Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004710.1 Hibiscus syriacus cultivar Beakdansim tig00010614_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: 177538
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:5268 original size:38 final size:37
Alignment explanation
Indices: 5201--5486 Score: 188
Period size: 37 Copynumber: 7.9 Consensus size: 37
5191 TTTGATTACC
* *
5201 TTTTGAAAATGTATATAATATATAGTTTTAAAAATATT
1 TTTTGAAAATCTATATAATATATAGTTTTTAAAATA-T
* *
5239 TTTTGAAAA-CTATATAGTATATAGTTTTTAAAACAT
1 TTTTGAAAATCTATATAATATATAGTTTTTAAAATAT
* *
5275 TTTAGAAAATATATATAATATATAGTTTTTAAAATCAT
1 TTTTGAAAATCTATATAATATATAGTTTTTAAAAT-AT
*
5313 TTTTGAAAA-CTTATATAATATATAG-TTTT-GAAT-T
1 TTTTGAAAATC-TATATAATATATAGTTTTTAAAATAT
* * * * * *
5347 TTTTTAAAACACTTAAATATTATATAATTTTTGAAAA-ACA
1 TTTTGAAAA-TC-TATATAATATATAGTTTTT-AAAATA-T
* * ***
5387 TTTT-AAAA-ATATAT-ATATATAATTTTTAAACCGT
1 TTTTGAAAATCTATATAATATATAGTTTTTAAAATAT
* * *
5421 TTCTGAAAA--TATAT--TATAAAG-TTTTAAAACAT
1 TTTTGAAAATCTATATAATATATAGTTTTTAAAATAT
* *
5453 TTTT-AAAAACATGTATAATATATAGTTTTTAAAA
1 TTTTGAAAATC-TATATAATATATAGTTTTTAAAA
5487 GCATTTTGGA
Statistics
Matches: 199, Mismatches: 31, Indels: 37
0.75 0.12 0.14
Matches are distributed among these distances:
31 4 0.02
32 12 0.06
33 5 0.03
34 24 0.12
35 16 0.08
36 35 0.18
37 60 0.30
38 33 0.17
39 6 0.03
40 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTGAAAATCTATATAATATATAGTTTTTAAAATAT
Found at i:5283 original size:74 final size:74
Alignment explanation
Indices: 5201--5506 Score: 255
Period size: 74 Copynumber: 4.2 Consensus size: 74
5191 TTTGATTACC
* *
5201 TTTTGAAAATGTATATAATATATAGTTTTAAAAAT-ATTTTTTGAAAAC-TATATAGTATATAGT
1 TTTTGAAAATATATATAATATATAGTTTTAAAAATCA-TTTTTGAAAACTTATATAATATATAGT
5264 TTTTAAAACA
65 TTTTAAAACA
*
5274 TTTTAGAAAATATATATAATATATAGTTTTTAAAATCATTTTTGAAAACTTATATAATATATAG-
1 TTTT-GAAAATATATATAATATATAGTTTTAAAAATCATTTTTGAAAACTTATATAATATATAGT
* **
5338 TTTT-GAATT
65 TTTTAAAACA
* * * * * *
5347 TTTTTAAAACACTTAAATATTATATAATTTTTGAAAAA-CA-TTTT-AAAA-ATATAT-ATATAT
1 TTTTGAAAATA--TATATAATATAT-AGTTTT-AAAAATCATTTTTGAAAACTTATATAATATAT
* * *
5407 AATTTTTAAACCG
62 AGTTTTTAAAACA
* * *
5420 TTTCTGAAAATATAT-T-ATA-A-AGTTTT-AAAA-CATTTTTAAAAACATGTATAATATATAGT
1 TTT-TGAAAATATATATAATATATAGTTTTAAAAATCATTTTTGAAAACTTATATAATATATAGT
5479 TTTTAAAAGCA
65 TTTTAAAA-CA
* *
5490 TTTTGGAAATTTATATA
1 TTTTGAAAATATATATA
5507 TTACATATTT
Statistics
Matches: 187, Mismatches: 29, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
65 6 0.03
66 4 0.02
67 9 0.05
68 5 0.03
69 25 0.13
70 7 0.04
71 8 0.04
72 16 0.09
73 18 0.10
74 64 0.34
75 21 0.11
76 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (74 bp):
TTTTGAAAATATATATAATATATAGTTTTAAAAATCATTTTTGAAAACTTATATAATATATAGTT
TTTAAAACA
Found at i:5551 original size:3 final size:3
Alignment explanation
Indices: 5543--5589 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
5533 ATATATATAG
*
5543 TAT TAT TAT TAT TAT TAT TAT T-T T-T TAT T-T TATT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
5586 TAT T
1 TAT T
5590 TATGCTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 6 0.15
3 31 0.79
4 2 0.05
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:7805 original size:165 final size:165
Alignment explanation
Indices: 7533--8353 Score: 1349
Period size: 165 Copynumber: 5.0 Consensus size: 165
7523 CTATTTACAA
* * * **
7533 CATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCT
7597 CTAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTT
65 CTAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTT
7662 CGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
130 CGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
7698 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* * * *
7763 CAAGGCACATCATTTGTAGTATAACTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTC
66 TAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
7828 GATTACACTCAGCTTCGAGGGCACATCATTTGCAG
131 GATTACACTCAGCTTCGAGGGCACATCATTTGCAG
*
7863 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* *
7928 CAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACCCCCGAGTTC
66 TAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
7993 GATTACACTCAGCTTCGAGGGCACATCATTTGCAG
131 GATTACACTCAGCTTCGAGGGCACATCATTTGCAG
* *
8028 TAAAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* *
8093 TAAGGCACATCATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAAAGACCCCCGAGTTC
66 TAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
*
8158 GATTACACTCAGCTTCGAGGGCACATCATTTACAG
131 GATTACACTCAGCTTCGAGGGCACATCATTTGCAG
* * * * **
8193 TATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCT
* * *
8257 CTAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGACCCTCGGGTT
65 CTAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTT
* * *
8322 CGATTACACTCAACTTCGAGGTCATATCATTT
130 CGATTACACTCAGCTTCGAGGGCACATCATTT
8354 ACAACATAGC
Statistics
Matches: 619, Mismatches: 35, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
164 3 0.00
165 613 0.99
166 3 0.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
TAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
GATTACACTCAGCTTCGAGGGCACATCATTTGCAG
Found at i:9087 original size:35 final size:34
Alignment explanation
Indices: 9039--9147 Score: 121
Period size: 35 Copynumber: 3.1 Consensus size: 34
9029 TGAAAATGTA
*
9039 TATAATATATAGTTTTAAAAATATTTTTTGAAAAC
1 TATAATATATAGTTTTTAAAATA-TTTTTGAAAAC
* * *
9074 TATAGTATATAGTTTTTAAAACATTTTAGAAAA-
1 TATAATATATAGTTTTTAAAATATTTTTGAAAAC
9107 TATATATAAAATATAGTTTTTAAAATCATTTTTGAAAAC
1 TATA-AT---ATATAGTTTTTAAAAT-ATTTTTGAAAAC
9146 TA
1 TA
9148 ATATAATATA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
33 4 0.07
34 10 0.16
35 20 0.33
37 15 0.25
38 10 0.16
39 2 0.03
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (34 bp):
TATAATATATAGTTTTTAAAATATTTTTGAAAAC
Found at i:9107 original size:72 final size:72
Alignment explanation
Indices: 9014--9147 Score: 209
Period size: 72 Copynumber: 1.9 Consensus size: 72
9004 ATATACATAA
* *
9014 TTTTTGAAAACATTTTGAAAATGTATATAATATATAGTTTTAAAAAT-ATTTTTTGAAAACTATA
1 TTTTTGAAAACATTTTGAAAATATATATAAAATATAGTTTTAAAAATCA-TTTTTGAAAACTATA
9078 GTATATAG
65 GTATATAG
*
9086 TTTTT-AAAACATTTTAGAAAATATATATAAAATATAGTTTTTAAAATCATTTTTGAAAACTA
1 TTTTTGAAAACATTTT-GAAAATATATATAAAATATAGTTTTAAAAATCATTTTTGAAAACTA
9148 ATATAATATA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
71 10 0.18
72 46 0.81
73 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (72 bp):
TTTTTGAAAACATTTTGAAAATATATATAAAATATAGTTTTAAAAATCATTTTTGAAAACTATAG
TATATAG
Found at i:9124 original size:37 final size:37
Alignment explanation
Indices: 8992--9279 Score: 188
Period size: 37 Copynumber: 7.8 Consensus size: 37
8982 ACGGTCTTTT
*
8992 AAAATACT-TATAATATACATAATTTTTGAAAACATTTT-G
1 AAAATA-TATATAATAT--ATAGTTTTT-AAAACATTTTAG
* * * *
9031 AAAATGTATATAATATATAGTTTTAAAAATATTTTTTG
1 AAAATATATATAATATATAGTTTTTAAAACA-TTTTAG
* *
9069 -AAA-A-CTATAGTATATAGTTTTTAAAACATTTTAG
1 AAAATATATATAATATATAGTTTTTAAAACATTTTAG
* *
9103 AAAATATATATAAAATATAGTTTTTAAAATCATTTTTG
1 AAAATATATATAATATATAGTTTTTAAAA-CATTTTAG
* * ***
9141 AAAACTA-ATATAATATATTG-TTTTGAATTTTTTTA-
1 AAAA-TATATATAATATATAGTTTTTAAAACATTTTAG
* * *
9176 AAACACT-TAAATATTATATAATTTTTTAAAAACATTTTA-
1 AAA-A-TATATATAATATAT-AGTTTTT-AAAACATTTTAG
* * *
9215 AAAATATATATAATATATAATTTTTAAACCGTTTCT-G
1 AAAATATATATAATATATAGTTTTTAAAACATTT-TAG
*
9252 AAAATATATAT--TATAAAGTTTTTAAAAC
1 AAAATATATATAATATATAGTTTTTAAAAC
9280 GTTTATATGG
Statistics
Matches: 196, Mismatches: 37, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
34 5 0.03
35 40 0.20
36 29 0.15
37 58 0.30
38 39 0.20
39 25 0.13
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (37 bp):
AAAATATATATAATATATAGTTTTTAAAACATTTTAG
Found at i:9199 original size:29 final size:31
Alignment explanation
Indices: 9166--9228 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
9156 TATTGTTTTG
* *
9166 AATTTTTTTAAAACA-CTTAAATAT-TATAT
1 AATTTTTTAAAAACATCTTAAAAATATATAT
*
9195 AATTTTTTAAAAACATTTTAAAAATATATAT
1 AATTTTTTAAAAACATCTTAAAAATATATAT
9226 AAT
1 AAT
9229 ATATAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 14 0.48
30 7 0.24
31 8 0.28
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (31 bp):
AATTTTTTAAAAACATCTTAAAAATATATAT
Found at i:10575 original size:12 final size:13
Alignment explanation
Indices: 10547--10594 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
10537 CAAAAAGCAT
*
10547 AAATAATAATAAG
1 AAATAATAATAAA
10560 AAATAA-AATAAA
1 AAATAATAATAAA
*
10572 AAATTATAAT-AA
1 AAATAATAATAAA
*
10584 TAATAATAATA
1 AAATAATAATA
10595 CTATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 20 0.69
13 9 0.31
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
AAATAATAATAAA
Found at i:10603 original size:2 final size:2
Alignment explanation
Indices: 10596--10626 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10586 ATAATAATAC
*
10596 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10627 TTTCAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10742 original size:36 final size:36
Alignment explanation
Indices: 10664--10769 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 36
10654 CCAAAATGCT
* * * * *
10664 TTTAAAAACTATATATTATACATGTTTTTAAAAACGT
1 TTTAAAAACTTTATAATATATAT-TTTTCAAAAACGG
*
10701 TTTAAAAACTTTATAATATATATTTTTCAGAAACGG
1 TTTAAAAACTTTATAATATATATTTTTCAAAAACGG
10737 TTTAAAAA-TTATATATTATATATATTTTT-AAAA
1 TTTAAAAACTT-TATA--ATATATATTTTTCAAAA
10770 TGTTTAGCTC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
35 2 0.03
36 22 0.37
37 23 0.39
38 12 0.20
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (36 bp):
TTTAAAAACTTTATAATATATATTTTTCAAAAACGG
Found at i:11022 original size:84 final size:88
Alignment explanation
Indices: 10928--11154 Score: 268
Period size: 95 Copynumber: 2.5 Consensus size: 88
10918 GGCTAGCTAA
* *
10928 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAGC-C-C-A-ATA-TGTAACCAC
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCACTATATAGTATAACCAC
* *
10988 TTTTATCAGGTTAGCTGAAATCTT
66 CTTTATCAGGTTAGCTG-AATATT
11012 ATCCATAAAGCCGGGGCGTTTAACCAATTGC-CTTAGAGGGACAGCTCAAGCTTTATTGTATAGT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTC-TAGAGGGACAGCTC-A-C--TA---TATAGT
*
11076 ATAATCACCTTTATCAGGTTAGCTGAATATT
58 ATAACCACCTTTATCAGGTTAGCTGAATATT
* *
11107 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCA
11155 AGCTTTATTG
Statistics
Matches: 122, Mismatches: 7, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
83 1 0.01
84 42 0.34
85 1 0.01
88 1 0.01
91 1 0.01
94 1 0.01
95 52 0.43
96 23 0.19
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (88 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCACTATATAGTATAACCAC
CTTTATCAGGTTAGCTGAATATT
Found at i:11155 original size:95 final size:95
Alignment explanation
Indices: 10989--11172 Score: 325
Period size: 95 Copynumber: 1.9 Consensus size: 95
10979 TGTAACCACT
*
10989 TTTATCAGGTTAGCTGAAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGAC
1 TTTATCAGGTTAGCTGAAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGAC
*
11054 AGCTCAAGCTTTATTGTATAGTATAATCACC
66 AACTCAAGCTTTATTGTATA-TATAATCACC
*
11085 TTTATCAGGTTAGCTG-AATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGAC
1 TTTATCAGGTTAGCTGAAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGAC
11149 AACTCAAGCTTTATTGTATATATA
66 AACTCAAGCTTTATTGTATATATA
11173 TATAATAGCA
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
94 4 0.05
95 65 0.76
96 16 0.19
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (95 bp):
TTTATCAGGTTAGCTGAAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGAC
AACTCAAGCTTTATTGTATATATAATCACC
Found at i:14862 original size:3 final size:3
Alignment explanation
Indices: 14856--14899 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
14846 TATATAGTAG
*
14856 TAT TAT TAT TAT TAT TAT TATT TAT T-T TATT TCT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TAT TAT T
14900 TATGCTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 29 0.81
4 5 0.14
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:16195 original size:587 final size:586
Alignment explanation
Indices: 15084--16257 Score: 2294
Period size: 587 Copynumber: 2.0 Consensus size: 586
15074 ACCGGCCGGC
*
15084 CGGGAAAATCGGGACTGCACCATCCCGAGAATCCCGGCCACGTGAACGTTGAGGGGAACGACCCC
1 CGGGAAAATCGAGACTGCACCATCCCGAGAATCCCGGCCACGTGAACGTTGAGGGGAACGACCCC
*
15149 GTTATCATCGGAAACGGCCTTCACCGAGGGGTTATAAATACCCCGGTGAGGCCATGCGAAAGGGG
66 GTTATCATCGGAAACGGCCTTCACCGAGGGGTTATAAATACCCCAGTGAGGCCATGCGAAAGGGG
15214 GATACCGAGGTACCACCACACCGACCACCAGAAACGAGAACGACCGGTCAGCAGTAAACCACAAC
131 GATACCGAGGTACCACCACACCGACCACCAGAAACGAGAACGACCGGTCAGCAGTAAACCACAAC
15279 AGACCATCCTCAACAAGACCCAAACGGAGAACCCACAGAAAGATCACGTACAACAAGAAAACCAA
196 AGACCATCCTCAACAAGACCCAAACGGAGAACCCACAGAAAGATCACGTACAACAAGAAAACCAA
15344 ACAAAACATTCAAAGCCAACCAACAAGCAAGGCCGAGACAACCAGAAACCATCATCGAGAGAGAA
261 ACAAAACATTCAAAGCCAACCAACAAGCAAGGCCGAGACAACCAGAAACCATCATCGAGAGAGAA
15409 CATTTCAGTACCAAAACACGCAAAGCCGAAACAACAAATAACAGAACCATCGGTCACTACCCACA
326 CATTTCAGTACCAAAACACGCAAAGCCGAAACAACAAATAACAGAACCATCGGTCACTACCCACA
*
15474 CAGACGAAACTGAGAACAAACGAAACCATACACAACAAAAATATAAAACCAAAGGTCGAAGCCTC
391 CAGACGAAACTGAGAACAAACGAAACCATACACAACAAAAATATAAAACCAAAGGCCGAAGCCTC
15539 ACAGTAGAAAAATCCAAGAAAACCTATACAGCAAGCAAGACAAAAGGAAAAACCAGCAGTCACTG
456 ACAGTAGAAAAATCCAAGAAAACCTATACAGCAAGCAAGACAAAAGGAAAAACCAGCAGTCACTG
15604 TGAAACGGTGAAATAACGACGAAAAGGTAAAGCCTTTCGCCTTAGATTTACTCCGATCTAGTGGC
521 TGAAACGGTGAAATAACGACGAAAAGGTAAAGCCTTTCGCCTTAGATTTACTCCGATCTAGTGGC
15669 T
586 T
15670 CGGGAAAATCGAGACTGCACCATCCCGAGAATCCCGGCCACGTGAACGTTGAGGGGAACGACCCC
1 CGGGAAAATCGAGACTGCACCATCCCGAGAATCCCGGCCACGTGAACGTTGAGGGGAACGACCCC
15735 GTTATCATCGGAAACGGCCTTCACCGAGGGGTTATAAATACCCCAGTGAGGCCATGCGAAAGGGG
66 GTTATCATCGGAAACGGCCTTCACCGAGGGGTTATAAATACCCCAGTGAGGCCATGCGAAA-GGG
15800 GGATACCGAGGTACCACCACACCGACCACCAGAAACGAGAACGACCGGTCAGCAGTAAACCACAA
130 GGATACCGAGGTACCACCACACCGACCACCAGAAACGAGAACGACCGGTCAGCAGTAAACCACAA
15865 CAGACCATCCTCAACAAGACCCAAACGGAGAACCCACAGAAAGATCACGTACAACAAGAAAACCA
195 CAGACCATCCTCAACAAGACCCAAACGGAGAACCCACAGAAAGATCACGTACAACAAGAAAACCA
* *
15930 AATAAAACATTCAAAGCCAACCAACAAGCAAGGTCGAGACAACCAGAAACCATCATCGAGAGAGA
260 AACAAAACATTCAAAGCCAACCAACAAGCAAGGCCGAGACAACCAGAAACCATCATCGAGAGAGA
15995 ACATTTCAGTACCAAAACACGCAAAGCCGAAACAACAAATAACAGAACCATCGGTCACTACCCAC
325 ACATTTCAGTACCAAAACACGCAAAGCCGAAACAACAAATAACAGAACCATCGGTCACTACCCAC
16060 ACAGACGAAACTGAGAACAAACGAAACCATACACAACAAAAATATAAAACCAAAGGCCGAAGCCT
390 ACAGACGAAACTGAGAACAAACGAAACCATACACAACAAAAATATAAAACCAAAGGCCGAAGCCT
16125 CACAGTAGAAAAATCCAAGAAAACCTATACAGCAAGCAAGACAAAAGGAAAAACCAGCAGTCACT
455 CACAGTAGAAAAATCCAAGAAAACCTATACAGCAAGCAAGACAAAAGGAAAAACCAGCAGTCACT
16190 GTGAAACGGTGAAATAACGACGAAAAGGTAAAGCCTTTCGCCTTAGATTTACTCCGATCTAGTGG
520 GTGAAACGGTGAAATAACGACGAAAAGGTAAAGCCTTTCGCCTTAGATTTACTCCGATCTAGTGG
16255 CT
585 CT
16257 C
1 C
16258 TTTGGCGGTT
Statistics
Matches: 582, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
586 124 0.21
587 458 0.79
ACGTcount: A:0.41, C:0.27, G:0.20, T:0.12
Consensus pattern (586 bp):
CGGGAAAATCGAGACTGCACCATCCCGAGAATCCCGGCCACGTGAACGTTGAGGGGAACGACCCC
GTTATCATCGGAAACGGCCTTCACCGAGGGGTTATAAATACCCCAGTGAGGCCATGCGAAAGGGG
GATACCGAGGTACCACCACACCGACCACCAGAAACGAGAACGACCGGTCAGCAGTAAACCACAAC
AGACCATCCTCAACAAGACCCAAACGGAGAACCCACAGAAAGATCACGTACAACAAGAAAACCAA
ACAAAACATTCAAAGCCAACCAACAAGCAAGGCCGAGACAACCAGAAACCATCATCGAGAGAGAA
CATTTCAGTACCAAAACACGCAAAGCCGAAACAACAAATAACAGAACCATCGGTCACTACCCACA
CAGACGAAACTGAGAACAAACGAAACCATACACAACAAAAATATAAAACCAAAGGCCGAAGCCTC
ACAGTAGAAAAATCCAAGAAAACCTATACAGCAAGCAAGACAAAAGGAAAAACCAGCAGTCACTG
TGAAACGGTGAAATAACGACGAAAAGGTAAAGCCTTTCGCCTTAGATTTACTCCGATCTAGTGGC
T
Found at i:28509 original size:20 final size:20
Alignment explanation
Indices: 28484--28592 Score: 139
Period size: 20 Copynumber: 5.4 Consensus size: 20
28474 TTCCTAATTC
*
28484 AATCGCAACGCGAATACGTA
1 AATCGCAATGCGAATACGTA
*
28504 AATCGCAATGCGATTACGTA
1 AATCGCAATGCGAATACGTA
* *
28524 AATCGCAATGCGAATTAGGAA
1 AATCGCAATGCGAA-TACGTA
*
28545 AATCGCAATGCGATTACGTA
1 AATCGCAATGCGAATACGTA
*
28565 AATCGCAATGCGAATTA-GGA
1 AATCGCAATGCGAA-TACGTA
28585 AATCGCAA
1 AATCGCAA
28593 CGAGATTCTG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
20 58 0.75
21 19 0.25
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (20 bp):
AATCGCAATGCGAATACGTA
Found at i:28557 original size:41 final size:40
Alignment explanation
Indices: 28484--28592 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 40
28474 TTCCTAATTC
* *
28484 AATCGCAACGCGAA-TACGTAAATCGCAATGCGATTACGTA
1 AATCGCAATGCGAATTA-GGAAATCGCAATGCGATTACGTA
28524 AATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTA
1 AATCGCAATGCGAATTAGG-AAATCGCAATGCGATTACGTA
28565 AATCGCAATGCGAATTAGGAAATCGCAA
1 AATCGCAATGCGAATTAGGAAATCGCAA
28593 CGAGATTCTG
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
40 23 0.35
41 42 0.65
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (40 bp):
AATCGCAATGCGAATTAGGAAATCGCAATGCGATTACGTA
Found at i:29480 original size:24 final size:24
Alignment explanation
Indices: 29453--29506 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
29443 GTATTCGAAA
29453 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
29477 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
29501 TTTGAT
1 TTTGAT
29507 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:32080 original size:14 final size:14
Alignment explanation
Indices: 32061--32112 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
32051 GCGAAATGAA
32061 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
32075 AATCGCAATACGAAATGAA
1 AATCGC-A-ACG--A-GAG
32094 AATCGCAACGAGAG
1 AATCGCAACGAGAG
32108 AATCG
1 AATCG
32113 TAATACGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 13 0.42
15 2 0.06
16 3 0.10
17 3 0.10
18 2 0.06
19 8 0.26
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:32094 original size:33 final size:33
Alignment explanation
Indices: 32047--32169 Score: 196
Period size: 33 Copynumber: 3.7 Consensus size: 33
32037 ATGACTATTA
*
32047 CAATGCGAAATGAAAATCGCAACGAGAGAATCG
1 CAATACGAAATGAAAATCGCAACGAGAGAATCG
32080 CAATACGAAATGAAAATCGCAACGAGAGAATCG
1 CAATACGAAATGAAAATCGCAACGAGAGAATCG
*
32113 TAATACGAAATGAAAATCGCAACGAG-GAAATCG
1 CAATACGAAATGAAAATCGCAACGAGAG-AATCG
32146 CAA-AGCGAAATGAAAATCGCAACG
1 CAATA-CGAAATGAAAATCGCAACG
32170 CGAATTTAGT
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
32 2 0.02
33 83 0.98
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (33 bp):
CAATACGAAATGAAAATCGCAACGAGAGAATCG
Found at i:32172 original size:19 final size:18
Alignment explanation
Indices: 32051--32173 Score: 72
Period size: 19 Copynumber: 7.3 Consensus size: 18
32041 CTATTACAAT
32051 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
*
32069 -CG--A-GAGAATCGCAA
1 GCGAAATGAAAATCGCAA
*
32083 TACGAAATGAAAATCGCAA
1 -GCGAAATGAAAATCGCAA
* *
32102 -CG--A-GAGAATCGTAA
1 GCGAAATGAAAATCGCAA
*
32116 TACGAAATGAAAATCGCAA
1 -GCGAAATGAAAATCGCAA
*
32135 -CG--A-GGAAATCGCAAA
1 GCGAAATGAAAATCGC-AA
32150 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
32168 CGCGAA
1 -GCGAA
32174 TTTAGTTTCG
Statistics
Matches: 81, Mismatches: 8, Indels: 31
0.68 0.07 0.26
Matches are distributed among these distances:
14 27 0.33
15 5 0.06
16 6 0.07
17 6 0.07
18 5 0.06
19 32 0.40
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (18 bp):
GCGAAATGAAAATCGCAA
Found at i:32223 original size:21 final size:19
Alignment explanation
Indices: 32169--32214 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
32159 AAATCGCAAC
* * *
32169 GCGAATTTAGTTTCGTGTT
1 GCGATTTTAGTTACGCGTT
32188 GCGATTTTAGTTACGCGTT
1 GCGATTTTAGTTACGCGTT
32207 GCGATTTT
1 GCGATTTT
32215 GTCGTTACGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTACGCGTT
Found at i:32244 original size:19 final size:19
Alignment explanation
Indices: 32217--32263 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
32207 GCGATTTTGT
*
32217 CGTTACGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
32236 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
32255 CATTGCGAT
1 CGTTGCGAT
32264 AGTCACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:32389 original size:14 final size:14
Alignment explanation
Indices: 32370--32406 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
32360 CATCAATTAA
32370 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
32384 ACAAATCATCTTTT
1 ACAAATCAACTTTT
32398 ACAAATCAA
1 ACAAATCAA
32407 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:33825 original size:21 final size:21
Alignment explanation
Indices: 33759--33825 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
33749 GTGAATCGGG
*
33759 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
33779 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
33801 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
33822 CTCT
1 CTCT
33826 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:33844 original size:42 final size:41
Alignment explanation
Indices: 33759--33881 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
33749 GTGAATCGGG
* * * *
33759 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
33801 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
33843 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
33882 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:34328 original size:19 final size:19
Alignment explanation
Indices: 34280--34386 Score: 89
Period size: 19 Copynumber: 5.8 Consensus size: 19
34270 TCTGGAACTT
*
34280 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
** *
34301 ACTATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAATG
*
34320 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATG
34339 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* * *
34353 AGAATCGCAATGCGAAATT
1 AAAATCGCAACGCGAAATG
34372 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
34387 TTATCGTTTC
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 42 0.62
21 11 0.16
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:34417 original size:20 final size:20
Alignment explanation
Indices: 34392--34429 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34382 CGCGATTATC
*
34392 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTACGATTTTTG
34412 GTTTCGCGTTACGATTTT
1 GTTTCGCGTTACGATTTT
34430 GTCATTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.16, G:0.26, T:0.50
Consensus pattern (20 bp):
GTTTCGCGTTACGATTTTTG
Found at i:34671 original size:94 final size:94
Alignment explanation
Indices: 34563--34924 Score: 477
Period size: 83 Copynumber: 4.0 Consensus size: 94
34553 ATTGCATTGC
* * *
34563 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTTTAAC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
*
34628 AGAATTGGCAGCAAACGAACAAATTTACT
66 AGAATTGGCAGCAACCGAACAAATTTACT
34657 TTCAA-C------C---A-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
34711 AGAATTGGCAGCAACCGAACAAATTTACT
66 AGAATTGGCAGCAACCGAACAAATTTACT
* * *
34740 TTCAACCAAAAGATAAAACAAAGATAAAATACTAACTTCACAGTGTTAAAGAATACATAGTTTAG
1 TTCAACCAAAAGACAAAACAAAGA-CAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAG
* *
34805 CAGCATTGGCAGCAACCGAATAAATTTAC-
65 CAGAATTGGCAGCAACCGAACAAATTTACT
*
34834 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTAG
1 TTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAG
* * *
34895 CAGTATTGGCAGCAACCAAATAAATTTACT
65 CAGAATTGGCAGCAACCGAACAAATTTACT
34925 AAGCAATCTA
Statistics
Matches: 239, Mismatches: 15, Indels: 31
0.84 0.05 0.11
Matches are distributed among these distances:
83 76 0.32
84 2 0.01
87 1 0.00
90 39 0.16
93 2 0.01
94 49 0.21
95 70 0.29
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
AGAATTGGCAGCAACCGAACAAATTTACT
Found at i:34834 original size:95 final size:94
Alignment explanation
Indices: 34663--34924 Score: 390
Period size: 95 Copynumber: 2.8 Consensus size: 94
34653 TACTTTCAAC
*
34663 CAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCG
1 CAAAAGAAAAATACTAACTTCACAGTGTTAAAGAATACA-AGTTTAGCAGAATTGGCAGCAACCG
* *
34728 AACAAATTTACTTTCAACCAAAAGATAAAA
65 AATAAATTTACTTTCAACCAAAAGACAAAA
*
34758 C-AAAGATAAAATACTAACTTCACAGTGTTAAAGAATACATAGTTTAGCAGCATTGGCAGCAACC
1 CAAAAGA-AAAATACTAACTTCACAGTGTTAAAGAATACA-AGTTTAGCAGAATTGGCAGCAACC
34822 GAATAAATTTAC-TTCAACCAAAAGACAAAA
64 GAATAAATTTACTTTCAACCAAAAGACAAAA
* * * *
34852 CAAAAGACAAATACTAACTTCACAGTGTT-AATAA-AC-AGTTTAGCAGTATTGGCAGCAACCAA
1 CAAAAGAAAAATACTAACTTCACAGTGTTAAAGAATACAAGTTTAGCAGAATTGGCAGCAACCGA
34914 ATAAATTTACT
66 ATAAATTTACT
34925 AAGCAATCTA
Statistics
Matches: 155, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
90 34 0.22
92 2 0.01
93 4 0.03
94 44 0.28
95 71 0.46
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (94 bp):
CAAAAGAAAAATACTAACTTCACAGTGTTAAAGAATACAAGTTTAGCAGAATTGGCAGCAACCGA
ATAAATTTACTTTCAACCAAAAGACAAAA
Found at i:36691 original size:19 final size:19
Alignment explanation
Indices: 36617--36696 Score: 79
Period size: 20 Copynumber: 4.1 Consensus size: 19
36607 TCTTTTGGTT
* *
36617 GAAATGAAAATCACAACGA
1 GAAATGAAAATCGCAACGC
*
36636 GAGAATGAAAATCGCAACGTG
1 GA-AATGAAAATCGCAACG-C
**
36657 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
36676 GAAATGAAAATTGCAATGC
1 GAAATGAAAATCGCAACGC
36695 GA
1 GA
36697 TTTTGGTTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
19 19 0.38
20 29 0.58
21 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.15
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:36743 original size:21 final size:20
Alignment explanation
Indices: 36723--36794 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
36713 CAATTATCTC
36723 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
36743 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
36764 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
36784 GTTGCGATTTT
1 GTTGCGATTTT
36795 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:37396 original size:20 final size:21
Alignment explanation
Indices: 37345--37418 Score: 98
Period size: 20 Copynumber: 3.6 Consensus size: 21
37335 CGATAGTCAG
* *
37345 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTA
37366 ATTCGCATTGCGATTTACGTA
1 ATTCGCATTGCGATTTACGTA
*
37387 A-TCGCGTTGCGATTTACGT-
1 ATTCGCATTGCGATTTACGTA
*
37406 ATTCGAATTGCGA
1 ATTCGCATTGCGA
37419 ATTAGGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
19 1 0.02
20 26 0.55
21 20 0.43
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACGTA
Found at i:37441 original size:21 final size:21
Alignment explanation
Indices: 37415--37460 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
37405 TATTCGAATT
37415 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
37436 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
37457 GCGA
1 GCGA
37461 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:37689 original size:16 final size:16
Alignment explanation
Indices: 37670--37700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37660 AAACTTGAGG
37670 TTCAGAGTGCTTGGTA
1 TTCAGAGTGCTTGGTA
*
37686 TTCAGAGTGGTTGGT
1 TTCAGAGTGCTTGGT
37701 TCGGAGATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.35, T:0.39
Consensus pattern (16 bp):
TTCAGAGTGCTTGGTA
Found at i:38733 original size:9 final size:10
Alignment explanation
Indices: 38708--38734 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38698 CGTTTAAAAT
38708 AATTTTTAGA
1 AATTTTTAGA
38718 AATTTTTAGA
1 AATTTTTAGA
38728 AATTTTT
1 AATTTTT
38735 TCAGGAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (10 bp):
AATTTTTAGA
Found at i:38923 original size:29 final size:28
Alignment explanation
Indices: 38881--39042 Score: 175
Period size: 29 Copynumber: 5.6 Consensus size: 28
38871 CCCGACCCGT
38881 TGACATTTTGGGAATTTTTGTGAAAAAAG
1 TGACATTTTGGGAATTTTT-TGAAAAAAG
* *
38910 TGACATTCTGGGAAATATTTTGAAAAAAG
1 TGACATTTTGGG-AATTTTTTGAAAAAAG
* * *
38939 TGACATTATGGGAAAATTTTTGAAAAATG
1 TGACATTTTGGG-AATTTTTTGAAAAAAG
* *
38968 TAATATTTTGGGAATTATTTTG-AAAAAG
1 TGACATTTTGGGAATT-TTTTGAAAAAAG
**
38996 TGACATGCTGGGAATTATTTT-AAAAAAGG
1 TGACATTTTGGGAATT-TTTTGAAAAAA-G
39025 TGACATTTTGGGAATTTT
1 TGACATTTTGGGAATTTT
39043 CGAATGTGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
28 32 0.29
29 74 0.66
30 6 0.05
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (28 bp):
TGACATTTTGGGAATTTTTTGAAAAAAG
Found at i:39008 original size:57 final size:58
Alignment explanation
Indices: 38903--39040 Score: 156
Period size: 57 Copynumber: 2.4 Consensus size: 58
38893 AATTTTTGTG
* * * *
38903 AAAAAA-GTGACATTCTGGGAAATATTTTGAAAAAAGTGACATTATGGGAAA-ATTTTT
1 AAAAAAGGTAACATTTTGGGAATTATTTTGAAAAAAGTGACATGATGGGAAATA-TTTT
* * * * *
38960 GAAAAATGTAATATTTTGGGAATTATTTTG-AAAAAGTGACATGCTGGGAATTATTTT
1 AAAAAAGGTAACATTTTGGGAATTATTTTGAAAAAAGTGACATGATGGGAAATATTTT
*
39017 AAAAAAGGTGACATTTTGGGAATT
1 AAAAAAGGTAACATTTTGGGAATT
39041 TTCGAATGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 47 0.70
58 20 0.30
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (58 bp):
AAAAAAGGTAACATTTTGGGAATTATTTTGAAAAAAGTGACATGATGGGAAATATTTT
Found at i:46242 original size:16 final size:16
Alignment explanation
Indices: 46211--46254 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
46201 CCGGTCTGAC
46211 CCGACCCGACCCGTTGA
1 CCGACCCGA-CCGTTGA
*
46228 CCGATCCGACCGTTGA
1 CCGACCCGACCGTTGA
46244 CCGACCCGACC
1 CCGACCCGACC
46255 CAGTGACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (16 bp):
CCGACCCGACCGTTGA
Found at i:46355 original size:59 final size:59
Alignment explanation
Indices: 46256--46420 Score: 174
Period size: 59 Copynumber: 2.8 Consensus size: 59
46246 GACCCGACCC
* * * *
46256 AGTGACATTCTGGG-AATGTTTATTAAAAAATGTGACATTCTGAG-ATTTTTTGTGAAAAA
1 AGTGACATTCTGGGAAATATTT-TGAAAAAAAGTGACATTCTGAGAATTATTT-TGAAAAA
* * *
46315 AGTGATATTCTGGGAAATATTTTGAAAAAAAGTGATATTCTGGGAATTATTTTGAAAAA
1 AGTGACATTCTGGGAAATATTTTGAAAAAAAGTGACATTCTGAGAATTATTTTGAAAAA
** * * * *
46374 AGTGACAAACTGGGAATTATTTTG-AAAAAGGTGACATTTTGGGAATT
1 AGTGACATTCTGGGAAATATTTTGAAAAAAAGTGACATTCTGAGAATT
46421 TTTGAATGTG
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
58 20 0.22
59 58 0.64
60 12 0.13
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (59 bp):
AGTGACATTCTGGGAAATATTTTGAAAAAAAGTGACATTCTGAGAATTATTTTGAAAAA
Found at i:46386 original size:29 final size:29
Alignment explanation
Indices: 46256--46420 Score: 183
Period size: 29 Copynumber: 5.6 Consensus size: 29
46246 GACCCGACCC
46256 AGTGACATTCTGGGAATGT-TTATT-AAAAA
1 AGTGACATTCTGGGAAT-TATT-TTGAAAAA
* *
46285 ATGTGACATTCTGAG-ATTTTTTGTGAAAAA
1 A-GTGACATTCTGGGAATTATTT-TGAAAAA
* *
46315 AGTGATATTCTGGGAAATATTTTGAAAAAA
1 AGTGACATTCTGGGAATTATTTTG-AAAAA
*
46345 AGTGATATTCTGGGAATTATTTTGAAAAA
1 AGTGACATTCTGGGAATTATTTTGAAAAA
**
46374 AGTGACAAACTGGGAATTATTTTGAAAAA
1 AGTGACATTCTGGGAATTATTTTGAAAAA
* *
46403 GGTGACATTTTGGGAATT
1 AGTGACATTCTGGGAATT
46421 TTTGAATGTG
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
28 2 0.02
29 64 0.55
30 51 0.44
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (29 bp):
AGTGACATTCTGGGAATTATTTTGAAAAA
Found at i:48761 original size:13 final size:13
Alignment explanation
Indices: 48723--48776 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
48713 AAACGAACAG
48723 AAACGAACAAACAT
1 AAACGAACAAA-AT
*
48737 AAACGAATAAAAT
1 AAACGAACAAAAT
* *
48750 AAATGAACAAAAC
1 AAACGAACAAAAT
*
48763 GAACGAACATAAAT
1 AAACGAACA-AAAT
48777 GAACATTAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
13 19 0.59
14 13 0.41
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.11
Consensus pattern (13 bp):
AAACGAACAAAAT
Found at i:57014 original size:2 final size:2
Alignment explanation
Indices: 57007--57043 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
56997 GACTCTTGTG
57007 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
57044 GAGATGATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59159 original size:12 final size:12
Alignment explanation
Indices: 59142--59166 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59132 ATCGTTCGAG
59142 TTTTTATTTTAA
1 TTTTTATTTTAA
59154 TTTTTATTTTAA
1 TTTTTATTTTAA
59166 T
1 T
59167 ATTTGATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:63641 original size:18 final size:18
Alignment explanation
Indices: 63620--63700 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 18
63610 TGGTGGTCTG
* *
63620 GGTGGTGGTTTTGGTGGT
1 GGTGGTGGCTTAGGTGGT
* * *
63638 GGTGGAGGTTTAGGTGGA
1 GGTGGTGGCTTAGGTGGT
* * *
63656 GGAGGAGGCCTAGGTGGT
1 GGTGGTGGCTTAGGTGGT
*
63674 GGTGGTGGCTTTGGTGGT
1 GGTGGTGGCTTAGGTGGT
*
63692 GGAGGTGGC
1 GGTGGTGGC
63701 CTTGGGGGAG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.09, C:0.05, G:0.57, T:0.30
Consensus pattern (18 bp):
GGTGGTGGCTTAGGTGGT
Found at i:63679 original size:54 final size:54
Alignment explanation
Indices: 63620--63736 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
63610 TGGTGGTCTG
* * * *
63620 GGTGGTGGTTTTGGTGGTGGTGGAGG-TTTAGGTGGAGGAGGAGGCCTAGGTGGT
1 GGTGGTGGTTTTGGTGGTGGAGGAGGCCTT-GGGGGAGGAGGAGGCCTAGGTGGC
* * *
63674 GGTGGTGGCTTTGGTGGTGGAGGTGGCCTTGGGGGAGGCGGAGGCCTAGGTGGC
1 GGTGGTGGTTTTGGTGGTGGAGGAGGCCTTGGGGGAGGAGGAGGCCTAGGTGGC
63728 GGTGGTGGT
1 GGTGGTGGT
63737 GCAGGAGGAG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 52 0.96
55 2 0.04
ACGTcount: A:0.09, C:0.08, G:0.57, T:0.26
Consensus pattern (54 bp):
GGTGGTGGTTTTGGTGGTGGAGGAGGCCTTGGGGGAGGAGGAGGCCTAGGTGGC
Found at i:63852 original size:42 final size:42
Alignment explanation
Indices: 63728--63858 Score: 158
Period size: 42 Copynumber: 3.1 Consensus size: 42
63718 CCTAGGTGGC
* * * * *
63728 GGTGGTGGTGCAGGAGGAGGATTAGGTGGTGGAGGTGGTCTT
1 GGTGGAGGTGCAGGAGGTGGATTAGGTGGTGGCGGAGGGCTT
* * *
63770 GGTGGGGGTGCAGGAGGTGGATTGGGTGGTGGC-CATGGGCTT
1 GGTGGAGGTGCAGGAGGTGGATTAGGTGGTGGCGGA-GGGCTT
63812 GGTGGAGGTGCAGGAGGTGGATTAGGTGG-GGCTGGAGGGCTT
1 GGTGGAGGTGCAGGAGGTGGATTAGGTGGTGGC-GGAGGGCTT
63854 GGTGG
1 GGTGG
63859 TGGACATGGA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
41 3 0.04
42 72 0.95
43 1 0.01
ACGTcount: A:0.12, C:0.07, G:0.57, T:0.24
Consensus pattern (42 bp):
GGTGGAGGTGCAGGAGGTGGATTAGGTGGTGGCGGAGGGCTT
Found at i:63873 original size:60 final size:60
Alignment explanation
Indices: 63788--64180 Score: 368
Period size: 60 Copynumber: 6.8 Consensus size: 60
63778 TGCAGGAGGT
* * * *
63788 GGATTGGGTGGTGGCCATGGGCTTGGTGGAGGTGCAGGAGGTGGATTAGGTGG-GGCTGGAG
1 GGATTGGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGC-GG-G
* *
63849 GGCTT-GGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGGCTAGGAGGTGGCGGG
1 GGATTGGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGG
63908 GGATTGGGTGGTGGACATGGAC-T--T---GGT---GGAGGT-G-C-AGGAGGTGGCGGG
1 GGATTGGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGG
* * * *
63956 GGATTGGGTAGTGGCCATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGTGGA
1 GGATTGGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGG
* * * * * * * * *
64016 GGACTAGGTGGTGGCCATGGGCTTGGTGGAGGTGCTGGAGGTGGATTGGGAGGTGGTGGA
1 GGATTGGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGG
* * * * * * * *
64076 GGACTT-GGTGGTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGA
1 GGA-TTGGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGG
* * *
64136 GGACTT-GGTGGTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGGA
1 GGA-TTGGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGA
64181 TTGGGTGGTG
Statistics
Matches: 295, Mismatches: 22, Indels: 31
0.85 0.06 0.09
Matches are distributed among these distances:
48 33 0.11
49 2 0.01
50 1 0.00
51 7 0.02
54 6 0.02
57 7 0.02
58 1 0.00
59 7 0.02
60 223 0.76
61 8 0.03
ACGTcount: A:0.14, C:0.09, G:0.55, T:0.22
Consensus pattern (60 bp):
GGATTGGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGG
Found at i:63951 original size:30 final size:30
Alignment explanation
Indices: 63797--63951 Score: 90
Period size: 30 Copynumber: 5.2 Consensus size: 30
63787 TGGATTGGGT
* *
63797 GGTGGCCATGGGCTTGGTGGAGGTGCAGGA
1 GGTGGACATGGACTTGGTGGAGGTGCAGGA
* * * *
63827 GGTGGA-TTAGG--TGGGGCTGGAGG-GCTTGGT
1 GGTGGACAT-GGACT-TGG-TGGAGGTGC-AGGA
63857 GGTGGACATGGACTTGGTGGAGGTGCAGGA
1 GGTGGACATGGACTTGGTGGAGGTGCAGGA
* ** * * *
63887 GGTGGGC-TAGGAGGTGGCGGGGGATTG--GGT
1 GGTGGACAT-GGACTTGGTGGAGG--TGCAGGA
63917 GGTGGACATGGACTTGGTGGAGGTGCAGGA
1 GGTGGACATGGACTTGGTGGAGGTGCAGGA
63947 GGTGG
1 GGTGG
63952 CGGGGGATTG
Statistics
Matches: 90, Mismatches: 21, Indels: 28
0.65 0.15 0.20
Matches are distributed among these distances:
28 3 0.03
29 6 0.07
30 72 0.80
31 6 0.07
32 3 0.03
ACGTcount: A:0.14, C:0.09, G:0.55, T:0.21
Consensus pattern (30 bp):
GGTGGACATGGACTTGGTGGAGGTGCAGGA
Found at i:63954 original size:48 final size:48
Alignment explanation
Indices: 63895--63999 Score: 192
Period size: 48 Copynumber: 2.2 Consensus size: 48
63885 GAGGTGGGCT
*
63895 AGGAGGTGGCGGGGGATTGGGTGGTGGACATGGACTTGGTGGAGGTGC
1 AGGAGGTGGCGGGGGATTGGGTAGTGGACATGGACTTGGTGGAGGTGC
*
63943 AGGAGGTGGCGGGGGATTGGGTAGTGGCCATGGACTTGGTGGAGGTGC
1 AGGAGGTGGCGGGGGATTGGGTAGTGGACATGGACTTGGTGGAGGTGC
63991 AGGAGGTGG
1 AGGAGGTGG
64000 ACTAGGAGGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.15, C:0.09, G:0.56, T:0.20
Consensus pattern (48 bp):
AGGAGGTGGCGGGGGATTGGGTAGTGGACATGGACTTGGTGGAGGTGC
Found at i:63983 original size:168 final size:168
Alignment explanation
Indices: 63788--64119 Score: 479
Period size: 168 Copynumber: 2.0 Consensus size: 168
63778 TGCAGGAGGT
* * * * *
63788 GGATTGGGTGGTGGCCATGGGCTTGGTGGAGGTGCAGGAGGTGGATTAGGTGG-GGCTGGAGGGC
1 GGATTGGGTAGTGGCCATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGG-TGGAGGAC
* * *
63852 TTGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGGCTAGGAGGTGGCGGGGGA-TTGGG
65 TAGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGAGGACTT-GG
*
63916 TGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGCGGG
129 TGGTGGACACGGACTTGGTGGAGGTGCAGGAGGTGGCGGG
63956 GGATTGGGTAGTGGCCATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGTGGAGGACT
1 GGATTGGGTAGTGGCCATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGTGGAGGACT
* * * * * *
64021 AGGTGGTGGCCATGGGCTTGGTGGAGGTGCTGGAGGTGGATTGGGAGGTGGTGGAGGACTTGGTG
66 AGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGAGGACTTGGTG
* *
64086 GTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGG
131 GTGGACACGGACTTGGTGGAGGTGCAGGAGGTGG
64120 ATTGGGTGGT
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
168 141 0.97
169 4 0.03
ACGTcount: A:0.14, C:0.09, G:0.55, T:0.22
Consensus pattern (168 bp):
GGATTGGGTAGTGGCCATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGTGGAGGACT
AGGTGGTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGAGGACTTGGTG
GTGGACACGGACTTGGTGGAGGTGCAGGAGGTGGCGGG
Found at i:63993 original size:108 final size:108
Alignment explanation
Indices: 63858--64059 Score: 323
Period size: 108 Copynumber: 1.9 Consensus size: 108
63848 GGGCTTGGTG
* * * *
63858 GTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGGCTAGGAGGTGGCGGGGGATTGGGTGGTGGA
1 GTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGAGGACTAGGTGGTGGA
63923 CATGGACTTGGTGGAGGTGCAGGAGGTGGCGGGGGATTGGGTA
66 CATGGACTTGGTGGAGGTGCAGGAGGTGGCGGGGGATTGGGTA
* * *
63966 GTGGCCATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGTGGAGGACTAGGTGGTGGC
1 GTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGAGGACTAGGTGGTGGA
* *
64031 CATGGGCTTGGTGGAGGTGCTGGAGGTGG
66 CATGGACTTGGTGGAGGTGCAGGAGGTGG
64060 ATTGGGAGGT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 85 1.00
ACGTcount: A:0.15, C:0.09, G:0.54, T:0.21
Consensus pattern (108 bp):
GTGGACATGGACTTGGTGGAGGTGCAGGAGGTGGACTAGGAGGTGGCGGAGGACTAGGTGGTGGA
CATGGACTTGGTGGAGGTGCAGGAGGTGGCGGGGGATTGGGTA
Found at i:64013 original size:30 final size:29
Alignment explanation
Indices: 63979--64197 Score: 90
Period size: 30 Copynumber: 7.3 Consensus size: 29
63969 GCCATGGACT
63979 TGGTGGAGGTGCAGGAGGTGGACTAGGAGG
1 TGGTGGAGGTGCAGGAGGTGGACTAGG-GG
* * * *
64009 TGGTGGAGG-ACTAGGTGGTGG-CCATGGGCT
1 TGGTGGAGGTGC-AGGAGGTGGACTA-GGG-G
* * *
64039 TGGTGGAGGTGCTGGAGGTGGATTGGGAGG
1 TGGTGGAGGTGCAGGAGGTGGACTAGG-GG
* * * * *
64069 TGGTGGAGG-ACTTGGTGGTGG-CCACGGGCT
1 TGGTGGAGGTGC-AGGAGGTGGACTA-GGG-G
* *
64099 TGGTGGAGGTGCAGGAGGTGGATTGGGTGG
1 TGGTGGAGGTGCAGGAGGTGGACTAGG-GG
* * * * *
64129 TGGTGGAGG-ACTTGGTGGTGG-CCACGGGCT
1 TGGTGGAGGTGC-AGGAGGTGGACTA-GGG-G
* *
64159 TGGTGGAGGTGCAGGAGGTGGATTGGGTGG
1 TGGTGGAGGTGCAGGAGGTGGACTAGG-GG
64189 TGGTGGAGG
1 TGGTGGAGG
64198 ACTTGGTGGA
Statistics
Matches: 133, Mismatches: 38, Indels: 36
0.64 0.18 0.17
Matches are distributed among these distances:
29 8 0.06
30 119 0.89
31 6 0.05
ACGTcount: A:0.13, C:0.09, G:0.56, T:0.22
Consensus pattern (29 bp):
TGGTGGAGGTGCAGGAGGTGGACTAGGGG
Found at i:64181 original size:60 final size:60
Alignment explanation
Indices: 63944--64206 Score: 402
Period size: 60 Copynumber: 4.4 Consensus size: 60
63934 TGGAGGTGCA
* * * * * * *
63944 GGAGGTGGCGGGGGA-TTGGGTAGTGGCCATGGACTTGGTGGAGGTGCAGGAGGTGGACTA
1 GGAGGTGGTGGAGGACTT-GGTGGTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGGATTG
* * *
64004 GGAGGTGGTGGAGGACTAGGTGGTGGCCATGGGCTTGGTGGAGGTGCTGGAGGTGGATTG
1 GGAGGTGGTGGAGGACTTGGTGGTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGGATTG
64064 GGAGGTGGTGGAGGACTTGGTGGTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGGATTG
1 GGAGGTGGTGGAGGACTTGGTGGTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGGATTG
*
64124 GGTGGTGGTGGAGGACTTGGTGGTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGGATTG
1 GGAGGTGGTGGAGGACTTGGTGGTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGGATTG
*
64184 GGTGGTGGTGGAGGACTTGGTGG
1 GGAGGTGGTGGAGGACTTGGTGG
64207 AGGAGCAGGA
Statistics
Matches: 190, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
60 189 0.99
61 1 0.01
ACGTcount: A:0.13, C:0.09, G:0.55, T:0.22
Consensus pattern (60 bp):
GGAGGTGGTGGAGGACTTGGTGGTGGCCACGGGCTTGGTGGAGGTGCAGGAGGTGGATTG
Found at i:64323 original size:30 final size:30
Alignment explanation
Indices: 64289--64353 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
64279 AGGCCTCGGT
*
64289 GGTGGTGCTGGAG-GTGGAGGAGGATTTGGG
1 GGTGGTGCTGGAGTG-GGAGGAGGATTTGGA
* *
64319 GGTGGTGGTGGAGTGGGTGGAGGATTTGGA
1 GGTGGTGCTGGAGTGGGAGGAGGATTTGGA
64349 GGTGG
1 GGTGG
64354 CTTTGGTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.12, C:0.02, G:0.62, T:0.25
Consensus pattern (30 bp):
GGTGGTGCTGGAGTGGGAGGAGGATTTGGA
Found at i:65068 original size:35 final size:34
Alignment explanation
Indices: 65024--65171 Score: 215
Period size: 35 Copynumber: 4.2 Consensus size: 34
65014 AAAACAATTC
*
65024 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
*
65059 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
65094 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
65129 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
65164 TCAATTTC
1 TCAATTTC
65172 TGTCTTTTTT
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
34 1 0.01
35 99 0.93
36 6 0.06
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:66239 original size:35 final size:34
Alignment explanation
Indices: 66191--66302 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 34
66181 ATTTCTCCTT
*
66191 AAATTGAAGTATTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTGGGGTTTAGAATG
* *
66226 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTGGGGTTTAGAATG
* * *
66261 AAATTGAATTACTTTGAAATTTGGGATTTATAATG
1 AAATTGAATTATTTTG-AATTTGGGGTTTAGAATG
66296 AAATTGA
1 AAATTGA
66303 GGAATGTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
34 1 0.01
35 66 0.99
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTGAATTTGGGGTTTAGAATG
Found at i:79617 original size:2 final size:2
Alignment explanation
Indices: 79610--79654 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
79600 GCACATACAT
79610 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
79652 TA T
1 TA T
79655 TGTATTTATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:79842 original size:23 final size:23
Alignment explanation
Indices: 79754--79835 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
79744 CACCACAGCT
* *
79754 CGTATAAATGCACCGAAGTGTCG
1 CGTAGAAATGCACCGAAGTGCCG
*
79777 CGTAGAAATGCACC-ATAGTGCCA
1 CGTAGAAATGCACCGA-AGTGCCG
*
79800 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
*
79823 TGTAGAAATGCAC
1 CGTAGAAATGCAC
79836 TGTAGTGGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 1 0.02
23 48 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:81507 original size:19 final size:19
Alignment explanation
Indices: 81483--81519 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
81473 TTTAAGGGGG
81483 TGCATCGATGCACTACTTA
1 TGCATCGATGCACTACTTA
81502 TGCATCGATGCACTACTT
1 TGCATCGATGCACTACTT
81520 GCATTCGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (19 bp):
TGCATCGATGCACTACTTA
Found at i:83896 original size:13 final size:14
Alignment explanation
Indices: 83862--83910 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 14
83852 AACAAAGAGC
83862 AAAAAAGAAAAAAGA
1 AAAAAAG-AAAAAGA
83877 AATAAAA-AAGCAAAGA
1 AA-AAAAGAA--AAAGA
83893 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
83907 AAAA
1 AAAA
83911 GAAAACAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 11 0.37
15 6 0.20
16 13 0.43
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:83905 original size:6 final size:6
Alignment explanation
Indices: 83863--83915 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
83853 ACAAAGAGCA
*
83863 AAAAAG AAAAAAG AAATA- AAAAAG CAAAGAA- AAAAAG AAAAAG AAAAAG
1 AAAAAG -AAAAAG AAAAAG AAAAAG -AAA-AAG AAAAAG AAAAAG AAAAAG
83912 AAAA
1 AAAA
83916 CAAAAAGGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 6 0.15
6 23 0.57
7 9 0.22
8 2 0.05
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:83915 original size:12 final size:11
Alignment explanation
Indices: 83864--83922 Score: 64
Period size: 12 Copynumber: 5.0 Consensus size: 11
83854 CAAAGAGCAA
83864 AAAAGAAAAAAG
1 AAAA-AAAAAAG
*
83876 AAATAAAAAAG
1 AAAAAAAAAAG
83887 CAAAGAAAAAAAG
1 -AAA-AAAAAAAG
83900 AAAAAGAAAAAG
1 AAAAA-AAAAAG
*
83912 AAAACAAAAAG
1 AAAAAAAAAAG
83923 GGATGATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 15 0.37
12 19 0.46
13 7 0.17
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:85475 original size:34 final size:34
Alignment explanation
Indices: 85437--85509 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
85427 ACTTCACGAT
* * *
85437 GAAGGATATCCAATTCAAGGCTCAACTTTACAGC
1 GAAGGATATCAAATTCAAGGATCAACTTTACAAC
85471 GAAGGATATCAAATTCAAGGATCAACTTTACAAC
1 GAAGGATATCAAATTCAAGGATCAACTTTACAAC
85505 GAAGG
1 GAAGG
85510 GGCCATCCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (34 bp):
GAAGGATATCAAATTCAAGGATCAACTTTACAAC
Found at i:85626 original size:151 final size:151
Alignment explanation
Indices: 85307--85626 Score: 471
Period size: 151 Copynumber: 2.1 Consensus size: 151
85297 TTCTTGGATT
* * * * * *
85307 TCAAATTCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAGGGGCCATCCACGAT
1 TCAACTTCACAACGAAGGATATCAAATTCAAGGATCAACTTCACAACGAAGGGGCCATCCACGAT
* *
85372 TTCAACTTCATGAAGAACGATATCATGCCCACATTTATCTTTAGATTGGATTTCAACTTCACGAT
66 TTCAACTTCACGAAGAACGATATCATGCCCACATTTATCTTTAGATTGGATTTCAACTTCACGAC
*
85437 GAAGGATATCCAATTCAAGGC
131 AAAGGATATCCAATTCAAGGC
* * *
85458 TCAACTTTACAGCGAAGGATATCAAATTCAAGGATCAACTTTACAACGAAGGGGCCATCCACGAT
1 TCAACTTCACAACGAAGGATATCAAATTCAAGGATCAACTTCACAACGAAGGGGCCATCCACGAT
** * *
85523 TTCAACTTTGCGACGAATGATATCGA-GCCCACATTTATCTTTAGATTGGATTTCAACTTCACGA
66 TTCAACTTCACGAAGAACGATATC-ATGCCCACATTTATCTTTAGATTGGATTTCAACTTCACGA
85587 CAAAGGATATCCAATTCAAGGC
130 CAAAGGATATCCAATTCAAGGC
*
85609 TCAACTTCACAATGAAGG
1 TCAACTTCACAACGAAGG
85627 GGTCATCTAC
Statistics
Matches: 149, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 148 0.99
152 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (151 bp):
TCAACTTCACAACGAAGGATATCAAATTCAAGGATCAACTTCACAACGAAGGGGCCATCCACGAT
TTCAACTTCACGAAGAACGATATCATGCCCACATTTATCTTTAGATTGGATTTCAACTTCACGAC
AAAGGATATCCAATTCAAGGC
Found at i:85664 original size:117 final size:118
Alignment explanation
Indices: 85458--85965 Score: 536
Period size: 117 Copynumber: 4.3 Consensus size: 118
85448 AATTCAAGGC
* * * * * * *
85458 TCAACTTTACAGCGAAGGATATCAAATTCAAGGATCAACTTTACAACGAAGGGGCCATCCACGAT
1 TCAACTTCACAACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
** * *
85523 TTCAACTTTGCGACGAATGATATCGAGCCCA-CATTTATCTTTAGATTGGATT
66 TTCAACTTCACGACGAAGGATATCGAGCCCACCATTCATCTTTAGATTGGATT
* * * * *
85575 TCAACTTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAATGAAGGGGTCATCTACGAT
1 TCAACTTCACAACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
* * * * *
85640 TTTAACTTCATGAAGAAGGATATCGTGCCCA-CATTTATCTTTAGATTGGATT
66 TTCAACTTCACGACGAAGGATATCGAGCCCACCATTCATCTTTAGATTGGATT
* ** *
85692 TCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGTCATCCACGAT
1 TCAACTTCACAACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
** * * ***
85757 TTCAACTTCACGACGAAGGATATCGTTCCCACCA-GCAACGTTCATCTTTTGGATT
66 TTCAACTTCACGACGAAGGATATCGAGCCCACCATTCATC-TT--TAGATTGGATT
* *
85812 TCAACTTCACAACGAAGGATAACCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
1 TCAACTTCACAACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
* * * * * * *
85877 TTCAATTTCACGACGAATGATATCGAATCTACAAGTAGCATCCATCTCTAGATTGGATT
66 TTCAACTTCACGACGAAGGATATCG-AGC--C---CACCATTCATCTTTAGATTGGATT
*
85936 TAAACTTCACAACAAAGGATATCCAATTCA
1 TCAACTTCACAACAAAGGATATCCAATTCA
85966 CAGCGAATGA
Statistics
Matches: 330, Mismatches: 50, Indels: 15
0.84 0.13 0.04
Matches are distributed among these distances:
117 189 0.57
118 4 0.01
120 92 0.28
121 2 0.01
123 1 0.00
124 35 0.11
126 4 0.01
127 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (118 bp):
TCAACTTCACAACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
TTCAACTTCACGACGAAGGATATCGAGCCCACCATTCATCTTTAGATTGGATT
Found at i:85854 original size:120 final size:117
Alignment explanation
Indices: 85458--85901 Score: 557
Period size: 117 Copynumber: 3.8 Consensus size: 117
85448 AATTCAAGGC
* * * * * *
85458 TCAACTTTACAGCGAAGGATATCAAATTCAAGGATCAACTTTACAACGAAGGGGCCATCCACGAT
1 TCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
** * *
85523 TTCAACTTTGCGACGAATGATATCGAGCCCACATTTATCTTTAGATTGGATT
66 TTCAACTTCACGACGAAGGATATCGTGCCCACATTTATCTTTAGATTGGATT
* * * * * *
85575 TCAACTTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAATGAAGGGGTCATCTACGAT
1 TCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
* * *
85640 TTTAACTTCATGAAGAAGGATATCGTGCCCACATTTATCTTTAGATTGGATT
66 TTCAACTTCACGACGAAGGATATCGTGCCCACATTTATCTTTAGATTGGATT
* * *
85692 TCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGTCATCCACGAT
1 TCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
* ** * ***
85757 TTCAACTTCACGACGAAGGATATCGTTCCCACCA-GCAACGTTCATCTTTTGGATT
66 TTCAACTTCACGACGAAGGATATCGTGCCCA-CATTTATC-TT--TAGATTGGATT
*
85812 TCAACTTCACAACGAAGGATAACCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
1 TCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
* *
85877 TTCAATTTCACGACGAATGATATCG
66 TTCAACTTCACGACGAAGGATATCG
85902 AATCTACAAG
Statistics
Matches: 285, Mismatches: 38, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
117 189 0.66
118 4 0.01
120 92 0.32
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (117 bp):
TCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCACGAT
TTCAACTTCACGACGAAGGATATCGTGCCCACATTTATCTTTAGATTGGATT
Found at i:87928 original size:25 final size:25
Alignment explanation
Indices: 87896--87990 Score: 156
Period size: 25 Copynumber: 3.8 Consensus size: 25
87886 AACCCTAAAT
*
87896 TAATTTATAAATCACCCACT-AAACA
1 TAATTTATAAAGCACCCACTCAAA-A
*
87921 TAGTTTATAAAGCACCCACTCAAAA
1 TAATTTATAAAGCACCCACTCAAAA
87946 TAATTTATAAAGCACCCACTCAAAA
1 TAATTTATAAAGCACCCACTCAAAA
87971 TAATTTATAAAGCACCCACT
1 TAATTTATAAAGCACCCACT
87991 AAATTGCCAA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 63 0.95
26 3 0.05
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.26
Consensus pattern (25 bp):
TAATTTATAAAGCACCCACTCAAAA
Found at i:88241 original size:15 final size:15
Alignment explanation
Indices: 88221--88267 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
88211 CGCCCCGCAT
*
88221 CCGCCCCGCATCCAC
1 CCGCCCCGCATCCGC
*
88236 CCG-CCCGTATCCGC
1 CCGCCCCGCATCCGC
88250 CCGCCCCGCATCCGC
1 CCGCCCCGCATCCGC
88265 CCG
1 CCG
88268 TCCAACTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.09, C:0.64, G:0.19, T:0.09
Consensus pattern (15 bp):
CCGCCCCGCATCCGC
Found at i:90037 original size:2 final size:2
Alignment explanation
Indices: 90030--90093 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
90020 CATATTATTC
90030 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
*
90072 AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
90094 TACTAGCGCT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:93830 original size:23 final size:24
Alignment explanation
Indices: 93775--93831 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
93765 TTTGCTTTCA
* *
93775 CCCTAGAATTTTATAAGTTTATCC
1 CCCTAAAATTTTAGAAGTTTATCC
93799 CTCCTAAAATTTTAGAA-TTT-TGCC
1 C-CCTAAAATTTTAGAAGTTTAT-CC
93823 CCCTAAAAT
1 CCCTAAAAT
93832 AAAATTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 9 0.31
24 7 0.24
25 13 0.45
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (24 bp):
CCCTAAAATTTTAGAAGTTTATCC
Found at i:97550 original size:33 final size:33
Alignment explanation
Indices: 97505--97600 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
97495 GAGTAGGGGT
* *
97505 GACATGTGTTGGTGGAACCATTCGAGCATGCGC
1 GACATGTGTTGGTGGAGCCATTGGAGCATGCGC
* *
97538 GACATGTATTGGTGGAGCCTTTGGAGCATGCGC
1 GACATGTGTTGGTGGAGCCATTGGAGCATGCGC
*
97571 GACATGTGTTGGTGGAGCCGTTGGAGCATG
1 GACATGTGTTGGTGGAGCCATTGGAGCATG
97601 TGCATTGTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.19, C:0.18, G:0.38, T:0.26
Consensus pattern (33 bp):
GACATGTGTTGGTGGAGCCATTGGAGCATGCGC
Found at i:106066 original size:42 final size:42
Alignment explanation
Indices: 106019--106136 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
106009 ATCGTCTCAA
*
106019 TTGAACGATTCCTCGTTGGTATACGACCTCTTGATGAATTTC
1 TTGAACGATTCCTCGCTGGTATACGACCTCTTGATGAATTTC
106061 TTGAACGATTCCTCGCTGGTATACGACCTCTTGATGAATTTC
1 TTGAACGATTCCTCGCTGGTATACGACCTCTTGATGAATTTC
106103 TTGAACGATTCCTCGCTGGTAT--GACCTCTTGATG
1 TTGAACGATTCCTCGCTGGTATACGACCTCTTGATG
106137 TATTCAGGTT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 12 0.16
42 63 0.84
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (42 bp):
TTGAACGATTCCTCGCTGGTATACGACCTCTTGATGAATTTC
Found at i:108168 original size:23 final size:22
Alignment explanation
Indices: 108137--108179 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
108127 ATAATTATTT
108137 AAAAAATTTAAAAAAAAATACC
1 AAAAAATTTAAAAAAAAATACC
*
108159 AAAAATATTTAATAAAAAATA
1 AAAAA-ATTTAAAAAAAAATA
108180 ATTTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAATTTAAAAAAAAATACC
Found at i:108901 original size:18 final size:18
Alignment explanation
Indices: 108869--108920 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
108859 TTAGCCGGTC
*
108869 CGGTTC-GAACGATTCAA
1 CGGTTCTGACCGATTCAA
108886 CGGTTCTGACCGATTCAA
1 CGGTTCTGACCGATTCAA
108904 CGGTTCTGACCGATTCA
1 CGGTTCTGACCGATTCA
108921 CTAATAGCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 6 0.18
18 27 0.82
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (18 bp):
CGGTTCTGACCGATTCAA
Found at i:109375 original size:35 final size:35
Alignment explanation
Indices: 109335--109401 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
109325 GAATTAAACG
*
109335 GGGACGGGGAAAAATCGTTTATGCTAAACGGGGAC
1 GGGACGGGGAAAAACCGTTTATGCTAAACGGGGAC
*
109370 GGGACGGGGAAAAACCGTTTATGTTAAACGGG
1 GGGACGGGGAAAAACCGTTTATGCTAAACGGG
109402 AACGAAGACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.37, T:0.18
Consensus pattern (35 bp):
GGGACGGGGAAAAACCGTTTATGCTAAACGGGGAC
Found at i:109535 original size:15 final size:15
Alignment explanation
Indices: 109513--109552 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
109503 TTAAATTAAA
109513 AAATATATATAATAT
1 AAATATATATAATAT
* * *
109528 ATATATATTTAATTT
1 AAATATATATAATAT
109543 AAATATATAT
1 AAATATATAT
109553 TTCCGGCCTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATATATATAATAT
Found at i:118452 original size:2 final size:2
Alignment explanation
Indices: 118445--118482 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
118435 AAGAAAAACT
118445 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
118483 GCATATAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:119514 original size:20 final size:19
Alignment explanation
Indices: 119411--119587 Score: 124
Period size: 20 Copynumber: 8.9 Consensus size: 19
119401 CAACATGAAT
* *
119411 TTCGAGTTGCGAATTTGATT
1 TTCGAGTTGCGAATTCGA-A
* * *
119431 TTCAAGTTGCGAAATCCATA
1 TTCGAGTTGCGAATTCGA-A
* *
119451 TTCAAGTTACGAATTCGAAAA
1 TTCGAGTTGCGAATTCG--AA
119472 TT-GAGTTGCGAAATTGGCGAA
1 TTCGAGTTGCG-AATT--CGAA
119493 TTCGAGTTGCGAAATTCGAA
1 TTCGAGTTGCG-AATTCGAA
* **
119513 TTCGAGTCGCGAAATTAAAA
1 TTCGAGTTGCG-AATTCGAA
* *
119533 TTCGAGTTGCGAATTTGAC
1 TTCGAGTTGCGAATTCGAA
*
119552 TTCGTGTTGCGAATTCGGAA
1 TTCGAGTTGCGAATTC-GAA
*
119572 TT-GAGTTACGAATTCG
1 TTCGAGTTGCGAATTCG
119588 TTGGTTATTT
Statistics
Matches: 128, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.01
19 30 0.23
20 70 0.55
21 11 0.09
22 14 0.11
23 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (19 bp):
TTCGAGTTGCGAATTCGAA
Found at i:122169 original size:15 final size:15
Alignment explanation
Indices: 122122--122173 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
122112 TTAGACCTTA
*
122122 CCCGCCTCACATCCG
1 CCCGCCCCACATCCG
* **
122137 CCCGTCCCGTATCCG
1 CCCGCCCCACATCCG
*
122152 CCCGCCCCACATCTG
1 CCCGCCCCACATCCG
122167 CCCGCCC
1 CCCGCCC
122174 AGCTAAATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.10, C:0.62, G:0.15, T:0.13
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:123319 original size:36 final size:36
Alignment explanation
Indices: 123279--123381 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
123269 ACGGTGCTAG
123279 ACATTGATACACGAATGTACCAAAGCTGATAGGATA
1 ACATTGATACACGAATGTACCAAAGCTGATAGGATA
*
123315 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATAGGATA
*
123351 ACATTGATACAAGAATGTACCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
123382 ATACTCAACT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATAGGATA
Found at i:124849 original size:20 final size:20
Alignment explanation
Indices: 124826--124907 Score: 110
Period size: 20 Copynumber: 4.1 Consensus size: 20
124816 AATAAGCGTT
*
124826 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
* *
124846 GCGAAAGTCTAATTCGCAAT
1 GCGAAAGTCAAATTCGCAAC
* *
124866 GTGAAAGTCAAATTCGCTAC
1 GCGAAAGTCAAATTCGCAAC
*
124886 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
124906 GC
1 GC
124908 TTATTTCGCG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:127538 original size:24 final size:24
Alignment explanation
Indices: 127504--127557 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
127494 CCATCACATC
127504 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
127528 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
127552 ATCAAA
1 ATCAAA
127558 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:128551 original size:40 final size:40
Alignment explanation
Indices: 128480--128578 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
128470 ATTAAATTCG
*
128480 CGTTGCGAATTTGA-AATTC-AGTTGCGAATTTGACTTTCA
1 CGTTGCGAATTTGACTA-TCGAGTTGCGAATTTGACTTTCA
* *
128519 TGTTGCGAATTTGACTATCGAGTTGCGAATTTGACTTTCG
1 CGTTGCGAATTTGACTATCGAGTTGCGAATTTGACTTTCA
*
128559 CGTTGAGAATTTGACTATCG
1 CGTTGCGAATTTGACTATCG
128579 CAATACGAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 15 0.28
40 38 0.72
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (40 bp):
CGTTGCGAATTTGACTATCGAGTTGCGAATTTGACTTTCA
Found at i:128573 original size:20 final size:20
Alignment explanation
Indices: 128476--128579 Score: 120
Period size: 20 Copynumber: 5.2 Consensus size: 20
128466 CAAAATTAAA
**
128476 TTCGCGTTGCGAATTTGAAA
1 TTCGCGTTGCGAATTTGACT
*
128496 TTC-AGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
**
128515 TTCATGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
* *
128535 ATCGAGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
*
128555 TTCGCGTTGAGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
*
128575 ATCGC
1 TTCGC
128580 AATACGAATT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
19 16 0.22
20 56 0.78
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGACT
Found at i:128588 original size:20 final size:20
Alignment explanation
Indices: 128524--128612 Score: 65
Period size: 20 Copynumber: 4.4 Consensus size: 20
128514 TTTCATGTTG
* *
128524 CGAATTTGACTATCG-AGTTG
1 CGAATTTGACTATCGCA-ATA
* **
128544 CGAATTTGACTTTCGCGTTGA
1 CGAATTTGACTATCGCAAT-A
128565 -GAATTTGACTATCGCAATA
1 CGAATTTGACTATCGCAATA
** *
128584 CGAATTTGGAAAATCGCAACA
1 CGAATTT-GACTATCGCAATA
128605 CGAATTTG
1 CGAATTTG
128613 GAAAATCGCA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 38 0.68
21 17 0.30
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (20 bp):
CGAATTTGACTATCGCAATA
Found at i:128588 original size:40 final size:40
Alignment explanation
Indices: 128504--128591 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
128494 AATTCAGTTG
* * * *
128504 CGAATTTGACTTTCATGTTGCGAATTTGACTATCGAGTTG
1 CGAATTTGACTTTCACGTTGAGAATTTGACTATCGAGATA
*
128544 CGAATTTGACTTTCGCGTTGAGAATTTGACTATCGCA-ATA
1 CGAATTTGACTTTCACGTTGAGAATTTGACTATCG-AGATA
128584 CGAATTTG
1 CGAATTTG
128592 GAAAATCGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 41 0.98
41 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (40 bp):
CGAATTTGACTTTCACGTTGAGAATTTGACTATCGAGATA
Found at i:128601 original size:21 final size:21
Alignment explanation
Indices: 128575--128624 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
128565 GAATTTGACT
128575 ATCGCAATACGAATTTGGAAA
1 ATCGCAATACGAATTTGGAAA
*
128596 ATCGCAACACGAATTTGGAAA
1 ATCGCAATACGAATTTGGAAA
128617 ATCGCAAT
1 ATCGCAAT
128625 GCGATTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCGCAATACGAATTTGGAAA
Found at i:128685 original size:20 final size:20
Alignment explanation
Indices: 128636--128689 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
128626 CGATTTACAT
*
128636 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTAGA
* *
128656 A-ACTGGGTTGCGAAATTAGA
1 ATTC-GCGTTGCGAAATTAGA
128676 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
128690 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTAGA
Found at i:129300 original size:17 final size:17
Alignment explanation
Indices: 129280--129313 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
129270 TTTATTTCAA
129280 TACACCGTTTAAAATTT
1 TACACCGTTTAAAATTT
129297 TACACCGTTTAAAATTT
1 TACACCGTTTAAAATTT
129314 AATATTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
TACACCGTTTAAAATTT
Found at i:129409 original size:143 final size:138
Alignment explanation
Indices: 129179--129466 Score: 486
Period size: 143 Copynumber: 2.1 Consensus size: 138
129169 TTTAGAATAA
* * *
129179 ATTACGTATTTAATATCTAAATTTTTTTTATTCGTTTAAATACTTAAATCTTTTATTTTTTTAAA
1 ATTAAGTATTTAATATCTAAATTTTTTTTATTCGCTTAAATACTTAAACCTTTTATTTTTTTAAA
*
129244 ATTATACTTAAAACTTAAGTTTTTATTTTATTTCAATACACCGTTTAAAATTTTACACCGTTTAA
66 ATTATACCTAAAACTTAAGTTTTTATTTTATTTCAATACACCGTTTAAAATTTTACACCGTTTAA
129309 AATTTAAT
131 AATTTAAT
129317 ATTAAGTATTTAATATCTAAATTATTATTTTTCATTCGCTTAAATACTTAAACCTTTTATTTTTT
1 ATTAAGTATTTAATATCTAAA-T-TT-TTTTT-ATTCGCTTAAATACTTAAACCTTTTA-TTTTT
*
129382 TTAAAGTTATACCTAAAACTTAAGTTTTTATTTTATTTCAATACACCGTTTAAAATTTTACACCG
61 TTAAAATTATACCTAAAACTTAAGTTTTTATTTTATTTCAATACACCGTTTAAAATTTTACACCG
129447 TTTAAAATTTAAT
126 TTTAAAATTTAAT
129460 ATTAAGT
1 ATTAAGT
129467 TTTGGAAAAA
Statistics
Matches: 140, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
138 20 0.14
139 1 0.01
140 2 0.01
141 5 0.04
142 24 0.17
143 88 0.63
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (138 bp):
ATTAAGTATTTAATATCTAAATTTTTTTTATTCGCTTAAATACTTAAACCTTTTATTTTTTTAAA
ATTATACCTAAAACTTAAGTTTTTATTTTATTTCAATACACCGTTTAAAATTTTACACCGTTTAA
AATTTAAT
Found at i:129443 original size:17 final size:17
Alignment explanation
Indices: 129423--129456 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
129413 TTTATTTCAA
129423 TACACCGTTTAAAATTT
1 TACACCGTTTAAAATTT
129440 TACACCGTTTAAAATTT
1 TACACCGTTTAAAATTT
129457 AATATTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
TACACCGTTTAAAATTT
Found at i:130343 original size:29 final size:30
Alignment explanation
Indices: 130306--130363 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
130296 ACGGAGCTAA
*
130306 AAAATTTATTTTGAG-TGTCAAATTTAAAT
1 AAAATTTATGTTGAGATGTCAAATTTAAAT
*
130335 AAAATTTATGTTGGGATGTCAAATTTAAA
1 AAAATTTATGTTGAGATGTCAAATTTAAA
130364 AATTATATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (30 bp):
AAAATTTATGTTGAGATGTCAAATTTAAAT
Found at i:133701 original size:14 final size:14
Alignment explanation
Indices: 133673--133705 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
133663 ATATATTCAT
133673 TTTTTTAAAATATA
1 TTTTTTAAAATATA
133687 TCTTTTTAAAA-ATA
1 T-TTTTTAAAATATA
133701 TTTTT
1 TTTTT
133706 AATTTGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 5 0.28
15 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTTTAAAATATA
Found at i:140114 original size:156 final size:156
Alignment explanation
Indices: 139820--140136 Score: 485
Period size: 156 Copynumber: 2.0 Consensus size: 156
139810 CAAGTAGTCT
* *
139820 CTGGATCATCATCCGTAAGATCTTTTTGTGAAGCAGAGTACATTGAAGATGTCCTCAGACTCTTC
1 CTGGACCATCATCCGTAAGATCTTTTTGTGAAGCAGAGTACATTGAAGATGTCCTCACACTCTTC
* *
139885 CTACTCTGATTCACCCTAGGTGAGACACTTAGTGTTGGCGATTTAATAATTACAGAAGAATCTCC
66 CTACTCTGATTCACCCTAGGTGAGACACTTAGTGTAGGCGATTTAATAATTACAGAAGAATCCCC
139950 ATCAGTTGTTTCCTCAGTTAGCTGGC
131 ATCAGTTGTTTCCTCAGTTAGCTGGC
* * *
139976 CTGGACCATCATCCGTGAGATCTTTTTGTGAAGTAGTGTACATTGAAGATGTCCTCACACTCTTC
1 CTGGACCATCATCCGTAAGATCTTTTTGTGAAGCAGAGTACATTGAAGATGTCCTCACACTCTTC
*
140041 CTACTCTGATTCACTCTAGGTGAGACACTTAGTGTCAGG-GATTT-ATGAATTACAGAAGAATCC
66 CTACTCTGATTCACCCTAGGTGAGACACTTAGTGT-AGGCGATTTAAT-AATTACAGAAGAATCC
** * *
140104 CCATTGGTTGTTTCCTCATTTAGTTGGC
129 CCATCAGTTGTTTCCTCAGTTAGCTGGC
*
140132 GTGGA
1 CTGGA
140137 TTCTCTTTGA
Statistics
Matches: 146, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
155 2 0.01
156 142 0.97
157 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (156 bp):
CTGGACCATCATCCGTAAGATCTTTTTGTGAAGCAGAGTACATTGAAGATGTCCTCACACTCTTC
CTACTCTGATTCACCCTAGGTGAGACACTTAGTGTAGGCGATTTAATAATTACAGAAGAATCCCC
ATCAGTTGTTTCCTCAGTTAGCTGGC
Found at i:144177 original size:21 final size:20
Alignment explanation
Indices: 144091--144248 Score: 88
Period size: 21 Copynumber: 7.8 Consensus size: 20
144081 AAATGACCAA
**
144091 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
144110 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
144130 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
144150 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
144171 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
144192 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
144212 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
144234 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
144249 ACACATAAAT
Statistics
Matches: 105, Mismatches: 27, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
19 17 0.16
20 40 0.38
21 44 0.42
22 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:144239 original size:20 final size:20
Alignment explanation
Indices: 144151--144267 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
144141 ATCAGTTTCC
* *
144151 AAAATCGCAACGCGATTCTT
1 AAAATCGCAACGCGAATATT
* *
144171 GAAAATCGCAATGCG-ATAGT
1 -AAAATCGCAACGCGAATATT
** *
144191 ACAAATTCGCATTGCG-ATTTT
1 A-AAA-TCGCAACGCGAATATT
144212 CCAAAATCGCAACGCGAATATT
1 --AAAATCGCAACGCGAATATT
* *
144234 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATT
144253 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
144268 TATCCGTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
19 2 0.03
20 35 0.45
21 33 0.42
22 7 0.09
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATT
Found at i:144277 original size:20 final size:20
Alignment explanation
Indices: 144235--144444 Score: 219
Period size: 20 Copynumber: 10.5 Consensus size: 20
144225 GCGAATATTA
* *
144235 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
144255 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
144275 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
144295 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
144315 AAATCGTAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
144335 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
144355 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
144375 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
144395 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
144415 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
144435 AAATCACAAC
1 AAATCGCAAC
144445 ACTGAAATTT
Statistics
Matches: 160, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.01
20 157 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:145165 original size:24 final size:24
Alignment explanation
Indices: 145126--145172 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
145116 AAATTTGGTC
145126 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
145150 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
145173 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:147703 original size:33 final size:33
Alignment explanation
Indices: 147652--147885 Score: 246
Period size: 33 Copynumber: 6.9 Consensus size: 33
147642 CAGAAATTAC
*
147652 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
147685 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
* *
147719 AATCGCAACGAGAGAATCGTAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
* *
147752 AATCACAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
147785 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
*
147823 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
147856 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAACGAGAAAATCGCAATGCGAAAT
147886 TATAAACGCA
Statistics
Matches: 176, Mismatches: 12, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.01
33 115 0.65
34 30 0.17
35 5 0.03
36 4 0.02
37 2 0.01
38 19 0.11
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:147761 original size:19 final size:19
Alignment explanation
Indices: 147666--147863 Score: 193
Period size: 19 Copynumber: 11.4 Consensus size: 19
147656 GCAACGAGAG
147666 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
147685 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
147699 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
147719 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
147733 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
147752 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
147771 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
147785 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
147804 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
147823 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
147837 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
147856 AATCGCAA
1 AATCGCAA
147864 CGAGAGAATC
Statistics
Matches: 146, Mismatches: 12, Indels: 42
0.73 0.06 0.21
Matches are distributed among these distances:
14 41 0.28
15 3 0.02
16 7 0.05
17 6 0.04
18 4 0.03
19 72 0.49
20 13 0.09
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:147779 original size:52 final size:52
Alignment explanation
Indices: 147694--147863 Score: 313
Period size: 52 Copynumber: 3.2 Consensus size: 52
147684 AAATCCCAAC
*
147694 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGTAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
147747 ATGAAAATCACAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
147799 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
147851 ATGAAAATCGCAA
1 ATGAAAATCGCAA
147864 CGAGAGAATC
Statistics
Matches: 114, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
52 99 0.87
53 15 0.13
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:147842 original size:14 final size:14
Alignment explanation
Indices: 147823--147877 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
147813 GCGAAATGAA
147823 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
147837 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
147856 AATCGCAACGAGAG
1 AATCGCAACGAGAG
147870 AATCGCAA
1 AATCGCAA
147878 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:148004 original size:52 final size:53
Alignment explanation
Indices: 147892--148007 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
147882 AAATTATAAA
147892 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
147945 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
147997 CGCATTGCGAT
1 CGCATTGCGAT
148008 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:148015 original size:19 final size:19
Alignment explanation
Indices: 147910--148007 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
147900 GATTCTCTCG
147910 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
147930 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
147949 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
147963 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
147982 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
148001 TTGCGAT
1 TTGCGAT
148008 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:148133 original size:14 final size:14
Alignment explanation
Indices: 148114--148150 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
148104 CATCAATTAC
148114 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
148128 ACAAATCATCTTTT
1 ACAAATCAACTTTT
148142 ACAAATCAA
1 ACAAATCAA
148151 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:150152 original size:33 final size:33
Alignment explanation
Indices: 150106--150198 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
150096 GCGAAACCAA
* *
150106 AATCGCAACGCGAAATGAAAATCGCAACGACAT
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
150139 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
150172 AATCGCAACGCGAAATAAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
150199 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:150163 original size:19 final size:19
Alignment explanation
Indices: 150069--150203 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
150059 TAGTTTACTT
* *
150069 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
150089 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
150108 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
150127 TCGCAA--CGACAT---AA
1 TCGCAACGCGAAATGAAAA
*
150141 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
150160 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
*
150174 TCGCAACGCGAAATAAAAA
1 TCGCAACGCGAAATGAAAA
*
150193 TCGCAATGCGA
1 TCGCAACGCGA
150204 TTTTGGTTTC
Statistics
Matches: 96, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.11
17 10 0.10
19 47 0.49
20 12 0.12
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:150177 original size:14 final size:14
Alignment explanation
Indices: 150125--150181 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
150115 GCGAAATGAA
* *
150125 AATCGCAACGACAT
1 AATCGCAACGAAAG
150139 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
150156 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
150172 AATCGCAACG
1 AATCGCAACG
150182 CGAAATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:150221 original size:19 final size:19
Alignment explanation
Indices: 150199--150327 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
150189 AAAATCGCAA
150199 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
150218 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
150232 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
150251 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
150265 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
150284 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
150303 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
150323 TGCGA
1 TGCGA
150328 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:150241 original size:33 final size:33
Alignment explanation
Indices: 150199--150290 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
150189 AAAATCGCAA
150199 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
150232 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
150265 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
150291 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:150495 original size:93 final size:93
Alignment explanation
Indices: 150375--150750 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
150365 ATGGATTGCA
150375 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
150439 TAGCAGAATTGGCAGCAACCAAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
150467 TTACTTTCAACCAAAAGACAAAATAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
150532 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
150560 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
150625 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
150653 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
150718 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
150746 TTACT
1 TTACT
150751 AAGCAATCTA
Statistics
Matches: 279, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 275 0.99
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:152473 original size:19 final size:19
Alignment explanation
Indices: 152449--152554 Score: 106
Period size: 19 Copynumber: 6.1 Consensus size: 19
152439 TCTTTTGGTT
152449 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
152468 GAAATGACAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
152485 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
152501 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
152518 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
152534 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
152553 GA
1 GA
152555 TTTTGGTTTC
Statistics
Matches: 71, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.28
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 39 0.55
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:152494 original size:33 final size:33
Alignment explanation
Indices: 152457--152549 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
152447 TTGAAATGAA
*
152457 AATCGCAACGCGAAATGACAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
152490 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
152523 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
152550 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:152495 original size:14 final size:14
Alignment explanation
Indices: 152476--152532 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
152466 GCGAAATGAC
152476 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
152490 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
152509 AATCGCAACGAGAG
1 AATCGCAACGAGAG
152523 AATCGCAACG
1 AATCGCAACG
152533 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:152546 original size:52 final size:51
Alignment explanation
Indices: 152449--152554 Score: 119
Period size: 52 Copynumber: 2.0 Consensus size: 51
152439 TCTTTTGGTT
* *
152449 GAAATGAAAATCGCAACGCGAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAAATGACAATCGCAAC-AGAAAATCGCAACGC
*
152501 GAAATGAAAATCGCAACGAGAGAATCG-CAA-CGCGAA-ATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGAGA-AAT-GACAATCGC-AACA-GAAAATCGCAACGC
152553 GA
1 GA
152555 TTTTGGTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
51 1 0.02
52 37 0.79
53 8 0.17
54 1 0.02
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (51 bp):
GAAATGAAAATCGCAACGAGAAATGACAATCGCAACAGAAAATCGCAACGC
Found at i:152585 original size:14 final size:14
Alignment explanation
Indices: 152566--152622 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
152556 TTTGGTTTCG
152566 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
152580 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
152599 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
152613 CGTTGCGATT
1 CGTTGCGATT
152623 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:152598 original size:33 final size:33
Alignment explanation
Indices: 152550--152630 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
152540 AAAATCGCAA
**
152550 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
152583 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
152616 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
152631 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:152633 original size:21 final size:21
Alignment explanation
Indices: 152607--152682 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
152597 CGCGTTGCGA
152607 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
152628 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
152648 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
152669 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
152683 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:152663 original size:41 final size:41
Alignment explanation
Indices: 152606--152683 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
152596 TCGCGTTGCG
*
152606 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
152647 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
152684 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Done.