Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008192.1 Hibiscus syriacus cultivar Beakdansim tig00110809_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: 1702141
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:1166 original size:11 final size:11
Alignment explanation
Indices: 1150--1219 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
1140 AAGAAAAAAG
1150 GAAAAAAGAAA
1 GAAAAAAGAAA
1161 GAAAAAAGAAA
1 GAAAAAAGAAA
1172 -AGAAAAAGAAA
1 GA-AAAAAGAAA
*
1183 -AAAATAGAAA
1 GAAAAAAGAAA
*
1193 -AATGAAA-AAA
1 GAA-AAAAGAAA
1203 GAGAAAAAG-AA
1 GA-AAAAAGAAA
1214 GAAAAA
1 GAAAAA
1220 GGGGGGGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
10 18 0.36
11 31 0.62
12 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:1174 original size:16 final size:15
Alignment explanation
Indices: 1140--1220 Score: 69
Period size: 15 Copynumber: 5.2 Consensus size: 15
1130 ATTATGCTTG
*
1140 AAGAAAAAAGGAAAA
1 AAGAAAAAAGAAAAA
1155 AAGAAAGAAA-AAAGAA
1 AAGAAA-AAAGAAA-AA
1171 AAG-AAAAAGAAAAAA
1 AAGAAAAAAG-AAAAA
*
1186 ATAGAAAAATG-AAAA
1 A-AGAAAAAAGAAAAA
1201 AAGAGAAAAAGAAGAAA
1 AAGA-AAAAAGAA-AAA
1218 AAG
1 AAG
1221 GGGGGGTCAA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
14 6 0.11
15 23 0.43
16 14 0.26
17 11 0.20
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (15 bp):
AAGAAAAAAGAAAAA
Found at i:1186 original size:19 final size:19
Alignment explanation
Indices: 1140--1219 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 19
1130 ATTATGCTTG
*
1140 AAGAAAAAAGGAAA-AAAGA
1 AAGAAAAAA-GAAAGAAAAA
*
1159 AAGAAAAAAGAAA-AGAAA
1 AAGAAAAAAGAAAGAAAAA
*
1177 AAGAAAAAA-ATAG-AAAA
1 AAGAAAAAAGAAAGAAAAA
*
1194 ATGAAAAAAG--AGAAAAA
1 AAGAAAAAAGAAAGAAAAA
1211 GAAGAAAAA
1 -AAGAAAAA
1220 GGGGGGGTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
16 2 0.04
17 17 0.33
18 23 0.45
19 9 0.18
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
AAGAAAAAAGAAAGAAAAA
Found at i:1193 original size:8 final size:7
Alignment explanation
Indices: 1140--1218 Score: 68
Period size: 8 Copynumber: 10.3 Consensus size: 7
1130 ATTATGCTTG
1140 AAGAAAA
1 AAGAAAA
1147 AAGGAAAA
1 AA-GAAAA
1155 AAGAAAGA
1 AAGAAA-A
*
1163 AAAAAGAA
1 AAGAA-AA
1171 AAGAAAA
1 AAGAAAA
*
1178 AGAAAAAA
1 A-AGAAAA
1186 ATAGAAAA
1 A-AGAAAA
*
1194 ATGAAAA
1 AAGAAAA
1201 AAGAGAAA
1 AAGA-AAA
1209 AAGAAGAA
1 AAGAA-AA
1217 AA
1 AA
1219 AGGGGGGGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
7 18 0.31
8 40 0.68
9 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (7 bp):
AAGAAAA
Found at i:2496 original size:83 final size:83
Alignment explanation
Indices: 2357--2627 Score: 497
Period size: 83 Copynumber: 3.3 Consensus size: 83
2347 AAACATTAAA
* *
2357 TGGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGGGTTATCTGATCTGGTTTAGC
1 TGGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
2422 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
2440 TGGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TGGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
2505 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
* * *
2523 TGGAAGATGAATTTGCTAATAACATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TGGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
2588 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
2606 TGGAAGATGAATTTGCTCATAG
1 TGGAAGATGAATTTGCTCATAG
2628 TAGAAATAAG
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 181 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (83 bp):
TGGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
AGAACCAATCATTGAATT
Found at i:3629 original size:113 final size:113
Alignment explanation
Indices: 3445--4277 Score: 1368
Period size: 113 Copynumber: 7.4 Consensus size: 113
3435 TAGATTGACA
3445 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
3510 AGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
66 AGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
*
3558 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
3623 AGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
66 AGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
3671 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
3736 AGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
66 AGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
3784 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
3849 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
66 AGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
3897 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
3962 AGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAGCC
66 AGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
* *
4010 TTTCCAGAAAAAGTTCATAATGA-AATGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAA-GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* * * * *
4074 AAGAATTTGTTCAACCTTTTG-CTCAAATCTATCACTTGATAGATTAGCT
65 AAGAACTTGTTCAACCTTTTGCCTGAATTC-ATCACTTGATGGATCAGCT
**** * * *
4123 TTTCCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAATGATGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * * *
4188 AGAATTTGTTCAGA-TTTTTG-CTCAAATCCATCACTTGATGGATCAACT
66 AGAACTTGTTCA-ACCTTTTGCCT-GAATTCATCACTTGATGGATCAGCT
* *
4236 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
4278 AGAACTTGTT
Statistics
Matches: 678, Mismatches: 37, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
112 8 0.01
113 664 0.98
114 6 0.01
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
Found at i:4651 original size:21 final size:21
Alignment explanation
Indices: 4625--4736 Score: 122
Period size: 21 Copynumber: 5.5 Consensus size: 21
4615 CCATATTGAT
*
4625 TTATTATTATAATTATAATTA
1 TTATTATTATAATTATTATTA
* *
4646 TTATTATTATAATTACTATAA
1 TTATTATTATAATTATTATTA
* *
4667 ATATTATTATTATTATTATTA
1 TTATTATTATAATTATTATTA
* *
4688 CTA-TA-AAT-ATTATTATTA
1 TTATTATTATAATTATTATTA
* *
4706 TTACTATTATAAATATTATTA
1 TTATTATTATAATTATTATTA
4727 TTATTATTAT
1 TTATTATTAT
4737 TAAATATATA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
18 12 0.16
19 4 0.05
20 4 0.05
21 55 0.73
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTATTATAATTATTATTA
Found at i:4653 original size:6 final size:6
Alignment explanation
Indices: 4625--4738 Score: 120
Period size: 6 Copynumber: 19.0 Consensus size: 6
4615 CCATATTGAT
* * * * * *
4625 TTATTA TTATAA TTATAA TTATTA TTATTA TAATTA CTATAA ATATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * * * *
4673 TTATTA TTATTA TTACTA TAAATA TTATTA TTATTA CTATTA TAAATA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
4721 TTATTA TTATTA TTATTA
1 TTATTA TTATTA TTATTA
4739 AATATATATA
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 88 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (6 bp):
TTATTA
Found at i:4737 original size:24 final size:24
Alignment explanation
Indices: 4625--4738 Score: 156
Period size: 24 Copynumber: 4.6 Consensus size: 24
4615 CCATATTGAT
* *
4625 TTATTATTATAATTATAATTATTA
1 TTATTATTATTATTATAAATATTA
* *
4649 TTATTATAATTACTATAAATATTA
1 TTATTATTATTATTATAAATATTA
4673 TTATTATTATTATTACTATAAATATTA
1 TTATTATTATTA-T--TATAAATATTA
*
4700 TTATTATTACTATTATAAATATTA
1 TTATTATTATTATTATAAATATTA
4724 TTATTATTATTATTA
1 TTATTATTATTATTA
4739 AATATATATA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
24 56 0.71
26 1 0.01
27 22 0.28
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (24 bp):
TTATTATTATTATTATAAATATTA
Found at i:4872 original size:16 final size:16
Alignment explanation
Indices: 4853--4893 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
4843 CTCTAACCCT
*
4853 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCCCC
4869 AGCCGCCTCTGCCCCC
1 AGCCGCCTCTGCCCCC
*
4885 AACCGCCTC
1 AGCCGCCTC
4894 AGCCAATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.59, G:0.17, T:0.15
Consensus pattern (16 bp):
AGCCGCCTCTGCCCCC
Found at i:6113 original size:13 final size:13
Alignment explanation
Indices: 6097--6136 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
6087 ATATAATAAA
6097 TAAATATTTATTT
1 TAAATATTTATTT
*
6110 TAAATAAATTATTT
1 TAAAT-ATTTATTT
6124 T-AATATTTATTT
1 TAAATATTTATTT
6136 T
1 T
6137 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:7667 original size:15 final size:16
Alignment explanation
Indices: 7635--7674 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
7625 AAATCCAAAT
*
7635 AAAATAGATTTGTTTAA
1 AAAATA-ATTTGTATAA
7652 AAAATAATTTG-ATAA
1 AAAATAATTTGTATAA
7667 AAAATAAT
1 AAAATAAT
7675 AGCAAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 5 0.23
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (16 bp):
AAAATAATTTGTATAA
Found at i:11391 original size:3 final size:3
Alignment explanation
Indices: 11383--11413 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11373 TAAAAATGTC
11383 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
11414 ATACCCTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:11464 original size:29 final size:29
Alignment explanation
Indices: 11431--11491 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
11421 AAATTCTTGA
* *
11431 TAGTGACTAAAATATAAGTTTTAAAAGTT
1 TAGTGACTAAAATATAAATTGTAAAAGTT
* *
11460 TAGTGATTAAAGTATAAATTGTAAAAGTT
1 TAGTGACTAAAATATAAATTGTAAAAGTT
11489 TAG
1 TAG
11492 AGATCAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.38
Consensus pattern (29 bp):
TAGTGACTAAAATATAAATTGTAAAAGTT
Found at i:11508 original size:29 final size:29
Alignment explanation
Indices: 11438--11502 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
11428 TGATAGTGAC
* * *
11438 TAAAA-TATAAGTTTTAAAAGTTTAGTGA
1 TAAAAGTATAAATTGTAAAAGTTTAGAGA
*
11466 TTAAAGTATAAATTGTAAAAGTTTAGAGA
1 TAAAAGTATAAATTGTAAAAGTTTAGAGA
11495 TCAAAAGT
1 T-AAAAGT
11503 GTAATTTTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 4 0.13
29 21 0.70
30 5 0.17
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (29 bp):
TAAAAGTATAAATTGTAAAAGTTTAGAGA
Found at i:11718 original size:17 final size:17
Alignment explanation
Indices: 11696--11728 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11686 ATAAGTGTTA
11696 GAAATATTATTTCCATG
1 GAAATATTATTTCCATG
11713 GAAATATTATTTCCAT
1 GAAATATTATTTCCAT
11729 ATTTTAGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (17 bp):
GAAATATTATTTCCATG
Found at i:12463 original size:13 final size:13
Alignment explanation
Indices: 12447--12472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12437 ATGCTTGAAA
12447 TTGAATGTAAATC
1 TTGAATGTAAATC
12460 TTGAATGTAAATC
1 TTGAATGTAAATC
12473 AAGCCCTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGAATGTAAATC
Found at i:15411 original size:64 final size:64
Alignment explanation
Indices: 15342--15548 Score: 256
Period size: 64 Copynumber: 3.2 Consensus size: 64
15332 ATGCACAGGA
**
15342 AGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTGCATAGATGCATAAG
1 AGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTCGTGCATAGATGCATAAG
15405 T
64 T
* *
15406 AGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTCGTGCATCGATGCATAAGT
1 AGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGCATAGATGCATAAGT
* * * * * ** ** *
15470 AGTGCATCGATGCATCCCAGTAATAATACAACATCAAATACATTTTATGCACCGATGCATCAGT
1 AGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGCATAGATGCATAAGT
15534 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
15549 ACCTTCATTA
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
64 121 0.95
65 6 0.05
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (64 bp):
AGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGCATAGATGCATAAGT
Found at i:16241 original size:31 final size:31
Alignment explanation
Indices: 16203--16265 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
16193 AGGGTCGAGG
*
16203 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTAGGTTCTTCGGGACATATGGACT
**
16234 GTTTACCTAGGTTCTTCGGGATTTATGGACT
1 GTTTACCTAGGTTCTTCGGGACATATGGACT
16265 G
1 G
16266 GTCCTTCGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.40
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGGACATATGGACT
Found at i:19009 original size:64 final size:64
Alignment explanation
Indices: 18932--19108 Score: 248
Period size: 64 Copynumber: 2.8 Consensus size: 64
18922 TAAAATAAAT
*
18932 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGA-A
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAAT-ACA
18996 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAATACA
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAATACA
* * * ** * * * *
19060 ACATTGAATACATTTTATGTACCGATACATCAGTAGTGCATCGATGCAT
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCAT
19109 ACCTTCATTA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
63 1 0.01
64 101 0.99
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (64 bp):
ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAATACA
Found at i:19801 original size:31 final size:31
Alignment explanation
Indices: 19763--19887 Score: 205
Period size: 31 Copynumber: 4.0 Consensus size: 31
19753 AGGGTCGAGG
19763 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
19794 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
19825 GTTTACCTATGTTATTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* **
19856 GTTTACCTAGGTTCTTCGGGATTTATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
19887 G
1 G
19888 GTCCTTCGTG
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 87 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:22605 original size:21 final size:21
Alignment explanation
Indices: 22576--22616 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22566 CTGACTATCG
22576 CATTACGATTTTCCAAATTCT
1 CATTACGATTTTCCAAATTCT
* *
22597 CATTGCGATTTTCCTAATTC
1 CATTACGATTTTCCAAATTC
22617 GTAATGCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (21 bp):
CATTACGATTTTCCAAATTCT
Found at i:22624 original size:21 final size:21
Alignment explanation
Indices: 22581--22625 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22571 TATCGCATTA
*
22581 CGATTTTCCAAATTCTCATTG
1 CGATTTTCCAAATTCTCAATG
*
22602 CGATTTTCCTAATTCGT-AATG
1 CGATTTTCCAAATTC-TCAATG
22623 CGA
1 CGA
22626 ATACGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (21 bp):
CGATTTTCCAAATTCTCAATG
Found at i:22644 original size:20 final size:20
Alignment explanation
Indices: 22619--22707 Score: 160
Period size: 20 Copynumber: 4.5 Consensus size: 20
22609 CCTAATTCGT
22619 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
22639 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
22659 AATGCGAATACATAAATCGC
1 AATGCGAATACGTAAATCGC
22679 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
22699 AACGCGAAT
1 AATGCGAAT
22708 CTGACTATCG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (20 bp):
AATGCGAATACGTAAATCGC
Found at i:22928 original size:22 final size:21
Alignment explanation
Indices: 22903--22966 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 21
22893 GGCGACATCC
22903 GTCCCAATCTCCGACGAAATCA
1 GTCCC-ATCTCCGACGAAATCA
* *
22925 GTCCCCATCTCTGACGATATCA
1 GT-CCCATCTCCGACGAAATCA
22947 GTCTCCATCTCCGACGAAAT
1 GTC-CCATCTCCGACGAAAT
22967 AATTCACGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.89
23 3 0.08
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (21 bp):
GTCCCATCTCCGACGAAATCA
Found at i:23372 original size:20 final size:20
Alignment explanation
Indices: 23306--23374 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
23296 GATTCTGTCA
*
23306 TTGCGATTTTCA-TTTCGCG
1 TTGCGATTTTCATTTTCGTG
* **
23325 TTGTGATAGTCATTTTCGTG
1 TTGCGATTTTCATTTTCGTG
*
23345 TTGCGATTTTCATTTTTGTG
1 TTGCGATTTTCATTTTCGTG
23365 TTGCGATTTT
1 TTGCGATTTT
23375 AAGTTTCAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 9 0.22
20 32 0.78
ACGTcount: A:0.12, C:0.13, G:0.22, T:0.54
Consensus pattern (20 bp):
TTGCGATTTTCATTTTCGTG
Found at i:25226 original size:20 final size:20
Alignment explanation
Indices: 25201--25357 Score: 135
Period size: 20 Copynumber: 8.5 Consensus size: 20
25191 AGAATAGTTT
25201 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
25221 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
25241 ACTATCGCAAT--G-AGA-G
1 ACTATCGCAATGCGAAAATG
25257 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
25274 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
* *
25290 A--ATTGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
25308 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
25328 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
25348 ACTATCGCAA
1 ACTATCGCAA
25358 CGAAAGAATC
Statistics
Matches: 114, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
14 14 0.12
16 9 0.08
17 8 0.07
18 4 0.04
19 7 0.06
20 72 0.63
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:25262 original size:34 final size:34
Alignment explanation
Indices: 25224--25378 Score: 143
Period size: 34 Copynumber: 4.4 Consensus size: 34
25214 GAAAATGACT
* * *
25224 ATCGCAACGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
** *
25258 ATCGCAATGCG-AAATGAAAATCGCAAC-AACAAA
1 ATCGCAATGCGAAAATGACTATCGCAACGAA-AGA
* *
25291 ATTGCAACGCGAAAATGACTATCGCAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAA--CG-AAA-GA
**
25329 CTATCGCAATGCGAATTTGACTATCGCAACGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
25365 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
25379 TGAAAATCGC
Statistics
Matches: 96, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
32 1 0.01
33 24 0.25
34 36 0.38
36 3 0.03
37 4 0.04
38 5 0.05
40 23 0.24
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.17
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:25433 original size:20 final size:20
Alignment explanation
Indices: 25408--25493 Score: 154
Period size: 20 Copynumber: 4.3 Consensus size: 20
25398 CTCTCGTTGT
25408 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
25428 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
25448 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
**
25468 GATAGTCATTTTCGCATTGC
1 GATAGTCAAATTCGCATTGC
25488 GATAGT
1 GATAGT
25494 GATTTTAGCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGC
Found at i:25498 original size:20 final size:20
Alignment explanation
Indices: 25408--25530 Score: 147
Period size: 20 Copynumber: 6.2 Consensus size: 20
25398 CTCTCGTTGT
**
25408 GATAGTCAAATTCGCATTGC
1 GATAGTCATTTTCGCATTGC
**
25428 GATAGTCAAATTCGCATTGC
1 GATAGTCATTTTCGCATTGC
**
25448 GATAGTCAAATTCGCATTGC
1 GATAGTCATTTTCGCATTGC
25468 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
* * *
25488 GATAGTGATTTTAGCGTTGC
1 GATAGTCATTTTCGCATTGC
* *
25508 GATAGTCATTTCCGCGTTGC
1 GATAGTCATTTTCGCATTGC
25528 GAT
1 GAT
25531 TTTAAGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 95 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (20 bp):
GATAGTCATTTTCGCATTGC
Found at i:25819 original size:20 final size:20
Alignment explanation
Indices: 25794--25916 Score: 147
Period size: 20 Copynumber: 6.2 Consensus size: 20
25784 CTCTCGTTGT
*
25794 GATAGTTAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
25814 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
25834 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
**
25854 GATAGTCATTTTCGCATTGC
1 GATAGTCAAATTCGCATTGC
* ** * *
25874 GATAGTGATTTTAGCGTTGC
1 GATAGTCAAATTCGCATTGC
** *
25894 GATAGTCATTTTCGCGTTGC
1 GATAGTCAAATTCGCATTGC
25914 GAT
1 GAT
25917 TTTAAGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 95 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGC
Found at i:25838 original size:40 final size:40
Alignment explanation
Indices: 25794--25916 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 40
25784 CTCTCGTTGT
* **
25794 GATAGTTAAATTCGCATTGCGATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGC
25834 GATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGC
1 GATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGC
* ** * * *
25874 GATAGTGATTTTAGCGTTGCGATAGTCATTTTCGCGTTGC
1 GATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGC
25914 GAT
1 GAT
25917 TTTAAGTTTC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (40 bp):
GATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGC
Found at i:26059 original size:386 final size:386
Alignment explanation
Indices: 25346--26114 Score: 1502
Period size: 386 Copynumber: 2.0 Consensus size: 386
25336 AATGCGAATT
25346 TGACTATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCATTGCAATTCTCTCGTTGTGAT
1 TGACTATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCATTGCAATTCTCTCGTTGTGAT
25411 AGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCA
66 AGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCA
25476 TTTTCGCATTGCGATAGTGATTTTAGCGTTGCGATAGTCATTTCCGCGTTGCGATTTTAAGTTTC
131 TTTTCGCATTGCGATAGTGATTTTAGCGTTGCGATAGTCATTTCCGCGTTGCGATTTTAAGTTTC
*
25541 AGATTCTATTCTTCTTCTGCAAATTGAAACTTGAATGAATTGCATTACTTCAACCAAAAGACAAA
196 AGATTCTACTCTTCTTCTGCAAATTGAAACTTGAATGAATTGCATTACTTCAACCAAAAGACAAA
25606 TACTAACTTCACAGTGTTGAAAATTTAAGTTTCAAGAATAAACTACTACTCTTTATGTTGTCATT
261 TACTAACTTCACAGTGTTGAAAATTTAAGTTTCAAGAATAAACTACTACTCTTTATGTTGTCATT
25671 GAACTTGCACTAAACCTATATGTTATCCTTTTAAATGTTTATATAAGTGCTTACTTCTATA
326 GAACTTGCACTAAACCTATATGTTATCCTTTTAAATGTTTATATAAGTGCTTACTTCTATA
25732 TGACTATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCATTGCAATTCTCTCGTTGTGAT
1 TGACTATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCATTGCAATTCTCTCGTTGTGAT
*
25797 AGTTAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCA
66 AGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCA
*
25862 TTTTCGCATTGCGATAGTGATTTTAGCGTTGCGATAGTCATTTTCGCGTTGCGATTTTAAGTTTC
131 TTTTCGCATTGCGATAGTGATTTTAGCGTTGCGATAGTCATTTCCGCGTTGCGATTTTAAGTTTC
25927 AGATTCTACTCTTCTTCTGCAAATTGAAACTTGAATGAATTGCATTACTTCAACCAAAAGACAAA
196 AGATTCTACTCTTCTTCTGCAAATTGAAACTTGAATGAATTGCATTACTTCAACCAAAAGACAAA
25992 TACTAACTTCACAGTGTTGAAAATTTAAGTTTCAAGAATAAACTACTACTCTTTATGTTGTCATT
261 TACTAACTTCACAGTGTTGAAAATTTAAGTTTCAAGAATAAACTACTACTCTTTATGTTGTCATT
*
26057 GAACTTGCACTAAACCTATATGTTATCGTTTTAAATGTTTATATAAGTGCTTACTTCT
326 GAACTTGCACTAAACCTATATGTTATCCTTTTAAATGTTTATATAAGTGCTTACTTCT
26115 GGAATGTTAT
Statistics
Matches: 379, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
386 379 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (386 bp):
TGACTATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCATTGCAATTCTCTCGTTGTGAT
AGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCA
TTTTCGCATTGCGATAGTGATTTTAGCGTTGCGATAGTCATTTCCGCGTTGCGATTTTAAGTTTC
AGATTCTACTCTTCTTCTGCAAATTGAAACTTGAATGAATTGCATTACTTCAACCAAAAGACAAA
TACTAACTTCACAGTGTTGAAAATTTAAGTTTCAAGAATAAACTACTACTCTTTATGTTGTCATT
GAACTTGCACTAAACCTATATGTTATCCTTTTAAATGTTTATATAAGTGCTTACTTCTATA
Found at i:26491 original size:21 final size:21
Alignment explanation
Indices: 26400--26498 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
26390 GACTCACCTG
*
26400 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
26422 T-ATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
26442 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
26463 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
*
26484 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
26499 TCTCTCCCAA
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 55 0.93
22 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:26506 original size:42 final size:42
Alignment explanation
Indices: 26397--26518 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
26387 CCCGACTCAC
* * *
26397 CTGTCATCGTTCAAGAGGCCTC-CCCTATCATTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGTCTCTCCC-ACCATTCAAGAGGCCA
* ** * *
26439 CTATCATCCCTCAAGA-GTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CTCTCCCACCATTCAAGAGGCCA
* * *
26481 CTGTCATCGTTGAAGAGGTCTCTCCCAACATTCTAGAG
1 CTGTCATCGTTCAAGAGGTCTCTCCCACCATTCAAGAG
26519 CCCGATTCAC
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
41 1 0.02
42 55 0.90
43 5 0.08
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGGTCTCTCCCACCATTCAAGAGGCCA
Found at i:28084 original size:33 final size:34
Alignment explanation
Indices: 28047--28122 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
28037 ATAAATGACT
*
28047 ATCGCAACGAGAGAATCGCAATGCG-AAATGAAA
1 ATCGCAACGAGAGAATAGCAATGCGAAAATGAAA
* *
28080 ATCGCAACGAGTGAATAGCGATGCGAAAATGAAA
1 ATCGCAACGAGAGAATAGCAATGCGAAAATGAAA
28114 ATCGCAACG
1 ATCGCAACG
28123 CGAAACTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 22 0.56
34 17 0.44
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.13
Consensus pattern (34 bp):
ATCGCAACGAGAGAATAGCAATGCGAAAATGAAA
Found at i:30549 original size:24 final size:24
Alignment explanation
Indices: 30515--30568 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
30505 CTGAAAAATC
*
30515 ATCAAAATCCGAGTATTGAGCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
30539 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
30563 ATCAAA
1 ATCAAA
30569 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:31434 original size:20 final size:20
Alignment explanation
Indices: 31409--31455 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
31399 AAATTCAGTA
*
31409 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
31429 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
31449 TTGCGAT
1 TTGCGAT
31456 TTACGTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:31465 original size:20 final size:20
Alignment explanation
Indices: 31442--31595 Score: 209
Period size: 20 Copynumber: 7.7 Consensus size: 20
31432 CGATAGTCAG
*
31442 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
**
31462 ATTCGCATTATGATTTACGT
1 ATTCGCATTGCGATTTACGT
31482 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
31502 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
31522 ATTTGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * * **
31542 AATCGCATTACGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
31563 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
31583 ATTCGCATTGCGA
1 ATTCGCATTGCGA
31596 ATTAGGAAAA
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
20 100 0.88
21 14 0.12
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:31615 original size:21 final size:21
Alignment explanation
Indices: 31585--31637 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
31575 ATTTACGTAT
*
31585 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
*
31606 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
31627 TCGCAATGCGA
1 TCGCAATGCGA
31638 TAGTCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:36040 original size:60 final size:59
Alignment explanation
Indices: 35920--36103 Score: 201
Period size: 60 Copynumber: 3.1 Consensus size: 59
35910 TGTATCATAT
* * ** *
35920 ATCCCCAAACTAT-AACCCTCATTTTAAATTGGTAATTAAACTTTTGAATATTATAATTTC
1 ATCCCTAAACTATGAA--CTCATTCTAAATTGGTCCTTAAACTTTTGAATATTCTAATTTC
* * * *
35980 ATCCAC-AAAGTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCTAGTTTC
1 ATCC-CTAAACTATGAA-CTCATTCTAAATTGGTCCTTAAACTTTTGAATATTCTAATTTC
* **
36040 ATCCCTAAACTATGAACTTCTTTCTAAATTGGTCCCCAAACTTTTGAATATTCTAATTTC
1 ATCCCTAAACTATGAAC-TCATTCTAAATTGGTCCTTAAACTTTTGAATATTCTAATTTC
36100 ATCC
1 ATCC
36104 TCGAATTCAT
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
59 2 0.02
60 99 0.95
61 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (59 bp):
ATCCCTAAACTATGAACTCATTCTAAATTGGTCCTTAAACTTTTGAATATTCTAATTTC
Found at i:36398 original size:60 final size:59
Alignment explanation
Indices: 36232--36400 Score: 175
Period size: 60 Copynumber: 2.8 Consensus size: 59
36222 AATATATACA
* * * * *
36232 TATAGTTT-GTGATGAAATTGGAATGTTTTAAAAGTTTGGGGACCAATTTAGAATGCATG
1 TATAGTTTAGGGATGAAATTGAAAT-TTTTAAAAGTTTGAGGACTAATTTAGAATACATG
* * * *
36291 TCATAGTTTATGGG--GATATTGAAATGTTCAAAAGTTTGAGGATTAATTTAGAATAACAAT-
1 T-ATAGTTTA-GGGATGAAATTGAAATTTTTAAAAGTTTGAGGACTAATTTAGAAT-AC-ATG
*
36351 TATAGTTTAGGGATGAAATTGAAATTTTTAAAAGTTTAAGGACTAATTTA
1 TATAGTTTAGGGATGAAATTGAAATTTTTAAAAGTTTGAGGACTAATTTA
36401 AAATGAAAGT
Statistics
Matches: 89, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
58 3 0.03
59 33 0.37
60 49 0.55
61 2 0.02
62 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (59 bp):
TATAGTTTAGGGATGAAATTGAAATTTTTAAAAGTTTGAGGACTAATTTAGAATACATG
Found at i:40412 original size:102 final size:102
Alignment explanation
Indices: 40243--40441 Score: 317
Period size: 102 Copynumber: 2.0 Consensus size: 102
40233 TTGATATAAT
* * * *
40243 GTGGTGTTACCGGTGGGCACTCTAGTATATTTCCGATATGATTGCACTTTGTGTGCAGATTCTGA
1 GTGGTGTTACCGGTAGGCACACTAGTATATTTCAGATATGATTGCACTTTGTGTGCAGATTATGA
* *
40308 TTCTGATGTGATAGCATTGTGTGTGCTTATATATACA
66 TTCTGATATGATAGCATTGTGTGTGCTAATATATACA
* * *
40345 GTGGTGTTACCTGTAGGTACACTAGTATATTTCAGATATGATTGCACTTTGTGTGCATATTATGA
1 GTGGTGTTACCGGTAGGCACACTAGTATATTTCAGATATGATTGCACTTTGTGTGCAGATTATGA
40410 TTCTGATATGATAGCATTGTGTGTGCTAATAT
66 TTCTGATATGATAGCATTGTGTGTGCTAATAT
40442 GGATATATTG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 88 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (102 bp):
GTGGTGTTACCGGTAGGCACACTAGTATATTTCAGATATGATTGCACTTTGTGTGCAGATTATGA
TTCTGATATGATAGCATTGTGTGTGCTAATATATACA
Found at i:40433 original size:35 final size:37
Alignment explanation
Indices: 40379--40499 Score: 142
Period size: 37 Copynumber: 3.3 Consensus size: 37
40369 GTATATTTCA
* *
40379 GATATGATTGCACTT-TGTGTGCATATTAT-GAT-T-CT
1 GATATGATAGCA-TTGTGTGTGC-TAATATGGATATACT
*
40414 GATATGATAGCATTGTGTGTGCTAATATGGATATATT
1 GATATGATAGCATTGTGTGTGCTAATATGGATATACT
* *
40451 GAGATGATAGCATTGTGTGTGCTAATATGGATATATT
1 GATATGATAGCATTGTGTGTGCTAATATGGATATACT
*
40488 GAGATGATAGCA
1 GATATGATAGCA
40500 CTGAAATGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
34 7 0.09
35 21 0.27
36 1 0.01
37 49 0.63
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (37 bp):
GATATGATAGCATTGTGTGTGCTAATATGGATATACT
Found at i:40460 original size:37 final size:37
Alignment explanation
Indices: 40417--40499 Score: 166
Period size: 37 Copynumber: 2.2 Consensus size: 37
40407 TGATTCTGAT
40417 ATGATAGCATTGTGTGTGCTAATATGGATATATTGAG
1 ATGATAGCATTGTGTGTGCTAATATGGATATATTGAG
40454 ATGATAGCATTGTGTGTGCTAATATGGATATATTGAG
1 ATGATAGCATTGTGTGTGCTAATATGGATATATTGAG
40491 ATGATAGCA
1 ATGATAGCA
40500 CTGAAATGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (37 bp):
ATGATAGCATTGTGTGTGCTAATATGGATATATTGAG
Found at i:42104 original size:15 final size:14
Alignment explanation
Indices: 42077--42115 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
42067 TTCGGATCGG
42077 ATTTGGGTCGGGTT
1 ATTTGGGTCGGGTT
*
42091 ATTTCGGGTTGGGTT
1 ATTT-GGGTCGGGTT
42106 ATTTTGGGTC
1 A-TTTGGGTC
42116 TAGATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 4 0.19
15 14 0.67
16 3 0.14
ACGTcount: A:0.08, C:0.08, G:0.38, T:0.46
Consensus pattern (14 bp):
ATTTGGGTCGGGTT
Found at i:46635 original size:26 final size:26
Alignment explanation
Indices: 46606--46678 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
46596 TACAAAAGTA
*
46606 TACAAAAAAAAGTAATA-AAAAAACAC
1 TACAAAAAAAA-TAAAATAAAAAACAC
** *
46632 TACAATCATAATAAAATAAAAAACAC
1 TACAAAAAAAATAAAATAAAAAACAC
** *
46658 TACAATCATAATAAAATAAAA
1 TACAAAAAAAATAAAATAAAA
46679 TAAAAACACC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.10
26 38 0.90
ACGTcount: A:0.68, C:0.12, G:0.01, T:0.18
Consensus pattern (26 bp):
TACAAAAAAAATAAAATAAAAAACAC
Found at i:46646 original size:22 final size:22
Alignment explanation
Indices: 46618--46673 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 22
46608 CAAAAAAAAG
46618 TAATAAAAAAACACTACAATCA
1 TAATAAAAAAACACTACAATCA
46640 TAATAAAATAAAAAACACTACAATCA
1 TAAT---A-AAAAAACACTACAATCA
46666 TAATAAAA
1 TAATAAAA
46674 TAAAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 7 0.23
23 1 0.03
25 1 0.03
26 21 0.70
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (22 bp):
TAATAAAAAAACACTACAATCA
Found at i:46918 original size:6 final size:6
Alignment explanation
Indices: 46909--47054 Score: 50
Period size: 6 Copynumber: 22.8 Consensus size: 6
46899 AAAATAGTAA
* *
46909 AAAAAT -AAAAT AAAACT AAAACA- AAAACAA AAGAAAT AAATAA- AACAAAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAA-AT AA-AAAT AAA-AAT AA-AAAT
* * ** *
46959 AAAAAT AAATAAAT AATAAAT AATAAAT AATAAT AATAAT AGTAAT AATAAT
1 AAAAAT -AA-AAAT AA-AAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT
**
47011 AATAAGGG AAAAAT -AAAAT -AAAAT AAAATATAT AAAAAT AAAAA
1 AA-AA-AT AAAAAT AAAAAT AAAAAT -AAA-A-AT AAAAAT AAAAA
47055 AGAGACAGAG
Statistics
Matches: 114, Mismatches: 11, Indels: 30
0.74 0.07 0.19
Matches are distributed among these distances:
5 15 0.13
6 51 0.45
7 34 0.30
8 12 0.11
9 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:46974 original size:14 final size:14
Alignment explanation
Indices: 46942--46994 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
46932 AAAACAAAAG
* *
46942 AAATAAATA-AAAC
1 AAATAAAAATAAAT
46955 AAATAAAAATAAAT
1 AAATAAAAATAAAT
46969 AAATAATAAAT-AAT
1 AAATAA-AAATAAAT
*
46983 AAATAATAATAA
1 AAATAAAAATAA
46995 TAATAGTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 11 0.32
14 19 0.56
15 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:46983 original size:3 final size:3
Alignment explanation
Indices: 46956--47015 Score: 66
Period size: 3 Copynumber: 18.7 Consensus size: 3
46946 AAATAAAACA
* *
46956 AAT AAA AAT AAAT AAAT AAT AAAT AAT AAAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT -AAT -AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT
47005 AAT AAT AAT AA
1 AAT AAT AAT AA
47016 GGGAAAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
3 37 0.74
4 13 0.26
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:46985 original size:18 final size:16
Alignment explanation
Indices: 46956--47015 Score: 77
Period size: 15 Copynumber: 3.7 Consensus size: 16
46946 AAATAAAACA
*
46956 AATAAAAATAAATAAAT
1 AATAATAATAAAT-AAT
46973 AATAAATAATAAATAAT
1 AAT-AATAATAAATAAT
*
46990 AATAATAAT-AGTAAT
1 AATAATAATAAATAAT
47005 AATAATAATAA
1 AATAATAATAA
47016 GGGAAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
15 14 0.36
16 7 0.18
17 9 0.23
18 9 0.23
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:49633 original size:17 final size:17
Alignment explanation
Indices: 49611--49647 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
49601 GGCACCCAAA
* *
49611 AATAAATTTTCCATTTT
1 AATAAATTATCAATTTT
49628 AATAAATTATCAATTTT
1 AATAAATTATCAATTTT
49645 AAT
1 AAT
49648 TAAAAAGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (17 bp):
AATAAATTATCAATTTT
Found at i:52416 original size:3 final size:3
Alignment explanation
Indices: 52390--52435 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
52380 GTAATAAACC
*
52390 ATA AT- ATA ATC ATA ATA A-A A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
52435 A
1 A
52436 AAAACACCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:52613 original size:2 final size:2
Alignment explanation
Indices: 52595--52636 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
52585 GTAAAAATAA
* *
52595 AT AT AT AA AA AT A- 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
52636 A
1 A
52637 AACGTTAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:52689 original size:8 final size:8
Alignment explanation
Indices: 52678--52805 Score: 65
Period size: 8 Copynumber: 16.0 Consensus size: 8
52668 ACTAAAACAA
*
52678 AAAATAGT
1 AAAATAAT
*
52686 AAAAAAAT
1 AAAATAAT
52694 AAAATAAAT
1 AAAAT-AAT
*
52703 AATATAAT
1 AAAATAAT
52711 AATAATAAT
1 AA-AATAAT
*
52720 AATAATAAG
1 AA-AATAAT
52729 AAAA-AAT
1 AAAATAAT
52736 AAAATAA-
1 AAAATAAT
*
52743 AAACTAA-
1 AAAATAAT
52750 AACAA-AAT
1 AA-AATAAT
52758 -AAATAAAT
1 AAAAT-AAT
*
52766 AAAACAA-
1 AAAATAAT
52773 ATAAA-AAT
1 A-AAATAAT
*
52781 GAAAATGAAA
1 -AAAAT-AAT
52791 AAAATAAT
1 AAAATAAT
52799 -AAATAAT
1 AAAATAAT
52806 TGAGAAGAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
6 2 0.02
7 27 0.28
8 33 0.35
9 31 0.33
10 2 0.02
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.20
Consensus pattern (8 bp):
AAAATAAT
Found at i:52689 original size:23 final size:23
Alignment explanation
Indices: 52662--52706 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
52652 AATAAATGAA
52662 AAAAAAACTAAAACAAAAAATAGT
1 AAAAAAA-TAAAACAAAAAATAGT
* *
52686 AAAAAAATAAAATAAATAATA
1 AAAAAAATAAAACAAAAAATA
52707 TAATAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAAAATAAAACAAAAAATAGT
Found at i:52697 original size:6 final size:6
Alignment explanation
Indices: 52688--52801 Score: 51
Period size: 6 Copynumber: 18.5 Consensus size: 6
52678 AAAATAGTAA
* * *
52688 AAAAAT -AAAAT AAATAAT ATAATAAT AATAAT AATAAT -AAGA- AAAAAT
1 AAAAAT AAAAAT AAA-AAT A-AA-AAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
52736 -AAAAT AAAAACT AAAACAA AATAAAT AAATAA- AACAAAT AAAAAT GAAAAT
1 AAAAAT AAAAA-T AAAA-AT AA-AAAT AAA-AAT AA-AAAT AAAAAT AAAAAT
*
52787 GAAAAA- AATAAT AAA
1 -AAAAAT AAAAAT AAA
52802 TAATTGAGAA
Statistics
Matches: 84, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
5 19 0.23
6 31 0.37
7 24 0.29
8 10 0.12
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:52702 original size:9 final size:9
Alignment explanation
Indices: 52685--52778 Score: 56
Period size: 9 Copynumber: 10.6 Consensus size: 9
52675 CAAAAAATAG
52685 TAAAA-AAA
1 TAAAATAAA
52693 TAAAATAAA
1 TAAAATAAA
*
52702 TAATAT-AA
1 TAAAATAAA
52710 TAATAAT-AA
1 TAA-AATAAA
52719 TAATAATAAGA
1 TAA-AATAA-A
*
52730 AAAAATAAA
1 TAAAATAAA
*
52739 -ATAAA-AAC
1 TA-AAATAAA
*
52747 TAAAACAAA
1 TAAAATAAA
52756 -ATAAATAAA
1 TA-AAATAAA
*
52765 TAAAACAAA
1 TAAAATAAA
52774 TAAAA
1 TAAAA
52779 ATGAAAATGA
Statistics
Matches: 70, Mismatches: 7, Indels: 17
0.74 0.07 0.18
Matches are distributed among these distances:
8 17 0.24
9 43 0.61
10 7 0.10
11 3 0.04
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (9 bp):
TAAAATAAA
Found at i:52706 original size:3 final size:3
Alignment explanation
Indices: 52691--52727 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
52681 ATAGTAAAAA
52691 AAT AA- AAT AAAT AAT -AT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
52728 GAAAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:52706 original size:12 final size:11
Alignment explanation
Indices: 52688--52801 Score: 69
Period size: 12 Copynumber: 10.3 Consensus size: 11
52678 AAAATAGTAA
52688 AAAAATAAAAT
1 AAAAATAAAAT
*
52699 --AAATAATAT
1 AAAAATAAAAT
*
52708 AATAATAATAAT
1 AAAAATAA-AAT
* *
52720 AATAATAAGA-
1 AAAAATAAAAT
52730 AAAAATAAAAT
1 AAAAATAAAAT
52741 AAAAACTAAAA-
1 AAAAA-TAAAAT
*
52752 CAAAAT-AAAT
1 AAAAATAAAAT
*
52762 AAATAAAACAAAT
1 AAA-AATA-AAAT
52775 AAAAATGAAAAT
1 AAAAAT-AAAAT
52787 GAAAAA-AATAAT
1 -AAAAATAA-AAT
52799 AAA
1 AAA
52802 TAATTGAGAA
Statistics
Matches: 81, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
9 11 0.14
10 11 0.14
11 22 0.27
12 24 0.30
13 13 0.16
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:52756 original size:17 final size:17
Alignment explanation
Indices: 52687--52779 Score: 66
Period size: 17 Copynumber: 5.3 Consensus size: 17
52677 AAAAATAGTA
*
52687 AAAAAATAAAA-TAAAT
1 AAAAAATAAAACAAAAT
* *
52703 AATATAATAATAATAATAAT
1 AA-AAAATAA-AACAA-AAT
*
52723 AATAAGAA-AAAATAAAAT
1 AA-AA-AATAAAACAAAAT
*
52741 AAAAACTAAAACAAAAT
1 AAAAAATAAAACAAAAT
52758 AAATAAATAAAAC-AAAT
1 AAA-AAATAAAACAAAAT
52775 AAAAA
1 AAAAA
52780 TGAAAATGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
16 5 0.08
17 27 0.42
18 15 0.23
19 6 0.09
20 9 0.14
21 2 0.03
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.19
Consensus pattern (17 bp):
AAAAAATAAAACAAAAT
Found at i:53789 original size:24 final size:24
Alignment explanation
Indices: 53762--53864 Score: 179
Period size: 24 Copynumber: 4.3 Consensus size: 24
53752 GGAGTTGCGG
*
53762 CGGGTTCGAAAACCCTAGATGCTT
1 CGGGTTAGAAAACCCTAGATGCTT
53786 CGGGTTAGAAAACCCTAGATGCTT
1 CGGGTTAGAAAACCCTAGATGCTT
*
53810 CGGGTTAGAAAACCCTAGATTCTT
1 CGGGTTAGAAAACCCTAGATGCTT
*
53834 CGGGTTAGAAAATCCTAGATGCTT
1 CGGGTTAGAAAACCCTAGATGCTT
53858 CGGGTTA
1 CGGGTTA
53865 AGACTTGGGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 75 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (24 bp):
CGGGTTAGAAAACCCTAGATGCTT
Found at i:56520 original size:16 final size:16
Alignment explanation
Indices: 56499--56539 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
56489 GAAATCTTAA
*
56499 TATTTTTTTAATTATT
1 TATTTTATTAATTATT
56515 TATTTTATTAATTATATT
1 TATTTTATTAA-T-TATT
56533 TATTTTA
1 TATTTTA
56540 AAATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 1 0.05
18 11 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTATTAATTATT
Found at i:67811 original size:3 final size:3
Alignment explanation
Indices: 67799--67859 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
67789 AGTTTGCATA
* * * *
67799 TAT TATT TAT TAT TAC TAT TAC TAC TA- TAT TAT TAC TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
67844 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
67860 TATAAAACTC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:70088 original size:31 final size:31
Alignment explanation
Indices: 70050--70175 Score: 207
Period size: 31 Copynumber: 4.1 Consensus size: 31
70040 AAGAGTCGAG
* *
70050 AGTTTACCTATGTTCTTCGGGACATATTAAC
1 AGTTTACCTATGTTCTTCAGGACATATGAAC
*
70081 AGTTTACCTATGTTCTTCAGGACATATGGAC
1 AGTTTACCTATGTTCTTCAGGACATATGAAC
*
70112 AGTTTACCTATGTTCTTCGGGACATATGAAC
1 AGTTTACCTATGTTCTTCAGGACATATGAAC
*
70143 AGTTTACCTATGTTCTTCAGGACATATGGAC
1 AGTTTACCTATGTTCTTCAGGACATATGAAC
70174 AG
1 AG
70176 ATTATTATAC
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 88 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (31 bp):
AGTTTACCTATGTTCTTCAGGACATATGAAC
Found at i:70147 original size:62 final size:62
Alignment explanation
Indices: 70050--70175 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
70040 AAGAGTCGAG
*
70050 AGTTTACCTATGTTCTTCGGGACATATTAACAGTTTACCTATGTTCTTCAGGACATATGGAC
1 AGTTTACCTATGTTCTTCGGGACATATGAACAGTTTACCTATGTTCTTCAGGACATATGGAC
70112 AGTTTACCTATGTTCTTCGGGACATATGAACAGTTTACCTATGTTCTTCAGGACATATGGAC
1 AGTTTACCTATGTTCTTCGGGACATATGAACAGTTTACCTATGTTCTTCAGGACATATGGAC
70174 AG
1 AG
70176 ATTATTATAC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (62 bp):
AGTTTACCTATGTTCTTCGGGACATATGAACAGTTTACCTATGTTCTTCAGGACATATGGAC
Found at i:70890 original size:20 final size:20
Alignment explanation
Indices: 70865--70922 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
70855 GTAATGTTCA
*
70865 CACAGTATCGATATTATTTG
1 CACAGTATCGGTATTATTTG
*
70885 CACAGTATCGGTACTATTTG
1 CACAGTATCGGTATTATTTG
*
70905 CACAGTGTCGGTATTATT
1 CACAGTATCGGTATTATT
70923 CATACAGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (20 bp):
CACAGTATCGGTATTATTTG
Found at i:72477 original size:13 final size:13
Alignment explanation
Indices: 72454--72504 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
72444 TGTATTTTTA
72454 AAAATTTAAAATAT
1 AAAA-TTAAAATAT
72468 AAAATTAAAATTGAT
1 AAAATTAAAA-T-AT
*
72483 AAAATCAAAATAT
1 AAAATTAAAATAT
*
72496 AAGATTAAA
1 AAAATTAAA
72505 TCTATAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 15 0.47
14 6 0.19
15 11 0.34
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (13 bp):
AAAATTAAAATAT
Found at i:81775 original size:3 final size:3
Alignment explanation
Indices: 81767--81815 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
81757 TGCTAACCTT
81767 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
81815 T
1 T
81816 ATAAGAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:82203 original size:23 final size:23
Alignment explanation
Indices: 82160--82207 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
82150 AACTATCATG
**
82160 ATTTATTTGATAACATGTTAAAA
1 ATTTATTTGATAACAAATTAAAA
82183 ATTTATTTGGAT-ACAAATTAAAA
1 ATTTATTT-GATAACAAATTAAAA
82206 AT
1 AT
82208 GAAAGAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (23 bp):
ATTTATTTGATAACAAATTAAAA
Found at i:84781 original size:74 final size:74
Alignment explanation
Indices: 84703--84883 Score: 238
Period size: 73 Copynumber: 2.4 Consensus size: 74
84693 AAATGACTAG
* * * *
84703 GGGTATCGATACCTCTAAGGGGGTATTGGTACCCATTGAGCATTCTATTTTTCTCGGAGCCAAAA
1 GGGTATCGGTACCTCTAAGGGGGTATTGATACCCATTGAGCATTCTATTTTTCTAGGAACCAAAA
*
84768 TTGGCACAA
66 TTGACACAA
* * *
84777 GGGTATCGGTACCTCT-AGGGGGTATTGATACCCATTGGGCATTCTGTTTTTCTAGTAACCAAAA
1 GGGTATCGGTACCTCTAAGGGGGTATTGATACCCATTGAGCATTCTATTTTTCTAGGAACCAAAA
* *
84841 TTGACATAG
66 TTGACACAA
* *
84850 GGGTATCGGTACCTCTAGGAGGGGTATCGATACC
1 GGGTATCGGTACCTCTAAG-GGGGTATTGATACC
84884 TCCTTATTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
73 64 0.69
74 16 0.17
75 13 0.14
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (74 bp):
GGGTATCGGTACCTCTAAGGGGGTATTGATACCCATTGAGCATTCTATTTTTCTAGGAACCAAAA
TTGACACAA
Found at i:90719 original size:16 final size:16
Alignment explanation
Indices: 90698--90734 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
90688 CTCTGAATCT
90698 GAATAAAACAGTCTAC
1 GAATAAAACAGTCTAC
*
90714 GAATAAAATAGTCTAC
1 GAATAAAACAGTCTAC
*
90730 TAATA
1 GAATA
90735 CAGTGAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (16 bp):
GAATAAAACAGTCTAC
Found at i:100959 original size:116 final size:116
Alignment explanation
Indices: 100755--100987 Score: 457
Period size: 116 Copynumber: 2.0 Consensus size: 116
100745 AAAACTAAAG
100755 ACTATCAGACAATCATGCATATTGGCCAACAAAAGAAGGAAATTTATTATTTTGGTTGTTATGGT
1 ACTATCAGACAATCATGCATATTGGCCAACAAAAGAAGGAAATTTATTATTTTGGTTGTTATGGT
*
100820 GATATAGGAAAGAAAAGAAAAAGAATCTCGATTTACGGAAGGAGGATGCAT
66 GATATAGGAAAGAAAAGAAAAAGAAGCTCGATTTACGGAAGGAGGATGCAT
100871 ACTATCAGACAATCATGCATATTGGCCAACAAAAGAAGGAAATTTATTATTTTGGTTGTTATGGT
1 ACTATCAGACAATCATGCATATTGGCCAACAAAAGAAGGAAATTTATTATTTTGGTTGTTATGGT
100936 GATATAGGAAAGAAAAGAAAAAGAAGCTCGATTTACGGAAGGAGGATGCAT
66 GATATAGGAAAGAAAAGAAAAAGAAGCTCGATTTACGGAAGGAGGATGCAT
100987 A
1 A
100988 TATTGATTAT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (116 bp):
ACTATCAGACAATCATGCATATTGGCCAACAAAAGAAGGAAATTTATTATTTTGGTTGTTATGGT
GATATAGGAAAGAAAAGAAAAAGAAGCTCGATTTACGGAAGGAGGATGCAT
Found at i:104499 original size:3 final size:3
Alignment explanation
Indices: 104491--104525 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
104481 TTTGATTTCG
104491 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
104526 GGATTTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:106716 original size:20 final size:20
Alignment explanation
Indices: 106679--106721 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
106669 AATTATAAGA
*
106679 TTTTAAATATAATAAATAGT
1 TTTTAAATATAATAAATACT
*
106699 TTTTCAATATAGAT-AATACT
1 TTTTAAATATA-ATAAATACT
106719 TTT
1 TTT
106722 CTCCTTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTTAAATATAATAAATACT
Found at i:107374 original size:14 final size:14
Alignment explanation
Indices: 107332--107374 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
107322 TGCTAACCCA
107332 AGTATTTATATTGG
1 AGTATTTATATTGG
* *
107346 ATTA-TTATCTATGG
1 AGTATTTATAT-TGG
107360 AGTATTTATATTGG
1 AGTATTTATATTGG
107374 A
1 A
107375 TTTATAGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (14 bp):
AGTATTTATATTGG
Found at i:110183 original size:26 final size:26
Alignment explanation
Indices: 110120--110183 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
110110 TTGAATATAT
110120 ATTTTATTCTTAACTAAAATAAAAAA
1 ATTTTATTCTTAACTAAAATAAAAAA
* * ***
110146 ATATTTA-CCTTAACTTAAATATTTAA
1 AT-TTTATTCTTAACTAAAATAAAAAA
110172 ATTTTATTCTTA
1 ATTTTATTCTTA
110184 TAATATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
25 4 0.13
26 22 0.73
27 4 0.13
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTTTATTCTTAACTAAAATAAAAAA
Found at i:110258 original size:29 final size:28
Alignment explanation
Indices: 110216--110321 Score: 96
Period size: 29 Copynumber: 3.8 Consensus size: 28
110206 AAAAATATAG
* *
110216 TTAAGATAAAAATAAAATATATTTTTAAA
1 TTAAAATAAGAAT-AAATATATTTTTAAA
*
110245 TTAAAATAAGAATAAAATATATATTTTTAA
1 TTAAAATAAGAAT-AAATATAT-TTTTAAA
*
110275 TTAAAAT----AT-AATATATTTTTAAG
1 TTAAAATAAGAATAAATATATTTTTAAA
*
110298 TTAATATAAGAATAAATAATATTT
1 TTAAAATAAGAATAAAT-ATATTT
110322 AATAATTTAC
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
23 11 0.17
24 7 0.11
26 2 0.03
27 2 0.03
28 3 0.05
29 26 0.41
30 13 0.20
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (28 bp):
TTAAAATAAGAATAAATATATTTTTAAA
Found at i:110270 original size:31 final size:28
Alignment explanation
Indices: 110216--110350 Score: 91
Period size: 29 Copynumber: 4.8 Consensus size: 28
110206 AAAAATATAG
*
110216 TTAAGATAAAAATAAAATATATTTTTAAA
1 TTAAAATAAAAATAAAATATATTTTT-AA
* *
110245 TTAAAATAAGAATAAAATATATATTT--
1 TTAAAATAAAAATAAAATATATTTTTAA
* *
110271 TT--AATTAAAATATAATATATTTTTAA
1 TTAAAATAAAAATAAAATATATTTTTAA
* * *
110297 GTTAATATAAGAAT-AAATAATATTTAATAA
1 -TTAAAATAAAAATAAAAT-ATATTT-TTAA
** *
110327 TTTACGATAAAAATATAATATATT
1 -TTAAAATAAAAATAAAATATATT
110351 CAATAATTTA
Statistics
Matches: 81, Mismatches: 17, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
24 18 0.22
26 2 0.02
27 2 0.02
28 3 0.04
29 35 0.43
30 18 0.22
31 3 0.04
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.41
Consensus pattern (28 bp):
TTAAAATAAAAATAAAATATATTTTTAA
Found at i:110279 original size:30 final size:29
Alignment explanation
Indices: 110216--110282 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
110206 AAAAATATAG
*
110216 TTAAGATAAAAATAAAATATATTTTTAAA
1 TTAAAATAAAAATAAAATATATTTTTAAA
* *
110245 TTAAAATAAGAATAAAATATATATTTTTAA
1 TTAAAATAAAAATAAAATATAT-TTTTAAA
110275 TTAAAATA
1 TTAAAATA
110283 TAATATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
TTAAAATAAAAATAAAATATATTTTTAAA
Found at i:110282 original size:24 final size:25
Alignment explanation
Indices: 110255--110311 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 25
110245 TTAAAATAAG
110255 AATAAAATATATATTTTTAA-TTAA
1 AATAAAATATATATTTTTAAGTTAA
*
110279 AAT-ATA-ATATATTTTTAAGTTAA
1 AATAAAATATATATTTTTAAGTTAA
*
110302 TATAAGAATA
1 AATAA-AATA
110312 AATAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
22 12 0.46
23 8 0.31
24 4 0.15
25 1 0.04
26 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
AATAAAATATATATTTTTAAGTTAA
Found at i:110341 original size:59 final size:54
Alignment explanation
Indices: 110198--110350 Score: 159
Period size: 53 Copynumber: 2.8 Consensus size: 54
110188 ATTTTACAAT
* * *
110198 TAAG-ATAAAA-AAATATAGTTAAGATAAAAATAAAATATATTTTTAAATTAAAA
1 TAAGAATAAAATATATATA-TTTAGATAAAAATATAATATATTTTTAAATTAAAA
* * * *
110251 TAAGAATAAAATATATATTTTTA-ATTAAAATATAATATATTTTTAAGTTAATA
1 TAAGAATAAAATATATATATTTAGATAAAAATATAATATATTTTTAAATTAAAA
*
110304 TAAGAATAAATAATATTTAATAATTTACGATAAAAATATAATATATT
1 TAAGAAT-AA-AATATAT-AT-ATTTA-GATAAAAATATAATATATT
110351 CAATAATTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
53 37 0.45
54 11 0.13
55 11 0.13
56 2 0.02
57 4 0.05
59 17 0.21
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.39
Consensus pattern (54 bp):
TAAGAATAAAATATATATATTTAGATAAAAATATAATATATTTTTAAATTAAAA
Found at i:110356 original size:30 final size:29
Alignment explanation
Indices: 110216--110361 Score: 88
Period size: 30 Copynumber: 5.1 Consensus size: 29
110206 AAAAATATAG
* ** *
110216 TTAAGATAAAAATAAAATATATTTTTAAA
1 TTAAGATAAAAATATAATATATTAATAAT
* * *
110245 TTAAAATAAGAATA-AA-ATA-T-ATATT
1 TTAAGATAAAAATATAATATATTAATAAT
* * ** *
110270 TTTA-ATTAAAATATAATATATTTTTAAG
1 TTAAGATAAAAATATAATATATTAATAAT
* *
110298 TTAATATAAGAATA-AATAATATTTAATAAT
1 TTAAGATAAAAATATAAT-ATA-TTAATAAT
*
110328 TTACGATAAAAATATAATATATTCAATAAT
1 TTAAGATAAAAATATAATATATT-AATAAT
110358 TTAA
1 TTAA
110362 TAAATTATAA
Statistics
Matches: 87, Mismatches: 21, Indels: 17
0.70 0.17 0.14
Matches are distributed among these distances:
24 7 0.08
25 7 0.08
26 4 0.05
27 4 0.05
28 10 0.11
29 24 0.28
30 28 0.32
31 3 0.03
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (29 bp):
TTAAGATAAAAATATAATATATTAATAAT
Found at i:110382 original size:75 final size:77
Alignment explanation
Indices: 110294--110438 Score: 172
Period size: 77 Copynumber: 1.9 Consensus size: 77
110284 AATATATTTT
* * *
110294 TAAGTTAATATAAGAAT-AAATA-ATATTTAATAATTTACGATAAA-AATATAATATATTCAATA
1 TAAGTTAATATAAGAATAAAATATATATTT-ATAAGTTAAGATAAAGAATAAAATATATTCAATA
*
110356 ATTTAATAAATTA
65 AGTTAATAAATTA
* * * *
110369 TAAGTT-ATGATAAGATTAAAATATATATTTTTTAGTTAAGATAAAGAATAAAATATATTGAATA
1 TAAGTTAAT-ATAAGAATAAAATATATATTTATAAGTTAAGATAAAGAATAAAATATATTCAATA
110433 AGTTAA
65 AGTTAA
110439 GAAAAAAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
74 2 0.03
75 13 0.22
76 16 0.28
77 27 0.47
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (77 bp):
TAAGTTAATATAAGAATAAAATATATATTTATAAGTTAAGATAAAGAATAAAATATATTCAATAA
GTTAATAAATTA
Found at i:110427 original size:30 final size:30
Alignment explanation
Indices: 110391--110471 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
110381 AGATTAAAAT
*
110391 ATATATTTTTTAGTTAAGATAAAGAATAAA
1 ATATATTTTTTAGTTAAGATAAAAAATAAA
** *
110421 ATATATTGAATAAGTTAAGA-AAAAAATAAA
1 ATATATT-TTTTAGTTAAGATAAAAAATAAA
*
110451 ATATATTTTTATTGTTAAGAT
1 ATATATTTTT-TAGTTAAGAT
110472 GTGATTTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
29 1 0.03
30 30 0.75
31 9 0.22
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.40
Consensus pattern (30 bp):
ATATATTTTTTAGTTAAGATAAAAAATAAA
Found at i:113329 original size:66 final size:66
Alignment explanation
Indices: 113223--113557 Score: 391
Period size: 66 Copynumber: 5.1 Consensus size: 66
113213 TGGTTACGGC
* * * * * *
113223 TATGGCGGTATACCTCCTCCTCCTCAGAACATTGTACATCCTCCATTTCCTCCTCATGTTCATGG
1 TATGGGGGCATACCTCCTCCTCCTCAGCACTTTGCACATCCTTCATTTCCTCCTCATGTTCATGG
113288 T
66 T
* *
113289 TATGGGGGCATACCTCTTCCTCCCCAGCACTTTGCACATCCTTCATTTCCTCCTCATGTTCATGG
1 TATGGGGGCATACCTCCTCCTCCTCAGCACTTTGCACATCCTTCATTTCCTCCTCATGTTCATGG
113354 T
66 T
* * * * * *
113355 TATGGGGGCATTCCTCCTCCTCCCCAGTACTTTTCACATCCTTCATCTACTCCTCATGTTCATGG
1 TATGGGGGCATACCTCCTCCTCCTCAGCACTTTGCACATCCTTCATTTCCTCCTCATGTTCATGG
113420 T
66 T
* * * * ** *
113421 TATTGGGGCATAGCTCCTCCTCCTCAGTACTTTGCTCAAACTTCATTTCCTCCTCATGATCATGG
1 TATGGGGGCATACCTCCTCCTCCTCAGCACTTTGCACATCCTTCATTTCCTCCTCATGTTCATGG
*
113486 C
66 T
* ** * ** * *
113487 AATGGAAGCATAGCTCCTCCTCCTCAGCACTTTGCACAAACTTCATTTCCTCCTCAAGGTCATGG
1 TATGGGGGCATACCTCCTCCTCCTCAGCACTTTGCACATCCTTCATTTCCTCCTCATGTTCATGG
*
113552 C
66 T
113553 TATGG
1 TATGG
113558 AGCCCCCTAT
Statistics
Matches: 234, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 234 1.00
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.34
Consensus pattern (66 bp):
TATGGGGGCATACCTCCTCCTCCTCAGCACTTTGCACATCCTTCATTTCCTCCTCATGTTCATGG
T
Found at i:114501 original size:57 final size:57
Alignment explanation
Indices: 114411--114527 Score: 180
Period size: 57 Copynumber: 2.1 Consensus size: 57
114401 GTTCATTATC
* *
114411 AAATGGTTGAGAGTATTTAGAACATATATCACTTTGTAATCACCTCAGTTTAATAAA
1 AAATGATTGAGAGTATTTAGAACATATACCACTTTGTAATCACCTCAGTTTAATAAA
* * * *
114468 AAATGATTGAGAGTATTTAGAATATATACCACTTTGTAATTACCTTAGTTTACTAAA
1 AAATGATTGAGAGTATTTAGAACATATACCACTTTGTAATCACCTCAGTTTAATAAA
114525 AAA
1 AAA
114528 ACCATTGAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (57 bp):
AAATGATTGAGAGTATTTAGAACATATACCACTTTGTAATCACCTCAGTTTAATAAA
Found at i:114855 original size:22 final size:22
Alignment explanation
Indices: 114830--114894 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
114820 AAATCATTCT
*
114830 TAAAAGTATATT-TTTAATATTA
1 TAAAAATATATTATTTAAT-TTA
*
114852 TAAAAATAT-TTATTTAATTTT
1 TAAAAATATATTATTTAATTTA
*
114873 TAAAATTATATTATTT-ATTTA
1 TAAAAATATATTATTTAATTTA
114894 T
1 T
114895 TTATTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 17 0.46
22 20 0.54
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TAAAAATATATTATTTAATTTA
Found at i:114940 original size:34 final size:32
Alignment explanation
Indices: 114858--114948 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 32
114848 ATTATAAAAA
* *
114858 TATTTATTTAATTTTTAA-A-ATTATATTATT
1 TATTTATTTAATTTTAAATATATTATATTAAT
*
114888 TATTTATTT-ATTTTAAATACTATTATTTTAAAT
1 TATTTATTTAATTTTAAATA-TATTATATT-AAT
114921 TATTTATTTAATTTTAAATAATATTATA
1 TATTTATTTAATTTTAAAT-ATATTATA
114949 CAAAACCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
29 7 0.14
30 10 0.20
32 7 0.14
33 11 0.22
34 15 0.29
35 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTTATTTAATTTTAAATATATTATATTAAT
Found at i:115423 original size:29 final size:26
Alignment explanation
Indices: 115389--115445 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
115379 TACAAATTTT
115389 ATAAAATACATAATTATTTTTATTTCTAA
1 ATAAAATA-A-AA-TATTTTTATTTCTAA
* *
115418 ATAAAATAAAATATTTTTTTTTTTAA
1 ATAAAATAAAATATTTTTATTTCTAA
115444 AT
1 AT
115446 TTAGTAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 15 0.58
27 2 0.08
28 1 0.04
29 8 0.31
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
ATAAAATAAAATATTTTTATTTCTAA
Found at i:118497 original size:28 final size:28
Alignment explanation
Indices: 118465--118523 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
118455 ATAATGAGTA
118465 AATATATGAATATTCAAACATAGTTTAG
1 AATATATGAATATTCAAACATAGTTTAG
* *
118493 AATATATGAATATTCGAGCATAGTTTAG
1 AATATATGAATATTCAAACATAGTTTAG
118521 AAT
1 AAT
118524 GTCAAAGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (28 bp):
AATATATGAATATTCAAACATAGTTTAG
Found at i:118749 original size:18 final size:19
Alignment explanation
Indices: 118716--118752 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
118706 GTCAATCTTC
118716 TAAAATTATAAACATAATA
1 TAAAATTATAAACATAATA
118735 TAAAATTAT-AACATAATA
1 TAAAATTATAAACATAATA
118753 ATATTGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATTATAAACATAATA
Found at i:119378 original size:16 final size:16
Alignment explanation
Indices: 119353--119387 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
119343 CATCGAGCTT
*
119353 AACGAGCTTAATGAGC
1 AACGAGCTTAATGAAC
*
119369 AACGATCTTAATGAAC
1 AACGAGCTTAATGAAC
119385 AAC
1 AAC
119388 AAGTCGAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AACGAGCTTAATGAAC
Found at i:133831 original size:20 final size:20
Alignment explanation
Indices: 133806--133844 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
133796 TAAATTAAAT
*
133806 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
133826 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
133845 TATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:133886 original size:20 final size:21
Alignment explanation
Indices: 133858--133897 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
133848 TCTATTAGTT
*
133858 ATTAGATAGGATCA-TTTTTA
1 ATTAGATAGAATCAGTTTTTA
*
133878 ATTATATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTT
133898 TATTCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (21 bp):
ATTAGATAGAATCAGTTTTTA
Found at i:133921 original size:53 final size:52
Alignment explanation
Indices: 133805--133954 Score: 257
Period size: 53 Copynumber: 2.9 Consensus size: 52
133795 CTAAATTAAA
*
133805 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
*
133857 TATTAGATAGGATCATTTTTAATTATATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
*
133910 TATTAGATAGGATCATTTTTAATTAGATAGAATTA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
133955 GTTGCTAATT
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
51 10 0.11
52 34 0.37
53 49 0.53
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:133936 original size:20 final size:20
Alignment explanation
Indices: 133911--133950 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
133901 TCTATTAGTT
*
133911 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
*
133931 ATTAGATAGAATTATTTTTA
1 ATTAGATAGAATCATTTTTA
133951 TTCTGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:138548 original size:20 final size:20
Alignment explanation
Indices: 138523--138561 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
138513 TAAATTAAAT
* *
138523 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAATTTTA
138543 ATTAGATAGAATCAATTTT
1 ATTAGATAGAATCAATTTT
138562 TATTCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAATTTTA
Found at i:138600 original size:20 final size:20
Alignment explanation
Indices: 138575--138614 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
138565 TCTATTAGTT
*
138575 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
138595 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
138615 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:143869 original size:137 final size:136
Alignment explanation
Indices: 143617--143885 Score: 396
Period size: 137 Copynumber: 2.0 Consensus size: 136
143607 TCAGCTTTTT
** * *
143617 GGTTATACCATTAAGAGATTCATAAGTGGATGATTTCGTTCACTGCTGTCATCTTATTCATAATG
1 GGTTATACCATTAAGAGATTCATAAGTGGACAATTTCGTTCACTGCTGCCATCTTATTCATAATA
* * *
143682 CTTCACCTCTAAGTTAGTTAAACGTGCAGTGAAGACATAGAATGAAATCCTCCATATGTACCTCT
66 CTTCACCTCTAAGTTAGTTAAAAGTGCAGTGAAGAAACAGAATGAAATCCTCCATATGTACCTCT
143747 CTATTC
131 CTATTC
** * * *
143753 GGTTATACCATTGTGAGATTCATATGTGGACAATTTCGTTCATTGTTGCCCATCTTATTCATAAT
1 GGTTATACCATTAAGAGATTCATAAGTGGACAATTTCGTTCACTGCTG-CCATCTTATTCATAAT
*
143818 ACTTCACCTCTAAGTTAGTTAAAAGTGCAGTGAAGAAACAGAGA-GAGATCCTCCATATGTACCT
65 ACTTCACCTCTAAGTTAGTTAAAAGTGCAGTGAAGAAACAGA-ATGAAATCCTCCATATGTACCT
143882 CTCT
129 CTCT
143886 CTTTGTTGGG
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
136 41 0.35
137 76 0.64
138 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (136 bp):
GGTTATACCATTAAGAGATTCATAAGTGGACAATTTCGTTCACTGCTGCCATCTTATTCATAATA
CTTCACCTCTAAGTTAGTTAAAAGTGCAGTGAAGAAACAGAATGAAATCCTCCATATGTACCTCT
CTATTC
Found at i:147761 original size:17 final size:17
Alignment explanation
Indices: 147739--147773 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
147729 AATTTTGAAG
147739 AAAAAAAATTAAATATT
1 AAAAAAAATTAAATATT
*
147756 AAAAAATATTAAATATT
1 AAAAAAAATTAAATATT
147773 A
1 A
147774 TATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAAAAATTAAATATT
Found at i:151452 original size:31 final size:30
Alignment explanation
Indices: 151417--151474 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
151407 AACAAATAAA
151417 AGTTTAGATACTAAA-ACATATTAAATTTGAT
1 AGTTTAGATACTAAACAC-T-TTAAATTTGAT
* *
151448 AGTTTGGGTACTAAACACTTTAAATTT
1 AGTTTAGATACTAAACACTTTAAATTT
151475 TTAAAGGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.33
31 14 0.58
32 2 0.08
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (30 bp):
AGTTTAGATACTAAACACTTTAAATTTGAT
Found at i:155031 original size:2 final size:2
Alignment explanation
Indices: 155024--155079 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
155014 GCCACTTTGT
155024 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
155065 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
155080 CTAGATAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:155927 original size:4 final size:4
Alignment explanation
Indices: 155915--156046 Score: 56
Period size: 4 Copynumber: 32.2 Consensus size: 4
155905 AAATAGTAAG
* * * * *
155915 TAAA AAAA TAAA T-AA TAAAA TATA TAAA AAAA AAAA GAAA -AAA TAAA
1 TAAA TAAA TAAA TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* * * *
155962 TAAA CAAA TAAA CAAA CAAA GTACGAA TAATA TATA TATAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA -TA--AA TAA-A TAAA TA-AA TAAA TAAA
* * * *
156011 -AAA -AAA TATA TATA TATA TAAA TTAA TAAA TTAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA -TAAA T
156047 TACGAAAAGA
Statistics
Matches: 102, Mismatches: 16, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
3 12 0.12
4 72 0.71
5 14 0.14
6 2 0.02
7 2 0.02
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:155932 original size:27 final size:24
Alignment explanation
Indices: 155898--155965 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
155888 ATGAGAAAGC
*
155898 AAAG-ATAAAATAGTAAGTAAAAAAAT
1 AAAGAATAAAATA-T-A-TAAAAAAAA
*
155924 AAATAATAAAATATATAAAAAAAA
1 AAAGAATAAAATATATAAAAAAAA
*
155948 AAAGAA-AAAATAAATAAA
1 AAAGAATAAAATATATAAA
155966 CAAATAAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 11 0.30
24 13 0.35
25 1 0.03
26 4 0.11
27 8 0.22
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (24 bp):
AAAGAATAAAATATATAAAAAAAA
Found at i:155934 original size:12 final size:11
Alignment explanation
Indices: 155917--156018 Score: 62
Period size: 12 Copynumber: 8.7 Consensus size: 11
155907 ATAGTAAGTA
155917 AAAAAATAAAT
1 AAAAAATAAAT
*
155928 AATAAAATATAT
1 AA-AAAATAAAT
* *
155940 AAAAAAAAAAAG
1 -AAAAAATAAAT
155952 AAAAAATAAAT
1 AAAAAATAAAT
*
155963 AAACAAATAAAC
1 AAA-AAATAAAT
155975 AAACAAAGTACGAAT
1 AAA-AAA-TA--AAT
* * *
155990 AATATATATAT
1 AAAAAATAAAT
*
156001 AATAAATAAA-
1 AAAAAATAAAT
156011 AAAAAATA
1 AAAAAATA
156019 TATATATATA
Statistics
Matches: 71, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
10 7 0.10
11 24 0.34
12 28 0.39
13 6 0.08
14 2 0.03
15 4 0.06
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.19
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:156488 original size:11 final size:10
Alignment explanation
Indices: 156472--156559 Score: 56
Period size: 11 Copynumber: 8.5 Consensus size: 10
156462 GTAACAAAAT
156472 AAATAATATAA
1 AAATAATA-AA
156483 AAATAATAAA
1 AAATAATAAA
156493 AGTAATAATACAA
1 A--AATAATA-AA
156506 AAATAATAAA
1 AAATAATAAA
* *
156516 AGA-AAGAGAA
1 AAATAATA-AA
**
156526 AGTTAA-AAA
1 AAATAATAAA
*
156535 ATATAATAATA
1 AAATAATAA-A
156546 AAAT-ATAAA
1 AAATAATAAA
156555 AAATA
1 AAATA
156560 CATATATAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
9 14 0.22
10 18 0.29
11 21 0.33
12 7 0.11
13 3 0.05
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.22
Consensus pattern (10 bp):
AAATAATAAA
Found at i:156493 original size:23 final size:23
Alignment explanation
Indices: 156473--156517 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
156463 TAACAAAATA
*
156473 AATAATATAAAAATAATAAAAGT
1 AATAATACAAAAATAATAAAAGT
156496 AATAATACAAAAATAATAAAAG
1 AATAATACAAAAATAATAAAAG
156518 AAAGAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (23 bp):
AATAATACAAAAATAATAAAAGT
Found at i:156555 original size:21 final size:21
Alignment explanation
Indices: 156531--156634 Score: 60
Period size: 21 Copynumber: 4.9 Consensus size: 21
156521 GAGAAAGTTA
156531 AAAAATATAATAATAAAATAT
1 AAAAATATAATAATAAAATAT
*
156552 AAAAA-ATACAT-ATATAATAT
1 AAAAATATA-ATAATAAAATAT
* *
156572 AAATAAATAGAATAAAGGAAAATAT
1 -AA-AAATATAAT-AA-TAAAATAT
156597 AGTAAAA-ATAATAAT-AAATAT
1 A--AAAATATAATAATAAAATAT
156618 ---AATAGTAATAATAAAAT
1 AAAAATA-TAATAATAAAAT
156635 GCAAAGAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 26
0.67 0.06 0.27
Matches are distributed among these distances:
16 2 0.03
17 1 0.02
18 7 0.11
19 4 0.06
20 11 0.17
21 15 0.23
22 5 0.08
23 4 0.06
24 6 0.09
25 9 0.14
26 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAAATATAATAATAAAATAT
Found at i:157290 original size:37 final size:37
Alignment explanation
Indices: 157192--157292 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
157182 GTACTTGTGG
* * * * *
157192 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* *
157229 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
*
157266 ATCCTATTTTTATGAGTTTGAATCCTA
1 ATCCTATTTTTAGGAGTTTGAATCCTA
157293 ATAGGACGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:158264 original size:106 final size:106
Alignment explanation
Indices: 157946--159426 Score: 2228
Period size: 106 Copynumber: 14.0 Consensus size: 106
157936 GCATTATTCC
* ** * *
157946 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCT-AGAACCGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTATTGAC
* * * *
158009 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
158052 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * * *
158111 TCAGCCG-CCCTTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * *
158153 G-GTCCAAGATCCTTCGCTGAGAACTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * *
158217 CCAGCGGTCCCTTCGTTGTGAAGTTGATCTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
158258 GAGTCCAATATCCCACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
158323 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
158364 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
158429 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
158470 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
158535 CCAGCGGTCCCTTCGTCGTGAATTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
158576 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
158641 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
158682 GAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
158747 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
158788 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
158853 CCAGCAGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
158894 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTAACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
**
158959 CCAGCAATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
159000 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTAACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
159065 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
159106 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
159171 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
159212 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
159277 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
159318 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTG-TTGTTGTCAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * * * * *
159382 CCAGCCGTCCTTTCATTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
159423 GAGT
1 GAGT
159427 GGCACGATAT
Statistics
Matches: 1273, Mismatches: 90, Indels: 25
0.92 0.06 0.02
Matches are distributed among these distances:
99 3 0.00
100 77 0.06
101 5 0.00
102 4 0.00
104 3 0.00
105 51 0.04
106 1126 0.88
107 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:159834 original size:17 final size:18
Alignment explanation
Indices: 159802--159837 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
159792 TGTTAAATCC
159802 CCAAAATGCCCCCCAATAT
1 CCAAAATG-CCCCCAATAT
159821 CCAAAATG-CCCCAATAT
1 CCAAAATGCCCCCAATAT
159838 TGATGTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.39, C:0.39, G:0.06, T:0.17
Consensus pattern (18 bp):
CCAAAATGCCCCCAATAT
Found at i:160268 original size:22 final size:22
Alignment explanation
Indices: 160242--160296 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
160232 TTGTGTTTGG
160242 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
160264 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
160286 TCAAAGGTTTG
1 TCAAAGGTTTG
160297 ATGGGGTAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:160924 original size:15 final size:15
Alignment explanation
Indices: 160912--160963 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
160902 TTCTTTTTGA
160912 TTTTTGTTC-TTT-T
1 TTTTTGTTCTTTTCT
160925 TTTTTGTT-TTCTTCT
1 TTTTTGTTCTT-TTCT
160940 TTTTTGTTTCTTTTCT
1 TTTTTG-TTCTTTTCT
160956 TTTTTGTT
1 TTTTTGTT
160964 TTTGCCCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 9 0.26
16 12 0.35
17 2 0.06
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.83
Consensus pattern (15 bp):
TTTTTGTTCTTTTCT
Found at i:160942 original size:16 final size:15
Alignment explanation
Indices: 160900--160965 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
160890 TTTTGTCCCT
160900 TTTTCTTTTTGATTTT-
1 TTTTCTTTTT--TTTTG
*
160916 TGTTCTTTTTTTTTG
1 TTTTCTTTTTTTTTG
*
160931 TTTTCTTCTTTTTTG
1 TTTTCTTTTTTTTTG
160946 -TTTCTTTTCTTTTTTG
1 TTTTC-TTT-TTTTTTG
160962 TTTT
1 TTTT
160966 TGCCCTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
14 8 0.19
15 15 0.36
16 16 0.38
17 3 0.07
ACGTcount: A:0.02, C:0.09, G:0.08, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTTTTTG
Found at i:160953 original size:19 final size:18
Alignment explanation
Indices: 160913--160966 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
160903 TCTTTTTGAT
* *
160913 TTTTGTTCTTTTTTTTTG
1 TTTTCTTCTTTTTTTTTC
160931 TTTTCTTCTTTTTTGTTTC
1 TTTTCTTCTTTTTT-TTTC
160950 TTTTCTT-TTTTGTTTTT
1 TTTTCTTCTTTT-TTTTT
160967 GCCCTTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 20 0.62
19 12 0.38
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.83
Consensus pattern (18 bp):
TTTTCTTCTTTTTTTTTC
Found at i:160975 original size:31 final size:29
Alignment explanation
Indices: 160912--160978 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
160902 TTCTTTTTGA
* *
160912 TTTTTG-TTCTTTTTTTTTGTTTTCTTCT
1 TTTTTGTTTCTTTTTTTTTGTTTTCTCCC
160940 TTTTTGTTTCTTTTCTTTTTTGTTTT-TGCCC
1 TTTTTGTTTC-TTT-TTTTTTGTTTTCT-CCC
160971 TTTTTGTT
1 TTTTTGTT
160979 CTGATTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 6 0.18
29 3 0.09
30 4 0.12
31 20 0.61
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (29 bp):
TTTTTGTTTCTTTTTTTTTGTTTTCTCCC
Found at i:162477 original size:15 final size:15
Alignment explanation
Indices: 162459--162487 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
162449 GAAATCTCGG
162459 GCGTTGGATTCTCAA
1 GCGTTGGATTCTCAA
162474 GCGTTGGATTCTCA
1 GCGTTGGATTCTCA
162488 GGAGTTATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (15 bp):
GCGTTGGATTCTCAA
Found at i:165328 original size:24 final size:23
Alignment explanation
Indices: 165244--165338 Score: 73
Period size: 24 Copynumber: 3.8 Consensus size: 23
165234 TAAAATGAAG
*
165244 AAAACAAAGATAAAATAGTAAGTAAAA
1 AAAACAAAAATAAAATA--AA-T-AAA
**
165271 AAAACAAATAATAAAATATCTATAA
1 AAAACAAA-AATAAAATAAATA-AA
*
165296 AAAAGAAAAATAAAATAAATAAA
1 AAAACAAAAATAAAATAAATAAA
*
165319 ACAAATAAAAATAATAATAA
1 A-AAACAAAAATAA-AATAA
165339 TAACAAAGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
23 3 0.05
24 23 0.40
25 15 0.26
27 8 0.14
28 8 0.14
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (23 bp):
AAAACAAAAATAAAATAAATAAA
Done.