Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007936.1 Hibiscus syriacus cultivar Beakdansim tig00110346_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: 2869312
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:1389 original size:8 final size:8
Alignment explanation
Indices: 1376--1405 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1366 TTTTCTTTGA
*
1376 TTTTTCTT
1 TTTTTCAT
1384 TTTTTCAT
1 TTTTTCAT
1392 TTTTTCAT
1 TTTTTCAT
1400 TTTTTC
1 TTTTTC
1406 CCTTATGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCAT
Found at i:7378 original size:250 final size:249
Alignment explanation
Indices: 6894--7489 Score: 893
Period size: 250 Copynumber: 2.4 Consensus size: 249
6884 ACTTTATTTT
* * * *
6894 GGTCGGGTCGGATCGGGTTTTTTTAAGCGTGATATTCGGGTCGGG-ACGGGTTTAGGGTG--AAA
1 GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGTGAAAAA
6956 AATCGGACCGACCCGAAAATATATATAATTCAGATCGGGTCGGATTAAGTCACTGTTTTTATTAA
66 AATCGGACCGACCCGAAAATATATATAATTCAGATCGGGTCGGATTAAGTCACTGTTTTTATTAA
* *
7021 ATAAAAATATTTTTTATTATTTCGGTTCGGGTCGGGTTGGATTTCTAATTCATATATTCGGGTCG
131 ATAAAAATATTTTTTATTATTTCGGTTCGGGTCGGGTCGGATTTCTAATT-ATATATTCGGATCG
* *
7086 GGTCGGATGAAATTTTTTGTTCGGGTCTGGTCGGATTTTTTAAGTGTGATATTCG
195 GGTCGGATGAAATTTTTTGTTCGGGTCGGGCCGGATTTTTTAAGTGTGATATTCG
*
7141 GGTTGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGTGAAAAA
1 GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGTGAAAAA
* * *
7206 AACCAGACCGACCCGAAAATATATATAATTCAGGTCGGGTCGGATTAAGTCACTGTTTTTATTAA
66 AATCGGACCGACCCGAAAATATATATAATTCAGATCGGGTCGGATTAAGTCACTGTTTTTATTAA
*
7271 ATACAAATATTTTATTATTATTTCAGG-TCGGGTCGGGTCGGATTTCTAA-T-TATATTCGGATC
131 ATAAAAATATTTT-TTATTATTTC-GGTTCGGGTCGGGTCGGATTTCTAATTATATATTCGGATC
*
7333 GGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGCCGGA-TTTTTAAGTGTGATATTTG
194 GGGTCGGATGAAA--TT-TTTTGTTCGGGTCGGGCCGGATTTTTTAAGTGTGATATTCG
*
7391 GGTCGAGTCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGGGTCGGATTTGGGTTTAGGGTG
1 GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTC--G--GG-TTCGGGTTTAGGGTG
*
7455 AAAAAAATCGGACCGACCCGAAAAAATATATAATT
61 AAAAAAATCGGACCGACCCGAAAATATATATAATT
7490 TTACCTTATA
Statistics
Matches: 317, Mismatches: 19, Indels: 19
0.89 0.05 0.05
Matches are distributed among these distances:
247 41 0.13
248 37 0.12
249 24 0.08
250 114 0.36
251 51 0.16
252 2 0.01
253 2 0.01
254 46 0.15
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.36
Consensus pattern (249 bp):
GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGTGAAAAA
AATCGGACCGACCCGAAAATATATATAATTCAGATCGGGTCGGATTAAGTCACTGTTTTTATTAA
ATAAAAATATTTTTTATTATTTCGGTTCGGGTCGGGTCGGATTTCTAATTATATATTCGGATCGG
GTCGGATGAAATTTTTTGTTCGGGTCGGGCCGGATTTTTTAAGTGTGATATTCG
Found at i:7401 original size:36 final size:37
Alignment explanation
Indices: 7361--7438 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
7351 TTTTGTTCGG
*
7361 GTCGGG-CCGGATTTTTAAGTGTGATATTTGGGTCGA
1 GTCGGGTCCGGATTTTTAAGTGTGATATTCGGGTCGA
* * *
7397 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGG
1 GTCGGGTCCGGATTTTTAAGTGTGATATTCGGGTCGA
7434 GTCGG
1 GTCGG
7439 ATTTGGGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 6 0.16
37 31 0.84
ACGTcount: A:0.13, C:0.12, G:0.40, T:0.36
Consensus pattern (37 bp):
GTCGGGTCCGGATTTTTAAGTGTGATATTCGGGTCGA
Found at i:13582 original size:14 final size:15
Alignment explanation
Indices: 13552--13584 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13542 AATAGAATAA
13552 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
13567 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
13581 ATAA
1 ATAA
13585 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:13672 original size:15 final size:15
Alignment explanation
Indices: 13652--13701 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
13642 AATAATAAAA
13652 TAAAA-TAACAATAAT
1 TAAAAGTAA-AATAAT
* *
13667 TAAAATTAAAAAAAT
1 TAAAAGTAAAATAAT
13682 TAAAAGTAATAAT-AT
1 TAAAAGTAA-AATAAT
13697 TAAAA
1 TAAAA
13702 ACTAATGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 25 0.83
16 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
TAAAAGTAAAATAAT
Found at i:14932 original size:3 final size:3
Alignment explanation
Indices: 14903--14961 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
14893 TTGGGTTTTG
* * * * *
14903 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TTA TTA TTA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
14950 TAA TAA TAA TAA
1 TAA TAA TAA TAA
14962 ATTTTAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:14972 original size:24 final size:24
Alignment explanation
Indices: 14926--14973 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14916 TAATATATAT
* *
14926 TAATAATAATTATTATTATAATAA
1 TAATAATAATAATTATTAAAATAA
14950 TAATAATAATAAATT-TTAAAATAA
1 TAATAATAAT-AATTATTAAAATAA
14974 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TAATAATAATAATTATTAAAATAA
Found at i:15456 original size:113 final size:113
Alignment explanation
Indices: 15185--16192 Score: 1523
Period size: 113 Copynumber: 9.0 Consensus size: 113
15175 TAGAGTCATT
* ** * *
15185 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAGATGAATTC-T-TCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** * * * * **
15244 TTATGAACTCTTTCTGGAAGAGCTAATCCATCAAATGATGAATTCAAG
66 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
* * *
15292 CAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
15356 TTATGAACTCTAACTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
* *
15404 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCATCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
15469 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAG
66 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
* *
15517 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCG
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
15582 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
* *
15630 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTTTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
15695 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
*
15743 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTC-
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
15807 GTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
*
15855 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCTGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
15920 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
15968 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** *
16033 TTATGAACTTTTTCTGGAAAAGCTGATCCATC-AGATAATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAG-TGATGGATTTGAG
* * *
16081 CAAAAGGTTGAACAAATTCTTGTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTAA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
****
16146 TTATGAACTTTTTCTGGAAAAGCTGATCCATC-AGATGATGGATTTGA
66 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAG-TGATGGATTTGA
16193 ATCTTTGCTA
Statistics
Matches: 849, Mismatches: 43, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
106 25 0.03
107 6 0.01
108 3 0.00
109 1 0.00
110 16 0.02
111 1 0.00
112 159 0.19
113 638 0.75
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
Found at i:16083 original size:451 final size:451
Alignment explanation
Indices: 15185--16192 Score: 1539
Period size: 451 Copynumber: 2.2 Consensus size: 451
15175 TAGAGTCATT
* ** * * *
15185 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAGATGA-ATTCT-TCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCA
* * * * ** *
15244 TTATGAACTCTTTCTGGAAGAGCTAATCCATCAAATGATGAATTCAAGCAAAAGTTGAACAAGTT
66 TTATGAACTCTTTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGTTGAACAAATT
* * *
15309 CTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTAACTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAGTATGAACTCGAACTGGA
15374 AAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
196 AAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
*
15439 CTTCTTCTTTCATCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAG
261 CTTCTTCCTTCATCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAG
*
15504 TGATGGGTTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
326 TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* * * *
15569 TGAGTTTTTCTCGTTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
391 TGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTAATGGATTTGAG
*
15630 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTTTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCA
*** *
15695 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
66 TTATGAACTCTTTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAA-GTTGAACAAAT
* *
15760 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTC-TCGTATGAACTCGAACTGG
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAGTATGAACTCGAACTGG
* *
15824 AAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
195 AAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* * *
15889 TCTTCTTCCTTCTTCTGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAA
260 TCTTCTTCCTTCATCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAA
15954 GTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
325 GTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
****
16019 ATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATC-AGATAATGGATTTGAG
390 ATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAG-TAATGGATTTGAG
* * * *
16081 CAAAAGGTTGAACAAATTCTTGTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTAA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCA
*
16146 TTATGAACTTTTTCTGGAAAAGCTGATCCATC-AGATGATGGATTTGA
66 TTATGAACTCTTTCTGGAAAAGCTGATCCATCAAG-TGATGGATTTGA
16193 ATCTTTGCTA
Statistics
Matches: 506, Mismatches: 48, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
445 29 0.06
446 1 0.00
447 3 0.01
448 1 0.00
449 12 0.02
450 7 0.01
451 400 0.79
452 53 0.10
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (451 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCA
TTATGAACTCTTTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAGTATGAACTCGAACTGGA
AAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCTTCCTTCATCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAG
TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTAATGGATTTGAG
Found at i:16623 original size:21 final size:21
Alignment explanation
Indices: 16599--16640 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16589 TTTTCATTTG
*
16599 AAAAGAGAATCTGTCATCTTT
1 AAAAGAGAATCTATCATCTTT
16620 AAAAGAGAATCTATCATCTTT
1 AAAAGAGAATCTATCATCTTT
16641 GAAGAGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAAGAGAATCTATCATCTTT
Found at i:17174 original size:52 final size:52
Alignment explanation
Indices: 16997--17198 Score: 189
Period size: 50 Copynumber: 3.9 Consensus size: 52
16987 ATAATCACTG
* * * * *
16997 GTTCATAAAAATTTGACAATACATTCATCTTTTCCTGTGGTTTCTG-TCGAGAT
1 GTTCATAAAAAATTGACAACACATTCATCCTTT-CTGTGGCTTCTGCTC-AGAC
* * *
17050 G-T-A-AAACACTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
1 GTTCATAAAAAATTGACAACACATTCATCC-TTTCTGTGGCTTCTGCTCAGAC
** * *
17100 GTTTGTAAAAAATTGACAACACATTCATCCTTTCT-TGGTTTTTGCTCAGAC
1 GTTCATAAAAAATTGACAACACATTCATCCTTTCTGTGGCTTCTGCTCAGAC
***
17151 GTTCATAAAGTGTTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1 GTTCATAAA-AAATTGACAACACATTCATCC-TTTCTGTGGCTTCTGC
17199 CAAGATTTCT
Statistics
Matches: 123, Mismatches: 18, Indels: 15
0.79 0.12 0.10
Matches are distributed among these distances:
50 36 0.29
51 27 0.22
52 24 0.20
53 28 0.23
54 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (52 bp):
GTTCATAAAAAATTGACAACACATTCATCCTTTCTGTGGCTTCTGCTCAGAC
Found at i:18345 original size:35 final size:35
Alignment explanation
Indices: 18285--18351 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
18275 TCTTGTTGAG
18285 ATGAGCCTCCAAAAATGCCCAAATATTCATATTGCT
1 ATGAGCCTCCAAAAATGCCCAAATATTC-TATTGCT
* *
18321 ATGAGCCTTC-AAAATGCCCCAATATTCTATT
1 ATGAGCCTCCAAAAATGCCCAAATATTCTATT
18352 TCTGGTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 4 0.14
35 16 0.55
36 9 0.31
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.30
Consensus pattern (35 bp):
ATGAGCCTCCAAAAATGCCCAAATATTCTATTGCT
Found at i:19502 original size:114 final size:114
Alignment explanation
Indices: 19302--19639 Score: 547
Period size: 114 Copynumber: 3.0 Consensus size: 114
19292 GATCATGCAG
* * * * * * *
19302 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
19367 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
* *
19416 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAGGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
19481 ACACTTCCAGAAGATGCTATTGAGTCTTCTTA-TTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
19529 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATC--ATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGG-TTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
19592 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
65 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
19640 CATGACACTT
Statistics
Matches: 210, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
112 43 0.20
113 54 0.26
114 113 0.54
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
Found at i:21917 original size:10 final size:10
Alignment explanation
Indices: 21889--21932 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
21879 CTTGATTCAA
21889 TTTTCCTTTT
1 TTTTCCTTTT
21899 CTTTT--TTTT
1 -TTTTCCTTTT
21908 TTTTCCTTTT
1 TTTTCCTTTT
21918 TTTTCCCTTTT
1 TTTT-CCTTTT
21929 TTTT
1 TTTT
21933 TCTTCTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
10 8 0.27
11 14 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCCTTTT
Found at i:25237 original size:14 final size:14
Alignment explanation
Indices: 25203--25256 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
25193 TTGTGCAATA
* *
25203 CAAATGCAAAGATG
1 CAAATGTAAATATG
25217 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
25232 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
25246 TAAATGTAAAT
1 CAAATGTAAAT
25257 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:27662 original size:138 final size:132
Alignment explanation
Indices: 27366--27664 Score: 289
Period size: 138 Copynumber: 2.2 Consensus size: 132
27356 CTATAATTTT
* * *
27366 AAGTAAATTTATTAATTTATATAAATAAGATATTTATTTATTTAGAAATATCAGAAAAGAGCTTC
1 AAGT-AATTTATAAAATTATATAAATAAGACATTTATTTATTTAGAAATATCAGAAAAGAGCTTC
* * * *
27431 TAGGTGTTTTAAGACAGTTCCTTCCTTTGATATTAAAAAATAAATAAATATTAAAGCATTTATCT
65 TAGGTATTTTAAGACAGCTCCTTCCTTAGATATTAAAAAATAAATAAATATAAAAGCATTTATCT
27496 AAA
130 AAA
* *
27499 AAATAGATTAATATATACAATT-TATAAAAGTAGGACATTTATTTATTTA-AGAATATCAGAAAA
1 AAGTA-ATT--TATA-A-AATTATAT-AAA-TAAGACATTTATTTATTTAGA-AATATCAGAAAA
* * * *
27562 TGA-CTTCTAGGTATTTTAAGACAGCTCTTTTCTTAGATATTAAATAATAAATACATATCAAAAT
58 -GAGCTTCTAGGTATTTTAAGACAGCTCCTTCCTTAGATATTAAAAAATAAATAAATAT--AAA-
* * *
27626 ATGTTTATTTTTCTTAA
119 A-G--CATTTATCTAAA
27643 AAGTAATTTATAAAATTATATA
1 AAGTAATTTATAAAATTATATA
27665 TTTATAAATA
Statistics
Matches: 133, Mismatches: 17, Indels: 26
0.76 0.10 0.15
Matches are distributed among these distances:
132 1 0.01
133 6 0.05
135 3 0.02
136 4 0.03
137 7 0.05
138 77 0.58
139 7 0.05
140 6 0.05
141 5 0.04
142 1 0.01
143 3 0.02
144 13 0.10
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (132 bp):
AAGTAATTTATAAAATTATATAAATAAGACATTTATTTATTTAGAAATATCAGAAAAGAGCTTCT
AGGTATTTTAAGACAGCTCCTTCCTTAGATATTAAAAAATAAATAAATATAAAAGCATTTATCTA
AA
Found at i:27735 original size:14 final size:15
Alignment explanation
Indices: 27705--27737 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27695 AATAGAATAA
27705 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
27720 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
27734 ATAA
1 ATAA
27738 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:27826 original size:22 final size:24
Alignment explanation
Indices: 27801--27849 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
27791 ACGTAATAAT
27801 AAAA-TAAAA-TAACAATAATTAAA
1 AAAATTAAAAGTAACAAT-ATTAAA
*
27824 AAAATTAAAAGTAATAATATTAAA
1 AAAATTAAAAGTAACAATATTAAA
27848 AA
1 AA
27850 CTAATGGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 13 0.57
25 6 0.26
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATTAAAAGTAACAATATTAAA
Found at i:29057 original size:3 final size:3
Alignment explanation
Indices: 29028--29098 Score: 106
Period size: 3 Copynumber: 23.0 Consensus size: 3
29018 TTGGGTTTTG
* *
29028 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
29075 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
29099 ATTTTAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
3 56 0.90
4 6 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:35669 original size:19 final size:19
Alignment explanation
Indices: 35645--35683 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35635 AAAGATTTTC
35645 TTTCTGAAGCTCATTATAG
1 TTTCTGAAGCTCATTATAG
35664 TTTCTGAAGCTCATTATAG
1 TTTCTGAAGCTCATTATAG
35683 T
1 T
35684 CCTTTAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
TTTCTGAAGCTCATTATAG
Found at i:35996 original size:2 final size:2
Alignment explanation
Indices: 35989--36020 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35979 AAGAATGTTG
35989 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
36021 CAAATACTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39152 original size:30 final size:30
Alignment explanation
Indices: 39095--39153 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
39085 ATTTATCTGA
* *
39095 TAACTTTTCAAAATTACTAAATAGGTCCCT
1 TAACTTTTCAAAAATAATAAATAGGTCCCT
*
39125 TAACTTTTTAAAAATAATAAA-ATGGTCCC
1 TAACTTTTCAAAAATAATAAATA-GGTCCC
39154 AAATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (30 bp):
TAACTTTTCAAAAATAATAAATAGGTCCCT
Found at i:49551 original size:21 final size:21
Alignment explanation
Indices: 49526--49568 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
49516 CATTAAGGCC
* *
49526 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCATAAAATCT
49547 TTTGTCGAAGCCATAAAATCT
1 TTTGTCGAAGCCATAAAATCT
49568 T
1 T
49569 GCAGTGAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (21 bp):
TTTGTCGAAGCCATAAAATCT
Found at i:49577 original size:21 final size:20
Alignment explanation
Indices: 49531--49578 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
49521 AGGCCTTTGT
* **
49531 TGAAGCCATGAAATCTTTTG
1 TGAAGCCATAAAATCTTCAG
49551 TCGAAGCCATAAAATCTTGCAG
1 T-GAAGCCATAAAATCTT-CAG
49573 TGAAGC
1 TGAAGC
49579 TTTAAGGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.87
22 2 0.09
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (20 bp):
TGAAGCCATAAAATCTTCAG
Found at i:55676 original size:13 final size:14
Alignment explanation
Indices: 55658--55687 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
55648 AGTTAGACAA
55658 TCTTCATATGCA-G
1 TCTTCATATGCATG
55671 TCTTCATATGCATG
1 TCTTCATATGCATG
55685 TCT
1 TCT
55688 GTAATGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (14 bp):
TCTTCATATGCATG
Found at i:55865 original size:20 final size:20
Alignment explanation
Indices: 55840--55887 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
55830 AAAGTCAAAT
55840 GGGTTAAAACCTAAAACTAA
1 GGGTTAAAACCTAAAACTAA
55860 GGGTTAAAACCTAAAACTAA
1 GGGTTAAAACCTAAAACTAA
55880 GGGTTAAA
1 GGGTTAAA
55888 GAGGAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (20 bp):
GGGTTAAAACCTAAAACTAA
Found at i:64374 original size:19 final size:19
Alignment explanation
Indices: 64322--64361 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
64312 AAAAGAAGAG
64322 AAGATAAACTTGAGAATTA
1 AAGATAAACTTGAGAATTA
64341 AAGATAAACTTGAGAATTA
1 AAGATAAACTTGAGAATTA
64360 AA
1 AA
64362 ATCAAGATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.15, T:0.25
Consensus pattern (19 bp):
AAGATAAACTTGAGAATTA
Found at i:67647 original size:14 final size:15
Alignment explanation
Indices: 67623--67651 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
67613 TCATATTATT
67623 ATTTTTAAAGTATGA
1 ATTTTTAAAGTATGA
67638 ATTTTT-AAGTATGA
1 ATTTTTAAAGTATGA
67652 TTTAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
ATTTTTAAAGTATGA
Found at i:77047 original size:17 final size:17
Alignment explanation
Indices: 77011--77116 Score: 57
Period size: 17 Copynumber: 6.4 Consensus size: 17
77001 TTATAAGAAG
* *
77011 AAAAAAACAGAAGAAGGA
1 AAAAAAATAGAA-AAAGA
77029 AAAAAAATAGAAAAAG-
1 AAAAAAATAGAAAAAGA
77045 ---AAAATAGAAAAAGA
1 AAAAAAATAGAAAAAGA
* *
77059 AAATGAAAA-CGAAGAAG-
1 AAA--AAAATAGAAAAAGA
*
77076 AAAAAAAT-GAAAACGA
1 AAAAAAATAGAAAAAGA
*
77092 GAAAAAAA-CGAAAAAGA
1 -AAAAAAATAGAAAAAGA
77109 GAAAAAAA
1 -AAAAAAA
77117 ATGAGAGATG
Statistics
Matches: 71, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
13 13 0.18
15 9 0.13
17 28 0.39
18 17 0.24
19 4 0.06
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (17 bp):
AAAAAAATAGAAAAAGA
Found at i:77050 original size:13 final size:13
Alignment explanation
Indices: 77028--77080 Score: 67
Period size: 12 Copynumber: 4.3 Consensus size: 13
77018 CAGAAGAAGG
77028 AAAA-AAAATAGA
1 AAAAGAAAATAGA
77040 AAAAGAAAATAGA
1 AAAAGAAAATAGA
77053 AAAAGAAAAT-GA
1 AAAAGAAAATAGA
* *
77065 AAACGAAGA-AGA
1 AAAAGAAAATAGA
77077 AAAA
1 AAAA
77081 AATGAAAACG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 18 0.50
13 18 0.50
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (13 bp):
AAAAGAAAATAGA
Found at i:77061 original size:19 final size:18
Alignment explanation
Indices: 77005--77080 Score: 57
Period size: 19 Copynumber: 4.1 Consensus size: 18
76995 TATATATTAT
77005 AAGAAGAAA-AAAACAGAAGA
1 AAGAA-AAAGAAAA-AGAA-A
* *
77025 AGGAAAAA-AAATAGAAA
1 AAGAAAAAGAAAAAGAAA
77042 AAGAAAATAGAAAAAGAAA
1 AAGAAAA-AGAAAAAGAAA
* * *
77061 ATGAAAACGAAGAAGAAA
1 AAGAAAAAGAAAAAGAAA
77079 AA
1 AA
77081 AATGAAAACG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
17 7 0.15
18 15 0.33
19 20 0.43
20 4 0.09
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.04
Consensus pattern (18 bp):
AAGAAAAAGAAAAAGAAA
Found at i:77074 original size:21 final size:19
Alignment explanation
Indices: 77050--77117 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 19
77040 AAAAGAAAAT
77050 AGAAAAAGAAAATGAAAACG
1 AGAAAAA-AAAATGAAAACG
77070 AAGAAGAAAAAAATGAAAACG
1 -AGAA-AAAAAAATGAAAACG
* *
77091 AG--AAAAAAACGAAAAAG
1 AGAAAAAAAAATGAAAACG
77108 AGAAAAAAAA
1 AGAAAAAAAA
77118 TGAGAGATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 15 0.36
19 6 0.14
20 2 0.05
21 16 0.38
22 3 0.07
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.03
Consensus pattern (19 bp):
AGAAAAAAAAATGAAAACG
Found at i:77083 original size:34 final size:32
Alignment explanation
Indices: 77005--77115 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 32
76995 TATATATTAT
* *
77005 AAGAAGAAAAAAACAGAAGAAG-GAAAAAAA--
1 AAGAAGAAAAAAA-TGAAAAAGAGAAAAAAACG
77035 ATAGAA-AAAGAAAATAGAAAAAGA-AAATGAAAACG
1 A-AGAAGAAA-AAAAT-GAAAAAGAGAAA--AAAACG
*
77070 AAGAAGAAAAAAATGAAAACGAGAAAAAAACG
1 AAGAAGAAAAAAATGAAAAAGAGAAAAAAACG
*
77102 AAAAAGAGAAAAAA
1 AAGAAGA-AAAAAA
77116 AATGAGAGAT
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
30 4 0.06
31 17 0.26
32 12 0.18
33 17 0.26
34 12 0.18
35 4 0.06
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (32 bp):
AAGAAGAAAAAAATGAAAAAGAGAAAAAAACG
Found at i:77097 original size:18 final size:18
Alignment explanation
Indices: 77053--77120 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 18
77043 AGAAAATAGA
77053 AAAAGAAAATGAAAACGAAG
1 AAAA-AAAATGAAAACG-AG
77073 AAGAAAAAAATGAAAACGAG
1 -A-AAAAAAATGAAAACGAG
* *
77093 -AAAAAAACGAAAAAGAG
1 AAAAAAAATGAAAACGAG
77110 AAAAAAAATGA
1 AAAAAAAATGA
77121 GAGATGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 15 0.36
18 9 0.21
20 2 0.05
21 13 0.31
22 3 0.07
ACGTcount: A:0.74, C:0.04, G:0.18, T:0.04
Consensus pattern (18 bp):
AAAAAAAATGAAAACGAG
Found at i:82875 original size:26 final size:26
Alignment explanation
Indices: 82840--82899 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
82830 TCACGTTTAG
*
82840 GAAATTCATAACACAACAAAGGATTA
1 GAAATACATAACACAACAAAGGATTA
82866 GAAATACATAACACAACAAAGGATTA
1 GAAATACATAACACAACAAAGGATTA
82892 GAAATACA
1 GAAATACA
82900 CTACCTTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.12, T:0.17
Consensus pattern (26 bp):
GAAATACATAACACAACAAAGGATTA
Found at i:99746 original size:17 final size:17
Alignment explanation
Indices: 99725--99763 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
99715 AACTAACACA
*
99725 AAAATTAGGAAAACTAC
1 AAAATCAGGAAAACTAC
* *
99742 GAAATCAGGACAACTAC
1 AAAATCAGGAAAACTAC
99759 AAAAT
1 AAAAT
99764 GGCAAAATTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (17 bp):
AAAATCAGGAAAACTAC
Found at i:101233 original size:55 final size:53
Alignment explanation
Indices: 101167--101476 Score: 309
Period size: 55 Copynumber: 5.6 Consensus size: 53
101157 TCGAATGACA
* * *
101167 GTCTGCTCCCTATTCTTTCATGGAGTATAAGACTCGAACAATATTCAGTAAACGT
1 GTCTGCTCCCTATTCCTTCA-GGAGTATAAGACTCGAACAATCTTCA-TAAACGG
* * *
101222 GTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAATAATCTTCAGTAAACGT
1 GTCTGCTCCCTATTCCTTCA-GGAGTATAAGACTCGAACAATCTTCA-TAAACGG
* * *
101277 GTCTACTCCCTATTCGTTCAGGGAGTATAAGACTTGAACAATCTTCAATAAACGG
1 GTCTGCTCCCTATTCCTTCA-GGAGTATAAGACTCGAACAATCTTC-ATAAACGG
* * *
101332 GTCTGTTCTCTATTCCTTCAAAGAGTAT-AGAACTCGAACAATCTTCATAAAACGG
1 GTCTGCTCCCTATTCCTTC-AGGAGTATAAG-ACTCGAACAATCTTCAT-AAACGG
* ** * *
101387 GTCCGCTTTCTATTCCTTTAGATAGTAT-AGAACTCGAACAATCTTCATAAAACGG
1 GTCTGCTCCCTATTCCTTCAG-GAGTATAAG-ACTCGAACAATCTTCAT-AAACGG
* * *
101442 GTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTC
1 GTCTGCTCCCTATTCCTTCAG-GAGTATAAGACTC
101477 AATCTTCAAC
Statistics
Matches: 224, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
54 5 0.02
55 216 0.96
56 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (53 bp):
GTCTGCTCCCTATTCCTTCAGGAGTATAAGACTCGAACAATCTTCATAAACGG
Found at i:101367 original size:110 final size:110
Alignment explanation
Indices: 101167--101476 Score: 349
Period size: 110 Copynumber: 2.8 Consensus size: 110
101157 TCGAATGACA
* * * * * *
101167 GTCTGCTCCCTATTCTTTCATGGAGTATAAGACTCGAACAATATTCAGTAAACGTGTCTGCTCCC
1 GTCTGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGGTCTGCTCTC
* * * *
101232 TATTCATTCAGGGAGTATA-AGACTCGAATAATCTTCAGT-AAACGT
66 TATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCA-TAAAACGG
* * * *
101277 GTCTACTCCCTATTCGTTCAGGGAGTATAAGACTTGAACAATCTTCAATAAACGGGTCTGTTCTC
1 GTCTGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGGTCTGCTCTC
*
101342 TATTCCTTCAAAGAGTATAGAACTCGAACAATCTTCATAAAACGG
66 TATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGG
* ** * ** *
101387 GTCCGCTTTCTATTCCTTTAGATAGTAT-AGAACTCGAACAATCTTC-ATAAAACGGGTCCGCTC
1 GTCTGCTCCCTATTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAAT-AAACGGGTCTGCTC
*
101450 TCTATTCCTTCAGAGAGTATAGGACTC
64 TCTATTCCTTCAGAGAGTATAGAACTC
101477 AATCTTCAAC
Statistics
Matches: 169, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
109 5 0.03
110 163 0.96
111 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (110 bp):
GTCTGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGGTCTGCTCTC
TATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGG
Found at i:101541 original size:36 final size:36
Alignment explanation
Indices: 101494--101600 Score: 144
Period size: 36 Copynumber: 2.9 Consensus size: 36
101484 AACAAACGAG
101494 TTTGCTTCACTACTTTTCCGTGAAGGCTTAAGATGA
1 TTTGCTTCACTACTTTTCCGTGAAGGCTTAAGATGA
* *
101530 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGA
1 TTTGCTTCACTACTTTTCCGTGAAGGCTTAAG-ATGA
* * *
101567 ATTGCTTCACTGCTCTTT-CATGAAGGCTTAAGAT
1 TTTGCTTCACTACT-TTTCCGTGAAGGCTTAAGAT
101601 TGACCTGTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
36 32 0.52
37 28 0.45
38 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (36 bp):
TTTGCTTCACTACTTTTCCGTGAAGGCTTAAGATGA
Found at i:101583 original size:37 final size:36
Alignment explanation
Indices: 101495--101603 Score: 146
Period size: 37 Copynumber: 3.0 Consensus size: 36
101485 ACAAACGAGT
* * *
101495 TTGCTTCACTACTTTTCCGTGAAGGCTTAAGATGAT
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTGAA
101531 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGAA
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAG-TTGAA
* * *
101568 TTGCTTCACTGCTCTTTCATGAAGGCTTAAGATTGA
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAG-TTGA
101604 CCTGTTTTGA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 30 0.46
37 35 0.54
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (36 bp):
TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTGAA
Found at i:102924 original size:13 final size:14
Alignment explanation
Indices: 102888--102927 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
102878 TTTCTCCTTT
102888 TTTTCATTTTTCTC
1 TTTTCATTTTTCTC
**
102902 TTTTTGTTTTTCTC
1 TTTTCATTTTTCTC
102916 -TTTCATTTTTCT
1 TTTTCATTTTTCT
102928 TCCATTTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTTCATTTTTCTC
Found at i:102946 original size:27 final size:25
Alignment explanation
Indices: 102885--102952 Score: 64
Period size: 27 Copynumber: 2.6 Consensus size: 25
102875 TTATTTCTCC
* * *
102885 TTTTTTTCATTTTTCTCTTTTTGTT
1 TTTTTTTCATTTTTCTCATTTTCTA
102910 TTTCTCTTTCATTTTTCTTCCATTTTCTA
1 TTT-T-TTTCATTTTTC-T-CATTTTCTA
*
102939 TTTTTTTCCTTTTT
1 TTTTTTTCATTTTT
102953 TTTCTTTTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 3 0.09
26 1 0.03
27 20 0.57
28 2 0.06
29 9 0.26
ACGTcount: A:0.06, C:0.18, G:0.01, T:0.75
Consensus pattern (25 bp):
TTTTTTTCATTTTTCTCATTTTCTA
Found at i:102976 original size:42 final size:43
Alignment explanation
Indices: 102887--103009 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 43
102877 ATTTCTCCTT
* * *
102887 TTTTTCATTTTTCTCTTTTTGTTTTTCTCTTTCATTTTTCTTCCA
1 TTTTTCTTTTTTCTC-ATTT-TTTTTCTCTTTCATTTTTCATCCA
* * *
102932 -TTTTCTATTTTTTTCCTTTTTTTTCT-TTTCGTTTTTCCAT-CA
1 TTTTTCT-TTTTTCTCATTTTTTTTCTCTTTCATTTTT-CATCCA
102974 TTTTTCTTTTTTCTCATTTTTCTTT-TC-TTC-TTTTTC
1 TTTTTCTTTTTTCTCATTTTT-TTTCTCTTTCATTTTTC
103010 TTTTTCTTCT
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
40 1 0.02
41 5 0.08
42 27 0.41
43 18 0.27
44 8 0.12
45 7 0.11
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.73
Consensus pattern (43 bp):
TTTTTCTTTTTTCTCATTTTTTTTCTCTTTCATTTTTCATCCA
Found at i:103000 original size:32 final size:32
Alignment explanation
Indices: 102964--103072 Score: 86
Period size: 32 Copynumber: 3.4 Consensus size: 32
102954 TTCTTTTCGT
102964 TTTTCCATCATTTTTC-TTTT-TTCTCATTTTTC
1 TTTT-CATC-TTTTTCTTTTTCTTCTCATTTTTC
* *
102996 TTTTCTTCTTTTTCTTTTTCTTCTCATTTTTA
1 TTTTCATCTTTTTCTTTTTCTTCTCATTTTTC
*
103028 TTATT-AT-TATTTT-TTTCTTCTTTTCATTTTTTC
1 TT-TTCATCT-TTTTCTTT-TTCTTCTCA-TTTTTC
103061 TTTTTC-TCTTTT
1 -TTTTCATCTTTT
103073 ATTTCTTCTT
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
30 6 0.10
31 11 0.17
32 30 0.48
33 13 0.21
34 3 0.05
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTTCATCTTTTTCTTTTTCTTCTCATTTTTC
Found at i:103008 original size:9 final size:8
Alignment explanation
Indices: 102884--103079 Score: 69
Period size: 8 Copynumber: 23.4 Consensus size: 8
102874 TTTATTTCTC
102884 CTTTTTTT
1 CTTTTTTT
*
102892 CATTTTTCT
1 C-TTTTTTT
102901 CTTTTTGTT
1 CTTTTT-TT
102910 -TTTCTCTTT
1 CTTT-T-TTT
102919 CATTTTTCTT
1 C-TTTTT-TT
* *
102929 CCATTTTCT
1 -CTTTTTTT
*
102938 ATTTTTTT
1 CTTTTTTT
*
102946 CCTTTTTT
1 CTTTTTTT
*
102954 -TTCTTTT
1 CTTTTTTT
* *
102961 CGTTTTTC
1 CTTTTTTT
*
102969 CATCATTTTT
1 C-T-TTTTTT
102979 C-TTTTTT
1 CTTTTTTT
*
102986 CTCATTTTT
1 CT-TTTTTT
*
102995 CTTTTCTT
1 CTTTTTTT
103003 C--TTTTT
1 CTTTTTTT
103009 CTTTTTCTT
1 CTTTTT-TT
*
103018 CTCATTTTT
1 CT-TTTTTT
* *
103027 ATTATTATT
1 CTT-TTTTT
*
103036 ATTTTTTT
1 CTTTTTTT
*
103044 CTTCTTTT
1 CTTTTTTT
*
103052 CATTTTTT
1 CTTTTTTT
*
103060 CTTTTTCT
1 CTTTTTTT
103068 CTTTTATTT
1 CTTTT-TTT
103077 CTT
1 CTT
103080 CTTCAAGCGA
Statistics
Matches: 135, Mismatches: 34, Indels: 37
0.66 0.17 0.18
Matches are distributed among these distances:
6 5 0.04
7 11 0.08
8 60 0.44
9 39 0.29
10 16 0.12
11 4 0.03
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (8 bp):
CTTTTTTT
Found at i:103008 original size:53 final size:53
Alignment explanation
Indices: 102885--103013 Score: 131
Period size: 53 Copynumber: 2.4 Consensus size: 53
102875 TTATTTCTCC
* * * *
102885 TTTTTTTCATT-TTTCTCTTTTTGTTTTTCTCTTTCATTTTTCTTCCATTTTCTA
1 TTTTTTTCCTTCTTTTTCTTTTCGTTTTTCTCTATCATTTTTCTT-C-TTTTCTA
*
102939 TTTTTTTCCTTTTTTTTCTTTTCGTTTTTC-C-ATCATTTTTCTT-TTTTCTCA
1 TTTTTTTCCTTCTTTTTCTTTTCGTTTTTCTCTATCATTTTTCTTCTTTTCT-A
*
102990 TTTTTCTTTTCTTCTTTTTCTTTT
1 -TTTT-TTTCCTTCTTTTTCTTTT
103014 TCTTCTCATT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
50 6 0.09
51 1 0.02
52 4 0.06
53 27 0.42
54 11 0.17
55 16 0.25
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (53 bp):
TTTTTTTCCTTCTTTTTCTTTTCGTTTTTCTCTATCATTTTTCTTCTTTTCTA
Found at i:103023 original size:48 final size:50
Alignment explanation
Indices: 102886--103067 Score: 121
Period size: 48 Copynumber: 3.6 Consensus size: 50
102876 TATTTCTCCT
* * *
102886 TTTTTTCATTTT-TCTCTTTTTGTTTTTCTCTTTCATTTTTCTTCCATTTTCTA
1 TTTTTTCCTTTTCT-TCTTTTTCTTTTTCT-TCTCATTTTTCTT-C-TTTTCTA
*
102939 TTTTTTTCCTTTT-TTTTCTTTTCGTTTTTC--CATCATTTTTCTT-TTTTCTCA
1 -TTTTTTCCTTTTCTTCT-TTTTC-TTTTTCTTC-TCATTTTTCTTCTTTTCT-A
* * *
102990 -TTTTT-CTTTTCTTCTTTTTCTTTTTCTTCTCATTTTTATTATTAT-TA
1 TTTTTTCCTTTTCTTCTTTTTCTTTTTCTTCTCATTTTTCTTCTTTTCTA
*
103037 TTTTTTTCTTCTT-TTCATTTTTTCTTTTTCT
1 TTTTTTCCTT-TTCTTC--TTTTTCTTTTTCT
103068 CTTTTATTTC
Statistics
Matches: 108, Mismatches: 7, Indels: 29
0.75 0.05 0.20
Matches are distributed among these distances:
47 7 0.06
48 26 0.24
49 18 0.17
50 8 0.07
51 14 0.13
53 13 0.12
54 16 0.15
55 6 0.06
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (50 bp):
TTTTTTCCTTTTCTTCTTTTTCTTTTTCTTCTCATTTTTCTTCTTTTCTA
Found at i:112788 original size:45 final size:46
Alignment explanation
Indices: 112714--112818 Score: 167
Period size: 45 Copynumber: 2.3 Consensus size: 46
112704 CCATGCTTTG
*
112714 TTATTCACAAAAATAAATCCTAACTGCATGATATCTAATTCGCATGC
1 TTATTCA-AAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
* *
112761 TTGTTCAAAAAATAAA-CCTAACCGCATGATATCTAATTCGTATGC
1 TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
112806 TTATTCAAAAAAT
1 TTATTCAAAAAAT
112819 GAAAATAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 39 0.72
46 9 0.17
47 6 0.11
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (46 bp):
TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
Found at i:114650 original size:17 final size:17
Alignment explanation
Indices: 114629--114667 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
114619 AACTAACACA
*
114629 AAAATTAGGAAAACTAC
1 AAAATCAGGAAAACTAC
* *
114646 GAAATCAGGACAACTAC
1 AAAATCAGGAAAACTAC
114663 AAAAT
1 AAAAT
114668 GGCAAAATTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (17 bp):
AAAATCAGGAAAACTAC
Found at i:119010 original size:17 final size:17
Alignment explanation
Indices: 118990--119024 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
118980 TTAAGAAGGA
118990 AAAATGATTACAAATTT
1 AAAATGATTACAAATTT
* *
119007 AAAATGTTTACAATTTT
1 AAAATGATTACAAATTT
119024 A
1 A
119025 GTGTATCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (17 bp):
AAAATGATTACAAATTT
Found at i:120784 original size:20 final size:20
Alignment explanation
Indices: 120743--120787 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
120733 TGTTGTTATT
* **
120743 GATAC-CAAGGGTGAGTGTC
1 GATACTCAAGGGTCAGTAAC
120762 GATACTCAAGGGTCAGTAAC
1 GATACTCAAGGGTCAGTAAC
120782 GATACT
1 GATACT
120788 AAATGGCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (20 bp):
GATACTCAAGGGTCAGTAAC
Found at i:120800 original size:21 final size:20
Alignment explanation
Indices: 120761--120800 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
120751 GGGTGAGTGT
* *
120761 CGATACTCAAGGGTCAGTAA
1 CGATACTAAAGGCTCAGTAA
120781 CGATACTAAATGGCTCAGTA
1 CGATACTAAA-GGCTCAGTA
120801 TCGGTACCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (20 bp):
CGATACTAAAGGCTCAGTAA
Found at i:123849 original size:20 final size:21
Alignment explanation
Indices: 123798--123850 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
123788 AAAATACCTC
123798 AGTATCGATACTGACCCTCTG
1 AGTATCGATACTGACCCTCTG
**
123819 AGTATTAATACTGGACCC-C-G
1 AGTATCGATACT-GACCCTCTG
123839 AGTATCGATACT
1 AGTATCGATACT
123851 CATTGAAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 11 0.41
21 11 0.41
22 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (21 bp):
AGTATCGATACTGACCCTCTG
Found at i:132184 original size:23 final size:24
Alignment explanation
Indices: 132158--132211 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
132148 TCTAACAAAC
* *
132158 TAAAAATCCTAATTAAT-AAATAT
1 TAAAAATCCTAAATAATAAAAAAT
*
132181 TAAAAACCCTAAATAATAAAAAAT
1 TAAAAATCCTAAATAATAAAAAAT
132205 TAAAAAT
1 TAAAAAT
132212 TCTATACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAAAATCCTAAATAATAAAAAAT
Found at i:137626 original size:23 final size:24
Alignment explanation
Indices: 137600--137658 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
137590 TCTAACAAAC
* *
137600 TAAAAATTCTAATTAATAA-ATAT
1 TAAAAATTCTAAATAATAATAAAT
137623 TAAAAA-TCTTAAATAATAATTAAAT
1 TAAAAATTC-TAAATAATAA-TAAAT
137648 TAAAAATTCTA
1 TAAAAATTCTA
137659 TGCAAACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 2 0.07
23 15 0.50
25 11 0.37
26 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAAAATTCTAAATAATAATAAAT
Found at i:138277 original size:145 final size:142
Alignment explanation
Indices: 137994--138278 Score: 340
Period size: 145 Copynumber: 2.0 Consensus size: 142
137984 CGATACCCAA
*
137994 AGTCTAAGTATTAGTATTTAAAATTTGAACCTTGTTATATAATGATGAATAAGGAAAATATCGAG
1 AGTCTAAGTATTAGTATTTAAAATTTGAACCTTGTTATATAATGATGAATAAGCAAAATATCGAG
* ** * *
138059 ACTTATAAAAAAGTTTCAAACTTTTCCGAGAGAATGGTATGACTGAAAATTTGTCCTTTTTAAGT
66 ACTTACAAAAAAGTTTCAAACTTTTCCGAGAGAATGGTATGACTGAAAATTTGTCCTCATAAAAT
***
138124 ATTGATACACAG
131 AACCATACACAG
* *
138136 AGTCTAAGTA-TAGGTATTTTAAATTTTGAACC-TGTTTATATAATGATGAATAAGTCTAAATAT
1 AGTCTAAGTATTA-GTA-TTTAAAATTTGAACCTTG-TTATATAATGATGAATAAG-CAAAATAT
* ** * * * * *
138199 TGAGACTTACAACTAAGTTTTGATACTTTTTCGATAGAATGGTATGACTGAAGATTTGTCCTCAT
62 CGAGACTTACAAAAAAG-TTTCAAACTTTTCCGAGAGAATGGTATGACTGAAAATTTGTCCTCAT
138264 AAAATAACCATACAC
126 AAAATAACCATACAC
138279 GGTATCAATA
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
141 2 0.02
142 15 0.13
143 33 0.28
144 19 0.16
145 50 0.42
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (142 bp):
AGTCTAAGTATTAGTATTTAAAATTTGAACCTTGTTATATAATGATGAATAAGCAAAATATCGAG
ACTTACAAAAAAGTTTCAAACTTTTCCGAGAGAATGGTATGACTGAAAATTTGTCCTCATAAAAT
AACCATACACAG
Found at i:139214 original size:94 final size:95
Alignment explanation
Indices: 139116--139291 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 95
139106 AATTGTGCGG
* ** *
139116 ATAACATCATAGGTTGC-ACATTATTTTTT-TTAATTATTTTATAAACTTACAA-CAGTTTATAT
1 ATAACATAATAGGTTGCGAC-TTATTTTTTACCAATTATTTTATAAACCTACAACCA-TTTATAT
139178 TATTAAAAAGTATTAAAAGTATGGTTTTGAGA
64 TATTAAAAAGTATTAAAAGTATGGTTTTGAGA
* * * *
139210 ATAACGTAATAGGTTGCGTCTTGTTTTTTAACCAATTATTTTATAAGCCTACAACCATTTATATT
1 ATAACATAATAGGTTGCGACTTATTTTTT-ACCAATTATTTTATAAACCTACAACCATTTATATT
139275 ATTAAAAAGTATTAAAA
65 ATTAAAAAGTATTAAAA
139292 ATTTGGTTGC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
94 23 0.33
95 1 0.01
96 44 0.63
97 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (95 bp):
ATAACATAATAGGTTGCGACTTATTTTTTACCAATTATTTTATAAACCTACAACCATTTATATTA
TTAAAAAGTATTAAAAGTATGGTTTTGAGA
Found at i:139671 original size:14 final size:14
Alignment explanation
Indices: 139649--139684 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
139639 TGGGCATTCG
*
139649 AGGCTATCCGACCA
1 AGGCCATCCGACCA
*
139663 AGGCCATCCGACCG
1 AGGCCATCCGACCA
139677 AGGCCATC
1 AGGCCATC
139685 TGAGAGCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.39, G:0.25, T:0.11
Consensus pattern (14 bp):
AGGCCATCCGACCA
Found at i:139909 original size:29 final size:29
Alignment explanation
Indices: 139863--139919 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
139853 GAGCAAGGGT
*
139863 AGGTTGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
139892 AGGTCGCCCGGAAG-GCATGGCGACCTAC
1 AGGTCGCCCGG-AGTGCATGGCGACCTAC
139920 GGCCAACACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.21, C:0.30, G:0.35, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:145985 original size:20 final size:19
Alignment explanation
Indices: 145938--145988 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
145928 GATGCAAGTA
145938 GTATCGATACCAAGAGGGG
1 GTATCGATACCAAGAGGGG
* * * *
145957 GTATTGATACTATGAGGATG
1 GTATCGATACCAAGAGG-GG
145977 GTATCGATACCA
1 GTATCGATACCA
145989 TTGTTAACAG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.25
Consensus pattern (19 bp):
GTATCGATACCAAGAGGGG
Found at i:146035 original size:19 final size:19
Alignment explanation
Indices: 146011--146051 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
146001 TGCATAAATG
146011 GTATCGGTACCATAATAGA
1 GTATCGGTACCATAATAGA
*
146030 GTATCGGTACCATAATATA
1 GTATCGGTACCATAATAGA
146049 GTA
1 GTA
146052 GTATAAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (19 bp):
GTATCGGTACCATAATAGA
Found at i:147388 original size:81 final size:81
Alignment explanation
Indices: 146660--147381 Score: 1023
Period size: 81 Copynumber: 8.9 Consensus size: 81
146650 ACTATTCCAA
* * *
146660 AGTAAAAGATTAATAGCCTAGCTATGAATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
146725 ATGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * * * *
146741 AGTAAAAGATTAATAGCCTAACTGTGGATTTGGCAAAAAAGTGTTAACTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
146806 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
146822 AGTAAAAGTTTAATAGCCTAGCTGTGCATATGATAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
146887 AGGTTAAATACCTCTA
66 AGGTTAAATACCTTTG
* *
146903 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
146968 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * **
146984 AGTAAAAGAATAATAGCCTAGATGTGCATTTGGTAGAAATGTGTCAATTATGCCAGGTAGATGGC
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
147049 AGGTTAAATGCCTTTA
66 AGGTTAAATACCTTTG
*** *
147065 AGTAAAAGATTAATAGCCTAGCTGTGCATTTTCCAGAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
147130 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
147146 AGTAAAAGATTAATAGCCTAGCTGTGCATCTT-GTAAAAATGTGTTAATTATACCAGTTAGATGA
1 AGTAAAAGATTAATAGCCTAGCTGTGCAT-TTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
147210 AATGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
**
147227 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGAGAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
147292 AGATTAAATACCTTTG
66 AGGTTAAATACCTTTG
* ** * * *
147308 AGTAAAAGATTAATAGCCGAGCTGTGCATTTGCCAGAAAAGTGTCAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
147373 AGGCTAAAT
66 AGGTTAAAT
147382 GTCTTTGGGG
Statistics
Matches: 564, Mismatches: 75, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
80 2 0.00
81 560 0.99
82 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:149490 original size:2 final size:2
Alignment explanation
Indices: 149483--149507 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
149473 TGTCGAAAAC
149483 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
149508 GCTTTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:152528 original size:81 final size:81
Alignment explanation
Indices: 152422--152895 Score: 761
Period size: 81 Copynumber: 5.9 Consensus size: 81
152412 ACTATTCCAA
*
152422 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
152487 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
152503 AGTAAAAGATTAATAGTCTAACTGTGGATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
152568 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * **
152584 AGTAAAAGTTTGATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
152649 ATGTTAAATACCTCTG
66 AGGTTAAATACCTTTG
*
152665 AGTAAAAGATTAATAGCCTAGATGTGCATTTGGTAG-AAGAGTGTCAATTATGCCAGTTAGATGA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAG-GTGTCAATTATGCCAGTTAGATGA
*
152729 AATGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* * *
152746 AGTAAAAGGTTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAC
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
152811 AGGTTAAATTCCTTTG
66 AGGTTAAATACCTTTG
* *
152827 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGCTAGAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
152892 AGGT
66 AGGT
152896 GTCAATTATG
Statistics
Matches: 360, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
80 3 0.01
81 355 0.99
82 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:152698 original size:162 final size:162
Alignment explanation
Indices: 152422--153186 Score: 829
Period size: 162 Copynumber: 4.6 Consensus size: 162
152412 ACTATTCCAA
152422 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
* *
152487 AGGTTAAATACCTTTGAGTAAAAGATTAATAGTCTA-ACTGTGGATTTGGTAGAAAGGTGTCAAT
66 AGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGA-TGTGCATTTGGTAGAAAGGTGTCAAT
152551 TATGCCAGTTAGATGAAAGGTTAAATACCTTTG
130 TATGCCAGTTAGATGAAAGGTTAAATACCTTTG
* * * ** *
152584 AGTAAAAGTTTGATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
* *
152649 ATGTTAAATACCTCTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGGTAG-AAGAGTGTCAAT
66 AGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGGTAGAAAG-GTGTCAAT
*
152713 TATGCCAGTTAGATGAAATGTTAAATACCTTTG
130 TATGCCAGTTAGATGAAAGGTTAAATACCTTTG
* *
152746 AGTAAAAGGTTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAC
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
* * *
152811 AGGTTAAATTCCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGCTAGAAAGGTGTCAATT
66 AGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGGTAGAAAGGTGTCAATT
* * *
152876 ATGTCAGTTAGATGAAAGGTGTCAATTATGCCAGTT-
131 ATGCCAGTTAGATGAAAGGT-T-AA--ATACC-TTTG
* * * * *
152912 AGATGAAAGGTTAAGTA-CCTTTGAG-TAAAAGATTAATAGTCTAGCTGTGCAATTGGAAGAAAA
1 AG-TAAAAGATTAA-TAGCC--T-AGCT----G-----T-G-C-A--TTTG--GT----AGAAAT
* * * * * * * *
152975 GTGTGAATCATGCAAGTTAGATGAAATGCTAAATGCCTTTGGGTAAAAGATTAATAGCCTAGTTG
41 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGATG
* * *
153040 TGCATTTGGCAGAAAGGTGTCAATTATTCAAGTTAGATGAAAGGTTAAATACCTTTG
106 TGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
* * * *
153097 AGTAAAAGATTAATAGCCTAGCTATGCATTTGGTAGAAAAGTGTCAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
* * *
153162 AGGCTAAATGCCTTTGGGTAAAAGA
66 AGGTTAAATACCTTTGAGTAAAAGA
153187 CAAAAGGAAT
Statistics
Matches: 513, Mismatches: 54, Indels: 72
0.80 0.08 0.11
Matches are distributed among these distances:
161 3 0.01
162 331 0.65
163 5 0.01
164 2 0.00
166 7 0.01
167 14 0.03
168 5 0.01
169 2 0.00
170 3 0.01
171 1 0.00
172 1 0.00
173 2 0.00
178 1 0.00
179 1 0.00
180 1 0.00
181 3 0.01
182 2 0.00
183 5 0.01
184 13 0.03
185 7 0.01
187 2 0.00
188 1 0.00
189 101 0.20
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (162 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGGTAGAAAGGTGTCAATT
ATGCCAGTTAGATGAAAGGTTAAATACCTTTG
Found at i:152855 original size:243 final size:241
Alignment explanation
Indices: 152422--153186 Score: 891
Period size: 243 Copynumber: 3.0 Consensus size: 241
152412 ACTATTCCAA
152422 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAA-GTGTCAATTATGCCAGTTAGATGAA
* * * *
152487 AGGTTAAATACCTTTGAGTAAAAGATTAATAGTCTAACTGTGGATTTGGTAGAAAGGTGTCAATT
65 ATGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATT
* * *
152552 ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGTTTGATAGCCTAGTTGTGCATTTGA
130 ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTG-
152617 CAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGTTAAATACCTCTG
194 CAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGTTAAATACCTCTG
*
152665 AGTAAAAGATTAATAGCCTAGATGTGCATTTGGTAGAAGAGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAA-AGTGTCAATTATGCCAGTTAGATGAA
* *
152730 ATGTTAAATACCTTTGAGTAAAAGGTTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATT
65 ATGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATT
* *
152795 ATGCCAGTTAGATGACAGGTTAAATTCCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGC
130 ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGC
* *
152860 TAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTA
195 -AGAAAGGTGTCAATTATGCCAGTTAGATGAAA--TG-----T-T---A---A-AT---A----C
*
152925 AGTACCTTTG
237 C-T--C--TG
* * * * * *
152935 AGTAAAAGATTAATAGTCTAGCTGTGCAATTGGAAGAAAAGTGTGAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAG-AAAGTGTCAATTATGCCAGTTAGATGAA
* * * * *
153000 ATGCTAAATGCCTTTGGGTAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
65 ATGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATT
* * *
153065 ATTCAAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTATGCATTTGG
130 ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTT-G
* * * * * * * *
153130 TAGAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTG
194 CAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGTTAAATACCTCTG
*
153178 GGTAAAAGA
1 AGTAAAAGA
153187 CAAAAGGAAT
Statistics
Matches: 445, Mismatches: 46, Indels: 62
0.80 0.08 0.11
Matches are distributed among these distances:
242 1 0.00
243 221 0.50
244 1 0.00
245 2 0.00
247 1 0.00
250 1 0.00
251 1 0.00
254 1 0.00
255 2 0.00
256 1 0.00
257 1 0.00
258 2 0.00
259 1 0.00
261 1 0.00
262 1 0.00
266 1 0.00
268 2 0.00
270 201 0.45
271 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (241 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGTGTCAATTATGCCAGTTAGATGAAA
TGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTA
TGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGCA
GAAAGGTGTCAATTATGCCAGTTAGATGAAATGTTAAATACCTCTG
Found at i:152895 original size:27 final size:27
Alignment explanation
Indices: 152862--152922 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
152852 GCATTTGCTA
*
152862 GAAAGGTGTCAATTATGTCAGTTAGAT
1 GAAAGGTGTCAATTATGCCAGTTAGAT
152889 GAAAGGTGTCAATTATGCCAGTTAGAT
1 GAAAGGTGTCAATTATGCCAGTTAGAT
152916 GAAAGGT
1 GAAAGGT
152923 TAAGTACCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (27 bp):
GAAAGGTGTCAATTATGCCAGTTAGAT
Found at i:152993 original size:108 final size:108
Alignment explanation
Indices: 152781--153000 Score: 325
Period size: 108 Copynumber: 2.0 Consensus size: 108
152771 GCATTTGGTA
* * *
152781 GAAATGTGTCAATTATGCCAGTTAGATGACAGGTTAAATTCCTTTGAGTAAAAGATTAATAGCCT
1 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCT
* * * *
152846 AGCTGTGCATTTGCTAGAAAGGTGTCAATTATGTCAGTTAGAT
66 AGCTGTGCAATTGCAAGAAAAGTGTCAATCATGTCAGTTAGAT
* *
152889 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAGTACCTTTGAGTAAAAGATTAATAGTCT
1 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCT
* *
152954 AGCTGTGCAATTGGAAGAAAAGTGTGAATCATG-CAAGTTAGAT
66 AGCTGTGCAATTGCAAGAAAAGTGTCAATCATGTC-AGTTAGAT
152997 GAAA
1 GAAA
153001 TGCTAAATGC
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 1 0.01
108 99 0.99
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.30
Consensus pattern (108 bp):
GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCT
AGCTGTGCAATTGCAAGAAAAGTGTCAATCATGTCAGTTAGAT
Found at i:153025 original size:189 final size:189
Alignment explanation
Indices: 152705--153084 Score: 584
Period size: 189 Copynumber: 2.0 Consensus size: 189
152695 TGGTAGAAGA
* *
152705 GTGTCAATTATGCCAGTTAGATGAAATGTTAAATACCTTTGAGTAAAAGGTTAATAGCCTAGCTG
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTG
* * * * * * * *
152770 TGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGACAGGTTAAATTCCTTTGAGTAAAAG
66 TGCAATTGGAAGAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAG
152835 ATTAATAGCCTAGCTGTGCATTT-GCTAGAAAGGTGTCAATTATGTC-AGTTAGATGAAAG
131 ATTAATAGCCTAGCTGTGCATTTGGC-AGAAAGGTGTCAATTAT-TCAAGTTAGATGAAAG
* *
152894 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAGTACCTTTGAGTAAAAGATTAATAGTCTAGCTG
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTG
* * *
152959 TGCAATTGGAAGAAAAGTGTGAATCATGCAAGTTAGATGAAATGCTAAATGCCTTTGGGTAAAAG
66 TGCAATTGGAAGAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAG
*
153024 ATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCAAGTTAGATGAAAG
131 ATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATTCAAGTTAGATGAAAG
153083 GT
1 GT
153085 TAAATACCTT
Statistics
Matches: 173, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
188 2 0.01
189 169 0.98
190 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (189 bp):
GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTG
TGCAATTGGAAGAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAG
ATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATTCAAGTTAGATGAAAG
Found at i:153043 original size:81 final size:81
Alignment explanation
Indices: 152889--153186 Score: 407
Period size: 81 Copynumber: 3.7 Consensus size: 81
152879 TCAGTTAGAT
* * * * * *
152889 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAGTACCTTTGAGTAAAAGATTAATAGTCT
1 GAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAAGATTAATAGCCT
*
152954 AGCTGTGCAATTGGAA
66 AGCTGTGCATTTGGAA
* * * *
152970 GAAAAGTGTGAATCATGCAAGTTAGATGAAATGCTAAATGCCTTTGGGTAAAAGATTAATAGCCT
1 GAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAAGATTAATAGCCT
* *
153035 AGTTGTGCATTTGGCA
66 AGCTGTGCATTTGGAA
* * * *
153051 GAAAGGTGTCAATTATTCAAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCT
1 GAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAAGATTAATAGCCT
* *
153116 AGCTATGCATTTGGTA
66 AGCTGTGCATTTGGAA
* *
153132 GAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGGGTAAAAGA
1 GAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAAGA
153187 CAAAAGGAAT
Statistics
Matches: 187, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 187 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (81 bp):
GAAAAGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAAGATTAATAGCCT
AGCTGTGCATTTGGAA
Found at i:153185 original size:351 final size:351
Alignment explanation
Indices: 152538--153186 Score: 1014
Period size: 351 Copynumber: 1.8 Consensus size: 351
152528 GGATTTGGTA
* *
152538 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGTTTGATAGCCT
1 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCT
* * * * * *
152603 AGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGTTAAATACCTCTGAGT
66 AGCTGTGCATTGGACAGAAAAGTGTCAATCATGCAAGTTAGATGAAATGCTAAATACCTCTGAGT
* * *
152668 AAAAGATTAATAGCCTAGATGTGCATTTGGTAGAAGAGTGTCAATTATGCCAGTTAGATGAAATG
131 AAAAGATTAATAGCCTAGATGTGCATTTGGCAGAAGAGTGTCAATTATGCAAGTTAGATGAAAGG
* * * *
152733 TTAAATACCTTTGAGTAAAAGGTTAATAGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATG
196 TTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTATGCATTTGGTAGAAAAGTGTCAATCATG
* * * *
152798 CCAGTTAGATGACAGGTTAAATTCCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGCTAG
261 CAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGCTAG
152863 AAAGGTGTCAATTATGTCAGTTAGAT
326 AAAGGTGTCAATTATGTCAGTTAGAT
* *
152889 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAGTACCTTTGAGTAAAAGATTAATAGTCT
1 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCT
* * * *
152954 AGCTGTGCAATTGGA-AGAAAAGTGTGAATCATGCAAGTTAGATGAAATGCTAAATGCCTTTGGG
66 AGCTGTGC-ATTGGACAGAAAAGTGTCAATCATGCAAGTTAGATGAAATGCTAAATACCTCTGAG
* *
153018 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAA-AGGTGTCAATTATTCAAGTTAGATGAAA
130 TAAAAGATTAATAGCCTAGATGTGCATTTGGCAGAAGA-GTGTCAATTATGCAAGTTAGATGAAA
153082 GGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTATGCATTTGGTAGAAAAGTGTCAATCA
194 GGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTATGCATTTGGTAGAAAAGTGTCAATCA
*
153147 TGCAAGTTAGATGAAAGGCTAAATGCCTTTGGGTAAAAGA
259 TGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGA
153187 CAAAAGGAAT
Statistics
Matches: 268, Mismatches: 28, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
350 1 0.00
351 262 0.98
352 5 0.02
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (351 bp):
GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCT
AGCTGTGCATTGGACAGAAAAGTGTCAATCATGCAAGTTAGATGAAATGCTAAATACCTCTGAGT
AAAAGATTAATAGCCTAGATGTGCATTTGGCAGAAGAGTGTCAATTATGCAAGTTAGATGAAAGG
TTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTATGCATTTGGTAGAAAAGTGTCAATCATG
CAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGCTAG
AAAGGTGTCAATTATGTCAGTTAGAT
Found at i:153352 original size:45 final size:45
Alignment explanation
Indices: 153267--153352 Score: 100
Period size: 45 Copynumber: 1.9 Consensus size: 45
153257 TATATTGTAC
* * * * * *
153267 AACAATGCATAATTGGTATGAATGGATGTCATAAAGGAAAACGTA
1 AACAATACATAATGGGCATGAAAGGATGCCACAAAGGAAAACGTA
* *
153312 AACAATACATAATGGGCATGAAAGGATGCCCCAAATGAAAA
1 AACAATACATAATGGGCATGAAAGGATGCCACAAAGGAAAA
153353 TACAATAGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 33 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.20
Consensus pattern (45 bp):
AACAATACATAATGGGCATGAAAGGATGCCACAAAGGAAAACGTA
Found at i:155504 original size:21 final size:20
Alignment explanation
Indices: 155480--155523 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
155470 TAAATGTTTT
*
155480 TTAATTAAAAAAATTTTATAA
1 TTAATTAAAAAAA-TATATAA
* *
155501 TTAATTTAAATAATATATAA
1 TTAATTAAAAAAATATATAA
155521 TTA
1 TTA
155524 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATTAAAAAAATATATAA
Found at i:155818 original size:184 final size:183
Alignment explanation
Indices: 155476--155845 Score: 623
Period size: 184 Copynumber: 2.0 Consensus size: 183
155466 AAATTAAATG
* *
155476 TTTTTTAATTAAAAAAATTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
1 TTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
**
155541 ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATT
66 ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATCAGATCTTAAATTATTAATT
* *
155606 GGGTTTTAAATGGTGTGGGCTTAGCCCATATGTTATATATAATATATATAATA
131 GGGTTTTAAATGGTGTGGGCTGAGCCCATATGTTATATATAATATATATAAAA
*
155659 TTTTTTAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTA
1 TTTTTTAATTAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
* **
155724 TATATTTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATCAGATCTTAAATTATTAAT
65 GATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATCAGATCTTAAATTATTAAT
* *
155789 TGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATTTAAAA
130 TGGGTTTTAAATGGTGTGGGCTGAGCCCATATGTTATATATAATATATATAAAA
155843 TTT
1 TTT
155846 AAAATTTAAT
Statistics
Matches: 174, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
183 16 0.09
184 158 0.91
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (183 bp):
TTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATCAGATCTTAAATTATTAATT
GGGTTTTAAATGGTGTGGGCTGAGCCCATATGTTATATATAATATATATAAAA
Found at i:155870 original size:9 final size:9
Alignment explanation
Indices: 155851--155884 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
155841 AATTTAAAAT
155851 TTAATTTCGG
1 TTAA-TTCGG
155861 TTAATTCGG
1 TTAATTCGG
*
155870 TTAATTCGT
1 TTAATTCGG
155879 TTAATT
1 TTAATT
155885 AACCGAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (9 bp):
TTAATTCGG
Found at i:158641 original size:30 final size:29
Alignment explanation
Indices: 158561--158661 Score: 148
Period size: 29 Copynumber: 3.4 Consensus size: 29
158551 GGGACAAACA
* * *
158561 TTTATCATAATTTATAAATAATTATGCAC
1 TTTATTATAATTTATAAATAGTTATGTAC
*
158590 TTTATTGTAATTTATAAATAGTTATGTAC
1 TTTATTATAATTTATAAATAGTTATGTAC
*
158619 TTTATTATAATTTATAAAATAGTTTTGTAC
1 TTTATTATAATTTAT-AAATAGTTATGTAC
158649 TTTATTATAATTT
1 TTTATTATAATTT
158662 CTATTGTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
29 39 0.60
30 26 0.40
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (29 bp):
TTTATTATAATTTATAAATAGTTATGTAC
Found at i:158694 original size:41 final size:42
Alignment explanation
Indices: 158621--158702 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
158611 TTATGTACTT
158621 TATTATAATTTATAAAATAGTTTTGTACTTTATTATAATTTC
1 TATTATAATTTATAAAATAGTTTTGTACTTTATTATAATTTC
* *
158663 TATTGTAATTTAT-AAATAGTCTTT-TATTTTATTATAATTT
1 TATTATAATTTATAAAATAGT-TTTGTACTTTATTATAATTT
158703 ATAAAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 22 0.59
42 15 0.41
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (42 bp):
TATTATAATTTATAAAATAGTTTTGTACTTTATTATAATTTC
Found at i:158770 original size:29 final size:29
Alignment explanation
Indices: 158658--158772 Score: 112
Period size: 29 Copynumber: 4.0 Consensus size: 29
158648 CTTTATTATA
158658 ATTTCTATTGTAATTTATAAATAGTCTTT-T
1 ATTT-TATTGTAATTTATAAATAGT-TTTGT
* **
158688 ATTTTATTATAATTTATAAA-A-AATTGT
1 ATTTTATTGTAATTTATAAATAGTTTTGT
** * *
158715 AAATTATT-TAATTTACAAAAAGTTTTGT
1 ATTTTATTGTAATTTATAAATAGTTTTGT
*
158743 ATTTTATTGTAATTTATAATTAGTTTTGT
1 ATTTTATTGTAATTTATAAATAGTTTTGT
158772 A
1 A
158773 CGTAACTGGA
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
26 12 0.18
27 8 0.12
28 11 0.16
29 33 0.49
30 4 0.06
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.54
Consensus pattern (29 bp):
ATTTTATTGTAATTTATAAATAGTTTTGT
Found at i:158842 original size:27 final size:29
Alignment explanation
Indices: 158785--158840 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
158775 TAACTGGAAT
*
158785 TTCCAAAATGTTTCGTCCTTTATTGTAAA
1 TTCCAAAATGTTTAGTCCTTTATTGTAAA
* *
158814 TTCCATAA-GTTTAGTCTTTTATTGTAA
1 TTCCAAAATGTTTAGTCCTTTATTGTAA
158841 TTTATGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (29 bp):
TTCCAAAATGTTTAGTCCTTTATTGTAAA
Found at i:167796 original size:29 final size:30
Alignment explanation
Indices: 167763--167834 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
167753 AAATTTTATC
**
167763 TAGTGACTAAAATATAAGTTTTGAAA-GTT
1 TAGTGACTAAAATATAAACTTTGAAATGTT
* *
167792 TAGTGGCTAAATTATAAACTTTGAAATGTT
1 TAGTGACTAAAATATAAACTTTGAAATGTT
*
167822 TAGGGACTAAAAT
1 TAGTGACTAAAAT
167835 TGTAATTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (30 bp):
TAGTGACTAAAATATAAACTTTGAAATGTT
Found at i:182455 original size:503 final size:501
Alignment explanation
Indices: 181607--182609 Score: 1225
Period size: 503 Copynumber: 2.0 Consensus size: 501
181597 TCTTTTAGAA
** * *
181607 GTCCAATAAAAAAAGATTATGTAATTATAAATAGGCTTATTATTGATTTGTGATCTTCGACACTG
1 GTCCAATAAAAAAAGATTATGTAATTATAAATAGGCTTATTATTGAACTGTGAACTTCAACACTG
* * * * **
181672 GTACATATCATGTTTCAGAGAAATTATAAAACCTAGTTGAACTAGGAGGCGATAGGTGTTGTGGT
66 GTACATATCATGTTTCAGAGAAATTATAAAACCTAGTTGAACCAGGAAGCCATAGGTATCATGGT
* * *
181737 GTAGTTGGTTATCATGTCAGCTTAACACAATTAATGTTTCCGGTTCGAGCCCGAGCGATGCTAGT
131 GTAGTTGGTTATCATGTCAGCTTAACACAATGAAGGTTTCAGGTTCGAGCCCGAGCGATGCTAGT
* * *
181802 CATTTTCAATTGTTTTTAGTGCTTTTTATTTCGAAGGAAAAGGAGAAAAAAAATTAAAGTGTAAG
196 CATTTTCAATTGTTTTTAGCGCTTTTTATTTCGAAGAAAAAGGAG-AAAAAAATTAAAGTCTAAG
* * * * *
181867 ACCCGTTACAGGGGATCTAACCCAATTCACTCATATGATAAGCGAGAATACTTACCACTATACTA
260 ACCCGTTACAGGAGATCAAACCCAATTCACTCACATGAAAAACGAGAATACTTACCACTATACTA
* ** * * * * *
181932 CAATGACATTGTTGATAGATAGCTAAACTGATAAATGT-GAATGATCAAATTTATTTATTTATTT
325 CAACGACATTGTCAATAGATAACTAAACTGATAAATGTAG-AGGATCAAAATTATTGATTTA-GT
*
181996 TTAAATTAAGATCATATAATAAAAAATGTACAAA-TAAGGGTTAAAATGATTTTCTACTAATTAT
388 TTAAATTAAGATCATATAATAAAAAATGTACAAATTAAGGGTTAAAATGATTTTATACTAATTAT
* *
182060 GAAA-AAGTATTTTCTTGAC-TTTATGAAAA-AAAGACTTAATTAAAAAAGT
453 GAAACAAGT-CTTT-TTGACATTTA-AAAAATAAAGACTTAATTAAAAAAGT
*
182109 GTCCAATAAAAAAAGATTTTGTAATTATAAATAGG-TGTATTCATTGAACTGTGAACTTCAACAC
1 GTCCAATAAAAAAAGATTATGTAATTATAAATAGGCT-TATT-ATTGAACTGTGAACTTCAACAC
* * *
182173 TTGTTCATATCTTGTTTCAGAGAAATTATAAAACCTAGTTGAACCAGGAAGCCATTAGGTATCAT
64 TGGTACATATCATGTTTCAGAGAAATTATAAAACCTAGTTGAACCAGGAAGCCA-TAGGTATCAT
** * * * * *
182238 GGTGTAGTTGGTTATCATGTCAG-TCTAACACTCTGAAGGTTCTTAGGTTCGAGTCCTAGTGGTG
128 GGTGTAGTTGGTTATCATGTCAGCT-TAACACAATGAAGGTT-TCAGGTTCGAGCCCGAGCGATG
* * *
182302 CTAGTCGTTTTCAATTGTTTTTAGCGCTTTTTTATTTCGATGAAAAAGGAG-GAAAAATTAAAGT
191 CTAGTCATTTTCAATTGTTTTTAGCGC-TTTTTATTTCGAAGAAAAAGGAGAAAAAAATTAAAGT
* * * *** * ** * * *
182366 CTAA-ATCTGTTGCAGGAGATCAAATCCGGGTT-ATTGGCGTGAAAAATGGGAATACTTACCACT
255 CTAAGACCCGTTACAGGAGATCAAA-CCCAATTCACTCACATGAAAAACGAGAATACTTACCACT
* *
182429 ATACTACAACGACCTTGTCAATAGATAACTAAACTGATAAATGTAGAGGGTCAAAATTATTGATT
319 ATACTACAACGACATTGTCAATAGATAACTAAACTGATAAATGTAGAGGATCAAAATTATTGATT
* * * *
182494 TAGTTTAAATTAAGATGATATAATAAAATATGTACAAATTAATGGTTAAAATGATTTTATACTGA
384 TAGTTTAAATTAAGATCATATAATAAAAAATGTACAAATTAAGGGTTAAAATGATTTTATACTAA
* *
182559 TTATGAAACAAGTCTTTTTGTCATTTAAAAAATAAAGATTTAATTAAAAAA
449 TTATGAAACAAGTCTTTTTGACATTTAAAAAATAAAGACTTAATTAAAAAA
182610 TAAGTGTGTA
Statistics
Matches: 423, Mismatches: 66, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
501 1 0.00
502 79 0.19
503 215 0.51
504 66 0.16
505 41 0.10
506 21 0.05
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (501 bp):
GTCCAATAAAAAAAGATTATGTAATTATAAATAGGCTTATTATTGAACTGTGAACTTCAACACTG
GTACATATCATGTTTCAGAGAAATTATAAAACCTAGTTGAACCAGGAAGCCATAGGTATCATGGT
GTAGTTGGTTATCATGTCAGCTTAACACAATGAAGGTTTCAGGTTCGAGCCCGAGCGATGCTAGT
CATTTTCAATTGTTTTTAGCGCTTTTTATTTCGAAGAAAAAGGAGAAAAAAATTAAAGTCTAAGA
CCCGTTACAGGAGATCAAACCCAATTCACTCACATGAAAAACGAGAATACTTACCACTATACTAC
AACGACATTGTCAATAGATAACTAAACTGATAAATGTAGAGGATCAAAATTATTGATTTAGTTTA
AATTAAGATCATATAATAAAAAATGTACAAATTAAGGGTTAAAATGATTTTATACTAATTATGAA
ACAAGTCTTTTTGACATTTAAAAAATAAAGACTTAATTAAAAAAGT
Found at i:183048 original size:2 final size:2
Alignment explanation
Indices: 183041--183103 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
183031 AGCTGAATTG
183041 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
183083 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
183104 GGGTCAAAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:188947 original size:2 final size:2
Alignment explanation
Indices: 188940--188990 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
188930 ATGCATCACA
188940 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
188982 AT AT AT AT A
1 AT AT AT AT A
188991 CAATTATCAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:189902 original size:70 final size:70
Alignment explanation
Indices: 189781--189912 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
189771 AAGTACCAAT
**
189781 ACACATAAGGTTGTACCCACCCTAATACACTAAGTGCCCTTTATATACACTATAGTGATAAACTG
1 ACACATAAGGTTGTACCCACCC-AATACAAAAAGTGCCCTTTATATACACTATAGTGATAAACTG
189846 AATATG
65 AATATG
* * * *
189852 ACACATAAGGTTGTGCCCA-CCACCTACAAAAAGTGTCCTTTATATACACTATAGTGCTAAA
1 ACACATAAGGTTGTACCCACCCA-ATACAAAAAGTGCCCTTTATATACACTATAGTGATAAA
189913 TCGGATATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
69 1 0.02
70 35 0.65
71 18 0.33
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (70 bp):
ACACATAAGGTTGTACCCACCCAATACAAAAAGTGCCCTTTATATACACTATAGTGATAAACTGA
ATATG
Found at i:198998 original size:2 final size:2
Alignment explanation
Indices: 198991--199015 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
198981 ATGCATCACA
198991 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
199016 CAATTATCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:203148 original size:576 final size:572
Alignment explanation
Indices: 202044--203201 Score: 1384
Period size: 576 Copynumber: 2.0 Consensus size: 572
202034 ATTTACACAC
* * *
202044 TTTTTTAATTAAGTCATTATTTTTAAAATGATGGAGATACTTGTTTCTTAATCAATATAAAATCA
1 TTTTTTAACTAAGTCATTATTTTTAAAATGACGAAGATACTTGTTTCTTAATCAATATAAAATCA
* *
202109 TATTTAACCCTTAATATGAACATATTTTAATATCATCTTAATTTAAAAATAAATTGATATTTTTG
66 TATTTAACCCATAATATGAACATATTTTAATATCATCTTAATTTAAAAATAAATTAATATTTTTG
* *
202174 ACCCTCCACATTCATCAATTTAGCTATTTATCAACAAGTTCGTTGTAGTATAATGGTAAGTTTTC
131 ACCCTCCACATTCATCAATTTA-CTATTTATCAACAAGGTCGTTGTAGTATAATGGTAAGTATTC
*** *
202239 CCGCCTTTCATGCGGGTGACCTGTGTTCAATCCCCAGCAACGACGTTAGACTTTAGATTTTGAAT
195 CCGCCTTTCA-GCGGGTGACCCAAGTTCAATCCCCAGAAACGACGTTAGACTTTAGATTTTGAAT
* * ** *
202304 CTTTTCCAATGAAATAAAAGCACTAAAAATAATTGAAAATGACTAGCATCACCCGAACTCCAACT
259 CTTTTCCAATGAAATAAAAACACTAAAAACAATTGAAAATGACTAGCATCACCCGAACTAAAACC
** * *
202369 GAAGGCCTTCAGTGTGTTAGACTAACGTGATAACAAGCTACACCACGACCCTTGATGGCCTCTTA
324 GAACACCTTCAGTGTGTAAGACTAACGTGATAACAAGCTACACCACGACCCTTGATGGCCTCCTA
* * ** *
202434 GTTCCATTACATTTTATAATTTCTCTTAAACATGGAATGTACAAGTGTCGAAGATTACAATTCAA
389 GTTCCATTACATTTTATAATTTATCTAAAACATGGAACATACAAGTGTCGAAGATCACAATTCAA
* * * * *
202499 TGATACACATTTTTATAATTACATAATATTTTTTATTGGACTTGCAAAAGGAATTTATAATAGAT
454 TAAGACACATATTTATAATTACATAATATTTTTCATTGGACTTGCAAAAGAAATTTATAATAGAT
* *
202564 GTGGTGAAAATGGACATAAGTTTGGATTTTAAAAATAAATGACAGTACACACTTA
519 GAGGTGAAAATGGACATAAGTTTGGA-TTTAAAAATAAATGACAATACACACTTA
*
202619 TTTTTTAACTAAGTCTTTATTTTT-AAATGACGAAGATACTTGTTTCTTAATCAATATAAAATCA
1 TTTTTTAACTAAGTCATTATTTTTAAAATGACGAAGATACTTGTTTCTTAATCAATATAAAATCA
* * ** *
202683 TATTTAACCCATAATTTGTATTTATTTTATTATGTCATCTTAATTT-AAAAT-AATTCAAT-TAT
66 TATTTAACCCATAATATGAACATATTTTA--ATATCATCTTAATTTAAAAATAAATT-AATAT-T
* * * *
202745 TTTGACCCTCTACATATC-TCAGTTTA-TATGTCTATCAACAAGGTCGTTGTAGTATAGTTGTAA
127 TTTGACCCTCCACAT-TCATCAATTTACTAT-T-TATCAACAAGGTCGTTGTAGTATAATGGTAA
* * ** * ** *
202808 GTATTCCTGCTTGTTACA-CGGGTGACCCAAGTTTGATCCCCTA-AAATGGTGTTAGATTTTAG-
189 GTATTCCCGCCT-TT-CAGCGGGTGACCCAAGTTCAATCCCC-AGAAACGACGTTAGACTTTAGA
*** * * *
202870 TTTTTCCTCCTTTTCTATTGAAATAAAAAAACACTAAAAACAATTG-AAATGACTAGCATCTCCC
251 TTTTGAAT-CTTTTCCAATGAAAT--AAAAACACTAAAAACAATTGAAAATGACTAGCATCACCC
* * * * * * * *
202934 GAACTAAAACCGAACACCTTCAGTGTGTAATACTAATGTTATAACCATCTATACCACTACGCTTG
313 GAACTAAAACCGAACACCTTCAGTGTGTAAGACTAACGTGATAACAAGCTACACCACGACCCTTG
* *
202999 ATGGCCTCCTAGTTCCATTACGTTTTATAGTTTATCTAAAACAT-GATACATACAAGTGTCGAAG
378 ATGGCCTCCTAGTTCCATTACATTTTATAATTTATCTAAAACATGGA-ACATACAAGTGTCGAAG
* * * * * * **
203063 ATCATAATTCAATAAGACGCCTATTTCTAATTACATAATCTTTTTCCTTGGACTTGTGAAAGAAA
442 ATCACAATTCAATAAGACACATATTTATAATTACATAATATTTTTCATTGGACTTGCAAAAGAAA
** * *
203128 TTTATTGTAGATGAGGTGAAAATGTACATAAGTTTGGATTTAAAAATAGATGACAATACACACTT
507 TTTATAATAGATGAGGTGAAAATGGACATAAGTTTGGATTTAAAAATAAATGACAATACACACTT
203193 A
572 A
203194 TTTTTTAA
1 TTTTTTAA
203202 TTATGTAACG
Statistics
Matches: 491, Mismatches: 78, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
573 3 0.01
574 73 0.15
575 169 0.34
576 226 0.46
577 20 0.04
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (572 bp):
TTTTTTAACTAAGTCATTATTTTTAAAATGACGAAGATACTTGTTTCTTAATCAATATAAAATCA
TATTTAACCCATAATATGAACATATTTTAATATCATCTTAATTTAAAAATAAATTAATATTTTTG
ACCCTCCACATTCATCAATTTACTATTTATCAACAAGGTCGTTGTAGTATAATGGTAAGTATTCC
CGCCTTTCAGCGGGTGACCCAAGTTCAATCCCCAGAAACGACGTTAGACTTTAGATTTTGAATCT
TTTCCAATGAAATAAAAACACTAAAAACAATTGAAAATGACTAGCATCACCCGAACTAAAACCGA
ACACCTTCAGTGTGTAAGACTAACGTGATAACAAGCTACACCACGACCCTTGATGGCCTCCTAGT
TCCATTACATTTTATAATTTATCTAAAACATGGAACATACAAGTGTCGAAGATCACAATTCAATA
AGACACATATTTATAATTACATAATATTTTTCATTGGACTTGCAAAAGAAATTTATAATAGATGA
GGTGAAAATGGACATAAGTTTGGATTTAAAAATAAATGACAATACACACTTA
Found at i:209672 original size:19 final size:20
Alignment explanation
Indices: 209648--209697 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
209638 GTTATTTTTG
*
209648 CTATCGATACTC-AGGGTGA
1 CTATCGATACTCAAGGGTCA
*
209667 CTATCGATACCCAAGGGTCA
1 CTATCGATACTCAAGGGTCA
*
209687 ATATCGATACT
1 CTATCGATACT
209698 ATTAGAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (20 bp):
CTATCGATACTCAAGGGTCA
Found at i:210151 original size:128 final size:129
Alignment explanation
Indices: 209879--210139 Score: 445
Period size: 130 Copynumber: 2.0 Consensus size: 129
209869 ATGACACTCA
*
209879 GAAAACAGTTGGGACACTCGATTTACTCTAGCATTATCATGATCCTCCTCTATTTGTGAAATATA
1 GAAAACGGTTGGGACACTCGATTTACTCTAGCATTATCATGATCCTCCTCTATTTGTGAAATATA
*
209944 TGGATATATATATGACAAGGTACACATTCAATGCACGCAAAATTCCATTTCATACCTTTATGCTC
66 TGGA-ATATATATGACAAGGTACACATTCAATGCACGCAAAATTCCATTTCATACCTCTATGCTC
* * *
210009 GAAAACGGTTGGGACACTCGATTTACTCTAGTATTATGATGATCGTCCTCTATTTGTGAAATATA
1 GAAAACGGTTGGGACACTCGATTTACTCTAGCATTATCATGATCCTCCTCTATTTGTGAAATATA
210074 TGG-ATATATATGA-ATAGGTACACATTCAATGCACGCAAAATTCCATTTCATACCTCTATGCTC
66 TGGAATATATATGACA-AGGTACACATTCAATGCACGCAAAATTCCATTTCATACCTCTATGCTC
210137 GAA
1 GAA
210140 TAGGTTTGGG
Statistics
Matches: 125, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
127 1 0.01
128 60 0.48
130 64 0.51
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (129 bp):
GAAAACGGTTGGGACACTCGATTTACTCTAGCATTATCATGATCCTCCTCTATTTGTGAAATATA
TGGAATATATATGACAAGGTACACATTCAATGCACGCAAAATTCCATTTCATACCTCTATGCTC
Found at i:212061 original size:2 final size:2
Alignment explanation
Indices: 212054--212081 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
212044 ATGATATTTA
212054 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
212082 CGTAATCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:213604 original size:30 final size:30
Alignment explanation
Indices: 213540--213602 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
213530 AATCTATAAC
* *
213540 TTTTCTAAAATTATAGATTTGATCCCCAAT
1 TTTTCAAAAATTATAGATATGATCCCCAAT
*
213570 TTTTCAAAAATTATAGA-ATGGTCCCCAAT
1 TTTTCAAAAATTATAGATATGATCCCCAAT
213599 TTTT
1 TTTT
213603 TCTAAAGCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (30 bp):
TTTTCAAAAATTATAGATATGATCCCCAAT
Found at i:214379 original size:12 final size:12
Alignment explanation
Indices: 214362--214391 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
214352 CTTTATCGAT
214362 TTTCCCTTGAAG
1 TTTCCCTTGAAG
*
214374 TTTCCCTTGAAT
1 TTTCCCTTGAAG
214386 TTTCCC
1 TTTCCC
214392 AAAAATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.30, G:0.10, T:0.47
Consensus pattern (12 bp):
TTTCCCTTGAAG
Found at i:220624 original size:30 final size:30
Alignment explanation
Indices: 220567--220629 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
220557 CAAAAATCTA
* * * *
220567 CAACTTTTCCAAAATTATTGATTTGGTCTCC
1 CAACCTTTCAAAAATTATAGATATGGTC-CC
220598 CAACCTTTCAAAAATTATAGA-ATGGTCCC
1 CAACCTTTCAAAAATTATAGATATGGTCCC
220627 CAA
1 CAA
220630 TTTTTTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 5 0.18
30 5 0.18
31 18 0.64
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (30 bp):
CAACCTTTCAAAAATTATAGATATGGTCCC
Found at i:223267 original size:524 final size:519
Alignment explanation
Indices: 222268--223306 Score: 1270
Period size: 524 Copynumber: 2.0 Consensus size: 519
222258 ATGTCTCGGA
* *
222268 GATCACAATTCAATGATACACCTATTTCTAATTACATAATCTTTTTTATATGACTTGTAAAATAA
1 GATCACAATTCAATGATACACCTATTTATAATTACATAATATTTTTTATATGACTTGTAAAATAA
* * **
222333 ATTCATTGTAGATGAGGTGAAAATGGACATAAGTTTGATTTTTTTTTAAAAAGATGACTGTACAC
66 ATTCATTGTAGATGAGGTGAAAATAGACATAAGTTTGA----TTTTTAAAAAAATGACAATACAC
* * *
222398 ATTATAATTTACACACTTTTTTTAATTAAGTCTTCAGTTTTTTTAAATGACAAAGATACTTGTTT
127 ACTATAATTTACACACTTTTTTTAATAAAGTCTT-A-TATTTTTAAATGACAAAGATACTTGTTT
* *
222463 CTCAATCAATATAAAATCATATTTAACCCTTAGTTTGTACATATTTTAACATATCTACTTAATTT
190 CTCAATCAATATAAAATAATATTTAACCCTTAATTTGTACATATTTTAACATATCTACTTAATTT
* * * *
222528 AAAATAAATTAATAATTTTGACCCTTCACATTTATCAATTTAGCTATGAACAAGGTCGTTATAGT
255 AAAATAAATCAATAATTTTGACCCTTCAAATATATCAATTTAGCTATCAACAAGGTCGTTATAGT
* * * * * **
222593 ATAGTGATAAGTATTCCTGCCTGTCACGCGAGTGACACAGGTTTTATCCGTGAAAATGGCGTTAG
320 ATAGAGATAAGTATTCC-GCCTCTCACACGAGAGACACAGGTTTGATCCCCGAAAATGGCGTTAG
* * *
222658 ACTTTAGTTTTGAATCTTTTTCCATCAAAATAAAAAGTGCTAAAAACAATTGAAAATGACTAGCA
384 ACTTTAGTTTTGAATCATTTTCCATCAAAATAAAAAGCGCTAAAAACAATTGAAAATAACTAGCA
* * * * *
222723 TCGCCTTGACCGGAACCAGAGACCTTCAGTGTGTTAAACTAACGTGATAACAAACTACACAACGA
449 TCGCCTCGAACGCAACCAGAGACCTGCAGTGTGTTAAACTAACGTGAGAACAAACTACACAACGA
222788 GTCGAT
514 GTCGAT
* * *
222794 GATCAGAATTCAATGATACACCTATTTATAATTACGTAATATTTTTTAT-TGGACTTGTGAAATA
1 GATCACAATTCAATGATACACCTATTTATAATTACATAATATTTTTTATAT-GACTTGTAAAATA
** *
222858 TGTTCATTGTAGATGAGGTGAAAATAGACATAAGTTTGGA-TTTTAAAAAAATGACAATATACAC
65 AATTCATTGTAGATGAGGTGAAAATAGACATAAGTTT-GATTTTTAAAAAAATGACAATACACAC
* * *
222922 TATAATTTACACACTTATTTTTTAATAAAGT-TT-TATTTTTAAATGACGAATATATTTGTTTCT
129 TATAATTTACACAC-T-TTTTTTAATAAAGTCTTATATTTTTAAATGACAAAGATACTTGTTTCT
* * **
222985 TAATCAGTATAAAATAATATTTAACCCTTAATTTGTACATATTTTATTATATC-ATCTTAATTTA
192 CAATCAATATAAAATAATATTTAACCCTTAATTTGTACATATTTTAACATATCTA-CTTAATTTA
* *
223049 AAATAAATCAATTATTTTGACCC-TCAAAATATATCAATTTAGCTATCTATCAACAAGGTCGTTG
256 AAATAAATCAATAATTTTGACCCTTC-AAATATATCAATTTAG----CTATCAACAAGGTCGTTA
* * * * *
223113 TAGTATAGAGGTAAGTATTCC-CACTCCTCACATGGGAGATC-CGGGTTTGATCCCCGGAAATGG
316 TAGTATAGAGATAAGTATTCCGC-CT-CTCACACGAGAGA-CACAGGTTTGATCCCCGAAAATGG
* ** **
223176 TGTTAGACTTTAGGTTTT-CCTCATTTTCCATTGAAATAAAAAGCGCTAAAAACAATTGAAAATA
378 CGTTAGACTTTA-GTTTTGAATCATTTTCCATCAAAATAAAAAGCGCTAAAAACAATTGAAAATA
* * * * *
223240 ACTAGCATC-TCTCGAACTCATACCAGAGACCTGCAGTGTGTTAGACTGACGTGAGAACCAACTA
442 ACTAGCATCGCCTCGAACGCA-ACCAGAGACCTGCAGTGTGTTAAACTAACGTGAGAACAAACTA
223304 CAC
506 CAC
223307 CACTACACTT
Statistics
Matches: 438, Mismatches: 60, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
519 3 0.01
520 117 0.27
522 34 0.08
523 11 0.03
524 173 0.39
525 7 0.02
526 91 0.21
527 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (519 bp):
GATCACAATTCAATGATACACCTATTTATAATTACATAATATTTTTTATATGACTTGTAAAATAA
ATTCATTGTAGATGAGGTGAAAATAGACATAAGTTTGATTTTTAAAAAAATGACAATACACACTA
TAATTTACACACTTTTTTTAATAAAGTCTTATATTTTTAAATGACAAAGATACTTGTTTCTCAAT
CAATATAAAATAATATTTAACCCTTAATTTGTACATATTTTAACATATCTACTTAATTTAAAATA
AATCAATAATTTTGACCCTTCAAATATATCAATTTAGCTATCAACAAGGTCGTTATAGTATAGAG
ATAAGTATTCCGCCTCTCACACGAGAGACACAGGTTTGATCCCCGAAAATGGCGTTAGACTTTAG
TTTTGAATCATTTTCCATCAAAATAAAAAGCGCTAAAAACAATTGAAAATAACTAGCATCGCCTC
GAACGCAACCAGAGACCTGCAGTGTGTTAAACTAACGTGAGAACAAACTACACAACGAGTCGAT
Found at i:223794 original size:589 final size:585
Alignment explanation
Indices: 222800--225641 Score: 2386
Period size: 589 Copynumber: 4.9 Consensus size: 585
222790 CGATGATCAG
* * * **
222800 AATTCAATGATACACCTATTTATAATTACGTAATATTTTTTATTGGACTTGTGAAATATGTTCAT
1 AATTCAATGATACACATATTTATAATTAC-TAATCTTTTTTATTGGACTTGTGAAAGAAATTCAT
* * * * *
222865 TGTAGATGAGGTGAAAATAGACATAAGTTTGGATTTTAAAAA-A-ATGACAATATACACTATAAT
65 TGTAGATGAGGTGAAAATGGACATAAGTTT-GATTTAAAAAATAGATGATAGTACACACTATAAT
* *
222928 TTACACACTTATTTTTTAATAAAGT-TTTATTTTT-AAATGACGAATATATTTGTTTCTTAATCA
129 TTACACACTTATTTTTTAATTAAGTATTTATTTTTGAAATGACGAAAATATTTGTTTCTTAATCA
*
222991 GTATAAAATAATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAA
194 GTATAAAATCATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAA
* * * * *
223056 TCAATTATTTTGACCCTCAAAATATATCAATTTAGCTATCTATCAACAAGGTCGTTGTAGTATAG
259 TCAATAATTTTGACCCTCCACATTTATCAATTTAGCTATCTATCAACAAGTTCGTTGTAGTATAG
* ** ** * * ** * *
223121 AGGTAAGTATTCCCA-CTCCTCACATGGGAGATCCGGGTTTGATCC-CCGGAAATGGTGTTAGAC
324 TGGTAAGTATT-CCAGCTTGTCACGCGAGTGA-CCTAGTTTGATCCTTC-GAAACGGTG-TAGAC
* * *
223184 TTTAGGTTTTCCTCATTTTCCATTGAAATAAAAAGCGCTAAAAACAATTGAAAATAACTAGCATC
385 TTTAGTTTTTCCTCATTTTCCATCGAAATAAAAAGCGCTAAAAACAATTGAAAATGACTAGCATC
* * * *
223249 TCTCGAACTCATACC-AGAGACCTGCAGTGTGTTAGACTGACGTGAGAACCAACTACACCACTAC
450 GCTCGAACTCA-ACCGA-AGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAC
223313 ACTTGATGGCCTCCTGGTTCCACTACGTTTTATAATTTCTTTGAAACATGATACGCACAAGTGTC
513 ACTTGATGGCCTCCTGGTTCCACTACGTTTTATAATTTCTTTGAAACATGATACGCACAAGTGTC
223378 GAAGTTCAC
578 -AAGTTCAC
* * *
223387 AATTCAATGAGAAACATATTTATAATTACATAATCTTTTTTATTGGACTTGTGAAAGAATTTCAT
1 AATTCAATGATACACATATTTATAATTAC-TAATCTTTTTTATTGGACTTGTGAAAGAAATTCAT
*
223452 TGTAGATGAGGTGAAAATGGACATAAGTTTGTATTTAAAAAATAGATGATAGTACACACTACAAT
65 TGTAGATGAGGTGAAAATGGACATAAGTTTG-ATTTAAAAAATAGATGATAGTACACACTATAAT
* * *
223517 TTAAACACTTAGTTTTTAATTAAATATTTATTTTTGAAATGACGAAAATATTTGTTT-TATAATC
129 TTACACACTTATTTTTTAATTAAGTATTTATTTTTGAAATGACGAAAATATTTGTTTCT-TAATC
* * * ** *
223581 AGTATAAAACCAT-TTCTAACCCATAATTTGTTCATATTTT-TTATATCATCTTAGCTT-AAACA
193 AGTATAAAATCATATT-TAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATA
* * * * *
223643 AATCAATAATTTTAACCCTGCACTTTTATCAGTTTAGCTATCTATCAACAAGTTCATTGTAGTAT
257 AATCAATAATTTTGACCCTCCACATTTATCAATTTAGCTATCTATCAACAAGTTCGTTGTAGTAT
* * * * *
223708 ATTGGTAAGTATTCCAGCTTGTCACGTGAGAT-ACCTAGTATTGATCCTTCGTAGCGGTTGTAAA
322 AGTGGTAAGTATTCCAGCTTGTCACGCGAG-TGACCTAGT-TTGATCCTTCGAAACGG-TGTAGA
* * * *
223772 CTTTAATTTTTCATCTTTTTCCATCGAAATAAAAACCATCAAAATAAAAAGTGCTAAAAAACAAT
384 CTTTAGTTTTTCCTCATTTTCCATCG---------------AAATAAAAAGCGCT-AAAAACAAT
* * * * * *
223837 TGAAAATGACTTGCATCGCTCAAACACGAACCGAAGACCTTCAGTATGTTAAACTGACATGATAA
433 TGAAAATGACTAGCATCGCTCGAACTC-AACCGAAGACCTTCAGTGTGTTAGACTGACGTGATAA
* * **** ** * * * * ** * *
223902 CCAACTACACCCCGACTCTCTGA-AAAATGATATGTACCAGT--GTTGTAT-ATCACAATT--CA
497 CCAACTACACCACGACACT-TGATGGCCTCCT-GGTTCCACTACGTTTTATAATTTC-TTTGAAA
* * *
223961 -ATGATAGGC-C-----T--A-TTTAT
559 CATGATACGCACAAGTGTCAAGTTCAC
* * *
223978 AATTACAA--A-A-A-A-A---A-AA-AACT--T-ATTG------GACTTGTGAAAGAAATTCAT
1 AATT-CAATGATACACATATTTATAATTACTAATCTTTTTTATTGGACTTGTGAAAGAAATTCAT
* * * * * * * * *
224023 TGAAGTTTAGGTGAAAATGGACATAAGTTTCGATTTACAGAATATATGAAAGTGCACATTATAAT
65 TGTAGATGAGGTGAAAATGGACATAAGTTT-GATTTAAAAAATAGATGATAGTACACACTATAAT
* * * * * * *
224088 TTACACAATTATTTTTTAATTAAGTCTTTATTTTTTAAGTGACAAAAATACTTGTTTCATAATCA
129 TTACACACTTATTTTTTAATTAAGTATTTATTTTTGAAATGACGAAAATATTTGTTTCTTAATCA
* *
224153 CTATAAAATCATTTTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAA
194 GTATAAAATCATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAA
* * * * * *
224218 TCAATAATTTTGTCCTTTCACATTTATCAGTTTAGCTATCAATCAACAAGTTCGTTGTAATATAG
259 TCAATAATTTTGACCCTCCACATTTATCAATTTAGCTATCTATCAACAAGTTCGTTGTAGTATAG
* * ** * * * * *
224283 TGGTACGTATCCCTTCTTATCATGCGAGTCACTCGAGTTTGATCCCTT-GAAACGGCGTTAGACT
324 TGGTAAGTATTCCAGCTTGTCACGCGAGTGAC-CTAGTTTGAT-CCTTCGAAACGGTG-TAGACT
* * * *
224347 TTAATTTTTCCTCCTTTTCAATCGAAATAAAAAGAGCTAAACAA-AATTGAAAATGACTAGCATC
386 TTAGTTTTTCCTCATTTTCCATCGAAATAAAAAGCGCTAAA-AACAATTGAAAATGACTAGCATC
* * * * * *
224411 GCTCGAACTCAAACCGAAAACCTTCATTGTGTTAGACTGACATGATACCCAACTACTCCATGACA
450 GCTCGAACTC-AACCGAAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGACA
** * * ** *
224476 CCCGAAGGCCTTCTGGTTTGACTACGATTTATAATTTCTTTGAAACATGATACGCACAAGTGTCG
514 CTTGATGGCCTCCTGGTTCCACTACGTTTTATAATTTCTTTGAAACATGATACGCACAAGTGTC-
*
224541 AAGATCAC
578 AAGTTCAC
* *
224549 AATGCAATGATACACATATTTATAATTACATAATCTTTTTTATTGGACATGTGAAAGAAATTCAT
1 AATTCAATGATACACATATTTATAATTAC-TAATCTTTTTTATTGGACTTGTGAAAGAAATTCAT
* ** * * **
224614 TGTATATGATCTGAAAAATGGGCATAAGTTGGATTTAAAAAATTTATGATAG----CACTAT-AT
65 TGTAGATGAGGTG-AAAATGGACATAAGTTTGATTTAAAAAATAGATGATAGTACACACTATAAT
* * * * *
224674 TGTACACACTTATTTTTTTAATGT-AGTCTTTATTTTTGAAATGATGAAGATATTGGTTTCTGAA
129 T-TACACACTTA-TTTTTTAAT-TAAGTATTTATTTTTGAAATGACGAAAATATTTGTTTCTTAA
* * * *
224738 TCAGTATAAAATCATATTTAACGCTTAGTTTGAACATATTTTATTATATCATTTTAATTTAAAAT
191 TCAGTATAAAATCATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAAT
* * * * *
224803 AAATAAATAATTTTAACCCTCCACAATTATCAATTTAGTTATTTATCAACAAGGTT-GTTGTAGT
256 AAATCAATAATTTTGACCCTCCACATTTATCAATTTAGCTATCTATCAACAA-GTTCGTTGTAGT
* * * ** * * * *
224867 TTAGTGGTAAGTATTCCCGCCTGTCACGCGAGTGATTGTGGTTTTGATCCGT-GACAATGGCGTT
320 ATAGTGGTAAGTATTCCAGCTTGTCACGCGAGTGA-CCTAG-TTTGATCCTTCGA-AACGGTG-T
* * * ** * * * *
224931 AGACTTTAGTTTTGCCGCATTTTCAATCGAAATAAAAAATGGTAAAAATAATTGGAAATAACTAG
381 AGACTTTAGTTTTTCCTCATTTTCCATCGAAATAAAAAGCGCTAAAAACAATTGAAAATGACTAG
* * * * * * * *
224996 CATCG-TCCCAACTTGAACCGAAGAGCTTTAGTGTGTTAGACTAATGTGATAACAAACAACACCA
446 CATCGCT-CGAAC-TCAACCGAAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCA
* * * *
225060 CGACACTTGATGGCCTCCTAGTTCCACTACATTTTATAATTTCTCTGAAACATGATACGTACAAG
509 CGACACTTGATGGCCTCCTGGTTCCACTACGTTTTATAATTTCTTTGAAACATGATACGCACAAG
* *
225125 TTTCAAATATCAC
574 TGTCAAGT-TCAC
* * *
225138 AATTCAAAT-ATACACCTATTTCTAACTAC-AATCTTTTTTATAT-GACTTGTGAAAGAAATTCA
1 AATTC-AATGATACACATATTTATAATTACTAATCTTTTTTAT-TGGACTTGTGAAAGAAATTCA
* * * * *
225200 TTGTAGATGAGGTTAAAATGAACATAAGTTTAGATTTAAAAAATAGATGATTGTGCACATTATAA
64 TTGTAGATGAGGTGAAAATGGACATAAGTTT-GATTTAAAAAATAGATGATAGTACACACTATAA
* * *
225265 TTTACACAC----TTTTTAATTAAGTCA-TTATTTTTTAAAATGAC-AAAGATAATTGTTTCTCA
128 TTTACACACTTATTTTTTAATTAAGT-ATTTA-TTTTTGAAATGACGAAA-ATATTTGTTTCTTA
* * * * * *
225324 ATCAATATAAAATCATATTCAA-CCTTAGTTTGTACATAATTTATCATATCAACTTAA-TT-AAA
190 ATCAGTATAAAATCATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAA
* * *
225386 TAAATTAATAATTTTGACCCTCCACATTTATCAATTTAG----CTATGAACAAGGTCGTTGTAGT
255 TAAATCAATAATTTTGACCCTCCACATTTATCAATTTAGCTATCTATCAACAAGTTCGTTGTAGT
* * * *
225447 ATAGTGGTAAGTATTCCCGCCTT-TCACGTGAGTGACCTAGGTTTGATCCAT-GAAAATGGCAT-
320 ATAGTGGTAAGTATTCCAG-CTTGTCACGCGAGTGACCTA-GTTTGATCCTTCG-AAACGG--TG
* *** * *
225509 TGGACTTTAGTTTTGAAT-ATTTTTCCATCAAAATAAAAAGCGATAAAAACAATTGAAAATGACT
380 TAGACTTTAGTTTTTCCTCA-TTTTCCATCGAAATAAAAAGCGCTAAAAACAATTGAAAATGACT
* ** * * * * *
225573 AGCATCGCCCTTACTGGAACCGGAGACCTTCAGTGTGTTAGACTAATGTGATAACAAACTACACC
444 AGCATCGCTCGAACT-CAACCGAAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACC
225638 ACGA
508 ACGA
225642 GTCGAAGATC
Statistics
Matches: 1801, Mismatches: 339, Indels: 238
0.76 0.14 0.10
Matches are distributed among these distances:
556 6 0.00
557 78 0.04
558 22 0.01
559 3 0.00
560 1 0.00
561 8 0.00
562 1 0.00
567 1 0.00
570 4 0.00
571 163 0.09
572 21 0.01
573 122 0.07
574 9 0.00
575 1 0.00
576 1 0.00
577 2 0.00
578 3 0.00
579 128 0.07
580 50 0.03
581 6 0.00
582 3 0.00
583 1 0.00
584 40 0.02
585 5 0.00
586 64 0.04
587 210 0.12
588 195 0.11
589 352 0.20
590 35 0.02
591 120 0.07
592 22 0.01
595 1 0.00
600 1 0.00
601 8 0.00
602 1 0.00
603 3 0.00
604 21 0.01
605 78 0.04
606 11 0.01
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (585 bp):
AATTCAATGATACACATATTTATAATTACTAATCTTTTTTATTGGACTTGTGAAAGAAATTCATT
GTAGATGAGGTGAAAATGGACATAAGTTTGATTTAAAAAATAGATGATAGTACACACTATAATTT
ACACACTTATTTTTTAATTAAGTATTTATTTTTGAAATGACGAAAATATTTGTTTCTTAATCAGT
ATAAAATCATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAATC
AATAATTTTGACCCTCCACATTTATCAATTTAGCTATCTATCAACAAGTTCGTTGTAGTATAGTG
GTAAGTATTCCAGCTTGTCACGCGAGTGACCTAGTTTGATCCTTCGAAACGGTGTAGACTTTAGT
TTTTCCTCATTTTCCATCGAAATAAAAAGCGCTAAAAACAATTGAAAATGACTAGCATCGCTCGA
ACTCAACCGAAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGACACTTGATG
GCCTCCTGGTTCCACTACGTTTTATAATTTCTTTGAAACATGATACGCACAAGTGTCAAGTTCAC
Found at i:223816 original size:15 final size:15
Alignment explanation
Indices: 223792--223821 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
223782 TCATCTTTTT
*
223792 CCATCGAAATAAAAA
1 CCATCAAAATAAAAA
223807 CCATCAAAATAAAAA
1 CCATCAAAATAAAAA
223822 GTGCTAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.20, G:0.03, T:0.13
Consensus pattern (15 bp):
CCATCAAAATAAAAA
Found at i:226441 original size:538 final size:533
Alignment explanation
Indices: 225080--226562 Score: 1546
Period size: 538 Copynumber: 2.8 Consensus size: 533
225070 TGGCCTCCTA
* * * *
225080 GTTCCACTACATTTTATAATTTCTCTGAAACATGATACGTACAAGTTTCAAATATCACAATTCAA
1 GTTCCACTACATTTTATAATTTCT-TGAAACATGATACGCACAAGTGTCGAAGATCACAATTC-A
* *
225145 AT-ATACACCTATTTCTAACTAC-AATCTTTTTTATAT-GACTTGTGAAAGAAATTCATTGTAGA
64 ATGATACACCTATTTATAATTACTAATCTTTTTTAT-TGGACTTGTGAAAGAAATTCATTGTAGA
* * * * *
225207 TGAGGTTAAAAT-GAACATAAGTTTAGATTTAAAAAATAGATGATTGTGCACATTATAATTTACA
128 TGAGGTGAAAATGGAA-ATAAGTTTGGATTTAAAAAATAGATGATAGTACACACTATAATTTACA
* *
225271 C---A-CTTTTTAATTAAGTCA-TTATTTTTTAAAATGACAAAGATAATTGTTTCTCAATCAATA
192 CATTATTTTTTTAATTAAGT-ATTTA-TTTTTAAAATGA-AAAAATAATTGTTTCT-AATCAATA
* * * * * *
225331 TAAAATCATATTCAA-CCTTAGTTTGTACATAATTTATCATATCAACTTAA-TT-AAATAAATTA
253 TAAAATCATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAATCA
* * *
225393 ATAATTTTGACCCTCCACATTTATCAA-TT--TAGCTATGAACAAGGTCGTTGTAGTATAGTGGT
318 ATAATTTTGACCCTCCACATTTATCAATTTACTATCTATCAATAAGGTCGTTGTAGTATAGTGGT
* ** * **
225455 AAGTATTCCCGCCTTTCACGTGAGTGACCTAGGTTTGATCCATGAAAATGGCATTGGACTTTAGT
383 AAGTATTCCC-ACTTTCACACGAGTGACCTAGGTTTGATCCACGAAAATGGCATCAGACTTTAGT
* **
225520 TTTGAATATTTTTCCATCAAAATAAAAAGCGATAAAAACAATTGAAAATGACTAGCATCGCCCTT
447 TTTGAATATTTTTCCATCAAAATAAAAAGCGATAAAAACAATTGAAAATAACTAGCATCGCCCAG
** *
225585 ACTGGAACCGGAGACCTTCAGTGT
512 ACTCAAACAGGAGACCTT-A-TGT
** * * * * *
225609 GTTAGACTA-ATGTGATAA---C---AAAC-T-ACAC-CAC--GAGTCGAAGATCAGAATTCAAT
1 GTTCCACTACATTTTATAATTTCTTGAAACATGATACGCACAAGTGTCGAAGATCACAATTCAAT
** * * *
225662 GATACACCTATTTATAATTACGTAATAGTTTTTATTGCACTTGTCAAAATAAATTCATTGTAGAT
66 GATACACCTATTTATAATTAC-TAATCTTTTTTATTGGACTTGT-GAAAGAAATTCATTGTAGAT
* * * *
225727 GAGGTGAAAATGGACATAAGTTTGGATTTAAAAAATAAATGACAGTATACACTATAATTTACACA
129 GAGGTGAAAATGGAAATAAGTTTGGATTTAAAAAATAGATGATAGTACACACTATAATTTACACA
* * * * * * * *
225792 CTTATTTTTTTAA-TACAAT-TTTATTTTTTAATTGACTAATATATTTGTTTCTTAAACATTATA
194 -TTATTTTTTTAATTA-AGTATTTATTTTTAAAATGA-AAAAATAATTGTTTC-TAATCAATATA
225855 AAATCATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAATCAAT
255 AAATCATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAATCAAT
* * * *
225920 TATTTTGACCCTCCAAATATATCAATTTAACTATCTATCAATAAGGTCGTAGTAGTATAGTGGTA
320 AATTTTGACCCTCCACATTTATCAATTT-ACTATCTATCAATAAGGTCGTTGTAGTATAGTGGTA
* * * ** **
225985 AGTATTCCCACTTGTCACACGGGTGACCTTGGTTTGATCCCCGGCAATGGTGTCAGACTTTAGGT
384 AGTATTCCCACTT-TCACACGAGTGACCTAGGTTTGATCCACGAAAATGGCATCAGACTTTA-GT
** ** * *
226050 TTT-CCTCA-TTTTCCATTGAAATAAAAAGCGCTAAAAACGATTGAAAATAACTAGCATCGCCCA
447 TTTGAAT-ATTTTTCCATCAAAATAAAAAGCGATAAAAACAATTGAAAATAACTAGCATCGCCCA
*
226113 GACTCAAACATGAGACCTGT-TG-
511 GACTCAAACAGGAGACCT-TATGT
* *
226135 GTTCCATTACTTTTTATAATTTCTTTGAAACATGATACGCACAAGTGTCGAAGATCACAATTCAA
1 GTTCCACTACATTTTATAATTTC-TTGAAACATGATACGCACAAGTGTCGAAGATCACAATTCAA
* *
226200 TGAGA-AGCGC-ATTTATAATTACATAATCTTTTTTATTGGACTTGTGAAAGAAATTAATTGTAG
65 TGATACA-C-CTATTTATAATTAC-TAATCTTTTTTATTGGACTTGTGAAAGAAATTCATTGTAG
* *
226263 ATGAGGTGAAAATGGAAATAAGTTTGGATTTAAAAAATAGATTATAGTACACACTACAATTTACA
127 ATGAGGTGAAAATGGAAATAAGTTTGGATTTAAAAAATAGATGATAGTACACACTATAATTTACA
* * *
226328 CATTTATTTTTTTAATTAAGTATTTATTTTTGAAATGAAGAAAATACTTGTTTCATAATCAGTAT
192 CA-TTATTTTTTTAATTAAGTATTTATTTTTAAAATGAA-AAAATAATTGTTTC-TAATCAATAT
* * *
226393 -AAATCATTTTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAACAATTCAA
254 AAAATCATATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAATCAA
* * * * *
226457 TAATTTTAACCCTCCACATTTATCAGTTTAGCTATCTATCAATAAGTTCATTGTAGTATAATGGT
319 TAATTTTGACCCTCCACATTTATCAATTTA-CTATCTATCAATAAGGTCGTTGTAGTATAGTGGT
* ** *
226522 AAGTATTCCAACTTATCACGTGAGAT-ACCTAGGATTGATCC
383 AAGTATTCCCACTT-TCACACGAG-TGACCTAGGTTTGATCC
226563 TTTTACAGAG
Statistics
Matches: 782, Mismatches: 127, Indels: 81
0.79 0.13 0.08
Matches are distributed among these distances:
515 3 0.00
516 32 0.04
517 1 0.00
518 18 0.02
519 73 0.09
520 3 0.00
521 4 0.01
522 43 0.05
523 38 0.05
524 11 0.01
525 34 0.04
526 8 0.01
527 8 0.01
528 10 0.01
529 145 0.19
530 8 0.01
534 4 0.01
535 1 0.00
536 3 0.00
537 4 0.01
538 238 0.30
539 92 0.12
540 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (533 bp):
GTTCCACTACATTTTATAATTTCTTGAAACATGATACGCACAAGTGTCGAAGATCACAATTCAAT
GATACACCTATTTATAATTACTAATCTTTTTTATTGGACTTGTGAAAGAAATTCATTGTAGATGA
GGTGAAAATGGAAATAAGTTTGGATTTAAAAAATAGATGATAGTACACACTATAATTTACACATT
ATTTTTTTAATTAAGTATTTATTTTTAAAATGAAAAAATAATTGTTTCTAATCAATATAAAATCA
TATTTAACCCTTAATTTGTACATATTTTATTATATCATCTTAATTTAAAATAAATCAATAATTTT
GACCCTCCACATTTATCAATTTACTATCTATCAATAAGGTCGTTGTAGTATAGTGGTAAGTATTC
CCACTTTCACACGAGTGACCTAGGTTTGATCCACGAAAATGGCATCAGACTTTAGTTTTGAATAT
TTTTCCATCAAAATAAAAAGCGATAAAAACAATTGAAAATAACTAGCATCGCCCAGACTCAAACA
GGAGACCTTATGT
Found at i:228662 original size:26 final size:27
Alignment explanation
Indices: 228603--228654 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
228593 ATTTAGGTTA
*
228603 GGTAAAATTACAAAAATACTCTTCTGG
1 GGTAAAATTACAAAAATACTCTTATGG
228630 GGTAAAATTA-AAAAATA-TACTTATG
1 GGTAAAATTACAAAAATACT-CTTATG
228655 TTGTAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 12 0.52
27 10 0.43
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (27 bp):
GGTAAAATTACAAAAATACTCTTATGG
Found at i:229803 original size:31 final size:33
Alignment explanation
Indices: 229765--229841 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
229755 TAAGTCGACC
***
229765 CTTGGGTAGGCTCTAC-TA-CCCCGAGGTTTTT
1 CTTGGGTAGGCTCTACGTAGCCCCGAGAACTTT
* *
229796 CTTGGGTAGGC-CTCCGTAGCCCTGAGAACTTT
1 CTTGGGTAGGCTCTACGTAGCCCCGAGAACTTT
229828 CTTGGGTAGGCTCT
1 CTTGGGTAGGCTCT
229842 CAGGCCCCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
30 3 0.08
31 13 0.34
32 20 0.53
33 2 0.05
ACGTcount: A:0.13, C:0.26, G:0.29, T:0.32
Consensus pattern (33 bp):
CTTGGGTAGGCTCTACGTAGCCCCGAGAACTTT
Found at i:235297 original size:11 final size:11
Alignment explanation
Indices: 235281--235305 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
235271 ATTGTTTCTT
235281 AATCAATATAA
1 AATCAATATAA
235292 AATCAATATAA
1 AATCAATATAA
235303 AAT
1 AAT
235306 AAATTAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
AATCAATATAA
Found at i:236114 original size:14 final size:14
Alignment explanation
Indices: 236095--236122 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
236085 AGATCAAAGG
236095 TCGGCTTCTAAGAT
1 TCGGCTTCTAAGAT
236109 TCGGCTTCTAAGAT
1 TCGGCTTCTAAGAT
236123 GGTCAGTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
TCGGCTTCTAAGAT
Found at i:239888 original size:26 final size:27
Alignment explanation
Indices: 239859--239917 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
239849 TGGCTTCATA
*
239859 TTTTAAT-TAAGTTAT-TTTTTTAAATG
1 TTTTAATGT-AGTTATATATTTTAAATG
*
239885 TTTTAATGTAGTTATGATATTTTAATTG
1 TTTTAATGTAGTTAT-ATATTTTAAATG
239913 TTTTA
1 TTTTA
239918 TCTCACCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 13 0.46
27 1 0.04
28 14 0.50
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (27 bp):
TTTTAATGTAGTTATATATTTTAAATG
Found at i:242437 original size:45 final size:45
Alignment explanation
Indices: 242365--242455 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
242355 AACTTATCTC
* * *
242365 ACTATGTTGGAGGTATTACTATCATTACCCAACTTATTTACTAAA
1 ACTATGTTGGAGCTATTACCATAATTACCCAACTTATTTACTAAA
* *
242410 ACTATGTTGGAGCTATTACCATAATTACCCAATTTATTTCCTAAA
1 ACTATGTTGGAGCTATTACCATAATTACCCAACTTATTTACTAAA
242455 A
1 A
242456 ACTTCCCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (45 bp):
ACTATGTTGGAGCTATTACCATAATTACCCAACTTATTTACTAAA
Found at i:243566 original size:114 final size:113
Alignment explanation
Indices: 243366--243597 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 113
243356 ATCCATAAGG
*
243366 ATTATATAAGTCCCTATTATTTAAACCAAATTTCTTTCATACCATATTCGTAAACATTCTTAGTA
1 ATTATATAAGTCCCTATTATTTAAACCAAATTTCCTTCATACCATATTCGTAAACATTCTTAGTA
* * * *
243431 TGTGCAACATACCTTTCTTTCTTTACATTTTC-CCCCTTATTCTTTAGTA
66 TATCCAACATACATTTCTTTCTATACA--TTCACCCCTTATTCTTTAGTA
* *
243480 ATTATATAAGTCCCTATTATTTAAACCAAATTTCCTTCATACTATCTTCGTAAACATTCTTAGTA
1 ATTATATAAGTCCCTATTATTTAAACCAAATTTCCTTCATACCATATTCGTAAACATTCTTAGTA
*
243545 TATCCAACATACATTTCTTTCTATACATTCACCCTTTATTCTTTAGTA
66 TATCCAACATACATTTCTTTCTATACATTCACCCCTTATTCTTTAGTA
243593 ATTAT
1 ATTAT
243598 TCATTGATTT
Statistics
Matches: 109, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
112 3 0.03
113 21 0.19
114 85 0.78
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (113 bp):
ATTATATAAGTCCCTATTATTTAAACCAAATTTCCTTCATACCATATTCGTAAACATTCTTAGTA
TATCCAACATACATTTCTTTCTATACATTCACCCCTTATTCTTTAGTA
Found at i:243661 original size:46 final size:45
Alignment explanation
Indices: 243604--243706 Score: 127
Period size: 46 Copynumber: 2.3 Consensus size: 45
243594 TTATTCATTG
* * *
243604 ATTTCTTTTATGGCATCATT-TCATGTCTTTAATGCACCATTATGC
1 ATTTCATTTATGGCATC-TTCCCATGCCTTTAATGCACCATTATGC
* * *
243649 ATTTTCATTTATGGTATCTTCCCATGCCTTTTATGCACCATTATGT
1 A-TTTCATTTATGGCATCTTCCCATGCCTTTAATGCACCATTATGC
243695 ATTTCATTTATG
1 ATTTCATTTATG
243707 TCAAATTGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 14 0.28
46 36 0.72
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (45 bp):
ATTTCATTTATGGCATCTTCCCATGCCTTTAATGCACCATTATGC
Found at i:243873 original size:81 final size:81
Alignment explanation
Indices: 243734--244706 Score: 1287
Period size: 81 Copynumber: 12.1 Consensus size: 81
243724 TCATTTATTA
* ** * * * * *
243734 TTTTAC-CTAAAGGTATTTAACCTTTCATAAAACAT-ACATAATAGACACCTTTGTGCCAAAGGA
1 TTTTACTC-AAAGGCATTTAACCTTTCATCTAAC-TGGCATAATTGACACCTTTCTGCCAAATGC
* *
243797 ACAACTAGGCAATTAATC
64 ACAGCTAGGCCATTAATC
* * * * *
243815 TTTTACTCATAGGCATTTAACCTTTCATCTAATTGACATAATTGACACCTTTCAGCCAATTGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
243880 AGCTAGGCCATTAATA
66 AGCTAGGCCATTAATC
* * * * *
243896 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCCATAATTCACTCCTTTCTGCCAATTGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
243961 AGCTAGGCCATTAATC
66 AGCTAGGCCATTAATC
* * *
243977 TTTTACTCAAAGGCATTTAACCATTCATCTAACTAGCATAATTGACACTTTTCTGCCAAATGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
244042 AGCTAGGCTATTAA-C
66 AGCTAGGCCATTAATC
* * *
244057 TTTTACTCAAAGGCATTTAACCTTTCATATAACTGGCATAATTGATACCTTTCTGCCAATTGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
** * *
244122 AAATAGACCATTAATA
66 AGCTAGGCCATTAATC
* * * ****
244138 TTTTACTCAAAGGCATTTAACCTTTCATTTAATTGGCAAAATTGACACCTTTCTGCCAAATATTT
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* *
244203 AGTTTGGCCATTAATC
66 AGCTAGGCCATTAATC
244219 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
244284 AGCTAGGCCATTAATC
66 AGCTAGGCCATTAATC
* * *
244300 TTTTACTCAAAGGCATTTAACTTTTCATCTAACTAGCATAATTGACACCTTTCTACCAAATGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
244365 AGCTAGACCATTAATC
66 AGCTAGGCCATTAATC
**
244381 -TTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
244445 AACTAGGCCATTAATC
66 AGCTAGGCCATTAATC
* * * * *
244461 TTTTA--CAAATGCATTTAACCTTT-TTCTAACTGGCATAATTGATAACTTTCTACCAAATGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* * *
244523 AGCTACGCCATTATTA
66 AGCTAGGCCATTAATC
* * *
244539 TTTTACTCAAAGGCATTTCACCTTTCATCTAACTGGCATAATTGATACCTTTCTTCCAAATGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* *
244604 AACTAGGTCATTAATC
66 AGCTAGGCCATTAATC
* *
244620 TTTTACTCAAAGG-ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCGGCCAAATGGAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* *
244684 AACTAGGCCATTAGTC
66 AGCTAGGCCATTAATC
244700 TTTTACT
1 TTTTACT
244707 TTAGAATAGT
Statistics
Matches: 785, Mismatches: 100, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
78 52 0.07
79 17 0.02
80 229 0.29
81 486 0.62
82 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (81 bp):
TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
AGCTAGGCCATTAATC
Found at i:244239 original size:242 final size:242
Alignment explanation
Indices: 243734--244705 Score: 1281
Period size: 242 Copynumber: 4.0 Consensus size: 242
243724 TCATTTATTA
* ** * * * *
243734 TTTTACCTAAAGGTATTTAACCTTTCATAAAACATA-CATAATAGACACCTTTGTGCCAAAGGAA
1 TTTTACC-AAAGGCATTTAACCTTTCATCTAAC-TAGCATAATTGACACCTTTCTGCCAAATGCA
* * * * *
243798 CAACTAGGCAATTAATCTTTTACTCATAGGCATTTAACCTTTCATCTAATTGACATAATTGACAC
64 CAGCTAGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACAC
* * * * *
243863 CTTTCAGCCAATTGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAA
129 CTTTCTGCCAAATGCACAACTAGACCATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTAA
* * * *
243928 CTGCCATAATTCACTCCTTTCTGCCAATTGCACAGCTAGGCCATTAATC
194 CTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATC
* *
243977 TTTTACTCAAAGGCATTTAACCATTCATCTAACTAGCATAATTGACACTTTTCTGCCAAATGCAC
1 TTTTAC-CAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCAC
* * *
244042 AGCTAGGCTATTAA-CTTTTACTCAAAGGCATTTAACCTTTCATATAACTGGCATAATTGATACC
65 AGCTAGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACC
* * * *
244106 TTTCTGCCAATTGCACAAATAGACCATTAATATTTTACTCAAAGGCATTTAACCTTTCATTTAAT
130 TTTCTGCCAAATGCACAACTAGACCATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTAAC
* **** * *
244171 TGGCAAAATTGACACCTTTCTGCCAAATATTTAGTTTGGCCATTAATC
195 TGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATC
*
244219 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
1 TTTTAC-CAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCAC
* *
244284 AGCTAGGCCATTAATCTTTTACTCAAAGGCATTTAACTTTTCATCTAACTAGCATAATTGACACC
65 AGCTAGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACC
* * *
244349 TTTCTACCAAATGCACAGCTAGACCATTAAT-CTTTACTCAAAGGCATTTAACCTTTCATCTAAC
130 TTTCTGCCAAATGCACAACTAGACCATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTAAC
** *
244413 TGGCATAATTGACACCTTTCTATCAAATGCACAACTAGGCCATTAATC
195 TGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATC
* * * * * *
244461 TTTTA-CAAATGCATTTAACCTTT-TTCTAACTGGCATAATTGATAACTTTCTACCAAATGCACA
1 TTTTACCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACA
* * * * *
244524 GCTACGCCATTATTATTTTACTCAAAGGCATTTCACCTTTCATCTAACTGGCATAATTGATACCT
66 GCTAGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCT
* ** *
244589 TTCTTCCAAATGCACAACTAGGTCATTAATCTTTTACTCAAAGG-ATTTAACCTTTCATCTAACT
131 TTCTGCCAAATGCACAACTAGACCATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTAACT
* * * *
244653 GGCATAATTGACACCTTTCGGCCAAATGGACAACTAGGCCATTAGTC
196 GGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATC
244700 TTTTAC
1 TTTTAC
244706 TTTAGAATAG
Statistics
Matches: 643, Mismatches: 81, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
239 187 0.29
240 29 0.05
242 290 0.45
243 136 0.21
244 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (242 bp):
TTTTACCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACA
GCTAGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCT
TTCTGCCAAATGCACAACTAGACCATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTAACT
GGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATC
Found at i:244336 original size:323 final size:323
Alignment explanation
Indices: 243734--244706 Score: 1332
Period size: 323 Copynumber: 3.0 Consensus size: 323
243724 TCATTTATTA
* * * * * * *
243734 TTTTAC-CTAAAGGTATTTAACCTTTCATAAAACAT-ACATAATAGACACCTTTGTGCCAAAGGA
1 TTTTACTC-AAAGGCATTTAACCTTTCATATAAC-TGGCATAATTGACACCTTTCTGCCAAATGC
* * * *
243797 ACAACTAGGCAATTAATCTTTTACTCATAGGCATTTAACCTTTCATCTAATTGACATAATTGACA
64 ACAACTAGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATTTAATTGGCATAATTGACA
* * *
243862 CCTTTCAGCCAATTGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTA
129 CCTTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTA
* * * *
243927 ACTGCCATAATTCACTCCTTTCTGCCAATTGCACAGCTAGGCCATTAATCTTTTACTCAAAGGCA
194 ACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGCA
* * *
243992 TTTAACCATTCATCTAACTAGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCTATTAAC
259 TTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAAC
* *
244057 TTTTACTCAAAGGCATTTAACCTTTCATATAACTGGCATAATTGATACCTTTCTGCCAATTGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATATAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* * * *
244122 AAATAGACCATTAATATTTTACTCAAAGGCATTTAACCTTTCATTTAATTGGCAAAATTGACACC
66 AACTAGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATTTAATTGGCATAATTGACACC
**** * * *
244187 TTTCTGCCAAATATTTAGTTTGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAAC
131 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTAAC
244252 TGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGCATT
196 TGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGCATT
* * *
244317 TAACTTTTCATCTAACTAGCATAATTGACACCTTTCTACCAAATGCACAGCTAGACCATTAA-
261 TAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAAC
* **
244379 TCTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCA
1 T-TTTACTCAAAGGCATTTAACCTTTCATATAACTGGCATAATTGACACCTTTCTGCCAAATGCA
* * *
244444 CAACTAGGCCATTAATCTTTTA--CAAATGCATTTAACCTTT--TTCTAACTGGCATAATTGATA
65 CAACTAGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATT-TAATTGGCATAATTGACA
* * * * *
244505 ACTTTCTACCAAATGCACAGCTACGCCATTATTATTTTACTCAAAGGCATTTCACCTTTCATCTA
129 CCTTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTA
* * * *
244570 ACTGGCATAATTGATACCTTTCTTCCAAATGCACAACTAGGTCATTAATCTTTTACTCAAAGG-A
194 ACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGCA
* * * * *
244634 TTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCGGCCAAATGGACAACTAGGCCATTAGT
259 TTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTA-A
244699 C
323 C
244700 TTTTACT
1 TTTTACT
244707 TTAGAATAGT
Statistics
Matches: 571, Mismatches: 73, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
319 59 0.10
320 133 0.23
321 18 0.03
322 2 0.00
323 358 0.63
324 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (323 bp):
TTTTACTCAAAGGCATTTAACCTTTCATATAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
AACTAGGCCATTAATCTTTTACTCAAAGGCATTTAACCTTTCATTTAATTGGCATAATTGACACC
TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTAAC
TGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGCATT
TAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAAC
Found at i:247346 original size:2 final size:2
Alignment explanation
Indices: 247339--247412 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
247329 CTATAAAAGT
247339 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
247381 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
247413 CATCTTTCTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:249828 original size:114 final size:114
Alignment explanation
Indices: 249627--249860 Score: 353
Period size: 114 Copynumber: 2.1 Consensus size: 114
249617 AACCCATACG
* *
249627 AATTATATAAATCCCTATTATTAAAACCAAAATTATTTCATAATATCTTCGTAAACATTCTTAGT
1 AATTATATAAATCCATATTATTAAAACCAAAATTATTTCATAATATATTCGTAAACATTCTTAGT
* *
249692 ATGTCCAACATACCATTTTTTCTGTACATCTTCCCCCCTATTCTTTAGT
66 ATGTCCAACATACCATTTTTTCTATACATCTTCCCCCCTATTCATTAGT
* * * * *
249741 AATTATATAAGTCCATATTATTTAAACCAAAATTCTTTCGTACTATATTCGTAAACATTCTTAGT
1 AATTATATAAATCCATATTATTAAAACCAAAATTATTTCATAATATATTCGTAAACATTCTTAGT
* *
249806 ATGTCCAACATACC-TTTCTTTCTATACATTTTCCCCCTTATTCATTAGT
66 ATGTCCAACATACCATTT-TTTCTATACATCTTCCCCCCTATTCATTAGT
249855 AATTAT
1 AATTAT
249861 TCATTAATTT
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
113 3 0.03
114 105 0.97
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (114 bp):
AATTATATAAATCCATATTATTAAAACCAAAATTATTTCATAATATATTCGTAAACATTCTTAGT
ATGTCCAACATACCATTTTTTCTATACATCTTCCCCCCTATTCATTAGT
Found at i:249948 original size:46 final size:46
Alignment explanation
Indices: 249868--249969 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 46
249858 TATTCATTAA
*
249868 TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCATGATGCAT
1 TTTCATTTATGACATCCTCTCATGCCTTTAATGCACCATGATGCAT
* * *
249914 TTTCATTTATGGCATCCTCTCATTCCATTT-ATGCACCATTATGCAT
1 TTTCATTTATGACATCCTCTCATGCC-TTTAATGCACCATGATGCAT
249960 TTT-ATTTATG
1 TTTCATTTATG
249970 TCAAATTGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
45 7 0.14
46 41 0.80
47 3 0.06
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (46 bp):
TTTCATTTATGACATCCTCTCATGCCTTTAATGCACCATGATGCAT
Found at i:249966 original size:23 final size:23
Alignment explanation
Indices: 249898--249969 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
249888 CATGCCTTTA
*
249898 ATGCACCATGATGCATTTTCATTT
1 ATGCACCATTATGCATTTT-ATTT
* **
249922 ATGGCATCC--TCT-CATTCCATTT
1 AT-GCA-CCATTATGCATTTTATTT
249944 ATGCACCATTATGCATTTTATTT
1 ATGCACCATTATGCATTTTATTT
249967 ATG
1 ATG
249970 TCAAATTGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 11
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.06
21 3 0.08
22 8 0.22
23 15 0.42
24 3 0.08
25 3 0.08
26 2 0.06
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (23 bp):
ATGCACCATTATGCATTTTATTT
Found at i:250096 original size:81 final size:81
Alignment explanation
Indices: 249995--250894 Score: 1210
Period size: 81 Copynumber: 11.1 Consensus size: 81
249985 AATCATTTTG
* * * *** *
249995 TCTTTTACCCAAAGGTATTTAACCTTTCATTTAACTAAAATAATTGACACCTTTCTACCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
250060 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
** * * **
250076 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGATATAATTGACACTTTTCTGCCAATTAT
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
250141 AGAGCTAGACCATTAA
66 ACAGCTAGGCCATTAA
* * *
250157 TCTTTTACTCAAAGGCATTTAACCTTTAATCTATCTGGCATAATTGACACCTTTCTGCCAATTGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
250222 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
250238 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAATTGGCATAACTGACACCTTTCTACCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
250303 ACAACTAGTCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
250319 TATTTTAGTCAAAGGCATTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
250384 ACAGCTAGGACATTAA
66 ACAGCTAGGCCATTAA
** * * * * * *
250400 TCTTTTACTCAAAGAAATTTAACCTTTCATTTAACTGGCATAATTAACACTTTTTTTCTAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
250465 ACAACTATGCCATTAA
66 ACAGCTAGGCCATTAA
* * * * *
250481 TCTTTTACTCAAAGGCATTTAACATTTCATCTAAATGACATAATTGACACCTTTCTACCAAATAC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
250546 ACAGCTAGGACATTAA
66 ACAGCTAGGCCATTAA
* ** * * * * *
250562 TCTTTTACTCAAAGGCATTTATCCTTTCATCTAACTAACATAGTCGACATCTTTTTGCCAATTGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
250627 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
250643 TATTTTACTCAAAGGCATTTAACATTTCATCTAACTGACATAATTGACACCTTTTTGCCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
250708 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
*
250724 TGC-TTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGATACCTTTCTGCCAAATG
1 T-CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
*
250788 CACTGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * *
250805 GCTTTTACTCAAAGGCATTTATCCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
250870 ACAGCTAGGCCATT-A
66 ACAGCTAGGCCATTAA
250885 TCCTTTTACT
1 T-CTTTTACT
250895 TTAGAATAAT
Statistics
Matches: 713, Mismatches: 103, Indels: 6
0.87 0.13 0.01
Matches are distributed among these distances:
80 2 0.00
81 711 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
ACAGCTAGGCCATTAA
Found at i:251325 original size:20 final size:20
Alignment explanation
Indices: 251300--251348 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
251290 CAAATGTTAG
251300 TATCGATACCCTTACCAGGA
1 TATCGATACCCTTACCAGGA
*
251320 TATCGATACCCTTACCATGA
1 TATCGATACCCTTACCAGGA
251340 TATCGATAC
1 TATCGATAC
251349 TTCTATACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (20 bp):
TATCGATACCCTTACCAGGA
Found at i:266211 original size:2 final size:2
Alignment explanation
Indices: 266204--266237 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
266194 TGCGTAAATA
266204 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
266238 GTTTTTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:268888 original size:20 final size:22
Alignment explanation
Indices: 268839--268892 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
268829 AATGCAAAAA
*
268839 TGGTATCGGTACCATAGTATGG
1 TGGTATCGATACCATAGTATGG
* *
268861 TAGTATCGATACCATGGTA-GG
1 TGGTATCGATACCATAGTATGG
268882 -GGTATCGATAC
1 TGGTATCGATAC
268893 TGAGGAGCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.36
21 2 0.07
22 16 0.57
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (22 bp):
TGGTATCGATACCATAGTATGG
Found at i:269320 original size:56 final size:56
Alignment explanation
Indices: 269234--269589 Score: 509
Period size: 56 Copynumber: 6.4 Consensus size: 56
269224 GTGCAAAGAT
*
269234 TTAAGAAATTCATACTAAGTCGATGAATTTCCGTATGGGCACTATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAAC
*
269290 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGACACTATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAAC
* *
269346 TTAAGAAATTCATACTAAGTGGATGAATTTCCATATGGGCATTATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAAC
* * *
269402 TTAAGAAATTCATATTGAGTAGATGAATTTCCGTATGGGCACTATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAAC
** * *
269458 TTAAGAAATTTGTACTAAGTGGAAGAATTTTCGTATGGGCACTATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAAC
* * * * * *
269514 TTAAGAAATTCGTAATAAGTGGACGAATTTCTGTAT-GGAACTATATGTGCAAAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTG-TAAAAC
* * *
269570 -TAGGAAATGCATATTAAGTG
1 TTAAGAAATTCATACTAAGTG
269590 TATTCATTTA
Statistics
Matches: 271, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
55 28 0.10
56 243 0.90
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (56 bp):
TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAAC
Found at i:275661 original size:20 final size:20
Alignment explanation
Indices: 275636--275688 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
275626 TAATTCAATC
* *
275636 AGTATCGATACCGAAGGGGG
1 AGTATCGATACCGAAAGGGA
*
275656 AGTATCGATATC-AAAGGGA
1 AGTATCGATACCGAAAGGGA
275675 AGGTATCGATACCG
1 A-GTATCGATACCG
275689 TTCAAAACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (20 bp):
AGTATCGATACCGAAAGGGA
Found at i:275751 original size:19 final size:19
Alignment explanation
Indices: 275708--275751 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
275698 GAATGCAAAA
*
275708 ATGGTATTGATACCATAAT
1 ATGGTATCGATACCATAAT
* * *
275727 AGGGTATCGGTACCATAGT
1 ATGGTATCGATACCATAAT
275746 ATGGTA
1 ATGGTA
275752 GTATCAATAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (19 bp):
ATGGTATCGATACCATAAT
Found at i:275762 original size:22 final size:20
Alignment explanation
Indices: 275717--275780 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 20
275707 AATGGTATTG
* *
275717 ATACCATAATAGG-GTATCG
1 ATACCATAGTAGGAGTATCA
*
275736 GTACCATAGTATGGTAGTATCA
1 ATACCATAGTA-GG-AGTATCA
* *
275758 ATACCATGGTAGGGGTATCA
1 ATACCATAGTAGGAGTATCA
275778 ATA
1 ATA
275781 ATGAGGAGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 9 0.25
20 11 0.31
21 2 0.06
22 14 0.39
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (20 bp):
ATACCATAGTAGGAGTATCA
Found at i:276192 original size:56 final size:56
Alignment explanation
Indices: 276123--276429 Score: 348
Period size: 56 Copynumber: 5.7 Consensus size: 56
276113 GTGCAAAGAT
* *
276123 TTAAGAAATTCATACTAAGTAGATGAATTTCTGTATGGCCACTATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGACGAATTTCTGTATGGCCACTATATGTGTAAAAC
* *
276179 TTAAGAAATTCATACTAAGTGGATGAATTT-TCGTATGGGCACTATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGACGAATTTCT-GTATGGCCACTATATGTGTAAAAC
* * * *
276235 TTAATAAATTCATAATAAGTGGACGAATTTATGTATGGGCACTATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGACGAATTTCTGTATGGCCACTATATGTGTAAAAC
* *
276291 TTAAGAAATTCTTACTAAGTGGATGAA----T-T-T--CC-C-ATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGACGAATTTCTGTATGGCCACTATATGTGTAAAAC
* * * ** *
276337 TTAAGAAATTCGTACTGAGTGAACGAATTTCCATATGGACACTATATGTGTAAAAC
1 TTAAGAAATTCATACTAAGTGGACGAATTTCTGTATGGCCACTATATGTGTAAAAC
* * * *
276393 TTAAGAAATTCGTTCTAAGTGAACAAATTTCTGTATG
1 TTAAGAAATTCATACTAAGTGGACGAATTTCTGTATG
276430 AGCATTATAT
Statistics
Matches: 218, Mismatches: 21, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
46 36 0.17
47 1 0.00
48 1 0.00
50 1 0.00
51 2 0.01
52 2 0.01
54 1 0.00
55 2 0.01
56 171 0.78
57 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (56 bp):
TTAAGAAATTCATACTAAGTGGACGAATTTCTGTATGGCCACTATATGTGTAAAAC
Done.