Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012690.1 Kokia drynarioides strain JFW-HI SEQ_127701, 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: 192737
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 8 characters in sequence are not A, C, G, or T
Found at i:696 original size:45 final size:45
Alignment explanation
Indices: 561--697 Score: 159
Period size: 45 Copynumber: 3.0 Consensus size: 45
551 GCATAGCTCA
* * *
561 TCAAGCCAAGGATATCAGCCTCAGTTTAACAAGCCACCGTAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
* * *
606 TCAAGCCAAGGATATCAACCTCAATTTGACGAGCCACCACAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
* * * * *
651 TCAAAG-GAAGGATATCAGGCTTAGTTTGACGAGCCATCGCGATAC
1 TC-AAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
696 TC
1 TC
698 TATTCCTCCT
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 74 0.96
46 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (45 bp):
TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
Found at i:734 original size:21 final size:21
Alignment explanation
Indices: 692--734 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
682 AGCCATCGCG
* * *
692 ATACTCTATTCCTCCTGTGCA
1 ATACTCTACTCCTCCAGGGCA
713 ATACTCTACTCCTCCAGGGCA
1 ATACTCTACTCCTCCAGGGCA
734 A
1 A
735 ATGGACCCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.35, G:0.12, T:0.30
Consensus pattern (21 bp):
ATACTCTACTCCTCCAGGGCA
Found at i:4070 original size:4 final size:4
Alignment explanation
Indices: 4050--4135 Score: 77
Period size: 4 Copynumber: 21.2 Consensus size: 4
4040 AACACATTAC
* * *
4050 CTTT CTTT CCTT C-TT CTTT CTTT CCTCT CCTT -TTT CTTT CTTT CCTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT -CTTT
* * *
4098 CCTT CTTC CTTT CTTT CTTT ATTT CCTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT C
4136 CCGTTTATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
3 5 0.08
4 51 0.77
5 10 0.15
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (4 bp):
CTTT
Found at i:4097 original size:29 final size:30
Alignment explanation
Indices: 4049--4136 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 30
4039 AAACACATTA
*
4049 CCTTTCTTTCCTTC-TT-CTTTCTTTCCTCT
1 CCTTTCTTTCTTTCTTTCCTTTCTTTCCT-T
*
4078 CC-TT-TTTCTTTCTTTCCTTTCCTT-CTT
1 CCTTTCTTTCTTTCTTTCCTTTCTTTCCTT
* *
4105 CCTTTCTTTCTTTATTTCCTTTCTTTCTTT
1 CCTTTCTTTCTTTCTTTCCTTTCTTTCCTT
4135 CC
1 CC
4137 CGTTTATTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
27 10 0.20
28 8 0.16
29 27 0.55
30 4 0.08
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (30 bp):
CCTTTCTTTCTTTCTTTCCTTTCTTTCCTT
Found at i:4117 original size:20 final size:19
Alignment explanation
Indices: 4050--4136 Score: 90
Period size: 20 Copynumber: 4.5 Consensus size: 19
4040 AACACATTAC
4050 CTTTCTTTCCTTCTT-CTTT
1 CTTTCTTTCCTT-TTCCTTT
* *
4069 CTTTCCTCTCCTTTTTCTTT
1 CTTT-CTTTCCTTTTCCTTT
4089 CTTTCCTTTCCTTCTTCCTTT
1 CTTT-CTTTCCTT-TTCCTTT
*
4110 CTTTCTTT--ATTTCCTTT
1 CTTTCTTTCCTTTTCCTTT
4127 CTTTCTTTCC
1 CTTTCTTTCC
4137 CGTTTATTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
17 15 0.25
18 1 0.02
19 6 0.10
20 27 0.46
21 10 0.17
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (19 bp):
CTTTCTTTCCTTTTCCTTT
Found at i:4309 original size:28 final size:28
Alignment explanation
Indices: 4277--4341 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
4267 ACACAATGGG
4277 GTGCTGCCAAGTGGCAAAACACCCCTTA
1 GTGCTGCCAAGTGGCAAAACACCCCTTA
*
4305 GTGCTGCCAAGTGGCAAAACACCCTTTA
1 GTGCTGCCAAGTGGCAAAACACCCCTTA
4333 GTGCTGCCA
1 GTGCTGCCA
4342 CTTGATAACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (28 bp):
GTGCTGCCAAGTGGCAAAACACCCCTTA
Found at i:4871 original size:3 final size:3
Alignment explanation
Indices: 4863--4894 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4853 TACTTAAAAT
4863 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4895 CCTCTGCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7412 original size:18 final size:18
Alignment explanation
Indices: 7391--7432 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7381 TATTTTAGAA
*
7391 AATTTTCAATTTTTTTAG
1 AATTTTCAATATTTTTAG
**
7409 AATTTTTTATATTTTTAG
1 AATTTTCAATATTTTTAG
7427 AATTTT
1 AATTTT
7433 TTTACAGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (18 bp):
AATTTTCAATATTTTTAG
Found at i:8152 original size:21 final size:21
Alignment explanation
Indices: 8113--8152 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8103 AGAACATTAA
* *
8113 TAAAAAATATTAAATTTATTT
1 TAAAAAATATAAAAATTATTT
*
8134 TAAAAACTATAAAAATTAT
1 TAAAAAATATAAAAATTAT
8153 AATTGCTTGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAATATAAAAATTATTT
Found at i:8317 original size:16 final size:16
Alignment explanation
Indices: 8262--8338 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 16
8252 TTTGTAGGTT
8262 TTTTTTAATAATTTTATA
1 TTTTTTAAT-A-TTTATA
**
8280 TTTTTGTTGTATTT-TAA
1 TTTTT-TAATATTTAT-A
* *
8297 ATTTTAAATATTTATA
1 TTTTTTAATATTTATA
**
8313 TTTTTTAAGGTTTATA
1 TTTTTTAATATTTATA
8329 TTTTTTAATA
1 TTTTTTAATA
8339 AATTTTCTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
16 27 0.61
17 9 0.20
18 6 0.14
19 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTTTTAATATTTATA
Found at i:13375 original size:21 final size:23
Alignment explanation
Indices: 13351--13401 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
13341 CAACTTCTAT
*
13351 CGATACAAGCAT-CCT-AACTAC
1 CGATACAAGCATACATAAACTAC
13372 CGATACAAGCATACATAGAACTAC
1 CGATACAAGCATACATA-AACTAC
13396 CGATAC
1 CGATAC
13402 CTACTATGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 2 0.08
24 12 0.46
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (23 bp):
CGATACAAGCATACATAAACTAC
Found at i:14027 original size:40 final size:40
Alignment explanation
Indices: 13976--14151 Score: 212
Period size: 40 Copynumber: 4.4 Consensus size: 40
13966 AGATTTATGT
*
13976 GTCTTCC-TTTTAATAATCTTATGCTCTACCGAGTCATAA
1 GTCTTCCTTTTTAACAATCTTATGCTCTACCGAGTCATAA
*
14015 GTCTTCCTTTTTAACAATCTTATGCTCTATCGAGTCATAA
1 GTCTTCCTTTTTAACAATCTTATGCTCTACCGAGTCATAA
* * *
14055 GTCTTCATTTTTAACAATCTTATGCTCTATCGAATCATAA
1 GTCTTCCTTTTTAACAATCTTATGCTCTACCGAGTCATAA
* * * * * *
14095 GTCCTCATTTTTAACAATCTCATTCTCTTCCCGAGAT-ATGA
1 GTCTTCCTTTTTAACAATCTTATGCTC-TACCGAG-TCATAA
*
14136 GTCTTCCTTTTAAACA
1 GTCTTCCTTTTTAACA
14152 TCAAGAAATT
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 7 0.06
40 92 0.77
41 20 0.17
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.41
Consensus pattern (40 bp):
GTCTTCCTTTTTAACAATCTTATGCTCTACCGAGTCATAA
Found at i:20679 original size:24 final size:23
Alignment explanation
Indices: 20652--20696 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
20642 GTATAGCTAT
*
20652 ATTAAATTGTTTAAAAATATTTAA
1 ATTAAATTATTTAAAAA-ATTTAA
*
20676 ATTAATTTATTTAAAAAATTT
1 ATTAAATTATTTAAAAAATTT
20697 TAATATCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTAAATTATTTAAAAAATTTAA
Found at i:26168 original size:17 final size:18
Alignment explanation
Indices: 26135--26169 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26125 TTGTAAAATT
*
26135 AAAAAAATTATTAATTTA
1 AAAAAAACTATTAATTTA
26153 AAAAAAACTATT-ATTTA
1 AAAAAAACTATTAATTTA
26170 GTTTTTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAAAACTATTAATTTA
Found at i:32836 original size:70 final size:70
Alignment explanation
Indices: 32711--32851 Score: 196
Period size: 70 Copynumber: 2.0 Consensus size: 70
32701 AGAAAAAATT
* * * * *
32711 TGATTTGTCATTCCCTTATTAGAAAGGGATAAGGATGACGTGAAATCTTAGTTTCATACAATCCT
1 TGATTTATCATTCCCTTATTAGAAAGAGATAAGGATGACATGAAATCATAATTTCATACAATCCT
32776 TTCTC
66 TTCTC
*
32781 TGATTTATCATTCCCTTATT-GAAA-AGATATAGGGATGACATGCAATCATAATTTCATACAATC
1 TGATTTATCATTCCCTTATTAGAAAGAGATA-A-GGATGACATGAAATCATAATTTCATACAATC
32844 CTTTCTC
64 CTTTCTC
32851 T
1 T
32852 TAAATTCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
68 4 0.06
69 5 0.08
70 54 0.86
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (70 bp):
TGATTTATCATTCCCTTATTAGAAAGAGATAAGGATGACATGAAATCATAATTTCATACAATCCT
TTCTC
Found at i:36845 original size:171 final size:173
Alignment explanation
Indices: 36558--36901 Score: 520
Period size: 171 Copynumber: 2.0 Consensus size: 173
36548 CTAAAACCGA
36558 GTGGGTAGGAGTACAATGTGAGTATATTTGATAGTTTCTAACCGTATGTTTTTTTTTATTTGCAG
1 GTGGGTAGGAGTACAATGTGAGTATATTTGATAGTTTCTAACCGTATG-TTTTTTTTATTTGCAG
* * *
36623 GTTCAGTTGACGGTTCGTTTTTTGGAGTAATCTATTGTTGAATCATCAAAGGTAAGTCATCAGTT
65 GTTCAGTTGACGGTTCATTTTCTGGAGTAATCCATTGTTGAATCATCAAAGGTAAGTCATCAGTT
36688 AATTTGTATTT-CTGAAAATGCTGGAATATGTTGATATTATATT
130 AATTTGTATTTCCTGAAAATGCTGGAATATGTTGATATTATATT
* *
36731 GTGGGTAAGG-GTAGAATGTGAGTATATTTGATTA-TTTCTAAACC-TATG-TTTTTTTGTTTGC
1 GTGGGT-AGGAGTACAATGTGAGTATATTTGA-TAGTTTCT-AACCGTATGTTTTTTTTATTTGC
* *
36792 AGGTAT-GGTTGATGGTTCATTTTCTGGAGTAATCCATTGTTGAATCATCAAAGGTAAGTCATCA
63 AGGT-TCAGTTGACGGTTCATTTTCTGGAGTAATCCATTGTTGAATCATCAAAGGTAAGTCATCA
* *
36856 GTTCATTTGTATTTCCTGAAAATGTTGGAATATGTTGATATTATAT
127 GTTAATTTGTATTTCCTGAAAATGCTGGAATATGTTGATATTATAT
36902 GGTTGATGAC
Statistics
Matches: 157, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
171 82 0.52
172 31 0.20
173 35 0.22
174 9 0.06
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (173 bp):
GTGGGTAGGAGTACAATGTGAGTATATTTGATAGTTTCTAACCGTATGTTTTTTTTATTTGCAGG
TTCAGTTGACGGTTCATTTTCTGGAGTAATCCATTGTTGAATCATCAAAGGTAAGTCATCAGTTA
ATTTGTATTTCCTGAAAATGCTGGAATATGTTGATATTATATT
Found at i:41241 original size:46 final size:46
Alignment explanation
Indices: 41153--41255 Score: 143
Period size: 46 Copynumber: 2.2 Consensus size: 46
41143 GCAAGAATTA
** *
41153 GGAACCTAAATGGGTATTCACCAATCTGCAACATATACAAGAGCCG
1 GGAACCTAAATCCGTATTAACCAATCTGCAACATATACAAGAGCCG
** *
41199 GGAACCTAAATCCGTATTAACCAATCTGCAACATATGTAAGAGCTG
1 GGAACCTAAATCCGTATTAACCAATCTGCAACATATACAAGAGCCG
*
41245 GTAACCTAAAT
1 GGAACCTAAAT
41256 TCAAATTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (46 bp):
GGAACCTAAATCCGTATTAACCAATCTGCAACATATACAAGAGCCG
Found at i:44211 original size:24 final size:24
Alignment explanation
Indices: 44172--44305 Score: 108
Period size: 24 Copynumber: 5.6 Consensus size: 24
44162 AAACACATAG
* *
44172 CACCTACGAACCCCTATCACCAGA
1 CACCTGCGAACCCTTATCACCAGA
* *
44196 CACTTGCGAACACC-TATCACCAAA
1 CACCTGCGAAC-CCTTATCACCAGA
* * *
44220 CACCTACGAACCCTTATAACAAGA
1 CACCTGCGAACCCTTATCACCAGA
* *
44244 CACCTGCCAACCCTTGTCACCAGA
1 CACCTGCGAACCCTTATCACCAGA
* ** * * *
44268 TAATTGTGAACCCATATCACCAAA
1 CACCTGCGAACCCTTATCACCAGA
*
44292 CACATGCGAACCCT
1 CACCTGCGAACCCT
44306 CTATGAACCC
Statistics
Matches: 82, Mismatches: 26, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
23 2 0.02
24 78 0.95
25 2 0.02
ACGTcount: A:0.35, C:0.38, G:0.10, T:0.17
Consensus pattern (24 bp):
CACCTGCGAACCCTTATCACCAGA
Found at i:45612 original size:84 final size:84
Alignment explanation
Indices: 45471--45720 Score: 380
Period size: 84 Copynumber: 3.0 Consensus size: 84
45461 AACATAATAA
* *
45471 AAAGGAATTATAAACAACATCTATA-ACAATTAAATCCCTCCAAAATCATAGATCACAACCTACT
1 AAAGGAATTATAAACAACATCTA-ACACAATTAAATCCCTCCAAAATCACATATCACAACCTACT
45535 AACTTCTAGACCTAAAATTC
65 AACTTCTAGACCTAAAATTC
* *
45555 AAAGGAATTATACACAACATCTAACATAATTAAATCCCTCCAAAATCACATATCACAACCTACTA
1 AAAGGAATTATAAACAACATCTAACACAATTAAATCCCTCCAAAATCACATATCACAACCTACTA
*
45620 ACTTCTAGA-TTGAAAATTC
66 ACTTCTAGACCT-AAAATTC
* * *
45639 ACAGGAA-AATAAATAACATCTAACACAATTAAATCCCTCCAAAATCACATATCACAACCTACTA
1 AAAGGAATTATAAACAACATCTAACACAATTAAATCCCTCCAAAATCACATATCACAACCTACTA
*
45703 ACTTCTAGACCGAAAATT
66 ACTTCTAGACCTAAAATT
45721 TAGTTAGTTT
Statistics
Matches: 151, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
83 70 0.46
84 81 0.54
ACGTcount: A:0.46, C:0.24, G:0.05, T:0.24
Consensus pattern (84 bp):
AAAGGAATTATAAACAACATCTAACACAATTAAATCCCTCCAAAATCACATATCACAACCTACTA
ACTTCTAGACCTAAAATTC
Found at i:46185 original size:10 final size:10
Alignment explanation
Indices: 46170--46196 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
46160 ACGAGCTATG
46170 GAGCTAATTT
1 GAGCTAATTT
46180 GAGCTAATTT
1 GAGCTAATTT
46190 GAGCTAA
1 GAGCTAA
46197 AACGTGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (10 bp):
GAGCTAATTT
Found at i:46645 original size:16 final size:17
Alignment explanation
Indices: 46593--46645 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
46583 AAATTTTAAT
*
46593 TCTAATTATATTAATAA
1 TCTAATTATATTAATTA
*
46610 T-TTATTATATTAATT-
1 TCTAATTATATTAATTA
*
46625 CCTAATTATA-TAATTA
1 TCTAATTATATTAATTA
46641 TCTAA
1 TCTAA
46646 CCTAATTGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 5 0.17
16 23 0.79
17 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (17 bp):
TCTAATTATATTAATTA
Found at i:48373 original size:17 final size:17
Alignment explanation
Indices: 48351--48385 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
48341 CAACCAAAAA
*
48351 CTATGGTGCGAGGAATT
1 CTATGGTACGAGGAATT
*
48368 CTATGGTATGAGGAATT
1 CTATGGTACGAGGAATT
48385 C
1 C
48386 CATGAAAGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.31, T:0.31
Consensus pattern (17 bp):
CTATGGTACGAGGAATT
Found at i:52763 original size:64 final size:63
Alignment explanation
Indices: 52666--52795 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 63
52656 GCTCGTCAGC
** * * *
52666 TATATATATATGCATTTACGTTCGCCAGCTTGCACATGTTTACGCTCTTTAGCTTATATATATA
1 TATATATATATGCATTTACACTCGCCAGCTTGCACACGTTTACG-TCGTCAGCTTATATATATA
** *
52730 TATATATATATGTGTTTACACTCGCCAGCTTGCACACGTTTGCGTCGTCAGCTTATATATATA
1 TATATATATATGCATTTACACTCGCCAGCTTGCACACGTTTACGTCGTCAGCTTATATATATA
52793 TAT
1 TAT
52796 GCATTTACAC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
63 20 0.34
64 38 0.66
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (63 bp):
TATATATATATGCATTTACACTCGCCAGCTTGCACACGTTTACGTCGTCAGCTTATATATATA
Found at i:52937 original size:26 final size:27
Alignment explanation
Indices: 52884--52937 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
52874 TTACGCTCAT
*
52884 CAGCTTATATATATGCGTTTACGCTTTC
1 CAGCTTATATATATGCGTTTAC-ATTTC
52912 CAGCTTATATATATGCGTTTA-ATTTC
1 CAGCTTATATATATGCGTTTACATTTC
52938 TTTAATATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.16
28 21 0.84
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (27 bp):
CAGCTTATATATATGCGTTTACATTTC
Found at i:53725 original size:34 final size:34
Alignment explanation
Indices: 53682--53750 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
53672 TCGTGAATGA
53682 AATGAAGAAGAAGGGAAAGTGTTCAAATTTCCTT
1 AATGAAGAAGAAGGGAAAGTGTTCAAATTTCCTT
53716 AATGAAGAAGAAGGGAAAGTGTTCAAATTTCCTT
1 AATGAAGAAGAAGGGAAAGTGTTCAAATTTCCTT
53750 A
1 A
53751 CCCGTTTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (34 bp):
AATGAAGAAGAAGGGAAAGTGTTCAAATTTCCTT
Found at i:55434 original size:79 final size:81
Alignment explanation
Indices: 55319--55508 Score: 269
Period size: 83 Copynumber: 2.4 Consensus size: 81
55309 TGTCTTTTCC
* * * *
55319 TTTTCATGTCTTTTTTAG-TTTCAAATCCATGGTTATCTTCTTTTATTTCTGTGGG-TTTT-TTT
1 TTTTCATCTCTGTTTTAGTTTTCAGATCCATGGTTATCTGCTTTTATTTCTGTGGGTTTTTGTTT
55381 TCATCTTTAGAACAAG
66 TCATCTTTAGAACAAG
* * * *
55397 TTTTTATCTCTGTTTTAGTTTTCAGATCTATGGTTATCTGGTTTTATTTTTGTGGGTTTTTTTGT
1 TTTTCATCTCTGTTTTAGTTTTCAGATCCATGGTTATCTGCTTTTATTTCTGTGGG--TTTTTGT
55462 TTTCATCTTTAGAACAAG
64 TTTCATCTTTAGAACAAG
55480 TTTTCATCTCTGTTTTAGTTTTCAGATCC
1 TTTTCATCTCTGTTTTAGTTTTCAGATCC
55509 CCCTTCACTG
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 15 0.15
79 32 0.33
82 4 0.04
83 46 0.47
ACGTcount: A:0.16, C:0.13, G:0.14, T:0.56
Consensus pattern (81 bp):
TTTTCATCTCTGTTTTAGTTTTCAGATCCATGGTTATCTGCTTTTATTTCTGTGGGTTTTTGTTT
TCATCTTTAGAACAAG
Found at i:63177 original size:17 final size:17
Alignment explanation
Indices: 63157--63189 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63147 TTAGAATTGG
63157 TTGAAAAATTAATTTAA
1 TTGAAAAATTAATTTAA
*
63174 TTGAGAAATTAATTTA
1 TTGAAAAATTAATTTA
63190 TTTAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TTGAAAAATTAATTTAA
Found at i:63751 original size:20 final size:19
Alignment explanation
Indices: 63713--63763 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
63703 TTTATTAAAC
63713 CCAAATAAAAAATAAAAGT
1 CCAAATAAAAAATAAAAGT
* * *
63732 TCAAATACAAAATATTAAGT
1 CCAAATAAAAAATA-AAAGT
63752 CCAAATATAAAA
1 CCAAATA-AAAA
63764 CAAACCAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 12 0.48
20 10 0.40
21 3 0.12
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.22
Consensus pattern (19 bp):
CCAAATAAAAAATAAAAGT
Found at i:64947 original size:5 final size:5
Alignment explanation
Indices: 64897--64941 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
64887 TCCTTGTAAT
* * *
64897 TTTTA TTTTA TTTTA ATTTA GCTTTA TTTTA TTTTA TTTTG TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
64942 TGTTTTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:64947 original size:21 final size:22
Alignment explanation
Indices: 64896--64947 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
64886 GTCCTTGTAA
64896 TTTTTATTTTATTTTAATTTAG
1 TTTTTATTTTATTTTAATTTAG
* *
64918 -CTTTATTTTATTTT-ATTTTG
1 TTTTTATTTTATTTTAATTTAG
*
64938 TTTTTGTTTT
1 TTTTTATTTT
64948 TAATTCGTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (22 bp):
TTTTTATTTTATTTTAATTTAG
Found at i:65146 original size:23 final size:23
Alignment explanation
Indices: 65070--65148 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 23
65060 GTCCTTGCTA
65070 TTTTTA-TTATTTGTATTTA-TTTG
1 TTTTTATTTA-TTGT-TTTATTTTG
* * *
65093 TTTAT-TTTAGTGTTTAATTTT-
1 TTTTTATTTATTGTTTTATTTTG
*
65114 TATTTATTTATTGTTTTATTTTG
1 TTTTTATTTATTGTTTTATTTTG
65137 TTTTTATTTATT
1 TTTTTATTTATT
65149 TATATACTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
21 6 0.14
22 20 0.45
23 18 0.41
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.75
Consensus pattern (23 bp):
TTTTTATTTATTGTTTTATTTTG
Found at i:67161 original size:19 final size:20
Alignment explanation
Indices: 67132--67172 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
67122 ATTTTTGGGT
67132 TTTTTTG-TTTTTCTCTTTTC
1 TTTTTTGTTTTTTC-CTTTTC
67152 TTTTTT-TTTTTTCCTTTTC
1 TTTTTTGTTTTTTCCTTTTC
67171 TT
1 TT
67173 GCAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTTTGTTTTTTCCTTTTC
Found at i:69643 original size:18 final size:18
Alignment explanation
Indices: 69603--69646 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
69593 GGGTAGGATC
*
69603 TATCTATATCTGTATCTA
1 TATCTATATCTGAATCTA
* * *
69621 AATCTATATTTGAATCTG
1 TATCTATATCTGAATCTA
69639 TATCTATA
1 TATCTATA
69647 ACTCCATTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.48
Consensus pattern (18 bp):
TATCTATATCTGAATCTA
Found at i:69655 original size:24 final size:24
Alignment explanation
Indices: 69610--69663 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
69600 ATCTATCTAT
*
69610 ATCTGTATCTAAATCTATATTTGA
1 ATCTGTATCTAAATCTACATTTGA
* *
69634 ATCTGTATCTATAA-CTCCATTTGT
1 ATCTGTATCTA-AATCTACATTTGA
69658 ATCTGT
1 ATCTGT
69664 CTGTCATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (24 bp):
ATCTGTATCTAAATCTACATTTGA
Found at i:76098 original size:53 final size:53
Alignment explanation
Indices: 76032--76165 Score: 155
Period size: 53 Copynumber: 2.5 Consensus size: 53
76022 TCGAGTCATT
* * * *
76032 ATAGAAATATAGCTTATTCGAGCCTAGACAGATTATTGCTCATTCGAGCCCAAA
1 ATAG-AATATAGCTCATTCGAGCCTAGACAGAATATAGCTCATTCAAGCCCAAA
* * *
76086 ATAGAATGTAGCTCA-TCGAGCCCAGAACAGAATATAGCTCATTCAAGCTCAAA
1 ATAGAATATAGCTCATTCGAGCCTAG-ACAGAATATAGCTCATTCAAGCCCAAA
*
76139 ACT-GAATATAGCTCATTCGGGCCTAGA
1 A-TAGAATATAGCTCATTCGAGCCTAGA
76166 ATAGAGTAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
52 9 0.13
53 45 0.67
54 13 0.19
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (53 bp):
ATAGAATATAGCTCATTCGAGCCTAGACAGAATATAGCTCATTCAAGCCCAAA
Found at i:76104 original size:26 final size:27
Alignment explanation
Indices: 76032--76157 Score: 114
Period size: 27 Copynumber: 4.7 Consensus size: 27
76022 TCGAGTCATT
* * *
76032 ATAGAAATATAGCTTATTCGAG-CCTAG
1 ATAG-AATATAGCTCATTCGAGCCCAAA
* * *
76059 ACAGATTATTGCTCATTCGAGCCCAAA
1 ATAGAATATAGCTCATTCGAGCCCAAA
* *
76086 ATAGAATGTAGCTCA-TCGAGCCCAGA
1 ATAGAATATAGCTCATTCGAGCCCAAA
* * *
76112 ACAGAATATAGCTCATTCAAGCTCAAA
1 ATAGAATATAGCTCATTCGAGCCCAAA
76139 ACT-GAATATAGCTCATTCG
1 A-TAGAATATAGCTCATTCG
76158 GGCCTAGAAT
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
26 37 0.47
27 41 0.53
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (27 bp):
ATAGAATATAGCTCATTCGAGCCCAAA
Found at i:76193 original size:27 final size:27
Alignment explanation
Indices: 76165--76247 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 27
76155 TCGGGCCTAG
*
76165 AATAGAGTAATGCTCCTTTAGAGCCAGA
1 AATAGAATAATGCT-CTTTAGAGCCAGA
* *
76193 AATATAATAATGCTCTTTCGAGCCA-A
1 AATAGAATAATGCTCTTTAGAGCCAGA
* *
76219 AGTCTAGAATATTGCTC-TTATGAGCCAGA
1 A--ATAGAATAATGCTCTTTA-GAGCCAGA
76248 GTACACTGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 2 0.05
27 12 0.27
28 29 0.66
29 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (27 bp):
AATAGAATAATGCTCTTTAGAGCCAGA
Found at i:83202 original size:21 final size:21
Alignment explanation
Indices: 83151--83205 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
83141 GAAATTCGAG
*
83151 AAAACAAAGAAAGTGAAGGGA
1 AAAACAAAGAAAGTGAAGGAA
*****
83172 ATTTGGAAGAAAGTGAAGGAA
1 AAAACAAAGAAAGTGAAGGAA
83193 AAAACAAAGAAAG
1 AAAACAAAGAAAG
83206 AAATAAGAAG
Statistics
Matches: 23, Mismatches: 11, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.27, T:0.09
Consensus pattern (21 bp):
AAAACAAAGAAAGTGAAGGAA
Found at i:84605 original size:59 final size:57
Alignment explanation
Indices: 84539--84824 Score: 299
Period size: 58 Copynumber: 4.9 Consensus size: 57
84529 CATCCATGGA
* * *
84539 TAAAATGGTAATTTTTAGAAAAAATCGGGATCCAAAATGAAATTTTTGGAAGTTGGGGG
1 TAAAATGGTAATTTTT-GAAAAAATAGGG-TCAAAAATGGAATTTTTGGAAGTTGGGGG
** * *
84598 TAAAATGGTAA-TTTTGGGAAAATCGAGGTTAAAAATGGAA-TTTTGGAAAGTTTGGGGG
1 TAAAATGGTAATTTTTGAAAAAATAG-GGTCAAAAATGGAATTTTTGG-AAG-TTGGGGG
* * * *
84656 TAAAATGATAATTTTT-AGAAAATAGGGCTAAAAAATGGAATTATTGGAAGTTCGGGGG
1 TAAAATGGTAATTTTTGAAAAAATAGGG-TCAAAAATGGAATTTTTGGAAGTT-GGGGG
* * * *
84714 TAAAATGGTAATTTTTGGAAAATTAGGGTCAAAAATGGAATTTTTAGAAGTTTAGGGG
1 TAAAATGGTAATTTTTGAAAAAATAGGGTCAAAAATGGAATTTTTGGAAG-TTGGGGG
* * * *
84772 TAAAATGATAATTTTTGGAAAAATTAGGGTCAAAAATGAAATTTTTAGAAGTT
1 TAAAATGGTAATTTTT-GAAAAAATAGGGTCAAAAATGGAATTTTTGGAAGTT
84825 CGGAGGTTGT
Statistics
Matches: 196, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
56 6 0.03
57 24 0.12
58 104 0.53
59 62 0.32
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (57 bp):
TAAAATGGTAATTTTTGAAAAAATAGGGTCAAAAATGGAATTTTTGGAAGTTGGGGG
Found at i:84659 original size:29 final size:29
Alignment explanation
Indices: 84572--84776 Score: 92
Period size: 28 Copynumber: 7.1 Consensus size: 29
84562 ATCGGGATCC
*
84572 AAAATGAAATTTTTGG-AAG-TTGGGGGT-
1 AAAATGGAA-TTTTGGAAAGTTTGGGGGTA
* * * *
84599 AAAATGGTAATTTTGGGAAA-ATCGAGGTTA
1 AAAATGG-AATTTT-GGAAAGTTTGGGGGTA
84629 AAAATGGAATTTTGGAAAGTTTGGGGGT-
1 AAAATGGAATTTTGGAAAGTTTGGGGGTA
* * * * *
84657 AAAATGATAATTTTTAGAAA--ATAGGGCTAA
1 AAAATG-GAA-TTTTGGAAAGTTTGGGGGT-A
*
84687 AAAATGGAATTATTGG-AAGTTCGGGGGT-
1 AAAATGGAATT-TTGGAAAGTTTGGGGGTA
* *
84715 AAAATGGTAATTTTTGGAAA-ATT-AGGGTCA
1 AAAATGG-AA-TTTTGGAAAGTTTGGGGGT-A
* *
84745 AAAATGGAATTTT-TAGAAGTTTAGGGGTA
1 AAAATGGAATTTTGGA-AAGTTTGGGGGTA
84774 AAA
1 AAA
84777 TGATAATTTT
Statistics
Matches: 132, Mismatches: 25, Indels: 40
0.67 0.13 0.20
Matches are distributed among these distances:
27 11 0.08
28 41 0.31
29 40 0.30
30 40 0.30
ACGTcount: A:0.39, C:0.02, G:0.28, T:0.31
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAAGTTTGGGGGTA
Found at i:84735 original size:116 final size:116
Alignment explanation
Indices: 84482--84827 Score: 382
Period size: 116 Copynumber: 3.0 Consensus size: 116
84472 TCCCGAGAGC
* * * ** * *
84482 AAAATGGTAATTTTGGGAAAGTTCAGGGTTAAAAACT-GAATTTT-AGACA-TCCATGGATAAAA
1 AAAATGGTAATTTTGGGAAA-ATGAGGGTCAAAAA-TGGAATTTTGAGA-AGTTTAGGGGTAAAA
* * *
84544 TGGTAATTTTTAGAAAAAATCGGGATCCAAAATGAAATTTTTGGAAGTT-GGGGGT
63 TGATAATTTTTAG-AAAAATAGGG-TCAAAAATGAAATTTTTGGAAGTTCGGGGGT
* *
84599 AAAATGGTAATTTTGGGAAAATCGA-GGTTAAAAATGGAATTTTG-GAAAGTTTGGGGGTAAAAT
1 AAAATGGTAATTTTGGGAAAAT-GAGGGTCAAAAATGGAATTTTGAG-AAGTTTAGGGGTAAAAT
* * *
84662 GATAATTTTTAG-AAAATAGGGCTAAAAAATGGAATTATTGGAAGTTCGGGGGT
64 GATAATTTTTAGAAAAATAGGG-TCAAAAATGAAATTTTTGGAAGTTCGGGGGT
* * *
84715 AAAATGGTAATTTTTGGAAAATTAGGGTCAAAAATGGAATTTTTAGAAGTTTAGGGGTAAAATGA
1 AAAATGGTAATTTTGGGAAAATGAGGGTCAAAAATGGAATTTTGAGAAGTTTAGGGGTAAAATGA
* *
84780 TAATTTTTGGAAAAATTAGGGTCAAAAATGAAATTTTTAGAAGTTCGG
66 TAATTTTTAGAAAAA-TAGGGTCAAAAATGAAATTTTTGGAAGTTCGG
84828 AGGTTGTCGA
Statistics
Matches: 195, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
115 30 0.15
116 90 0.46
117 70 0.36
118 5 0.03
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (116 bp):
AAAATGGTAATTTTGGGAAAATGAGGGTCAAAAATGGAATTTTGAGAAGTTTAGGGGTAAAATGA
TAATTTTTAGAAAAATAGGGTCAAAAATGAAATTTTTGGAAGTTCGGGGGT
Found at i:84784 original size:29 final size:30
Alignment explanation
Indices: 84645--84824 Score: 108
Period size: 29 Copynumber: 6.2 Consensus size: 30
84635 GAATTTTGGA
*
84645 AAGTTTGGGGGT-AAAATGATAATTTTTAG
1 AAGTTTAGGGGTAAAAATGATAATTTTTAG
** * * * *
84674 AA-AATAGGGCTAAAAAATG-GAATTATTGG
1 AAGTTTAGGGGT-AAAAATGATAATTTTTAG
** * *
84703 AAGTTCGGGGGT-AAAATGGTAATTTTTGG
1 AAGTTTAGGGGTAAAAATGATAATTTTTAG
** *
84732 AAAATTA-GGGTCAAAAATG-GAATTTTTAG
1 AAGTTTAGGGGT-AAAAATGATAATTTTTAG
*
84761 AAGTTTAGGGGT-AAAATGATAATTTTTGG
1 AAGTTTAGGGGTAAAAATGATAATTTTTAG
**
84790 AAAAATTA-GGGTCAAAAATGA-AATTTTTAG
1 -AAGTTTAGGGGT-AAAAATGATAATTTTTAG
84820 AAGTT
1 AAGTT
84825 CGGAGGTTGT
Statistics
Matches: 111, Mismatches: 29, Indels: 22
0.69 0.18 0.14
Matches are distributed among these distances:
28 21 0.19
29 50 0.45
30 33 0.30
31 7 0.06
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.33
Consensus pattern (30 bp):
AAGTTTAGGGGTAAAAATGATAATTTTTAG
Found at i:85729 original size:28 final size:29
Alignment explanation
Indices: 85676--85738 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
85666 AAAATGTGAT
*
85676 TTTTGGATACCCGGTGGGCAAAATGGTAA
1 TTTTGGACACCCGGTGGGCAAAATGGTAA
*
85705 TTTTGGACACTCGG-GGGCAAAATGGTAA
1 TTTTGGACACCCGGTGGGCAAAATGGTAA
85733 TTTTGG
1 TTTTGG
85739 GAAAGCTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 20 0.62
29 12 0.38
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (29 bp):
TTTTGGACACCCGGTGGGCAAAATGGTAA
Found at i:85786 original size:58 final size:57
Alignment explanation
Indices: 85723--85945 Score: 202
Period size: 58 Copynumber: 3.8 Consensus size: 57
85713 ACTCGGGGGC
**
85723 AAAATGGTAA-TTTTGGGAAAGCTCGGGGTTAAAAATAGAATTTTTGGAAGTTCG-GGT
1 AAAATGGTAATTTTTGGGAAAAATCGGGGTTAAAAAT-GAA-TTTTGGAAGTTCGAGGT
** *** * *
85780 GAAAATGGTAATTTTTGAAAAAAATTAAGGTTAAAAATGAAATTTTAGAAGTCCGAGGT
1 -AAAATGGTAATTTTTGGGAAAAATCGGGGTTAAAAATG-AATTTTGGAAGTTCGAGGT
* * *
85839 AAAATGGTAATTTTTTGGAAAAATCGGAGTCAAAAATGGAATTTTGGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGGAAAAATCGGGGTTAAAAAT-GAATTTTGGAAGTTCGA-GGT
* ** *
85898 AAAAAT-ATAATTTTT-GGAAAAATCAAGGTCAAAAATGAAATTTTGGAA
1 -AAAATGGTAATTTTTGGGAAAAATCGGGGTTAAAAATG-AATTTTGGAA
85946 AGTTTTGGAG
Statistics
Matches: 135, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
57 1 0.01
58 93 0.69
59 36 0.27
60 5 0.04
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.30
Consensus pattern (57 bp):
AAAATGGTAATTTTTGGGAAAAATCGGGGTTAAAAATGAATTTTGGAAGTTCGAGGT
Found at i:85792 original size:28 final size:28
Alignment explanation
Indices: 85695--85796 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 28
85685 CCCGGTGGGC
*
85695 AAAATGGTAA-TTTTGGACA-CTCGGGGG
1 AAAATGGTAATTTTTGGA-AGCTCGGGTG
* *
85722 CAAAATGGTAATTTTGGGAAAGCTCGGGGTTA
1 -AAAATGGTAATTTTTGG-AAGCTC-GGG-TG
* *
85754 AAAATAG-AATTTTTGGAAGTTCGGGTG
1 AAAATGGTAATTTTTGGAAGCTCGGGTG
85781 AAAATGGTAATTTTTG
1 AAAATGGTAATTTTTG
85797 AAAAAAATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
27 7 0.12
28 21 0.35
29 11 0.18
30 12 0.20
31 9 0.15
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.31
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGAAGCTCGGGTG
Found at i:85848 original size:116 final size:115
Alignment explanation
Indices: 85723--85941 Score: 289
Period size: 116 Copynumber: 1.9 Consensus size: 115
85713 ACTCGGGGGC
** * * *
85723 AAAATGGTAA-TTTTGGGAAAGCTCGGGGTTAAAAATAGAATTTTTGGAAGTTC-GGGTGAAAAT
1 AAAATGGTAATTTTTGGGAAAAATCGGAGTCAAAAATAGAA-TTTTGGAAGTTCAGGGTAAAAAT
* * *
85786 GGTAATTTTTGAAAAAAATTAAGGTTAAAAATGAAATTTTAGAAGTCCGAGGT
65 -ATAATTTTTG-AAAAAATCAAGGTCAAAAATGAAATTTTAGAAGTCCGAGGT
* *
85839 AAAATGGTAATTTTTTGGAAAAATCGGAGTCAAAAATGGAATTTTGGAAGTTCGAGGGTAAAAAT
1 AAAATGGTAATTTTTGGGAAAAATCGGAGTCAAAAATAGAATTTTGGAAGTTC-AGGGTAAAAAT
*
85904 ATAATTTTTGGAAAAATCAAGGTCAAAAATGAAATTTT
65 ATAATTTTTGAAAAAATCAAGGTCAAAAATGAAATTTT
85942 GGAAAGTTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 47 0.53
117 33 0.37
118 9 0.10
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.31
Consensus pattern (115 bp):
AAAATGGTAATTTTTGGGAAAAATCGGAGTCAAAAATAGAATTTTGGAAGTTCAGGGTAAAAATA
TAATTTTTGAAAAAATCAAGGTCAAAAATGAAATTTTAGAAGTCCGAGGT
Found at i:85886 original size:29 final size:29
Alignment explanation
Indices: 85851--85946 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 29
85841 AATGGTAATT
*
85851 TTTTGGAAAAATCGGAGTCAAAAATGGAA
1 TTTTGGAAAAATCGGAGTCAAAAATGAAA
** *
85880 TTTTGG-AAGTTCGAGGGT-AAAAAT-ATAA
1 TTTTGGAAAAATCG-GAGTCAAAAATGA-AA
*
85908 TTTTTGGAAAAATC-AAGGTCAAAAATGAAA
1 -TTTTGGAAAAATCGGA-GTCAAAAATGAAA
85938 TTTTGGAAA
1 TTTTGGAAA
85947 GTTTTGGAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
28 13 0.25
29 26 0.50
30 12 0.23
31 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (29 bp):
TTTTGGAAAAATCGGAGTCAAAAATGAAA
Found at i:85949 original size:59 final size:57
Alignment explanation
Indices: 85753--86032 Score: 253
Period size: 58 Copynumber: 4.8 Consensus size: 57
85743 GCTCGGGGTT
* * * * * *
85753 AAAAATAGAATTTTTGGAAGTTC-GGGTGAAAATGGTAATTTTTGAAAAAAATTAAGGTT
1 AAAAAT-GAAATTTTGGAAGTTCGGGGTAAAAAT-ATAATTTTTG-GAAAAATCAAGGTC
* * * * *
85812 AAAAATGAAATTTTAGAAGTCCGAGGT-AAAATGGTAATTTTTTGGAAAAATC-GGAGTC
1 AAAAATGAAATTTTGGAAGTTCGGGGTAAAAAT-ATAA-TTTTTGGAAAAATCAAG-GTC
*
85870 AAAAATGGAATTTTGGAAGTTCGAGGGTAAAAATATAATTTTTGGAAAAATCAAGGTC
1 AAAAATGAAATTTTGGAAGTTCG-GGGTAAAAATATAATTTTTGGAAAAATCAAGGTC
* * * *
85928 AAAAATGAAATTTTGGAAAGTTTTGGAGTAAAAATATAATTTTTGAAAAAATTAAGGT-
1 AAAAATGAAATTTTGG-AAG-TTCGGGGTAAAAATATAATTTTTGGAAAAATCAAGGTC
* * * *
85986 TAAAATGGAATTTTTGAAAGTTCGGAGATAAAAATATAATTTTTGGA
1 AAAAAT-GAAATTTTGGAAGTTCGG-GGTAAAAATATAATTTTTGGA
86033 CAGTTTAGGG
Statistics
Matches: 185, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
57 5 0.03
58 109 0.59
59 63 0.34
60 8 0.04
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (57 bp):
AAAAATGAAATTTTGGAAGTTCGGGGTAAAAATATAATTTTTGGAAAAATCAAGGTC
Found at i:85972 original size:117 final size:114
Alignment explanation
Indices: 85723--86032 Score: 288
Period size: 117 Copynumber: 2.7 Consensus size: 114
85713 ACTCGGGGGC
* * ** * * *
85723 AAAATGGTAATTTTGGGAAAGCTCGGGGTTAAAAATAGAATTTTTGGAAGTTC-GGGTGAAAATG
1 AAAATGATAATTTTTGGAAAAATCGGAG-TAAAAATGGAATTTTTGGAAGTTCGGGGTAAAAAT-
* * * *
85787 GTAATTTTTGAAAAAAATTAAGGTTAAAAATGAAATTTTAGAAGTCCGAGGT
64 ATAATTTTTG-GAAAAATCAAGGTCAAAAATGAAATTTTAGAAGTCCGAGGT
*
85839 AAAATGGTAATTTTTTGGAAAAATCGGAGTCAAAAATGGAA-TTTTGGAAGTTCGAGGGTAAAAA
1 AAAATGATAA-TTTTTGGAAAAATCGGAGT-AAAAATGGAATTTTTGGAAGTTCG-GGGTAAAAA
* **
85903 TATAATTTTTGGAAAAATCAAGGTCAAAAATGAAATTTTGGAAAGTTTTG-GAGT
63 TATAATTTTTGGAAAAATCAAGGTCAAAAATGAAATTTTAG-AAG-TCCGAG-GT
* ** * * *
85957 AAAAAT-ATAATTTTTGAAAAAAT-TAAGGTTAAAATGGAATTTTTGAAAGTTCGGAGATAAAAA
1 -AAAATGATAATTTTTGGAAAAATCGGA-GTAAAAATGGAATTTTTGGAAGTTCGG-GGTAAAAA
86020 TATAATTTTTGGA
63 TATAATTTTTGGA
86033 CAGTTTAGGG
Statistics
Matches: 163, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
116 60 0.37
117 82 0.50
118 16 0.10
119 5 0.03
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (114 bp):
AAAATGATAATTTTTGGAAAAATCGGAGTAAAAATGGAATTTTTGGAAGTTCGGGGTAAAAATAT
AATTTTTGGAAAAATCAAGGTCAAAAATGAAATTTTAGAAGTCCGAGGT
Found at i:85990 original size:29 final size:29
Alignment explanation
Indices: 85895--86004 Score: 89
Period size: 29 Copynumber: 3.8 Consensus size: 29
85885 GAAGTTCGAG
* *
85895 GGTAAAAATATAATTTTTGGAAAAATCAA
1 GGTAAAAATATAATTTTTGAAAAAATTAA
* ** **
85924 GGTCAAAAATGA-AA-TTTTGGAAAGTTTTG
1 GGT-AAAAAT-ATAATTTTTGAAAAAATTAA
85953 GAGTAAAAATATAATTTTTGAAAAAATTAA
1 G-GTAAAAATATAATTTTTGAAAAAATTAA
* **
85983 GGTTAAAATGGAATTTTTGAAA
1 GGTAAAAATATAATTTTTGAAA
86005 GTTCGGAGAT
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
28 1 0.02
29 40 0.63
30 21 0.33
31 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.17, T:0.34
Consensus pattern (29 bp):
GGTAAAAATATAATTTTTGAAAAAATTAA
Found at i:87042 original size:3 final size:3
Alignment explanation
Indices: 87036--87147 Score: 68
Period size: 3 Copynumber: 37.3 Consensus size: 3
87026 ATTAATAATA
* * * *
87036 ATT ATT ATT A-C AGTT ATT AAT ATT ATT AAT GTT ATT A-T ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** ** *
87080 ATT ATT ATT ATT ATT ATT AAA ACG ATC ATT ATT ATT ATT GA-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
* **
87125 AAT ATT AATT ATT GCT ATT ATT A
1 ATT ATT -ATT ATT ATT ATT ATT A
87148 ATAATAGTAA
Statistics
Matches: 82, Mismatches: 21, Indels: 12
0.71 0.18 0.10
Matches are distributed among these distances:
2 4 0.05
3 73 0.89
4 5 0.06
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (3 bp):
ATT
Found at i:87061 original size:9 final size:9
Alignment explanation
Indices: 87049--87167 Score: 69
Period size: 9 Copynumber: 12.9 Consensus size: 9
87039 ATTATTACAG
87049 TTATTAATA
1 TTATTAATA
*
87058 TTATTAATG
1 TTATTAATA
87067 TTATT-ATA
1 TTATTAATA
*
87075 TTATTATTA
1 TTATTAATA
*
87084 TTATTATTA
1 TTATTAATA
*
87093 TTATTAAAACGA
1 TTATT--AA-TA
* *
87105 TCATTATTA
1 TTATTAATA
*
87114 TTATTGATA
1 TTATTAATA
* *
87123 TTAATATTAA
1 TTATTAAT-A
**
87133 TTATTGCTA
1 TTATTAATA
87142 TTATTAATA
1 TTATTAATA
* * *
87151 ATAGTAATG
1 TTATTAATA
87160 TTATTAAT
1 TTATTAAT
87168 GCTGCTTATT
Statistics
Matches: 81, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
8 7 0.09
9 61 0.75
10 7 0.09
11 1 0.01
12 5 0.06
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.54
Consensus pattern (9 bp):
TTATTAATA
Found at i:87152 original size:19 final size:19
Alignment explanation
Indices: 87113--87152 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87103 GATCATTATT
*
87113 ATTATTGATATTAATATTA
1 ATTATTGATATTAATAATA
* *
87132 ATTATTGCTATTATTAATA
1 ATTATTGATATTAATAATA
87151 AT
1 AT
87153 AGTAATGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTATTGATATTAATAATA
Found at i:87868 original size:17 final size:17
Alignment explanation
Indices: 87843--87922 Score: 97
Period size: 17 Copynumber: 4.7 Consensus size: 17
87833 TAAATTGTTT
* *
87843 TAAACTTAAATTTATAA
1 TAAATTTAAATTTAAAA
* *
87860 TAAATTTAAATTTTAAG
1 TAAATTTAAATTTAAAA
*
87877 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
87894 TAAATTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
*
87911 AAAATTTAAATT
1 TAAATTTAAATT
87923 CTATTGGGCC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 52 1.00
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:89077 original size:3 final size:3
Alignment explanation
Indices: 89064--89127 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
89054 ACCTTTCCTG
* * * * *
89064 TAT TTT TAT TAT TAA TAT TAA TAT TAAT TAA TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
89110 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
89128 AAAAATTAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:89928 original size:17 final size:17
Alignment explanation
Indices: 89875--89950 Score: 100
Period size: 17 Copynumber: 4.4 Consensus size: 17
89865 ACATTTATTT
*
89875 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
89892 TTTTAAATTTAAAAATAA
1 ATTTAAATTT-AAAATAA
*
89910 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAATAA
89927 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
89944 ATTTAAA
1 ATTTAAA
89951 AAAAGGCCTG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
16 3 0.06
17 31 0.61
18 17 0.33
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:90012 original size:13 final size:13
Alignment explanation
Indices: 89994--90053 Score: 70
Period size: 13 Copynumber: 4.5 Consensus size: 13
89984 ATAATTTTAT
89994 ATTTTAAAAAATA
1 ATTTTAAAAAATA
90007 ATTTT--AAAATA
1 ATTTTAAAAAATA
*
90018 ATTTAAAAAAATTA
1 ATTTTAAAAAA-TA
90032 TATTTTAAAAAAATA
1 -ATTTT-AAAAAATA
90047 ATTTTAA
1 ATTTTAA
90054 TAATTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 10 0.25
13 11 0.28
14 7 0.17
15 6 0.15
16 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTTAAAAAATA
Found at i:90021 original size:24 final size:26
Alignment explanation
Indices: 89994--90041 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
89984 ATAATTTTAT
*
89994 ATTTTAAAAAA-TA-ATTTTAAAATA
1 ATTTAAAAAAATTATATTTTAAAATA
90018 ATTTAAAAAAATTATATTTTAAAA
1 ATTTAAAAAAATTATATTTTAAAA
90042 AAATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 2 0.10
26 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTTAAAAAAATTATATTTTAAAATA
Found at i:90040 original size:16 final size:14
Alignment explanation
Indices: 89994--90053 Score: 67
Period size: 16 Copynumber: 4.5 Consensus size: 14
89984 ATAATTTTAT
89994 ATTTT-AAAAAATA
1 ATTTTAAAAAAATA
90007 ATTTT---AAAATA
1 ATTTTAAAAAAATA
90018 A-TTTAAAAAAATTA
1 ATTTTAAAAAAA-TA
90032 TATTTTAAAAAAATA
1 -ATTTTAAAAAAATA
90047 ATTTTAA
1 ATTTTAA
90054 TAATTTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
10 3 0.07
11 7 0.17
13 9 0.22
14 9 0.22
15 3 0.07
16 10 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTTTAAAAAAATA
Found at i:90056 original size:38 final size:38
Alignment explanation
Indices: 89990--90064 Score: 125
Period size: 38 Copynumber: 1.9 Consensus size: 38
89980 ATTAATAATT
89990 TTATATTTTAAAAAATAATTTTAAAATAATTTAAAAAAA
1 TTATATTTTAAAAAATAATTTT-AAATAATTTAAAAAAA
90029 TTATATTTTAAAAAAATAATTTT-AATAATTTAAAAA
1 TTATATTTT-AAAAAATAATTTTAAATAATTTAAAAA
90065 TCATTTGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
38 13 0.37
39 9 0.26
40 13 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (38 bp):
TTATATTTTAAAAAATAATTTTAAATAATTTAAAAAAA
Found at i:93665 original size:26 final size:27
Alignment explanation
Indices: 93622--93676 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
93612 TATTAAGATG
93622 ATTATATAAAAATAAAAA-ATAAATAAA
1 ATTATATAAAAATAAAAATA-AAATAAA
* *
93649 ATTAT-TAAATATTAAAATAAAATAAA
1 ATTATATAAAAATAAAAATAAAATAAA
93675 AT
1 AT
93677 AAATATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
ATTATATAAAAATAAAAATAAAATAAA
Found at i:100059 original size:25 final size:25
Alignment explanation
Indices: 100026--100076 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
100016 GAAATAAAAT
*
100026 AAAAGTTGTGATAATTATACATTTA
1 AAAAGTTGTGATAATTACACATTTA
*
100051 AAAATTTGTGATAATTACACATTTA
1 AAAAGTTGTGATAATTACACATTTA
100076 A
1 A
100077 TAATAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (25 bp):
AAAAGTTGTGATAATTACACATTTA
Found at i:109855 original size:29 final size:30
Alignment explanation
Indices: 109807--109863 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
109797 GTGACGTCTC
*
109807 AACTTTGATAAAAATTACAATAACACCTTT
1 AACTTTGAGAAAAATTACAATAACACCTTT
*
109837 AACTTTG-GAAAAATTACAATGACACCT
1 AACTTTGAGAAAAATTACAATAACACCT
109864 CAAAATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.30
Consensus pattern (30 bp):
AACTTTGAGAAAAATTACAATAACACCTTT
Found at i:109878 original size:29 final size:29
Alignment explanation
Indices: 109816--109871 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
109806 CAACTTTGAT
** *
109816 AAAAATTACAATAACACCTTTAACTTTGG
1 AAAAATTACAATAACACCTCAAAATTTGG
*
109845 AAAAATTACAATGACACCTCAAAATTT
1 AAAAATTACAATAACACCTCAAAATTT
109872 TGTAAAACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (29 bp):
AAAAATTACAATAACACCTCAAAATTTGG
Found at i:111683 original size:9 final size:9
Alignment explanation
Indices: 111641--111686 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
111631 TAGAAACTGA
111641 ATTATTAT-
1 ATTATTATG
*
111649 ATTATTAGG
1 ATTATTATG
111658 ATTATTATG
1 ATTATTATG
* *
111667 -TAAATATG
1 ATTATTATG
111675 ATTATTATG
1 ATTATTATG
111684 ATT
1 ATT
111687 GACATGCATG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (9 bp):
ATTATTATG
Found at i:111857 original size:3 final size:3
Alignment explanation
Indices: 111849--111873 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
111839 ATCTAAAGAA
111849 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
111874 CCTATCCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:117297 original size:24 final size:25
Alignment explanation
Indices: 117248--117297 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
117238 ACAATTCATT
117248 AAAATAAAATGTAATAATAAATTTTA
1 AAAATAAAA-GTAATAATAAATTTTA
117274 AAAATAAAA-TAATAA-AAATATTTA
1 AAAATAAAAGTAATAATAAAT-TTTA
117298 TTATAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
26 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAATAAAAGTAATAATAAATTTTA
Found at i:124646 original size:17 final size:18
Alignment explanation
Indices: 124624--124664 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
124614 TACAAAATTG
*
124624 AATGCAACG-AGAATTAA
1 AATGCAACGCAGAATAAA
*
124641 AATGC-AGGCAGAATAAA
1 AATGCAACGCAGAATAAA
124658 AATGCAA
1 AATGCAA
124665 GAAAGTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 17 0.85
18 1 0.05
ACGTcount: A:0.54, C:0.12, G:0.20, T:0.15
Consensus pattern (18 bp):
AATGCAACGCAGAATAAA
Found at i:134018 original size:51 final size:51
Alignment explanation
Indices: 133936--134226 Score: 350
Period size: 51 Copynumber: 5.6 Consensus size: 51
133926 GCTATAAACA
* *
133936 AAAGAGTCTGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* ** * * *
133988 AAAAGTCTAAAGACTAAATGTCATCGTGAGTAAATGAACCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
134039 AAAGGTTCGATGACTAAGTGTTATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *
134090 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * **
134141 AAAGGTCCGATGACTCAGTGTCATCGTGAGTATATGAATTCCTATACGGAGC
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATT
* *
134193 AAAGGGGTCCAATGACTATA-TGTCATCATGAGTA
1 AAA--GGTCCGATGACTA-AGTGTCATCGTGAGTA
134227 TTAAATGAAA
Statistics
Matches: 205, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
51 167 0.81
52 13 0.06
54 24 0.12
55 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:141304 original size:42 final size:42
Alignment explanation
Indices: 141257--141346 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
141247 AGTAATGAAC
* * *
141257 AATCATTCATAAACAGGCATACTTAACTCTACTATTTCACCG
1 AATCATTCATAAACAAGCATACTTAACTCCACCATTTCACCG
141299 AATCATTCATAAACAAGCATACTTAACTCCACCATTTCACCG
1 AATCATTCATAAACAAGCATACTTAACTCCACCATTTCACCG
*
141341 TATCAT
1 AATCAT
141347 CACATGAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.30
Consensus pattern (42 bp):
AATCATTCATAAACAAGCATACTTAACTCCACCATTTCACCG
Found at i:142670 original size:37 final size:38
Alignment explanation
Indices: 142615--142688 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 38
142605 GATTACTAAT
* *
142615 ATATATATATTTTTTTTTTTGCTCTTTTTGAGTTGTGA
1 ATATATATATTATATTTTTTGCTCTTTTTGAGTTGTGA
142653 ATATATATA-TATATTTTTTGCTCTTTTTGAGTTGTG
1 ATATATATATTATATTTTTTGCTCTTTTTGAGTTGTG
142689 GATGTAGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 25 0.74
38 9 0.26
ACGTcount: A:0.20, C:0.05, G:0.14, T:0.61
Consensus pattern (38 bp):
ATATATATATTATATTTTTTGCTCTTTTTGAGTTGTGA
Found at i:144205 original size:78 final size:79
Alignment explanation
Indices: 144060--144257 Score: 328
Period size: 78 Copynumber: 2.5 Consensus size: 79
144050 TGGTGACATG
* * *
144060 AATCAACATTTGAAGAGTTTCCCCTTGGTCTTTTGAAGAGTCACCTTGTCTTGAATTAATCTTTA
1 AATCAGCATTTGAAGAGTTTCCCCTTGGTCTTTTAAAGAGTCACCTTGTCTTGAATTAACCTTTA
144125 AGTGCACCAAAACT
66 AGTGCACCAAAACT
144139 AATCAGCATTTGAAGAGTTTCCCCTTGGTC-TTTAAAGAGTCACCTTGTCTTGAATTAACCTTTA
1 AATCAGCATTTGAAGAGTTTCCCCTTGGTCTTTTAAAGAGTCACCTTGTCTTGAATTAACCTTTA
144203 AGTGCACCAAAACT
66 AGTGCACCAAAACT
* *
144217 AATCAGCATTTAAAGAGTCTT-TCCTTGGTCTTTTAAAGAGT
1 AATCAGCATTTGAAGAGT-TTCCCCTTGGTCTTTTAAAGAGT
144258 AACTTGATCA
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
78 71 0.63
79 41 0.37
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (79 bp):
AATCAGCATTTGAAGAGTTTCCCCTTGGTCTTTTAAAGAGTCACCTTGTCTTGAATTAACCTTTA
AGTGCACCAAAACT
Found at i:147070 original size:50 final size:50
Alignment explanation
Indices: 146978--147175 Score: 222
Period size: 50 Copynumber: 3.9 Consensus size: 50
146968 GTGTGACTTG
* * * *
146978 ATTTAATGATGCAAACTTAAACTAACATGAGAGTTAGATAATGCATGAT-ATA
1 ATTT-ATGATGCATACTT-AACTAACATGAAAGTTACATAATGCATG-TCATT
* * *
147030 ATCTATGATGCATACTTAATTAACATGAAAGGTACATAATGCATGTCATT
1 ATTTATGATGCATACTTAACTAACATGAAAGTTACATAATGCATGTCATT
* * *
147080 GTTTATGATACA-AGCTTAACTAATCAT-AAGAGTTACATAATGAATGTCATT
1 ATTTATGATGCATA-CTTAACTAA-CATGAA-AGTTACATAATGCATGTCATT
*
147131 ATTTATGATGCATACTTAACTAACATGAAATTTACATAATGCATG
1 ATTTATGATGCATACTTAACTAACATGAAAGTTACATAATGCATG
147176 ACTTTATTAA
Statistics
Matches: 123, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
49 2 0.02
50 62 0.50
51 55 0.45
52 4 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (50 bp):
ATTTATGATGCATACTTAACTAACATGAAAGTTACATAATGCATGTCATT
Found at i:147120 original size:101 final size:101
Alignment explanation
Indices: 146983--147175 Score: 264
Period size: 101 Copynumber: 1.9 Consensus size: 101
146973 ACTTGATTTA
* * * *
146983 ATGATGCAAACTTAAACTAACATGAGAGTTAGATAATGCATGAT-ATAATCTATGATGCATACTT
1 ATGATACAAACTTAAACTAACATAAGAGTTACATAATGAATG-TCATAATCTATGATGCATACTT
*
147047 AATTAACATGAAAGGTACATAATGCATGTCATTGTTT
65 AACTAACATGAAAGGTACATAATGCATGTCATTGTTT
* * *
147084 ATGATACAAGCTT-AACTAATCATAAGAGTTACATAATGAATGTCATTATTTATGATGCATACTT
1 ATGATACAAACTTAAACTAA-CATAAGAGTTACATAATGAATGTCATAATCTATGATGCATACTT
**
147148 AACTAACATGAAATTTACATAATGCATG
65 AACTAACATGAAAGGTACATAATGCATG
147176 ACTTTATTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
100 7 0.09
101 73 0.91
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (101 bp):
ATGATACAAACTTAAACTAACATAAGAGTTACATAATGAATGTCATAATCTATGATGCATACTTA
ACTAACATGAAAGGTACATAATGCATGTCATTGTTT
Found at i:150743 original size:26 final size:28
Alignment explanation
Indices: 150714--150777 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
150704 GACTATACAA
* * *
150714 AAAATTTTAATAGTTAAAA-AATGT-AT
1 AAAATTTTAAAAATTAAAATAATATAAT
150740 AAAATTATTAAAAATTAAAATAATATAAT
1 AAAATT-TTAAAAATTAAAATAATATAAT
150769 ATAAATTTT
1 A-AAATTTT
150778 TTTTTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 6 0.19
27 11 0.35
28 4 0.13
29 5 0.16
30 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (28 bp):
AAAATTTTAAAAATTAAAATAATATAAT
Found at i:152594 original size:13 final size:13
Alignment explanation
Indices: 152576--152602 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
152566 AGAGTCATCT
152576 ACTTATTCCAGGG
1 ACTTATTCCAGGG
152589 ACTTATTCCAGGG
1 ACTTATTCCAGGG
152602 A
1 A
152603 AGTTAGCTAT
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:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (13 bp):
ACTTATTCCAGGG
Found at i:156874 original size:53 final size:53
Alignment explanation
Indices: 156809--156910 Score: 186
Period size: 53 Copynumber: 1.9 Consensus size: 53
156799 TAAAATCAAC
156809 AAACAAAGATAGAAGAAACAAGAAAAACAGAGAGAAGACTAATAGTGAACAAT
1 AAACAAAGATAGAAGAAACAAGAAAAACAGAGAGAAGACTAATAGTGAACAAT
* *
156862 AAACAAAGATAGAAGAAATAAGAAAAATAGAGAGAAGACTAATAGTGAA
1 AAACAAAGATAGAAGAAACAAGAAAAACAGAGAGAAGACTAATAGTGAA
156911 ATCCACTAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.63, C:0.07, G:0.20, T:0.11
Consensus pattern (53 bp):
AAACAAAGATAGAAGAAACAAGAAAAACAGAGAGAAGACTAATAGTGAACAAT
Found at i:157172 original size:71 final size:71
Alignment explanation
Indices: 157051--157191 Score: 203
Period size: 71 Copynumber: 2.0 Consensus size: 71
157041 ATTGCAAAAC
* * *
157051 CATGGGCAAAAACTCACAACCCTTACCTTAGACCTCATAACCCTAACCCCAAAACCCATACCCCA
1 CATGAGCAAAAACCCACAACCCTTACCTTAAACCTCATAACCCTAACCCCAAAACCCATACCCCA
157116 TAACAT
66 TAACAT
* * * *
157122 CATGAGCAAAAACCCATAACCCTT-TCTTCAAACCTTATAACCCTAACCCCAAAACCCATACCCT
1 CATGAGCAAAAACCCACAACCCTTACCTT-AAACCTCATAACCCTAACCCCAAAACCCATACCCC
157186 ATAACA
65 ATAACA
157192 CTAAGACATT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 3 0.05
71 59 0.95
ACGTcount: A:0.39, C:0.38, G:0.04, T:0.18
Consensus pattern (71 bp):
CATGAGCAAAAACCCACAACCCTTACCTTAAACCTCATAACCCTAACCCCAAAACCCATACCCCA
TAACAT
Found at i:157621 original size:18 final size:18
Alignment explanation
Indices: 157598--157652 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
157588 AGGAAACTTT
157598 AACATTTATAATAAATGA
1 AACATTTATAATAAATGA
* *
157616 AACA-TTA-AATGAAACGGT
1 AACATTTATAAT-AAA-TGA
157634 AACATTTATAATAAATGA
1 AACATTTATAATAAATGA
157652 A
1 A
157653 TCTTTCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.10
17 6 0.21
18 11 0.38
19 6 0.21
20 3 0.10
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (18 bp):
AACATTTATAATAAATGA
Found at i:158323 original size:21 final size:21
Alignment explanation
Indices: 158299--158344 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
158289 ATGCCCCACA
* *
158299 ACCTCTACCGAACGTGGTACT
1 ACCTCTACCGAAAGTGATACT
*
158320 ACCTCTATCGAAAGTGATACT
1 ACCTCTACCGAAAGTGATACT
158341 ACCT
1 ACCT
158345 TGACCCATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (21 bp):
ACCTCTACCGAAAGTGATACT
Found at i:160241 original size:39 final size:39
Alignment explanation
Indices: 160121--160307 Score: 153
Period size: 39 Copynumber: 4.8 Consensus size: 39
160111 TAGCTTCACG
* * *
160121 GTGTTTACAGTGTCATCAT-CCA-TTTAATATTGTATTGTA
1 GTGTTTACAGTGTCA-C-TGCCAGTTCAGTAATGTATTGTA
* * * * *
160160 GTGTTTACAGTATCACTGTCATTTCAGTAATGTGTCGTA
1 GTGTTTACAGTGTCACTGCCAGTTCAGTAATGTATTGTA
* *
160199 GTGTTTATAGTGTCACTGCCAGTTCAGTAATGTATTGCA
1 GTGTTTACAGTGTCACTGCCAGTTCAGTAATGTATTGTA
* * * **** *
160238 GTGTTTATAGTGTTAATATTGGTTCAATAATGTATTGTA
1 GTGTTTACAGTGTCACTGCCAGTTCAGTAATGTATTGTA
* * *
160277 GTGTTTACAGTGCCACTGCTAGTTTAGTAAT
1 GTGTTTACAGTGTCACTGCCAGTTCAGTAAT
160308 TCGGGAACTT
Statistics
Matches: 115, Mismatches: 31, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
37 1 0.01
38 3 0.03
39 111 0.97
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (39 bp):
GTGTTTACAGTGTCACTGCCAGTTCAGTAATGTATTGTA
Found at i:162444 original size:20 final size:20
Alignment explanation
Indices: 162386--162444 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
162376 TTTTATAAAG
*
162386 TCGTAAGAAAATTATAAAAA-
1 TCGTAA-AAAAATATAAAAAT
*
162406 T-GTAAAGAAATAT-AAAAT
1 TCGTAAAAAAATATAAAAAT
162424 TCGTAAAAAAATATAAAAAT
1 TCGTAAAAAAATATAAAAAT
162444 T
1 T
162445 ATCGTACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.12
18 7 0.21
19 15 0.45
20 7 0.21
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.27
Consensus pattern (20 bp):
TCGTAAAAAAATATAAAAAT
Found at i:162636 original size:11 final size:10
Alignment explanation
Indices: 162620--162688 Score: 79
Period size: 11 Copynumber: 6.9 Consensus size: 10
162610 TTTTGATGCA
162620 TTTTATAAATT
1 TTTTATAAA-T
162631 TTTTATAAA-
1 TTTTATAAAT
*
162640 TTTTATAAAA
1 TTTTATAAAT
*
162650 GTTTATAAAT
1 TTTTATAAAT
162660 TTTTAT-AAT
1 TTTTATAAAT
*
162669 TTTTTTACAAT
1 TTTTATA-AAT
162680 TTTTATAAA
1 TTTTATAAA
162689 AAAATTCTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
9 17 0.34
10 15 0.30
11 18 0.36
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:162642 original size:20 final size:20
Alignment explanation
Indices: 162619--162688 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
162609 CTTTTGATGC
162619 ATTTTATAAATTTTTTATAA
1 ATTTTATAAATTTTTTATAA
**
162639 ATTTTATAAA-AGTTTATAA
1 ATTTTATAAATTTTTTATAA
* *
162658 ATTTTTATAATTTTTTTACAA
1 A-TTTTATAAATTTTTTATAA
*
162679 TTTTTATAAA
1 ATTTTATAAA
162689 AAAATTCTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 8 0.20
20 26 0.65
21 6 0.15
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (20 bp):
ATTTTATAAATTTTTTATAA
Found at i:162643 original size:9 final size:9
Alignment explanation
Indices: 162619--162688 Score: 59
Period size: 10 Copynumber: 7.1 Consensus size: 9
162609 CTTTTGATGC
162619 ATTTTATAA
1 ATTTTATAA
162628 ATTTTTTATAA
1 A--TTTTATAA
162639 ATTTTATAAA
1 ATTTTAT-AA
*
162649 AGTTTATAA
1 ATTTTATAA
162658 ATTTTTATAA
1 A-TTTTATAA
* *
162668 TTTTTTTACA
1 ATTTTATA-A
162678 ATTTTTATAA
1 A-TTTTATAA
162688 A
1 A
162689 AAAATTCTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.33
10 18 0.37
11 15 0.31
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (9 bp):
ATTTTATAA
Found at i:162701 original size:40 final size:40
Alignment explanation
Indices: 162620--162713 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
162610 TTTTGATGCA
* **
162620 TTTTATAAATTTTTTATAAATTTTATAAAAGTTTATAAAT
1 TTTTATAAATTTTTTACAAATTTTATAAAAAATTATAAAT
* * *
162660 TTTTATAATTTTTTTACAATTTTTATAAAAAAATTCT-AAT
1 TTTTATAAATTTTTTACAAATTTTAT-AAAAAATTATAAAT
162700 TTTTAATAAATTTT
1 TTTT-ATAAATTTT
162714 ATGTTTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.67
41 15 0.33
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (40 bp):
TTTTATAAATTTTTTACAAATTTTATAAAAAATTATAAAT
Found at i:162741 original size:20 final size:19
Alignment explanation
Indices: 162696--162745 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
162686 AAAAAAATTC
* *
162696 TAATTTTTAATAAATTTTA
1 TAATTTTTATTAAATTTAA
**
162715 TGTTTTTTATTAAAATTTAA
1 TAATTTTTATT-AAATTTAA
162735 TAATTTTTATT
1 TAATTTTTATT
162746 GATTTTTATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TAATTTTTATTAAATTTAA
Found at i:166125 original size:2 final size:2
Alignment explanation
Indices: 166118--166150 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
166108 TATATGATTT
166118 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
166151 GATCACAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:172531 original size:8 final size:8
Alignment explanation
Indices: 172518--172547 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
172508 TCATTTCATT
172518 TGGTTAAA
1 TGGTTAAA
172526 TGGTTAAA
1 TGGTTAAA
172534 TGGTTAAA
1 TGGTTAAA
172542 T-GTTAA
1 TGGTTAA
172548 TTTTTTATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.23
8 17 0.77
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (8 bp):
TGGTTAAA
Found at i:180893 original size:20 final size:22
Alignment explanation
Indices: 180859--180903 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
180849 ACATTTTTTA
180859 TATACAAAATAATTTGTATTAT
1 TATACAAAATAATTTGTATTAT
* *
180881 TATA-AAAAT-ATTTTTATTTT
1 TATACAAAATAATTTGTATTAT
180901 TAT
1 TAT
180904 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 5 0.24
22 4 0.19
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TATACAAAATAATTTGTATTAT
Done.