Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002666.1 Hibiscus syriacus cultivar Beakdansim tig00005478_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: 196020
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:681 original size:3 final size:3
Alignment explanation
Indices: 660--726 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
650 TCATTTGAAG
* *
660 ATT ATTT ATT -TT A-T ATT ATT ATT ATA ATT ATTT ATAT ATT ATA ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT
*
706 ATA ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
727 AATAATTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 6 0.12
3 37 0.71
4 9 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:701 original size:23 final size:23
Alignment explanation
Indices: 665--726 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
655 TGAAGATTAT
665 TTATTT-TATATTATTATTATAA
1 TTATTTATATATTATTATTATAA
*
687 TTATTTATATATTATAATTATAA
1 TTATTTATATATTATTATTATAA
710 TTA-TTATATTATTATTA
1 TTATTTATA-TATTATTA
727 AATAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 11 0.31
23 25 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTTATATATTATTATTATAA
Found at i:723 original size:17 final size:17
Alignment explanation
Indices: 676--724 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
666 TATTTTATAT
676 TATTATTATAATTATT-
1 TATTATTATAATTATTA
692 TATATATTATAATTA-TA
1 TAT-TATTATAATTATTA
709 -ATTATTAT-ATTATTA
1 TATTATTATAATTATTA
724 T
1 T
725 TAAATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 4 0.14
15 8 0.28
16 6 0.21
17 11 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTATAATTATTA
Found at i:1222 original size:12 final size:12
Alignment explanation
Indices: 1205--1231 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1195 AAACACCAAT
1205 AAACCACAAAAC
1 AAACCACAAAAC
1217 AAACCACAAAAC
1 AAACCACAAAAC
1229 AAA
1 AAA
1232 AAGAGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACCACAAAAC
Found at i:2359 original size:21 final size:21
Alignment explanation
Indices: 2321--2360 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2311 TTTAATATAT
*
2321 TATTTTAAATCATTTCAATCA
1 TATTTTAAATCATATCAATCA
2342 TATTTTAATAT-ATATCAAT
1 TATTTTAA-ATCATATCAAT
2361 ATTAAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTTAAATCATATCAATCA
Found at i:2589 original size:11 final size:13
Alignment explanation
Indices: 2552--2591 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
2542 TGTTTAATAA
2552 AATATA-TATATT
1 AATATATTATATT
*
2564 AATATATTATCTT
1 AATATATTATATT
2577 AA-A-ATTATATT
1 AATATATTATATT
2588 AATA
1 AATA
2592 AACTTAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:3128 original size:24 final size:22
Alignment explanation
Indices: 3089--3143 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 22
3079 TTATATATAC
*
3089 TTATTATTTTCCTAATATTTATA
1 TTATTATTTTACTAATATTT-TA
* *
3112 TATATTATTTTATTAATGTTTTA
1 T-TATTATTTTACTAATATTTTA
3135 TT-TTATTTT
1 TTATTATTTT
3144 CAAGTATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 7 0.25
22 1 0.04
23 4 0.14
24 16 0.57
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTATTTTACTAATATTTTA
Found at i:8465 original size:10 final size:10
Alignment explanation
Indices: 8442--8483 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
8432 TCATCCAGTA
*
8442 AAGAAAGAAG
1 AAGAAAAAAG
8452 AAGAAGAAAA-
1 AAGAA-AAAAG
8462 AAGAAAAAAG
1 AAGAAAAAAG
*
8472 ATGAAAAAAG
1 AAGAAAAAAG
8482 AA
1 AA
8484 AAATGAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.15
10 20 0.74
11 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:8466 original size:16 final size:16
Alignment explanation
Indices: 8445--8520 Score: 66
Period size: 16 Copynumber: 4.6 Consensus size: 16
8435 TCCAGTAAAG
*
8445 AAAGAAGAAGAAGAAA
1 AAAGAAAAAGAAGAAA
*
8461 AAAGAAAAAAGATGAAA
1 AAAG-AAAAAGAAGAAA
8478 AAAGAAAAATG-AGAAA
1 AAAGAAAAA-GAAGAAA
*
8494 AAAGGGAAAAA-AAGGGAA
1 AAA--GAAAAAGAA-GAAA
8512 AAAGAAAAA
1 AAAGAAAAA
8521 TGGGAGAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
16 22 0.44
17 16 0.32
18 12 0.24
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (16 bp):
AAAGAAAAAGAAGAAA
Found at i:8477 original size:17 final size:16
Alignment explanation
Indices: 8456--8520 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 16
8446 AAGAAGAAGA
8456 AGAAAAAAGAAAAAAG
1 AGAAAAAAGAAAAAAG
*
8472 ATGAAAAAAGAAAAATG
1 A-GAAAAAAGAAAAAAG
8489 AGAAAAAAGGGAAAAAA-
1 AGAAAAAA--GAAAAAAG
*
8506 AGGGAAAAAGAAAAA
1 A-GAAAAAAGAAAAA
8521 TGGGAGAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 14 0.33
17 16 0.38
18 12 0.29
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (16 bp):
AGAAAAAAGAAAAAAG
Found at i:8504 original size:34 final size:33
Alignment explanation
Indices: 8456--8522 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
8446 AAGAAGAAGA
* *
8456 AGAAAAAAGAAAAAAGATGAAAAAAGAAAAATG
1 AGAAAAAAGAAAAAAAAGGAAAAAAGAAAAATG
* *
8489 AGAAAAAAGGGAAAAAAAGGGAAAAAGAAAAATG
1 AGAAAAAA-GAAAAAAAAGGAAAAAAGAAAAATG
8523 GGAGAAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (33 bp):
AGAAAAAAGAAAAAAAAGGAAAAAAGAAAAATG
Found at i:10880 original size:114 final size:114
Alignment explanation
Indices: 10680--10899 Score: 359
Period size: 114 Copynumber: 1.9 Consensus size: 114
10670 CACGTTCTCG
* *
10680 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAACTTATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAACTGATTC
* * * *
10745 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGCTCA
* *
10794 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAACTGATTC
*
10859 GGTAGGAACCCCAGAACCAATCATTGGAATTAAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAA
10900 CTGCATGATC
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAACTGATTC
GGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGCTCA
Found at i:13013 original size:46 final size:46
Alignment explanation
Indices: 12938--13026 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
12928 CTGACTAGAA
* * * *
12938 ATCTGTGCATAAGTCACATGAAATAATGAATGTGTTGTCAAATAGC
1 ATCTGTGCAGAAGCCACAGGAAAGAATGAATGTGTTGTCAAATAGC
*
12984 ATCTGTGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAAT
1 ATCTGTGCAGAAGCCACAGGAAAGAATGAATGTGTTGTCAAAT
13027 GTTTTACTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (46 bp):
ATCTGTGCAGAAGCCACAGGAAAGAATGAATGTGTTGTCAAATAGC
Found at i:13039 original size:54 final size:54
Alignment explanation
Indices: 12980--13087 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
12970 TGTTGTCAAA
* * * **
12980 TAGCATCTGTGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 TAGCATCTGAGCAGAAACCACAGGAAAGGATGAATGTATTGAAAAATGTTTTAC
* * * *
13034 TAGCATCTGAGCATAAACCACATGAGATGATGAATGTATTGAAAAATGTTTTAC
1 TAGCATCTGAGCAGAAACCACAGGAAAGGATGAATGTATTGAAAAATGTTTTAC
13088 GAACCAGTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (54 bp):
TAGCATCTGAGCAGAAACCACAGGAAAGGATGAATGTATTGAAAAATGTTTTAC
Found at i:13487 original size:22 final size:22
Alignment explanation
Indices: 13459--13559 Score: 166
Period size: 22 Copynumber: 4.6 Consensus size: 22
13449 ACATCTACAT
13459 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
13481 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
13503 TCTTCAAAGATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
* *
13525 TTTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
13547 TTTTCAAAGATGA
1 TCTTCAAAGATGA
13560 AAGCTTTATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:14360 original size:76 final size:76
Alignment explanation
Indices: 14234--14403 Score: 268
Period size: 76 Copynumber: 2.2 Consensus size: 76
14224 TTCTCACATA
* * *
14234 TGTAAGTCCTACAATGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
*
14299 TTAGGGTCATC
66 TTAGGGTCAGC
* *
14310 TGTAAGTCTTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
*
14375 TTCGGGTCAGC
66 TTAGGGTCAGC
*
14386 TGTAAGCCCTACAGTGCA
1 TGTAAGTCCTACAGTGCA
14404 GAAAGTTTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 85 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (76 bp):
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
TTAGGGTCAGC
Found at i:14721 original size:111 final size:112
Alignment explanation
Indices: 14421--14734 Score: 549
Period size: 112 Copynumber: 2.8 Consensus size: 112
14411 TTTTTCTTAA
* *
14421 AACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCACCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
14486 GAAAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATC
65 GAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATC
14534 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
14599 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATC
66 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATC
** *
14646 AGTATTTCCAGAAGA-TTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
14710 AGAAGAACTTGTTCAACCTTTTGCT
66 AGAAGAACTTGTTCAACTTTTTGCT
14735 CAACATTTCC
Statistics
Matches: 194, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
111 72 0.37
112 112 0.58
113 10 0.05
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (112 bp):
AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATC
Found at i:14759 original size:91 final size:90
Alignment explanation
Indices: 14649--14826 Score: 311
Period size: 91 Copynumber: 2.0 Consensus size: 90
14639 ATGGATCAGT
14649 ATTTCCAGAAGATTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
1 ATTTCCAGAAGATTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
14714 GAACTTGTTCAACCTTTTGCTCAAC
66 GAACTTGTTCAACCTTTTGCTCAAC
* * *
14739 ATTTCCAGAAGTTTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAGGAAGTTCATAATGAGA
1 ATTTCCAGAAGATTT-ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
14804 AGAACTTGTTTAACCTTTTGCTC
65 AGAACTTGTTCAACCTTTTGCTC
14827 GAATCCATCA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
90 14 0.17
91 69 0.83
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (90 bp):
ATTTCCAGAAGATTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
GAACTTGTTCAACCTTTTGCTCAAC
Found at i:14916 original size:112 final size:113
Alignment explanation
Indices: 14734--15494 Score: 1128
Period size: 112 Copynumber: 6.8 Consensus size: 113
14724 AACCTTTTGC
*** * *
14734 TCAACATTTCCAGA-AGTTTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAGGAAGTTCATA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
14798 ATGAGAAGAACTTGTTTAACCTTTTG-CTCGAATCCATCACTTGATGGA
66 ATGAGAAGAACTTGTTCAACCTTTTGCCT-GAATCCATCACTTGATGGA
* * * *
14846 TCAAAATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGATGAAATTCATA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
14910 ATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGA
66 ATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGA
* *
14958 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAATTCATA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
15022 ATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGA
66 ATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGA
** *
15070 TCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
15134 ATGAGAAGAACTTGTTTAACCTTTTG-CTCGAATCCATCACTTGATGGA
66 ATGAGAAGAACTTGTTCAACCTTTTGCCT-GAATCCATCACTTGATGGA
* *
15182 TCAACATTTCCAGA-AGTA-TTCATAATTAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 TCAACATTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * *
15245 AATGAGAAGAACTTGTTTAACTTTTTG-CTCGAATTCATCACTTGATGGA
65 AATGAGAAGAACTTGTTCAACCTTTTGCCT-GAATCCATCACTTGATGGA
* *
15294 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAATTCATA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* *
15358 ATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGA
66 ATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGA
* * *
15406 TTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* *
15471 ATGAGGAGAGCTTGTTCAACCTTT
66 ATGAGAAGAACTTGTTCAACCTTT
15495 GTTTGATGCT
Statistics
Matches: 600, Mismatches: 40, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
111 30 0.05
112 476 0.79
113 94 0.16
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGA
Found at i:15347 original size:336 final size:336
Alignment explanation
Indices: 14734--15494 Score: 1267
Period size: 336 Copynumber: 2.3 Consensus size: 336
14724 AACCTTTTGC
* *
14734 TCAACATTTCCAGAAGTTTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAGGAAGTTCATAA
1 TCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAA
14799 TGAGAAGAACTTGTTTAACCTTTTGCTCGAATCCATCACTTGATGGATCAAAATTTCCAGAGAAA
66 TGAGAAGAACTTGTTTAACCTTTTGCTCGAATCCATCACTTGATGGATCAAAATTTCCAGAGAAA
* * *
14864 GTTCATAATGAGAAGAACTTATCTGAAGAGGAAGATGAAATTCATAATGAGAAGAATTTGTTCAA
131 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
14929 CCTTTTGCCTGAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAAC
196 CCTTTTGCCTGAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAAC
14994 TTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCAT
261 TTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCAT
15059 CACTTGATGGA
326 CACTTGATGGA
15070 TCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAA
1 TCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAA
* *
15135 TGAGAAGAACTTGTTTAACCTTTTGCTCGAATCCATCACTTGATGGATCAACATTTCCAGA-AGT
66 TGAGAAGAACTTGTTTAACCTTTTGCTCGAATCCATCACTTGATGGATCAAAATTTCCAGAGA-A
* * *
15199 A-TTCATAATTAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
130 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
* *
15263 AACTTTTTG-CTCGAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAG
194 AACCTTTTGCCT-GAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAG
*
15327 AACTTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATT
258 AACTTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATC
15392 CATCACTTGATGGA
323 CATCACTTGATGGA
* * ** * *
15406 TTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATA
1 TCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATA
* * *
15471 ATGAGGAGAGCTTGTTCAACCTTT
65 ATGAGAAGAACTTGTTTAACCTTT
15495 GTTTGATGCT
Statistics
Matches: 399, Mismatches: 22, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
335 28 0.07
336 304 0.76
337 67 0.17
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (336 bp):
TCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAA
TGAGAAGAACTTGTTTAACCTTTTGCTCGAATCCATCACTTGATGGATCAAAATTTCCAGAGAAA
GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
CCTTTTGCCTGAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAAC
TTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCAT
CACTTGATGGA
Found at i:15828 original size:3 final size:3
Alignment explanation
Indices: 15822--15890 Score: 90
Period size: 3 Copynumber: 23.7 Consensus size: 3
15812 TTCATTTGAA
*
15822 TAT TAT T-T ATAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
15866 TAT AAT TAT TA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
15891 AATAATTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
2 5 0.09
3 52 0.90
4 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:16645 original size:33 final size:33
Alignment explanation
Indices: 16606--16685 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
16596 TCCGGCCACC
*
16606 GCACGGTGGCTGGCGGTGGTCATTGCCACCGGA
1 GCACGGTGGCCGGCGGTGGTCATTGCCACCGGA
16639 GCACGGTGGCCGGCGGTGGTCATTGCCACCGGA
1 GCACGGTGGCCGGCGGTGGTCATTGCCACCGGA
*
16672 GCGCGGTGGCCGGC
1 GCACGGTGGCCGGC
16686 ATGGTTGCCG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.30, G:0.45, T:0.15
Consensus pattern (33 bp):
GCACGGTGGCCGGCGGTGGTCATTGCCACCGGA
Found at i:21512 original size:17 final size:18
Alignment explanation
Indices: 21481--21523 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
21471 AAATATAAGA
21481 TTAAATTTAAAATTTAAT
1 TTAAATTTAAAATTTAAT
* *
21499 TTTAATTT-AAATTTCAT
1 TTAAATTTAAAATTTAAT
21516 TTAAATTT
1 TTAAATTT
21524 TTATTATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAATTTAAAATTTAAT
Found at i:32365 original size:23 final size:23
Alignment explanation
Indices: 32335--32381 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
32325 TAATACTAAT
32335 TTACTCGGACTTGGTTATGAATG
1 TTACTCGGACTTGGTTATGAATG
32358 TTACTCGGACTTGGTTATGAATG
1 TTACTCGGACTTGGTTATGAATG
32381 T
1 T
32382 CGGATATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (23 bp):
TTACTCGGACTTGGTTATGAATG
Found at i:34868 original size:31 final size:31
Alignment explanation
Indices: 34826--34884 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
34816 AACTTAAAAG
* *
34826 AGTTTTGCAATAATGAGATTTAAATAATTTT
1 AGTTTTACAATAATGAAATTTAAATAATTTT
*
34857 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATAATGAAATTTAAATAAT
34885 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATAATGAAATTTAAATAATTTT
Found at i:34932 original size:22 final size:22
Alignment explanation
Indices: 34905--34964 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
34895 ACAATAATAA
34905 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
*
34927 ATATTTTAAAATAAATCAATTC
1 ATATTTTAAAATAAATCAATCC
34949 ATATTTTAAAATAAAT
1 ATATTTTAAAATAAAT
34965 TTTAAAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTTTAAAATAAATCAATCC
Found at i:34932 original size:224 final size:224
Alignment explanation
Indices: 34538--34946 Score: 701
Period size: 224 Copynumber: 1.8 Consensus size: 224
34528 ACTTTGTTTT
* * * * *
34538 TTAACGTCTGCATACTGTTAAAATAAATTGAAATATAAATAAACTGATTTTTTAAATTTAAAAGA
1 TTAACGTCTGCAGACTGCTAAAATAAACTAAAATATAAATAAACTGATTTTTTAAACTTAAAAGA
* * * *
34603 GTTTTGCAATACTTAAATTTAAATAATTTTAGTTTTATAATATTGAAATTTAAATAATCCATACA
66 GTTTTGCAATAATGAAATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACA
* * *
34668 ACTGCAATAATAAATTTTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCTATTCTGAA
131 ACTACAATAATAAATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTCTGAA
34733 TAAATTATTTAATAAATAACCTTATTAAA
196 TAAATTATTTAATAAATAACCTTATTAAA
34762 TTAACGTCTGCAGACTGCTAAAATAAACTAAAATATAAATAAACTGATTTTTTAAACTTAAAAGA
1 TTAACGTCTGCAGACTGCTAAAATAAACTAAAATATAAATAAACTGATTTTTTAAACTTAAAAGA
*
34827 GTTTTGCAATAATGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACA
66 GTTTTGCAATAATGAAATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACA
34892 ACTACAATAATAAATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
131 ACTACAATAATAAATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
34947 TCATATTTTA
Statistics
Matches: 172, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
224 172 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.38
Consensus pattern (224 bp):
TTAACGTCTGCAGACTGCTAAAATAAACTAAAATATAAATAAACTGATTTTTTAAACTTAAAAGA
GTTTTGCAATAATGAAATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACA
ACTACAATAATAAATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATTCTGAA
TAAATTATTTAATAAATAACCTTATTAAA
Found at i:34991 original size:147 final size:147
Alignment explanation
Indices: 34819--35118 Score: 564
Period size: 147 Copynumber: 2.0 Consensus size: 147
34809 TTTTTTAAAC
34819 TTAAAAGAGTTTTGCAATAATGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAA
1 TTAAAAGAGTTTTGCAATAATGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAA
*
34884 TCCATACAACTACAATAATAAATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTC
66 TCCATACAACTACAATAATAAATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
34949 ATATTTTAAAATAAATT
131 ATATTTTAAAATAAATT
*
34966 TTAAAAGAGTTTTGCAATAGTGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAA
1 TTAAAAGAGTTTTGCAATAATGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAA
* *
35031 TCCATACAACTACAATAATAAATTTTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCC
66 TCCATACAACTACAATAATAAATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
35096 ATATTTTAAAATAAATT
131 ATATTTTAAAATAAATT
35113 TTAAAA
1 TTAAAA
35119 TAGATTTAAA
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 149 1.00
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (147 bp):
TTAAAAGAGTTTTGCAATAATGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAA
TCCATACAACTACAATAATAAATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATATTTTAAAATAAATT
Found at i:35008 original size:31 final size:31
Alignment explanation
Indices: 34973--35031 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
34963 ATTTTAAAAG
* * *
34973 AGTTTTGCAATAGTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
35004 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
35032 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:35080 original size:22 final size:22
Alignment explanation
Indices: 35055--35111 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
35045 ATAATAAATT
*
35055 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
35077 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
35099 TTTTAAAATAAAT
1 TTTTAAAATAAAT
35112 TTTAAAATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:35128 original size:11 final size:12
Alignment explanation
Indices: 35098--35137 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
35088 ATCAATCCAT
35098 ATTTTAAAATAA
1 ATTTTAAAATAA
*
35110 ATTTTAAAATAG
1 ATTTTAAAATAA
35122 A-TTT-AAAT-A
1 ATTTTAAAATAA
35131 ATTTTAA
1 ATTTTAA
35138 TGTTCTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:38153 original size:29 final size:29
Alignment explanation
Indices: 38111--38302 Score: 330
Period size: 29 Copynumber: 6.6 Consensus size: 29
38101 GGAGCAGGAG
*
38111 GGAGTGCATGGCGACCTACAAGGTCGCCA
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
*
38140 GGAGTGCATGGCGACCTACAAGGTCACCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
*
38169 GGAGTGCATGGTGACCTACAAGGTCGCCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
*
38198 GGAATGCATGGCGACCTACAAGGTCGCCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
*
38227 GGAATGCATGGCGACCTACAAGGTCGCCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
38256 GGAGTGCATGGCGACCTACAAGGTCGCCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCC
*
38285 GGAGGGCATGGCGACCTA
1 GGAGTGCATGGCGACCTA
38303 TGCGTGGGGA
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 155 1.00
ACGTcount: A:0.23, C:0.29, G:0.34, T:0.14
Consensus pattern (29 bp):
GGAGTGCATGGCGACCTACAAGGTCGCCC
Found at i:49364 original size:2 final size:2
Alignment explanation
Indices: 49357--49383 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49347 AAATGTGTTG
49357 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
49384 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52920 original size:204 final size:204
Alignment explanation
Indices: 52570--52977 Score: 780
Period size: 204 Copynumber: 2.0 Consensus size: 204
52560 TTTTCAAATT
52570 GAGTCTTCCATTTTACCTACAGAAACCACCTTAGCACAGAAAGACTTAGGTGTGTACCTACCATA
1 GAGTCTTCCATTTTACCTACAGAAACCACCTTAGCACAGAAAGACTTAGGTGTGTACCTACCATA
*
52635 AATTTAATTTATTATTTTTATGATTTACTTTTCGATACGTCCGGTCGATCAAGAAATGTCATAGT
66 AATTTAATTTATTATTTTTATGATTTACTTTTCGATACGTCCGGTCGATCAAGAAATATCATAGT
*
52700 CGGATAACGAAATCAGAACGAGACTAATAAAAAATTAATCAAACACTTAATAAATACATCGATCA
131 CGGATAACGAAATCAGAACGAGACTAATAAAAAATTAATCAAACACTTAATAAATACATCGAGCA
52765 TACAAACAA
196 TACAAACAA
*
52774 GAGTCTTCCATTTTACCTGCAGAAACCACCTTAGCACAGAAAGACTTAGGTGTGTACCTACCATA
1 GAGTCTTCCATTTTACCTACAGAAACCACCTTAGCACAGAAAGACTTAGGTGTGTACCTACCATA
*
52839 AATTTAATTTATTATTTTTTTGATTTACTTTTCGATACGTCCGGTCGATCAAGAAATATCATAGT
66 AATTTAATTTATTATTTTTATGATTTACTTTTCGATACGTCCGGTCGATCAAGAAATATCATAGT
52904 CGGATAACGAAATCAGAACGAGACTAATAAAAAATTAATCAAACACTTAATAAATACATCGAGCA
131 CGGATAACGAAATCAGAACGAGACTAATAAAAAATTAATCAAACACTTAATAAATACATCGAGCA
52969 TACAAACAA
196 TACAAACAA
52978 CCATTTAGGG
Statistics
Matches: 200, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
204 200 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (204 bp):
GAGTCTTCCATTTTACCTACAGAAACCACCTTAGCACAGAAAGACTTAGGTGTGTACCTACCATA
AATTTAATTTATTATTTTTATGATTTACTTTTCGATACGTCCGGTCGATCAAGAAATATCATAGT
CGGATAACGAAATCAGAACGAGACTAATAAAAAATTAATCAAACACTTAATAAATACATCGAGCA
TACAAACAA
Found at i:54231 original size:12 final size:12
Alignment explanation
Indices: 54214--54238 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54204 TTGTAATTAA
54214 TTTTATTTATTT
1 TTTTATTTATTT
54226 TTTTATTTATTT
1 TTTTATTTATTT
54238 T
1 T
54239 AATACATATA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTATTT
Found at i:54286 original size:24 final size:26
Alignment explanation
Indices: 54231--54286 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
54221 TATTTTTTTA
*
54231 TTTATTTTAATACATATAATATTAAT
1 TTTATTTTAATACATATAATATAAAT
*
54257 TATTATTTTAATA-ATTTAAT-TAAAT
1 T-TTATTTTAATACATATAATATAAAT
54282 TTTAT
1 TTTAT
54287 ATGATTTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
25 5 0.19
26 7 0.26
27 11 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTATTTTAATACATATAATATAAAT
Found at i:54372 original size:22 final size:21
Alignment explanation
Indices: 54347--54389 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
54337 TAGGTTGGTT
54347 TTAAAATATAAACATATAAATA
1 TTAAAATATAAACATA-AAATA
* * *
54369 TTAAGATTTAAACCTAAAATA
1 TTAAAATATAAACATAAAATA
54390 ATACCAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAAATATAAACATAAAATA
Found at i:55312 original size:30 final size:30
Alignment explanation
Indices: 55276--55346 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
55266 GGTGATTGCT
55276 ACAGTGACC-ACTATAGGTCTCCAGGAGCAC
1 ACAGTGACCTAC-ATAGGTCTCCAGGAGCAC
55306 ACAGTGACCTACATAGGTCTCCAGGAGCAC
1 ACAGTGACCTACATAGGTCTCCAGGAGCAC
55336 AC-GTCGACCTA
1 ACAGT-GACCTA
55347 TGGAGCACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
29 2 0.05
30 35 0.90
31 2 0.05
ACGTcount: A:0.30, C:0.31, G:0.23, T:0.17
Consensus pattern (30 bp):
ACAGTGACCTACATAGGTCTCCAGGAGCAC
Found at i:55353 original size:19 final size:19
Alignment explanation
Indices: 55340--55388 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
55330 GAGCACACGT
55340 CGACCTATGGAGCACTTGG
1 CGACCTATGGAGCACTTGG
*
55359 CAACCTATGGAGCACTTGG
1 CGACCTATGGAGCACTTGG
55378 CGACCTATGGA
1 CGACCTATGGA
55389 ACTGCAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (19 bp):
CGACCTATGGAGCACTTGG
Found at i:57764 original size:5 final size:5
Alignment explanation
Indices: 57737--57948 Score: 55
Period size: 5 Copynumber: 40.8 Consensus size: 5
57727 AAAGGCAATG
* *
57737 AATATA AATAA ACTAA AGA-AA AATAA AAT-A AATGA AATAA AA-ATA
1 AATA-A AATAA AATAA A-ATAA AATAA AATAA AATAA AATAA AATA-A
* ** * *
57782 AATGA AA-AA AGGAA AATAA GAT-A AAGAA AATACA TAA-AA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA-A -AATAA AATAA AATAA
* * * *
57831 AGATAA AAAACTA AATAA AAT-A AAGAA CATAA AA-AA CAAAAGA AATAGA
1 A-ATAA AATA--A AATAA AATAA AATAA AATAA AATAA -AATA-A AATA-A
* * **
57880 AAAATA AATAA AATAA TCA-AA AATAA AGATAA CGAGCAA AATAA AATAAA
1 AATA-A AATAA AATAA -AATAA AATAA A-ATAA --AATAA AATAA AAT-AA
* *
57930 AATAA AAGAA AAGAA AATA
1 AATAA AATAA AATAA AATA
57949 CTAATAATTG
Statistics
Matches: 153, Mismatches: 30, Indels: 47
0.67 0.13 0.20
Matches are distributed among these distances:
4 18 0.12
5 91 0.59
6 34 0.22
7 9 0.06
8 1 0.01
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:57830 original size:25 final size:23
Alignment explanation
Indices: 57761--57895 Score: 87
Period size: 23 Copynumber: 5.7 Consensus size: 23
57751 AAAGAAAAAT
**
57761 AAAATAAATGAAATAAAAATAAATG
1 AAAATAAAAAAAAT-AAAATAAA-G
** *
57786 AAAA-AAGGAAAATAAGATAAAG
1 AAAATAAAAAAAATAAAATAAAG
57808 AAAATACATAAAAAATAAAATAAAG
1 AAAATA-A-AAAAAATAAAATAAAG
**
57833 ATAAA-AAACTAAATAAAATAAAG
1 A-AAATAAAAAAAATAAAATAAAG
* * *
57856 AACATAAAAAACAAAAGAAATAGA-
1 AAAATAAAAAA-AATA-AAATAAAG
*
57880 AAAATAAATAAAATAA
1 AAAATAAAAAAAATAA
57896 TCAAAAATAA
Statistics
Matches: 86, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
22 8 0.09
23 30 0.35
24 20 0.23
25 25 0.29
26 3 0.03
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (23 bp):
AAAATAAAAAAAATAAAATAAAG
Found at i:57836 original size:18 final size:17
Alignment explanation
Indices: 57756--57946 Score: 67
Period size: 18 Copynumber: 10.8 Consensus size: 17
57746 AAACTAAAGA
57756 AAAATAAAATAAATGAAAT
1 AAAATAAAATAAA--AAAT
*
57775 AAAA-ATAAATGAAAAAAGG
1 AAAATA-AAAT-AAAAAA-T
* *
57794 AAAATAAGAT---AAAG
1 AAAATAAAATAAAAAAT
*
57808 AAAAT-ACATAAAAAAT
1 AAAATAAAATAAAAAAT
57824 AAAATAAAGATAAAAAACT
1 AAAATAAA-ATAAAAAA-T
57843 -AAATAAAATAAAGAACAT
1 AAAATAAAATAAA-AA-AT
*
57861 AAAA-AACAA-AAGAAAT
1 AAAATAA-AATAAAAAAT
*
57877 AGAAAAATAAATAAAATAAT
1 A-AAATA-AAATAAAA-AAT
** **
57897 CAAAAATAAAGATAACGAGC
1 --AAAATAAA-ATAAAAAAT
57917 AAAATAAAAT-AAAAAT
1 AAAATAAAATAAAAAAT
* *
57933 AAAAGAAAAGAAAA
1 AAAATAAAATAAAA
57947 TACTAATAAT
Statistics
Matches: 131, Mismatches: 18, Indels: 48
0.66 0.09 0.24
Matches are distributed among these distances:
13 3 0.02
14 6 0.05
15 3 0.02
16 21 0.16
17 16 0.12
18 37 0.28
19 26 0.20
20 10 0.08
21 8 0.06
22 1 0.01
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAAAAAT
Found at i:57901 original size:9 final size:9
Alignment explanation
Indices: 57737--57895 Score: 62
Period size: 9 Copynumber: 17.1 Consensus size: 9
57727 AAAGGCAATG
57737 AATATAAATA
1 AATA-AAATA
*
57747 AACTAAAGAAA
1 AA-TAAA-ATA
57758 AATAAAATA
1 AATAAAATA
*
57767 AATGAAATA
1 AATAAAATA
*
57776 AAAATAAATGA
1 AATA-AAAT-A
57787 AA-AAAGGA-A
1 AATAAA--ATA
*
57796 AATAAGATA
1 AATAAAATA
*
57805 AAGAAAATA
1 AATAAAATA
*
57814 CATAAAAAATAA
1 -A-ATAAAAT-A
57826 AATAAAGATA
1 AATAAA-ATA
*
57836 AA-AAACTA
1 AATAAAATA
57844 AATAAAATA
1 AATAAAATA
* *
57853 AAGAACATA
1 AATAAAATA
57862 AA-AAACA-A
1 AATAAA-ATA
*
57870 AA-GAAATA
1 AATAAAATA
*
57878 GA-AAAATA
1 AATAAAATA
57886 AATAAAATA
1 AATAAAATA
57895 A
1 A
57896 TCAAAAATAA
Statistics
Matches: 114, Mismatches: 19, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
7 1 0.01
8 20 0.18
9 50 0.44
10 23 0.20
11 19 0.17
12 1 0.01
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (9 bp):
AATAAAATA
Found at i:58074 original size:19 final size:19
Alignment explanation
Indices: 58022--58081 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
58012 TAAATATATA
* *
58022 AATAAAACTAAT-GTAAAAA
1 AATAAAAATAATAG-AAAAG
58041 AAT-AAAAT-A-AGAAAAG
1 AATAAAAATAATAGAAAAG
58057 AATAAAAATAATAGAAAAG
1 AATAAAAATAATAGAAAAG
58076 AA-AAAA
1 AATAAAA
58082 CAAATAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 7 0.20
17 7 0.20
18 9 0.26
19 12 0.34
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (19 bp):
AATAAAAATAATAGAAAAG
Found at i:63335 original size:29 final size:27
Alignment explanation
Indices: 63299--63361 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
63289 GCATAATTTA
63299 TAAT-AAAA-TTAAATTTTTTATTCCATT
1 TAATGAAAATTTAAATTTTTT-TTCCA-T
**
63326 TAATAGAAAATTTTCATTTTTTTTCCAT
1 TAAT-GAAAATTTAAATTTTTTTTCCAT
63354 TAATGAAA
1 TAATGAAA
63362 CTTCATAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 8 0.26
28 5 0.16
29 9 0.29
30 9 0.29
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (27 bp):
TAATGAAAATTTAAATTTTTTTTCCAT
Found at i:71720 original size:23 final size:23
Alignment explanation
Indices: 71690--71736 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
71680 TAATACTAAT
71690 TTACTCGGACTTGGTTATGAATG
1 TTACTCGGACTTGGTTATGAATG
71713 TTACTCGGACTTGGTTATGAATG
1 TTACTCGGACTTGGTTATGAATG
71736 T
1 T
71737 CGGATATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (23 bp):
TTACTCGGACTTGGTTATGAATG
Found at i:73692 original size:45 final size:45
Alignment explanation
Indices: 73624--73715 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
73614 AATGGCAAAC
* *
73624 ATAATTCTTCAAGTGGATGACACTCACTGCCCTGTATGCTCAAGG
1 ATAATTCTTCAAGTGGATCACACTCACTGCCCTCTATGCTCAAGG
*
73669 ATAATTCTTCAAGTGGATCACACTGACTGCCCTCTATGCTCAAGG
1 ATAATTCTTCAAGTGGATCACACTCACTGCCCTCTATGCTCAAGG
73714 AT
1 AT
73716 TCAAGGGATG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (45 bp):
ATAATTCTTCAAGTGGATCACACTCACTGCCCTCTATGCTCAAGG
Found at i:74821 original size:29 final size:29
Alignment explanation
Indices: 74779--74860 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
74769 AAACTAAATT
*
74779 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAATAAA
* *
74808 GATGTCATTGCTTACATAATTTAAATAAT
1 GATGTCATTGCTTACATCATTTAAATAAA
74837 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
74861 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 43 0.90
30 5 0.10
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAATAAA
Found at i:79573 original size:29 final size:29
Alignment explanation
Indices: 79534--79616 Score: 105
Period size: 29 Copynumber: 2.8 Consensus size: 29
79524 CAAACTAAAT
* *
79534 TGATGTCATTGCTTACATCATTTAAGTAAA
1 TGATATCATTGCTTACATCATTTAAAT-AA
*
79564 T-ATATCATTGCTTACGTCATTTAAATAA
1 TGATATCATTGCTTACATCATTTAAATAA
*
79592 TGATGTCATTGCTTACATCAATTTA
1 TGATATCATTGCTTACATC-ATTTA
79617 GTTAGGTGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 3 0.07
29 37 0.80
30 6 0.13
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (29 bp):
TGATATCATTGCTTACATCATTTAAATAA
Found at i:82229 original size:18 final size:17
Alignment explanation
Indices: 82179--82270 Score: 76
Period size: 18 Copynumber: 5.2 Consensus size: 17
82169 TGAATTCTAA
* * *
82179 ATATTTATAGTTATAAA
1 ATATTTACAGTTATCAG
*
82196 ATGATTTTCAGTTATCAG
1 AT-ATTTACAGTTATCAG
*
82214 ATGATTTACAGTTATCAT
1 AT-ATTTACAGTTATCAG
* **
82232 ATAATTACAAATATCAG
1 ATATTTACAGTTATCAG
*
82249 ATATTTTATAGTTATCAG
1 ATA-TTTACAGTTATCAG
82267 ATAT
1 ATAT
82271 AAATTAATAA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
17 17 0.29
18 42 0.71
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (17 bp):
ATATTTACAGTTATCAG
Found at i:83153 original size:65 final size:64
Alignment explanation
Indices: 83044--83196 Score: 166
Period size: 65 Copynumber: 2.4 Consensus size: 64
83034 ACACTTGGGG
* * * * * * *
83044 TGCATTGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGTATCGATGCAT-GATCT
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAACCAGGAGTGCATCAATGCATGGA--T
*
83108 G
64 A
* *
83109 TGCATCGGTACATAAAATGCATTCGATGTTTCAATAA-AATCAGGAGTGCATCAATGCATGGATA
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAA-AAGAACCAGGAGTGCATCAATGCATGGATA
*
83173 TGCATCGGTACACAAAATGTATTC
1 TGCATCGGTACACAAAATGCATTC
83197 AAATTAGGGT
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
64 23 0.31
65 47 0.64
66 4 0.05
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (64 bp):
TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAACCAGGAGTGCATCAATGCATGGATA
Found at i:85447 original size:19 final size:21
Alignment explanation
Indices: 85415--85456 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
85405 AGTTTTCATG
85415 AAAACAACATAATTAAAT-AAA
1 AAAACAACA-AATTAAATCAAA
85436 AAAACAAC-AATTAAATCAAA
1 AAAACAACAAATTAAATCAAA
85456 A
1 A
85457 CAATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAACAACAAATTAAATCAAA
Found at i:85958 original size:44 final size:44
Alignment explanation
Indices: 85884--85989 Score: 151
Period size: 44 Copynumber: 2.4 Consensus size: 44
85874 CGATCCACTG
* * *
85884 CATAGTGTATCGATGCACATTTAAAAAATGCATCAGTGCACTTT
1 CATAGTGTATCGATGCATATTCAAAAAATGCATCAGTACACTTT
** *
85928 CATAGTGTATCGATGCATATTCAAGGAATGCATCTGTACACTTT
1 CATAGTGTATCGATGCATATTCAAAAAATGCATCAGTACACTTT
85972 CAT-GTGTATCGATGCATA
1 CATAGTGTATCGATGCATA
85990 GTGCACAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
43 15 0.27
44 41 0.73
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (44 bp):
CATAGTGTATCGATGCATATTCAAAAAATGCATCAGTACACTTT
Found at i:92102 original size:41 final size:41
Alignment explanation
Indices: 92057--92138 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
92047 AAGTGAGTAC
92057 TTATCAGTTCAGCTTTGGTACATTCGTGTATCAATGTTCAG
1 TTATCAGTTCAGCTTTGGTACATTCGTGTATCAATGTTCAG
* *
92098 TTATCAGTTCAGTTTTGGTACATTCGTGTATCGATGTTCAG
1 TTATCAGTTCAGCTTTGGTACATTCGTGTATCAATGTTCAG
92139 CACCGTTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (41 bp):
TTATCAGTTCAGCTTTGGTACATTCGTGTATCAATGTTCAG
Found at i:92997 original size:22 final size:22
Alignment explanation
Indices: 92972--93014 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
92962 TTATATGATT
92972 AAGAAAAAATATTTAAA-GTAAA
1 AAGAAAAAATA-TTAAATGTAAA
* *
92994 AAGAGAAATTATTAAATGTAA
1 AAGAAAAAATATTAAATGTAA
93015 CAAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.26
Consensus pattern (22 bp):
AAGAAAAAATATTAAATGTAAA
Found at i:95755 original size:18 final size:18
Alignment explanation
Indices: 95732--95777 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
95722 TTCTTCGTGC
95732 TTCAATTCCCTCTTTCAT
1 TTCAATTCCCTCTTTCAT
95750 TTCAATTCCCTCTTTCAT
1 TTCAATTCCCTCTTTCAT
*
95768 TCCAATTCCC
1 TTCAATTCCC
95778 AAATTACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (18 bp):
TTCAATTCCCTCTTTCAT
Found at i:96730 original size:2 final size:2
Alignment explanation
Indices: 96723--96792 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
96713 GGATGTGATG
96723 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96765 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
96793 CCATATTCTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98745 original size:21 final size:21
Alignment explanation
Indices: 98682--98745 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
98672 GTTTGATTAT
*
98682 TTTTTTATTA-ATTAAAA-AA
1 TTTTTAATTATATTAAAATAA
* * *
98701 TAGTTTAAATTATTATTTAGATAA
1 T--TTTTAATTA-TATTAAAATAA
98725 TTTTTAATTATATTAAAATAA
1 TTTTTAATTATATTAAAATAA
98746 AAATTACTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
19 1 0.03
21 16 0.48
22 8 0.24
23 5 0.15
24 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
TTTTTAATTATATTAAAATAA
Found at i:102966 original size:35 final size:35
Alignment explanation
Indices: 102920--102995 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
102910 AAAATAGTCC
* *
102920 TCAATTTCATTCTAAA-CCTCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCT-AAATTCCAAAATAAT
102955 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
102990 TCAATT
1 TCAATT
102996 AAATTTTAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 35 0.92
36 3 0.08
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:104686 original size:18 final size:18
Alignment explanation
Indices: 104663--104708 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
104653 TTCCTCGTGC
104663 TTCAATTCCCTCTTTCAT
1 TTCAATTCCCTCTTTCAT
*
104681 TTCAATTTCCTCTTTCAT
1 TTCAATTCCCTCTTTCAT
*
104699 TCCAATTCCC
1 TTCAATTCCC
104709 AAATTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.48
Consensus pattern (18 bp):
TTCAATTCCCTCTTTCAT
Found at i:111537 original size:98 final size:98
Alignment explanation
Indices: 111368--111556 Score: 261
Period size: 98 Copynumber: 1.9 Consensus size: 98
111358 AGCTTGTTGC
* ** * *
111368 AAAGATGGAGTGTCGACTTATTGTCATCAGAGATCCTGTTCGTTACCACCATTTCCAGAACGGAG
1 AAAGATGGAGTGTCGACTTATCGTCATCAGAGATCCAATTCGTCACCACCATTTCAAGAACGGAG
*
111433 TATGTTCCTGTGGGGACTATTGGTAGCAAATGA
66 TATGTTCCTGTGGCGACTATTGGTAGCAAATGA
* * * * * *
111466 AAAGATGGAGTTTTGACTTATCGTCATCAGAGATTCAATTTGTCACCGCCATTTCAAGAATGGAG
1 AAAGATGGAGTGTCGACTTATCGTCATCAGAGATCCAATTCGTCACCACCATTTCAAGAACGGAG
*
111531 TATGTTCTTGTGGCGACTATTGGTAG
66 TATGTTCCTGTGGCGACTATTGGTAG
111557 TCGTACGGCG
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
98 78 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (98 bp):
AAAGATGGAGTGTCGACTTATCGTCATCAGAGATCCAATTCGTCACCACCATTTCAAGAACGGAG
TATGTTCCTGTGGCGACTATTGGTAGCAAATGA
Found at i:114838 original size:3 final size:3
Alignment explanation
Indices: 114830--114893 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
114820 AATGATTATT
* **
114830 TAA TAA TAA T-A TAA TATA TAA TAA TATT TAA TAA TAA TAA TTT TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
114876 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
114894 ATAAAACAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.87
4 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:114860 original size:28 final size:28
Alignment explanation
Indices: 114826--114896 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 28
114816 CTGTAATGAT
114826 TATTTAATAATAATATAATATATAATAA
1 TATTTAATAATAATATAATATATAATAA
*
114854 TATTTAATAAT-A-ATAAT-TTTAATAA
1 TATTTAATAATAATATAATATATAATAA
*
114879 TA-ATAATAATAATA-AATA
1 TATTTAATAATAATATAATA
114897 AAACAAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
24 7 0.18
25 13 0.34
26 6 0.16
27 1 0.03
28 11 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TATTTAATAATAATATAATATATAATAA
Found at i:115684 original size:113 final size:113
Alignment explanation
Indices: 115235--117029 Score: 3199
Period size: 113 Copynumber: 15.9 Consensus size: 113
115225 AGAATTATGC
115235 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-TCTTCTTCAGATGAGTTCTTCTCA
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCT-TTCTTCAGATGAGTTCTTCTCA
* ** * * *
115299 TTATGAACTC-TCTCTAACAA-GTTGATCCATCGAGTGATGAATTCGAGCG
64 TTATGAACTCGAC-CTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
115348 AAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
115413 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
115461 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-ACTTTCTTCAAATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
**
115525 ATGAACTCGACCTAACAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
115573 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
*
115638 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCA
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
115686 AAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
115751 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
115799 AAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
**
115864 ATGAACTCGACCTAACAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
115912 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
115977 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
116025 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
116090 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
116138 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
*
116203 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
116251 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-ACTTTCTTCAAATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
**
116315 ATGAACTCGACCTAACAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
116363 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
116428 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
116476 AAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
116541 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
116589 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
116654 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
116702 AAAATTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
**
116767 ATGAACTCGACCTAACAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
116815 AAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
116880 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
116928 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-TCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCT-TTCTTCAGATGAGTTCTTCTCAT
* * *
116992 TATGAACTCGACCT-GAAATGTTGATCCATTGAATGATG
65 TATGAACTCGACCTGGCAATGCTGATCCATCGAATGATG
117030 GATTTGAATC
Statistics
Matches: 1621, Mismatches: 55, Indels: 13
0.96 0.03 0.01
Matches are distributed among these distances:
112 305 0.19
113 1316 0.81
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:116842 original size:790 final size:790
Alignment explanation
Indices: 115235--117029 Score: 3330
Period size: 790 Copynumber: 2.3 Consensus size: 790
115225 AGAATTATGC
115235 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-TCTTCTTCAGATGAGTTCTTCTCA
1 AAAA-ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCT-TTCTTCAGATGAGTTCTTCTCA
* ** * * * *
115299 TTATGAACTC-TCTCTAACAA-GTTGATCCATCGAGTGATGAATTCGAGCGAAAATTTGAACAAG
64 TTATGAACTCGAC-CTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAG
115362 TTCTTCTCATTATGAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACTCGACCTG
128 TTCTTCTCATTATGAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACTCGACCTG
*
115427 GCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
193 GCAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
115492 TTCTTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGA
258 TTCTTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGA
115557 ATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAG
323 ATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAG
115622 ATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCAA
388 ATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCAA
115687 AAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTA
453 AAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTA
*
115752 TGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAATTTGAACAAGTTCT
518 TGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCT
115817 TCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTAACAA
583 TCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTAACAA
*
115882 TGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCT
648 TGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTAT
**
115947 TCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATG
713 TCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGAATG
116012 ATGAATTCAAGCG
778 ATGAATTCAAGCG
116025 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
116090 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
116155 TTCTCATTATGAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCA
131 TTCTCATTATGAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCA
116220 ATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
196 ATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
116285 TTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGAATG
261 TTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGAATG
116350 ATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATG
326 ATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATG
*
116415 AGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAA
391 AGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCAAAAA
116480 TTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGA
456 TTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGA
116545 ACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCT
521 ACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCT
**
116610 CATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGC
586 CATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTAACAATGC
*
116675 TGATCCATCGAATGATGAATTCAAGCGAAAATTTGAACAAGTTCTTCTCATTATGAACTTATTCT
651 TGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCT
116740 TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGAATGATG
716 TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGAATGATG
116805 AATTCAAGCG
781 AATTCAAGCG
* *
116815 AAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTATTCTCATT
1 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
116880 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
* *
116945 TTCTCATTATGAACTTCTTCTT-TCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCT-GA
131 TTCTCATTATGAACTTCTTCTTCT-TTATTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGC
*
117008 AATGTTGATCCATTGAATGATG
195 AATGTTGATCCATCGAATGATG
117030 GATTTGAATC
Statistics
Matches: 980, Mismatches: 21, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
789 95 0.10
790 885 0.90
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (790 bp):
AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
TTCTCATTATGAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCA
ATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
TTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGAATG
ATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATG
AGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCAAAAA
TTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCT
CATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTAACAATGC
TGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCT
TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGAATGATG
AATTCAAGCG
Found at i:117463 original size:22 final size:22
Alignment explanation
Indices: 117438--117492 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
117428 AATAAAGCTT
* *
117438 TCATATTTGAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
*
117460 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
117482 TCATCTTTGAA
1 TCATCTTTGAA
117493 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:120118 original size:114 final size:114
Alignment explanation
Indices: 119918--120143 Score: 371
Period size: 114 Copynumber: 2.0 Consensus size: 114
119908 GATCATGCAG
* * * *
119918 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
119983 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
* * *
120032 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
120097 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
120144 CATGGCACTT
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 103 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:122417 original size:11 final size:11
Alignment explanation
Indices: 122397--122432 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
122387 CTTGATTCAA
122397 TTTTTCTTTTTC
1 TTTTT-TTTTTC
122409 TTTTTTTTTTC
1 TTTTTTTTTTC
*
122420 CTTTTTTTTTC
1 TTTTTTTTTTC
122431 TT
1 TT
122433 CTTTCTTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:122418 original size:12 final size:12
Alignment explanation
Indices: 122397--122436 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
122387 CTTGATTCAA
*
122397 TTTTTCTTTTTC
1 TTTTTTTTTTTC
*
122409 TTTTTTTTTTCC
1 TTTTTTTTTTTC
122421 TTTTTTTTTCTTC
1 TTTTTTTTT-TTC
122434 TTT
1 TTT
122437 CTTTGCTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:125619 original size:14 final size:14
Alignment explanation
Indices: 125586--125638 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
125576 TGTGCAATAT
* *
125586 AAATGCAAAGATGCC
1 AAATGTAAATATG-C
125601 AAATGTAAATATGC
1 AAATGTAAATATGC
* *
125615 AAATGTAAAAATGT
1 AAATGTAAATATGC
125629 AAATGTAAAT
1 AAATGTAAAT
125639 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.25
Consensus pattern (14 bp):
AAATGTAAATATGC
Found at i:129464 original size:14 final size:15
Alignment explanation
Indices: 129447--129491 Score: 74
Period size: 14 Copynumber: 3.0 Consensus size: 15
129437 GTAATGATTA
129447 TTTAATAATAAT-AT
1 TTTAATAATAATAAT
129461 TTTAATAATAATAAT
1 TTTAATAATAATAAT
129476 TTTAATAATAAATAAT
1 TTTAATAAT-AATAAT
129492 AATAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.41
15 11 0.38
16 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAATAATAATAAT
Found at i:131935 original size:32 final size:31
Alignment explanation
Indices: 131898--132020 Score: 104
Period size: 32 Copynumber: 3.8 Consensus size: 31
131888 GGTTATAAGA
131898 TTAATAAATTTAATGATTAATTTATAATAATT
1 TTAATAAATTTAATGATTAATTTATAATAA-T
* *
131930 TTAATAAAAGTTAATGA-TGATTCTATAATAAT
1 TTAAT-AAATTTAATGATTAATT-TATAATAAT
* * * * *
131962 TTAATAAATATAATGTTTTATTTTATATTCAT
1 TTAATAAATTTAATG-ATTAATTTATAATAAT
** *
131994 TCGATAAATTTAATAAATTAATTTATA
1 TTAATAAATTTAAT-GATTAATTTATA
132021 TTTTTGAAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
31 8 0.11
32 42 0.59
33 21 0.30
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (31 bp):
TTAATAAATTTAATGATTAATTTATAATAAT
Found at i:134906 original size:21 final size:20
Alignment explanation
Indices: 134872--134910 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
134862 TTTATGTTAA
134872 TATTTAATAATTTAATAAAT
1 TATTTAATAATTTAATAAAT
*
134892 TATTCTAATACTTTAATAA
1 TATT-TAATAATTTAATAA
134911 TTTAATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTAATAATTTAATAAAT
Found at i:136038 original size:4 final size:4
Alignment explanation
Indices: 136021--136054 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
136011 ATGATTAAAA
136021 ATTT ATTT CAATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT --ATTT ATTT ATTT ATTT ATTT ATTT
136055 CAATTTGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.86
6 4 0.14
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:136048 original size:12 final size:13
Alignment explanation
Indices: 136021--136060 Score: 55
Period size: 12 Copynumber: 3.0 Consensus size: 13
136011 ATGATTAAAA
136021 ATTTATTTCAATTT
1 ATTTATTT-AATTT
136035 ATTTATTT-ATTT
1 ATTTATTTAATTT
136047 ATTTATTTCAATTT
1 ATTTATTT-AATTT
136061 GACTAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTATTTAATTT
Found at i:139791 original size:21 final size:21
Alignment explanation
Indices: 139765--139806 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
139755 CTATCCTTGC
139765 TCAAACAGAGAGAATGAACGT
1 TCAAACAGAGAGAATGAACGT
139786 TCAAACAGAGAGAATGAACGT
1 TCAAACAGAGAGAATGAACGT
139807 GTTGCATGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.24, T:0.14
Consensus pattern (21 bp):
TCAAACAGAGAGAATGAACGT
Found at i:139869 original size:29 final size:29
Alignment explanation
Indices: 139836--139891 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
139826 TCCCAACACA
*
139836 TAGGTCGCCATGCCCTCCGAGCGACCTTG
1 TAGGTCGCCATGCACTCCGAGCGACCTTG
*
139865 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGAGCGACCT
139892 ACCCTCGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.38, G:0.29, T:0.20
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGAGCGACCTTG
Found at i:139944 original size:33 final size:33
Alignment explanation
Indices: 139895--139981 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 33
139885 GCGACCTACC
* * *
139895 CTCGCTCGGCTTCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGATGCCCTCGGATCCCCTCGCATAG
139928 CTCGCTC-GATTGCCCTCGGATCCCCTCGCATAG
1 CTCGCTCGGA-TGCCCTCGGATCCCCTCGCATAG
* *
139961 CTCGTTCGGATGGCCTCGGAT
1 CTCGCTCGGATGCCCTCGGAT
139982 GCTCTCGGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 1 0.02
33 44 0.94
34 2 0.04
ACGTcount: A:0.10, C:0.39, G:0.24, T:0.26
Consensus pattern (33 bp):
CTCGCTCGGATGCCCTCGGATCCCCTCGCATAG
Found at i:140042 original size:20 final size:20
Alignment explanation
Indices: 139966--140032 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
139956 CATAGCTCGT
139966 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
*
139986 TCGGATGGCCTTGGATGCTC
1 TCGGATGGCCTCGGATGCTC
140006 TCGGATGGCCTCGGATGGC-C
1 TCGGATGGCCTCGGAT-GCTC
140026 TCGGATG
1 TCGGATG
140033 CTCTCAGATG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.10, C:0.27, G:0.37, T:0.25
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:140048 original size:10 final size:10
Alignment explanation
Indices: 139966--140047 Score: 98
Period size: 10 Copynumber: 8.2 Consensus size: 10
139956 CATAGCTCGT
139966 TCGGATGGCC
1 TCGGATGGCC
139976 TCGGAT-GCTC
1 TCGGATGGC-C
139986 TCGGATGGCC
1 TCGGATGGCC
*
139996 TTGGAT-GCTC
1 TCGGATGGC-C
140006 TCGGATGGCC
1 TCGGATGGCC
140016 TCGGATGGCC
1 TCGGATGGCC
140026 TCGGAT-GCTC
1 TCGGATGGC-C
*
140036 TCAGATGGCC
1 TCGGATGGCC
140046 TC
1 TC
140048 ATATGCCCAG
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
9 6 0.10
10 51 0.81
11 6 0.10
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:140129 original size:29 final size:29
Alignment explanation
Indices: 140092--140149 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
140082 GCAATCTCTT
* *
140092 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGAAAGACATGGCGACCTA
* *
140121 GTAGGTCGCCCGAAAGGCATGGCGACCTA
1 GTAGCTCGCCCGAAAGACATGGCGACCTA
140150 CGACCAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.34, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGAAAGACATGGCGACCTA
Found at i:150588 original size:40 final size:40
Alignment explanation
Indices: 150539--150620 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
150529 TATTATTTAA
* * *
150539 TTGTGAATTTATTCCCTATATTTTAATTTGATTG-TATAAT
1 TTGTAAATTTAGTCCCTATATTTT-ATTTAATTGATATAAT
*
150579 TTGTAAATTTAGTCTCTATATTTTATTTAATTGAATATAAT
1 TTGTAAATTTAGTCCCTATATTTTATTTAATTG-ATATAAT
150620 T
1 T
150621 ATTATATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 8 0.22
40 21 0.58
41 7 0.19
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (40 bp):
TTGTAAATTTAGTCCCTATATTTTATTTAATTGATATAAT
Found at i:155538 original size:13 final size:13
Alignment explanation
Indices: 155520--155544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
155510 TACCTGCAAA
155520 GAAAAAAAAACAT
1 GAAAAAAAAACAT
155533 GAAAAAAAAACA
1 GAAAAAAAAACA
155545 AATGTACAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.08, G:0.08, T:0.04
Consensus pattern (13 bp):
GAAAAAAAAACAT
Found at i:161897 original size:21 final size:20
Alignment explanation
Indices: 161851--161898 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
161841 GATTCTGACT
161851 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTCCCAA
* *
161871 ATTCGCGTTGCGATTTTCCTAA
1 A-TCGCATTGCGA-TTTCCCAA
161893 ATCGCA
1 ATCGCA
161899 ACGAGATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 8 0.35
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATTTCCCAA
Found at i:161947 original size:62 final size:61
Alignment explanation
Indices: 161832--161948 Score: 139
Period size: 62 Copynumber: 1.9 Consensus size: 61
161822 GTTTCCAGAT
* * * **
161832 TCGCAACGCGATTCTGACTATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCTAAA
1 TCGCAACGAGATTCTGACTATCGCAATACGATTT-CCAAATTCGCACTGCGATTTTCCTAAA
161894 TCGCAACGAGATTCTGACTATCGCAATACTGAATTT-CAAATTCGCAACT-CGATTT
1 TCGCAACGAGATTCTGACTATCGCAATAC-G-ATTTCCAAATTCGC-ACTGCGATTT
161949 CTGAATTCGC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
62 41 0.87
63 2 0.04
64 4 0.09
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (61 bp):
TCGCAACGAGATTCTGACTATCGCAATACGATTTCCAAATTCGCACTGCGATTTTCCTAAA
Found at i:162664 original size:24 final size:24
Alignment explanation
Indices: 162637--162690 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
162627 GTATTCGAAA
162637 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
162661 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
162685 TTTGAT
1 TTTGAT
162691 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:165255 original size:14 final size:14
Alignment explanation
Indices: 165236--165289 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
165226 TGCGAAATGA
165236 AATCGCAACGAGAT
1 AATCGCAACGAGAT
*
165250 AATCGCAATGCGAAAT
1 AATCGCAA--CGAGAT
*
165266 GAAATCGCAACGAGAG
1 --AATCGCAACGAGAT
165282 AATCGCAA
1 AATCGCAA
165290 TGCGAAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 16 0.48
16 9 0.27
18 8 0.24
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.13
Consensus pattern (14 bp):
AATCGCAACGAGAT
Found at i:165309 original size:33 final size:32
Alignment explanation
Indices: 165219--165342 Score: 203
Period size: 32 Copynumber: 3.8 Consensus size: 32
165209 GGAAATTACT
*
165219 ATCGCAATGCGAAATGAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAATCGCAACGAGAGA
165251 ATCGCAATGCGAAATGAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAATCGCAACGAGAGA
*
165283 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATG-AAATCGCAACGAGAGA
* *
165316 ATCACAAAGCGAAATGAAATCGCAACG
1 ATCGCAATGCGAAATGAAATCGCAACG
165343 CGAATTTAGT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
32 58 0.67
33 29 0.33
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGAGAGA
Found at i:165329 original size:65 final size:64
Alignment explanation
Indices: 165219--165342 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 64
165209 GGAAATTACT
* * *
165219 ATCGCAATGCGAAATGAAATCGCAACGAGATAATCGCAATGCGAAATGAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAATCGCAACGAGAGAATCACAAAGCGAAATGAAATCGCAACGAGAGA
*
165283 ATCGCAATGCGAAATGAAAATCGCAACGAGGGAATCACAAAGCGAAATGAAATCGCAACG
1 ATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCACAAAGCGAAATGAAATCGCAACG
165343 CGAATTTAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
64 16 0.29
65 39 0.71
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.13
Consensus pattern (64 bp):
ATCGCAATGCGAAATGAAATCGCAACGAGAGAATCACAAAGCGAAATGAAATCGCAACGAGAGA
Found at i:165384 original size:19 final size:18
Alignment explanation
Indices: 165342--165418 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 18
165332 AAATCGCAAC
*
165342 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGC-TT
165361 GCGATTTTAGTTTCGCTTT
1 GCGATTTTAGTTTCGC-TT
165380 GCGATTTT-G--TCG-TT
1 GCGATTTTAGTTTCGCTT
165394 GCGATTTTTA-TTTCGCATT
1 GCGA-TTTTAGTTTCGC-TT
165413 GCGATT
1 GCGATT
165419 CTCTCGTTGC
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
14 6 0.12
15 4 0.08
16 3 0.06
17 3 0.06
18 3 0.06
19 31 0.62
ACGTcount: A:0.13, C:0.16, G:0.23, T:0.48
Consensus pattern (18 bp):
GCGATTTTAGTTTCGCTT
Found at i:165399 original size:33 final size:32
Alignment explanation
Indices: 165357--165450 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 32
165347 TTTAGTTTCG
* * *
165357 CGTTGCGATTTTAGTTTCGCTTTGCGATTTTGT
1 CGTTGCGATTTTA-TTTCGCATTGCGATTCTCT
165390 CGTTGCGATTTTTATTTCGCATTGCGATTCTCT
1 CGTTGCGA-TTTTATTTCGCATTGCGATTCTCT
165423 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTT-ATTTCGCATTGCGAT
165451 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
32 4 0.07
33 47 0.84
34 5 0.09
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (32 bp):
CGTTGCGATTTTATTTCGCATTGCGATTCTCT
Found at i:165449 original size:19 final size:17
Alignment explanation
Indices: 165342--165450 Score: 68
Period size: 19 Copynumber: 6.3 Consensus size: 17
165332 AAATCGCAAC
*
165342 GCGAATTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
165361 GCGATTTTAGTTTCGCTTT
1 GCGATTTTA-TTTCGC-TT
*
165380 GCGA-TTT-TGTCG-TT
1 GCGATTTTATTTCGCTT
165394 GCGATTTTTATTTCGCATT
1 GCGA-TTTTATTTCGC-TT
* *
165413 GCGA--TTCTCTCG-TT
1 GCGATTTTATTTCGCTT
165427 GCGATTTTCATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
165446 GCGAT
1 GCGAT
165451 AGTCATTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
14 12 0.17
16 15 0.21
17 8 0.11
18 3 0.04
19 34 0.47
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (17 bp):
GCGATTTTATTTCGCTT
Found at i:165577 original size:14 final size:13
Alignment explanation
Indices: 165558--165596 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
165548 CATCAATTAA
165558 ACAAATCAACTTTT
1 ACAAATCAA-TTTT
165572 ACAAATCATATTTT
1 ACAAATCA-ATTTT
165586 ACAAATCAATT
1 ACAAATCAATT
165597 AAACAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 3 0.12
14 20 0.83
15 1 0.04
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (13 bp):
ACAAATCAATTTT
Found at i:167011 original size:21 final size:21
Alignment explanation
Indices: 166945--167011 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
166935 GTGAATCGGG
*
166945 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
166965 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
166987 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
167008 CTCT
1 CTCT
167012 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:167530 original size:33 final size:33
Alignment explanation
Indices: 167488--167580 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
167478 AAAAATGACT
167488 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
167521 ATCGCAACGCGAAATGAAAATCGGAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
167554 ATCGCAATGCGGAATGAAAATCGCAAC
1 ATCGCAACGCGAAATGAAAATCGCAAC
167581 ACGATTATAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:167548 original size:19 final size:19
Alignment explanation
Indices: 167464--167580 Score: 74
Period size: 19 Copynumber: 6.6 Consensus size: 19
167454 TCTGGAACTT
*
167464 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
167485 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
167504 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
167518 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
167537 AAAATCGGAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* * *
167551 AGAATCGCAATGCGGAATG
1 AAAATCGCAACGCGAAATG
167570 AAAATCGCAAC
1 AAAATCGCAAC
167581 ACGATTATAG
Statistics
Matches: 74, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
14 19 0.26
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 32 0.43
21 11 0.15
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:167653 original size:33 final size:34
Alignment explanation
Indices: 167596--167660 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
167586 TATAGTTTCG
**
167596 CGTTGCGATTTTTGGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTTCATTTCGCGTTGCGATTTTGT
*
167630 CGTTGCGA-TTTTCATTTCGCGTTGTGATTTT
1 CGTTGCGATTTTTCATTTCGCGTTGCGATTTT
167661 CATTCTCTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.08, C:0.15, G:0.26, T:0.51
Consensus pattern (34 bp):
CGTTGCGATTTTTCATTTCGCGTTGCGATTTTGT
Found at i:167658 original size:19 final size:19
Alignment explanation
Indices: 167591--167686 Score: 94
Period size: 20 Copynumber: 5.2 Consensus size: 19
167581 ACGATTATAG
**
167591 TTTCGCGTTGCGATTTTTGG
1 TTTCGCGTTGCGA-TTTTCA
167611 TTTCGCGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
167627 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
167644 TTTCGCGTTGTGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
167663 TTCTCTCGTTGCGATTTTCA
1 TT-TCGCGTTGCGATTTTCA
167683 TTTC
1 TTTC
167687 AACCAAAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
14 8 0.12
15 3 0.05
16 2 0.03
17 2 0.03
18 3 0.05
19 17 0.26
20 30 0.46
ACGTcount: A:0.08, C:0.19, G:0.22, T:0.51
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:167890 original size:94 final size:94
Alignment explanation
Indices: 167777--168142 Score: 653
Period size: 94 Copynumber: 3.9 Consensus size: 94
167767 ATGGATTGCA
* * *
167777 TTAC-TTCAACTAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
167841 TTAGTAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAAACGAACAAAT
*
167870 TTACTTTCAACCAAAGGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
167935 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAAACGAACAAAT
*
167964 TTACTTTCAACCAAAAGACAAAACAAAGACAAATAATAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
168029 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAAACGAACAAAT
168058 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
168123 TTAGCAGAATTGGCAGCAAA
66 TTAGCAGAATTGGCAGCAAA
168143 TACCGAATAA
Statistics
Matches: 262, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
93 4 0.02
94 258 0.98
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAAACGAACAAAT
Found at i:169947 original size:19 final size:19
Alignment explanation
Indices: 169861--169987 Score: 94
Period size: 20 Copynumber: 7.1 Consensus size: 19
169851 TCTTTTGGTT
*
169861 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
169880 GAGAATGAAAATCGTAACGC
1 GA-AATGAAAATCGCAACGC
**
169900 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
169918 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
169934 GAAATTAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
169951 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
169967 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
169986 GA
1 GA
169988 TTTTGGTTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
14 18 0.22
15 2 0.02
16 4 0.05
17 3 0.04
18 3 0.04
19 25 0.30
20 26 0.31
21 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:169947 original size:33 final size:33
Alignment explanation
Indices: 169861--169982 Score: 145
Period size: 33 Copynumber: 3.5 Consensus size: 33
169851 TCTTTTGGTT
*
169861 GAAATGAAAATCGCAACGAGAGAATGAAAATCGTAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
**
169900 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
169934 GAAATTAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
169967 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
169983 TGCGATTTTG
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
33 45 0.60
34 10 0.13
36 1 0.01
37 1 0.01
38 3 0.04
40 15 0.20
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:170046 original size:20 final size:20
Alignment explanation
Indices: 169994--170071 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
169984 GCGATTTTGG
*
169994 TTTCGCGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
**
170014 TTCTC-TCGTTGCGATAGTCAT
1 TT-TCGT-GTTGCGATTTTCAT
170035 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
*
170055 TTTCATGTTGCGATTTT
1 TTTCGTGTTGCGATTTT
170072 AAGTTTAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 32 0.65
21 17 0.35
ACGTcount: A:0.12, C:0.18, G:0.19, T:0.51
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:170624 original size:21 final size:21
Alignment explanation
Indices: 170600--170678 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 21
170590 ATGGCGCTAT
*
170600 GTAAATCGTAATGCGAATTAG
1 GTAAATCGCAATGCGAATTAG
* * *
170621 GTAAATCACATTGCGATTTAG
1 GTAAATCGCAATGCGAATTAG
* * *
170642 GAAAATCGCAACGCGAATTTG
1 GTAAATCGCAATGCGAATTAG
*
170663 GGAAATCGCAATGCGA
1 GTAAATCGCAATGCGA
170679 TAGTCAGAAT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (21 bp):
GTAAATCGCAATGCGAATTAG
Found at i:172574 original size:57 final size:57
Alignment explanation
Indices: 172487--172606 Score: 213
Period size: 57 Copynumber: 2.1 Consensus size: 57
172477 ATAAATGACC
* * *
172487 TTTTATTTTAATTGTTCGATCTAGTTTAGTTTGATTCAAGTTTTTCAGTCAAAGAAA
1 TTTTATTTTAATTATTCGATCTAGTTTAGTTCGATTCAAGTATTTCAGTCAAAGAAA
172544 TTTTATTTTAATTATTCGATCTAGTTTAGTTCGATTCAAGTATTTCAGTCAAAGAAA
1 TTTTATTTTAATTATTCGATCTAGTTTAGTTCGATTCAAGTATTTCAGTCAAAGAAA
172601 TTTTAT
1 TTTTAT
172607 CATATAATAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.49
Consensus pattern (57 bp):
TTTTATTTTAATTATTCGATCTAGTTTAGTTCGATTCAAGTATTTCAGTCAAAGAAA
Found at i:172702 original size:26 final size:26
Alignment explanation
Indices: 172672--172723 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
172662 TAATGCACCG
*
172672 AAAGTGCATTAGTTGGCAGCAATGAT
1 AAAGTGCATTAGTTGGCAACAATGAT
172698 AAAGTGCATTAGTTGGCAACAATGAT
1 AAAGTGCATTAGTTGGCAACAATGAT
172724 TCATCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.27
Consensus pattern (26 bp):
AAAGTGCATTAGTTGGCAACAATGAT
Found at i:173078 original size:6 final size:6
Alignment explanation
Indices: 173067--173092 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
173057 TTGTGTCTTA
173067 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
173093 CTCAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:179241 original size:23 final size:23
Alignment explanation
Indices: 179213--179261 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
179203 ATAATCAGTT
179213 TTAATCC-CCTAAAATTTTATAAA
1 TTAATCCACCTAAAATTTTA-AAA
*
179236 TTAATCCATCTTAAAATTTTAAAA
1 TTAATCCA-CCTAAAATTTTAAAA
179260 TT
1 TT
179262 TTATTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 5 0.22
25 11 0.48
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAATCCACCTAAAATTTTAAAA
Found at i:179515 original size:24 final size:22
Alignment explanation
Indices: 179487--179538 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
179477 TTTTGGCGAC
*
179487 ATATTAATTTATATTATATTTTAA
1 ATATTAATTTAGA-T-TATTTTAA
**
179511 ATATTTCTTTAGATTATTTTAA
1 ATATTAATTTAGATTATTTTAA
179533 ATATTA
1 ATATTA
179539 TTTTTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 13 0.54
23 1 0.04
24 10 0.42
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATTAATTTAGATTATTTTAA
Found at i:179631 original size:51 final size:51
Alignment explanation
Indices: 179574--179679 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
179564 GTAACTGCAT
179574 TTATATGATGTATATATATTGTCAATAAATTAAAAATAATTTGAACATATA
1 TTATATGATGTATATATATTGTCAATAAATTAAAAATAATTTGAACATATA
179625 TTATATGATGTATATATATTGTCAATAAATTAAAAATAATTTGAACATATA
1 TTATATGATGTATATATATTGTCAATAAATTAAAAATAATTTGAACATATA
179676 TTAT
1 TTAT
179680 CTCATAATTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (51 bp):
TTATATGATGTATATATATTGTCAATAAATTAAAAATAATTTGAACATATA
Found at i:181733 original size:58 final size:59
Alignment explanation
Indices: 181619--181736 Score: 141
Period size: 58 Copynumber: 2.0 Consensus size: 59
181609 CATACAACCC
* * * * ** *
181619 CAAATTATGACTTTTATTCTAAATTAGTTCCTAAACTTTTGAACATTTTAATTTCATCT
1 CAAATTATGACTTTAATTCTAAATTAGATCCCAAACTTTTAAACATTCCAAATTCATCT
*
181678 CAAATTATGA-TTCTAATTTTAAATT-GATCCCAAACTTTTAAACATTCCAAATTCATCT
1 CAAATTATGACTT-TAATTCTAAATTAGATCCCAAACTTTTAAACATTCCAAATTCATCT
181736 C
1 C
181737 CAAACTGTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
58 30 0.60
59 20 0.40
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.43
Consensus pattern (59 bp):
CAAATTATGACTTTAATTCTAAATTAGATCCCAAACTTTTAAACATTCCAAATTCATCT
Found at i:184866 original size:25 final size:28
Alignment explanation
Indices: 184832--184907 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 28
184822 AAAACTCGTC
184832 AAGTTTTCATTCTCTTATTTTTG-T-T-
1 AAGTTTTCATTCTCTTATTTTTGTTGTA
184857 AAGTTTTCATTCTCTTATTTTTGTTGTCA
1 AAGTTTTCATTCTCTTATTTTTGTTGT-A
*
184886 AAGTTTTTATTCTCTTATTTTT
1 AAGTTTTCATTCTCTTATTTTT
184908 ATTTACTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
25 23 0.50
26 1 0.02
27 1 0.02
29 21 0.46
ACGTcount: A:0.17, C:0.12, G:0.08, T:0.63
Consensus pattern (28 bp):
AAGTTTTCATTCTCTTATTTTTGTTGTA
Found at i:186561 original size:22 final size:22
Alignment explanation
Indices: 186526--186590 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 22
186516 GTCGAGGGTT
186526 CTATGTGGTCCTTCGGGACAAC
1 CTATGTGGTCCTTCGGGACAAC
* *
186548 CTATGTCGTACTTCGGTG-CAAAC
1 CTATGTGGTCCTTCGG-GAC-AAC
186571 CTATGTGGTCCTTCGGGACA
1 CTATGTGGTCCTTCGGGACA
186591 GTTATGTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 17 0.47
23 19 0.53
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (22 bp):
CTATGTGGTCCTTCGGGACAAC
Found at i:186612 original size:44 final size:45
Alignment explanation
Indices: 186526--186613 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
186516 GTCGAGGGTT
*
186526 CTATGTGGTCCTTCGGGACAACCTATGTCGTACTTCGGTGCAAAC
1 CTATGTGGTCCTTCGGGACAACCTATGTCGCACTTCGGTGCAAAC
** *
186571 CTATGTGGTCCTTCGGGAC-AGTTATGTGGCACTTCGGTGCAAA
1 CTATGTGGTCCTTCGGGACAACCTATGTCGCACTTCGGTGCAAA
186614 TTACGAGCTG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 20 0.51
45 19 0.49
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (45 bp):
CTATGTGGTCCTTCGGGACAACCTATGTCGCACTTCGGTGCAAAC
Found at i:187646 original size:52 final size:53
Alignment explanation
Indices: 187568--187677 Score: 195
Period size: 52 Copynumber: 2.1 Consensus size: 53
187558 GACTCGAGAT
*
187568 TGATGTAGTTGTTTATAGTGATTGTGGTGTTT-AAACTTAGATGAAATGATAG
1 TGATGTAGTCGTTTATAGTGATTGTGGTGTTTAAAACTTAGATGAAATGATAG
*
187620 TGATGTAGTCGTTTATAGTGATTGTGGTGTTTAAAACTTGGATGAAATGATAG
1 TGATGTAGTCGTTTATAGTGATTGTGGTGTTTAAAACTTAGATGAAATGATAG
187673 TGATG
1 TGATG
187678 AATGGTTGGT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 31 0.56
53 24 0.44
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.41
Consensus pattern (53 bp):
TGATGTAGTCGTTTATAGTGATTGTGGTGTTTAAAACTTAGATGAAATGATAG
Found at i:189986 original size:78 final size:78
Alignment explanation
Indices: 189841--190066 Score: 197
Period size: 80 Copynumber: 2.8 Consensus size: 78
189831 CCACTATAGT
*
189841 CAGATATATAGTGACGTTTTTATGAAAACGCCGCTAAAAACACACTTTAATAGCGTTTATGTAAA
1 CAGATATATAGTGACGTTTTTATGAAAACGCCGCTAAAAACACACTTTAATAGCATTTATGTAAA
189906 ACACCGTTATATC
66 ACACCGTTATATC
* * * * ** **
189919 CAGATATGTCGTGGCGTTTTTGTGAAAATTCCGCTAAAAACACACACTTTTGT-GCATTTATGT-
1 CAGATATATAGTGACGTTTTTATGAAAACGCCGCT-AAAA-ACACACTTTAATAGCATTTATGTA
* *
189982 AAACAACGCTGCTATAGC
64 AAAC-AC-C-GTTATATC
** * * * * * *
190000 CA-ATATATAGTGGTGTTTATGTGAAAACGCCGCTAAAAAGGCATACTTTAGTGGCGTTTATGTA
1 CAGATATATAGTGACGTTTTTATGAAAACGCCGCTAAAAA--CACACTTTAATAGCATTTATGTA
190064 AAA
64 AAA
190067 ATGTCGCTAT
Statistics
Matches: 119, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
78 34 0.29
79 19 0.16
80 46 0.39
81 17 0.14
82 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (78 bp):
CAGATATATAGTGACGTTTTTATGAAAACGCCGCTAAAAACACACTTTAATAGCATTTATGTAAA
ACACCGTTATATC
Found at i:190033 original size:80 final size:81
Alignment explanation
Indices: 189764--190196 Score: 314
Period size: 81 Copynumber: 5.4 Consensus size: 81
189754 CGATATCCTA
* * * * * **
189764 ATATATAGT-GTGTTTGTAAGAAAACACCGCTAGAAACACGTACTTTAGT-G-GTTTATGTAAAA
1 ATATATAGTGGCGTTTTTATGAAAACGCCGCTAAAAACACACACTTTAGTAGCGTTTATGT--AA
* ** *
189826 AAATGCCACTATAGTCAG
64 AAACGCTGCTATAGCCAG
* *
189844 ATATATAGTGACGTTTTTATGAAAACGCCGCT-AAAA-ACACACTTTAATAGCGTTTATGTAAAA
1 ATATATAGTGGCGTTTTTATGAAAACGCCGCTAAAAACACACACTTTAGTAGCGTTTATGTAAAA
* *
189907 CAC-C-GTTATATCCAG
66 -ACGCTGCTATAGCCAG
* * * ** * *
189922 ATATGTCGTGGCGTTTTTGTGAAAATTCCGCTAAAAACACACACTTTTGT-GCATTTATGTAAAC
1 ATATATAGTGGCGTTTTTATGAAAACGCCGCTAAAAACACACACTTTAGTAGCGTTTATGTAAA-
189986 AACGCTGCTATAGCCA-
65 AACGCTGCTATAGCCAG
* * * ** * *
190002 ATATATAGTGGTGTTTATGTGAAAACGCCGCTAAAAAGGCATACTTTAGTGGCGTTTATGTAAAA
1 ATATATAGTGGCGTTTTTATGAAAACGCCGCTAAAAACACACACTTTAGTAGCGTTTATGTAAAA
* *
190067 ATG-TCGCTATAGACAG
66 ACGCT-GCTATAGCCAG
* * * * * **** *
190083 ATATATAGTTGCATTTTTTTGAAAACGTCGTTAAAAACGTGTACTTTAGTGGCGTTTATGTAAAA
1 ATATATAGTGGCGTTTTTATGAAAACGCCGCTAAAAACACACACTTTAGTAGCGTTTATGTAAAA
* *
190148 ATGCTACTATAGCCAG
66 ACGCTGCTATAGCCAG
* * * *
190164 --ATATAGTGGCATTTTTGTGTAAACGCCACTAAA
1 ATATATAGTGGCGTTTTTATGAAAACGCCGCTAAA
190197 GTACGAGTAC
Statistics
Matches: 284, Mismatches: 56, Indels: 27
0.77 0.15 0.07
Matches are distributed among these distances:
78 33 0.12
79 60 0.21
80 78 0.27
81 112 0.39
82 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (81 bp):
ATATATAGTGGCGTTTTTATGAAAACGCCGCTAAAAACACACACTTTAGTAGCGTTTATGTAAAA
ACGCTGCTATAGCCAG
Found at i:190075 original size:41 final size:39
Alignment explanation
Indices: 190007--190148 Score: 106
Period size: 41 Copynumber: 3.5 Consensus size: 39
189997 AGCCAATATA
* * *
190007 TAGTGGTGTTTATGTGAAAACGCCGCTAAAAAGGCATACTT
1 TAGTGGCGTTTATGTAAAAACGTCGCTAAAAA-G-ATACTT
* * *
190048 TAGTGGCGTTTATGTAAAAATGTCGCTATAGACAGATA-TA
1 TAGTGGCGTTTATGTAAAAACGTCGCTA-A-AAAGATACTT
* * * * * * *
190088 TAGTTGCATTTTTTTGAAAACGTCGTTAAAAACGTGTACTT
1 TAGTGGCGTTTATGTAAAAACGTCGCTAAAAA-G-ATACTT
190129 TAGTGGCGTTTATGTAAAAA
1 TAGTGGCGTTTATGTAAAAA
190149 TGCTACTATA
Statistics
Matches: 75, Mismatches: 21, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
38 2 0.03
39 2 0.03
40 24 0.32
41 43 0.57
42 2 0.03
43 2 0.03
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (39 bp):
TAGTGGCGTTTATGTAAAAACGTCGCTAAAAAGATACTT
Found at i:190172 original size:160 final size:156
Alignment explanation
Indices: 189790--190196 Score: 388
Period size: 160 Copynumber: 2.6 Consensus size: 156
189780 TAAGAAAACA
* * *
189790 CCGCTAGAAACACGTACTTTAGTG-GTTTATGTAAAAAAATGCCACTATAGTCAGATATATAGTG
1 CCGCTAAAAACACGTACTTTAGTGCGTTTATGT--AAAAATGCTACTATAGCCAG--ATATAGTG
* * * **
189854 ACGTTTTTATGAAAACGCCGCTAAAAACACACTTTAATAGCGTTTATGTAAAACACCGTTATATC
62 GCGTTTTTGTGAAAACGCCGCTAAAAACACACTTTAATAGCGTTTATGTAAAACACCGCTATAGA
* * * *
189919 CAGATATGTCGTGGCGTTTTTGTGAAAATT
127 CAGATATATAGTGGCATTTTTGTGAAAAGT
** * * * * * *
189949 CCGCTAAAAACACACACTTTTGTGCATTTATGTAAACAACGCTGCTATAGCCAATATATAGTGGT
1 CCGCTAAAAACACGTACTTTAGTGCGTTTATGTAAA-AATGCTACTATAGCC-AGATATAGTGGC
* * * * *
190014 GTTTATGTGAAAACGCCGCTAAAAAGGCATACTTTAGTGGCGTTTATGTAAAA-ATGTCGCTATA
64 GTTTTTGTGAAAACGCCGCTAAAAA--CACACTTTAATAGCGTTTATGTAAAACA--CCGCTATA
* *
190078 GACAGATATATAGTTGCATTTTTTTGAAAACGT
125 GACAGATATATAGTGGCATTTTTGTGAAAA-GT
* ** *
190111 -CGTTAAAAACGTGTACTTTAGTGGCGTTTATGTAAAAATGCTACTATAGCCAGATATAGTGGCA
1 CCGCTAAAAACACGTACTTTAGT-GCGTTTATGTAAAAATGCTACTATAGCCAGATATAGTGGCG
* *
190175 TTTTTGTGTAAACGCCACTAAA
65 TTTTTGTGAAAACGCCGCTAAA
190197 GTACGAGTAC
Statistics
Matches: 197, Mismatches: 42, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
158 34 0.17
159 32 0.16
160 60 0.30
161 58 0.29
162 13 0.07
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (156 bp):
CCGCTAAAAACACGTACTTTAGTGCGTTTATGTAAAAATGCTACTATAGCCAGATATAGTGGCGT
TTTTGTGAAAACGCCGCTAAAAACACACTTTAATAGCGTTTATGTAAAACACCGCTATAGACAGA
TATATAGTGGCATTTTTGTGAAAAGT
Found at i:194177 original size:22 final size:21
Alignment explanation
Indices: 194096--194176 Score: 99
Period size: 22 Copynumber: 3.8 Consensus size: 21
194086 TGATTTATTA
* *
194096 TTATGGATTTCAAGCTGGTTG
1 TTATAGATTTCAAGTTGGTTG
194117 TTTATAGATTTCAAGTTGGTTG
1 -TTATAGATTTCAAGTTGGTTG
*
194139 TTATAGATTTCAAGTTTGTTTG
1 TTATAGATTTCAAG-TTGGTTG
* *
194161 TTATGGATGTCAAGTT
1 TTATAGATTTCAAGTT
194177 TATTGATAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
21 16 0.30
22 37 0.70
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.48
Consensus pattern (21 bp):
TTATAGATTTCAAGTTGGTTG
Done.