Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008241.1 Hibiscus syriacus cultivar Beakdansim tig00110889_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: 1355325
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:247 original size:30 final size:29
Alignment explanation
Indices: 182--252 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
172 GTTAACTTCG
* ** *
182 AGTGACCATTTTGTAACAATGATAACGTT
1 AGTGATCATTTTGTAACAACAATAACATT
*
211 AATGATCATTTTGTAACAAACAATAACATT
1 AGTGATCATTTTGTAAC-AACAATAACATT
241 AGTGATCGATTT
1 AGTGATC-ATTT
253 GTGACTTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 15 0.44
30 15 0.44
31 4 0.12
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (29 bp):
AGTGATCATTTTGTAACAACAATAACATT
Found at i:2523 original size:12 final size:12
Alignment explanation
Indices: 2506--2557 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 12
2496 GCCTGGCCTG
2506 AGCCTGTTTAAA
1 AGCCTGTTTAAA
2518 AGCCTGACCTGTTTAAA
1 AGCCTG-----TTTAAA
2535 AGCCTGTTTAAA
1 AGCCTGTTTAAA
2547 AGCCTGTTTAA
1 AGCCTGTTTAA
2558 CAATAAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 23 0.66
17 12 0.34
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (12 bp):
AGCCTGTTTAAA
Found at i:2530 original size:17 final size:18
Alignment explanation
Indices: 2501--2540 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
2491 TTTAGGCCTG
2501 GCCTGAGCCTGTTTAAAA
1 GCCTGAGCCTGTTTAAAA
2519 GCCTGA-CCTGTTTAAAA
1 GCCTGAGCCTGTTTAAAA
2536 GCCTG
1 GCCTG
2541 TTTAAAAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (18 bp):
GCCTGAGCCTGTTTAAAA
Found at i:9065 original size:16 final size:16
Alignment explanation
Indices: 9041--9083 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
9031 TCAAGTCGAG
* *
9041 TCGATCTCAGCAATAC
1 TCGAGCTCAACAATAC
9057 TCGAGCTCAACAATAC
1 TCGAGCTCAACAATAC
9073 TCGAGCTCAAC
1 TCGAGCTCAAC
9084 TCGGCTCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.21
Consensus pattern (16 bp):
TCGAGCTCAACAATAC
Found at i:9966 original size:19 final size:20
Alignment explanation
Indices: 9942--9979 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9932 CAAAATGACC
*
9942 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCTAACAT
9961 CAATTTCAACACTCTAACA
1 CAATTTCAACACTCTAACA
9980 ATAATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:10919 original size:29 final size:30
Alignment explanation
Indices: 10864--10920 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
10854 CCCTAAAATT
* * *
10864 TTTCAAAACTTTATACTTTAGTTACTAAAC
1 TTTCAAAACTTTACACTATAGTCACTAAAC
*
10894 TTTCAAAA-TTTACACTATGGTCACTAA
1 TTTCAAAACTTTACACTATAGTCACTAA
10921 CCAAAATTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 15 0.65
30 8 0.35
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTCAAAACTTTACACTATAGTCACTAAAC
Found at i:14983 original size:5 final size:5
Alignment explanation
Indices: 14973--14998 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14963 TATTATTATT
14973 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
14999 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:17421 original size:23 final size:23
Alignment explanation
Indices: 17381--17441 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
17371 ACATTTTATA
* *
17381 TGGCACTTCAGTGAAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
17404 TGGCACTCCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
17427 TGACACTTCGGTGCA
1 TGGCACTTCGGTGCA
17442 TTTATACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:17449 original size:23 final size:23
Alignment explanation
Indices: 17395--17449 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
17385 ACTTCAGTGA
* *
17395 AATTCTACGTGGCACTCCGGTGC
1 AATTATACGTGACACTCCGGTGC
* *
17418 AATTCTACGTGACACTTCGGTGC
1 AATTATACGTGACACTCCGGTGC
*
17441 ATTTATACG
1 AATTATACG
17450 AGCTGTGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (23 bp):
AATTATACGTGACACTCCGGTGC
Found at i:19767 original size:34 final size:30
Alignment explanation
Indices: 19729--19797 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
19719 TTGATATAAC
19729 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
19763 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
19792 AATTTA
1 AATTTA
19798 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:19808 original size:29 final size:30
Alignment explanation
Indices: 19738--19797 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
19728 CAATTTAAGG
19738 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
19769 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
19798 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:19922 original size:20 final size:20
Alignment explanation
Indices: 19877--19932 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
19867 AGGGTGTCAA
* *
19877 AGTGCATCTATGCATCCCTAC
1 AGTGCATCCATGCA-CCATAC
*
19898 AGTGCATCCATGCACCATGC
1 AGTGCATCCATGCACCATAC
19918 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
19933 TCAAACACCG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (20 bp):
AGTGCATCCATGCACCATAC
Found at i:19996 original size:20 final size:21
Alignment explanation
Indices: 19953--20012 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
19943 AATACAATTA
19953 GTGCATCGATGCATCAAGGTT
1 GTGCATCGATGCATCAAGGTT
*
19974 GTGCATCGATGCATC-ATGTT
1 GTGCATCGATGCATCAAGGTT
* *
19994 GTGCATCCATGCATGAAGG
1 GTGCATCGATGCATCAAGG
20013 CTGCAACGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (21 bp):
GTGCATCGATGCATCAAGGTT
Found at i:20157 original size:20 final size:22
Alignment explanation
Indices: 20119--20158 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
20109 TTTGAGTAAA
20119 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
20141 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
20159 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:20442 original size:32 final size:34
Alignment explanation
Indices: 20375--20442 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
20365 TTGTAAAGGT
* * *
20375 GAAATGTTCTAGCTTATCCCGTGTAAAAGCTAGG
1 GAAAGGTTCTAGCTTAGCCCGTGTAAAAACTAGG
*
20409 GAAAGGTTCTAGTTTAGCCCG-G-AAAAACTAGG
1 GAAAGGTTCTAGCTTAGCCCGTGTAAAAACTAGG
20441 GA
1 GA
20443 GTTGTAAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 11 0.37
33 1 0.03
34 18 0.60
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (34 bp):
GAAAGGTTCTAGCTTAGCCCGTGTAAAAACTAGG
Found at i:21325 original size:19 final size:20
Alignment explanation
Indices: 21301--21348 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
21291 AACGATTTTC
*
21301 TTTTGAAAACAAAAAT-ATA
1 TTTTGAAAACAAAAATGAAA
* *
21320 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
21340 TTTTGAAAA
1 TTTTGAAAA
21349 ATGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:22853 original size:20 final size:20
Alignment explanation
Indices: 22828--22900 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
22818 AATGCAATTA
* *
22828 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCATGCT
22848 GTGCATCGATGCATCATGCT
1 GTGCATCGATGCATCATGCT
* * *
22868 GTGCATCCATACATCATGTT
1 GTGCATCGATGCATCATGCT
*
22888 GTGCATCCATGCA
1 GTGCATCGATGCA
22901 CGAAGGCTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (20 bp):
GTGCATCGATGCATCATGCT
Found at i:23053 original size:20 final size:22
Alignment explanation
Indices: 23015--23054 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
23005 TGAGTAAAAA
23015 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
23037 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
23055 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:25210 original size:16 final size:17
Alignment explanation
Indices: 25178--25210 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25168 AATCATCATC
*
25178 TTATTAAAAATATTAAT
1 TTATTAAAAATAATAAT
25195 TTATTAAAAA-AATAAT
1 TTATTAAAAATAATAAT
25211 GTGTAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTATTAAAAATAATAAT
Found at i:25301 original size:45 final size:46
Alignment explanation
Indices: 25250--25341 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
25240 ATAATCATAA
25250 ATATTTAA-TCTA-TTGATTACCTAATCCAAGTCAGATACTT-TTGAG
1 ATATTTAACT-TATTTGATTACCTAATCCAAGTCAGATA-TTATTGAG
** *
25295 ATATTTAACTTATTTGATTAGTTAATCCAAGTCATATATTATTGAG
1 ATATTTAACTTATTTGATTACCTAATCCAAGTCAGATATTATTGAG
25341 A
1 A
25342 CGAGGTAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.29
46 29 0.71
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (46 bp):
ATATTTAACTTATTTGATTACCTAATCCAAGTCAGATATTATTGAG
Found at i:28877 original size:23 final size:23
Alignment explanation
Indices: 28860--28956 Score: 149
Period size: 23 Copynumber: 4.2 Consensus size: 23
28850 AATAACATAT
*
28860 TAGGTACCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
28883 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
* *
28906 TAGTTAACGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
**
28929 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATGTAA
28952 TAGGT
1 TAGGT
28957 TAATTATTGG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:29337 original size:24 final size:24
Alignment explanation
Indices: 29310--29361 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
29300 AACAACAAAT
29310 ACAATAA-AACAATATTATTTATTA
1 ACAATAATAACAATATTATTT-TTA
* *
29334 ACAA-AATAATATTATTATTTTTA
1 ACAATAATAACAATATTATTTTTA
29357 A-AATA
1 ACAATA
29362 TTAGAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.29
24 15 0.62
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
ACAATAATAACAATATTATTTTTA
Found at i:29456 original size:30 final size:31
Alignment explanation
Indices: 29422--29487 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
29412 CATATCTATA
*
29422 ATTTTA-TAAATAAAAAATTATGAT-TATTAT
1 ATTTTATTAAA-AAAAAATTATGATAAATTAT
* *
29452 ATTTTATTAAAATAAAATTATTATAAATTAT
1 ATTTTATTAAAAAAAAATTATGATAAATTAT
29483 ATTTT
1 ATTTT
29488 TATTTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTTTATTAAAAAAAAATTATGATAAATTAT
Found at i:29723 original size:20 final size:20
Alignment explanation
Indices: 29698--29753 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
29688 GGTAAAGCGC
*
29698 TACCGGTTTTATTATTTTTT
1 TACCGGTTTTGTTATTTTTT
*
29718 TACCGGTATTGTTATTTTTT
1 TACCGGTTTTGTTATTTTTT
29738 TACCGGTTTTGTTATT
1 TACCGGTTTTGTTATT
29754 GTTGGCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.61
Consensus pattern (20 bp):
TACCGGTTTTGTTATTTTTT
Found at i:29887 original size:24 final size:25
Alignment explanation
Indices: 29860--29928 Score: 58
Period size: 24 Copynumber: 2.9 Consensus size: 25
29850 AACATCAAAT
29860 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
* * *
29884 ACAA-AATAGTATTATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
29907 A-AATATTAGAATAAT-TTATTTA
1 ACAATA--AGAATAATATTATTTA
29929 ATATTATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
22 2 0.06
23 7 0.20
24 21 0.60
25 5 0.14
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:29978 original size:28 final size:30
Alignment explanation
Indices: 29947--30040 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
29937 TATGTCAATG
* *
29947 TTATTATTAAAATATTAT-ATCT-TTA-ATT
1 TTATTAATAAAAAATTATGAT-TATTATATT
*
29975 TTATAAATAAAAAATTATGATTATTATATT
1 TTATTAATAAAAAATTATGATTATTATATT
* *
30005 TTATTAA-AATAAAATTATTATAAATTATA-T
1 TTATTAATAA-AAAATTATGAT-TATTATATT
30035 TTATTA
1 TTATTA
30041 TTTATTATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
28 16 0.29
29 7 0.13
30 26 0.47
31 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TTATTAATAAAAAATTATGATTATTATATT
Found at i:30610 original size:198 final size:197
Alignment explanation
Indices: 30147--30805 Score: 840
Period size: 198 Copynumber: 3.3 Consensus size: 197
30137 TGTTACATCA
* * * * * * *
30147 AAACAGATAATTATAATGTAATAAATAAATTTACAATGTAACCAGTATAAATATATCGGTTTTAT
1 AAACCGATAATTACAATGTAATAGATAAATTTACAATGTACCCGGTAGAAATATACCGGTTTTAT
* * * ** * * * *
30212 GAGAGAATAAGTCTACATAATGTATCGACACAAATTTAAATAGTGTCGATACATTTTGTCTAGAA
66 GAGAAAATAGGTCTACATAATGTATCGACAC-ATTTTAGTTTGTGTCGATA-ATTTTTTCCAAAA
**
30277 TGAATGCCAAACGAGGTGCACGCATAAAGTGTCGTTACATTTATTAAAAGTATCGATCCCTAAAA
129 TGAATGCCAAACGAGGTGCACGCATAAAGTGTCGACACATTTATTAAAAGTATCGATCCC-AAAA
*
30342 CATCG
193 AATCG
* * * *
30347 AAAACGATAATTACAATGTAATAGGTAAATTTACAATGTACTCGGTAGAAATATATCGGTTTTAT
1 AAACCGATAATTACAATGTAATAGATAAATTTACAATGTACCCGGTAGAAATATACCGGTTTTAT
*
30412 GAGAAAATAGGTCTACATAATGTATCGACACATTTTATGTTTGTGTCGATATTTTTTTCCAAAAT
66 GAGAAAATAGGTCTACATAATGTATCGACACATTTTA-GTTTGTGTCGATAATTTTTTCCAAAAT
*
30477 GAATGTCC-AACGAGGTGCACACATAAAGTGTCGACACATTTATTAAAAGTATCGATCCCAAAAA
130 GAATG-CCAAACGAGGTGCACGCATAAAGTGTCGACACATTTATTAAAAGTATCGATCCCAAAAA
*
30541 ATCC
194 ATCG
* *
30545 AAACCGATAATTACAATGTAATAGATAAATTTTCAATGTACCCGGTAGAAATATACCAGTTTTAT
1 AAACCGATAATTACAATGTAATAGATAAATTTACAATGTACCCGGTAGAAATATACCGGTTTTAT
* * * *
30610 GAGAAAATAGGTCTACATAATATATCGTCACGTTTTAAGTTTGTGTCGATACTTTTTTCCAAAAT
66 GAGAAAATAGGTCTACATAATGTATCGACACATTTT-AGTTTGTGTCGATAATTTTTTCCAAAAT
* * * *
30675 TAATGCCTAACGAGGTGTACGCATAAAGTGTCGACACATTTA--AAATTGTATCGATCCCAAAAA
130 GAATGCCAAACGAGGTGCACGCATAAAGTGTCGACACATTTATTAAA-AGTATCGATCCCAAAAA
30738 CATCG
194 -ATCG
* * * * *
30743 AAACCGATAATTATAATGTAATAGGTAAATTTGCAATGTTA-CTGGTATAAATATACCGGTTTT
1 AAACCGATAATTACAATGTAATAGATAAATTTACAATG-TACCCGGTAGAAATATACCGGTTTT
30806 GTAACACCCC
Statistics
Matches: 407, Mismatches: 45, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
196 3 0.01
197 18 0.04
198 218 0.54
199 71 0.17
200 97 0.24
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (197 bp):
AAACCGATAATTACAATGTAATAGATAAATTTACAATGTACCCGGTAGAAATATACCGGTTTTAT
GAGAAAATAGGTCTACATAATGTATCGACACATTTTAGTTTGTGTCGATAATTTTTTCCAAAATG
AATGCCAAACGAGGTGCACGCATAAAGTGTCGACACATTTATTAAAAGTATCGATCCCAAAAAAT
CG
Found at i:31577 original size:17 final size:17
Alignment explanation
Indices: 31555--31597 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
31545 GTCACAACCC
31555 GACCCGACCGACCCGTT
1 GACCCGACCGACCCGTT
31572 GACCCGACCGACCCGTT
1 GACCCGACCGACCCGTT
31589 GACCCGACC
1 GACCCGACC
31598 CGTTGATCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (17 bp):
GACCCGACCGACCCGTT
Found at i:31577 original size:22 final size:21
Alignment explanation
Indices: 31551--31599 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 21
31541 ACCGGTCACA
31551 ACCCGACCCGACCGACCCGTT
1 ACCCGACCCGACCGACCCGTT
31572 ----GACCCGACCGACCCGTT
1 ACCCGACCCGACCGACCCGTT
31589 GACCCGACCCG
1 -ACCCGACCCG
31600 TTGATCGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 9
0.72 0.00 0.28
Matches are distributed among these distances:
17 17 0.74
22 6 0.26
ACGTcount: A:0.18, C:0.51, G:0.22, T:0.08
Consensus pattern (21 bp):
ACCCGACCCGACCGACCCGTT
Found at i:31580 original size:13 final size:13
Alignment explanation
Indices: 31579--31603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31569 GTTGACCCGA
31579 CCGACCCGTTGAC
1 CCGACCCGTTGAC
31592 CCGACCCGTTGA
1 CCGACCCGTTGA
31604 TCGTTGACCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.44, G:0.24, T:0.16
Consensus pattern (13 bp):
CCGACCCGTTGAC
Found at i:40391 original size:23 final size:23
Alignment explanation
Indices: 40361--40411 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
40351 CTAGTAATTA
*
40361 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAACGCT
40384 ACCTATTACATTATATAAACGCT
1 ACCTATTACATTATATAAACGCT
40407 ACCTA
1 ACCTA
40412 ATATGTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGCT
Found at i:40432 original size:87 final size:87
Alignment explanation
Indices: 40286--40524 Score: 327
Period size: 87 Copynumber: 2.7 Consensus size: 87
40276 GAATATGTCA
* * * ** *
40286 ATATAAGCACTATCTATTATATTATATAAGTGCTACCTAATATGTTATTGTATTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
*
40351 CTAGTAATTAACCTATTACATT
66 CCAGTAATTAACCTATTACATT
*
40373 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGA-TTGATAATGTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGT-ACTTGATAATATT
**
40437 TCCAGTAATTAACCTATTTTATT
65 TCCAGTAATTAACCTATTACATT
* * * * *
40460 ATATAAACGTTACCTATTACATTATATAAACGCTACCTAATTTATTATTTTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
40525 TCGATTAAAT
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
86 1 0.01
87 133 0.99
88 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
CCAGTAATTAACCTATTACATT
Found at i:40506 original size:23 final size:23
Alignment explanation
Indices: 40448--40507 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
40438 CCAGTAATTA
* *
40448 ACCTATTTTATTATATAAACGTT
1 ACCTAATTTATTATATAAACGCT
*
40471 ACCT-ATTACATTATATAAACGCT
1 ACCTAATT-TATTATATAAACGCT
40494 ACCTAATTTATTAT
1 ACCTAATTTATTAT
40508 TTTACTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 2 0.06
23 26 0.84
24 3 0.10
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (23 bp):
ACCTAATTTATTATATAAACGCT
Found at i:42963 original size:10 final size:10
Alignment explanation
Indices: 42950--42979 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
42940 ATTAAATAAT
42950 TATAAAGTAA
1 TATAAAGTAA
42960 TATAAAGTAA
1 TATAAAGTAA
42970 TATAAAGTAA
1 TATAAAGTAA
42980 CCAAATCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (10 bp):
TATAAAGTAA
Found at i:51422 original size:15 final size:15
Alignment explanation
Indices: 51404--51478 Score: 62
Period size: 15 Copynumber: 4.7 Consensus size: 15
51394 TTTCATTTTT
51404 ATTATTATTATTAAA
1 ATTATTATTATTAAA
51419 ATTATTATTATTAATA
1 ATTATTATTATTAA-A
* *
51435 TTATATATATTATATTATA
1 AT-TAT-TA-T-TATTAAA
51454 ATATATTATTATT-AA
1 AT-TATTATTATTAAA
*
51469 ATAATTATTA
1 ATTATTATTA
51479 CAAAGCCCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
14 7 0.14
15 17 0.34
16 6 0.12
17 4 0.08
18 4 0.08
19 7 0.14
20 5 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTATTATTAAA
Found at i:51425 original size:18 final size:18
Alignment explanation
Indices: 51402--51478 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 18
51392 TTTTTCATTT
51402 TTATTATTATTATTAAAA
1 TTATTATTATTATTAAAA
* **
51420 TTATTATTATTAATATTA
1 TTATTATTATTATTAAAA
*
51438 -TATATATTA-TATTATAA
1 TTAT-TATTATTATTAAAA
51455 -TA-TATTATTATT-AAA
1 TTATTATTATTATTAAAA
*
51470 TAATTATTA
1 TTATTATTA
51479 CAAAGCCCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 7 0.15
16 5 0.10
17 16 0.33
18 20 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTATTATTATTAAAA
Found at i:51478 original size:3 final size:3
Alignment explanation
Indices: 51402--51467 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
51392 TTTTTCATTT
** *
51402 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA ATA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
51447 -TA TTA TAA TATA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA
51468 AATAATTATT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.08
3 42 0.82
4 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:52757 original size:3 final size:3
Alignment explanation
Indices: 52744--52796 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
52734 TTATTTGCAA
* *
52744 TAT TAT T-T TAT TAT TAT TAT TAT TTT TAT T-T CAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
52788 T-T TAT TAT T
1 TAT TAT TAT T
52797 TATATAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 5 0.12
3 34 0.81
4 3 0.07
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:52767 original size:20 final size:20
Alignment explanation
Indices: 52744--52796 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
52734 TTATTTGCAA
52744 TATTATTTTATTATTATTAT
1 TATTATTTTATTATTATTAT
*
52764 TA-T-TTTTATT-TCATTAT
1 TATTATTTTATTATTATTAT
52781 TATTAATTTTATTATT
1 TATT-ATTTTATTATT
52797 TATATAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 1 0.04
20 9 0.33
21 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTATTTTATTATTATTAT
Found at i:52795 original size:23 final size:23
Alignment explanation
Indices: 52744--52797 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
52734 TTATTTGCAA
*
52744 TATTATTTTATTATTATTATTAT
1 TATTATTTCATTATTATTATTAT
*
52767 TTTTATTTCATTATTATTAATT-T
1 TATTATTTCATTATTATT-ATTAT
52790 TATTATTT
1 TATTATTT
52798 ATATAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTATTTCATTATTATTATTAT
Found at i:53101 original size:29 final size:31
Alignment explanation
Indices: 53068--53126 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
53058 ATATTTCTAA
53068 ATAAA-TAA-ATATTTTATTT-ATAAATATAT
1 ATAAATTAATATATTTT-TTTCATAAATATAT
*
53097 ATAAATTAATATATTTTTTTCATAATTATA
1 ATAAATTAATATATTTTTTTCATAAATATA
53127 ATTTTGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 6 0.23
31 15 0.58
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (31 bp):
ATAAATTAATATATTTTTTTCATAAATATAT
Found at i:53644 original size:26 final size:26
Alignment explanation
Indices: 53594--53659 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
53584 TAATTCTTTC
*
53594 TTTTCATAATTTTTATATAATTATTA
1 TTTTCATAATATTTATATAATTATTA
*
53620 TTTTCATAATATTTATAT-GTATATTA
1 TTTTCATAATATTTATATAAT-TATTA
53646 TTTT-ATTAATATTT
1 TTTTCA-TAATATTT
53660 CATTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 2 0.06
26 34 0.94
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTCATAATATTTATATAATTATTA
Found at i:55216 original size:14 final size:14
Alignment explanation
Indices: 55193--55239 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
55183 TGCATTTACA
55193 TTTACATTTGCATT
1 TTTACATTTGCATT
* *
55207 TTTACGTTTG--TA
1 TTTACATTTGCATT
*
55219 TTTACATTTTCATT
1 TTTACATTTGCATT
55233 TTTACAT
1 TTTACAT
55240 AATTACATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
12 9 0.35
14 17 0.65
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTACATTTGCATT
Found at i:55234 original size:6 final size:6
Alignment explanation
Indices: 55174--55207 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
55164 ACATTCACAT
* *
55174 ATTTAC ATTTGC ATTTAC ATTTAC ATTTGC ATTT
1 ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC ATTT
55208 TTACGTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (6 bp):
ATTTAC
Found at i:61858 original size:49 final size:46
Alignment explanation
Indices: 61805--61902 Score: 153
Period size: 49 Copynumber: 2.1 Consensus size: 46
61795 TGAGTCAGAC
61805 ATATCTACATCTACACTCTTCAAAGATGATAGAAT-TCTTTTTAAAGATG
1 ATATCTACATCTACACTCTTCAAAGATGAT----TCTCTTTTTAAAGATG
61854 ATATCTACATCTACACTCTTCAAAGATGATTCTCTTTTTAAAGATG
1 ATATCTACATCTACACTCTTCAAAGATGATTCTCTTTTTAAAGATG
61900 ATA
1 ATA
61903 GATTCTCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
45 1 0.02
46 17 0.35
49 30 0.62
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (46 bp):
ATATCTACATCTACACTCTTCAAAGATGATTCTCTTTTTAAAGATG
Found at i:61908 original size:22 final size:22
Alignment explanation
Indices: 61881--61922 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
61871 CTTCAAAGAT
*
61881 GATTCTCTTTTTAAAGATGATA
1 GATTCTCTTTTCAAAGATGATA
61903 GATTCTCTTTTCAAAGATGA
1 GATTCTCTTTTCAAAGATGA
61923 AAGCTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (22 bp):
GATTCTCTTTTCAAAGATGATA
Found at i:62914 original size:73 final size:73
Alignment explanation
Indices: 62791--63140 Score: 570
Period size: 73 Copynumber: 4.9 Consensus size: 73
62781 GGATGTTTTC
*
62791 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACCAAATTTGTCTCGCTTGAGACAGTTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
62856 CACTCGAA
66 CACTCGAA
* *
62864 ACAAAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGATAGTTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
62929 CACTCG-A
66 CACTCGAA
* *
62936 A-AGAACTTTATCTCACTTGAGATTG---TTCTT-AAAC-AAATTTGTCTCACTTGAGACAGGTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
62995 CACTCGAA
66 CACTCGAA
* *
63003 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCACTTGAGACAGTTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
63068 CACTCGAA
66 CACTCGAA
*
63076 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTCTCGCTTAAGACAGTT
1 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-ATTTGTCTCGCTTGAGACAGTT
63141 ATTTCGAGTT
Statistics
Matches: 257, Mismatches: 12, Indels: 15
0.90 0.04 0.05
Matches are distributed among these distances:
66 28 0.11
67 6 0.02
68 29 0.11
71 28 0.11
72 6 0.02
73 141 0.55
74 19 0.07
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (73 bp):
ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTT
CACTCGAA
Found at i:63037 original size:139 final size:143
Alignment explanation
Indices: 62791--63138 Score: 524
Period size: 139 Copynumber: 2.4 Consensus size: 143
62781 GGATGTTTTC
* *
62791 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACCAAATTTGTCTCGCTTGAGACAGTTT
1 ACAGAACTTTATCTCACTTGAGATTG---TTCTTAAAACCAAATTTGTCTCACTTGAGACAGGTT
*
62856 CACTCGAAACAAAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGA
63 CACTCGAAACAAAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCACTTGA
*
62921 GATAGTTTCACTCG-A
128 GACAGTTTCACTCGAA
62936 A-AGAACTTTATCTCACTTGAGATTGTTCTT-AAA-CAAATTTGTCTCACTTGAGACAGGTTCAC
1 ACAGAACTTTATCTCACTTGAGATTGTTCTTAAAACCAAATTTGTCTCACTTGAGACAGGTTCAC
* *
62998 TCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCACTTGAGAC
66 TCGAAACAAAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCACTTGAGAC
63063 AGTTTCACTCGAA
131 AGTTTCACTCGAA
* * *
63076 ACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTCTCGCTTAAGACAG
1 ACAGAACTTTATCTCACTTGAGATTG---TTCTTAAAACCAA-ATTTGTCTCACTTGAGACAG
63139 TTATTTCGAG
Statistics
Matches: 186, Mismatches: 9, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
139 99 0.53
140 5 0.03
141 29 0.16
144 29 0.16
145 4 0.02
146 2 0.01
147 18 0.10
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (143 bp):
ACAGAACTTTATCTCACTTGAGATTGTTCTTAAAACCAAATTTGTCTCACTTGAGACAGGTTCAC
TCGAAACAAAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCACTTGAGAC
AGTTTCACTCGAA
Found at i:63437 original size:76 final size:76
Alignment explanation
Indices: 63311--63643 Score: 621
Period size: 76 Copynumber: 4.4 Consensus size: 76
63301 TATTTCCCAT
63311 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
63376 GCCTTAGGGTC
66 GCCTTAGGGTC
63387 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
63452 GCCTTAGGGTC
66 GCCTTAGGGTC
*
63463 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
63528 GCCTTAGGGTC
66 GCCTTAGGGTC
*
63539 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
63604 ACCTTAGGGTC
66 GCCTTAGGGTC
* *
63615 ATCTGTAAGCCCTTCAGTGCATGATGTTT
1 ATCTGTAAGTCCTACAGTGCATGATGTTT
63644 TTAGGACCTT
Statistics
Matches: 253, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 253 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (76 bp):
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTAGGGTC
Found at i:63828 original size:5 final size:5
Alignment explanation
Indices: 63810--64430 Score: 811
Period size: 5 Copynumber: 124.0 Consensus size: 5
63800 TATTATTAAA
*
63810 ATTATT ATTTT ATTAT ATTAT ATT-T ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
63860 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTATT ATT-T
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA-T ATTAT
*
63910 ATTATAT ATTAT ATTAT ATTAT ATTAT A-TAT ATTTAT ATTAT A-T-G
1 A-T-TAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT
*
63955 ATTAT ATTAT ATTAT ATTATAT ATTAT ATTAT ATATAT ATTAT ATATTT
1 ATTAT ATTAT ATTAT A-T-TAT ATTAT ATTAT AT-TAT ATTAT AT-TAT
*
64004 ATTAT ATTAT A-TAT ATTAT ATTAT TTATAT ATTAT ATTATAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT ATTAT A-T-TAT ATTAT
*
64051 ATTATT ATATAT ATTAT ATTAT ATTAG A-T-T ATTAT ATTAT ATTAT ATTATAT
1 ATTA-T AT-TAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-T-TAT
64103 ATTAT ATTAT ATT-T ATTAT A-T-T ATTAT ATTAT ATTAT A-TAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
*
64149 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT ATTCT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
64198 ATTAT ATTAT ATTAT ATTAT ATATAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT AT-TAT ATTAT ATTAT ATTAT ATTAT ATTAT
64249 ATTAT ATTAT A-TAT ATATATT ATTAT ATTAT ATTAT A-TAT A-TAT ATTAT
1 ATTAT ATTAT ATTAT AT-TA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
64298 ATT-T ATTAT ATTAT ATTAT ATTTTAT ATTAT A-TAT ATTAT ATT-T A-TAT
1 ATTAT ATTAT ATTAT ATTAT A--TTAT ATTAT ATTAT ATTAT ATTAT ATTAT
64346 ATTATT ATATAT ATTAT ATTAT A-T-T ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTA-T AT-TAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
64396 ATTAT ATTAT ATTAT -TTAT ATTAT ATTATT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA-T ATTAT
64431 TACAAAGCCC
Statistics
Matches: 558, Mismatches: 12, Indels: 91
0.84 0.02 0.14
Matches are distributed among these distances:
3 7 0.01
4 62 0.11
5 405 0.73
6 58 0.10
7 26 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:65803 original size:29 final size:25
Alignment explanation
Indices: 65767--65823 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 25
65757 TGTTTATTCG
65767 TTAAAATCCTATATTTCATAAAT-TATTT
1 TTAAAAT-C-ATATTT--TAAATATATTT
65795 TTAATAATCATATTTTAAATATATTT
1 TTAA-AATCATATTTTAAATATATTT
65821 TTA
1 TTA
65824 TTTTTAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
25 5 0.19
26 8 0.30
27 6 0.22
28 5 0.19
29 3 0.11
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (25 bp):
TTAAAATCATATTTTAAATATATTT
Found at i:66010 original size:28 final size:28
Alignment explanation
Indices: 65978--66034 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
65968 TGATTTCTAA
*
65978 ATAAA-TAA-ATATTTTATTTATAATATAT
1 ATAAATTAATATATTTT-TTCATAAT-TAT
66006 ATAAATTAATATATTTTTTCATAATTAT
1 ATAAATTAATATATTTTTTCATAATTAT
66034 A
1 A
66035 ATTTTGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 9 0.35
29 10 0.38
30 7 0.27
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
ATAAATTAATATATTTTTTCATAATTAT
Found at i:80249 original size:17 final size:16
Alignment explanation
Indices: 80222--80253 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
80212 TAATAATAAT
80222 TATTATTATTAATATA
1 TATTATTATTAATATA
80238 TATTATTTATTAATAT
1 TATTA-TTATTAATAT
80254 TACAAATCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTATTAATATA
Found at i:93043 original size:24 final size:23
Alignment explanation
Indices: 93016--93078 Score: 99
Period size: 24 Copynumber: 2.7 Consensus size: 23
93006 ATTATGCTTG
93016 AAGAAAAAAGAAAAAAAGAAGAAA
1 AAGAAAAAA-AAAAAAAGAAGAAA
*
93040 AAGAGATAAAAAAAAAAGAAGAAA
1 AAGA-AAAAAAAAAAAAGAAGAAA
93064 AAGAAAAAAAAAAAA
1 AAGAAAAAAAAAAAA
93079 GAAAAAGGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 10 0.28
24 22 0.61
25 4 0.11
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (23 bp):
AAGAAAAAAAAAAAAAGAAGAAA
Found at i:93054 original size:22 final size:21
Alignment explanation
Indices: 93021--93085 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 21
93011 GCTTGAAGAA
93021 AAAAGAAAAAAAGAAGAAAAAGAG
1 AAAA-AAAAAAAGAAG-AAAA-AG
93045 ATAAAAAAAAAAGAAGAAAAAG
1 A-AAAAAAAAAAGAAGAAAAAG
93067 -AAAAAAAAAA-AAGAAAAAG
1 AAAAAAAAAAAGAAGAAAAAG
93086 GGGGGTCAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.22
20 10 0.25
22 2 0.05
23 4 0.10
24 12 0.30
25 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAAGAAGAAAAAG
Found at i:93057 original size:15 final size:16
Alignment explanation
Indices: 93016--93084 Score: 69
Period size: 15 Copynumber: 4.5 Consensus size: 16
93006 ATTATGCTTG
93016 AAGAAAAAAGAA-AAA
1 AAGAAAAAAGAAGAAA
93031 AAGAAGAAAA-AGAGATAA
1 AAGAA-AAAAGA-AGA-AA
93049 AA-AAAAAAGAAGAAA
1 AAGAAAAAAGAAGAAA
93064 AAG-AAAAA-AA-AAA
1 AAGAAAAAAGAAGAAA
93077 AAGAAAAA
1 AAGAAAAA
93085 GGGGGGTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.13
14 6 0.13
15 15 0.32
16 12 0.26
17 4 0.09
18 4 0.09
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (16 bp):
AAGAAAAAAGAAGAAA
Found at i:94029 original size:94 final size:94
Alignment explanation
Indices: 93868--94159 Score: 507
Period size: 94 Copynumber: 3.1 Consensus size: 94
93858 ACAAGTGTCG
93868 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
93933 AAAACCAATCATTGAATTTGGAAGATGAA
66 AAAACCAATCATTGAATTTGGAAGATGAA
93962 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
94027 AAAACCAATCATTGAATTTGGAAGATGAA
66 AAAACCAATCATTGAATTTGGAAGATGAA
* *
94056 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-GAA-ACCAC
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
* * *
94119 AGAACCAATCATTGGATATTGAAAGATGAA
66 AAAACCAATCATTGAAT-TTGGAAGATGAA
*
94149 TTTGCTCATAG
1 TGTGCTCATAG
94160 TAGAAATAAG
Statistics
Matches: 191, Mismatches: 6, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
92 18 0.09
93 24 0.13
94 149 0.78
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (94 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
AAAACCAATCATTGAATTTGGAAGATGAA
Found at i:95147 original size:113 final size:113
Alignment explanation
Indices: 94949--96103 Score: 1433
Period size: 113 Copynumber: 10.0 Consensus size: 113
94939 GCAAAGATTT
* * *
94949 AAATCCATCA-TTCAATGGATCAGCATTGCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCACTT-GATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAA
95013 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * *
95062 AAATCCATCACTTAATGGATCAGCTTTTGCAGTTCGAGTTTATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
95127 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
95175 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* *
95240 AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * * ***
95288 GAATTCATCA-TTCGATGGATCAACATTGCCAGAAGGAGATAGATCATCATCAATTTTCAGAGAA
1 AAATCCATCACTT-GATGGATCAGCTTTTCCAG--TTCG--AG-T--TCAT-AA---T--GAGAA
** * *** ** ** * * * ** ***
95352 -AGTTCATAATG-AGAA-GAA-CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
52 GAACTCAT-CTGAAGAAGGAAGAAGAAGTTCATAATG-AGAAGAA-TT--T-GT-TCAACCTTTT
*
95413 GTTC
110 GCTC
95417 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGA
1 -A-----------AATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGA
*
95482 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
54 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * *
95542 AAATCCATCACTTAATGGATCAGCTTTTGCAGTTCTAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
95607 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * *
95655 AAATCCATCACTTGATGAATCGGCTTTTCCCGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
95720 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
95768 AAATCCATCACTTGATGGATCAGCTTTTCCCGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
95833 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* *
95881 AAATCCATCACTTGATGGATCAGCTTTTCCCGTTCGAGTTCATAATGAGAATAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
95946 AAGGAAAAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * **** *
95994 AAATCCATCACTTGATGGATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* ** *
96059 AAGAAAGAA-AAGGTTCATAATGAGAAGAGCTTATTCAACCTTTTG
66 AAGGAAGAAGAA-GTTCATAATGAGAAGAATTTGTTCAACCTTTTG
96104 AATGACTCTA
Statistics
Matches: 909, Mismatches: 93, Indels: 80
0.84 0.09 0.07
Matches are distributed among these distances:
112 4 0.00
113 768 0.84
114 2 0.00
115 1 0.00
117 2 0.00
118 1 0.00
120 4 0.00
121 2 0.00
123 6 0.01
124 12 0.01
125 18 0.02
126 8 0.01
127 2 0.00
128 8 0.01
129 18 0.02
130 11 0.01
131 6 0.01
133 2 0.00
134 4 0.00
136 1 0.00
137 2 0.00
139 1 0.00
141 24 0.03
142 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:96332 original size:3 final size:3
Alignment explanation
Indices: 96326--96385 Score: 84
Period size: 3 Copynumber: 19.3 Consensus size: 3
96316 TTTTTTACCC
*
96326 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
*
96372 ATTT ATT AAT ATT A
1 A-TT ATT ATT ATT A
96386 CAAAGCCCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:99394 original size:14 final size:15
Alignment explanation
Indices: 99364--99401 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
99354 TACTAAAATG
*
99364 ATATTATAATTAAAA
1 ATATTATAATAAAAA
99379 ATATTA-AATAAAAA
1 ATATTATAATAAAAA
*
99393 ATATGATAA
1 ATATTATAA
99402 AATATTCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
ATATTATAATAAAAA
Found at i:100657 original size:24 final size:23
Alignment explanation
Indices: 100638--100684 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
100628 TCATAAGAAT
100638 TATGT-CACAAGAGGAGATAAAA
1 TATGTCCACAAGAGGAGATAAAA
*
100660 TATGTGCCACAAGAGGAGAGAAAA
1 TATGT-CCACAAGAGGAGATAAAA
100684 T
1 T
100685 GTCACAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
24 17 0.77
ACGTcount: A:0.47, C:0.11, G:0.26, T:0.17
Consensus pattern (23 bp):
TATGTCCACAAGAGGAGATAAAA
Found at i:100663 original size:22 final size:21
Alignment explanation
Indices: 100638--100691 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 21
100628 TCATAAGAAT
100638 TATGTCACAAGAGGAGATAAAA
1 TATGTCACAAGAGGAGA-AAAA
*
100660 TATGTGCCACAAGAGGAGAGAAA
1 TATGT--CACAAGAGGAGAAAAA
100683 -ATGTCACAA
1 TATGTCACAA
100692 TGACGTAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 5 0.17
22 9 0.31
23 3 0.10
24 12 0.41
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (21 bp):
TATGTCACAAGAGGAGAAAAA
Found at i:102307 original size:3 final size:3
Alignment explanation
Indices: 102301--102339 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
102291 AAAAGAAATA
* * *
102301 AAC AAC AAC AAC AAC AAT AAT AAT AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
102340 GTATGTGAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.26, G:0.00, T:0.08
Consensus pattern (3 bp):
AAC
Found at i:110257 original size:16 final size:16
Alignment explanation
Indices: 110233--110266 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
110223 TATCGCCGAC
*
110233 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
110249 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
110265 CG
1 CG
110267 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:110782 original size:35 final size:36
Alignment explanation
Indices: 110700--110786 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
110690 TACCAAAATT
* *
110700 TTACCAAACTTTG-AAAAACATTTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAAAACATTTTCCAAAG-AACAG
***
110736 TTACCAAACTTTGAAAAAACATTTTCCAAAG-TTGG
1 TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
110771 TTACCAAACTTTGAAA
1 TTACCAAACTTTGAAA
110787 CTTTTAACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.36
36 13 0.29
37 16 0.36
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (36 bp):
TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
Found at i:112431 original size:24 final size:24
Alignment explanation
Indices: 112394--112450 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
112384 TGTTCGTTTA
*
112394 TTTATATTCATTTACGTTT-ATTCG
1 TTTATGTTCATTTAC-TTTCATTCG
* *
112418 TTTATGTTCGTTTACTTTCGTTCG
1 TTTATGTTCATTTACTTTCATTCG
*
112442 TGTATGTTC
1 TTTATGTTC
112451 TTTCATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTATGTTCATTTACTTTCATTCG
Found at i:112656 original size:24 final size:24
Alignment explanation
Indices: 112567--112658 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 24
112557 TATTTGTTTT
*
112567 GTTCATTTGTTGTTCGTTTACGTTC
1 GTTCATTTG-TGTTCGTTTATGTTC
* ** * *
112592 GTTTA-TTGTGTTAATTTATATTT
1 GTTCATTTGTGTTCGTTTATGTTC
**
112615 GTTTACATCCGT-TT-GTTTATGTTC
1 G-TT-CATTTGTGTTCGTTTATGTTC
112639 GTTCATTTGTGTTCGTTTAT
1 GTTCATTTGTGTTCGTTTAT
112659 CATTTAAATA
Statistics
Matches: 48, Mismatches: 14, Indels: 11
0.66 0.19 0.15
Matches are distributed among these distances:
22 5 0.10
23 15 0.31
24 19 0.40
25 7 0.15
26 2 0.04
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.59
Consensus pattern (24 bp):
GTTCATTTGTGTTCGTTTATGTTC
Found at i:114085 original size:21 final size:21
Alignment explanation
Indices: 114020--114089 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
114010 CCCATATAAG
*
114020 CCCCCATCTCC-TCACCAGCA
1 CCCCCAACTCCATCACCAGCA
** **
114040 CCCCCAACTCCA-CAATATAA
1 CCCCCAACTCCATCACCAGCA
*
114060 GCCCCCACCTCCATCACCAGCA
1 -CCCCCAACTCCATCACCAGCA
114082 CCCCCAAC
1 CCCCCAAC
114090 CAAAGCCCCA
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
20 14 0.39
21 18 0.50
22 4 0.11
ACGTcount: A:0.27, C:0.57, G:0.04, T:0.11
Consensus pattern (21 bp):
CCCCCAACTCCATCACCAGCA
Found at i:114113 original size:54 final size:54
Alignment explanation
Indices: 114055--114176 Score: 183
Period size: 54 Copynumber: 2.3 Consensus size: 54
114045 AACTCCACAA
* * *
114055 TATAAGCCCCCACCTCCAT-CACCAGCACCCCCAACCAAAGCCCCAACCCCCCCG
1 TATAAGCCCCCAACTAC-TGCACCAGCACCACCAACCAAAGCCCCAACCCCCCCG
* *
114109 TATAAGCCCCCAACTACTGCACCAGCACCACCAACCAAAGCTCCAACTCCCCCG
1 TATAAGCCCCCAACTACTGCACCAGCACCACCAACCAAAGCCCCAACCCCCCCG
114163 TATAAGCCCCCAAC
1 TATAAGCCCCCAAC
114177 CAAAGCCCCA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.02
54 61 0.98
ACGTcount: A:0.30, C:0.52, G:0.08, T:0.10
Consensus pattern (54 bp):
TATAAGCCCCCAACTACTGCACCAGCACCACCAACCAAAGCCCCAACCCCCCCG
Found at i:115220 original size:17 final size:15
Alignment explanation
Indices: 115189--115234 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
115179 CTAAAACCTT
115189 AATTTCACATAATTA
1 AATTTCACATAATTA
115204 AATTTCATCATTAATT-
1 AATTTCA-CA-TAATTA
*
115220 AATTT-AAATAATTA
1 AATTTCACATAATTA
115234 A
1 A
115235 GTTAATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 5 0.19
14 2 0.07
15 8 0.30
16 7 0.26
17 5 0.19
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTCACATAATTA
Found at i:124855 original size:35 final size:34
Alignment explanation
Indices: 124816--124929 Score: 106
Period size: 34 Copynumber: 3.3 Consensus size: 34
124806 TGAGTTATAC
124816 AAATATAAAATAATAAAATTGATAAGAAATTTCAT
1 AAATA-AAAATAATAAAATTGATAAGAAATTTCAT
* * * * * ** *
124851 AAATAAAATTATTATAGTTTACTCTG-AGTTAT-AT
1 AAATAAAAATAATAAAATTGA-TAAGAAATT-TCAT
124885 AAATATAAAATAATAAAATTGATAAGAAATTTCAT
1 AAATA-AAAATAATAAAATTGATAAGAAATTTCAT
124920 AAATAAAAAT
1 AAATAAAAAT
124930 TATTTTAGTA
Statistics
Matches: 58, Mismatches: 16, Indels: 11
0.68 0.19 0.13
Matches are distributed among these distances:
34 29 0.50
35 29 0.50
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (34 bp):
AAATAAAAATAATAAAATTGATAAGAAATTTCAT
Found at i:124889 original size:69 final size:70
Alignment explanation
Indices: 124806--124938 Score: 241
Period size: 69 Copynumber: 1.9 Consensus size: 70
124796 AATTGAAATG
124806 TGAGTTATACAAATATAAAATAATAAAATTGATAAGAAATTTCATAAAT-AAAATTATTATAGTT
1 TGAGTTATACAAATATAAAATAATAAAATTGATAAGAAATTTCATAAATAAAAATTATTATAGTT
124870 TACTC
66 TACTC
* *
124875 TGAGTTATATAAATATAAAATAATAAAATTGATAAGAAATTTCATAAATAAAAATTATTTTAGT
1 TGAGTTATACAAATATAAAATAATAAAATTGATAAGAAATTTCATAAATAAAAATTATTATAGT
124939 ATACAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
69 48 0.79
70 13 0.21
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (70 bp):
TGAGTTATACAAATATAAAATAATAAAATTGATAAGAAATTTCATAAATAAAAATTATTATAGTT
TACTC
Found at i:124954 original size:69 final size:69
Alignment explanation
Indices: 124816--124955 Score: 210
Period size: 69 Copynumber: 2.0 Consensus size: 69
124806 TGAGTTATAC
* ** * *
124816 AAATATAAAATAATAAAATTGATAAGAAATTTCATAAATAAAATTATTATAGTTTACTCTGAGTT
1 AAATATAAAATAATAAAATTGATAAGAAATTTCATAAATAAAATTATTATAGTATACAATAAGTA
124881 ATAT
66 ATAT
*
124885 AAATATAAAATAATAAAATTGATAAGAAATTTCATAAATAAAAATTATTTTAGTATACAATAAG-
1 AAATATAAAATAATAAAATTGATAAGAAATTTCATAAAT-AAAATTATTATAGTATACAATAAGT
124949 AATAT
65 AATAT
124954 AA
1 AA
124956 CGTTATTATA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 45 0.70
70 19 0.30
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (69 bp):
AAATATAAAATAATAAAATTGATAAGAAATTTCATAAATAAAATTATTATAGTATACAATAAGTA
ATAT
Found at i:131036 original size:47 final size:49
Alignment explanation
Indices: 130976--131085 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 49
130966 GACAATACGC
* *
130976 ACGAATAAATGCATACTTAG-AAAAG-AAAAAAACAAGAATAGACACAT
1 ACGAATAATTGCATACTTAGAAAAAGAAAAAAAACAAGAACAGACACAT
*
131023 ACGAATAATTGCATACTTAGAAAAAGAAAAAAAAAACAAGAACATACACAT
1 ACGAATAATTGCATACTTAGAAAAAG--AAAAAAAACAAGAACAGACACAT
131074 ACGAATAATTGC
1 ACGAATAATTGC
131086 GGTGATTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
47 19 0.34
48 5 0.09
51 32 0.57
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (49 bp):
ACGAATAATTGCATACTTAGAAAAAGAAAAAAAACAAGAACAGACACAT
Found at i:136048 original size:17 final size:17
Alignment explanation
Indices: 136026--136059 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
136016 TCCATAAATC
*
136026 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
*
136043 CAAAATCAAACATTCCA
1 CAAAATCAAACAATCCA
136060 AAATATTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:138026 original size:21 final size:21
Alignment explanation
Indices: 138000--138039 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
137990 CAGAACCCCA
*
138000 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
138021 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
138040 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:138074 original size:20 final size:21
Alignment explanation
Indices: 138020--138082 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
138010 GATTCCCCTG
138020 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
138044 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
138064 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
138083 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:141879 original size:22 final size:21
Alignment explanation
Indices: 141837--141876 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
141827 GAGTTTGTTT
*
141837 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
141858 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
141877 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:144521 original size:32 final size:32
Alignment explanation
Indices: 144485--144549 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
144475 TTGTTAAATG
* * *
144485 AAAGGAGTTTGTTGTATAAGAGATTGAAGATA
1 AAAGGAGTGTGTTATATAAGAGATTAAAGATA
*
144517 AAAGGAGTGTGTTATGTAAGAGATTAAAGATA
1 AAAGGAGTGTGTTATATAAGAGATTAAAGATA
144549 A
1 A
144550 TGTGCACAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.28, T:0.29
Consensus pattern (32 bp):
AAAGGAGTGTGTTATATAAGAGATTAAAGATA
Found at i:148693 original size:17 final size:18
Alignment explanation
Indices: 148669--148721 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 18
148659 CATCATAAAA
148669 TCTATTTTCCCCTTTTCT
1 TCTATTTTCCCCTTTTCT
*
148687 T-TATTTTCCTCTTTTCT
1 TCTATTTTCCCCTTTTCT
*
148704 TCTA-TTTCCCCTCTTCT
1 TCTATTTTCCCCTTTTCT
148721 T
1 T
148722 ATATCTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 28 0.90
18 3 0.10
ACGTcount: A:0.06, C:0.32, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTATTTTCCCCTTTTCT
Found at i:149922 original size:20 final size:20
Alignment explanation
Indices: 149897--149949 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
149887 GATTTTCCAT
*
149897 AATCGCAACGCGAATATAAA
1 AATCGCAACGCGAACATAAA
*
149917 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAACATAAA
149937 AATCGCAACGCGA
1 AATCGCAACGCGA
149950 TTCTGACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.45, C:0.25, G:0.17, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAACATAAA
Found at i:149980 original size:61 final size:61
Alignment explanation
Indices: 149915--150182 Score: 168
Period size: 61 Copynumber: 4.5 Consensus size: 61
149905 CGCGAATATA
** * **
149915 AAAATCGCAACGCGAACATATAAATCGCAACGCGATTC-TGACTATCGCAACGAGTATCCGT
1 AAAATCGCAACGCGAACACGTAAATCGCAACGCGATACGT-AAAATCGCAACGAGTATCCGT
* * * *
149976 AAAATCGCAATGCGTATC-CGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGT
1 AAAATCGCAACGCG-AACACGTAAATCGCAACG-CGATACGTAAAATCGCAACGAGTATCCGT
* * * *
150038 -AAATCGCAACGAGAATACGTAAATCGCAACGCG----G--AAATCGCAACGAGAATACGT
1 AAAATCGCAACGCGAACACGTAAATCGCAACGCGATACGTAAAATCGCAACGAGTATCCGT
* * ** * * * * *
150092 -AAATCGCAATGCGTATC-CGTAAATCGCAATACGAATACGT-AAATTGCAATGCGAATACGT
1 AAAATCGCAACGCG-AACACGTAAATCGCAACGCG-ATACGTAAAATCGCAACGAGTATCCGT
* *
150152 -AAATCGCAATGCGAATC-TGTAAATCGCAACG
1 AAAATCGCAACGCGAA-CACGTAAATCGCAACG
150183 AGATTCTGAC
Statistics
Matches: 165, Mismatches: 30, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
54 42 0.25
55 1 0.01
56 1 0.01
59 2 0.01
60 44 0.27
61 50 0.30
62 24 0.15
63 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (61 bp):
AAAATCGCAACGCGAACACGTAAATCGCAACGCGATACGTAAAATCGCAACGAGTATCCGT
Found at i:150002 original size:20 final size:20
Alignment explanation
Indices: 149958--150182 Score: 196
Period size: 20 Copynumber: 11.4 Consensus size: 20
149948 GATTCTGACT
* * *
149958 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGAATACGT-AA
* * *
149979 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGAATACGTAA
149999 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGAATACGT-AA
* *
150020 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGAATACGTAA
*
150040 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGAATACGTAA
150060 ATCGCAACGCG-----G-AA
1 ATCGCAACGCGAATACGTAA
*
150074 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGAATACGTAA
* * *
150094 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGAATACGTAA
**
150114 ATCGCAATACGAATACGTAA
1 ATCGCAACGCGAATACGTAA
* *
150134 ATTGCAATGCGAATACGTAA
1 ATCGCAACGCGAATACGTAA
*
150154 ATCGCAATGCGAAT-CTGTAA
1 ATCGCAACGCGAATAC-GTAA
150174 ATCGCAACG
1 ATCGCAACG
150183 AGATTCTGAC
Statistics
Matches: 171, Mismatches: 23, Indels: 21
0.80 0.11 0.10
Matches are distributed among these distances:
14 12 0.07
15 1 0.01
19 2 0.01
20 123 0.72
21 33 0.19
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAATACGTAA
Found at i:150003 original size:41 final size:40
Alignment explanation
Indices: 149958--150180 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
149948 GATTCTGACT
* *
149958 ATCGCAACGAGTATCCGTAAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
* *
149999 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
*
150040 ATCGCAACGAGAATACGTAAATCGCAA--CG----CGGAA
1 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
150074 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
* * * *
150114 ATCGCAA-TACGAATACGTAAATTGCAATGCGAATACGTAA
1 ATCGCAACGA-GAATACGTAAATCGCAATGCGTATCCGTAA
* *
150154 ATCGCAATGCGAAT-CTGTAAATCGCAA
1 ATCGCAACGAGAATAC-GTAAATCGCAA
150181 CGAGATTCTG
Statistics
Matches: 159, Mismatches: 14, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
34 31 0.19
36 2 0.01
38 2 0.01
39 2 0.01
40 68 0.43
41 54 0.34
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
Found at i:150119 original size:74 final size:75
Alignment explanation
Indices: 149997--150140 Score: 229
Period size: 74 Copynumber: 1.9 Consensus size: 75
149987 GCGTATCCGT
149997 AAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGA-GAATACGTAAA
1 AAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAA-GACGAATACGTAAA
150061 TCGCAACGCGG
65 TCGCAACGCGG
* * *
150072 AAATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAAATCGCAATACGAATACGTAAAT
1 AAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAAGACGAATACGTAAAT
*
150136 TGCAA
66 CGCAA
150141 TGCGAATACG
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
73 1 0.02
74 44 0.69
75 19 0.30
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (75 bp):
AAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAAGACGAATACGTAAAT
CGCAACGCGG
Found at i:150190 original size:20 final size:19
Alignment explanation
Indices: 149935--150188 Score: 110
Period size: 20 Copynumber: 12.9 Consensus size: 19
149925 CGCGAACATA
*
149935 TAAATCGCAACGCGATTC-
1 TAAATCGCAACGAGATTCG
* *
149953 TGACTATCGCAACGAGTATCCG
1 T-A-AATCGCAACGAG-ATTCG
* * *
149975 TAAAATCGCAATGCGTATCCG
1 T-AAATCGCAACGAG-ATTCG
* *
149996 TAAATCGCAACGACAATACG
1 TAAATCGCAACGA-GATTCG
* *
150016 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGAG-ATTCG
*
150037 TAAATCGCAACGAGAATACG
1 TAAATCGCAACGAG-ATTCG
150057 TAAATCGCAAC--G---CG
1 TAAATCGCAACGAGATTCG
* *
150071 GAAATCGCAACGAGAATACG
1 TAAATCGCAACGAG-ATTCG
* * *
150091 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGAG-ATTCG
*
150111 TAAATCGCAATACGA-ATACG
1 TAAATCGC-A-ACGAGATTCG
* *
150131 TAAATTGCAATGCGA-ATACG
1 TAAATCGCAA--CGAGATTCG
* * *
150151 TAAATCGCAATGCGAATCTG
1 TAAATCGCAACGAGATTC-G
150171 TAAATCGCAACGAGATTC
1 TAAATCGCAACGAGATTC
150189 TGACTATCGC
Statistics
Matches: 182, Mismatches: 35, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
14 12 0.07
16 1 0.01
18 4 0.02
19 4 0.02
20 121 0.66
21 36 0.20
22 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (19 bp):
TAAATCGCAACGAGATTCG
Found at i:151018 original size:24 final size:24
Alignment explanation
Indices: 150991--151037 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
150981 GTATTCGAAA
150991 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
*
151015 TTTGATCTTGGTCAATACTCGGA
1 TTTGATCTTGGTCAATACCCGGA
151038 TTTTAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:153610 original size:19 final size:19
Alignment explanation
Indices: 153586--153737 Score: 118
Period size: 19 Copynumber: 8.7 Consensus size: 19
153576 GCAACGAGAG
153586 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
153605 AATCGCAA--CG---TGAA
1 AATCGCAATGCGAAATGAA
* *
153619 AATCGCAACGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
*
153639 TATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
153658 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
153672 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* **
153691 AATTGCAA--CG--A-GGG
1 AATCGCAATGCGAAATGAA
153705 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
153724 AATCGCAACGCGAA
1 AATCGCAATGCGAA
153738 TTTAGTTTCG
Statistics
Matches: 103, Mismatches: 14, Indels: 32
0.69 0.09 0.21
Matches are distributed among these distances:
14 30 0.29
15 2 0.02
16 5 0.05
17 7 0.07
18 2 0.02
19 45 0.44
20 12 0.12
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:153610 original size:33 final size:34
Alignment explanation
Indices: 153553--153646 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 34
153543 CTTAATGTCT
* ** *
153553 ATCGCAACGCGGAAATTACTATCGCAACGAGAGA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGAAA
* *
153587 ATCGCAATGC-GAAATGAAAATCGCAACGTGAAA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGAAA
**
153620 ATCGCAACGCGGAAATGACTATCGCAA
1 ATCGCAACGCGGAAATGAAAATCGCAA
153647 TGCGAAATGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 27 0.54
34 23 0.46
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (34 bp):
ATCGCAACGCGGAAATGAAAATCGCAACGAGAAA
Found at i:153620 original size:14 final size:14
Alignment explanation
Indices: 153601--153628 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
153591 CAATGCGAAA
153601 TGAAAATCGCAACG
1 TGAAAATCGCAACG
153615 TGAAAATCGCAACG
1 TGAAAATCGCAACG
153629 CGGAAATGAC
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:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
TGAAAATCGCAACG
Found at i:153635 original size:14 final size:14
Alignment explanation
Indices: 153602--153635 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
153592 AATGCGAAAT
*
153602 GAAAATCGCAACGT
1 GAAAATCGCAACGC
153616 GAAAATCGCAACGC
1 GAAAATCGCAACGC
*
153630 GGAAAT
1 GAAAAT
153636 GACTATCGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGC
Found at i:153644 original size:53 final size:52
Alignment explanation
Indices: 153587--153689 Score: 170
Period size: 53 Copynumber: 2.0 Consensus size: 52
153577 CAACGAGAGA
*
153587 ATCGCAATGCGAAATGAAAATCGCAACGTGAAAATCGCAACGCGGAAATGACT
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAACGC-GAAATGACT
* *
153640 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAACGCGAAATGA
153690 AAATTGCAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 7 0.15
53 40 0.85
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAACGCGAAATGACT
Found at i:153679 original size:33 final size:33
Alignment explanation
Indices: 153640--153733 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
153630 GGAAATGACT
153640 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
153673 ATCGCAATGCGAAATGAAAATTGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
153706 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
153734 CGAATTTAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:153709 original size:86 final size:85
Alignment explanation
Indices: 153546--153737 Score: 258
Period size: 86 Copynumber: 2.2 Consensus size: 85
153536 CAATCATCTT
* * **
153546 AATGTCTATCGCAACGCGGAAATTACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGC
1 AATGACTATCGCAACGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGC
*
153611 AACGTGAAAATCGCAACGCGGA
65 AACGAGAAAATCGCAACGC-GA
* *
153633 AATGACTATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCA
1 AATGACTATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
** *
153698 ACGAGGGAATCGCAATGCGA
66 ACGAGAAAATCGCAACGCGA
**
153718 AATGAAAATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
153738 TTTAGTTTCG
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 19 0.21
86 58 0.63
87 15 0.16
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (85 bp):
AATGACTATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
ACGAGAAAATCGCAACGCGA
Found at i:153768 original size:19 final size:19
Alignment explanation
Indices: 153733--153795 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
153723 AAATCGCAAC
*
153733 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
153752 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* *
153771 GCGATTTTAATTTCGCATT
1 GCGATTTTAGTTTCGCGTT
153790 GCGATT
1 GCGATT
153796 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:153953 original size:14 final size:14
Alignment explanation
Indices: 153934--153970 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
153924 CATCAATTAA
153934 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
153948 ACAAATCATCTTTT
1 ACAAATCAACTTTT
153962 ACAAATCAA
1 ACAAATCAA
153971 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:155389 original size:21 final size:21
Alignment explanation
Indices: 155323--155389 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
155313 GTGAATCGGG
*
155323 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * *
155343 CCTCTTCAACGAT--GACGGTGGC
1 -CTCTTGAACGGTGGGA-GG-GGA
155365 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
155386 CTCT
1 CTCT
155390 CGAGGAATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
19 2 0.06
21 26 0.76
22 4 0.12
23 2 0.06
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:156161 original size:9 final size:9
Alignment explanation
Indices: 156147--156174 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
156137 GATGGCTCTC
156147 GAAGTGGAG
1 GAAGTGGAG
156156 GAAGTGGAG
1 GAAGTGGAG
156165 GAAGTGGAG
1 GAAGTGGAG
156174 G
1 G
156175 CTGCTCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.57, T:0.11
Consensus pattern (9 bp):
GAAGTGGAG
Found at i:157437 original size:20 final size:20
Alignment explanation
Indices: 157412--157512 Score: 127
Period size: 20 Copynumber: 5.2 Consensus size: 20
157402 TTTTGGTTGA
157412 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
157432 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
** *
157451 AAATGACTATCGCAACGCGA-
1 -AATGAAAATCGCAACGAGAG
157471 AATGAAAATCGCAACGAGA-
1 AATGAAAATCGCAACGAGAG
*
157490 AATTAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
157510 AAT
1 AAT
157513 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
19 35 0.49
20 36 0.51
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:157474 original size:19 final size:19
Alignment explanation
Indices: 157410--157536 Score: 147
Period size: 19 Copynumber: 6.8 Consensus size: 19
157400 TCTTTTGGTT
157410 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
157429 GAGAATGAAAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
157450 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGA
157469 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
157488 GAAATTAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
157507 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
157521 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
157537 TGTGATTTTG
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
14 11 0.12
16 1 0.01
17 2 0.02
19 45 0.49
20 30 0.33
21 2 0.02
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:157521 original size:52 final size:57
Alignment explanation
Indices: 157410--157536 Score: 183
Period size: 52 Copynumber: 2.3 Consensus size: 57
157400 TCTTTTGGTT
157410 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGCGGAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAAC-CGGAAATGAC-ATCGCAACGC
* *
157469 GAAATGAAAATCGCAACGAGA-AATTAAAATCGCAA-C-GAGA-GA-ATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACCGGAAATGACATCGCAACGC
157521 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
157537 TGTGATTTTG
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
52 26 0.39
54 2 0.03
55 3 0.05
56 1 0.02
58 13 0.20
59 21 0.32
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (57 bp):
GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACCGGAAATGACATCGCAACGC
Found at i:157572 original size:14 final size:14
Alignment explanation
Indices: 157553--157609 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
157543 TTTGGTTTCG
157553 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
157567 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
157586 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
157600 CGTTGCGATT
1 CGTTGCGATT
157610 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:157585 original size:33 final size:33
Alignment explanation
Indices: 157548--157617 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
157538 GTGATTTTGG
157548 TTTCGCGTTGCGATTATCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTATCTCGTTGCGATTTTCA
*
157581 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTATCTCGTTGCGATTTTCA
157614 TTTC
1 TTTC
157618 TCTCGTTGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTATCTCGTTGCGATTTTCA
Found at i:157620 original size:21 final size:20
Alignment explanation
Indices: 157601--157672 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
157591 CGATTCTCTC
157601 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
157621 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
157642 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
157662 GTTGCGATTTT
1 GTTGCGATTTT
157673 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:158265 original size:20 final size:21
Alignment explanation
Indices: 158235--158445 Score: 253
Period size: 20 Copynumber: 10.4 Consensus size: 21
158225 TTAAAAATCG
*
158235 CGTTACGATTTACGGATACGT
1 CGTTGCGATTTACGGATACGT
158256 -GTTGCGATTTACGGATAC-T
1 CGTTGCGATTTACGGATACGT
158275 CGTTGCGATTTACGGATACG-
1 CGTTGCGATTTACGGATACGT
* *
158295 CGTTGCGATTTTACGTAT-TGT
1 CGTTGCGA-TTTACGGATACGT
158316 CGTTGCGATTTACGGATACG-
1 CGTTGCGATTTACGGATACGT
* * *
158336 CATTGCGATTTACGTATTC-T
1 CGTTGCGATTTACGGATACGT
*
158356 CGTTGCGATTTACAGATACG-
1 CGTTGCGATTTACGGATACGT
* *
158376 CGTTGCGATTTACGTATTC-T
1 CGTTGCGATTTACGGATACGT
158396 CGTTGCGATTTACGGATACG-
1 CGTTGCGATTTACGGATACGT
158416 CGTTGCGATTTTACGGATAC-T
1 CGTTGCGA-TTTACGGATACGT
158437 CGTTGCGAT
1 CGTTGCGAT
158446 AGTCAGAATC
Statistics
Matches: 162, Mismatches: 17, Indels: 23
0.80 0.08 0.11
Matches are distributed among these distances:
19 1 0.01
20 125 0.77
21 36 0.22
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (21 bp):
CGTTGCGATTTACGGATACGT
Found at i:158300 original size:40 final size:40
Alignment explanation
Indices: 158235--158506 Score: 323
Period size: 40 Copynumber: 6.8 Consensus size: 40
158225 TTAAAAATCG
* * * *
158235 CGTTACGATTTACGGATACGTGTTGCGATTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
158275 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
*
158316 CGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
158356 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* *
158396 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
* * ** * *
158437 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGTTCG
1 CGTTGCGAT-TTACGGATA-CGCGTTGCGATTTACGTATTCT
* ** *
158477 CGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACGGATACGCGTTGCGATT
158507 ATGGAAAATC
Statistics
Matches: 203, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.00
40 133 0.66
41 68 0.33
42 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:158375 original size:81 final size:81
Alignment explanation
Indices: 158235--158506 Score: 347
Period size: 81 Copynumber: 3.4 Consensus size: 81
158225 TTAAAAATCG
* * *
158235 CGTTACGATTTACGGATACGTGTTGCGATTTACGGATACTCGTTGCGATTTACGGATACGCGTTG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACTCGTTGCGATTTACAGATACGCGTTG
*
158300 CGATTTTACGTATTGT
66 CGATTTTACGTATTCT
* * *
158316 CGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACTCGTTGCGATTTACAGATACGCGTTG
158381 CGA-TTTACGTATTCT
66 CGATTTTACGTATTCT
*
158396 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-ATCGCG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGGATACTCGTTGCGAT-TTACAGATA-CGCG
* *
158459 TTGCGATTTATA--TGTTCG
63 TTGCGATTT-TACGTATTCT
* ** *
158477 CGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACGGATACGCGTTGCGATT
158507 ATGGAAAATC
Statistics
Matches: 169, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
80 41 0.24
81 123 0.73
82 3 0.02
83 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (81 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACTCGTTGCGATTTACAGATACGCGTTG
CGATTTTACGTATTCT
Found at i:158477 original size:20 final size:20
Alignment explanation
Indices: 158454--158506 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
158444 ATAGTCAGAA
*
158454 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
158474 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
158494 TCGCGTTGCGATT
1 TCGCGTTGCGATT
158507 ATGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:158605 original size:20 final size:19
Alignment explanation
Indices: 158556--158609 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
158546 ATTCTTCATA
158556 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
158575 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
158596 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
158610 TTTATTTCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:165341 original size:20 final size:19
Alignment explanation
Indices: 165318--165362 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
165308 GGAAAATTTT
* *
165318 GAAACTCTTGAGATAGTTTC
1 GAAACTCTTGA-AAAGTATC
165338 GAAACTCTTGAAAAGTATC
1 GAAACTCTTGAAAAGTATC
165357 GAAACT
1 GAAACT
165363 TTTTGGGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
GAAACTCTTGAAAAGTATC
Found at i:165360 original size:19 final size:19
Alignment explanation
Indices: 165288--165362 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
165278 AACGTTTGGG
*
165288 GAAAAGTATCGAAACTTTAT
1 GAAAAGTATCGAAACTCT-T
* *
165308 GGAAAA-TTTTGAAACTCTT
1 -GAAAAGTATCGAAACTCTT
* *
165327 GAGATAGTTTCGAAACTCTT
1 GA-AAAGTATCGAAACTCTT
165347 GAAAAGTATCGAAACT
1 GAAAAGTATCGAAACT
165363 TTTTGGGAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
18 2 0.04
19 15 0.33
20 23 0.51
21 5 0.11
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (19 bp):
GAAAAGTATCGAAACTCTT
Found at i:168808 original size:36 final size:36
Alignment explanation
Indices: 168768--168978 Score: 395
Period size: 36 Copynumber: 5.9 Consensus size: 36
168758 ACGGTGCTGG
* *
168768 ACATTAATACACGAATGTACCAAAGCTGATTTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
168804 ACATTGATACACGAATGTACCAAAGCTGACATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
168840 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
168876 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
168912 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
168948 ACATTGATACACGAATGTACCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
168979 ATGGATAAAT
Statistics
Matches: 171, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 171 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:175324 original size:36 final size:36
Alignment explanation
Indices: 175284--175494 Score: 332
Period size: 36 Copynumber: 5.9 Consensus size: 36
175274 ACAGTGATGG
* *
175284 ACATTGATACACAAATATACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* * *
175320 ACATTGATACATGAATGTACCAAATCTAATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
175356 ACATTGATACACGAATGTACCAAAGCTAATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
175392 ACATTGATACACGAATGTACCAAAGCTTATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
175428 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
** *
175464 ACATTGATACATAAATGTACCAAAGTTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
175495 ATGTATAAAT
Statistics
Matches: 163, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 163 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:176008 original size:12 final size:12
Alignment explanation
Indices: 175991--176016 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
175981 AATTACCCTT
175991 AATAAATCTTAA
1 AATAAATCTTAA
176003 AATAAATCTTAA
1 AATAAATCTTAA
176015 AA
1 AA
176017 ATTATCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAAATCTTAA
Found at i:176414 original size:16 final size:16
Alignment explanation
Indices: 176388--176420 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
176378 TTACAGGCTA
176388 AAAAATATATAACTTTT
1 AAAAATATATAA-TTTT
176405 AAAAAT-TATAATTTT
1 AAAAATATATAATTTT
176420 A
1 A
176421 TGTCCTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAATATATAATTTT
Found at i:178535 original size:45 final size:43
Alignment explanation
Indices: 178481--178589 Score: 105
Period size: 42 Copynumber: 2.5 Consensus size: 43
178471 AAAAACACTT
*
178481 AAAATTATTTAAACTAAAATACCTAAAACAAAGATAAACA-AAAA
1 AAAACTATTTAAACTAAAATACCTAAAACAAA-ATAAA-ATAAAA
* * * * **
178525 AAATACTATTTAAAATAATAT-CCTAAACCTAAATAAAATACTA
1 AAA-ACTATTTAAACTAAAATACCTAAAACAAAATAAAATAAAA
*
178568 AAACCTATTTAAACTAAAATAC
1 AAAACTATTTAAACTAAAATAC
178590 AAAGATAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
42 15 0.29
43 11 0.21
44 12 0.23
45 14 0.27
ACGTcount: A:0.60, C:0.14, G:0.01, T:0.26
Consensus pattern (43 bp):
AAAACTATTTAAACTAAAATACCTAAAACAAAATAAAATAAAA
Found at i:184267 original size:2 final size:2
Alignment explanation
Indices: 184260--184316 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
184250 TTAATTTCTT
184260 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
184302 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
184317 TGTTGCTTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:185833 original size:25 final size:26
Alignment explanation
Indices: 185774--185848 Score: 81
Period size: 25 Copynumber: 3.1 Consensus size: 26
185764 TTAAATACAA
*
185774 TAAATAATATTATTTATCATAAA-ACT
1 TAAATAATATTATTTATTATAAATA-T
*
185800 T-AATATTATTA-TT-TTA-AAATAT
1 TAAATAATATTATTTATTATAAATAT
185822 TAAATAAT-TTATTTATTATAAATAT
1 TAAATAATATTATTTATTATAAATAT
185847 TA
1 TA
185849 TTTTATAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
22 8 0.20
23 10 0.24
24 5 0.12
25 17 0.41
26 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (26 bp):
TAAATAATATTATTTATTATAAATAT
Found at i:185919 original size:31 final size:29
Alignment explanation
Indices: 185815--185981 Score: 75
Period size: 31 Copynumber: 5.8 Consensus size: 29
185805 TTATTATTTT
185815 AAAATATTAAATAATT-TA-TTTATT-AT-
1 AAAATATT-AATAATTATATTTTATTAATA
*
185841 -AAATATT-AT-TTTATAATTTTATTAATA
1 AAAATATTAATAATTAT-ATTTTATTAATA
*
185868 AAAATATTAATATTGGTATATTTTATTGAAATA
1 AAAATATTAATAAT--TATATTTTATT--AATA
* *
185901 AAAATATT-ATAAATTATATTAATTATTTATT
1 AAAATATTAAT-AATTATATT--TTATTAATA
* * * * * *
185932 AAAGTAATAGT-GTTATATTATATT-TTA
1 AAAATATTAATAATTATATTTTATTAATA
* *
185959 AAAATATTAATTAGTATATTTTA
1 AAAATATTAATAATTATATTTTA
185982 AATATCTTTA
Statistics
Matches: 107, Mismatches: 17, Indels: 32
0.69 0.11 0.21
Matches are distributed among these distances:
22 2 0.02
23 3 0.03
24 1 0.01
25 13 0.12
26 2 0.02
27 9 0.08
28 19 0.18
29 2 0.02
30 9 0.08
31 22 0.21
32 6 0.06
33 19 0.18
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (29 bp):
AAAATATTAATAATTATATTTTATTAATA
Found at i:186000 original size:23 final size:23
Alignment explanation
Indices: 185951--186001 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
185941 GTGTTATATT
**
185951 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
185974 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
185997 ATATT
1 ATATT
186002 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Done.