Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_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: 4652821
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 23
Found at i:1104 original size:14 final size:14
Alignment explanation
Indices: 1085--1125 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
1075 TGTTCTTTTA
1085 TGTTCGTGTTCATT
1 TGTTCGTGTTCATT
*
1099 TGTTCGTGTTCGTT
1 TGTTCGTGTTCATT
1113 TAAGTTCGTGTTC
1 T--GTTCGTGTTC
1126 GTTTATGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 14 0.58
16 10 0.42
ACGTcount: A:0.07, C:0.15, G:0.24, T:0.54
Consensus pattern (14 bp):
TGTTCGTGTTCATT
Found at i:1121 original size:16 final size:16
Alignment explanation
Indices: 1075--1137 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
1065 CCAACGTTTA
*
1075 TGTTCTTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
1091 TGTTC-ATT-TGTTCG
1 TGTTCGTTTATGTTCG
*
1105 TGTTCGTTTAAGTTCG
1 TGTTCGTTTATGTTCG
1121 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1137 T
1 T
1138 TTATTTATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 11 0.27
15 4 0.10
16 26 0.63
ACGTcount: A:0.08, C:0.13, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1141 original size:10 final size:10
Alignment explanation
Indices: 1069--1141 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
1059 GGGTCTCCAA
1069 CGTTTATGTT
1 CGTTTATGTT
*
1079 CTTTTATGTT
1 CGTTTATGTT
1089 CGTGTTCAT-TT
1 CGT-TT-ATGTT
**
1100 -GTTCGTGTT
1 CGTTTATGTT
*
1109 CGTTTAAGTT
1 CGTTTATGTT
1119 CG----TGTT
1 CGTTTATGTT
1125 CGTTTATGTT
1 CGTTTATGTT
1135 CGTTTAT
1 CGTTTAT
1142 TTATTAAATG
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
6 5 0.11
8 1 0.02
9 3 0.06
10 32 0.68
11 4 0.09
12 2 0.04
ACGTcount: A:0.10, C:0.12, G:0.21, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:3726 original size:15 final size:16
Alignment explanation
Indices: 3706--3761 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 16
3696 AAGAAAGGGT
3706 TTTTAA-AAAACATTA
1 TTTTAACAAAACATTA
*
3721 TTTTAACAAAAGGA-T-
1 TTTTAACAAAA-CATTA
3736 TTTTAA-AAAACATTA
1 TTTTAACAAAACATTA
*
3751 TTTTAATAAAA
1 TTTTAACAAAA
3762 ACTTTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 18 0.53
16 9 0.26
17 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (16 bp):
TTTTAACAAAACATTA
Found at i:3733 original size:30 final size:30
Alignment explanation
Indices: 3699--3761 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
3689 TCCAAAAAAG
*
3699 AAAGGGTTTTTAAAAAACATTATTTTAACA
1 AAAGGATTTTTAAAAAACATTATTTTAACA
*
3729 AAAGGATTTTTAAAAAACATTATTTTAATA
1 AAAGGATTTTTAAAAAACATTATTTTAACA
3759 AAA
1 AAA
3762 ACTTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.37
Consensus pattern (30 bp):
AAAGGATTTTTAAAAAACATTATTTTAACA
Found at i:7136 original size:32 final size:32
Alignment explanation
Indices: 7074--7135 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
7064 AAGGGTAAAT
*
7074 TATGTGTTTAGTACCTCAACTATTAGTTTTTG
1 TATGTGTTTAGTACCTAAACTATTAGTTTTTG
* * *
7106 TATGT-TTTAGTATCTAAACTTTTAATTTTT
1 TATGTGTTTAGTACCTAAACTATTAGTTTTT
7136 TTCAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.55
Consensus pattern (32 bp):
TATGTGTTTAGTACCTAAACTATTAGTTTTTG
Found at i:18502 original size:21 final size:21
Alignment explanation
Indices: 18474--18541 Score: 95
Period size: 20 Copynumber: 3.3 Consensus size: 21
18464 AAATTCGCGT
18474 TGCG-ATTACGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
* *
18494 TGCGAATTAGGAAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
18515 TGCGAA-TACGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
*
18535 TGTGAAT
1 TGCGAAT
18542 CTGACTATCG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 21 0.51
21 20 0.49
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCGAATTACGTAAATCGCAA
Found at i:19140 original size:19 final size:20
Alignment explanation
Indices: 19087--19141 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
19077 TAGTTTTGAG
19087 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGCGGA
**
19107 AATGACTATCGCAACGC-GA
1 AATGAAAATCGCAACGCGGA
*
19126 AATGAAAATCACAACG
1 AATGAAAATCGCAACG
19142 AGATAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGGA
Found at i:19237 original size:20 final size:20
Alignment explanation
Indices: 19203--19260 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
19193 GCGATTCTCT
**
19203 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
*
19223 CGTTGCGATTTTCATTAT-CT
1 CGTTGCGATTTTCATT-TCCG
19243 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
19261 AACCAAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:21041 original size:78 final size:81
Alignment explanation
Indices: 20943--21189 Score: 257
Period size: 94 Copynumber: 2.9 Consensus size: 81
20933 TAGATTGCTT
*
20943 AGTAAATTTATTCGGTTGCTGTCAATACTGATAAAC-TGT-TT-ATTAACACTGTGAAGTTAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATACTGATAAACGTGTATTCATTAACACTGTGAAGTTAGTA
21005 TTTGTCTTTTGGTTGA
66 TTTGTCTTTTGGTTGA
* * *
21021 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGATAAAC-GTGTATTCATTAACACTGTGAAGTTAGT
21086 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 A-----------TTTGTCTTTTGGTTG-A
* * * * * *
21115 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGATAAAC-GTGTATTCATTAACACTGTGAAGTTAGT
21180 ATTTGTCTTT
65 ATTTGTCTTT
21190 GTTTTGTCTT
Statistics
Matches: 146, Mismatches: 7, Indels: 27
0.81 0.04 0.15
Matches are distributed among these distances:
78 33 0.23
80 3 0.02
81 2 0.01
82 20 0.14
83 9 0.06
93 15 0.10
94 64 0.44
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (81 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGATAAACGTGTATTCATTAACACTGTGAAGTTAGTA
TTTGTCTTTTGGTTGA
Found at i:21131 original size:94 final size:93
Alignment explanation
Indices: 21005--21212 Score: 380
Period size: 94 Copynumber: 2.2 Consensus size: 93
20995 GAAGTTAGTA
21005 TTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
1 TTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
*
21070 ACACTGTGAAGTTAGTATTTGTCTTTGT
66 ACACTCTGAAGTTAGTATTTGTCTTTGT
*
21098 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTG-AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
*
21163 AATACTCTGAAGTTAGTATTTGTCTTTGT
65 AACACTCTGAAGTTAGTATTTGTCTTTGT
21192 TTTGTCTTTTGGTTGAAGTAA
1 TTTGTCTTTTGGTTGAAGTAA
21213 TGTAATCCAT
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
93 21 0.19
94 90 0.81
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (93 bp):
TTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
ACACTCTGAAGTTAGTATTTGTCTTTGT
Found at i:21301 original size:12 final size:12
Alignment explanation
Indices: 21284--21309 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21274 TTAGTAACAC
21284 TGTTTTGTCTTT
1 TGTTTTGTCTTT
21296 TGTTTTGTCTTT
1 TGTTTTGTCTTT
21308 TG
1 TG
21310 GTTTCGCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.19, T:0.73
Consensus pattern (12 bp):
TGTTTTGTCTTT
Found at i:21373 original size:19 final size:19
Alignment explanation
Indices: 21311--21400 Score: 73
Period size: 19 Copynumber: 4.9 Consensus size: 19
21301 TGTCTTTTGG
**
21311 TTTCGCGTTGTAATTTTCA
1 TTTCGCGTTGCGATTTTCA
21330 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
21346 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
**
21363 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCA
*
21382 TTTTTCACGTTGCGATTTT
1 --TTTCGCGTTGCGATTTT
21401 AAGTTCCAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
19 25 0.45
21 14 0.25
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:21877 original size:21 final size:21
Alignment explanation
Indices: 21853--21919 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
21843 TCATTCCTCG
21853 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
21874 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
21895 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
21916 AGAG
1 AGAG
21920 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:21877 original size:42 final size:42
Alignment explanation
Indices: 21801--21919 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
21791 GAATCGCATG
* * * * * * *
21801 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
21843 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
21885 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
21920 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:24169 original size:21 final size:21
Alignment explanation
Indices: 24127--24169 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
24117 TTTCTGGGTT
* * *
24127 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
24148 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
24169 A
1 A
24170 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:24268 original size:65 final size:67
Alignment explanation
Indices: 24149--24298 Score: 250
Period size: 65 Copynumber: 2.3 Consensus size: 67
24139 ACCCATTCAA
24149 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
24214 -G
66 GG
* *
24215 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
24279 GGG
66 -GG
*
24282 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
24299 ATGAGAAAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
65 31 0.39
66 31 0.39
67 17 0.22
ACGTcount: A:0.30, C:0.29, G:0.25, T:0.16
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GG
Found at i:24962 original size:23 final size:23
Alignment explanation
Indices: 24918--24962 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
24908 ATCATTATAT
*
24918 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
24941 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
24963 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:31056 original size:21 final size:21
Alignment explanation
Indices: 31014--31056 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
31004 TTTCTGGGTT
* * *
31014 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
31035 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
31056 A
1 A
31057 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:31172 original size:66 final size:68
Alignment explanation
Indices: 31036--31186 Score: 261
Period size: 67 Copynumber: 2.2 Consensus size: 68
31026 ACCCATTCAA
31036 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
31101 -GG
66 GGG
* *
31103 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
31167 GGG
66 GGG
*
31170 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
31187 ATGAGAAAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 31 0.39
67 49 0.61
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GGG
Found at i:31211 original size:13 final size:13
Alignment explanation
Indices: 31193--31219 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31183 CCCCATGAGA
31193 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
31206 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
31219 A
1 A
31220 CTAAGCTATA
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:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:31849 original size:23 final size:23
Alignment explanation
Indices: 31805--31849 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
31795 ATCATTATAT
*
31805 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
31828 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
31850 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:32454 original size:19 final size:19
Alignment explanation
Indices: 32430--32476 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
32420 TGTTACAACT
*
32430 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
32449 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
32468 ATCGAAACG
1 ATCGCAACG
32477 AGAGAATCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:32514 original size:19 final size:19
Alignment explanation
Indices: 32481--32519 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32471 GAAACGAGAG
* *
32481 AATCACAACGTGAAATTAA
1 AATCACAACGCGAAACTAA
*
32500 AATCACAATGCGAAACTAA
1 AATCACAACGCGAAACTAA
32519 A
1 A
32520 TTCGCGTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.18, G:0.10, T:0.18
Consensus pattern (19 bp):
AATCACAACGCGAAACTAA
Found at i:32542 original size:19 final size:19
Alignment explanation
Indices: 32520--32670 Score: 89
Period size: 19 Copynumber: 8.7 Consensus size: 19
32510 CGAAACTAAA
32520 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
32539 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
32554 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
32572 TTCGCATTACG--TTTC--
1 TTCGCGTTGCGATTTTCAT
*
32587 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
32605 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
32620 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
32638 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
32657 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
32671 AGACATTAAG
Statistics
Matches: 96, Mismatches: 20, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 24 0.25
16 10 0.10
17 10 0.10
19 42 0.44
20 10 0.10
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:32566 original size:33 final size:33
Alignment explanation
Indices: 32524--32650 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
32514 ACTAAATTCG
* *
32524 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
32557 CGTTGCGATTTTCATTTCGCATTACGTTTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
32590 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
32623 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
32651 AGTCATTTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:32669 original size:20 final size:20
Alignment explanation
Indices: 32623--32716 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
32613 GCGATTCTCT
**
32623 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
32642 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* **
32662 CGTTGCGATAGACA-TTAAG
1 CGTTGCGATAGTCATTTCCG
*
32681 ATGATTGCGA-ACGTCATTTCCG
1 -CG-TTGCGATA-GTCATTTCCG
*
32703 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
32717 AATGATTGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
19 17 0.29
20 26 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:34994 original size:12 final size:12
Alignment explanation
Indices: 34977--35001 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34967 TCTTCGGGGA
34977 CTTTTTCTTCTT
1 CTTTTTCTTCTT
34989 CTTTTTCTTCTT
1 CTTTTTCTTCTT
35001 C
1 C
35002 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:35210 original size:24 final size:24
Alignment explanation
Indices: 35176--35243 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
35166 CTGAAACATC
* *
35176 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTACTGACCAAG
* *
35200 ATCAAAGTCCGGGTACTGACCAAG
1 ATCAAAATCCGAGTACTGACCAAG
* * *
35224 ATCAAATTTCGAATACTGAC
1 ATCAAAATCCGAGTACTGAC
35244 TAGTACTCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTACTGACCAAG
Found at i:35999 original size:20 final size:20
Alignment explanation
Indices: 35978--36065 Score: 149
Period size: 20 Copynumber: 4.4 Consensus size: 20
35968 TGTATTATCT
* *
35978 CGTTGCGATAGTCAGAATCT
1 CGTTGCGAAAGTCAGAATCG
35998 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
36018 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
36038 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
36058 CGTTGCGA
1 CGTTGCGA
36066 TTTTGTATTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:36079 original size:21 final size:22
Alignment explanation
Indices: 36048--36112 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 22
36038 CGTTGCGAAA
36048 GTCAGTATCGCGTTGCGATTTT
1 GTCAGTATCGCGTTGCGATTTT
* *
36070 GT-ATTATCGCGTTGCGA--TA
1 GTCAGTATCGCGTTGCGATTTT
*
36089 GTCAGTATCGCATTGCGATTTT
1 GTCAGTATCGCGTTGCGATTTT
36111 GT
1 GT
36113 TTGTCATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.09
20 13 0.37
21 14 0.40
22 5 0.14
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (22 bp):
GTCAGTATCGCGTTGCGATTTT
Found at i:36092 original size:41 final size:41
Alignment explanation
Indices: 36034--36112 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
36024 GAAAGTCAGA
*
36034 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
*
36075 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTGT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGT
36113 TTGTCATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.37
Consensus pattern (41 bp):
ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:36099 original size:20 final size:20
Alignment explanation
Indices: 35973--36107 Score: 146
Period size: 20 Copynumber: 6.7 Consensus size: 20
35963 GATTCTGTAT
*
35973 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
35993 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
36013 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
36033 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
36053 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
36074 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
36094 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
36108 TTTGTTTGTC
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
19 3 0.03
20 83 0.81
21 14 0.14
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:44965 original size:15 final size:16
Alignment explanation
Indices: 44944--44981 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
44934 GCATTATATA
*
44944 AAATATTATATT-TTT
1 AAATATTAAATTATTT
*
44959 TAATATTAAATTATTT
1 AAATATTAAATTATTT
44975 AAATATT
1 AAATATT
44982 CGTAGGTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATATTAAATTATTT
Found at i:53926 original size:3 final size:3
Alignment explanation
Indices: 53918--54087 Score: 252
Period size: 3 Copynumber: 55.7 Consensus size: 3
53908 TTATTTATTA
*
53918 AAT AAT AAT AAT ATAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* *
53965 AAAT ACT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
54011 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
54059 AAT AAT AA- AATT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AA
54088 AATGGATAAA
Statistics
Matches: 152, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.01
3 139 0.91
4 11 0.07
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:54639 original size:113 final size:113
Alignment explanation
Indices: 54385--55170 Score: 1320
Period size: 113 Copynumber: 6.9 Consensus size: 113
54375 GATATCAAAC
*
54385 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * * * * **
54450 CATGAACTTTCTTTGGCCATGTTGATCCATCAAATGATGAATTTAAACA
66 -ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
*
54499 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
54564 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
*
54612 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
54677 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
54725 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
54790 CATGAACTTTCTTTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 -ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
*
54839 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
54904 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
*
54952 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
55017 ATGAACTCTTCTTCTGGAAAAGAATGATCCATCAAATGATGGATTCAGGCA
66 ATGAACT-TTC-TCTGGAAAAG-ATGATCCACCAAATGATGGATTCAGGCA
55068 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
55133 ATGAACCTTCTCTGGTAATGATGATCCATCAAATGATG
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATG
55171 AATTTGAATC
Statistics
Matches: 639, Mismatches: 29, Indels: 9
0.94 0.04 0.01
Matches are distributed among these distances:
113 345 0.54
114 184 0.29
115 13 0.02
116 97 0.15
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
Found at i:54797 original size:227 final size:226
Alignment explanation
Indices: 54385--55170 Score: 1329
Period size: 227 Copynumber: 3.5 Consensus size: 226
54375 GATATCAAAC
**
54385 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * * * * ** *
54450 CATGAACTTTCTTTGGCCATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTT
66 -ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTT
54515 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
130 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
54580 AAAGATGATCCACCAAATGATGGATTCAGGTA
195 AAAGATGATCCACCAAATGATGGATTCAGGTA
54612 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
54677 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTC
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTC
*
54742 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCTTTGGA
131 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT-ATGAACTTTCTCTGGA
54807 AAAGATGATCCACCAAATGATGGATTCAGGTA
195 AAAGATGATCCACCAAATGATGGATTCAGGTA
54839 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
54904 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTC
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTC
*
54969 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTTCTTCTGG
131 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTC-TCTGG
* *
55034 AAAAGAATGATCCATCAAATGATGGATTCAGGCA
194 AAAAG-ATGATCCACCAAATGATGGATTCAGGTA
*
55068 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
55133 ATGAACCTTCTCTGGTAATGATGATCCATCAAATGATG
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATG
55171 AATTTGAATC
Statistics
Matches: 532, Mismatches: 23, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
226 109 0.20
227 290 0.55
228 9 0.02
229 124 0.23
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (226 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTC
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
AAGATGATCCACCAAATGATGGATTCAGGTA
Found at i:55005 original size:340 final size:343
Alignment explanation
Indices: 54385--55174 Score: 1372
Period size: 340 Copynumber: 2.3 Consensus size: 343
54375 GATATCAAAC
*
54385 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * *
54450 CATGAACTTTCTTTGGCCATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTT
66 CATGAACTTTCTTTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATT
54515 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
*
54580 AAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
196 AAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
54645 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTC-TCTGGAAAAG-ATGATCCACC
261 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTTCTGGAAAAGAATGATCCACC
54707 AAATGATGGATTCAGGCA
326 AAATGATGGATTCAGGCA
54725 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *** *
54790 CATGAACTTTCTTTGGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
66 CATGAACTTTCTTTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATT
54855 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
*
54920 AAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
196 AAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
* *
54985 CTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTTCTTCTGGAAAAGAATGATCCATC
261 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTTCTGGAAAAGAATGATCCACC
55050 AAATGATGGATTCAGGCA
326 AAATGATGGATTCAGGCA
55068 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
55133 -ATGAACCTTCTCTGGTAATGATGATCCATCAAATGATGAATT
66 CATGAACTTTCTTTGGAAATGATGATCCATCAAATGATGAATT
55175 TGAATCTTTG
Statistics
Matches: 424, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
340 283 0.67
341 3 0.01
342 46 0.11
343 92 0.22
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (343 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
CATGAACTTTCTTTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
AAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTTCTGGAAAAGAATGATCCACC
AAATGATGGATTCAGGCA
Found at i:55810 original size:52 final size:52
Alignment explanation
Indices: 55732--57121 Score: 2534
Period size: 52 Copynumber: 26.7 Consensus size: 52
55722 CACTTTTTCG
* * *
55732 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAACA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCA
55784 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
* *
55836 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTATCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
55888 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
55940 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
* *
55992 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATATCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56044 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
* *
56096 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATATCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56148 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56200 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56252 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56304 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
* *
56356 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATATCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
56408 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCA
* *
56460 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTATCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
* *
56512 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTATCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56564 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56616 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56668 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56720 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
* *
56772 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATATCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
56824 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCA
* *
56876 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTATCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56928 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
56980 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
57032 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
57084 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
57122 TGAACACATA
Statistics
Matches: 1300, Mismatches: 33, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
51 3 0.00
52 1295 1.00
53 2 0.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (52 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:58073 original size:6 final size:6
Alignment explanation
Indices: 58062--58107 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
58052 CCTTGACCCC
* *
58062 CTTTTT CTTTTT -TTTTT CTTTTT CATTTT CTATTT -TTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
58108 TCTTCTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 9 0.26
6 25 0.74
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:58079 original size:11 final size:11
Alignment explanation
Indices: 58063--58118 Score: 69
Period size: 11 Copynumber: 5.1 Consensus size: 11
58053 CTTGACCCCC
58063 TTTTTCTTTTT
1 TTTTTCTTTTT
58074 TTTTTCTTTTT
1 TTTTTCTTTTT
* *
58085 CATTTTCTATTT
1 -TTTTTCTTTTT
58097 TTTTTC-TTTT
1 TTTTTCTTTTT
*
58107 TTCTTCTTTTT
1 TTTTTCTTTTT
58118 T
1 T
58119 CTCTTCAAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
10 8 0.21
11 21 0.55
12 9 0.24
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:58090 original size:23 final size:23
Alignment explanation
Indices: 58064--58107 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
58054 TTGACCCCCT
*
58064 TTTTCTTTTTTTTTTCTTTTTCA
1 TTTTCTATTTTTTTTCTTTTTCA
58087 TTTTCTATTTTTTTTCTTTTT
1 TTTTCTATTTTTTTTCTTTTT
58108 TCTTCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTCTATTTTTTTTCTTTTTCA
Found at i:58118 original size:17 final size:17
Alignment explanation
Indices: 58063--58120 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
58053 CTTGACCCCC
58063 TTTTTCTTTTTT-TTTT
1 TTTTTCTTTTTTCTTTT
*
58079 CTTTTTC-ATTTTCTATTT
1 -TTTTTCTTTTTTCT-TTT
*
58097 TTTTTCTTTTTTCTTCT
1 TTTTTCTTTTTTCTTTT
58114 TTTTTCT
1 TTTTTCT
58121 CTTCAAGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 4 0.11
17 22 0.63
18 9 0.26
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTTTTCTTTT
Found at i:70833 original size:3 final size:3
Alignment explanation
Indices: 70825--71003 Score: 270
Period size: 3 Copynumber: 58.7 Consensus size: 3
70815 TTATTTATTA
*
70825 AAT AAT AAT AAT ATAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
*
70872 AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
70918 AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT GAT AAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
70966 AAT AAT AAT AAT AA- AATT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AA
71004 AATGGATAAA
Statistics
Matches: 161, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.01
3 148 0.92
4 11 0.07
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:77318 original size:24 final size:24
Alignment explanation
Indices: 77289--77335 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
77279 CTTGAAAGAG
77289 CTCGACTGAAGCTCAAAACTCGAA
1 CTCGACTGAAGCTCAAAACTCGAA
*
77313 CTCGACTGAAGCTCGAAACTCGA
1 CTCGACTGAAGCTCAAAACTCGA
77336 TTGAAGCTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (24 bp):
CTCGACTGAAGCTCAAAACTCGAA
Found at i:77334 original size:18 final size:18
Alignment explanation
Indices: 77307--77346 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
77297 AAGCTCAAAA
77307 CTCG-AACTCGACTGAAG
1 CTCGAAACTCGACTGAAG
*
77324 CTCGAAACTCGATTGAAG
1 CTCGAAACTCGACTGAAG
77342 CTCGA
1 CTCGA
77347 TTCAAGCTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20
Consensus pattern (18 bp):
CTCGAAACTCGACTGAAG
Found at i:77612 original size:30 final size:30
Alignment explanation
Indices: 77578--77639 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
77568 CTTCAATGGC
77578 TTCCATCATTATACCAATATTCATCTTCTT
1 TTCCATCATTATACCAATATTCATCTTCTT
77608 TTCCATCATTATACCAATATTCATCTTCTT
1 TTCCATCATTATACCAATATTCATCTTCTT
77638 TT
1 TT
77640 TCTTCTCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (30 bp):
TTCCATCATTATACCAATATTCATCTTCTT
Found at i:79861 original size:14 final size:13
Alignment explanation
Indices: 79842--79908 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 13
79832 CACATAATCG
79842 GATTTAGGGTTTA
1 GATTTAGGGTTTA
*
79855 TGATTTAGAGTTTA
1 -GATTTAGGGTTTA
*
79869 AAGTTTAGGGTTTA
1 GA-TTTAGGGTTTA
* *
79883 GAATTTAAGTTTTA
1 G-ATTTAGGGTTTA
*
79897 GGACTTAGGGTT
1 -GATTTAGGGTT
79909 AATTATAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
13 1 0.02
14 38 0.93
15 2 0.05
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (13 bp):
GATTTAGGGTTTA
Found at i:79874 original size:21 final size:20
Alignment explanation
Indices: 79850--79904 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
79840 CGGATTTAGG
* *
79850 GTTTATGATTTAGAGTTTAAA
1 GTTTAGGATTTAGAATTT-AA
*
79871 GTTTAGGGTTTAGAATTTAA
1 GTTTAGGATTTAGAATTTAA
*
79891 GTTTTAGGACTTAG
1 G-TTTAGGATTTAG
79905 GGTTAATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (20 bp):
GTTTAGGATTTAGAATTTAA
Found at i:80024 original size:11 final size:11
Alignment explanation
Indices: 80008--80070 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
79998 GTATTATAGA
80008 ATTTTTAATAT
1 ATTTTTAATAT
80019 ATTTTTAA-A-
1 ATTTTTAATAT
80028 ATTTTATAAT-T
1 ATTTT-TAATAT
*** *
80039 ATCAATAATGT
1 ATTTTTAATAT
80050 ATTTTTAATAT
1 ATTTTTAATAT
80061 ATTTTTAATA
1 ATTTTTAATA
80071 ATGTAATGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:100912 original size:41 final size:41
Alignment explanation
Indices: 100855--101156 Score: 284
Period size: 41 Copynumber: 7.3 Consensus size: 41
100845 CGTTTTTTCA
* * * *
100855 ACAAACGCCGCAAAAGAGT-AGTACTTTAGTAGCGTTTTTAT
1 ACAAACGCCGCTAAAGACTCA-TACTTTAGTGGCATTTTTAT
** * *
100896 ACAAACATCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTAT
* * * * * * * *
100937 ACAAACGTCGTTATACACAT-GTACTATAGTGGCGTTTGTGTTT
1 ACAAACGCCGCTAAAGAC-TCATACTTTAGTGGCATTT-T-TAT
*
100980 ACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTAT
* *
101021 ACAAACGCCGCTAAAGACTCATACTTTAGCGGCGTTTTTAT
1 ACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTAT
*
101062 AAAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTAT
* * * ** * * *
101103 TCAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTT
1 ACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTT-T-TAT
101146 ACAAACGCCGC
1 ACAAACGCCGC
101157 AAGTTTACAA
Statistics
Matches: 213, Mismatches: 41, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
41 167 0.78
42 5 0.02
43 41 0.19
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (41 bp):
ACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTAT
Found at i:100996 original size:125 final size:124
Alignment explanation
Indices: 100838--101068 Score: 304
Period size: 125 Copynumber: 1.9 Consensus size: 124
100828 AGGTTCATCG
* * *
100838 ATAGTGGCGTTTTTTCAACAAACGCCGCAAAAGAGT-AGTACTTTAGTAGCGTTTTTATACAAAC
1 ATAGTGGCGTTTTTTCAACAAACGCCGCAAAAGACTCA-TAATTTAGTAGCATTTTTATACAAAC
* * * *
100902 ATCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGTCGTTATACACATGTACT
65 ACCGCTAAAGACTCATAATTTAGCGGCATTTTTATAAAAACGTCGTTATACACATGTACT
* * *
100962 ATAGTGGCGTTTGTGTT-TACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAA
1 ATAGTGGCGTTT-T-TTCAACAAACGCCGCAAAAGACTCATAATTTAGTAGCATTTTTATACAAA
* * *
101026 CGCCGCTAAAGACTCATACTTTAGCGGCGTTTTTATAAAAACG
64 CACCGCTAAAGACTCATAATTTAGCGGCATTTTTATAAAAACG
101069 CCGCTAAAGA
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
124 12 0.13
125 76 0.84
126 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (124 bp):
ATAGTGGCGTTTTTTCAACAAACGCCGCAAAAGACTCATAATTTAGTAGCATTTTTATACAAACA
CCGCTAAAGACTCATAATTTAGCGGCATTTTTATAAAAACGTCGTTATACACATGTACT
Found at i:101005 original size:84 final size:83
Alignment explanation
Indices: 100895--101156 Score: 357
Period size: 84 Copynumber: 3.1 Consensus size: 83
100885 AGCGTTTTTA
** * * *
100895 TACAAACATCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGTCGTTATACACATGTA
1 TACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTATACAC-TGTA
100960 CTATAGTGGCGTTTGTGTT
65 CTATAGTGGCGTTTGTGTT
* * *
100979 TACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCATA
1 TACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTATACACT-GTA
* * *
101044 CTTTAGCGGCGTTT-T-TA
65 CTATAGTGGCGTTTGTGTT
* * *
101061 TAAAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATTCAAACGCCGCTATACACTTGTA
1 TACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTATACAC-TGTA
101126 CTATAGTGGCGTTTGTGTT
65 CTATAGTGGCGTTTGTGTT
101145 TACAAACGCCGC
1 TACAAACGCCGC
101157 AAGTTTACAA
Statistics
Matches: 153, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
82 70 0.46
83 4 0.03
84 79 0.52
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (83 bp):
TACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTATACACTGTAC
TATAGTGGCGTTTGTGTT
Found at i:101092 original size:166 final size:166
Alignment explanation
Indices: 100855--101156 Score: 471
Period size: 166 Copynumber: 1.8 Consensus size: 166
100845 CGTTTTTTCA
* * * * *
100855 ACAAACGCCGCAAAAGAGTAGTACTTTAGTAGCGTTTTTATACAAACATCGCTAAAGACTCGTAA
1 ACAAACGCCGCAAAAGACTAGTACTTTAGCAGCGTTTTTATAAAAACACCGCTAAAGACTCATAA
* *
100920 TTTAGTGGCATTTTTATACAAACGTCGTTATACACATGTACTATAGTGGCGTTTGTGTTTACAAA
66 TTTAGTGGCATTTTTATACAAACGCCGCTATACACATGTACTATAGTGGCGTTTGTGTTTACAAA
100985 CGCCGCTAAAGACTCATAATTTAGTGGCATTTTTAT
131 CGCCGCTAAAGACTCATAATTTAGTGGCATTTTTAT
* * *
101021 ACAAACGCCGCTAAAGACTCA-TACTTTAGCGGCGTTTTTATAAAAACGCCGCTAAAGACTCATA
1 ACAAACGCCGCAAAAGACT-AGTACTTTAGCAGCGTTTTTATAAAAACACCGCTAAAGACTCATA
* * *
101085 CTTTAGTGGCATTTTTATTCAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTTACAA
65 ATTTAGTGGCATTTTTATACAAACGCCGCTATACACATGTACTATAGTGGCGTTTGTGTTTACAA
101150 ACGCCGC
130 ACGCCGC
101157 AAGTTTACAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
166 121 0.99
167 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (166 bp):
ACAAACGCCGCAAAAGACTAGTACTTTAGCAGCGTTTTTATAAAAACACCGCTAAAGACTCATAA
TTTAGTGGCATTTTTATACAAACGCCGCTATACACATGTACTATAGTGGCGTTTGTGTTTACAAA
CGCCGCTAAAGACTCATAATTTAGTGGCATTTTTAT
Found at i:101137 original size:82 final size:82
Alignment explanation
Indices: 100875--101156 Score: 357
Period size: 82 Copynumber: 3.4 Consensus size: 82
100865 CAAAAGAGTA
* * ** *
100875 GTACTTTAGTAGCGTTTTTATACAAACATCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACA
1 GTACTATAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACA
* * *
100940 AACGTCGTTATACACAT
66 AACGCCGCTATACACTT
*
100957 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATA
1 GTACTATAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATA
* * *
101022 CAAACGCCGCTAAAGACTC
64 CAAACGCCGCTATACACTT
* * * * * *
101041 ATACTTTAGCGGCGTTTTTATAAAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATTCA
1 GTACTATAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACA
101106 AACGCCGCTATACACTT
66 AACGCCGCTATACACTT
*
101123 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGC
1 GTACTATAGTGGCGTTT-T-TATACAAACGCCGC
101157 AAGTTTACAA
Statistics
Matches: 169, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
82 86 0.51
83 3 0.02
84 80 0.47
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (82 bp):
GTACTATAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACA
AACGCCGCTATACACTT
Found at i:103111 original size:21 final size:21
Alignment explanation
Indices: 103087--103145 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
103077 TGATTTATTA
**
103087 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
103108 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
103129 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
103146 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:103360 original size:42 final size:43
Alignment explanation
Indices: 103296--103480 Score: 153
Period size: 42 Copynumber: 4.3 Consensus size: 43
103286 AGATATGACA
*** * *
103296 TTTTGCGGCGTTTGTTCTAAAAACGCCACTATATAC-C-AGATC
1 TTTTGCGGCGTTTGTGGGAAAAACGCCACTAAAT-CTCAAGACC
* * *
103338 TTTTGCGGTGTTTGTGGGAAAAATGCCGCTAAATCTCAAGACC
1 TTTTGCGGCGTTTGTGGGAAAAACGCCACTAAATCTCAAGACC
* * *
103381 TATTGCGGCGTTTGTGGG-AAAACGCCGCTAAATCTCAACACC
1 TTTTGCGGCGTTTGTGGGAAAAACGCCACTAAATCTCAAGACC
* * ** * * *
103423 TATTGCGGCGTTTGTTGGAAAAATACC-GTCAAATATCAACACC
1 TTTTGCGGCGTTTGTGGGAAAAACGCCACT-AAATCTCAAGACC
*
103466 TATTGCGGCGTTTGT
1 TTTTGCGGCGTTTGT
103481 ATATCGTTAC
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.56
43 53 0.43
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
TTTTGCGGCGTTTGTGGGAAAAACGCCACTAAATCTCAAGACC
Found at i:103394 original size:43 final size:43
Alignment explanation
Indices: 103340--103480 Score: 205
Period size: 43 Copynumber: 3.3 Consensus size: 43
103330 ACCAGATCTT
* *
103340 TTGCGGTGTTTGTGGGAAAAATGCCGCTAAATCTCAAGACCTA
1 TTGCGGCGTTTGTGGGAAAAATGCCGCTAAATCTCAACACCTA
*
103383 TTGCGGCGTTTGTGGG-AAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAATGCCGCTAAATCTCAACACCTA
* * *
103425 TTGCGGCGTTTGTTGGAAAAATACCG-TCAAATATCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAATGCCGCT-AAATCTCAACACCTA
103468 TTGCGGCGTTTGT
1 TTGCGGCGTTTGT
103481 ATATCGTTAC
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
42 40 0.45
43 49 0.55
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGGAAAAATGCCGCTAAATCTCAACACCTA
Found at i:103395 original size:85 final size:86
Alignment explanation
Indices: 103298--103480 Score: 203
Period size: 85 Copynumber: 2.2 Consensus size: 86
103288 ATATGACATT
* * * * * *
103298 TTGCGGCGTTTGTTCTAAAAACGCCACTATATAC-C-AGATCTTTTGCGGTGTTTGTGGGAAAAA
1 TTGCGGCGTTTGTTCGAAAAACGCCACTAAAT-CTCAACACCTATTGCGGCGTTTGTGGGAAAAA
* * *
103361 TGCCG-CTAAATCTCAAGACCTA
65 TACCGTC-AAATATCAACACCTA
* * * *
103383 TTGCGGCGTTTG-TGGGAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTTGGAAAAAT
1 TTGCGGCGTTTGTTCGAAAAACGCCACTAAATCTCAACACCTATTGCGGCGTTTGTGGGAAAAAT
103447 ACCGTCAAATATCAACACCTA
66 ACCGTCAAATATCAACACCTA
103468 TTGCGGCGTTTGT
1 TTGCGGCGTTTGT
103481 ATATCGTTAC
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
83 1 0.01
84 15 0.19
85 64 0.79
86 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (86 bp):
TTGCGGCGTTTGTTCGAAAAACGCCACTAAATCTCAACACCTATTGCGGCGTTTGTGGGAAAAAT
ACCGTCAAATATCAACACCTA
Found at i:107802 original size:24 final size:24
Alignment explanation
Indices: 107770--107817 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
107760 TTGAATAAAG
107770 AACTTACTGCCTTCATCAGAAAAT
1 AACTTACTGCCTTCATCAGAAAAT
107794 AACTTACTGCCTTCATCAGAAAAT
1 AACTTACTGCCTTCATCAGAAAAT
107818 CTTATTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (24 bp):
AACTTACTGCCTTCATCAGAAAAT
Found at i:112066 original size:7 final size:6
Alignment explanation
Indices: 112034--112065 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
112024 TTGAATCGGA
112034 TAATTT TAATTT TAATTT TAATTT TCAATTT T
1 TAATTT TAATTT TAATTT TAATTT T-AATTT T
112066 CTCAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:117109 original size:106 final size:106
Alignment explanation
Indices: 116986--117510 Score: 706
Period size: 106 Copynumber: 5.0 Consensus size: 106
116976 ATCGTGCTAT
* * *
116986 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAA
1 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCCAA
*
117051 TTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * *
117092 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-AATTTCCCAG
1 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCCAA
117156 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * * * *
117197 TCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCCCAA
1 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCCAA
* * *
117262 TTTCATAGCCAATTTCAACTTCCCAGCGAAGGATCTTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* *
117303 CCAAGACAACACAAGCTCAACTTCACGACGAATGGG-CGGCTGATTGTCAAC-AA-AATTT--C-
1 TCAAGACAACACAAGCTCAACTTCACAACGAA-GGGACGGCTGATTGTCAACAAACAATTTCCCA
* *
117362 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGAC
65 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * * * * * * *
117403 TCGAGATAGCACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTCCCAG
1 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCCAA
* * * *
117468 TTCCAGAACCAATTTCAACTTCACAACGGAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
117509 TC
1 TC
117511 GGAACAATAC
Statistics
Matches: 370, Mismatches: 40, Indels: 18
0.86 0.09 0.04
Matches are distributed among these distances:
99 3 0.01
100 74 0.20
101 3 0.01
102 6 0.02
104 5 0.01
105 99 0.27
106 177 0.48
107 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (106 bp):
TCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCCAA
TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
Found at i:117482 original size:206 final size:209
Alignment explanation
Indices: 116986--117508 Score: 766
Period size: 211 Copynumber: 2.5 Consensus size: 209
116976 ATCGTGCTAT
* * * * **
116986 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAA
1 TCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTCCCAA
* * *
117051 TTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTC
*
117116 ACAACGAAGGGACGGCTGGTTGTCAACAAAAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACA
131 ACAACGAAGGGACGGCTGATTGTCAACAAAAATTT-CCAG-TTCAGAGCCAATTTCAACTTCACA
*
117181 GCGAAGGATATTGGAC
194 GCGAAGGATATTAGAC
* *
117197 TCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCCCAA
1 TCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTCCCAA
* * *
117262 TTTCATAGCCAATTTCAACTTCCCAGCGAAGGATCTTGGACCCAAGACAACACAAGCTCAACTTC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTC
* *
117327 ACGACGAATGGG-CGGCTGATTGTCAAC-AAAATTT-CA-TTCAGAGTCAATTTCAACTTCACAG
131 ACAACGAA-GGGACGGCTGATTGTCAACAAAAATTTCCAGTTCAGAGCCAATTTCAACTTCACAG
117388 CGAAGGATATTAGAC
195 CGAAGGATATTAGAC
* * *
117403 TCGAGATAGCACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTCCCAG
1 TCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTCCCAA
* * * *
117468 TTCCAGAACCAATTTCAACTTCACAACGGAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
117509 TCGGAACAAT
Statistics
Matches: 281, Mismatches: 30, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
206 132 0.47
208 2 0.01
210 7 0.02
211 137 0.49
212 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (209 bp):
TCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTCCCAA
TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTC
ACAACGAAGGGACGGCTGATTGTCAACAAAAATTTCCAGTTCAGAGCCAATTTCAACTTCACAGC
GAAGGATATTAGAC
Found at i:126872 original size:72 final size:71
Alignment explanation
Indices: 126756--126888 Score: 221
Period size: 72 Copynumber: 1.9 Consensus size: 71
126746 TGAAACTTAA
* * *
126756 ACTAAATGTCAGATATGATTTAAAAAAATGAAATTTAGACACTAAAACGAAATAAAAATAATAAT
1 ACTAAATGTCAGACATAATTTAAAAAAATGAAATTTAAACACTAAAACGAAATAAAAATAATAAT
126821 TTAGAT
66 TTAGAT
*
126827 ACTAAATGTCAGACATAATTTTAAAAAAATGAAATTTAAATACTAAAACGAAATAAAAATAA
1 ACTAAATGTCAGACATAA-TTTAAAAAAATGAAATTTAAACACTAAAACGAAATAAAAATAA
126889 AGTTAGAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
71 16 0.28
72 41 0.72
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (71 bp):
ACTAAATGTCAGACATAATTTAAAAAAATGAAATTTAAACACTAAAACGAAATAAAAATAATAAT
TTAGAT
Found at i:134268 original size:28 final size:28
Alignment explanation
Indices: 134236--134306 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
134226 CATTTATTAC
134236 TTTCAAACACT-AGCTCAACAATATAATA
1 TTTCAAACACTGA-CTCAACAATATAATA
* * * *
134264 TTTCAAATACTGACTCGACTATATAATG
1 TTTCAAACACTGACTCAACAATATAATA
*
134292 TTTCAAACATTGACT
1 TTTCAAACACTGACT
134307 TGATGACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (28 bp):
TTTCAAACACTGACTCAACAATATAATA
Found at i:137769 original size:17 final size:16
Alignment explanation
Indices: 137747--137808 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 16
137737 ATAATTTTTT
137747 TATTATATTTTAGTTAA
1 TATTATATTTTA-TTAA
137764 TATTATATTTTATTAA
1 TATTATATTTTATTAA
*
137780 -A-AATATTTTATTAA
1 TATTATATTTTATTAA
*
137794 TTATTATACTTTATT
1 -TATTATATTTTATT
137809 TTATTTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
14 12 0.31
15 1 0.03
16 5 0.13
17 21 0.54
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATATTTTATTAA
Found at i:137834 original size:26 final size:22
Alignment explanation
Indices: 137773--137836 Score: 58
Period size: 26 Copynumber: 2.8 Consensus size: 22
137763 ATATTATATT
*
137773 TTATTA-AAAATATTTTATTAA
1 TTATTATAATATATTTTATTAA
* *
137794 TTATTATACTTTATTTTATTTTAA
1 TTATTATAATATATTTTA--TTAA
137818 TATGATTATAATATATTTT
1 T-T-ATTATAATATATTTT
137837 TAATTTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 6 0.18
22 8 0.24
24 5 0.15
25 1 0.03
26 13 0.39
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTATTATAATATATTTTATTAA
Found at i:137864 original size:24 final size:24
Alignment explanation
Indices: 137828--137885 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
137818 TATGATTATA
* * * *
137828 ATATATTTTTAATTTATTTTATTT
1 ATATAATTATAATATATTTAATTT
137852 ATATAATTATAATATATTTAATTT
1 ATATAATTATAATATATTTAATTT
137876 -TATTAATTAT
1 ATA-TAATTAT
137886 TTGTGATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATAATTATAATATATTTAATTT
Found at i:137865 original size:46 final size:44
Alignment explanation
Indices: 137781--137886 Score: 112
Period size: 46 Copynumber: 2.4 Consensus size: 44
137771 TTTTATTAAA
* * *
137781 AATATTTTATTAATTATTATACTTTATTTTATTTTAATATGATTAT
1 AATATTTTATTAATTATTATACTTTATATAATTATAATAT-ATT-T
*
137827 AATATATTT-TTAATTTATTTTA-TTTATATAATTATAATATATTT
1 AATAT-TTTATTAA-TTATTATACTTTATATAATTATAATATATTT
137871 -A-ATTTTATTAATTATT
1 AATATTTTATTAATTATT
137887 TGTGATAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
41 8 0.15
42 6 0.11
43 1 0.02
44 1 0.02
45 3 0.06
46 24 0.45
47 10 0.19
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (44 bp):
AATATTTTATTAATTATTATACTTTATATAATTATAATATATTT
Found at i:143808 original size:11 final size:12
Alignment explanation
Indices: 143768--143811 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
143758 TATTTAAACG
*
143768 GGTATTGGGCCA
1 GGTATTGGGTCA
*
143780 GGTATTGGGTCG
1 GGTATTGGGTCA
143792 GGTATTGGGTC-
1 GGTATTGGGTCA
143803 GGTATTGGG
1 GGTATTGGG
143812 CTGGGAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.11, C:0.09, G:0.48, T:0.32
Consensus pattern (12 bp):
GGTATTGGGTCA
Found at i:143810 original size:23 final size:24
Alignment explanation
Indices: 143766--143811 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
143756 ATTATTTAAA
143766 CGGGTATTGGGCCAGGTATTGGGT
1 CGGGTATTGGGCCAGGTATTGGGT
*
143790 CGGGTATTGGGTC-GGTATTGGG
1 CGGGTATTGGGCCAGGTATTGGG
143812 CTGGGAATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.11, C:0.11, G:0.48, T:0.30
Consensus pattern (24 bp):
CGGGTATTGGGCCAGGTATTGGGT
Found at i:143891 original size:24 final size:25
Alignment explanation
Indices: 143829--143909 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 25
143819 TCGGGCCGGG
143829 TATATA-TATATATATTTAAATTAAA
1 TATATATTATAT-TATTTAAATTAAA
*
143854 TATATATT-TTTTATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
* * *
143878 T-T-TATTAATATTATATATATATATA
1 TATATATT-ATATTATTTAAAT-TAAA
143903 TATATAT
1 TATATAT
143910 AAATAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
22 4 0.09
23 1 0.02
24 23 0.51
25 12 0.27
26 2 0.04
27 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TATATATTATATTATTTAAATTAAA
Found at i:143987 original size:13 final size:13
Alignment explanation
Indices: 143939--143974 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
143929 TTATCGGGTT
143939 GGGT-ATCGGGGC
1 GGGTAATCGGGGC
143951 GGGTAATCGGGGC
1 GGGTAATCGGGGC
143964 GGGTAATCGGG
1 GGGTAATCGGG
143975 TAATCGGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.14, C:0.14, G:0.56, T:0.17
Consensus pattern (13 bp):
GGGTAATCGGGGC
Found at i:144049 original size:6 final size:6
Alignment explanation
Indices: 144038--144062 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
144028 AAATGGGTTT
144038 TCCCCG TCCCCG TCCCCG TCCCCG T
1 TCCCCG TCCCCG TCCCCG TCCCCG T
144063 TTATCATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.16, T:0.20
Consensus pattern (6 bp):
TCCCCG
Found at i:145363 original size:110 final size:109
Alignment explanation
Indices: 145132--145365 Score: 260
Period size: 109 Copynumber: 2.1 Consensus size: 109
145122 ACAAAAATCC
*
145132 AAAAACACGCTAAACTTAGAGGGACTAAACAGTGAATAACCCAATAATTACATAACATACAAAGA
1 AAAAACACGCTAAACTTAGAAGGACTAAACAGTGAATAACCCAATAATTACATAACATACAAAGA
** * * **
145197 AAAGGGAAAATAATGATTTTAGTCCTCACAGATGACCTGAATAT
66 AAAGGGAAAATAACAAATTCAGTCCTCACAGATGACCAAAATAT
* * * * *
145241 AAAAACACGCTAAATTTATAAGGACTAAACAGTGAATAGA-CCAATAATTATATAACTTGCACGA
1 AAAAACACGCTAAACTTAGAAGGACTAAACAGTGAATA-ACCCAATAATTACATAACAT--ACAA
* *
145305 A-AAAAGGCG-AAATAACAAATTCAGTCCTTACATG-TGACCAAAATGT
63 AGAAAAGG-GAAAATAACAAATTCAGTCCTCACA-GATGACCAAAATAT
*
145351 AAAAACGCGCTAAAC
1 AAAAACACGCTAAAC
145366 CTAGGGGATC
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
109 51 0.49
110 47 0.45
111 6 0.06
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (109 bp):
AAAAACACGCTAAACTTAGAAGGACTAAACAGTGAATAACCCAATAATTACATAACATACAAAGA
AAAGGGAAAATAACAAATTCAGTCCTCACAGATGACCAAAATAT
Found at i:146240 original size:12 final size:12
Alignment explanation
Indices: 146223--146262 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
146213 TTGGGGCATG
146223 GTTTAGGGTTTA
1 GTTTAGGGTTTA
**
146235 GTTTAGGGCCTA
1 GTTTAGGGTTTA
146247 GTTTAGGGTTTA
1 GTTTAGGGTTTA
146259 GTTT
1 GTTT
146263 GGACTCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.05, G:0.33, T:0.47
Consensus pattern (12 bp):
GTTTAGGGTTTA
Found at i:146243 original size:24 final size:24
Alignment explanation
Indices: 146197--146262 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
146187 GGGTCGGGTT
* *
146197 TGGTTT-GGGTTTTGATTTGGGGCA
1 TGGTTTAGGGTTTAG-TTTAGGGCA
*
146221 TGGTTTAGGGTTTAGTTTAGGGCC
1 TGGTTTAGGGTTTAGTTTAGGGCA
*
146245 TAGTTTAGGGTTTAGTTT
1 TGGTTTAGGGTTTAGTTT
146263 GGACTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 30 0.81
25 7 0.19
ACGTcount: A:0.12, C:0.05, G:0.36, T:0.47
Consensus pattern (24 bp):
TGGTTTAGGGTTTAGTTTAGGGCA
Found at i:149908 original size:6 final size:6
Alignment explanation
Indices: 149892--149920 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
149882 AATAGATGAT
149892 CAAAA- CAAAAC CAAAAC CAAAAC CAAAAC
1 CAAAAC CAAAAC CAAAAC CAAAAC CAAAAC
149921 GTAAGGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAC
Found at i:153328 original size:18 final size:18
Alignment explanation
Indices: 153301--153348 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 18
153291 TGCTCGGATG
*
153301 GTATCTATACCCCCCATA
1 GTATCGATACCCCCCATA
*
153319 GTATCGATA----CCATG
1 GTATCGATACCCCCCATA
153333 GTATCGATACCCCCCA
1 GTATCGATACCCCCCA
153349 GGGGTATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
14 13 0.54
18 11 0.46
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.25
Consensus pattern (18 bp):
GTATCGATACCCCCCATA
Found at i:153336 original size:14 final size:14
Alignment explanation
Indices: 153314--153343 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
153304 TCTATACCCC
153314 CCATAGTATCGATA
1 CCATAGTATCGATA
*
153328 CCATGGTATCGATA
1 CCATAGTATCGATA
153342 CC
1 CC
153344 CCCCAGGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (14 bp):
CCATAGTATCGATA
Found at i:153356 original size:33 final size:32
Alignment explanation
Indices: 153298--153363 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
153288 GATTGCTCGG
* *
153298 ATGGTATCTATACCCCCCATAGTATCGATACC
1 ATGGTATCGATACCCCCCAGAGTATCGATACC
* *
153330 ATGGTATCGATACCCCCCAGGGGTATCTATACC
1 ATGGTATCGATACCCCCCA-GAGTATCGATACC
153363 A
1 A
153364 CCTGGATGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGGTATCGATACCCCCCAGAGTATCGATACC
Found at i:153422 original size:21 final size:21
Alignment explanation
Indices: 153396--153435 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
153386 ATTTGAATTT
*
153396 TATGAAGGAGTACCGATACCC
1 TATGAAGGAGTACCAATACCC
*
153417 TATGAAGGGGTACCAATAC
1 TATGAAGGAGTACCAATAC
153436 TCCCTATCGT
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:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (21 bp):
TATGAAGGAGTACCAATACCC
Found at i:153504 original size:20 final size:22
Alignment explanation
Indices: 153466--153505 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
153456 TTTGAGCAGA
153466 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
153488 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
153506 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:154671 original size:19 final size:20
Alignment explanation
Indices: 154647--154694 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
154637 AGTGATTTTC
* *
154647 TTTTGAAAGCAAAAATG-GA
1 TTTTGAAAACAAAAATGAAA
*
154666 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
154686 TTTTGAAAA
1 TTTTGAAAA
154695 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:155897 original size:19 final size:20
Alignment explanation
Indices: 155873--155920 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
155863 AGTGATTTTC
* *
155873 TTTTGAAATCAAAAATG-GA
1 TTTTGAAAACAAAAATGAAA
*
155892 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
155912 TTTTGAAAA
1 TTTTGAAAA
155921 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:157083 original size:21 final size:21
Alignment explanation
Indices: 157057--157096 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
157047 CACCAATTGG
157057 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
157078 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
157097 CATTAAACAT
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:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:157230 original size:29 final size:30
Alignment explanation
Indices: 157205--157263 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
157195 AACAATTTAA
*
157205 GGAAAAAATGTTTTTGGACTTGAATTGAAT
1 GGAAAAAATGTTTTTGGACTTAAATTGAAT
** *
157235 TTACAAAATGTTTTTGGACTTAAATTGAA
1 GGAAAAAATGTTTTTGGACTTAAATTGAA
157264 GTTTTAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (30 bp):
GGAAAAAATGTTTTTGGACTTAAATTGAAT
Found at i:157418 original size:18 final size:18
Alignment explanation
Indices: 157395--157446 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
157385 TATTGCTCGG
157395 ATGGTATCTATACCCCCC
1 ATGGTATCTATACCCCCC
*
157413 ATGGTATCGATA--CCCC
1 ATGGTATCTATACCCCCC
*
157429 AGGGGTATCTATACCCCC
1 A-TGGTATCTATACCCCC
157447 TGGATGCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 5 0.18
17 9 0.32
18 11 0.39
19 3 0.11
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.25
Consensus pattern (18 bp):
ATGGTATCTATACCCCCC
Found at i:165046 original size:227 final size:228
Alignment explanation
Indices: 164649--165105 Score: 826
Period size: 227 Copynumber: 2.0 Consensus size: 228
164639 AGTCTTATGT
* *
164649 TCAAAATCAATGAAATAGAGAGTTTAGAAAAATTTACCTTGAAAGATGAGATTGAGTGGATTTTG
1 TCAAAATCAATGAAATACAGAGTTTAGAAAAAATTACCTTGAAAGATGAGATTGAGTGGATTTTG
*
164714 ATGTTTTTTTGCACGATTTTAATGATGCTAGCAAGTTTAGAAGATGATATTTGAAGAGAATTCCG
66 ATG-TTTTTTGCACGATTTTAATGATGCTAGCAAGTTTAGAAGATGATAATTGAAGAGAATTCCG
* *
164779 ATTAAAAACGTTGTTTTGAGGCAAGAATGAAGATAGGGAGATTAGAGAGGGGAAACGGCGGAAGA
130 ATTAAAAACGTTGTTTTGAGGCAAGAATGAAGATAGGGAGATTAGAGAGAGGAAACGACGGAAGA
*
164844 GAAGAGAAGAGAGGTTTTGAGCCAAAATCAAGGG
195 GAAGAGAAGAGAGGTTTTGAGCCAAAACCAAGGG
164878 TCAAAATCAATGAAATACAGAGTTTAGAAAAAATTACCTTGAAAGATGAGATTGAGTGGATTTTG
1 TCAAAATCAATGAAATACAGAGTTTAGAAAAAATTACCTTGAAAGATGAGATTGAGTGGATTTTG
*
164943 ATG-TTTTTGCACGATTTTAATGATGCTGGCAAGTTTAGAAGATGATAATTGAAGAGAATTCCGA
66 ATGTTTTTTGCACGATTTTAATGATGCTAGCAAGTTTAGAAGATGATAATTGAAGAGAATTCCGA
*
165007 TTAAAAACGTTGTTTTGAGGCAAGAATGGAGATAGGGAGATTAGAGAGAGGAAACGACGGAAGAG
131 TTAAAAACGTTGTTTTGAGGCAAGAATGAAGATAGGGAGATTAGAGAGAGGAAACGACGGAAGAG
165072 AAGAGAAGAGAGGTTTTGAGCCAAAACCAAGGG
196 AAGAGAAGAGAGGTTTTGAGCCAAAACCAAGGG
165105 T
1 T
165106 TCTGCCCGAT
Statistics
Matches: 220, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
227 154 0.70
229 66 0.30
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (228 bp):
TCAAAATCAATGAAATACAGAGTTTAGAAAAAATTACCTTGAAAGATGAGATTGAGTGGATTTTG
ATGTTTTTTGCACGATTTTAATGATGCTAGCAAGTTTAGAAGATGATAATTGAAGAGAATTCCGA
TTAAAAACGTTGTTTTGAGGCAAGAATGAAGATAGGGAGATTAGAGAGAGGAAACGACGGAAGAG
AAGAGAAGAGAGGTTTTGAGCCAAAACCAAGGG
Found at i:165157 original size:21 final size:21
Alignment explanation
Indices: 165131--165170 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
165121 CAGAACCCCA
*
165131 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
165152 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
165171 TCAAAGGGGG
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:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:169065 original size:22 final size:21
Alignment explanation
Indices: 169023--169062 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
169013 GAGTTTATTT
*
169023 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
169044 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
169063 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:175300 original size:90 final size:88
Alignment explanation
Indices: 175182--175351 Score: 277
Period size: 90 Copynumber: 1.9 Consensus size: 88
175172 TCCCGAATAT
* * *
175182 TTAATTTCAATTAATTAAATATATATTTAATTAATTTAAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATCAAATATAAATTTAATTAATTTAAAATAATAAAA-CCCTAATATGATTAG
175247 GGTAACTTGGATATAAGAGGATTA
65 GGTAACTTGGATATAAGAGGATTA
*
175271 TTAAATTCTAATTAATCAAATATAAATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATCAAATATAAATTTAATTAATTTAAAATAATAAAACCCTAATATGATTAG
*
175336 GGTAACTTGGCTATAA
65 GGTAACTTGGATATAA
175352 AAGGGTGTGT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 37 0.49
90 38 0.51
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATCAAATATAAATTTAATTAATTTAAAATAATAAAACCCTAATATGATTAGG
GTAACTTGGATATAAGAGGATTA
Found at i:175764 original size:21 final size:21
Alignment explanation
Indices: 175735--175774 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
175725 TTTGAGCAGA
175735 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCC-AACGGCTCC
*
175757 AAAA-CATCCTCAACGGCT
1 AAAATCATCCCCAACGGCT
175775 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:177609 original size:16 final size:16
Alignment explanation
Indices: 177588--177620 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
177578 TAACCCATAT
177588 ATATATATTAACATTC
1 ATATATATTAACATTC
177604 ATATATATTAACATTC
1 ATATATATTAACATTC
177620 A
1 A
177621 CGTTGCCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATTAACATTC
Found at i:182483 original size:25 final size:25
Alignment explanation
Indices: 182455--182526 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
182445 ATTTTAAATT
182455 ACACTTTTAAAAATTCTTTTTTACA
1 ACACTTTTAAAAATTCTTTTTTACA
* *
182480 ACACTTTTAAAAATACTTTTCTACA
1 ACACTTTTAAAAATTCTTTTTTACA
* *
182505 ACATTTTTAAAAGTTCTTTTTT
1 ACACTTTTAAAAATTCTTTTTT
182527 CTTAAGTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.35, C:0.15, G:0.01, T:0.49
Consensus pattern (25 bp):
ACACTTTTAAAAATTCTTTTTTACA
Found at i:189899 original size:12 final size:12
Alignment explanation
Indices: 189882--189914 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
189872 TTTAGATTCA
189882 TGAACAGTGTTG
1 TGAACAGTGTTG
189894 TGAACAGTGTTG
1 TGAACAGTGTTG
189906 TGAACAGTG
1 TGAACAGTG
189915 AAAAATAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.33, T:0.30
Consensus pattern (12 bp):
TGAACAGTGTTG
Found at i:193523 original size:6 final size:6
Alignment explanation
Indices: 193512--193550 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
193502 GCCAAAAGAT
193512 TCACAC TCACAC TCACAC TCACAC TCACAC TCACAC TCA
1 TCACAC TCACAC TCACAC TCACAC TCACAC TCACAC TCA
193551 ACTATGTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.18
Consensus pattern (6 bp):
TCACAC
Found at i:197950 original size:16 final size:17
Alignment explanation
Indices: 197918--197950 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
197908 TATGTTACAT
*
197918 GTGTCATAGGTATTAAA
1 GTGTCATAGGAATTAAA
197935 GTGTCAT-GGAATTAAA
1 GTGTCATAGGAATTAAA
197951 ATATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (17 bp):
GTGTCATAGGAATTAAA
Found at i:198855 original size:19 final size:16
Alignment explanation
Indices: 198821--198851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
198811 TACAAAATCT
198821 AATAATTCATAATATA
1 AATAATTCATAATATA
*
198837 AATAATTCATTATAT
1 AATAATTCATAATAT
198852 TATAGTCAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAATTCATAATATA
Found at i:199153 original size:2 final size:2
Alignment explanation
Indices: 199146--199175 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
199136 AGGAGGCATC
199146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
199176 ATAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:199359 original size:13 final size:14
Alignment explanation
Indices: 199341--199369 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
199331 GGGTCGACGA
199341 GTCAAC-GGGTCGG
1 GTCAACTGGGTCGG
199354 GTCAACTGGGTCGG
1 GTCAACTGGGTCGG
199368 GT
1 GT
199370 AGTTTTGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.21
Consensus pattern (14 bp):
GTCAACTGGGTCGG
Found at i:199931 original size:28 final size:28
Alignment explanation
Indices: 199876--199932 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
199866 ACTTGGAGAT
*
199876 ATTTTAGGTCATTTTACACTTTAAGGGC
1 ATTTTAGGTCATTTTACACTTCAAGGGC
* *
199904 ATTTTGGGTCATTTTACACTTCAGGGGC
1 ATTTTAGGTCATTTTACACTTCAAGGGC
199932 A
1 A
199933 ATTCTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (28 bp):
ATTTTAGGTCATTTTACACTTCAAGGGC
Found at i:203648 original size:35 final size:35
Alignment explanation
Indices: 203594--203661 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
203584 AACACATTCA
*
203594 TCAATTTCATTCTAAACCCCAAATTCTAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCTAAAATAAT
* *
203629 TCAATTACATTTTAGACCCCAAATTCTAAAATA
1 TCAATTACATTCTAAACCCCAAATTCTAAAATA
203662 CTTTAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.34
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCTAAAATAAT
Found at i:203700 original size:28 final size:28
Alignment explanation
Indices: 203668--203728 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
203658 AATACTTTAA
203668 TTTAGGGTTTAGAATATAATTAAAGTAT
1 TTTAGGGTTTAGAATATAATTAAAGTAT
203696 TTTAGGGTTTAGAATATAATTAAAGTAT
1 TTTAGGGTTTAGAATATAATTAAAGTAT
203724 TTTAG
1 TTTAG
203729 AATTTGGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (28 bp):
TTTAGGGTTTAGAATATAATTAAAGTAT
Found at i:203739 original size:35 final size:35
Alignment explanation
Indices: 203700--203768 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
203690 AAGTATTTTA
203700 GGGTTTAGAATATAATTAAAGTATTTTAGAATTTG
1 GGGTTTAGAATATAATTAAAGTATTTTAGAATTTG
* *
203735 GGGTTTAGAATATAATTAAAGTGTTTTGGAATTT
1 GGGTTTAGAATATAATTAAAGTATTTTAGAATTT
203769 TGAACATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (35 bp):
GGGTTTAGAATATAATTAAAGTATTTTAGAATTTG
Found at i:212892 original size:19 final size:20
Alignment explanation
Indices: 212857--212894 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
212847 TTTTTATTTG
212857 ATTTTTTTCATTGTGCATTA
1 ATTTTTTTCATTGTGCATTA
*
212877 ATTTTTTTC-TTTTGCATT
1 ATTTTTTTCATTGTGCATT
212895 GAACTGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.16, C:0.11, G:0.08, T:0.66
Consensus pattern (20 bp):
ATTTTTTTCATTGTGCATTA
Found at i:214231 original size:15 final size:15
Alignment explanation
Indices: 214211--214241 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
214201 CTGACAACCG
214211 TCAGCCGCATTTCCT
1 TCAGCCGCATTTCCT
214226 TCAGCCGCATTTCCT
1 TCAGCCGCATTTCCT
214241 T
1 T
214242 TTTAAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.39, G:0.13, T:0.35
Consensus pattern (15 bp):
TCAGCCGCATTTCCT
Found at i:225589 original size:21 final size:19
Alignment explanation
Indices: 225561--225606 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
225551 TCATTGAATC
225561 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
225581 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
225600 ACTTAGT
1 A-TTAGT
225607 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:226093 original size:10 final size:10
Alignment explanation
Indices: 226080--226153 Score: 58
Period size: 10 Copynumber: 6.9 Consensus size: 10
226070 TCAAATGGTC
226080 TCAGCATATT
1 TCAGCATATT
*
226090 TCAGCATATC
1 TCAGCATATT
*
226100 TCAACATATT
1 TCAGCATATT
*
226110 TCAACAATATAT
1 TCAGC-ATAT-T
* *
226122 CTTAACATATT
1 -TCAGCATATT
226133 TCATAGCATATT
1 TC--AGCATATT
226145 TCAGCATAT
1 TCAGCATAT
226154 CTCAACAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
10 30 0.57
11 5 0.09
12 14 0.26
13 4 0.08
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.38
Consensus pattern (10 bp):
TCAGCATATT
Found at i:226107 original size:20 final size:21
Alignment explanation
Indices: 226078--226161 Score: 64
Period size: 23 Copynumber: 3.9 Consensus size: 21
226068 TCTCAAATGG
* *
226078 TCTCAGCATATTTCAGC-ATA
1 TCTCAACATATTTCAACAATA
226098 TCTCAACATATTTCAACAATATA
1 TCTCAACATATTTCAAC-A-ATA
*
226121 TCTTAACATATTTCATAGC-ATA
1 TCTCAACATATTTCA-A-CAATA
* * *
226143 TTTCAGCATATCTCAACAA
1 TCTCAACATATTTCAACAA
226162 AAATATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
20 16 0.31
21 2 0.04
22 14 0.27
23 17 0.33
24 1 0.02
25 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (21 bp):
TCTCAACATATTTCAACAATA
Found at i:228029 original size:30 final size:30
Alignment explanation
Indices: 227962--228029 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
227952 TCAACACTAT
* *
227962 TCATTTT-AGCAGTATTCATTTCTACACCA
1 TCATTTTCAGCAGTATCCATTTCTACAACA
* * * *
227991 CCACTTTCAGCATTATCCATTTCTATAACA
1 TCATTTTCAGCAGTATCCATTTCTACAACA
228021 TCATTTTCA
1 TCATTTTCA
228030 AAACTACAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.41
Consensus pattern (30 bp):
TCATTTTCAGCAGTATCCATTTCTACAACA
Found at i:231819 original size:21 final size:22
Alignment explanation
Indices: 231789--231834 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
231779 TTTAATATTT
*
231789 AAAAAGATCAACT-ATTTTAAA
1 AAAAAAATCAACTCATTTTAAA
231810 AAAAAAATCAACTCATTTTAAA
1 AAAAAAATCAACTCATTTTAAA
231832 AAA
1 AAA
231835 TAATATCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAAAATCAACTCATTTTAAA
Found at i:241302 original size:27 final size:27
Alignment explanation
Indices: 241272--241323 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
241262 TCTCTCGGTC
* * *
241272 TCGTATCCATTATTGTTGTAGTTGCCG
1 TCGTAGCCATTAGTATTGTAGTTGCCG
*
241299 TCGTAGCCATTGGTATTGTAGTTGC
1 TCGTAGCCATTAGTATTGTAGTTGC
241324 TGAGGGTGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.42
Consensus pattern (27 bp):
TCGTAGCCATTAGTATTGTAGTTGCCG
Found at i:243665 original size:18 final size:18
Alignment explanation
Indices: 243627--243665 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
243617 TTATTATAAG
*
243627 TTATAAAATAATCTTTGA
1 TTATAAAATAATATTTGA
* *
243645 TTATAAAATATTATTTTA
1 TTATAAAATAATATTTGA
243663 TTA
1 TTA
243666 AACTCTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATAAAATAATATTTGA
Found at i:243688 original size:57 final size:59
Alignment explanation
Indices: 243585--243695 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
243575 CACATTCGTT
* * * * *
243585 ATTATATAATATTGTTTTGTTAAATTCTATAATTATTATAAGTTATAAAATAATCTTTG
1 ATTATAAAATATTATTTTATTAAACTCTATAATTATTAAAAGTTATAAAATAATCTTTG
* *
243644 ATTATAAAATATTATTTTATTAAACTCT-T-ATTATTAAAATTTATAACATAAT
1 ATTATAAAATATTATTTTATTAAACTCTATAATTATTAAAAGTTATAAAATAAT
243696 TATTCGATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 20 0.44
58 1 0.02
59 24 0.53
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.50
Consensus pattern (59 bp):
ATTATAAAATATTATTTTATTAAACTCTATAATTATTAAAAGTTATAAAATAATCTTTG
Found at i:253284 original size:38 final size:34
Alignment explanation
Indices: 253233--253312 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 34
253223 CAGTTAAATT
253233 CTGAAATCAACTTACAAATCGTCATCATCATCTTAATC
1 CTGAAA-CAACTTACAAA---TCATCATCATCTTAATC
253271 CTGAAACAAACTTACAAATCATCATCATCTTAATC
1 CTGAAAC-AACTTACAAATCATCATCATCTTAATC
253306 CTGAAAC
1 CTGAAAC
253313 CAACACTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
35 24 0.59
37 1 0.02
38 16 0.39
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.29
Consensus pattern (34 bp):
CTGAAACAACTTACAAATCATCATCATCTTAATC
Found at i:264594 original size:14 final size:15
Alignment explanation
Indices: 264567--264595 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
264557 TCTTTAAACC
264567 TAAATGGAAGAAAAA
1 TAAATGGAAGAAAAA
264582 TAAATGG-AGAAAAA
1 TAAATGGAAGAAAAA
264596 GATATCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.14
Consensus pattern (15 bp):
TAAATGGAAGAAAAA
Found at i:266429 original size:24 final size:23
Alignment explanation
Indices: 266397--266455 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
266387 CAAGATCTTT
266397 ATTGAAGCTCGAGACTCGAGCTCG
1 ATTGAAGCTCGA-ACTCGAGCTCG
** *
266421 ATTGAAGCTCGATTTTGAGCTCG
1 ATTGAAGCTCGAACTCGAGCTCG
*
266444 ATTCAAGCTCGA
1 ATTGAAGCTCGA
266456 TTCAAGCTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (23 bp):
ATTGAAGCTCGAACTCGAGCTCG
Found at i:266431 original size:11 final size:11
Alignment explanation
Indices: 266415--266466 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
266405 TCGAGACTCG
*
266415 AGCTCGATTGA
1 AGCTCGATTCA
**
266426 AGCTCGATTTTG
1 AGCTCGA-TTCA
266438 AGCTCGATTCA
1 AGCTCGATTCA
266449 AGCTCGATTCA
1 AGCTCGATTCA
266460 AGCTCGA
1 AGCTCGA
266467 ACTCAAACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
11 27 0.75
12 9 0.25
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:266444 original size:23 final size:23
Alignment explanation
Indices: 266414--266457 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
266404 CTCGAGACTC
*
266414 GAGCTCGATTGAAGCTCGATTTT
1 GAGCTCGATTCAAGCTCGATTTT
266437 GAGCTCGATTCAAGCTCGATT
1 GAGCTCGATTCAAGCTCGATT
266458 CAAGCTCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
GAGCTCGATTCAAGCTCGATTTT
Done.