAAGGTAATGGAACTC
*
37859 TCACACAAATCTAAAAGTTATTCAAGGTAATGGAACTC
1 TCACACAAATCTAAAAGTTATGCAAGGTAATGGAACTC
37897 TC
1 TC
37899 TCAAGTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (38 bp):
TCACACAAATCTAAAAGTTATGCAAGGTAATGGAACTC
Found at i:48513 original size:22 final size:22
Alignment explanation
Indices: 48485--48529 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
48475 ATTCTGCTCG
*
48485 AAAATAGTGGGAATTTAATTCT
1 AAAATAGTGAGAATTTAATTCT
*
48507 AAAATAGTGAGAATTTATTTCT
1 AAAATAGTGAGAATTTAATTCT
48529 A
1 A
48530 GGTATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (22 bp):
AAAATAGTGAGAATTTAATTCT
Found at i:49288 original size:20 final size:18
Alignment explanation
Indices: 49263--49302 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
49253 ATTAGATGCG
49263 GAGTTTCGATTTTGGGCCTA
1 GAGTTTCG-TTTT-GGCCTA
*
49283 GAGTTTTGTTTTGGCCTA
1 GAGTTTCGTTTTGGCCTA
49301 GA
1 GA
49303 ACTCTGTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.15, C:0.12, G:0.30, T:0.42
Consensus pattern (18 bp):
GAGTTTCGTTTTGGCCTA
Found at i:50663 original size:12 final size:12
Alignment explanation
Indices: 50646--50671 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50636 GTCTTTTAGA
50646 AAATTTTAAATT
1 AAATTTTAAATT
50658 AAATTTTAAATT
1 AAATTTTAAATT
50670 AA
1 AA
50672 TAAATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATTTTAAATT
Found at i:51134 original size:17 final size:18
Alignment explanation
Indices: 51102--51135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51092 TCATTATGCA
51102 TAAAAAAATAAAATGAAG
1 TAAAAAAATAAAATGAAG
*
51120 TAAATAAAT-AAATGAA
1 TAAAAAAATAAAATGAA
51136 ACAAACGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (18 bp):
TAAAAAAATAAAATGAAG
Found at i:54971 original size:44 final size:44
Alignment explanation
Indices: 54902--54991 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
54892 AATTAAGTAA
* * * *
54902 AATAGAAGTTGTGATAATTATACATTTATAATTATTTATAATTT
1 AATAGAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
*
54946 AATAGAAGTTGTGATAATTGCACATTTAAAAATAATTATAATTT
1 AATAGAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
54990 AA
1 AA
54992 AATTTACCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (44 bp):
AATAGAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
Found at i:56305 original size:50 final size:51
Alignment explanation
Indices: 56194--56328 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 51
56184 AACTAATGGA
* *
56194 TTACTTAATGCATGACT-TGATTTAAAGATGCAAACTTTAACTAACATAGGAG
1 TTACTTAATGCATGA-TATGATTT-ATGATGCAAACTTTAACTAACATAGAAG
* * * *
56246 TTACATAATGCATGATAGGATTTATGATGCATA-TTTAACTAATAT-GTAAG
1 TTACTTAATGCATGATATGATTTATGATGCAAACTTTAACTAACATAG-AAG
*
56296 TTACTTAATGCATG-TCATTATTTATGATGCAAA
1 TTACTTAATGCATGAT-ATGATTTATGATGCAAA
56329 AACTTAACTA
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
49 2 0.03
50 40 0.57
51 9 0.13
52 19 0.27
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (51 bp):
TTACTTAATGCATGATATGATTTATGATGCAAACTTTAACTAACATAGAAG
Found at i:56801 original size:23 final size:23
Alignment explanation
Indices: 56758--56817 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
56748 TTCCCCTTAA
* *
56758 TTTT-TTTTATATTAAGTTTTTT
1 TTTTATTTTATATTAAGGTTTTC
**
56780 TTTTATTTTATATTTTGGTTTTC
1 TTTTATTTTATATTAAGGTTTTC
56803 TTTTAGTTTTTATAT
1 TTTTA--TTTTATAT
56818 GCCTTTGTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 4 0.13
23 19 0.61
25 8 0.26
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.75
Consensus pattern (23 bp):
TTTTATTTTATATTAAGGTTTTC
Found at i:56848 original size:23 final size:23
Alignment explanation
Indices: 56817--56877 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
56807 AGTTTTTATA
*
56817 TGCCTTTGTGGCACG-TTTTTCCTT
1 TGCC-TTGTGGCACGATTTTT-CTC
*
56841 TGCCTTGTGACACGATTTTTCTC
1 TGCCTTGTGGCACGATTTTTCTC
56864 TGCCTTGTGGCACG
1 TGCCTTGTGGCACG
56878 CTTCTGCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 24 0.73
24 9 0.27
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (23 bp):
TGCCTTGTGGCACGATTTTTCTC
Found at i:62006 original size:21 final size:21
Alignment explanation
Indices: 61959--62035 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
61949 AATAGTGCAG
*
61959 ACTTCTACTGATACAAGTGAT
1 ACTTCTACCGATACAAGTGAT
* *
61980 AGTTCTACCGATATAAGTGACT
1 ACTTCTACCGATACAAGTGA-T
* **
62002 -CTTCTACCGAAACAAGTCTT
1 ACTTCTACCGATACAAGTGAT
*
62022 ACTTCTATCGATAC
1 ACTTCTACCGATAC
62036 TAGAAACTCC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 1 0.02
21 42 0.95
22 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAT
Found at i:63817 original size:21 final size:22
Alignment explanation
Indices: 63793--63835 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
63783 TTAAGACTTT
*
63793 CTTTATTAACTTT-GTTAATCA
1 CTTTATTAACTTTAATTAATCA
* *
63814 CTTTTTTATCTTTAATTAATCA
1 CTTTATTAACTTTAATTAATCA
63836 TATTTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.56
Consensus pattern (22 bp):
CTTTATTAACTTTAATTAATCA
Found at i:67995 original size:45 final size:44
Alignment explanation
Indices: 67946--68048 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 44
67936 GATAGGTGCT
* * * *
67946 TGTCAGGGTGTGTGTGTGTATACTGTTTTGAGGCAGACGGGCGTG
1 TGTCA-GGTGTGTGTATGTATACTGTTTTGAAGCACACGGGCATG
67991 TGTCA-G-G-GTGTATGTATACTGTTTTGAAGCACACGGGCATG
1 TGTCAGGTGTGTGTATGTATACTGTTTTGAAGCACACGGGCATG
68032 TGTCAAGGTGTGTGTAT
1 TGTC-AGGTGTGTGTAT
68049 ATTGTTCTGG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
41 34 0.68
42 2 0.04
43 2 0.04
44 1 0.02
45 11 0.22
ACGTcount: A:0.17, C:0.12, G:0.37, T:0.34
Consensus pattern (44 bp):
TGTCAGGTGTGTGTATGTATACTGTTTTGAAGCACACGGGCATG
Found at i:68027 original size:41 final size:41
Alignment explanation
Indices: 67957--68069 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 41
67947 GTCAGGGTGT
* * *
67957 GTGTGTGTATACTGTTTTGAGGCAGACGGGCGTGTGTCAGG
1 GTGTGTGTATACTGTTTTGAGGCACACGGGCATGTGTCAAG
* *
67998 GTGTATGTATACTGTTTTGAAGCACACGGGCATGTGTCAAG
1 GTGTGTGTATACTGTTTTGAGGCACACGGGCATGTGTCAAG
* * *
68039 GTGTGTGTATATTGTTCTGGGGCACACGGGC
1 GTGTGTGTATACTGTTTTGAGGCACACGGGC
68070 TGACACATGG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (41 bp):
GTGTGTGTATACTGTTTTGAGGCACACGGGCATGTGTCAAG
Found at i:68171 original size:53 final size:53
Alignment explanation
Indices: 68020--68176 Score: 197
Period size: 53 Copynumber: 3.0 Consensus size: 53
68010 TGTTTTGAAG
* * * * * *
68020 CACACGGGCATGTGTCAAGGTGTGTGTATATTGTTCTGGGGCACACGGGCTGA
1 CACATGGGCGTGTGTCAAGGTGTGTGTATATTGTTCTGAGGCACATGGTCTAA
* * * *
68073 CACATGGGCGTATGTCAGGGTGTGTGTATGTTGCTCTGAGGCACATGGTCTAA
1 CACATGGGCGTGTGTCAAGGTGTGTGTATATTGTTCTGAGGCACATGGTCTAA
* * *
68126 CACATGGGCGTGTGTCAAGGTGTGTGTATAATGTTTTGAGACACATGGTCT
1 CACATGGGCGTGTGTCAAGGTGTGTGTATATTGTTCTGAGGCACATGGTCT
68177 GTAATAAGCT
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 87 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.30
Consensus pattern (53 bp):
CACATGGGCGTGTGTCAAGGTGTGTGTATATTGTTCTGAGGCACATGGTCTAA
Found at i:68753 original size:29 final size:29
Alignment explanation
Indices: 68711--68797 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
68701 ACGGATGGGG
*
68711 GTATCATGTCTGCATTTGTAACTGTATCT
1 GTATCATGTCTGCATTTGTAACTATATCT
*
68740 GTATCATGTCTGCATTTGTAACTATCTCT
1 GTATCATGTCTGCATTTGTAACTATATCT
* * * *
68769 ATATCATGTCTGGATCTATAACTATATCT
1 GTATCATGTCTGCATTTGTAACTATATCT
68798 CTGACATGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (29 bp):
GTATCATGTCTGCATTTGTAACTATATCT
Found at i:74466 original size:21 final size:21
Alignment explanation
Indices: 74442--74484 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
74432 ACAAGACAAA
*
74442 AATACAAAGTAAGAGTATGTG
1 AATACAAAGCAAGAGTATGTG
74463 AATACAAAGCAAGAGTATGTG
1 AATACAAAGCAAGAGTATGTG
74484 A
1 A
74485 CTCAAGATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.23, T:0.21
Consensus pattern (21 bp):
AATACAAAGCAAGAGTATGTG
Found at i:76066 original size:21 final size:21
Alignment explanation
Indices: 76020--76073 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
76010 GAGTATTAGT
*
76020 TGATTTATATTAAGTGTAAATA
1 TGATTTA-ATTAAGTGTAAAAA
76042 -GATTTAATTAAGAT-TAAAAA
1 TGATTTAATTAAG-TGTAAAAA
76062 TGA-TTAATTAAG
1 TGATTTAATTAAG
76074 GCTTAATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TGATTTAATTAAGTGTAAAAA
Found at i:78301 original size:52 final size:52
Alignment explanation
Indices: 78229--78465 Score: 370
Period size: 52 Copynumber: 4.6 Consensus size: 52
78219 TTTTCCTTTA
* * *
78229 ATACTCAAGAT-A-ACACAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCTT
* *
78279 AAACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCTT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCTT
* *
78331 ATACTCACGATGACACATAGTCATTAGACCTCATAATCCATAAAGGATTCTT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCTT
* *
78383 ATACTCACGATGACACATAGTTATAAGACCTCATAATCCGTAAAGGATTCTT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCTT
*
78435 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCAGACCT
78466 TTTCATTTAC
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 9 0.05
51 1 0.01
52 160 0.94
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCTT
Found at i:88735 original size:21 final size:21
Alignment explanation
Indices: 88710--88760 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
88700 ATTCTAGTTC
*
88710 TAAAAAATTCAAAAATATATA
1 TAAAAAATACAAAAATATATA
* * *
88731 TAAAAAATACATAAATATTTT
1 TAAAAAATACAAAAATATATA
88752 TAAAAAATA
1 TAAAAAATA
88761 TAAGTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAAAAATACAAAAATATATA
Found at i:89001 original size:24 final size:24
Alignment explanation
Indices: 88969--89016 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
88959 TTGGCTTCTT
*
88969 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATATAAATATAA
88993 TTATTTTATTTAATATAAATATAA
1 TTATTTTATTTAATATAAATATAA
89017 ATATAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTATTTTATTTAATATAAATATAA
Found at i:89007 original size:18 final size:19
Alignment explanation
Indices: 88974--89028 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
88964 TTCTTTTATT
88974 TTATTTAATATTAATATAA
1 TTATTTAATATTAATATAA
*
88993 TTATTTTAT-TTAATATAA
1 TTATTTAATATTAATATAA
* * *
89011 ATA-TAAATATAAATATAA
1 TTATTTAATATTAATATAA
89029 AATTTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 3 0.10
18 19 0.63
19 8 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTTAATATTAATATAA
Found at i:89027 original size:6 final size:6
Alignment explanation
Indices: 89004--89029 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
88994 TATTTTATTT
89004 AATATA AATATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AA
89030 ATTTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:90400 original size:30 final size:28
Alignment explanation
Indices: 90360--90418 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 28
90350 TCGTGAACAT
90360 TAAACAAACATGAACAAATATAA-TTTTAAA
1 TAAACAAACATGAA-AAA-A-AAGTTTTAAA
*
90390 TAAACGAACATGAAAAAAAAGTTTTAAA
1 TAAACAAACATGAAAAAAAAGTTTTAAA
90418 T
1 T
90419 TCTTAACGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 2 0.07
28 9 0.33
29 3 0.11
30 13 0.48
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.25
Consensus pattern (28 bp):
TAAACAAACATGAAAAAAAAGTTTTAAA
Found at i:101983 original size:22 final size:21
Alignment explanation
Indices: 101955--102034 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 21
101945 CAGAAGGCAT
*
101955 CGAAGTGCAAATCACTAAGCAC
1 CGAAGTGCAAAACA-TAAGCAC
* *
101977 CGAAGTGCAAAACAATAGGCAT
1 CGAAGTGCAAAAC-ATAAGCAC
*
101999 TGAAGTGCAAAACGATAAGCAC
1 CGAAGTGCAAAAC-ATAAGCAC
* *
102021 CGAAGAGCGAAACA
1 CGAAGTGCAAAACA
102035 AAAAAACACC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 1 0.02
22 45 0.96
23 1 0.02
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (21 bp):
CGAAGTGCAAAACATAAGCAC
Found at i:101998 original size:44 final size:44
Alignment explanation
Indices: 101949--102035 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
101939 ATAGAACAGA
* *
101949 AGGCATCGAAGTGCAAATC-ACTAAGCACCGAAGTGCAAAACAAT
1 AGGCATCGAAGTGCAAAACGA-TAAGCACCGAAGAGCAAAACAAT
* *
101993 AGGCATTGAAGTGCAAAACGATAAGCACCGAAGAGCGAAACAA
1 AGGCATCGAAGTGCAAAACGATAAGCACCGAAGAGCAAAACAA
102036 AAAAACACCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (44 bp):
AGGCATCGAAGTGCAAAACGATAAGCACCGAAGAGCAAAACAAT
Found at i:102597 original size:19 final size:19
Alignment explanation
Indices: 102561--102598 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
102551 GATTACAAAA
*
102561 TTCATATATTCTTGTATTT
1 TTCATATATGCTTGTATTT
102580 TTCACTATATGCTT-TATTT
1 TTCA-TATATGCTTGTATTT
102599 ATCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.21, C:0.13, G:0.05, T:0.61
Consensus pattern (19 bp):
TTCATATATGCTTGTATTT
Found at i:104592 original size:14 final size:14
Alignment explanation
Indices: 104573--104601 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
104563 TCAGACTTTA
104573 TTTTAAAATTATTC
1 TTTTAAAATTATTC
104587 TTTTAAAATTATTC
1 TTTTAAAATTATTC
104601 T
1 T
104602 AAACTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAAATTATTC
Found at i:108906 original size:14 final size:14
Alignment explanation
Indices: 108869--108910 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
108859 CTATATTTTA
108869 AATATTTAAATA-T
1 AATATTTAAATATT
108882 AATCA-TTAAATATT
1 AAT-ATTTAAATATT
*
108896 TATATTTAAATATT
1 AATATTTAAATATT
108910 A
1 A
108911 GCATAGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:110796 original size:72 final size:72
Alignment explanation
Indices: 110613--110796 Score: 307
Period size: 72 Copynumber: 2.6 Consensus size: 72
110603 AACAAATTTT
* * * * *
110613 ATATCC-AAAATCAAATATAAATAACTATTGATAAAACTAAATTACACATAAATAAGTAGAGCAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
110677 AAATTCA
66 AAATTCA
110684 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
110749 AAATTCA
66 AAATTCA
*
110756 ATATCCAAAAACCAAACATAAACAACTACTGATAAAACTAG
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
110797 TTTAGCATTG
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 6 0.06
72 100 0.94
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.23
Consensus pattern (72 bp):
ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
AAATTCA
Found at i:113805 original size:12 final size:11
Alignment explanation
Indices: 113776--113813 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
113766 AGAGAGATTT
113776 TGGAAGAAAAA
1 TGGAAGAAAAA
*
113787 AGGAAGAAGAAA
1 TGGAAGAA-AAA
113799 TGGAAGAAAAA
1 TGGAAGAAAAA
113810 -GGAA
1 TGGAA
113814 ATAAAAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (11 bp):
TGGAAGAAAAA
Found at i:117028 original size:22 final size:22
Alignment explanation
Indices: 116979--117028 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
116969 AGTGCAGAAT
* * *
116979 GATAAGCACTAGAGTGCGAAAC
1 GATAAGCACTAAAGCGCAAAAC
117001 -AGTAAGCACTAAAGCGCAAAAC
1 GA-TAAGCACTAAAGCGCAAAAC
117023 GATAAG
1 GATAAG
117029 TGGGCTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 1 0.04
22 21 0.91
23 1 0.04
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (22 bp):
GATAAGCACTAAAGCGCAAAAC
Found at i:118471 original size:12 final size:11
Alignment explanation
Indices: 118442--118484 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
118432 AATAATTTAA
118442 TAATAAAATAT
1 TAATAAAATAT
* *
118453 TACTAAAAATCT
1 TAAT-AAAATAT
118465 TAATAAAATAT
1 TAATAAAATAT
118476 TAATTAAAA
1 TAA-TAAAA
118485 AATATTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 12 0.46
12 14 0.54
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:120895 original size:28 final size:30
Alignment explanation
Indices: 120856--120924 Score: 106
Period size: 28 Copynumber: 2.3 Consensus size: 30
120846 AAATCAAAAT
120856 TTCATGTATACAATTG-CATAAAATCA-AG
1 TTCATGTATACAATTGACATAAAATCATAG
*
120884 TTCATGTATACAATTGCACATTAAATCATAG
1 TTCATGTATACAATTG-ACATAAAATCATAG
120915 TTCATGTATA
1 TTCATGTATA
120925 GTTTTGGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 16 0.43
30 9 0.24
31 12 0.32
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (30 bp):
TTCATGTATACAATTGACATAAAATCATAG
Found at i:123168 original size:7 final size:7
Alignment explanation
Indices: 123156--123204 Score: 98
Period size: 7 Copynumber: 7.0 Consensus size: 7
123146 CACCAATTAG
123156 TTTGATA
1 TTTGATA
123163 TTTGATA
1 TTTGATA
123170 TTTGATA
1 TTTGATA
123177 TTTGATA
1 TTTGATA
123184 TTTGATA
1 TTTGATA
123191 TTTGATA
1 TTTGATA
123198 TTTGATA
1 TTTGATA
123205 CCTTAAAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TTTGATA
Found at i:136072 original size:24 final size:25
Alignment explanation
Indices: 136040--136091 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
136030 AATAAAATAT
*
136040 AATAAAGTACATTTCG-TATACCAA
1 AATAAAGTACATTTCGATATACAAA
* * *
136064 AATACAGTATATTTTGATATACAAA
1 AATAAAGTACATTTCGATATACAAA
136089 AAT
1 AAT
136092 TTTAACCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.33
Consensus pattern (25 bp):
AATAAAGTACATTTCGATATACAAA
Found at i:140122 original size:21 final size:20
Alignment explanation
Indices: 140076--140124 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
140066 TAGAATCTAA
* *
140076 AAATTAAATTAAAAAATATT
1 AAATTAAAATAAAAAATACT
*
140096 ATAATTAAAATAAAAAATGGCT
1 A-AATTAAAATAAAAAAT-ACT
140118 AAATTAA
1 AAATTAA
140125 TAGAAATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAATTAAAATAAAAAATACT
Found at i:142622 original size:51 final size:51
Alignment explanation
Indices: 142546--142648 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
142536 ATAGCATAAG
*
142546 GGCTACTATGCGCTTCCTGTAAAATAGATTGCCTTAACTCAACATCATTAT
1 GGCTACTATGCACTTCCTGTAAAATAGATTGCCTTAACTCAACATCATTAT
* *
142597 GGCTACTATGCACTT-TTCGTAAAATAGATTGCCTTAATTCAACATCATTAT
1 GGCTACTATGCACTTCCT-GTAAAATAGATTGCCTTAACTCAACATCATTAT
142648 G
1 G
142649 CACACAGATC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 47 0.98
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (51 bp):
GGCTACTATGCACTTCCTGTAAAATAGATTGCCTTAACTCAACATCATTAT
Found at i:145810 original size:46 final size:46
Alignment explanation
Indices: 145748--145847 Score: 200
Period size: 46 Copynumber: 2.2 Consensus size: 46
145738 AATGACAAAA
145748 CATCCAAAAATTTGAGTCTTAACTCATTCCCAAACACCCACAACAT
1 CATCCAAAAATTTGAGTCTTAACTCATTCCCAAACACCCACAACAT
145794 CATCCAAAAATTTGAGTCTTAACTCATTCCCAAACACCCACAACAT
1 CATCCAAAAATTTGAGTCTTAACTCATTCCCAAACACCCACAACAT
145840 CATCCAAA
1 CATCCAAA
145848 CAACAAAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.40, C:0.33, G:0.04, T:0.23
Consensus pattern (46 bp):
CATCCAAAAATTTGAGTCTTAACTCATTCCCAAACACCCACAACAT
Found at i:148640 original size:19 final size:19
Alignment explanation
Indices: 148603--148640 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
148593 AAATTTTGAT
*
148603 AAATAAAGCATATAGTGAA
1 AAATAAAGAATATAGTGAA
148622 AAATACAAGAATATA-TGAA
1 AAATA-AAGAATATAGTGAA
148641 TTTTGTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.21
Consensus pattern (19 bp):
AAATAAAGAATATAGTGAA
Found at i:149127 original size:28 final size:28
Alignment explanation
Indices: 149085--149159 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
149075 TGTATTTAAT
* * *
149085 ACTTTGTGTGTTCTCTGTTCTGATTAGC
1 ACTTTGTGTGCTCTCTATTCTAATTAGC
*
149113 ACTTTGCGTGCTCTCTATTCTAATTAGC
1 ACTTTGTGTGCTCTCTATTCTAATTAGC
*
149141 ACTTTGTGTTCTCTCTATT
1 ACTTTGTGTGCTCTCTATT
149160 ATATAATAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.49
Consensus pattern (28 bp):
ACTTTGTGTGCTCTCTATTCTAATTAGC
Found at i:151811 original size:94 final size:96
Alignment explanation
Indices: 151700--151889 Score: 280
Period size: 94 Copynumber: 2.0 Consensus size: 96
151690 GAATGAGATA
* *
151700 AAAAGGGATTTGATATATT-CTTAATCAGATAAGGAAATAGAATTTAATTATTATT-TAAAAGAG
1 AAAAGGGATTTGATATATTCCTT-ATCAGATAAGAAAATAGAATTTAATTATTATTAAAAAAGAG
*
151763 TTTTAGATAAATAATAATTAA-AATTCAAAATC
65 TTTTAGATAAATAATAAATAATAATT-AAAATC
* *
151795 AAAA-GGATTTGATATATTCCTTATCAGATATGAAAATATAATTTAATTATTATTAAAAAAAGAG
1 AAAAGGGATTTGATATATTCCTTATCAGATAAGAAAATAGAATTTAATTATTATT-AAAAAAGAG
151859 TTTTAGATAAATAATAAATAATAATTAAAAT
65 TTTTAGATAAATAATAAATAATAATTAAAAT
151890 ATAATTTAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
94 43 0.50
95 7 0.08
96 32 0.37
97 4 0.05
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (96 bp):
AAAAGGGATTTGATATATTCCTTATCAGATAAGAAAATAGAATTTAATTATTATTAAAAAAGAGT
TTTAGATAAATAATAAATAATAATTAAAATC
Found at i:151899 original size:16 final size:16
Alignment explanation
Indices: 151880--151917 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
151870 TAATAAATAA
*
151880 TAATTAAAATATAATT
1 TAATTAAAATAGAATT
*
151896 TAATTAAACTAGAATT
1 TAATTAAAATAGAATT
151912 TAATTA
1 TAATTA
151918 TTATTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
TAATTAAAATAGAATT
Found at i:162214 original size:78 final size:78
Alignment explanation
Indices: 162122--162281 Score: 320
Period size: 78 Copynumber: 2.1 Consensus size: 78
162112 AATAAAGCAC
162122 ATTGCAAAAATGATTAAATTGAAGTAACAAAGTAAAGGAAGAATAAACTCTATCGAATCAATAGT
1 ATTGCAAAAATGATTAAATTGAAGTAACAAAGTAAAGGAAGAATAAACTCTATCGAATCAATAGT
162187 CTTGCAATCTCCA
66 CTTGCAATCTCCA
162200 ATTGCAAAAATGATTAAATTGAAGTAACAAAGTAAAGGAAGAATAAACTCTATCGAATCAATAGT
1 ATTGCAAAAATGATTAAATTGAAGTAACAAAGTAAAGGAAGAATAAACTCTATCGAATCAATAGT
162265 CTTGCAATCTCCA
66 CTTGCAATCTCCA
162278 ATTG
1 ATTG
162282 AAGATGTTTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (78 bp):
ATTGCAAAAATGATTAAATTGAAGTAACAAAGTAAAGGAAGAATAAACTCTATCGAATCAATAGT
CTTGCAATCTCCA
Found at i:165222 original size:24 final size:24
Alignment explanation
Indices: 165179--165402 Score: 151
Period size: 24 Copynumber: 9.3 Consensus size: 24
165169 ACAAGTTCAT
* *
165179 TACGTTTACACTCGTTAGCTTATA
1 TACGTTTACGCTCGTCAGCTTATA
* * **
165203 TACATTTGCGCTCGTCAGCTTGCA
1 TACGTTTACGCTCGTCAGCTTATA
* * * *
165227 CATGTTTACGCTCGTTAGCTCATA
1 TACGTTTACGCTCGTCAGCTTATA
*** **
165251 TACGTTTACGCTTACCAGCTTGCA
1 TACGTTTACGCTCGTCAGCTTATA
* *
165275 CACGTTTACGCTAGTCAGCTTATA
1 TACGTTTACGCTCGTCAGCTTATA
* * **
165299 TACATTTACGCTCGCCAGCTTGCA
1 TACGTTTACGCTCGTCAGCTTATA
* * * * **
165323 CATGTTTATGCTCGTTAGCTTGCA
1 TACGTTTACGCTCGTCAGCTTATA
* * *
165347 CACGTTTATGCTCATCAGCTTATA
1 TACGTTTACGCTCGTCAGCTTATA
* **
165371 TACGTTTACGCTCGTCAACTTGCA
1 TACGTTTACGCTCGTCAGCTTATA
165395 TACGTTTA
1 TACGTTTA
165403 AACTCGCTCA
Statistics
Matches: 148, Mismatches: 52, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 148 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (24 bp):
TACGTTTACGCTCGTCAGCTTATA
Found at i:165241 original size:48 final size:48
Alignment explanation
Indices: 165182--165343 Score: 225
Period size: 48 Copynumber: 3.4 Consensus size: 48
165172 AGTTCATTAC
* * *
165182 GTTTACACTCGTTAGCTTATATACATTTGCGCTCGTCAGCTTGCACAT
1 GTTTACGCTCGTTAGCTTATATACATTTACGCTCGCCAGCTTGCACAT
* * ** *
165230 GTTTACGCTCGTTAGCTCATATACGTTTACGCTTACCAGCTTGCACAC
1 GTTTACGCTCGTTAGCTTATATACATTTACGCTCGCCAGCTTGCACAT
* *
165278 GTTTACGCTAGTCAGCTTATATACATTTACGCTCGCCAGCTTGCACAT
1 GTTTACGCTCGTTAGCTTATATACATTTACGCTCGCCAGCTTGCACAT
*
165326 GTTTATGCTCGTTAGCTT
1 GTTTACGCTCGTTAGCTT
165344 GCACACGTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 96 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.36
Consensus pattern (48 bp):
GTTTACGCTCGTTAGCTTATATACATTTACGCTCGCCAGCTTGCACAT
Found at i:165366 original size:48 final size:48
Alignment explanation
Indices: 165182--165385 Score: 210
Period size: 48 Copynumber: 4.2 Consensus size: 48
165172 AGTTCATTAC
* * * **
165182 GTTTACACTCGTTAGCTTATATACATTTGCGCTCGTCAGCTTGCACAT
1 GTTTACGCTCGTTAGCTTATATACGTTTACGCTCACCAGCTTGCACAT
* * *
165230 GTTTACGCTCGTTAGCTCATATACGTTTACGCTTACCAGCTTGCACAC
1 GTTTACGCTCGTTAGCTTATATACGTTTACGCTCACCAGCTTGCACAT
* * * *
165278 GTTTACGCTAGTCAGCTTATATACATTTACGCTCGCCAGCTTGCACAT
1 GTTTACGCTCGTTAGCTTATATACGTTTACGCTCACCAGCTTGCACAT
* ** * * * ** * *
165326 GTTTATGCTCGTTAGCTTGCACACGTTTATGCTCATCAGCTTATATAC
1 GTTTACGCTCGTTAGCTTATATACGTTTACGCTCACCAGCTTGCACAT
165374 GTTTACGCTCGT
1 GTTTACGCTCGT
165386 CAACTTGCAT
Statistics
Matches: 126, Mismatches: 30, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (48 bp):
GTTTACGCTCGTTAGCTTATATACGTTTACGCTCACCAGCTTGCACAT
Found at i:165402 original size:72 final size:72
Alignment explanation
Indices: 165267--165402 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
165257 TACGCTTACC
* *
165267 AGCTTGCACACGTTTACGCTAGTCAGCTTATATACATTTACGCTCGCCAGCTTGCACATGTTTAT
1 AGCTTGCACACGTTTACGCTAGTCAGCTTATATACATTTACGCTCGCCAACTTGCACACGTTTAT
165332 GCTCGTT
66 GCTCGTT
* * * *
165339 AGCTTGCACACGTTTATGCTCA-TCAGCTTATATACGTTTACGCTCGTCAACTTGCATACGTTTA
1 AGCTTGCACACGTTTACGCT-AGTCAGCTTATATACATTTACGCTCGCCAACTTGCACACGTTTA
165403 AACTCGCTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 56 0.98
73 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (72 bp):
AGCTTGCACACGTTTACGCTAGTCAGCTTATATACATTTACGCTCGCCAACTTGCACACGTTTAT
GCTCGTT
Found at i:165895 original size:20 final size:21
Alignment explanation
Indices: 165870--165909 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
165860 AACTTAAGCA
*
165870 TCATCACA-AATTATTTCAAC
1 TCATCACATAATTATCTCAAC
165890 TCATCACATAATTATCTCAA
1 TCATCACATAATTATCTCAA
165910 ACAATCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (21 bp):
TCATCACATAATTATCTCAAC
Done.