Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_pilon, 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: 2210178
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:1816 original size:11 final size:13
Alignment explanation
Indices: 1784--1813 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1774 TGGCCAAAGA
1784 TGAAAAGGTATGT
1 TGAAAAGGTATGT
1797 TGAAAAGGTATG-
1 TGAAAAGGTATGT
1809 TGAAA
1 TGAAA
1814 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:8786 original size:65 final size:64
Alignment explanation
Indices: 8716--8851 Score: 202
Period size: 65 Copynumber: 2.1 Consensus size: 64
8706 ACACTAATTA
* * *
8716 CATTCGATGTTTCAA-AAGAGCCAGGAGTGCATCGATGCATGGTCTGTGCATCGGTTCATAAAAT
1 CATTCGATGTTTCAATAA-AACCAGGAGTGCATCGATGCATGG-CTGTGCATCGGTACACAAAAT
8780 G
64 G
* *
8781 CATTCGATGTTTCAATAAAATCAGGAGTGCATCGATGCATGGCTGTGCATTGGTACACAAAATG
1 CATTCGATGTTTCAATAAAACCAGGAGTGCATCGATGCATGGCTGTGCATCGGTACACAAAATG
8845 CATTCGA
1 CATTCGA
8852 ATTAGGGTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 26 0.40
65 37 0.57
66 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (64 bp):
CATTCGATGTTTCAATAAAACCAGGAGTGCATCGATGCATGGCTGTGCATCGGTACACAAAATG
Found at i:11993 original size:11 final size:11
Alignment explanation
Indices: 11974--12037 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
11964 TCACGAACAT
11974 GTTCGTTTAGC
1 GTTCGTTTAGC
* *
11985 GTTCATTTAGT
1 GTTCGTTTAGC
11996 GTTCGTTTAGC
1 GTTCGTTTAGC
*
12007 GTT-GTTTTAGT
1 GTTCG-TTTAGC
* *
12018 GTTTGTTTATC
1 GTTCGTTTAGC
12029 GTTCGTTTA
1 GTTCGTTTA
12038 TATATTCGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
10 1 0.02
11 41 0.95
12 1 0.02
ACGTcount: A:0.11, C:0.11, G:0.23, T:0.55
Consensus pattern (11 bp):
GTTCGTTTAGC
Found at i:12001 original size:22 final size:22
Alignment explanation
Indices: 11973--12037 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
11963 TTCACGAACA
11973 TGTTCGTTTAGCGTTCATTTAG
1 TGTTCGTTTAGCGTTCATTTAG
**
11995 TGTTCGTTTAGCGTTGTTTTAG
1 TGTTCGTTTAGCGTTCATTTAG
* * *
12017 TGTTTGTTTATCGTTCGTTTA
1 TGTTCGTTTAGCGTTCATTTA
12038 TATATTCGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.11, C:0.11, G:0.23, T:0.55
Consensus pattern (22 bp):
TGTTCGTTTAGCGTTCATTTAG
Found at i:12268 original size:12 final size:12
Alignment explanation
Indices: 12251--12291 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
12241 GAACGAGTTG
*
12251 ATAAACAAGCTC
1 ATAAACGAGCTC
*
12263 ATAAACGAGCTT
1 ATAAACGAGCTC
12275 ATAAACGAGCTC
1 ATAAACGAGCTC
12287 ATAAA
1 ATAAA
12292 TGAGTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.20
Consensus pattern (12 bp):
ATAAACGAGCTC
Found at i:12278 original size:24 final size:24
Alignment explanation
Indices: 12242--12297 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
12232 AACATAAATG
12242 AACGAGTTGATAAACAAGCTCATA
1 AACGAGTTGATAAACAAGCTCATA
*
12266 AACGAGCTT-ATAAACGAGCTCATA
1 AACGAG-TTGATAAACAAGCTCATA
*
12290 AATGAGTT
1 AACGAGTT
12298 TTTTCGTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 25 0.86
25 2 0.07
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (24 bp):
AACGAGTTGATAAACAAGCTCATA
Found at i:14140 original size:19 final size:19
Alignment explanation
Indices: 14118--14175 Score: 89
Period size: 21 Copynumber: 2.9 Consensus size: 19
14108 CTCTGCAATC
14118 TTTATATAAATTACATATT
1 TTTATATAAATTACATATT
*
14137 TTTATATAAATAGATCATATT
1 TTTATATAAAT-TA-CATATT
14158 TTTATATAAATTACATAT
1 TTTATATAAATTACATAT
14176 ATCAATGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.46
20 2 0.06
21 17 0.49
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTATATAAATTACATATT
Found at i:14531 original size:19 final size:18
Alignment explanation
Indices: 14499--14536 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
14489 TATGATATAT
14499 AATTTTAAAGTTATCTTTA
1 AATTTTAAAGTTAT-TTTA
14518 AATTTCTAAA-TTATTTTA
1 AATTT-TAAAGTTATTTTA
14536 A
1 A
14537 TGGAATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTTTAAAGTTATTTTA
Found at i:14920 original size:3 final size:3
Alignment explanation
Indices: 14914--14940 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14904 TGATGATCAT
14914 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
14941 CTCAAATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:15926 original size:16 final size:16
Alignment explanation
Indices: 15905--15936 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15895 CGACAAGTAC
15905 CGATGAGCATCACTAA
1 CGATGAGCATCACTAA
*
15921 CGATGAGTATCACTAA
1 CGATGAGCATCACTAA
15937 TTTAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (16 bp):
CGATGAGCATCACTAA
Found at i:18208 original size:14 final size:14
Alignment explanation
Indices: 18189--18215 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18179 ATGCAATAAG
18189 TGTATCGATACACA
1 TGTATCGATACACA
18203 TGTATCGATACAC
1 TGTATCGATACAC
18216 CCCTTTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
TGTATCGATACACA
Found at i:25096 original size:2 final size:2
Alignment explanation
Indices: 25089--25133 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
25079 ATATTCATGC
25089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25131 AT A
1 AT A
25134 ATGTTATGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25402 original size:18 final size:18
Alignment explanation
Indices: 25379--25431 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
25369 AGGGATTTTC
*
25379 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCGGGACAT
*
25397 AGTGGTCATTCGGGACAT
1 AGTGGTCCTTCGGGACAT
25415 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
25432 AATATTCAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:26953 original size:23 final size:22
Alignment explanation
Indices: 26918--26960 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
26908 ACCACTAACA
* *
26918 ATATTATATATATATTCACATC
1 ATATTATACATATATACACATC
26940 ATATATATACATATATACACA
1 ATAT-TATACATATATACACA
26961 ATAATGACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTATACATATATACACATC
Found at i:36527 original size:2 final size:2
Alignment explanation
Indices: 36520--36550 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36510 TTTTGCCGCG
36520 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36551 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36555 original size:2 final size:2
Alignment explanation
Indices: 36550--36575 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36540 TATATATATA
36550 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
36576 AAATAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:39766 original size:28 final size:28
Alignment explanation
Indices: 39696--39756 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
39686 ATATTTTCTA
** *
39696 ATTTTTAAAAAAT-TGAAAATGAAAACT
1 ATTTTTAAAAAATAAAAAAATGAAAAAT
*
39723 ATTTTTAAAAAATAAAAAAATTAAAAAT
1 ATTTTTAAAAAATAAAAAAATGAAAAAT
39751 ATTTTT
1 ATTTTT
39757 TAGAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (28 bp):
ATTTTTAAAAAATAAAAAAATGAAAAAT
Found at i:45019 original size:82 final size:82
Alignment explanation
Indices: 44882--45046 Score: 296
Period size: 82 Copynumber: 2.0 Consensus size: 82
44872 GAACAGCTTT
44882 GCTCAAGGTATTTCTGGAAAGGAGCAGATAAATCTTCTGCTGGTGCTCGTGTGAGCTGGGAAATT
1 GCTCAAGGTATTTCTGGAAAGGAGCAGATAAATCTTCTGCTGGTGCTCGTGTGAGCTGGGAAATT
44947 ATTTGTCTATCCAAATC
66 ATTTGTCTATCCAAATC
* *
44964 GCTCAAGGTATTTCTGGAAAGGAGCAGATAAAT-TTGTTGTTGGTGCTCGTGTGAGCTGGGAAAT
1 GCTCAAGGTATTTCTGGAAAGGAGCAGATAAATCTT-CTGCTGGTGCTCGTGTGAGCTGGGAAAT
45028 TATTTGTCTATCCAAATC
65 TATTTGTCTATCCAAATC
45046 G
1 G
45047 GAAGGTGGCC
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
81 2 0.03
82 78 0.98
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (82 bp):
GCTCAAGGTATTTCTGGAAAGGAGCAGATAAATCTTCTGCTGGTGCTCGTGTGAGCTGGGAAATT
ATTTGTCTATCCAAATC
Found at i:50549 original size:21 final size:20
Alignment explanation
Indices: 50498--50549 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
50488 TCAACTATCA
50498 TGGACTACCACCTTAACATG
1 TGGACTACCACCTTAACATG
** *
50518 TGGACCGCCACGTTAACATTG
1 TGGACTACCACCTTAACA-TG
50539 TGGACTACCAC
1 TGGACTACCAC
50550 ATCATAATCG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (20 bp):
TGGACTACCACCTTAACATG
Found at i:50873 original size:34 final size:35
Alignment explanation
Indices: 50827--50911 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
50817 AAAACAGTCA
* * *
50827 TCAATTTCATTCTAAACCC-AATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCTAAATTCCAAAATAAT
* * *
50861 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCTAAATTCCAAAATAAT
*
50896 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
50912 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 18 0.42
35 25 0.58
ACGTcount: A:0.41, C:0.20, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCTAAATTCCAAAATAAT
Found at i:50905 original size:21 final size:21
Alignment explanation
Indices: 50880--50922 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
50870 TTCTAAACCC
50880 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
50901 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
50922 T
1 T
50923 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:51077 original size:16 final size:18
Alignment explanation
Indices: 51045--51078 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
51035 TATTAATGTA
51045 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
51063 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
51079 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:51731 original size:127 final size:129
Alignment explanation
Indices: 51531--51771 Score: 387
Period size: 127 Copynumber: 1.9 Consensus size: 129
51521 AATTTTCTTC
* * *
51531 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
51596 CCTGATT-AATGATTAATTTATTAAATTTTA-TTAATTTAGGACCAAATGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATGATAGCATATATAAA
* * * * *
51658 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACCCATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
51723 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAAT
51772 TGATTATAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
127 63 0.61
128 23 0.22
129 17 0.17
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (129 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATGATAGCATATATAAA
Found at i:52965 original size:22 final size:21
Alignment explanation
Indices: 52932--52976 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
52922 AATCATGAAG
*
52932 TATTCAAAAATATTTATAAAT
1 TATTAAAAAATATTTATAAAT
52953 TATTAAAAGAATATTTATAAAT
1 TATTAAAA-AATATTTATAAAT
52975 TA
1 TA
52977 AAATTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TATTAAAAAATATTTATAAAT
Found at i:57350 original size:15 final size:15
Alignment explanation
Indices: 57330--57374 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
57320 GAGTATCATT
57330 AATTTAATTTATAAA
1 AATTTAATTTATAAA
* *
57345 AATTTAAATTCTAAA
1 AATTTAATTTATAAA
*
57360 AGATTTAATGTATAA
1 A-ATTTAATTTATAA
57375 TTATAAATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (15 bp):
AATTTAATTTATAAA
Found at i:64076 original size:20 final size:21
Alignment explanation
Indices: 64003--64084 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 21
63993 ACAGAACCCA
* *
64003 GGGGGGTATCGATTCCCT-GT
1 GGGGGGAATCGATTCCCTCAT
* *
64023 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGATT-CCC-TCAT
* *
64046 AGGGGGAATCGGTTCCCTCAT
1 GGGGGGAATCGATTCCCTCAT
64067 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGATTCCCTC
64085 TGCACCAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
20 23 0.45
21 11 0.22
22 4 0.08
23 13 0.25
ACGTcount: A:0.15, C:0.24, G:0.37, T:0.24
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTCAT
Found at i:74516 original size:215 final size:216
Alignment explanation
Indices: 73947--74678 Score: 1179
Period size: 215 Copynumber: 3.4 Consensus size: 216
73937 ATAAATAATC
* * * * *
73947 ATGGTTCAA-TTT-TATGAAAATACAAATTTA-AGAATTAAATTGAACAAATATGGAATTACAAA
1 ATGGGTCAATTTTATATGCAAATA-AAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAA
74009 TAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTG
65 TAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTG
*
74074 TGAGGTTAAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAA
130 TGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAA
74139 AAAATAGAAATAAGTAATAAGT
195 AAAATAGAAATAAGTAATAAGT
* *
74161 ATGGGTCAATTTTAGATGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAAT
1 ATGGGTCAATTTTATATGCAAATAAAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAAT
* * *
74226 AAAAATTTAAATACATTAAACAACACACATTGATGAGGGATCAAATCAAAATAATTTTATATTGT
66 AAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGT
74291 GAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAA
131 GAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAA
*
74356 AAATAGAAATAGGTAATAAGT
196 AAATAGAAATAAGTAATAAGT
* * *
74377 ATGTGTCAA-TTCATATGCAAATAAAATTTAGAGGACTAAATTGATCAAATATGAAATTACAAAT
1 ATGGGTCAATTTTATATGCAAATAAAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAAT
* * **
74441 AAAAATTTAATTAAATTAAAGTAA-TTACATTGATGAGGGATCAAATCGAAATAATTTTAAATTG
66 AAAAATTTAAATAAATTAAA-CAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTG
* * * *
74505 TGAGATTGAAATTAATAC-AAAAAGTATTAAATTATACCCATTTAAAAAGTTATGAGCTAATTAA
130 TGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAA
74569 AAAATAGAAATAAGTAATAAGT
195 AAAATAGAAATAAGTAATAAGT
* *
74591 ATGGGCCAATTTTATATGCAAATAAAATTTAGAGGACTAAATTGAACAAATATCAAATTACAAAT
1 ATGGGTCAATTTTATATGCAAATAAAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAAT
74656 AAAAATTTAAATAAATTAAACAA
66 AAAAATTTAAATAAATTAAACAA
74679 TATAAAGGGA
Statistics
Matches: 477, Mismatches: 36, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
214 81 0.17
215 202 0.42
216 194 0.41
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (216 bp):
ATGGGTCAATTTTATATGCAAATAAAATTTAGAGGACTAAATTGAACAAATATGAAATTACAAAT
AAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGT
GAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAA
AAATAGAAATAAGTAATAAGT
Found at i:74769 original size:2 final size:2
Alignment explanation
Indices: 74764--74891 Score: 75
Period size: 2 Copynumber: 62.0 Consensus size: 2
74754 AAAACAGCTA
* *
74764 AT AT AT AT AT AT A- AT AT AC ACT AT AT AGT TT AT AT A- AGT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT A-T AT
* * * *
74805 AT GT AT -T AT AT AT AT AA ACT AT AT AGT TT AT AT AT AA AGT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT A-T AT
* * *
74847 AT GT AT -T AT AT AT AT AA ACT AT AT AGT TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT
74890 AT
1 AT
74892 TATGTATAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
1 4 0.04
2 84 0.88
3 8 0.08
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:74845 original size:42 final size:42
Alignment explanation
Indices: 74771--74882 Score: 185
Period size: 42 Copynumber: 2.7 Consensus size: 42
74761 CTAATATATA
*
74771 TATATAATATACACTATATAG-TT-TATAT-AAGTATATGTAT
1 TATAT-ATATAAACTATATAGTTTATATATAAAGTATATGTAT
74811 TATATATATAAACTATATAGTTTATATATAAAGTATATGTAT
1 TATATATATAAACTATATAGTTTATATATAAAGTATATGTAT
74853 TATATATATAAACTATATAGTTTATATATA
1 TATATATATAAACTATATAGTTTATATATA
74883 TATATATATT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
39 14 0.21
40 7 0.10
41 5 0.07
42 42 0.62
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (42 bp):
TATATATATAAACTATATAGTTTATATATAAAGTATATGTAT
Found at i:75002 original size:11 final size:10
Alignment explanation
Indices: 74978--75058 Score: 60
Period size: 10 Copynumber: 7.8 Consensus size: 10
74968 ACTACATAGT
74978 TTATATATAA
1 TTATATATAA
74988 TTATATATGAA
1 TTATATAT-AA
74999 TTATATATAA
1 TTATATATAA
*
75009 --ACTATACAA
1 TTA-TATATAA
75018 TTTATATTTATATA
1 -TTATA--TATA-A
*
75032 TTATGTATAA
1 TTATATATAA
*
75042 TTATAAATAA
1 TTATATATAA
75052 -TATATAT
1 TTATATAT
75059 TGAATAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
8 1 0.02
9 12 0.21
10 19 0.33
11 16 0.28
12 1 0.02
13 7 0.12
14 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
TTATATATAA
Found at i:75004 original size:41 final size:39
Alignment explanation
Indices: 74929--75012 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 39
74919 AAACTATAAT
* *
74929 ACTATATAGTTTATATATGAACTATTGAACTATATAGAA
1 ACTACATAGTTTATATATGAAATATTGAACTATATAGAA
* *
74968 ACTACATAGTTTATATAT-AATTATATATGAATTATATATAA
1 ACTACATAGTTTATATATGAA--ATAT-TGAACTATATAGAA
75009 ACTA
1 ACTA
75013 TACAATTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 2 0.05
39 17 0.45
40 3 0.08
41 16 0.42
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (39 bp):
ACTACATAGTTTATATATGAAATATTGAACTATATAGAA
Found at i:75022 original size:41 final size:43
Alignment explanation
Indices: 74954--75051 Score: 103
Period size: 41 Copynumber: 2.3 Consensus size: 43
74944 TATGAACTAT
* * * *
74954 TGAACTATATAGAAACTACATAGTTTATA-TATA-ATTATATA
1 TGAATTATATATAAACTACACAATTTATATTATATATTATATA
* *
74995 TGAATTATATATAAACTATACAATTTATATTTATATATTATGTA
1 TGAATTATATATAAACTACACAATTTATA-TTATATATTATATA
*
75039 T-AATTATAAATAA
1 TGAATTATATATAA
75052 TATATATTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 24 0.51
43 15 0.32
44 8 0.17
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (43 bp):
TGAATTATATATAAACTACACAATTTATATTATATATTATATA
Found at i:75090 original size:22 final size:23
Alignment explanation
Indices: 75062--75163 Score: 138
Period size: 22 Copynumber: 4.5 Consensus size: 23
75052 TATATATTGA
75062 ATAAATTATATAGTTTATTA-AT
1 ATAAATTATATAGTTTATTATAT
75084 ATAAATTATATAGTTTATTA-AT
1 ATAAATTATATAGTTTATTATAT
*
75106 ATAAATTATGTAGTTTA-TATAT
1 ATAAATTATATAGTTTATTATAT
*
75128 ATAAACTATATAGTTTATATATAT
1 ATAAATTATATAGTTTAT-TATAT
* *
75152 ATATAGTATATA
1 ATAAATTATATA
75164 TGGTTTAAGG
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
21 2 0.03
22 55 0.76
24 15 0.21
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (23 bp):
ATAAATTATATAGTTTATTATAT
Found at i:75367 original size:20 final size:20
Alignment explanation
Indices: 75245--75369 Score: 85
Period size: 20 Copynumber: 6.0 Consensus size: 20
75235 TAGTAGTATT
*
75245 TAAACTATATATAAATA-ATA
1 TAAACTATATA-AACTATATA
* *
75265 TAAACTA-ACTTATACTATATG
1 TAAACTATA--TAAACTATATA
*
75286 TAAACTATATACACTATATA
1 TAAACTATATAAACTATATA
** *
75306 GTTTAC-ATATGAACTATATGTA
1 -TAAACTATATAAACTATA--TA
75328 TAAACTATATAAACTATATATA
1 TAAACTATATAAAC--TATATA
*
75350 TAAACTATGTAAACTATATA
1 TAAACTATATAAACTATATA
75370 GTTTACATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
19 1 0.01
20 35 0.43
21 17 0.21
22 25 0.30
24 4 0.05
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAACTATATAAACTATATA
Found at i:75369 original size:22 final size:22
Alignment explanation
Indices: 75280--75369 Score: 96
Period size: 22 Copynumber: 4.2 Consensus size: 22
75270 TAACTTATAC
* *
75280 TATATGTAAACTATATACACTA
1 TATATATAAACTATATAAACTA
* *
75302 TATAGT-T-TAC-ATATGAACTA
1 TATA-TATAAACTATATAAACTA
*
75322 TATGTATAAACTATATAAACTA
1 TATATATAAACTATATAAACTA
*
75344 TATATATAAACTATGTAAACTA
1 TATATATAAACTATATAAACTA
75366 TATA
1 TATA
75370 GTTTACATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 12 0.21
21 4 0.07
22 38 0.68
23 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.38
Consensus pattern (22 bp):
TATATATAAACTATATAAACTA
Found at i:75410 original size:24 final size:24
Alignment explanation
Indices: 75364--75413 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
75354 CTATGTAAAC
*
75364 TATATAGTTTACATATGACCTATA
1 TATATAGTTTACATATGAACTATA
*
75388 TATATAGTTTA-TTAGTGAACTATA
1 TATATAGTTTACATA-TGAACTATA
75412 TA
1 TA
75414 AACTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (24 bp):
TATATAGTTTACATATGAACTATA
Found at i:75476 original size:27 final size:27
Alignment explanation
Indices: 75446--75501 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
75436 ATATATAATA
*
75446 TACAAATTATAGTTTATATTTATATAC
1 TACAAACTATAGTTTATATTTATATAC
*
75473 TACATACTATAGTTTATATTTATATAC
1 TACAAACTATAGTTTATATTTATATAC
75500 TA
1 TA
75502 TATATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (27 bp):
TACAAACTATAGTTTATATTTATATAC
Found at i:75526 original size:18 final size:18
Alignment explanation
Indices: 75505--75667 Score: 66
Period size: 18 Copynumber: 8.7 Consensus size: 18
75495 TATACTATAT
75505 ATATGAATTATAGTTTAC
1 ATATGAATTATAGTTTAC
*
75523 ATATGAACTATATA-TGTAC
1 ATATGAA-T-TATAGTTTAC
* *
75542 -TAT-AGTTGATA-TTTAT
1 ATATGAATT-ATAGTTTAC
* *
75558 ATACGAACTATAGTTTAC
1 ATATGAATTATAGTTTAC
* *
75576 ATATAAACTATATAGTTTAT
1 ATATGAA-T-TATAGTTTAC
*
75596 ATACT-AACTATAGTTTAC
1 ATA-TGAATTATAGTTTAC
* * *
75614 AAATAAACTATAGTTGATATTTAC
1 ATATGAA-T-TA--T-A-GTTTAC
*
75638 ATATGAACTATAGTTTAC
1 ATATGAATTATAGTTTAC
*
75656 ATATGAACTATA
1 ATATGAATTATA
75668 TATATAAACT
Statistics
Matches: 108, Mismatches: 21, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
15 1 0.01
16 7 0.06
17 7 0.06
18 51 0.47
19 6 0.06
20 21 0.19
21 1 0.01
22 3 0.03
23 1 0.01
24 10 0.09
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
ATATGAATTATAGTTTAC
Found at i:75560 original size:53 final size:53
Alignment explanation
Indices: 75496--75756 Score: 180
Period size: 53 Copynumber: 4.8 Consensus size: 53
75486 TTATATTTAT
*
75496 ATACTATATATATGAATTATAGTTTACATATGAACTATATATGTACTATAGTTG
1 ATACTTTATATATGAATTATAGTTTACATATGAACTATATAT-TACTATAGTTG
* * * *
75550 ATA-TTTATATACGAACTATAGTTTACATATAAACTATATAGTTTA-TATACTAACT-
1 ATACTTTATATATGAATTATAGTTTACATATGAACTATATA--TTACTATAGT---TG
* * * * *
75605 ATAGTTTACAAATAAACTATAGTTGATATTTACATATGAACTATAGT-TTAC-ATA--TG
1 ATACTTTATATATGAA-T-TA--T-A-GTTTACATATGAACTATA-TATTACTATAGTTG
* * *
75661 A-ACTATATATATAAACTCTATAGTTTACCTATGAACTATATATATACTATAGTTG
1 ATACTTTATATATGAA-T-TATAGTTTACATATGAACTATATAT-TACTATAGTTG
* *
75716 ATA-TTTATATATGAACTATAGTTTACATATGACCTATATAT
1 ATACTTTATATATGAATTATAGTTTACATATGAACTATATAT
75757 ATAGTTTATT
Statistics
Matches: 162, Mismatches: 24, Indels: 43
0.71 0.10 0.19
Matches are distributed among these distances:
50 1 0.01
51 17 0.10
52 4 0.02
53 65 0.40
54 5 0.03
55 32 0.20
56 11 0.07
58 2 0.01
60 7 0.04
61 1 0.01
62 16 0.10
63 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (53 bp):
ATACTTTATATATGAATTATAGTTTACATATGAACTATATATTACTATAGTTG
Found at i:75586 original size:42 final size:42
Alignment explanation
Indices: 75540--75667 Score: 174
Period size: 42 Copynumber: 3.1 Consensus size: 42
75530 CTATATATGT
75540 ACTATAGTTGATATTTATATACGAACTATAGTTTACATATAA
1 ACTATAGTTGATATTTATATACGAACTATAGTTTACATATAA
* * *
75582 ACTATA--T-A-GTTTATATACTAACTATAGTTTACAAATAA
1 ACTATAGTTGATATTTATATACGAACTATAGTTTACATATAA
* * *
75620 ACTATAGTTGATATTTACATATGAACTATAGTTTACATATGA
1 ACTATAGTTGATATTTATATACGAACTATAGTTTACATATAA
75662 ACTATA
1 ACTATA
75668 TATATAAACT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
38 33 0.45
39 1 0.01
40 2 0.03
41 1 0.01
42 36 0.49
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (42 bp):
ACTATAGTTGATATTTATATACGAACTATAGTTTACATATAA
Found at i:75605 original size:38 final size:37
Alignment explanation
Indices: 75550--75703 Score: 147
Period size: 38 Copynumber: 4.1 Consensus size: 37
75540 ACTATAGTTG
*
75550 ATATTTATATACGAACTATAGTTTACATATAAACTAT
1 ATATTTATATACTAACTATAGTTTACATATAAACTAT
*
75587 ATAGTTTATATACTAACTATAGTTTACAAATAAACTATAGTT
1 ATA-TTTATATACTAACTATAGTTTACATATAAAC--TA--T
* *
75629 GATATTTACATA-TGAACTATAGTTTACATATGAACTAT
1 -ATATTTATATACT-AACTATAGTTTACATATAAACTAT
* * *
75667 ATA--TATAAACT--CTATAGTTTACCTATGAACTAT
1 ATATTTATATACTAACTATAGTTTACATATAAACTAT
75700 ATAT
1 ATAT
75704 ATACTATAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 21
0.78 0.06 0.16
Matches are distributed among these distances:
33 24 0.24
35 4 0.04
36 1 0.01
37 6 0.06
38 30 0.30
40 4 0.04
41 1 0.01
42 27 0.27
43 3 0.03
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (37 bp):
ATATTTATATACTAACTATAGTTTACATATAAACTAT
Found at i:75710 original size:18 final size:18
Alignment explanation
Indices: 75689--75759 Score: 51
Period size: 18 Copynumber: 4.0 Consensus size: 18
75679 TATAGTTTAC
75689 CTATGAACTATATATATA
1 CTATGAACTATATATATA
** *
75707 CTAT-AGTTGATATTTATA
1 CTATGAACT-ATATATATA
75725 -TATGAACTATAGT-T-TA
1 CTATGAACTATA-TATATA
*
75741 CATATGACCTATATATATA
1 C-TATGAACTATATATATA
75760 GTTTATTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
16 2 0.05
17 10 0.25
18 26 0.65
19 2 0.05
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (18 bp):
CTATGAACTATATATATA
Found at i:75776 original size:24 final size:24
Alignment explanation
Indices: 75732--75779 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
75722 ATATATGAAC
*
75732 TATAGTTTACATATGACCTATATA
1 TATAGTTTACATATGAACTATATA
*
75756 TATAGTTTA-TTAGTGAACTATATA
1 TATAGTTTACATA-TGAACTATATA
75780 AACTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (24 bp):
TATAGTTTACATATGAACTATATA
Found at i:75784 original size:86 final size:84
Alignment explanation
Indices: 75523--75797 Score: 280
Period size: 86 Copynumber: 3.3 Consensus size: 84
75513 TATAGTTTAC
* *
75523 ATATGAACTATATATGTACTATAGTTGATATTTATATACGAACTATAGTTTACATAT-A--A-AC
1 ATATGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATGACTATA-
*
75584 TATATAGTTTATATACTAACT
65 TATATAGTTTAT-TAGTAACT
** * *
75605 ATAGTTTAC-A-A-ATAAACTATAGTTGATATTTACATATGAACTATAGTTTACATATGAACTAT
1 ATA-TGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATG-ACTAT
* * *
75667 ATATATAAACTCTA-TAGTTTAC-
64 ATATAT--AGTTTATTAG-TAACT
*
75689 CTATGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATGACCTATA
1 ATATGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATGA-CTATA
75754 TATATAGTTTATTAGTGAACT
65 TATATAGTTTATTAGT-AACT
* * *
75775 ATATAAACTATTTATATAATATA
1 ATATGAACTATATATATACTATA
75798 TACTCTATAT
Statistics
Matches: 155, Mismatches: 22, Indels: 28
0.76 0.11 0.14
Matches are distributed among these distances:
80 40 0.26
81 1 0.01
82 5 0.03
83 6 0.04
84 16 0.10
85 11 0.07
86 76 0.49
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (84 bp):
ATATGAACTATATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATGACTATAT
ATATAGTTTATTAGTAACT
Found at i:75805 original size:20 final size:20
Alignment explanation
Indices: 75783--75885 Score: 72
Period size: 20 Copynumber: 5.2 Consensus size: 20
75773 CTATATAAAC
*
75783 TATTTATATAATATATACTC
1 TATTTATATAATATATACTA
* *
75803 TATATATA-AACTATAGT-TTA
1 TATTTATATAA-TATA-TACTA
* *
75823 TATTTATATACTACATACTA
1 TATTTATATAATATATACTA
*
75843 TAGTTTATAT-TTATATACTA
1 TA-TTTATATAATATATACTA
75863 TATATTATAT-ATATGA-ACTA
1 TAT-TTATATAATAT-ATACTA
75883 TAT
1 TAT
75886 ATACTATATA
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.06
20 52 0.79
21 10 0.15
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
TATTTATATAATATATACTA
Found at i:75824 original size:27 final size:27
Alignment explanation
Indices: 75812--75871 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
75802 CTATATATAA
75812 ACTATAGTTTATATTTATATACTACAT
1 ACTATAGTTTATATTTATATACTACAT
*
75839 ACTATAGTTTATATTTATATACTATAT
1 ACTATAGTTTATATTTATATACTACAT
*
75866 ATTATA
1 ACTATA
75872 TATATGAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.50
Consensus pattern (27 bp):
ACTATAGTTTATATTTATATACTACAT
Found at i:75884 original size:11 final size:9
Alignment explanation
Indices: 75854--75895 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
75844 AGTTTATATT
75854 TATATACTA
1 TATATACTA
75863 TATATTA-TA
1 TATA-TACTA
75872 TATATGAACTA
1 TATAT--ACTA
75883 TATATACTA
1 TATATACTA
75892 TATA
1 TATA
75896 GTATAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 18 0.62
10 3 0.10
11 7 0.24
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (9 bp):
TATATACTA
Found at i:75912 original size:34 final size:36
Alignment explanation
Indices: 75854--75922 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 36
75844 AGTTTATATT
*
75854 TATATACTATATATTATATATATGAACTATATATAC
1 TATATACTATATATTATACATATGAACTATATATAC
*
75890 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATGAACTATATATA
75923 AAAACCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 18 0.58
35 3 0.10
36 10 0.32
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATGAACTATATATAC
Found at i:76009 original size:18 final size:18
Alignment explanation
Indices: 75952--76199 Score: 123
Period size: 18 Copynumber: 14.4 Consensus size: 18
75942 ACTATAGTTG
* *
75952 ATATTTATATACTATATA
1 ATATATATAAACTATATA
**
75970 ATATA-ATTTA-TACTATA
1 ATATATATAAACTA-TATA
*
75987 GTATATATAAACTATATA
1 ATATATATAAACTATATA
76005 ATATATATAAACTATAT-
1 ATATATATAAACTATATA
*
76022 -TATATAGT--TC-AT-T-
1 ATATATA-TAAACTATATA
* *
76035 A-GTATATAAACTATATG
1 ATATATATAAACTATATA
* *
76052 GTATATATAAAACTATA-C
1 ATATATAT-AAACTATATA
* ***
76070 GT-TATATAGTTTAT-TA
1 ATATATATAAACTATATA
*
76086 GTATATATAAACTATATA
1 ATATATATAAACTATATA
*
76104 ATATATATAAACTATATG
1 ATATATATAAACTATATA
* *
76122 GTATATATAAACTATA-C
1 ATATATATAAACTATATA
* *
76139 AT-TATATATA-TTTCATA
1 ATATATATAAACTAT-ATA
76156 AGTATATATAAACTATATA
1 A-TATATATAAACTATATA
* * *
76175 GTATATGTAAACTACATA
1 ATATATATAAACTATATA
*
76193 TTATATA
1 ATATATA
76200 GTTCATTAGT
Statistics
Matches: 176, Mismatches: 34, Indels: 40
0.70 0.14 0.16
Matches are distributed among these distances:
12 1 0.01
13 5 0.03
14 3 0.02
15 5 0.03
16 23 0.13
17 29 0.16
18 88 0.50
19 20 0.11
20 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.42
Consensus pattern (18 bp):
ATATATATAAACTATATA
Found at i:76093 original size:172 final size:173
Alignment explanation
Indices: 75917--76289 Score: 413
Period size: 170 Copynumber: 2.1 Consensus size: 173
75907 ATATGAACTA
* * * * * *
75917 TATATAAAAACCATATAA-A-CTATACACTATAGTTGATATTTATATACTATATAATATA-AT-T
1 TATATATAAACCATATAATATATATAAACTATA--TGATATATATAAACTATACAATATATATAT
75978 TAT-ACTATAGTATATATAAACTATATAATATATATAAACT-ATATTATATAGTTCATTAGTATA
64 T-TCA-TA-AGTATATATAAACTATATAATATATATAAACTAATATTATATAGTTCATTAGTATA
*
76041 TA-AA-CTATATGGTATATATAAAACTATACGTTATATAGTTTATTAG
126 TATAACCTATATAGTATATATAAAACTATACGTTATATAGTTTATTAG
* * *
76087 TATATATAAACTATATAATATATATAAACTATATGGTATATATAAACTATACATTATATATATTT
1 TATATATAAACCATATAATATATATAAACTATATGATATATATAAACTATACAATATATATATTT
* *
76152 CATAAGTATATATAAACTATATAGTATATGTAAACTACATATTATATAGTTCATTAGTATATATA
66 CATAAGTATATATAAACTATATAATATATATAAACTA-ATATTATATAGTTCATTAGTATATATA
** **
76217 ACCTATATAGTATATGGCATATACAAACTATATATTATATAGTGCATTAG
130 ACCTATATAG--TAT---ATATA-AAACTATACGTTATATAGTTTATTAG
*
76267 TATATAT-AACCTATATAGTATAT
1 TATATATAAACC-ATATAATATAT
76290 GGTATATACA
Statistics
Matches: 169, Mismatches: 18, Indels: 22
0.81 0.09 0.11
Matches are distributed among these distances:
170 66 0.39
171 6 0.04
172 38 0.22
173 2 0.01
174 7 0.04
176 3 0.02
179 8 0.05
180 39 0.23
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (173 bp):
TATATATAAACCATATAATATATATAAACTATATGATATATATAAACTATACAATATATATATTT
CATAAGTATATATAAACTATATAATATATATAAACTAATATTATATAGTTCATTAGTATATATAA
CCTATATAGTATATATAAAACTATACGTTATATAGTTTATTAG
Found at i:76167 original size:53 final size:51
Alignment explanation
Indices: 76101--76336 Score: 194
Period size: 53 Copynumber: 4.4 Consensus size: 51
76091 TATAAACTAT
* *
76101 ATAA-TATATATAAACTATATGGTATATATAAACTATACAT-TATATATATTTC
1 ATAAGTATATATAAACTATATAGTATATATAAAC--TACATAT-TATATAGTTC
*
76153 ATAAGTATATATAAACTATATAGTATATGTAAACTACATATTATATAGTTC
1 ATAAGTATATATAAACTATATAGTATATATAAACTACATATTATATAGTTC
* * * *
76204 ATTAGTATATATAACCTATATAGTATATGGCATATACAAACTATATATTATATAGTGC
1 ATAAGTATATATAAACTATATAG--TAT---ATAT--AAACTACATATTATATAGTTC
* * * *
76262 ATTAGTATATATAACCTATATAGTATATGGTATATAC-AAACTATATATATAGTTC
1 ATAAGTATATATAAACTATATAGTATA---TATAAACTACA-TAT-TATATAGTTC
*
76317 ATTA--ATATATAAACTATATA
1 ATAAGTATATATAAACTATATA
76337 TTGAAAAGTT
Statistics
Matches: 158, Mismatches: 12, Indels: 27
0.80 0.06 0.14
Matches are distributed among these distances:
51 35 0.22
52 5 0.03
53 48 0.30
54 6 0.04
55 13 0.08
56 9 0.06
58 42 0.27
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (51 bp):
ATAAGTATATATAAACTATATAGTATATATAAACTACATATTATATAGTTC
Found at i:76198 original size:71 final size:70
Alignment explanation
Indices: 76037--76199 Score: 211
Period size: 71 Copynumber: 2.3 Consensus size: 70
76027 AGTTCATTAG
* * * * *
76037 TATATAAACTATATGGTATATATAAAACTATACGTTATATAGTTTATTAGTATATATAAACTATA
1 TATATAAACTACATAGTATATATAAAACTATACATTATATAATTTATAAGTATATATAAACTATA
76102 TAATA
66 TAATA
* *
76107 TATATAAACTATATGGTATATAT-AAACTATACATTATATATATTTCATAAGTATATATAAACTA
1 TATATAAACTACATAGTATATATAAAACTATACATTATATA-ATTT-ATAAGTATATATAAACTA
*
76171 TATAGTA
64 TATAATA
* *
76178 TATGTAAACTACATATTATATA
1 TATATAAACTACATAGTATATA
76200 GTTCATTAGT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
69 16 0.19
70 26 0.31
71 41 0.49
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (70 bp):
TATATAAACTACATAGTATATATAAAACTATACATTATATAATTTATAAGTATATATAAACTATA
TAATA
Found at i:76229 original size:18 final size:18
Alignment explanation
Indices: 75983--76231 Score: 181
Period size: 18 Copynumber: 14.6 Consensus size: 18
75973 TAATTTATAC
75983 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
76001 TATAATATATATAAACTA
1 TATAGTATATATAAACTA
*
76019 TAT--TATATAGT--TC-A
1 TATAGTATATA-TAAACTA
76033 T-TAG--TATATAAACTA
1 TATAGTATATATAAACTA
*
76048 TATGGTATATATAAAACTA
1 TATAGTATATAT-AAACTA
* ***
76067 TA-CGT-TATATAGTTTA
1 TATAGTATATATAAACTA
76083 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
76100 TATAATATATATAAACTA
1 TATAGTATATATAAACTA
*
76118 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
* * **
76136 TACATTATATAT-ATTTCA
1 TATAGTATATATAAACT-A
76154 TA-AGTATATATAAACTA
1 TATAGTATATATAAACTA
*
76171 TATAGTATATGTAAACTA
1 TATAGTATATATAAACTA
* **
76189 CATA-T-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
*
76205 T-TAGTATATATAACCTA
1 TATAGTATATATAAACTA
76222 TATAGTATAT
1 TATAGTATAT
76232 GGCATATACA
Statistics
Matches: 179, Mismatches: 31, Indels: 42
0.71 0.12 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.03
14 3 0.02
15 7 0.04
16 20 0.11
17 36 0.20
18 99 0.55
19 8 0.04
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:76247 original size:25 final size:25
Alignment explanation
Indices: 76210--76312 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
76200 GTTCATTAGT
* *
76210 ATATATAACCTATATAGTATATGGC
1 ATATACAAACTATATAGTATATGGC
*
76235 ATATACAAACTATATATTATATAGTGC
1 ATATACAAACTATATAGTATAT-G-GC
* *
76262 ATTAGTATATATAACCTATATAGTATATGGT
1 ---A-TATACA-AA-CTATATAGTATATGGC
76293 ATATACAAACTATATA-TATA
1 ATATACAAACTATATAGTATA
76313 GTTCATTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
24 4 0.06
25 26 0.41
26 3 0.05
27 7 0.11
28 1 0.02
30 1 0.02
31 6 0.10
32 3 0.05
33 12 0.19
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (25 bp):
ATATACAAACTATATAGTATATGGC
Found at i:76252 original size:58 final size:58
Alignment explanation
Indices: 76183--76336 Score: 237
Period size: 58 Copynumber: 2.7 Consensus size: 58
76173 TAGTATATGT
*
76183 AAACTACATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGGCATATAC
1 AAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGGCATATAC
* *
76241 AAACTATATATTATATAGTGCATTAGTATATATAACCTATATAGTATATGGTATATAC
1 AAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGGCATATAC
*
76299 AAAC--TATA-TATATAGTTCATTA--ATATATAAACTATATA
1 AAACTATATATTATATAGTTCATTAGTATATATAACCTATATA
76337 TTGAAAAGTT
Statistics
Matches: 91, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
53 15 0.16
55 13 0.14
56 4 0.04
58 59 0.65
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.39
Consensus pattern (58 bp):
AAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGGCATATAC
Found at i:76325 original size:109 final size:110
Alignment explanation
Indices: 76116--76336 Score: 279
Period size: 111 Copynumber: 2.0 Consensus size: 110
76106 ATATATAAAC
* * * *
76116 TATATGGTATATATAAACTATACATTATATATATTTCATAAGTATATATAAACTATATAGTATAT
1 TATATGGCATATACAAACTATACATTATATATAGTGCATAAGTATATATAAACTATATAGTATAT
*
76181 GTAAACTACATATTATATAGTTCATTAGTATATATAACCTATATAG
66 GTAAACAACATATTATATAGTTCATTA-TATATATAACCTATATAG
* * *
76227 TATATGGCATATACAAACTATATA-T-TATATAGTGCATTAGTATATATAACCTATATAGTATAT
1 TATATGGCATATACAAACTATACATTATATATAGTGCATAAGTATATATAAACTATATAGTATAT
*
76290 GGTATATACAA-ACTATATATATAGTTCATTA-ATATATAAACTATATA
66 -GTA-A-ACAACA-TAT-TATATAGTTCATTATATATATAACCTATATA
76337 TTGAAAAGTT
Statistics
Matches: 96, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
109 34 0.35
110 4 0.04
111 38 0.40
112 6 0.06
113 14 0.15
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (110 bp):
TATATGGCATATACAAACTATACATTATATATAGTGCATAAGTATATATAAACTATATAGTATAT
GTAAACAACATATTATATAGTTCATTATATATATAACCTATATAG
Found at i:76330 original size:28 final size:30
Alignment explanation
Indices: 76293--76369 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 30
76283 AGTATATGGT
* *
76293 ATATACAAACTATATAT-ATAGTTCATTA-
1 ATATATAAACTATATATAAAAGTTCATTAG
76321 ATATATAAACTATATATTGAAAAGTTCATTAG
1 ATATATAAACTATATA-T-AAAAGTTCATTAG
*
76353 ATATATAACCTATATAT
1 ATATATAAACTATATAT
76370 TAATTTACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 15 0.36
29 1 0.02
31 11 0.26
32 15 0.36
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (30 bp):
ATATATAAACTATATATAAAAGTTCATTAG
Found at i:76968 original size:113 final size:113
Alignment explanation
Indices: 76771--77004 Score: 368
Period size: 113 Copynumber: 2.1 Consensus size: 113
76761 AATTTATCTG
*
76771 TGTTCTTCATTTGTTCATCCCAGTTCATCCTCAAACCATCATTTGATCTTCAAAAACACAAAAAC
1 TGTTCTTCATTTGTTCATCCCAGTTCATCCCCAAACCATCATTTGATCTTCAAAAACACAAAAAC
76836 CCAAACAATTTCGTG-TTTTTTCGATCAAACACCCA-AATATTCATCCA
66 CCAAACAATTTCGTGTTTTTTTCGATCAAACACCCACAA-ATTCATCCA
* * * *
76883 TGTTCTTCATTTGTTCATCCCAGTTCTTCCCCAAAACCTTTATTTGATCTTCAAAAACACCAAAA
1 TGTTCTTCATTTGTTCATCCCAGTTCATCCCC-AAACCATCATTTGATCTTCAAAAACACAAAAA
*
76948 CCCAAACCATTTCGTGTTTTTTTCGATCAAACACCCACAAATTCATCCA
65 CCCAAACAATTTCGTGTTTTTTTCGATCAAACACCCACAAATTCATCCA
76997 T-TT-TTCAT
1 TGTTCTTCAT
77005 ATGTGTTCTT
Statistics
Matches: 113, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
112 35 0.31
113 46 0.41
114 30 0.27
115 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (113 bp):
TGTTCTTCATTTGTTCATCCCAGTTCATCCCCAAACCATCATTTGATCTTCAAAAACACAAAAAC
CCAAACAATTTCGTGTTTTTTTCGATCAAACACCCACAAATTCATCCA
Found at i:77181 original size:29 final size:29
Alignment explanation
Indices: 77113--77175 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
77103 CTTAACCCTT
* *
77113 AACCCTAACCCTAAACCTAAACCAAACCCG
1 AACCC-AAACCTAAACCCAAACCAAACCCG
* *
77143 ATCCCAAACCTAAACCCAAATCAAACCCG
1 AACCCAAACCTAAACCCAAACCAAACCCG
77172 AACC
1 AACC
77176 TGAACCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.44, C:0.43, G:0.03, T:0.10
Consensus pattern (29 bp):
AACCCAAACCTAAACCCAAACCAAACCCG
Found at i:77186 original size:29 final size:29
Alignment explanation
Indices: 77113--77186 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
77103 CTTAACCCTT
* *
77113 AACCCTAACCCTAAACCTAAACCAAACCCG
1 AACCCAAACCC-AAACCCAAACCAAACCCG
* * *
77143 ATCCCAAACCTAAACCCAAATCAAACCCG
1 AACCCAAACCCAAACCCAAACCAAACCCG
**
77172 AACCTGAACCCAAAC
1 AACCCAAACCCAAAC
77187 TATTCGAAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 27 0.77
30 8 0.23
ACGTcount: A:0.45, C:0.42, G:0.04, T:0.09
Consensus pattern (29 bp):
AACCCAAACCCAAACCCAAACCAAACCCG
Found at i:77511 original size:61 final size:62
Alignment explanation
Indices: 77423--77641 Score: 309
Period size: 64 Copynumber: 3.5 Consensus size: 62
77413 TACATACTGG
*
77423 TTTATTGTTGTTGATGTAAATGATATACTGTCAGAAGCA-TAATGTAAACTAACCCTGGTTT
1 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTAATGTAAACTAACCCTGGTTT
* *
77484 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTCACGTAAACTAACCCTGGTTTT
1 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCA-TTAATGTAAACTAACCCTGG-TTT
* *
77548 TTTATTGCTGTTGATGTAAATGATATACTTTCAGAAGCATTTAATGTAAACTAACCATGG-TT
1 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCA-TTAATGTAAACTAACCCTGGTTT
* **
77610 TTT-TTGCAAGGGGATGTAAATGATATACTGTC
1 TTTATTGC-TGTTGATGTAAATGATATACTGTC
77642 CGAAATAATT
Statistics
Matches: 143, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
61 42 0.29
62 25 0.17
63 17 0.12
64 59 0.41
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (62 bp):
TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTAATGTAAACTAACCCTGGTTT
Found at i:77576 original size:64 final size:64
Alignment explanation
Indices: 77423--77614 Score: 318
Period size: 64 Copynumber: 3.0 Consensus size: 64
77413 TACATACTGG
*
77423 TTTATTGTTGTTGATGTAAATGATATACTGTCAGAAGCA--TAATGTAAACTAACCCTGG-TTT
1 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTTT
* *
77484 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTCACGTAAACTAACCCTGGTTTT
1 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTTT
* *
77548 TTTATTGCTGTTGATGTAAATGATATACTTTCAGAAGCATTTAATGTAAACTAACCATGGTTTT
1 TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTTT
77612 TTT
1 TTT
77615 GCAAGGGGAT
Statistics
Matches: 121, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
61 38 0.31
63 17 0.14
64 66 0.55
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (64 bp):
TTTATTGCTGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTTT
Found at i:78807 original size:17 final size:17
Alignment explanation
Indices: 78785--78819 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
78775 ACTCTGTTCT
78785 ATGGTTCTAAGTATCTC
1 ATGGTTCTAAGTATCTC
78802 ATGGTTCTAAGTATCTC
1 ATGGTTCTAAGTATCTC
78819 A
1 A
78820 CTTCTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (17 bp):
ATGGTTCTAAGTATCTC
Found at i:78826 original size:15 final size:16
Alignment explanation
Indices: 78789--78826 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
78779 TGTTCTATGG
*
78789 TTCTAAGTATCTCATGG
1 TTCTAAGTATCTCA-GC
78806 TTCTAAGTATCTCA-C
1 TTCTAAGTATCTCAGC
78821 TTCTAA
1 TTCTAA
78827 CTTGTATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
17 14 0.70
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (16 bp):
TTCTAAGTATCTCAGC
Found at i:80852 original size:11 final size:11
Alignment explanation
Indices: 80836--80860 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
80826 ATTAATTTAA
80836 TTATTATAAAT
1 TTATTATAAAT
80847 TTATTATAAAT
1 TTATTATAAAT
80858 TTA
1 TTA
80861 AAATAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTATTATAAAT
Found at i:83413 original size:189 final size:189
Alignment explanation
Indices: 83093--83449 Score: 651
Period size: 189 Copynumber: 1.9 Consensus size: 189
83083 TTATTTTTTT
*
83093 AAATGACCATCCAACTCAGTTGGTAGAGCACAAGGTTCTTAACCTTGAGGTCGTGGGATCGAGTT
1 AAATGACCATCCAACTCAGTTGGTAGAGCACAAGGTTCTTAACCTTGAGGTCGTGGGATCGAGTC
* *
83158 CTACGGAGGGCATTTCATAATTCGGAGGTCTCTTACGGAAGCTGTTCTCAACCTGGTGTTGGGGG
66 CCACGGAGGGCATTTCATAATTCGGAGGTCTCTTACGGAAGCTGATCTCAACCTGGTGTTGGGGG
83223 TAGCCTACTATCTTACCTCCCCCTTACCCCATATATATGGGAAAAAGGGACAACCATTG
131 TAGCCTACTATCTTACCTCCCCCTTACCCCATATATATGGGAAAAAGGGACAACCATTG
* * *
83282 AAATGACCATCCAGCTTAGTTGGTAGAGCACAAGGTTCTTAACCTTGAGGTCGTGGGATTGAGTC
1 AAATGACCATCCAACTCAGTTGGTAGAGCACAAGGTTCTTAACCTTGAGGTCGTGGGATCGAGTC
*
83347 CCACGGAGGGTATTTCATAATTCGGAGGTCTCTTACGGAAGCTGATCTCAACCTGGTGTTGGGGG
66 CCACGGAGGGCATTTCATAATTCGGAGGTCTCTTACGGAAGCTGATCTCAACCTGGTGTTGGGGG
83412 TAGCCTACTATCTTACCTCCCCCTTACCCCATATATAT
131 TAGCCTACTATCTTACCTCCCCCTTACCCCATATATAT
83450 ATATATATGG
Statistics
Matches: 161, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
189 161 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (189 bp):
AAATGACCATCCAACTCAGTTGGTAGAGCACAAGGTTCTTAACCTTGAGGTCGTGGGATCGAGTC
CCACGGAGGGCATTTCATAATTCGGAGGTCTCTTACGGAAGCTGATCTCAACCTGGTGTTGGGGG
TAGCCTACTATCTTACCTCCCCCTTACCCCATATATATGGGAAAAAGGGACAACCATTG
Found at i:85522 original size:2 final size:2
Alignment explanation
Indices: 85515--85562 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
85505 TTCCTCTTTC
85515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85557 AT AT AT
1 AT AT AT
85563 TAGGTTACTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85590 original size:21 final size:21
Alignment explanation
Indices: 85564--85606 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
85554 TATATATATT
*
85564 AGGTTACTATCTTTTAGGTGC
1 AGGTTACTAGCTTTTAGGTGC
*
85585 AGGTTAGTAGCTTTTAGGTGC
1 AGGTTACTAGCTTTTAGGTGC
85606 A
1 A
85607 TGTGAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.40
Consensus pattern (21 bp):
AGGTTACTAGCTTTTAGGTGC
Found at i:88387 original size:16 final size:17
Alignment explanation
Indices: 88366--88401 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
88356 TTAACGTTAT
88366 TTTAAAATTAAATT-AA
1 TTTAAAATTAAATTGAA
*
88382 TTTAAATTTAAATTGAA
1 TTTAAAATTAAATTGAA
88399 TTT
1 TTT
88402 TTCTCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAAAATTAAATTGAA
Found at i:88890 original size:20 final size:20
Alignment explanation
Indices: 88851--88895 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
88841 TTGTTTTTAA
*
88851 TAAATTTTTATCTATGAAAT
1 TAAATTTTTATCTATAAAAT
* *
88871 TAAATTTTTATTTTTAAAAT
1 TAAATTTTTATCTATAAAAT
*
88891 AAAAT
1 TAAAT
88896 GTTAAAAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TAAATTTTTATCTATAAAAT
Found at i:89197 original size:35 final size:33
Alignment explanation
Indices: 89155--89237 Score: 157
Period size: 33 Copynumber: 2.5 Consensus size: 33
89145 GCCCTGATTA
*
89155 TATATATATAATATTTTATTTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTATATTAAT
89188 TATATATATAATATTTTATATTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTATATTAAT
89221 TATATATATAATATTTT
1 TATATATATAATATTTT
89238 CGGGTTCAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (33 bp):
TATATATATAATATTTTATATTTTTATATTAAT
Found at i:96082 original size:21 final size:21
Alignment explanation
Indices: 96056--96095 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
96046 GTAATTTCCA
*
96056 GAAAAATGATCGATCCCTTTT
1 GAAAAATGATCAATCCCTTTT
96077 GAAAAATGATCAATCCCTT
1 GAAAAATGATCAATCCCTT
96096 GGAAAAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (21 bp):
GAAAAATGATCAATCCCTTTT
Found at i:96100 original size:20 final size:21
Alignment explanation
Indices: 96056--96101 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
96046 GTAATTTCCA
* *
96056 GAAAAATGATCGATCCCTTTT
1 GAAAAATGATCAATCCCTTTG
96077 GAAAAATGATCAATCCC-TTG
1 GAAAAATGATCAATCCCTTTG
96097 GAAAA
1 GAAAA
96102 GAGATATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (21 bp):
GAAAAATGATCAATCCCTTTG
Found at i:96121 original size:20 final size:20
Alignment explanation
Indices: 96057--96121 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
96047 TAATTTCCAG
*
96057 AAAAATGATCGATCCCTTTT
1 AAAAATGATCAATCCCTTTT
**
96077 GAAAAATGATCAATCCCTTGG
1 -AAAAATGATCAATCCCTTTT
96098 AAAAGA-GAT-ATATCCCTTTT
1 AAAA-ATGATCA-ATCCCTTTT
96118 AAAA
1 AAAA
96122 CATTTCATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 18 0.49
21 18 0.49
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (20 bp):
AAAAATGATCAATCCCTTTT
Found at i:96458 original size:140 final size:138
Alignment explanation
Indices: 96201--96477 Score: 518
Period size: 140 Copynumber: 2.0 Consensus size: 138
96191 AGAAAATGGT
96201 GTAAAATTGATTCTTTAAAGGTCCTATGTATCCTAAGTCTAGTTGACACATGTATGTTTATCTGA
1 GTAAAATTGATTCTTTAAAGGTCCTATGTATCCTAAGTCTAGTTGACACATGTATGTTTATCTGA
*
96266 GTTCAAAATGGTCCTAGAAATAAATTGTTAATAATACTTCTCTTTAATCAAAATTTGACAAGATT
66 GTTCAAAATGGTCCTAGAAATAAATTGTTAATAATACTTATCTTTAATCAAAATTTGACAAGATT
96331 CAATATTG
131 CAATATTG
*
96339 GTAAAATTTGATTCTTTAAAGGTCCTATGTATCCTAAGTCTTGTTTGACACATGTATGTTTATCT
1 GTAAAA-TTGATTCTTTAAAGGTCCTATGTATCCTAAGTCTAG-TTGACACATGTATGTTTATCT
96404 GAGTTCAAAATGGTCCTAGAAATAAATTGTTAATAATACTTATCTTTAATCAAAATTTGACAAGA
64 GAGTTCAAAATGGTCCTAGAAATAAATTGTTAATAATACTTATCTTTAATCAAAATTTGACAAGA
96469 TTCAATATT
129 TTCAATATT
96478 TCACCCCTAA
Statistics
Matches: 135, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
138 6 0.04
139 35 0.26
140 94 0.70
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (138 bp):
GTAAAATTGATTCTTTAAAGGTCCTATGTATCCTAAGTCTAGTTGACACATGTATGTTTATCTGA
GTTCAAAATGGTCCTAGAAATAAATTGTTAATAATACTTATCTTTAATCAAAATTTGACAAGATT
CAATATTG
Found at i:101588 original size:18 final size:19
Alignment explanation
Indices: 101561--101616 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 19
101551 ATATTTTCCT
101561 ACAATTGGTATCTTTTT-A
1 ACAATTGGTATCTTTTTAA
*
101579 ACAGTTGGTATCCTTTTGTAA
1 ACAATTGGTAT-CTTTT-TAA
*
101600 ACAATTGGTATATTTTT
1 ACAATTGGTATCTTTTT
101617 CATTAAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 10 0.31
19 6 0.19
20 5 0.16
21 11 0.34
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (19 bp):
ACAATTGGTATCTTTTTAA
Found at i:102038 original size:21 final size:20
Alignment explanation
Indices: 102021--102072 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 20
102011 AATAAAGGAA
102021 GTATCGATACCTATAAAGGG
1 GTATCGATACCTATAAAGGG
102041 GTA-CTGATACTCTATAAAGGG
1 GTATC-GATAC-CTATAAAGGG
102062 GTATCGATACC
1 GTATCGATACC
102073 CCCTGGTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.03
20 9 0.31
21 18 0.62
22 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (20 bp):
GTATCGATACCTATAAAGGG
Found at i:102494 original size:19 final size:18
Alignment explanation
Indices: 102467--102513 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
102457 AAACATTTTC
*
102467 ATATATTTTCCAACAATTG
1 ATATCTTTT-CAACAATTG
*
102486 ATATCTTTTTAACAATTG
1 ATATCTTTTCAACAATTG
102504 ATATCCTTTT
1 ATAT-CTTTT
102514 GTAAACAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.32, C:0.15, G:0.04, T:0.49
Consensus pattern (18 bp):
ATATCTTTTCAACAATTG
Found at i:102501 original size:18 final size:19
Alignment explanation
Indices: 102478--102534 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
102468 TATATTTTCC
102478 AACAATTGATATCTTTTT-
1 AACAATTGATATCTTTTTA
102496 AACAATTGATATCCTTTTGTA
1 AACAATTGATAT-CTTTT-TA
* *
102517 AACAATTGGTATATTTTT
1 AACAATTGATATCTTTTT
102535 CATTAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 12 0.35
19 6 0.18
20 5 0.15
21 11 0.32
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (19 bp):
AACAATTGATATCTTTTTA
Found at i:107287 original size:39 final size:39
Alignment explanation
Indices: 107238--107319 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
107228 AGAGAGTTAA
107238 AAGAAAGGAAAATAAAATTACCCTGAAGAGCAGAGGAAG
1 AAGAAAGGAAAATAAAATTACCCTGAAGAGCAGAGGAAG
*
107277 AAGAAAGGAAAATAAAATTACCCTGAAGAGCAGAGGGAG
1 AAGAAAGGAAAATAAAATTACCCTGAAGAGCAGAGGAAG
107316 AAGA
1 AAGA
107320 GGATATCCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.54, C:0.10, G:0.27, T:0.10
Consensus pattern (39 bp):
AAGAAAGGAAAATAAAATTACCCTGAAGAGCAGAGGAAG
Found at i:110314 original size:2 final size:2
Alignment explanation
Indices: 110307--110350 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
110297 ACATTGTTTC
110307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
110350 A
1 A
110351 GTTCTGGTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110610 original size:21 final size:21
Alignment explanation
Indices: 110581--110620 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
110571 TATACAAATT
* *
110581 TAACTAAATCGTCTAACTAAC
1 TAACAAAATCATCTAACTAAC
110602 TAACAAAATCATCTAACTA
1 TAACAAAATCATCTAACTA
110621 TTAATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (21 bp):
TAACAAAATCATCTAACTAAC
Found at i:111514 original size:23 final size:23
Alignment explanation
Indices: 111488--111534 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
111478 GCCAAAAGGA
111488 AAAGAAAAA-CGTGCCATAAAGAC
1 AAAGAAAAATC-TGCCATAAAGAC
*
111511 AAAGAAAAATCTGTCATAAAGAC
1 AAAGAAAAATCTGCCATAAAGAC
111534 A
1 A
111535 TAGTTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.13
Consensus pattern (23 bp):
AAAGAAAAATCTGCCATAAAGAC
Found at i:113379 original size:14 final size:14
Alignment explanation
Indices: 113360--113387 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
113350 GTCTTTTCTT
113360 GAGTACTTCATTTG
1 GAGTACTTCATTTG
113374 GAGTACTTCATTTG
1 GAGTACTTCATTTG
113388 AAGTCCCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
GAGTACTTCATTTG
Found at i:113863 original size:16 final size:16
Alignment explanation
Indices: 113834--113867 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
113824 AATTAGTTTT
113834 AAAATATATATTTTAA
1 AAAATATATATTTTAA
* *
113850 AAAATTTATTTTTTAA
1 AAAATATATATTTTAA
113866 AA
1 AA
113868 TATTCAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATATATATTTTAA
Found at i:113867 original size:14 final size:16
Alignment explanation
Indices: 113830--113870 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
113820 AATCAATTAG
113830 TTTTAAAATATATA--
1 TTTTAAAATATATATT
* *
113844 TTTTAAAAAATTTATT
1 TTTTAAAATATATATT
113860 TTTTAAAATAT
1 TTTTAAAATAT
113871 TCAGAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
16 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTAAAATATATATT
Found at i:115072 original size:19 final size:19
Alignment explanation
Indices: 115050--115087 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
115040 TTTTATATTT
115050 TTATTTATAATTTTTTTTA
1 TTATTTATAATTTTTTTTA
*
115069 TTATTTGTAATTTTTTTTA
1 TTATTTATAATTTTTTTTA
115088 ATTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (19 bp):
TTATTTATAATTTTTTTTA
Found at i:115094 original size:15 final size:16
Alignment explanation
Indices: 115047--115097 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 16
115037 AAATTTTATA
*
115047 TTTTTATTTATAATTT
1 TTTTTAATTATAATTT
*
115063 TTTTTATTATTTGTAATTT
1 TTTTTA--A-TTATAATTT
115082 TTTTTAATT-TAATTT
1 TTTTTAATTATAATTT
115097 T
1 T
115098 GTCTTAATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 7 0.23
16 8 0.27
17 1 0.03
19 14 0.47
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTTAATTATAATTT
Found at i:117596 original size:30 final size:30
Alignment explanation
Indices: 117562--117657 Score: 183
Period size: 30 Copynumber: 3.2 Consensus size: 30
117552 AATATGAAAT
117562 ATTTTAGTTTATTTGTACATATAAATTTTA
1 ATTTTAGTTTATTTGTACATATAAATTTTA
117592 ATTTTAGTTTATTTGTACATATAAATTTTA
1 ATTTTAGTTTATTTGTACATATAAATTTTA
*
117622 ATTTTAGTTTATTTGTACACATAAATTTTA
1 ATTTTAGTTTATTTGTACATATAAATTTTA
117652 ATTTTA
1 ATTTTA
117658 ATACAATTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (30 bp):
ATTTTAGTTTATTTGTACATATAAATTTTA
Found at i:117674 original size:30 final size:30
Alignment explanation
Indices: 117572--117674 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
117562 ATTTTAGTTT
* * **
117572 ATTTGTACATATAAATTTTAATTTTAGTTT
1 ATTTGTACACATAAATTTTAATTTTAATCA
* * **
117602 ATTTGTACATATAAATTTTAATTTTAGTTT
1 ATTTGTACACATAAATTTTAATTTTAATCA
117632 ATTTGTACACATAAATTTTAATTTTAATACA
1 ATTTGTACACATAAATTTTAATTTTAAT-CA
*
117663 ATTT-TATACATA
1 ATTTGTACACATA
117675 TAAAAAAAGT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
30 63 0.94
31 4 0.06
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (30 bp):
ATTTGTACACATAAATTTTAATTTTAATCA
Found at i:126091 original size:20 final size:20
Alignment explanation
Indices: 126066--126107 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
126056 CTGGGCTAAC
126066 CCGAAAGGGTTTTAGACAAA
1 CCGAAAGGGTTTTAGACAAA
126086 CCGAAAGGGTTTTAGACAAA
1 CCGAAAGGGTTTTAGACAAA
126106 CC
1 CC
126108 TAATAGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (20 bp):
CCGAAAGGGTTTTAGACAAA
Found at i:128505 original size:20 final size:20
Alignment explanation
Indices: 128467--128511 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
128457 TTTTCAAGTT
*
128467 GAGTTGAGTTTATAGAATTG
1 GAGTTGAGTTGATAGAATTG
*
128487 GAGTTGAGTTGAGTA-AATTT
1 GAGTTGAGTTGA-TAGAATTG
128507 GAGTT
1 GAGTT
128512 ATTCAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (20 bp):
GAGTTGAGTTGATAGAATTG
Found at i:128627 original size:2 final size:2
Alignment explanation
Indices: 128622--128695 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
128612 ACACACACAC
128622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128696 CATGCATAGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:133609 original size:20 final size:20
Alignment explanation
Indices: 133571--133615 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
133561 TTTTCAAGTT
*
133571 GAGTTGAGTTTATAGAATTG
1 GAGTTGAGTTGATAGAATTG
*
133591 GAGTTGAGTTGAGTA-AATTT
1 GAGTTGAGTTGA-TAGAATTG
133611 GAGTT
1 GAGTT
133616 ATTCAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (20 bp):
GAGTTGAGTTGATAGAATTG
Found at i:133752 original size:2 final size:2
Alignment explanation
Indices: 133712--133739 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
133702 TAAACAATAC
133712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
133740 GGTATACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:139090 original size:13 final size:13
Alignment explanation
Indices: 139072--139108 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
139062 ATGTTGATAA
*
139072 GTTCATTGTTTTC
1 GTTCATTGTCTTC
139085 GTTCATTGTCTTC
1 GTTCATTGTCTTC
*
139098 ATTCATTGTCT
1 GTTCATTGTCT
139109 AAGATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.11, C:0.19, G:0.14, T:0.57
Consensus pattern (13 bp):
GTTCATTGTCTTC
Found at i:140144 original size:32 final size:31
Alignment explanation
Indices: 140085--140144 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
140075 ATAATATTAT
* * *
140085 AATAATCTTTTATATATGTAAAGATATTTAC
1 AATAATCTATTATATATATAAACATATTTAC
*
140116 AATAATACTATTATATATATATACATATT
1 AATAAT-CTATTATATATATAAACATATT
140145 CAATTAGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 6 0.25
32 18 0.75
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (31 bp):
AATAATCTATTATATATATAAACATATTTAC
Found at i:140184 original size:2 final size:2
Alignment explanation
Indices: 140177--140205 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
140167 AATAAAAATG
140177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
140206 GATAGAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:143628 original size:14 final size:14
Alignment explanation
Indices: 143609--143637 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
143599 AAATGTGGGG
143609 TTGAAGATTGCTAT
1 TTGAAGATTGCTAT
143623 TTGAAGATTGCTAT
1 TTGAAGATTGCTAT
143637 T
1 T
143638 AAATACTATT
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:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (14 bp):
TTGAAGATTGCTAT
Found at i:152812 original size:31 final size:31
Alignment explanation
Indices: 152777--152896 Score: 116
Period size: 31 Copynumber: 3.9 Consensus size: 31
152767 TAATGCGACC
** *
152777 CTTGGGTAGGCTCTACGGCCCCGAGATCTTT
1 CTTGGGTAGGCTCTGTGGCCCCAAGATCTTT
*
152808 CTTGGGTAGGC-CTGTTGCCCCAAGATCTTTT
1 CTTGGGTAGGCTCTGTGGCCCCAAGATC-TTT
* * * * *
152839 ATTGGGTAGCCCCCGTGGCCCCAAGAACTTT
1 CTTGGGTAGGCTCTGTGGCCCCAAGATCTTT
* **
152870 CTTGGGTAGGCTTTCAGGCCCCAAGAT
1 CTTGGGTAGGCTCTGTGGCCCCAAGAT
152897 GCTCCCTTAG
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
30 12 0.17
31 45 0.64
32 13 0.19
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGTGGCCCCAAGATCTTT
Found at i:154452 original size:22 final size:22
Alignment explanation
Indices: 154424--154465 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
154414 CCTATTTACA
154424 AACCGGA-CCTAAACCAAACCCG
1 AACCGGATCC-AAACCAAACCCG
*
154446 AACCGGATCCAAACTAAACC
1 AACCGGATCCAAACCAAACC
154466 TAATTGTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.43, C:0.38, G:0.12, T:0.07
Consensus pattern (22 bp):
AACCGGATCCAAACCAAACCCG
Found at i:155230 original size:14 final size:14
Alignment explanation
Indices: 155206--155257 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
155196 TATATCATCA
*
155206 TAAACCCTAAATCT
1 TAAAGCCTAAATCT
* *
155220 TAAAGCTTAAATCC
1 TAAAGCCTAAATCT
*
155234 TAAATCCTAAATC-
1 TAAAGCCTAAATCT
155247 T-AAGCCTAAAT
1 TAAAGCCTAAAT
155258 TCTAAACCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 9 0.28
13 1 0.03
14 22 0.69
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.29
Consensus pattern (14 bp):
TAAAGCCTAAATCT
Found at i:155262 original size:26 final size:28
Alignment explanation
Indices: 155206--155269 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 28
155196 TATATCATCA
*
155206 TAAACCCTAAATCTTAAAGCTTAAATCC
1 TAAACCCTAAATCTTAAAGCCTAAATCC
* *
155234 TAAATCCTAAATC-T-AAGCCTAAATTC
1 TAAACCCTAAATCTTAAAGCCTAAATCC
155260 TAAACCCTAA
1 TAAACCCTAA
155270 TTTAAAACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 19 0.59
27 1 0.03
28 12 0.38
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAAGCCTAAATCC
Found at i:156190 original size:23 final size:24
Alignment explanation
Indices: 156164--156213 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
156154 TTATTTATTA
156164 TTCGCAAATATGTTCGTTTA-ATG
1 TTCGCAAATATGTTCGTTTATATG
** *
156187 TTCGTGAATGTGTTCGTTTATATG
1 TTCGCAAATATGTTCGTTTATATG
156211 TTC
1 TTC
156214 ATGAACGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (24 bp):
TTCGCAAATATGTTCGTTTATATG
Found at i:156212 original size:12 final size:12
Alignment explanation
Indices: 156171--156213 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
156161 TTATTCGCAA
156171 ATATGTTCGTTT
1 ATATGTTCGTTT
**
156183 A-ATGTTCGTGA
1 ATATGTTCGTTT
*
156194 ATGTGTTCGTTT
1 ATATGTTCGTTT
156206 ATATGTTC
1 ATATGTTC
156214 ATGAACGTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.19, C:0.09, G:0.21, T:0.51
Consensus pattern (12 bp):
ATATGTTCGTTT
Found at i:156218 original size:24 final size:23
Alignment explanation
Indices: 156174--156225 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
156164 TTCGCAAATA
* *
156174 TGTTCGTTTAATGTTCGTGAATG
1 TGTTCGTTTAATGTTCATGAACG
156197 TGTTCGTTTATATGTTCATGAACG
1 TGTTCGTTTA-ATGTTCATGAACG
156221 TGTTC
1 TGTTC
156226 ATGAACATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.17, C:0.12, G:0.23, T:0.48
Consensus pattern (23 bp):
TGTTCGTTTAATGTTCATGAACG
Found at i:156261 original size:22 final size:22
Alignment explanation
Indices: 156236--156280 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
156226 ATGAACATGC
*
156236 TCATTTTGCGTT-ATTTTAGTGT
1 TCATTTAGCGTTCA-TTTAGTGT
*
156258 TCATTTAGTGTTCATTTAGTGT
1 TCATTTAGCGTTCATTTAGTGT
156280 T
1 T
156281 GTTTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.16, C:0.09, G:0.18, T:0.58
Consensus pattern (22 bp):
TCATTTAGCGTTCATTTAGTGT
Found at i:156266 original size:11 final size:11
Alignment explanation
Indices: 156250--156280 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
156240 TTTGCGTTAT
156250 TTTAGTGTTCA
1 TTTAGTGTTCA
156261 TTTAGTGTTCA
1 TTTAGTGTTCA
156272 TTTAGTGTT
1 TTTAGTGTT
156281 GTTTATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.06, G:0.19, T:0.58
Consensus pattern (11 bp):
TTTAGTGTTCA
Found at i:162921 original size:22 final size:22
Alignment explanation
Indices: 162893--162946 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
162883 AAGACGTTGG
162893 ACAAGATAATTAAACAAAAGTA
1 ACAAGATAATTAAACAAAAGTA
*
162915 ACAAGATAATTAAACAAAAGTG
1 ACAAGATAATTAAACAAAAGTA
162937 ACAAGATAAT
1 ACAAGATAAT
162947 CCAATAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
ACAAGATAATTAAACAAAAGTA
Found at i:167169 original size:26 final size:26
Alignment explanation
Indices: 167131--167190 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
167121 GAAATTCTAG
*
167131 AACT-ACTGTATCGGAATGTACACCC
1 AACTAACTTTATCGGAATGTACACCC
167156 AACTAACTTTATCGGAATGTACACCC
1 AACTAACTTTATCGGAATGTACACCC
167182 AACTAACTT
1 AACTAACTT
167191 ACTCCTCACG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 4 0.12
26 29 0.88
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (26 bp):
AACTAACTTTATCGGAATGTACACCC
Found at i:169079 original size:40 final size:40
Alignment explanation
Indices: 169033--169136 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 40
169023 AGATTACATA
*
169033 TATATATATATATGTTATTTTTTATTATCTGTTTT-ATTAAT
1 TATATATATATATATTATTTTTTATTATCT-TTTTAATT-AT
* *
169074 T-TATATATATATATTTACTTTTT-TTATGTTTTTAATTAT
1 TATATATATATATA-TTATTTTTTATTATCTTTTTAATTAT
169113 TATATATATATATATTATTTTTTA
1 TATATATATATATATTATTTTTTA
169137 CTTTTTTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
39 15 0.27
40 31 0.56
41 9 0.16
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (40 bp):
TATATATATATATATTATTTTTTATTATCTTTTTAATTAT
Found at i:169104 original size:38 final size:39
Alignment explanation
Indices: 169033--169150 Score: 122
Period size: 40 Copynumber: 3.0 Consensus size: 39
169023 AGATTACATA
*
169033 TATATATATATATGTTATTTTTTATTATCTG-TTTT-ATTAAT
1 TATATATATATATATTA-TTTTT-TTA-CTGTTTTTAATT-AT
169074 T-TATATATATATATTTACTTTTTTTA-TGTTTTTAATTAT
1 TATATATATATATA-TTA-TTTTTTTACTGTTTTTAATTAT
*
169113 TATATATATATATATTA-TTTTTTACT-TTTTTTATTAT
1 TATATATATATATATTATTTTTTTACTGTTTTTAATTAT
169150 T
1 T
169151 TTATTTATTT
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
37 18 0.26
38 3 0.04
39 10 0.14
40 29 0.42
41 9 0.13
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (39 bp):
TATATATATATATATTATTTTTTTACTGTTTTTAATTAT
Found at i:169125 original size:46 final size:43
Alignment explanation
Indices: 169011--169155 Score: 131
Period size: 46 Copynumber: 3.3 Consensus size: 43
169001 TTAGTATATA
* * *
169011 TTTTTATTTTTTA-GATTACATATATATATATATAT-GTTATTT
1 TTTTTATTTTTTATTATTA-ATATATATATATATATATTTACTT
* *
169053 TTTATTATCTGTT-TTATTAAT-T-TATATATATATATTTACTT
1 TTT-TTATTTTTTATTATTAATATATATATATATATATTTACTT
*
169094 TTTTTATGTTTTTAATTATT-ATATATATATATATTATTTTTTACTT
1 TTTTTAT-TTTTT-ATTATTAATATATATATATA-TA-TATTTACTT
169140 TTTTTATTATTTTATT
1 TTTTTATT-TTTTATT
169156 TATTTGTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 19
0.76 0.07 0.17
Matches are distributed among these distances:
40 15 0.18
41 12 0.14
42 7 0.08
43 17 0.20
44 8 0.10
45 6 0.07
46 19 0.23
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (43 bp):
TTTTTATTTTTTATTATTAATATATATATATATATATTTACTT
Found at i:169159 original size:4 final size:4
Alignment explanation
Indices: 169065--169306 Score: 54
Period size: 4 Copynumber: 58.8 Consensus size: 4
169055 TATTATCTGT
* * * *
169065 TTTA TTAA TTTA TATATA TATA TTTA CTTTT TTTA TGTT- TTTA ATTA
1 TTTA TTTA TTTA T-T-TA TTTA TTTA -TTTA TTTA T-TTA TTTA TTTA
* * *
169112 TTATA TATA TATA TATTA TTT- TTTA CTTTT TTTA -TTA TTTTA TTTA
1 TT-TA TTTA TTTA T-TTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA
* * * * * * *
169158 TTTGT TTTA TTTA TATA TTTT TCTTC TTCTT TTTC TTTA TTT- TTTA TATTT
1 TTT-A TTTA TTTA TTTA TTTA T-TTA TT-TA TTTA TTTA TTTA TTTA T-TTA
** * **
169209 TTTA CATA TTT- TTTA TTTA TTGT- TTTA TCT- TTGC TTTA TTTA TCTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA T-TTA
* * * *
169256 TCT- TTTA TTTA ATT- TTT- TTTC TTCA TTTTAA TTTAA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTT-A TTT-A TTTA TTTA TTTA
169304 TTT
1 TTT
169307 CTTACTTTTT
Statistics
Matches: 174, Mismatches: 39, Indels: 50
0.66 0.15 0.19
Matches are distributed among these distances:
3 23 0.13
4 102 0.59
5 45 0.26
6 4 0.02
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:172387 original size:13 final size:13
Alignment explanation
Indices: 172371--172408 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
172361 AGAAAAAAGC
172371 AAAGAGAAAATAA
1 AAAGAGAAAATAA
172384 AAAGAGAAAA-AA
1 AAAGAGAAAATAA
* *
172396 CAAGAAAAAATAA
1 AAAGAGAAAATAA
172409 GATACACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (13 bp):
AAAGAGAAAATAA
Found at i:172400 original size:25 final size:27
Alignment explanation
Indices: 172359--172408 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
172349 AAGAACAAAT
*
172359 AGAGAAAAAAGCAAAGAGAAAATAAAA
1 AGAGAAAAAAGCAAAGAAAAAATAAAA
172386 AGAGAAAAAA-C-AAGAAAAAATAA
1 AGAGAAAAAAGCAAAGAAAAAATAA
172409 GATACACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 1 0.05
27 10 0.45
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (27 bp):
AGAGAAAAAAGCAAAGAAAAAATAAAA
Found at i:173513 original size:31 final size:32
Alignment explanation
Indices: 173478--173593 Score: 121
Period size: 33 Copynumber: 3.6 Consensus size: 32
173468 GAAGAAATGA
*
173478 GGGCA-TCTTTGAAGATTCAACATC-AATGCTG
1 GGGCATTCTTTG-AGATTCAACATCAAATGTTG
* *
173509 GGGCATTTTTTGAGATTTAACATCAAATGTTG
1 GGGCATTCTTTGAGATTCAACATCAAATGTTG
* * *
173541 GGGCATTTTTTTGAGATTCAACATCGAATATTG
1 GGGCA-TTCTTTGAGATTCAACATCAAATGTTG
*
173574 GGGCA-TCTTTGGGAATTCAA
1 GGGCATTCTTTGAG-ATTCAA
173594 TATCCTGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
31 22 0.30
32 22 0.30
33 29 0.40
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (32 bp):
GGGCATTCTTTGAGATTCAACATCAAATGTTG
Found at i:173556 original size:33 final size:32
Alignment explanation
Indices: 173485--173579 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 32
173475 TGAGGGCATC
*
173485 TTTGAAGATTCAACATCAATGCTGGGGCA-TTT
1 TTTG-AGATTCAACATCAATGTTGGGGCATTTT
*
173517 TTTGAGATTTAACATCAAATGTTGGGGCATTTT
1 TTTGAGATTCAACATC-AATGTTGGGGCATTTT
*
173550 TTTGAGATTCAACATCGAATATTGGGGCAT
1 TTTGAGATTCAACATC-AATGTTGGGGCAT
173580 CTTTGGGAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
31 11 0.20
32 15 0.27
33 30 0.54
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (32 bp):
TTTGAGATTCAACATCAATGTTGGGGCATTTT
Found at i:174775 original size:36 final size:36
Alignment explanation
Indices: 174728--174799 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
174718 AGTTTCCAAG
174728 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
174764 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
174800 ATCTTCGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:174912 original size:34 final size:36
Alignment explanation
Indices: 174839--174920 Score: 105
Period size: 34 Copynumber: 2.3 Consensus size: 36
174829 TTTTGTTTCC
* * * *
174839 CTTGAGACAATTTCTTTTAGAAATAAGTTTTGTCTCT
1 CTTGAGACAGTTTCTTTTAGAAACAAG-ATTGTCCCT
174876 CTTGAGACAGTTTCTTTT-GAAACAA-ATTGTCCCT
1 CTTGAGACAGTTTCTTTTAGAAACAAGATTGTCCCT
174910 CTTGAGACAGT
1 CTTGAGACAGT
174921 CCCTCTTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
34 18 0.44
36 6 0.15
37 17 0.41
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (36 bp):
CTTGAGACAGTTTCTTTTAGAAACAAGATTGTCCCT
Done.