Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 145 of 226
Found at i:48075123 original size:19 final size:19
Alignment explanation
Indices: 48075099--48075137 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
48075089 TTGGGCTAGA
48075099 GATTCAGATGTGTTGAGAT
1 GATTCAGATGTGTTGAGAT
48075118 GATTCAGATGTGTTGAGAT
1 GATTCAGATGTGTTGAGAT
48075137 G
1 G
48075138 GAAAGTGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.33, T:0.36
Consensus pattern (19 bp):
GATTCAGATGTGTTGAGAT
Found at i:48078197 original size:29 final size:29
Alignment explanation
Indices: 48078156--48078261 Score: 133
Period size: 29 Copynumber: 3.7 Consensus size: 29
48078146 ATAAAAAACT
* * *
48078156 TAAAATTTATATTTTGACCCCCAACTTTCC
1 TAAAA-TTACATTTTAACCCCTAACTTTCC
* *
48078186 TAAAATTATATTTTAACCCCTAACTTTTC
1 TAAAATTACATTTTAACCCCTAACTTTCC
* *
48078215 TAAAATTACA-TTTGACCCCTAATTTTCC
1 TAAAATTACATTTTAACCCCTAACTTTCC
48078243 TAAAATTACATTTTAACCC
1 TAAAATTACATTTTAACCC
48078262 TAATTTTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 25 0.37
29 37 0.55
30 5 0.07
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.41
Consensus pattern (29 bp):
TAAAATTACATTTTAACCCCTAACTTTCC
Found at i:48078242 original size:57 final size:57
Alignment explanation
Indices: 48078168--48078285 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 57
48078158 AAATTTATAT
*
48078168 TTTGACCCCCAACTTTCCTAAAATTATATTTTAACCCCTAA-CTTTTCTAAAATTACA
1 TTTGACCCCCAACTTTCCTAAAATTACATTTTAA-CCCTAATCTTTTCTAAAATTACA
* * * *
48078225 TTTGACCCCTAATTTTCCTAAAATTACATTTTAACCCTAATTTTTTTCTAAAATTATA
1 TTTGACCCCCAACTTTCCTAAAATTACATTTTAACCCTAA-TCTTTTCTAAAATTACA
48078283 TTT
1 TTT
48078286 TTTCCCTAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
56 6 0.11
57 31 0.57
58 17 0.31
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.44
Consensus pattern (57 bp):
TTTGACCCCCAACTTTCCTAAAATTACATTTTAACCCTAATCTTTTCTAAAATTACA
Found at i:48078245 original size:28 final size:28
Alignment explanation
Indices: 48078168--48078268 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
48078158 AAATTTATAT
* * *
48078168 TTTGACCCCCAACTTTCCTAAAATTATA
1 TTTGACCCCTAATTTTCCTAAAATTACA
*
48078196 TTTTAACCCCTAACTTTT-CTAAAATTACA
1 -TTTGACCCCTAA-TTTTCCTAAAATTACA
48078225 TTTGACCCCTAATTTTCCTAAAATTACA
1 TTTGACCCCTAATTTTCCTAAAATTACA
* *
48078253 TTTTAACCCTAATTTT
1 TTTGACCCCTAATTTT
48078269 TTTCTAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.06
28 36 0.57
29 20 0.32
30 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (28 bp):
TTTGACCCCTAATTTTCCTAAAATTACA
Found at i:48078785 original size:11 final size:11
Alignment explanation
Indices: 48078771--48078801 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
48078761 AAGAAGAAGA
48078771 AAAAAGAAAAC
1 AAAAAGAAAAC
48078782 AAAAAGAAAAC
1 AAAAAGAAAAC
48078793 AAAAAGAAA
1 AAAAAGAAA
48078802 GAAGAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAC
Found at i:48078813 original size:17 final size:17
Alignment explanation
Indices: 48078758--48078833 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
48078748 GTTAGGGTTT
* *
48078758 GAAAAGAAGAAGAAAAAA
1 GAAAAAAAG-AGAAGAAA
*
48078776 GAAAACAA-A-AAGAAA
1 GAAAAAAAGAGAAGAAA
* *
48078791 -ACAAAAAGAAAGAAGAAG
1 GA-AAAAA-AGAGAAGAAA
48078809 GAAAAAAAGAGAAGAAA
1 GAAAAAAAGAGAAGAAA
48078826 GAAAAAAA
1 GAAAAAAA
48078834 AATGGGGAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
14 1 0.02
15 9 0.19
16 2 0.04
17 17 0.36
18 17 0.36
19 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.20, T:0.00
Consensus pattern (17 bp):
GAAAAAAAGAGAAGAAA
Found at i:48078814 original size:39 final size:38
Alignment explanation
Indices: 48078760--48078835 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
48078750 TAGGGTTTGA
48078760 AAAGAAGAAGAAAAAAGAAAACAA-AAAGAAAACAAAAAG
1 AAAGAAGAAGAAAAAA-AAAACAAGAAAGAAAA-AAAAAG
* * *
48078799 AAAGAAGAAGGAAAAAAAGAGAAGAAAGAAAAAAAAA
1 AAAGAAGAAGAAAAAAAAAACAAGAAAGAAAAAAAAA
48078836 TGGGGAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 10 0.30
39 23 0.70
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (38 bp):
AAAGAAGAAGAAAAAAAAAACAAGAAAGAAAAAAAAAG
Found at i:48078827 original size:21 final size:17
Alignment explanation
Indices: 48078759--48078835 Score: 68
Period size: 18 Copynumber: 4.2 Consensus size: 17
48078749 TTAGGGTTTG
48078759 AAAAG-AAGAAGAAAAA
1 AAAAGAAAGAAGAAAAA
*
48078775 AGAAA-ACAAAAAGAAAACA
1 A-AAAGA-AAGAAGAAAA-A
48078794 AAAAGAAAGAAGAAGGAAA
1 AAAAGAAAGAAGAA--AAA
48078813 AAAAGAGAAGAAAGAAAAA
1 AAAAGA-AAG-AAGAAAAA
48078832 AAAA
1 AAAA
48078836 TGGGGAAGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
16 1 0.02
17 3 0.06
18 19 0.38
19 17 0.34
20 5 0.10
21 5 0.10
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAGAAAAA
Found at i:48083229 original size:14 final size:14
Alignment explanation
Indices: 48083210--48083262 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
48083200 TCTGTTTAGG
48083210 TTAGGGTTTTGGGT
1 TTAGGGTTTTGGGT
* *
48083224 TTAGGG-TTAGGATT
1 TTAGGGTTTTGG-GT
*
48083238 TTAGGGTTGTTGAGT
1 TTAGGGTT-TTGGGT
48083253 TTAGGGTTTT
1 TTAGGGTTTT
48083263 AAAAAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 10 0.32
16 2 0.06
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTTGGGT
Found at i:48083233 original size:20 final size:20
Alignment explanation
Indices: 48083203--48083245 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
48083193 TTCGTCGTCT
*
48083203 GTTTAGGTTAGGGTTTT-GG
1 GTTTAGGTTAGGATTTTAGG
48083222 GTTTAGGGTTAGGATTTTAGG
1 GTTTA-GGTTAGGATTTTAGG
48083243 GTT
1 GTT
48083246 GTTGAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.47
Consensus pattern (20 bp):
GTTTAGGTTAGGATTTTAGG
Found at i:48083415 original size:92 final size:93
Alignment explanation
Indices: 48083309--48083486 Score: 261
Period size: 93 Copynumber: 1.9 Consensus size: 93
48083299 AGGTTTCTTA
* * * * *
48083309 ATTAAATTAATTATAAATTTTT-CAAAATTAAATTAGGGTTTCGA-GTTTATGGTTCTTAAGGAA
1 ATTAAATTAATTATAAATTTTTAAAAAATTAAACTAGAGTTT-AATGTTTAGGGTTCTTAAGGAA
48083372 AAAATCAAATAAATTAGGGTTTAGGGTTG
65 AAAATCAAATAAATTAGGGTTTAGGGTTG
* *
48083401 ATTAAATTAATTATAAATTTTTAAAAAATTAGACTAGAGTTTAATGTTTAGGGTTTTTAAGGAAA
1 ATTAAATTAATTATAAATTTTTAAAAAATTAAACTAGAGTTTAATGTTTAGGGTTCTTAAGGAAA
*
48083466 AACTCAAATAAATTAGGGTTT
66 AAATCAAATAAATTAGGGTTT
48083487 GTGATTTAGG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
92 23 0.30
93 53 0.70
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (93 bp):
ATTAAATTAATTATAAATTTTTAAAAAATTAAACTAGAGTTTAATGTTTAGGGTTCTTAAGGAAA
AAATCAAATAAATTAGGGTTTAGGGTTG
Found at i:48083939 original size:126 final size:126
Alignment explanation
Indices: 48083525--48083942 Score: 584
Period size: 126 Copynumber: 3.3 Consensus size: 126
48083515 TAATTTAAAA
* * * * * *
48083525 AAGCTTCCACGTAGACGCTCTTTTGCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACATTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
* * * **
48083590 CTAATCAAATAGTGGCAAAAACGCTTTAAGCAGGATGCATTGTCCTCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
48083651 AAGCTCCCACGTGGACGCTTTTTTGCTATAGTAGCTTTTGAAAAAATAATTTCGAGTATACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
* * *
48083716 CTGAGCAAATGGTGTTAAAAACGCTTTAAGCAGGATGCGTTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * * *
48083777 AAACTCCCACGTGGACGCACTTTTGCTATAGTAGCTCCTAAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
* * * *
48083842 CTGAGAAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAT
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
48083903 AAGCTCCCATGTGGATGCTCTTTTGCTACAGTAGCTCTTG
1 AAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGCTCTTG
48083943 TTTGGCCTGA
Statistics
Matches: 255, Mismatches: 37, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
126 255 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:48088111 original size:26 final size:26
Alignment explanation
Indices: 48088070--48088127 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
48088060 ATAAGAGCAA
* *
48088070 TAATCAGGAAATTCACAAAGAACTTT
1 TAATCAGGAAACTCACAAAGAACCTT
* * *
48088096 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAACTCACAAAGAACCTT
48088122 TAATCA
1 TAATCA
48088128 AGAGCTCCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (26 bp):
TAATCAGGAAACTCACAAAGAACCTT
Found at i:48089444 original size:26 final size:26
Alignment explanation
Indices: 48089415--48089472 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
48089405 ATAAGAGCAA
* *
48089415 TAATCAAGAAGTTCACAAAGAACTTT
1 TAATCAAGAAGCTCACAAAGAACCTT
*
48089441 TAATCAAGAAGCTCACAAAGAGCCTT
1 TAATCAAGAAGCTCACAAAGAACCTT
48089467 TAATCA
1 TAATCA
48089473 GGAGCTCCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (26 bp):
TAATCAAGAAGCTCACAAAGAACCTT
Found at i:48090376 original size:6 final size:6
Alignment explanation
Indices: 48090367--48090405 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
48090357 GCTTTTATTT
*
48090367 TTTTTA TTTTTA -TTTT- TTGTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
48090406 TACAAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 7 0.24
6 22 0.76
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:48090384 original size:22 final size:22
Alignment explanation
Indices: 48090359--48090407 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
48090349 GATTTACAGC
*
48090359 TTTTATTTTTTTTATTTTTATT
1 TTTTATTATTTTTATTTTTATT
*
48090381 TTTTGTTATTTTTATTTTTATT
1 TTTTATTATTTTTATTTTTATT
48090403 TTTTA
1 TTTTA
48090408 CAAACAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTATTATTTTTATTTTTATT
Found at i:48090389 original size:16 final size:15
Alignment explanation
Indices: 48090359--48090399 Score: 73
Period size: 16 Copynumber: 2.7 Consensus size: 15
48090349 GATTTACAGC
48090359 TTTTATTTTTTTTAT
1 TTTTATTTTTTTTAT
48090374 TTTTATTTTTTGTTAT
1 TTTTATTTTTT-TTAT
48090390 TTTTATTTTT
1 TTTTATTTTT
48090400 ATTTTTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.85
Consensus pattern (15 bp):
TTTTATTTTTTTTAT
Found at i:48091016 original size:3 final size:3
Alignment explanation
Indices: 48091002--48091063 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
48090992 AAATTGTTAT
*
48091002 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA
* *
48091048 TTA TTT TTA TTT TTA T
1 TTA TTA TTA TTA TTA T
48091064 ATTCATGCGC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 45 0.90
4 4 0.08
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48091503 original size:23 final size:23
Alignment explanation
Indices: 48091477--48091520 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
48091467 CGATTTTGTT
48091477 TATT-CATT-TATTCATATTATTTC
1 TATTCCATTGTATT-AT-TTATTTC
48091500 TATTCCATTGTATTATTTATT
1 TATTCCATTGTATTATTTATT
48091521 ATTGCATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.47
24 6 0.32
25 4 0.21
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTCCATTGTATTATTTATTTC
Found at i:48091528 original size:20 final size:19
Alignment explanation
Indices: 48091491--48091537 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
48091481 CATTTATTCA
48091491 TATTATTTCTATTCCATTG
1 TATTATTTCTATTCCATTG
* *
48091510 TATTATTTATTATTGCATTG
1 TATTATTT-CTATTCCATTG
48091530 TA-TATTTC
1 TATTATTTC
48091538 ATGTAGCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (19 bp):
TATTATTTCTATTCCATTG
Found at i:48096352 original size:42 final size:44
Alignment explanation
Indices: 48096287--48096371 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
48096277 GCAGGCCACC
48096287 TAAAATATACTATCTAAAGAAGTAA-TTTATT-ATTTAATTTAAT
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTT-ATTTAAT
* *
48096330 TAAAATATAGT-TCTAAATAAGTAATTTTATTAATTTATTTAA
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAA
48096372 ACATAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 12 0.32
43 22 0.58
44 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (44 bp):
TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAAT
Found at i:48096994 original size:8 final size:8
Alignment explanation
Indices: 48096983--48097026 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
48096973 TATATTTAAA
48096983 TATATTTT
1 TATATTTT
*
48096991 TATATATT
1 TATATTTT
48096999 TATATTTTT
1 TATA-TTTT
48097008 TATAAATTTT
1 TAT--ATTTT
48097018 TATATTTT
1 TATATTTT
48097026 T
1 T
48097027 TTTTCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 17 0.55
9 6 0.19
10 7 0.23
11 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TATATTTT
Found at i:48097028 original size:10 final size:9
Alignment explanation
Indices: 48096968--48097027 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
48096958 GTTTTAGTGA
48096968 TTTTATATAT
1 TTTTATAT-T
**
48096978 TTAAATATAT
1 TTTTATAT-T
48096988 TTTTATA-T
1 TTTTATATT
*
48096996 ATTTATATT
1 TTTTATATT
*
48097005 TTTTATAAAT
1 TTTTAT-ATT
48097015 TTTTATATT
1 TTTTATATT
48097024 TTTT
1 TTTT
48097028 TTTCAAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
8 7 0.17
9 12 0.30
10 21 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATATT
Found at i:48097099 original size:25 final size:26
Alignment explanation
Indices: 48097045--48097102 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
48097035 ATACTATAAG
*
48097045 ATTTTTATATATTTGTAATTGTATGC
1 ATTTTTATATATTTGTAATTGTATAC
* *
48097071 ATTTTTATA-ATTT-TATATTTTATAT
1 ATTTTTATATATTTGTA-ATTGTATAC
48097096 ATTTTTA
1 ATTTTTA
48097103 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 17 0.61
26 9 0.32
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (26 bp):
ATTTTTATATATTTGTAATTGTATAC
Found at i:48099575 original size:58 final size:57
Alignment explanation
Indices: 48099420--48099575 Score: 135
Period size: 58 Copynumber: 2.7 Consensus size: 57
48099410 ATGTTGTATT
* * * *
48099420 ATTTATATTGTATTACATGAAATAATATAGAAATATTCAAAATATTTCCTTATTTAAAAGA
1 ATTTATATTTTATTACATGAAATAATATAGAAATATTC---A-ATTACCTTATTCAAAAAA
* * *
48099481 ATTTCTATTTTATTA-A--AAAT-ATAAAAGTAAAT-TTCAATTACTTTATTCAAAACAA
1 ATTTATATTTTATTACATGAAATAAT-ATAG-AAATATTCAATTACCTTATTCAAAA-AA
48099536 CATTT-TATTTTATTACATGAAATAATATAGAAATATTCAA
1 -ATTTATATTTTATTACATGAAATAATATAGAAATATTCAA
48099576 AATATTGCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
54 13 0.17
55 12 0.15
56 5 0.06
57 6 0.08
58 22 0.28
59 6 0.08
60 1 0.01
61 13 0.17
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (57 bp):
ATTTATATTTTATTACATGAAATAATATAGAAATATTCAATTACCTTATTCAAAAAA
Found at i:48099631 original size:30 final size:29
Alignment explanation
Indices: 48099590--48099674 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 29
48099580 TTGCCTTATT
48099590 TAAAAGAATTTCTATTTCATTAAA-AATA
1 TAAAAGAATTTCTATTTCATTAAATAATA
*
48099618 TAAAAGTAAATTTCTATTTTTTGCATGAAATAATA
1 TAAAAG--AATTTCTA---TTT-CATTAAATAATA
48099653 TAAAAGAATTTCTATTTCATTA
1 TAAAAGAATTTCTATTTCATTA
48099675 CATGAAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
28 6 0.12
29 4 0.08
30 11 0.23
33 11 0.23
34 6 0.12
35 10 0.21
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (29 bp):
TAAAAGAATTTCTATTTCATTAAATAATA
Found at i:48099684 original size:34 final size:33
Alignment explanation
Indices: 48099590--48099691 Score: 117
Period size: 34 Copynumber: 3.2 Consensus size: 33
48099580 TTGCCTTATT
48099590 TAAAAGAATTTCTATTTCA-T--T-AAA-AATA
1 TAAAAGAATTTCTATTTCATTCATGAAATAATA
*
48099618 TAAAAGTAAATTTCTATTT-TTTGCATGAAATAATA
1 TAAAAG--AATTTCTATTTCATT-CATGAAATAATA
48099653 TAAAAGAATTTCTATTTCATTACATGAAATAATA
1 TAAAAGAATTTCTATTTCATT-CATGAAATAATA
48099687 TAAAA
1 TAAAA
48099692 ATATTCAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
28 6 0.10
30 12 0.19
33 12 0.19
34 22 0.35
35 10 0.16
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (33 bp):
TAAAAGAATTTCTATTTCATTCATGAAATAATA
Found at i:48107052 original size:8 final size:9
Alignment explanation
Indices: 48107022--48107050 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
48107012 ATTTAGGCCC
48107022 TTTAAAATT
1 TTTAAAATT
48107031 TTTAAAATT
1 TTTAAAATT
48107040 TTTAAAATT
1 TTTAAAATT
48107049 TT
1 TT
48107051 AACCCTCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:48110876 original size:44 final size:44
Alignment explanation
Indices: 48110828--48111204 Score: 152
Period size: 44 Copynumber: 8.4 Consensus size: 44
48110818 CTACTACGTT
* **
48110828 TTCAGAGAGATATGACTCGTAGCTTCAATCTACTCTGCTGCAAC
1 TTCAGAGAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
* * * *
48110872 TTCAGGGAGATAAGATTGGTATCTTCAATCTACTCCACTGCAAC
1 TTCAGAGAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
* ** * * * * * *
48110916 TTC-GGGTAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGTAGC
1 TTCAGAG-AGATAAGACTCGT-AGCTTCAATCTACTCCACTGCAAC
* * * * * *
48110961 TTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGAC-CTACTGCAAC
1 TTCAGAGAGATAAGAC------TCGTAGCTTCAATCT-ACTCCACTGCAAC
* * * * * * *
48111011 TTTAGAG-GTATAAGATTCATCA-TTTTAATCTGCTCCAATGCAAC
1 TTCAGAGAG-ATAAGACTCGT-AGCTTCAATCTACTCCACTGCAAC
* * * * * *
48111055 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAAC
1 TTCAGAGAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
* * * * * *
48111099 TTCA-AGGAGATAAGATTGGTATCTTCAACCTGCTTCACTGCAAC
1 TTCAGA-GAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
* ** * * * *
48111143 TTCAGATAGATAAGGTTTGTCATCTTTAGTCTACTCCACTGCAAC
1 TTCAGAGAGATAAGACTCGT-AGCTTCAATCTACTCCACTGCAAC
* *
48111188 TTTAGGGAGATAAGACT
1 TTCAGAGAGATAAGACT
48111205 TGTTATGGTA
Statistics
Matches: 253, Mismatches: 62, Indels: 35
0.72 0.18 0.10
Matches are distributed among these distances:
43 5 0.02
44 151 0.60
45 63 0.25
46 3 0.01
49 1 0.00
50 26 0.10
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
TTCAGAGAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
Found at i:48111247 original size:227 final size:226
Alignment explanation
Indices: 48110828--48112238 Score: 1272
Period size: 227 Copynumber: 6.3 Consensus size: 226
48110818 CTACTACGTT
* * * * * *
48110828 TTCAGAGAGATATGACTCGTAGCTTCAATCTACTCTGCTGCAACTTCAGGGAGATAAGATTGGTA
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTA
* * *
48110893 TCTTCAATCTACTCCACTGCAACTTC-GGGTAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTG
66 GCTTCAATCTGCTCCACTGCAACTTCAGGG-AGATAAGGTTTGT-ATCTTCAGTCTACTCCACTG
* * * *
48110957 TAGCTTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAACTTTAGAGGTAT
129 CAACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCTGACCTACTGCAACTTCAGAGGTAT
* *
48111022 AAGATTCATCATTTTAATCTGCTCCAATGCAAC
194 AAGATTCATCATTTTAATCCGCTCCACTGCAAC
*
48111055 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAAGGAGATAAGATTGGTA
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTA
* * * ** *
48111120 TCTTCAACCTGCTTCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTAGTCTACTCCACTGC
66 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT-ATCTTCAGTCTACTCCACTGC
*
48111185 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCCGACCTACTGCAACTTCAGAGGTATA
130 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCTGACCTACTGCAACTTCAGAGGTATA
**
48111250 AGATTCATCATTTTAATCCGCTCCACTATAAC
195 AGATTCATCATTTTAATCCGCTCCACTGCAAC
* * * * * *
48111282 TTAAGGGAGATAGGATTAGTAGCTTCAA--T-CT--ACT-C--CTTCTGGGACATAGGATTAGTA
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTA
* * * * ** *
48111339 GCTTCAATCTGCTTCGCTGCAACTTCAGGGAGATATA-ATTGGTATCTTCAACCTGCTCCACTGC
66 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA-AGGTTTGTATCTTCAGTCTACTCCACTGC
* * ** * ** * *
48111403 AACTTGAGGAAGATAAGGTTTGTCA---T-C-TTTGGTCTG-CTCCACTGCAACTTCAG-GGAGA
130 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCTGAC-CTACTGCAACTTCAGAGG-TA
* * * * *
48111461 TAAGACTTGTTATGGTAGATTTAATCCGATCTACTGCAAC
193 TAAGA--T-TCAT--CA-TTTTAATCCGCTCCACTGCAAC
* * * * * * * *
48111501 TTCAGAGG-TATAAGATTCA-TCA-TTTTAATCTACTACACTGCAACTTCAGGGAGATAGGATTA
1 TTCAG-GGAGATAGGATT-AGT-AGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATT-
* * * * **
48111563 GG-AGCTTCAATCTGTTCCACTGCAACTTCAGGGAGCTAA-GATCGATATCTTCAACCTACTCCA
62 GGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TATCTTCAGTCTACTCCA
* * ** * * * *
48111626 CTGCAACTTCAAGGAGATAAGGTTTGTCA---T-C-TTTAGTCTG-CTCCACTACAACTTCAG-G
126 CTGCAACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCTGAC-CTACTGCAACTTCAGAG
* * * * * *
48111684 GATATAAGACTTGTTATGGTAGATTTAATCTGAC-CTACAGCAAC
190 G-TATAAGA--T-TCAT--CA-TTTTAATCCG-CTCCACTGCAAC
* * * * ** * * * *
48111728 TTCAGAGG-TATAGGATTCA-TCA-TTTTAATCCGCTCCATTACAACTTCAGGGAGAGAGGATTA
1 TTCAG-GGAGATAGGATT-AGT-AGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTG
* * * * *
48111790 GTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCA-ACTTGCTCCAC
63 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATCTTCAGTC-TACTCCAC
* *
48111854 TGCAACTTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTACAACTTCAGAGGT
127 TGCAACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCTGACCTACTGCAACTTCAGAGGT
* * * *
48111919 ATAGGATTTATTATTTTAATCCGCTCCACTACAAC
192 ATAAGATTCATCATTTTAATCCGCTCCACTGCAAC
* *
48111954 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGTAACTTGAGGGAGATAAGATTGGTA
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTA
* * * * *
48112019 TCTTCAACCTACTCCACTGTAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTACTCCACTGC
66 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT-ATCTTCAGTCTACTCCACTGC
* * *
48112084 AACTTCAGGCAGATAATACTTGTTATGGTACATTTAAT-TCGACCTACTGCAACTTCAGAGGTAT
130 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCT-GACCTACTGCAACTTCAGAGGTAT
*
48112148 AAGATTCATCATTTTAATCCACTCCACTGCAAC
194 AAGATTCATCATTTTAATCCGCTCCACTGCAAC
*
48112181 TTCAGGGTGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAG
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAG
48112239 GTCTGCAATT
Statistics
Matches: 995, Mismatches: 148, Indels: 82
0.81 0.12 0.07
Matches are distributed among these distances:
212 3 0.00
213 26 0.03
214 1 0.00
215 2 0.00
216 3 0.00
218 38 0.04
219 84 0.08
220 5 0.01
221 2 0.00
222 4 0.00
224 5 0.01
225 7 0.01
226 103 0.10
227 670 0.67
228 5 0.01
229 4 0.00
230 2 0.00
232 28 0.03
233 3 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (226 bp):
TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTA
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATCTTCAGTCTACTCCACTGCA
ACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCTGACCTACTGCAACTTCAGAGGTATAA
GATTCATCATTTTAATCCGCTCCACTGCAAC
Found at i:48111554 original size:263 final size:263
Alignment explanation
Indices: 48111054--48111575 Score: 850
Period size: 263 Copynumber: 2.0 Consensus size: 263
48111044 TCCAATGCAA
*
48111054 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAAGGAGATAAGATTGGT
1 CTTCAGGGACATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAAGGAGATAAGATTGGT
*
48111119 ATCTTCAACCTGCTTCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTAGTCTACTCCACTG
66 ATCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTAGTCTACTCCACTG
*
48111184 CAACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCCGACCTACTGCAACTTCAGAGGTAT
131 CAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCCGACCTACTGCAACTTCAGAGGTAT
* * * *
48111249 AAGATTCATCATTTTAATCCGCTCCACTATAACTTAAGGGAGATAGGATTAGTAGCTTCAATCTA
196 AAGATTCATCATTTTAATCCACTACACTACAACTTAAGGGAGATAGGATTAGGAGCTTCAATCTA
48111314 CTC
261 CTC
* * *
48111317 CTTCTGGGACATAGGATTAGTAGCTTCAATCTGCTTCGCTGCAACTTCAGGGAGATATA-ATTGG
1 CTTCAGGGACATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAAGGAGATA-AGATTGG
* * *
48111381 TATCTTCAACCTGCTCCACTGCAACTTGAGGA-AGATAAGGTTTGTCATCTTTGGTCTGCTCCAC
65 TATCTTCAACCTGCTCCACTGCAACTTCA-GATAGATAAGGTTTGTCATCTTTAGTCTACTCCAC
* *
48111445 TGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGATCTACTGCAACTTCAGAGGT
129 TGCAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCCGACCTACTGCAACTTCAGAGGT
* * *
48111510 ATAAGATTCATCATTTTAATCTACTACACTGCAACTTCAGGGAGATAGGATTAGGAGCTTCAATC
194 ATAAGATTCATCATTTTAATCCACTACACTACAACTTAAGGGAGATAGGATTAGGAGCTTCAATC
48111575 T
259 T
48111576 GTTCCACTGC
Statistics
Matches: 239, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
263 236 0.99
264 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (263 bp):
CTTCAGGGACATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAAGGAGATAAGATTGGT
ATCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTAGTCTACTCCACTG
CAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCCGACCTACTGCAACTTCAGAGGTAT
AAGATTCATCATTTTAATCCACTACACTACAACTTAAGGGAGATAGGATTAGGAGCTTCAATCTA
CTC
Found at i:48111781 original size:490 final size:490
Alignment explanation
Indices: 48110846--48111807 Score: 1518
Period size: 490 Copynumber: 2.0 Consensus size: 490
48110836 GATATGACTC
*
48110846 GTAGCTTCAATCTACTCTGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTACTCCACT
1 GTAGCTTCAATCTACTCTGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTACTCCACT
* * * *
48110911 GCAACTTCGGGTAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGTAGCTTTAGGGAGATAAGA
66 GCAACTTCGGGAAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
48110976 CTTGTTATGGTAGATTTAATCTGACCTACTGCAACTTTAGAGGTATAAGATTCATCATTTTAATC
131 CTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATC
* * * *
48111041 TGCTCCAATGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAAGG
196 TACTACAATGCAACTTCAGGGAGATAGGATTAGGAGCTTCAATCTGCTCCACTGCAACTTCAAGG
* * * * *
48111106 AGATAAGATTGGTATCTTCAACCTGCTTCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTA
261 AGATAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTCATCTTTA
* * *
48111171 GTCTACTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCCGACCTACTGCA
326 GTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCCGACCTACAGCA
* *
48111236 ACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTATAACTTAAGGGAGATAGGATTAG
391 ACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTACAACTTAAGGGAGAGAGGATTAG
48111301 TAGCTTCAATCTACTCCTTCTGGGACATAGGATTA
456 TAGCTTCAATCTACTCCTTCTGGGACATAGGATTA
* *
48111336 GTAGCTTCAATCTGCT-TCGCTGCAACTTCAGGGAGATATA-ATTGGTATCTTCAACCTGCTCCA
1 GTAGCTTCAATCTACTCT-GCTGCAACTTCAGGGAGATA-AGATTGGTATCTTCAACCTACTCCA
**
48111399 CTGCAACTT-GAGGAAGATAAGGTTTGTCATCTTTGGTCTGCTCCACTGCAACTTCAGGGAGATA
64 CTGCAACTTCG-GGAAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
*
48111463 AGACTTGTTATGGTAGATTTAATCCGATCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTA
128 AGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTA
* *
48111528 ATCTACTACACTGCAACTTCAGGGAGATAGGATTAGGAGCTTCAATCTGTTCCACTGCAACTTCA
193 ATCTACTACAATGCAACTTCAGGGAGATAGGATTAGGAGCTTCAATCTGCTCCACTGCAACTTCA
* *
48111593 GGGAGCTAAGATCGATATCTTCAACCTACTCCACTGCAACTTCA-AGGAGATAAGGTTTGTCATC
258 AGGAGATAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAGA-GAGATAAGGTTTGTCATC
* * * *
48111657 TTTAGTCTGCTCCACTACAACTTCAGGGATATAAGACTTGTTATGGTAGATTTAATCTGACCTAC
322 TTTAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCCGACCTAC
* * *
48111722 AGCAACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCATTACAACTTCAGGGAGAGAGGA
387 AGCAACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTACAACTTAAGGGAGAGAGGA
*
48111787 TTAGTAGCTTCAATCTGCTCC
452 TTAGTAGCTTCAATCTACTCC
48111808 GCTGCAACTT
Statistics
Matches: 430, Mismatches: 38, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
489 3 0.01
490 426 0.99
491 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (490 bp):
GTAGCTTCAATCTACTCTGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTACTCCACT
GCAACTTCGGGAAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
CTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATC
TACTACAATGCAACTTCAGGGAGATAGGATTAGGAGCTTCAATCTGCTCCACTGCAACTTCAAGG
AGATAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTCATCTTTA
GTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCCGACCTACAGCA
ACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTACAACTTAAGGGAGAGAGGATTAG
TAGCTTCAATCTACTCCTTCTGGGACATAGGATTA
Found at i:48111891 original size:409 final size:409
Alignment explanation
Indices: 48111358--48112282 Score: 1316
Period size: 409 Copynumber: 2.3 Consensus size: 409
48111348 TGCTTCGCTG
** * * * * * *
48111358 CAACTTCAGGGAGATATAATTGGTATCTTCAACCTGCTCCACTGCAACTTGAGGAAGATAAGGTT
1 CAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGTT
* ***
48111423 TGTCATCTT-TGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATC
66 GGT-ATCTTCAACT-TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATC
* * * *
48111487 CGATCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCTACTACACTGCAACTTCAGGG
129 CGACCTACTACAACTTCAGAGGTATAAGATTCATCATTTTAATCCACTACACTACAACTTCAGGG
* *
48111552 AGATAGGATTAGGAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGCTAAGATCGATATCTTCAA
194 AGATAGGATTAGGAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCGATATCTTCAA
*
48111617 CCTACTCCACTGCAACTTCAAGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTACAACTTCA
259 CCTACTCCACTGCAACTTCAAGGAGATAAGGTTTGTCATCTTTAGTCTACTCCACTACAACTTCA
* * * *
48111682 GGGATATAAGACTTGTTATGGTAGATTTAA-TCTGACCTACAGCAACTTCAGAGGTATAGGATTC
324 GGCAGATAAGACTTGTTATGGTACATTTAATTC-GACCTACAGCAACTTCAGAGGTATAAGATTC
* *
48111746 ATCATTTTAATCCGCTCCATTA
388 ATCATTTTAATCCACTCCACTA
* *
48111768 CAACTTCAGGGAGAGAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGTT
* *
48111833 GGTATCTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCTG
66 GGTATCTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCG
* * * * *
48111898 ACCTACTACAACTTCAGAGGTATAGGATTTATTATTTTAATCCGCTCCACTACAACTTCAGGGAG
131 ACCTACTACAACTTCAGAGGTATAAGATTCATCATTTTAATCCACTACACTACAACTTCAGGGAG
* * * * * *
48111963 ATAGGATTAGTAGCTTCAATCTGCTCCGCTGTAACTTGAGGGAGATAAGATTGGTATCTTCAACC
196 ATAGGATTAGGAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCGATATCTTCAACC
* * *
48112028 TACTCCACTGTAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTACTCCACTGCAACTTCAGG
261 TACTCCACTGCAACTTCAAGGAGATAAGGTTTGTCATCTTTAGTCTACTCCACTACAACTTCAGG
* *
48112093 CAGATAATACTTGTTATGGTACATTTAATTCGACCTACTGCAACTTCAGAGGTATAAGATTCATC
326 CAGATAAGACTTGTTATGGTACATTTAATTCGACCTACAGCAACTTCAGAGGTATAAGATTCATC
*
48112158 ATTTTAATCCACTCCACTG
391 ATTTTAATCCACTCCACTA
*
48112177 CAACTTCAGGGTGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGTC
1 CAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGT-
** * * * *
48112242 TGCAAT-TTCAACATGCCCCACTGTAACTTCAGGGGGATAAG
65 TGGTATCTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAG
48112283 GCTAGTGTCT
Statistics
Matches: 456, Mismatches: 56, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
409 392 0.86
410 64 0.14
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (409 bp):
CAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGTT
GGTATCTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCG
ACCTACTACAACTTCAGAGGTATAAGATTCATCATTTTAATCCACTACACTACAACTTCAGGGAG
ATAGGATTAGGAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCGATATCTTCAACC
TACTCCACTGCAACTTCAAGGAGATAAGGTTTGTCATCTTTAGTCTACTCCACTACAACTTCAGG
CAGATAAGACTTGTTATGGTACATTTAATTCGACCTACAGCAACTTCAGAGGTATAAGATTCATC
ATTTTAATCCACTCCACTA
Found at i:48111893 original size:138 final size:138
Alignment explanation
Indices: 48111435--48112012 Score: 320
Period size: 138 Copynumber: 4.2 Consensus size: 138
48111425 TCATCTTTGG
* * * *
48111435 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGATCTACTGCAA
1 TCTGCTCCACTGCAACTTGAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCCACTACAA
* * * * * * ** * * *
48111500 CTTCAGAGGTATAAGATTCA-TCATTTTAATCTACTACACTGCAACTTCAGGGAGATAGGATTAG
66 CTTCAGAGGGAGAGGATTTAGT-ACTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTAG
*
48111564 GAGCTTCAA
130 TAGCTTCAA
* * * * ** * * *
48111573 TCTGTTCCACTGCAACTTCAGGGAGCTAAGA-TCG--A---TATCTTCAA-CCTACTCCACTGCA
1 TCTGCTCCACTGCAACTTGAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGAC-CCACTACA
* * * * *
48111631 ACTTCA-AGGAGATAAGG-TTT-GTCATCTTTAGTCTGCTCCACTACAACTTCAGGGATATAAGA
65 ACTTCAGAGG-GA-GAGGATTTAGT-A-CTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGA
* *
48111693 CTTGTTATGGTAGATTTAA
126 ----TTA--GTAGCTTCAA
* * * * * * * * *
48111712 TCTGAC-CTACAGCAACTTCAGAGG-TATAGGA--T-TCAT--CA-TTTTAATCCG-CTCCATTA
1 TCTG-CTCCACTGCAACTTGAG-GGAGATAAGACTTGTTATGGTAGATTTAATCCGAC-CCACTA
* * *
48111768 CAACTTCAG-GGAGAGAGGA-TTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGA
63 CAACTTCAGAGG-GAGAGGATTTAGTA-CTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGA
* *
48111831 TTGGTATCTTCAA
126 TTAGTAGCTTCAA
* * *
48111844 -CTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTACA
1 TC-TGCTCCACTGCAACTTGAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCCACTACA
* * * * * *
48111908 ACTTCAGAGGTATAGGATTTATTATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAG
65 ACTTCAGAGGGAGAGGATTTAGTACTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTAG
48111973 TAGCTTCAA
130 TAGCTTCAA
* *
48111982 TCTGCTCCGCTGTAACTTGAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTGAGGGAGATAAGA
48112013 TTGGTATCTT
Statistics
Matches: 335, Mismatches: 72, Indels: 66
0.71 0.15 0.14
Matches are distributed among these distances:
131 10 0.03
132 51 0.15
133 32 0.10
134 3 0.01
135 4 0.01
137 6 0.02
138 161 0.48
139 63 0.19
140 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (138 bp):
TCTGCTCCACTGCAACTTGAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCCACTACAA
CTTCAGAGGGAGAGGATTTAGTACTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTAGT
AGCTTCAA
Found at i:48111912 original size:182 final size:182
Alignment explanation
Indices: 48111611--48112055 Score: 669
Period size: 182 Copynumber: 2.4 Consensus size: 182
48111601 AGATCGATAT
* * * * * * * * *
48111611 CTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGGTTTGTCATCTT-TAGTCTGCTCCACTAC
1 CTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGT-ATCTTCAACT-TGCTCCACTGC
*
48111675 AACTTCAGGGATATAAGACTTGTTATGGTAGATTTAATCTGACCTACAGCAACTTCAGAGGTATA
64 AACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACAGCAACTTCAGAGGTATA
*
48111740 GGATTCATCATTTTAATCCGCTCCATTACAACTTCAGGGAGAGAGGATTAGTAG
129 GGATTCATCATTTTAATCCGCTCCACTACAACTTCAGGGAGAGAGGATTAGTAG
48111794 CTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACTTGCTCCACTGCAA
1 CTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACTTGCTCCACTGCAA
*
48111859 CTTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTA-CAACTTCAGAGGTATAG
66 CTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTAC-AGCAACTTCAGAGGTATAG
* * *
48111923 GATTTATTATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAG
130 GATTCATCATTTTAATCCGCTCCACTACAACTTCAGGGAGAGAGGATTAGTAG
* * * * *
48111976 CTTCAATCTGCTCCGCTGTAACTTGAGGGAGATAAGATTGGTATCTTCAACCTACTCCACTGTAA
1 CTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACTTGCTCCACTGCAA
48112041 CTTCAGGGAGATAAG
66 CTTCAGGGAGATAAG
48112056 GTTTGTCATC
Statistics
Matches: 239, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
182 200 0.84
183 39 0.16
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (182 bp):
CTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACTTGCTCCACTGCAA
CTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACAGCAACTTCAGAGGTATAGG
ATTCATCATTTTAATCCGCTCCACTACAACTTCAGGGAGAGAGGATTAGTAG
Found at i:48112082 original size:45 final size:44
Alignment explanation
Indices: 48111333--48112309 Score: 336
Period size: 44 Copynumber: 21.6 Consensus size: 44
48111323 GGACATAGGA
* * * * *
48111333 TTAGTAGCTTCAATCTGCTTCGCTGCAACTTCAGGGAGATATA-A
1 TTAGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATA-AGG
* * * * *
48111377 TTGGTATCTTCAACCTGCTCCACTGCAACTTGAGGAAGATAAGG
1 TTAGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* *** *
48111421 TTTGTCATCTTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
1 TTAGT-ATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG----G
** * * * * *
48111470 TTATGGTAGATTTAATCCGA-TCTACTGCAACTTCAGAGG-TATAAGA
1 TTA--GTATCTTCAAT-CTACTCCACTGCAACTTCAG-GGAGATAAGG
* *
48111516 TTCA-TCAT-TTTAATCTACTACACTGCAACTTCAGGGAGAT-AGG
1 TT-AGT-ATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * ** *
48111559 ATTAGGAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGCTAA-G
1 -TTAGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * * *
48111603 ATCGATATCTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGG
1 TTAG-TATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * * * * *
48111648 TTTGTCATCTTTAGTCTGCTCCACTACAACTTCAGGGATATAAGACTTG
1 TTAGT-ATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG----G
** * * * *
48111697 TTATGGTAGATTTAATCTGAC-CTACAGCAACTTCA--GAGGTATAGG
1 TTA--GTATCTTCAATCT-ACTCCACTGCAACTTCAGGGAGATA-AGG
* ** * * *
48111742 ATTCA-TCAT-TTTAATCCGCTCCATTACAACTTCAGGGAGA-GAGG
1 -TT-AGT-ATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * * *
48111786 ATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGA
1 -TTAGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * *
48111831 TTGGTATCTTCAA-CTTGCTCCACTGCAACTTTAGGGAGATAAGACTTG
1 TTAGTATCTTCAATC-TACTCCACTGCAACTTCAGGGAGATAAG----G
** * * * *
48111879 TTATGGTAGATTTAATCTGAC-CTACTACAACTTCA--GAGGTATAGG
1 TTA--GTATCTTCAATCT-ACTCCACTGCAACTTCAGGGAGATA-AGG
* * ** *
48111924 ATTTATTAT-TTTAATCCGCTCCACTACAACTTCAGGGAGAT-AGG
1 --TTAGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * * * * *
48111968 ATTAGTAGCTTCAATCTGCTCCGCTGTAACTTGAGGGAGATAAGA
1 -TTAGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * *
48112013 TTGGTATCTTCAACCTACTCCACTGTAACTTCAGGGAGATAAGG
1 TTAGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * * * *
48112057 TTTGTCATCTTTAGTCTACTCCACTGCAACTTCAGGCAGATAATACTTG
1 TTAGT-ATCTTCAATCTACTCCACTGCAACTTCAGGGAGAT-A-A--GG
* * * * *
48112106 TTATGGTA-CATTTAATTCGAC-CTACTGCAACTTCAGAGG-TATAAGA
1 TTA--GTATC-TTCAA-TCTACTCCACTGCAACTTCAG-GGAGATAAGG
* * *
48112152 TTCA-TCAT-TTTAATCCACTCCACTGCAACTTCAGGGTGAT-AGG
1 TT-AGT-ATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * *
48112195 ATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGG
1 -TTAGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
* * * * *
48112240 TCT-GCAAT-TTCAA-CATGCCCCACTGTAACTTCAGGGGGATAAGG
1 T-TAG-TATCTTCAATC-TACTCCACTGCAACTTCAGGGAGATAAGG
* * * *
48112284 CTAGTGTCTTCGATCTACTTCACTGC
1 TTAGTATCTTCAATCTACTCCACTGC
48112310 CAATACAAGA
Statistics
Matches: 694, Mismatches: 159, Indels: 160
0.69 0.16 0.16
Matches are distributed among these distances:
43 34 0.05
44 397 0.57
45 114 0.16
46 14 0.02
47 7 0.01
48 12 0.02
49 15 0.02
50 84 0.12
51 17 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
TTAGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGG
Found at i:48113750 original size:8 final size:8
Alignment explanation
Indices: 48113737--48113798 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
48113727 TGCTCCGAAG
48113737 GTTTTTTT
1 GTTTTTTT
48113745 G--TTTTT
1 GTTTTTTT
48113751 G-TTTTTT
1 GTTTTTTT
* *
48113758 ATTTTCTT
1 GTTTTTTT
*
48113766 ATTTTTTT
1 GTTTTTTT
48113774 GTTTGTTTT
1 GTTT-TTTT
48113783 -TGTTTTTT
1 GT-TTTTTT
48113791 GTTTTTTT
1 GTTTTTTT
48113799 CCTCCACTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 6 0.13
7 5 0.11
8 27 0.60
9 7 0.16
ACGTcount: A:0.03, C:0.02, G:0.11, T:0.84
Consensus pattern (8 bp):
GTTTTTTT
Found at i:48113755 original size:5 final size:6
Alignment explanation
Indices: 48113740--48113796 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
48113730 TCCGAAGGTT
* *
48113740 TTTTTG TTTTTG TTTTT- TATTTTC TTATT- TTTTTG --TTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTTTG TTTTTG
48113785 TTTTTTG TTTTT
1 -TTTTTG TTTTT
48113797 TTCCTCCACT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
4 4 0.09
5 5 0.12
6 27 0.63
7 7 0.16
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:48113756 original size:7 final size:7
Alignment explanation
Indices: 48113739--48113797 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
48113729 CTCCGAAGGT
48113739 TTTTTTG
1 TTTTTTG
48113746 -TTTTTG
1 TTTTTTG
*
48113752 TTTTTTA
1 TTTTTTG
48113759 TTTTCTT-
1 TTTT-TTG
*
48113766 ATTTTT-
1 TTTTTTG
*
48113772 TTGTTTG
1 TTTTTTG
48113779 -TTTTTG
1 TTTTTTG
48113785 TTTTTTG
1 TTTTTTG
48113792 TTTTTT
1 TTTTTT
48113798 TCCTCCACTG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
6 17 0.40
7 24 0.56
8 2 0.05
ACGTcount: A:0.03, C:0.02, G:0.10, T:0.85
Consensus pattern (7 bp):
TTTTTTG
Found at i:48120927 original size:15 final size:13
Alignment explanation
Indices: 48120896--48120935 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 13
48120886 CACCAATTTT
48120896 TTTAAAATAAA-A
1 TTTAAAATAAATA
48120908 TTTAAAATAAATCTA
1 TTTAAAATAAA--TA
48120923 TTTAAAATAAATA
1 TTTAAAATAAATA
48120936 GATTAGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.44
13 2 0.08
15 12 0.48
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAAAATAAATA
Found at i:48122924 original size:3 final size:3
Alignment explanation
Indices: 48122918--48122951 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
48122908 ATAACATTAT
* *
48122918 TAA TAA TAG TAA TAA TAA TAA TAC TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
48122952 GAAAGCAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48122936 original size:15 final size:15
Alignment explanation
Indices: 48122918--48122973 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
48122908 ATAACATTAT
48122918 TAATAATAGTAATAA
1 TAATAATAGTAATAA
*
48122933 TAATAATACTAATAA
1 TAATAATAGTAATAA
*
48122948 TAATGAA-AGCAATAA
1 TAAT-AATAGTAATAA
* *
48122963 TTATAAGAGTA
1 TAATAATAGTA
48122974 CAAAAATAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 2 0.06
15 30 0.88
16 2 0.06
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (15 bp):
TAATAATAGTAATAA
Found at i:48127908 original size:6 final size:6
Alignment explanation
Indices: 48127897--48127933 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
48127887 TATATTTTTA
48127897 TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT T
48127934 TAAACAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:48128593 original size:5 final size:5
Alignment explanation
Indices: 48128583--48128608 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48128573 TGAGCATTCG
48128583 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
48128609 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:48129638 original size:9 final size:9
Alignment explanation
Indices: 48129621--48129657 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
48129611 TATAGTTTGA
48129621 TATTCGAAT
1 TATTCGAAT
*
48129630 TATTTGAAT
1 TATTCGAAT
*
48129639 TATTCGAGT
1 TATTCGAAT
48129648 TATTCGAAT
1 TATTCGAAT
48129657 T
1 T
48129658 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:48130942 original size:20 final size:20
Alignment explanation
Indices: 48130917--48130956 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48130907 ATCAAGCCTC
*
48130917 TATTTATTTTTTGTAACTTA
1 TATTTATTCTTTGTAACTTA
48130937 TATTTATTCTTTGTAACTTA
1 TATTTATTCTTTGTAACTTA
48130957 AATAGAGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (20 bp):
TATTTATTCTTTGTAACTTA
Found at i:48145987 original size:26 final size:25
Alignment explanation
Indices: 48145957--48146037 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
48145947 CCGGAGCTCT
48145957 TGATTAAAAGCTCTTCATGAGCTTCC
1 TGATTAAAAGCTCTT-ATGAGCTTCC
* * *
48145983 TGATTAAAAGTTCTTTGTGAACTTCC
1 TGATTAAAAGCTC-TTATGAGCTTCC
* **
48146009 TAATT-ATTGCTCTTATGAGCTTCC
1 TGATTAAAAGCTCTTATGAGCTTCC
48146033 T-ATTA
1 TGATTA
48146038 TATAGCCCAG
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
23 3 0.07
24 11 0.25
25 4 0.09
26 24 0.55
27 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (25 bp):
TGATTAAAAGCTCTTATGAGCTTCC
Found at i:48146169 original size:23 final size:23
Alignment explanation
Indices: 48146139--48146182 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
48146129 TGGATGAAAA
*
48146139 GCTCTTTGTGAGCTTCTTGATAG
1 GCTCTTTGTGAGCTTCCTGATAG
48146162 GCTCTTTGTGAGCTTCCTGAT
1 GCTCTTTGTGAGCTTCCTGAT
48146183 TACATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (23 bp):
GCTCTTTGTGAGCTTCCTGATAG
Found at i:48147359 original size:26 final size:26
Alignment explanation
Indices: 48147328--48147383 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
48147318 GGAGCTTTTG
* *
48147328 ATTAAAGGCTCTTCGTGAGCTTCCTA
1 ATTAAAAGCTCTTCGTGAACTTCCTA
* * *
48147354 ATTAAAAGTTCTTTGTGAACTTCCTG
1 ATTAAAAGCTCTTCGTGAACTTCCTA
48147380 ATTA
1 ATTA
48147384 TTGCTCTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (26 bp):
ATTAAAAGCTCTTCGTGAACTTCCTA
Found at i:48153972 original size:32 final size:32
Alignment explanation
Indices: 48153931--48154003 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
48153921 ATTATTAATG
48153931 TTAAATTTAAATAAATTGATTAAAATTTTTAT
1 TTAAATTTAAATAAATTGATTAAAATTTTTAT
48153963 TTAAATTTAAATAAATTGATTAAAATTTTTAT
1 TTAAATTTAAATAAATTGATTAAAATTTTTAT
*
48153995 TTATATTTA
1 TTAAATTTA
48154004 TTAATTTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (32 bp):
TTAAATTTAAATAAATTGATTAAAATTTTTAT
Found at i:48156434 original size:21 final size:20
Alignment explanation
Indices: 48156400--48156450 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
48156390 GAAACAGAAA
48156400 AAAACTC-CAAACAAAGTT-C
1 AAAACTCACAAAC-AAGTTAC
48156419 AAAACTCACAACACAAGTTAC
1 AAAACTCACAA-ACAAGTTAC
48156440 ACAAA-TCACAA
1 A-AAACTCACAA
48156451 GCAAATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.25
20 8 0.29
21 10 0.36
22 3 0.11
ACGTcount: A:0.55, C:0.27, G:0.04, T:0.14
Consensus pattern (20 bp):
AAAACTCACAAACAAGTTAC
Found at i:48157465 original size:18 final size:19
Alignment explanation
Indices: 48157442--48157482 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
48157432 TTTAAATACA
48157442 TTTATTTTAT-TATATCAT
1 TTTATTTTATCTATATCAT
*
48157460 TTTA-TTTATCTATATCCT
1 TTTATTTTATCTATATCAT
48157478 TTTAT
1 TTTAT
48157483 ATAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTATCTATATCAT
Found at i:48157520 original size:3 final size:3
Alignment explanation
Indices: 48157505--48157557 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
48157495 TTTAAGATTT
* * **
48157505 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48157553 TTA TT
1 TTA TT
48157558 CTTAAATTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:48157584 original size:33 final size:33
Alignment explanation
Indices: 48157547--48157661 Score: 79
Period size: 34 Copynumber: 3.2 Consensus size: 33
48157537 ATTATTATTA
48157547 TTATTATTATTCTTAAATTGTTTTACACAATAT
1 TTATTATTATTCTTAAATTGTTTTACACAATAT
* **
48157580 TTATTTATTTATTTCTATAATATTAGGTCTGTAGCTTTAA-ATT
1 TTA-TTA-TTA-TTCT-TAA-ATT--GT-TTTA-C-ACAATA-T
*
48157623 TTGTTTATTATTCTTAAATTGTTTTACACAATAT
1 TT-ATTATTATTCTTAAATTGTTTTACACAATAT
48157657 TTATT
1 TTATT
48157662 TATTTATTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 26
0.64 0.08 0.27
Matches are distributed among these distances:
33 5 0.08
34 8 0.13
35 5 0.08
36 7 0.11
37 5 0.08
38 3 0.05
39 3 0.05
40 5 0.08
41 7 0.11
42 5 0.08
43 8 0.13
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.57
Consensus pattern (33 bp):
TTATTATTATTCTTAAATTGTTTTACACAATAT
Found at i:48157630 original size:43 final size:43
Alignment explanation
Indices: 48157583--48157706 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 43
48157573 ACAATATTTA
48157583 TTTATTTATTTCTATAATATTAGGTCTGTAGCTTTAAATTTTG
1 TTTATTTATTTCTATAATATTAGGTCTGTAGCTTTAAATTTTG
* *
48157626 TTTA-TTA-TTCT-TAA-ATT--GT-TTTA-C---ACAATATTTA
1 TTTATTTATTTCTATAATATTAGGTCTGTAGCTTTA-AAT-TTTG
48157660 TTTATTTATTTCTATAATATTAGGTCTGTAGCTTTAAATTTTG
1 TTTATTTATTTCTATAATATTAGGTCTGTAGCTTTAAATTTTG
48157703 TTTA
1 TTTA
48157707 CTTTTTTTGG
Statistics
Matches: 64, Mismatches: 4, Indels: 26
0.68 0.04 0.28
Matches are distributed among these distances:
32 1 0.02
33 3 0.05
34 7 0.11
35 4 0.06
36 7 0.11
37 5 0.08
38 3 0.05
39 3 0.05
40 5 0.08
41 7 0.11
42 4 0.06
43 11 0.17
44 3 0.05
45 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.56
Consensus pattern (43 bp):
TTTATTTATTTCTATAATATTAGGTCTGTAGCTTTAAATTTTG
Found at i:48157642 original size:77 final size:77
Alignment explanation
Indices: 48157550--48157706 Score: 314
Period size: 77 Copynumber: 2.0 Consensus size: 77
48157540 ATTATTATTA
48157550 TTATTATTCTTAAATTGTTTTACACAATATTTATTTATTTATTTCTATAATATTAGGTCTGTAGC
1 TTATTATTCTTAAATTGTTTTACACAATATTTATTTATTTATTTCTATAATATTAGGTCTGTAGC
48157615 TTTAAATTTTGT
66 TTTAAATTTTGT
48157627 TTATTATTCTTAAATTGTTTTACACAATATTTATTTATTTATTTCTATAATATTAGGTCTGTAGC
1 TTATTATTCTTAAATTGTTTTACACAATATTTATTTATTTATTTCTATAATATTAGGTCTGTAGC
48157692 TTTAAATTTTGT
66 TTTAAATTTTGT
48157704 TTA
1 TTA
48157707 CTTTTTTTGG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.56
Consensus pattern (77 bp):
TTATTATTCTTAAATTGTTTTACACAATATTTATTTATTTATTTCTATAATATTAGGTCTGTAGC
TTTAAATTTTGT
Found at i:48160141 original size:13 final size:13
Alignment explanation
Indices: 48160109--48160146 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
48160099 TAGTTAATTA
48160109 AATTAT-TTAATTT
1 AATTATATT-ATTT
48160122 AATTTATATTATTT
1 AA-TTATATTATTT
48160136 AATTATATTAT
1 AATTATATTAT
48160147 ACATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 10 0.43
15 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTATATTATTT
Found at i:48161125 original size:18 final size:18
Alignment explanation
Indices: 48161093--48161131 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
48161083 ACCTTTTATG
* *
48161093 TATCCTCCTCCTCAAATA
1 TATCCTCCACATCAAATA
*
48161111 TATCCTCCACATCAATTA
1 TATCCTCCACATCAAATA
48161129 TAT
1 TAT
48161132 GAAAACCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (18 bp):
TATCCTCCACATCAAATA
Found at i:48174168 original size:46 final size:46
Alignment explanation
Indices: 48174073--48174315 Score: 328
Period size: 46 Copynumber: 5.3 Consensus size: 46
48174063 TACCCCGTTT
* * *
48174073 TGGACAACATTTATACATCAAATTGGACAACATCAATATGCTC-AAA
1 TGGACAGCA-TTATACATCAAATTGGACAGCATCAATATACTCAAAA
* *
48174119 TGGACAGTATTATACATCAAATTGGAGAGCATCAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
* * *
48174165 TGGACAGCATTATGCATCAAATTGGACAGCTTTAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
* ** * *
48174211 TGGACAGCATTATACATCAAAATGGACAGC-TTTATATGCTCAAAT
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
*
48174256 TGGATAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
*
48174302 TGGACAACATTATA
1 TGGACAGCATTATA
48174316 ACATATAAAA
Statistics
Matches: 172, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
45 70 0.41
46 102 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (46 bp):
TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
Found at i:48174253 original size:91 final size:92
Alignment explanation
Indices: 48174073--48174315 Score: 328
Period size: 91 Copynumber: 2.7 Consensus size: 92
48174063 TACCCCGTTT
* * * *
48174073 TGGACAACATTTATACATCAAATTGGACAACATCAATATGCTC-AAATGGACAGTATTATACATC
1 TGGACAGCA-TTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATC
* *
48174137 AAATTGGAGAGCATCAATATACTCAAAA
65 AAAATGGACAGCATCAATATACTCAAAA
* * *
48174165 TGGACAGCATTATGCATCAAATTGGACAGCTTTAATATACTCAAAATGGACAGCATTATACATCA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCA
** * *
48174230 AAATGGACAGC-TTTATATGCTCAAAT
66 AAATGGACAGCATCAATATACTCAAAA
* *
48174256 TGGATAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAACATTATA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATA
48174316 ACATATAAAA
Statistics
Matches: 132, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
91 94 0.71
92 38 0.29
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (92 bp):
TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCA
AAATGGACAGCATCAATATACTCAAAA
Found at i:48174655 original size:18 final size:18
Alignment explanation
Indices: 48174632--48174669 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48174622 TCAAAAGTAC
48174632 AAACTTATAAGGTACCGA
1 AAACTTATAAGGTACCGA
48174650 AAACTTATAAGGTACCGA
1 AAACTTATAAGGTACCGA
48174668 AA
1 AA
48174670 TAGCAATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (18 bp):
AAACTTATAAGGTACCGA
Found at i:48186049 original size:19 final size:21
Alignment explanation
Indices: 48186010--48186057 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
48186000 ATCTCTTCAT
48186010 ATAA-ATATCATATATCATAC
1 ATAATATATCATATATCATAC
*
48186030 ATCATATATC-TATATC-TAC
1 ATAATATATCATATATCATAC
48186049 ATAATATAT
1 ATAATATAT
48186058 ATTATAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 9 0.36
21 5 0.20
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATATATCATATATCATAC
Found at i:48186555 original size:192 final size:190
Alignment explanation
Indices: 48186205--48186601 Score: 507
Period size: 193 Copynumber: 2.1 Consensus size: 190
48186195 GCAGACCACC
* *
48186205 TAAAATATACTATCTAAATAAGTAATTTATTATTTATTTAAACTTAAATTAATTAATATTAAAAA
1 TAAAATATAGT-TCTAAATAAGTAATTTATTATTTATTTAAACATAAATTAATTAATATTAAAAA
* ** ** *
48186270 TAGAATTTACAATATATTAATATACTTCAAATTTAATAAATTTAAATTTGAAATTTTAATTGGAT
65 TAGAATTCACAATATATTAATATACTTCAAATTTAATAAATTTAAAAATGAAATTTTAA-TAAAA
* * * *
48186335 TTTTCAAACTTAATAAAGTTTATCTATTTAAGTAT-ATAAAAAATAAATTATAT-AATTTAAT
129 ATTTCAAAATTAATAAAGTTTATCTATTTAAGTATAAT-AAAAATAAAATAAATCAATTTAAT
48186396 TAAAATATAGTTCTAAATAAGTAATTTTATTAATTTATTTAAACATAAATTAATTAATATTTAAA
1 TAAAATATAGTTCTAAATAAGTAA-TTTATT-ATTTATTTAAACATAAATTAATTAATA-TTAAA
* * * *
48186461 ATTAGAATTCACATTATATTAATCTACTTCAAATTTAATAAATTTAAAAAAT-AATTTTTTTAA-
63 AATAGAATTCACAATATATTAATATACTTCAAATTTAATAAATTT-AAAAATGAA--ATTTTAAT
** *
48186524 AAAAATTT-AAAATTAATAATTTTTCTCTATTTAAGTATAATAAAAATAAAATAAATCAATTTAA
125 AAAAATTTCAAAATTAATAAAGTTTATCTATTTAAGTATAATAAAAATAAAATAAATCAATTTAA
48186588 T
190 T
48186589 TAAAATATAGTTC
1 TAAAATATAGTTC
48186602 GTTAATTTAT
Statistics
Matches: 179, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
190 13 0.07
191 16 0.09
192 65 0.36
193 75 0.42
194 4 0.02
195 6 0.03
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (190 bp):
TAAAATATAGTTCTAAATAAGTAATTTATTATTTATTTAAACATAAATTAATTAATATTAAAAAT
AGAATTCACAATATATTAATATACTTCAAATTTAATAAATTTAAAAATGAAATTTTAATAAAAAT
TTCAAAATTAATAAAGTTTATCTATTTAAGTATAATAAAAATAAAATAAATCAATTTAAT
Found at i:48186663 original size:16 final size:18
Alignment explanation
Indices: 48186642--48186678 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
48186632 TTTAAATTGC
48186642 ATATTTTAAAA-AATA-A
1 ATATTTTAAAATAATAGA
48186658 ATA-TTTAAAATAATAGA
1 ATATTTTAAAATAATAGA
48186675 ATAT
1 ATAT
48186679 AAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.39
16 7 0.39
17 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATATTTTAAAATAATAGA
Found at i:48186696 original size:16 final size:16
Alignment explanation
Indices: 48186648--48186697 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
48186638 TTGCATATTT
*
48186648 TAAAA-AATAAATATT
1 TAAAATAATAAATATA
*
48186663 TAAAATAATAGA-ATA
1 TAAAATAATAAATATA
*
48186678 TAAAATAATATATATA
1 TAAAATAATAAATATA
48186694 TAAA
1 TAAA
48186698 TTTACTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
TAAAATAATAAATATA
Found at i:48187091 original size:50 final size:50
Alignment explanation
Indices: 48187037--48187143 Score: 205
Period size: 50 Copynumber: 2.1 Consensus size: 50
48187027 AATAATAATA
48187037 CTTTGATTAGTCAAATTTGAATATTTTAGGTAACTTTGGGAGCGAGGACT
1 CTTTGATTAGTCAAATTTGAATATTTTAGGTAACTTTGGGAGCGAGGACT
*
48187087 CTTTGATTAGTCAAATTTGAATATTTTAGGTAACTTTGGGAGCTAGGACT
1 CTTTGATTAGTCAAATTTGAATATTTTAGGTAACTTTGGGAGCGAGGACT
48187137 CTTTGAT
1 CTTTGAT
48187144 ATTTGCTTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.40
Consensus pattern (50 bp):
CTTTGATTAGTCAAATTTGAATATTTTAGGTAACTTTGGGAGCGAGGACT
Found at i:48188264 original size:31 final size:31
Alignment explanation
Indices: 48188216--48188293 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
48188206 ATAGGGTTTA
* * *
48188216 AATATG-AAATATTAATGATTATAGGATATG
1 AATATGAAAATATGAATGACTACAGGATATG
* *
48188246 AATGTGAAAATATGAATGACTACAGGGTATG
1 AATATGAAAATATGAATGACTACAGGATATG
*
48188277 AATATGCAAATATGAAT
1 AATATGAAAATATGAAT
48188294 AGTATGAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (31 bp):
AATATGAAAATATGAATGACTACAGGATATG
Found at i:48194472 original size:40 final size:39
Alignment explanation
Indices: 48194417--48194527 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 39
48194407 AGGGCTTCAA
* * *
48194417 AAGTAGAAAAAGGGGCACGTATGTGCATTCAAGCGTACTG
1 AAGTACAAACAGGGGCACATATGTGCATTCAAG-GTACTG
* *
48194457 AAGTATAAACAGGGGCACATATGTGCATTCCTAGGTACTG
1 AAGTACAAACAGGGGCACATATGTGCATT-CAAGGTACTG
*
48194497 AAGTACAAACAGGGGCACCTATGTGCATTCA
1 AAGTACAAACAGGGGCACATATGTGCATTCA
48194528 GACAATAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.02
40 59 0.94
41 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (39 bp):
AAGTACAAACAGGGGCACATATGTGCATTCAAGGTACTG
Found at i:48198936 original size:27 final size:27
Alignment explanation
Indices: 48198897--48199038 Score: 140
Period size: 27 Copynumber: 5.3 Consensus size: 27
48198887 AAAGGTCGAT
* *
48198897 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCAAAATACCCCCAAAGGGTA
* * *
48198924 AAATGACCAAAATATCCCTAAATGGTA
1 AAATGACCAAAATACCCCCAAAGGGTA
* ** **
48198951 AAATAACTGAAATACCCCTGAAGGGTA
1 AAATGACCAAAATACCCCCAAAGGGTA
*
48198978 AAATGACCAAAATACCCTCAAAGGGTA
1 AAATGACCAAAATACCCCCAAAGGGTA
** ** *
48199005 AAACAATTAAAATACCCCCATAGGGTA
1 AAATGACCAAAATACCCCCAAAGGGTA
48199032 AAATGAC
1 AAATGAC
48199039 TGTTATACCC
Statistics
Matches: 89, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATACCCCCAAAGGGTA
Found at i:48198987 original size:54 final size:54
Alignment explanation
Indices: 48198905--48199038 Score: 191
Period size: 54 Copynumber: 2.5 Consensus size: 54
48198895 ATAAATGACC
* *
48198905 GAAATACCCCCATAGGGTAAAATGACCAAAATATCCCT-AAATGGTAAAATAACT
1 GAAATACCCCCATAGGGTAAAATGACCAAAATA-CCCTCAAAGGGTAAAACAACT
* *
48198959 GAAATACCCCTGA-AGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAACAATT
1 GAAATACCCC-CATAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAACAACT
*
48199013 AAAATACCCCCATAGGGTAAAATGAC
1 GAAATACCCCCATAGGGTAAAATGAC
48199039 TGTTATACCC
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
53 5 0.07
54 65 0.92
55 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.18
Consensus pattern (54 bp):
GAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAACAACT
Found at i:48199032 original size:81 final size:81
Alignment explanation
Indices: 48198897--48199050 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
48198887 AAAGGTCGAT
* * ** * * *
48198897 AAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATATCCCTAAATGGTAAAATAACTGAA
1 AAATGACCAAAATACCCCCAAAGGGTAAAACAACCAAAATACCCCCAAAGGGTAAAATAACTGAA
48198962 ATACCCCTGAAGGGTA
66 ATACCCCTGAAGGGTA
* ** * * **
48198978 AAATGACCAAAATACCCTCAAAGGGTAAAACAATTAAAATACCCCCATAGGGTAAAATGACTGTT
1 AAATGACCAAAATACCCCCAAAGGGTAAAACAACCAAAATACCCCCAAAGGGTAAAATAACTGAA
48199043 ATACCCCT
66 ATACCCCT
48199051 AGGATTCGAA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.19
Consensus pattern (81 bp):
AAATGACCAAAATACCCCCAAAGGGTAAAACAACCAAAATACCCCCAAAGGGTAAAATAACTGAA
ATACCCCTGAAGGGTA
Found at i:48199243 original size:26 final size:26
Alignment explanation
Indices: 48199204--48199257 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
48199194 GGAAATATAT
48199204 TGTTACTGGCAGCTTTGCTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
* *
48199230 TGTTACTGGTAGCTTTGTTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
48199256 TG
1 TG
48199258 GTGTGTTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.39
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGATAC
Found at i:48199365 original size:28 final size:28
Alignment explanation
Indices: 48199333--48199410 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 28
48199323 GATATTATGC
*
48199333 TGGGCAAAGGCCCACACTATTACTGTAT
1 TGGGCTAAGGCCCACACTATTACTGTAT
* * *
48199361 TGGGCTGAGACCCACACTGTTACTGTAT
1 TGGGCTAAGGCCCACACTATTACTGTAT
*
48199389 TGGGCTAAGGCCCACACAATTA
1 TGGGCTAAGGCCCACACTATTA
48199411 TTGTTACTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (28 bp):
TGGGCTAAGGCCCACACTATTACTGTAT
Found at i:48201725 original size:16 final size:16
Alignment explanation
Indices: 48201704--48201750 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
48201694 CTGATTGTTT
48201704 TTATTTTT-TTATTTTA
1 TTATTTTTCTT-TTTTA
48201720 TTATTTTTCTTTTTTA
1 TTATTTTTCTTTTTTA
48201736 TT-TTTTTCCTTTTTT
1 TTATTTTT-CTTTTTT
48201751 CCTTTTTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.17
16 22 0.76
17 2 0.07
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (16 bp):
TTATTTTTCTTTTTTA
Found at i:48201748 original size:7 final size:8
Alignment explanation
Indices: 48201723--48201772 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
48201713 TATTTTATTA
48201723 TTTTT-CT
1 TTTTTCCT
**
48201730 TTTTTATT
1 TTTTTCCT
48201738 TTTTTCCT
1 TTTTTCCT
48201746 TTTTTCCT
1 TTTTTCCT
*
48201754 TTTTTCCC
1 TTTTTCCT
48201762 TTTTTCCT
1 TTTTTCCT
48201770 TTT
1 TTT
48201773 CCTCCTTTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
7 5 0.14
8 32 0.86
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCCT
Found at i:48201748 original size:21 final size:21
Alignment explanation
Indices: 48201708--48201748 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48201698 TTGTTTTTAT
*
48201708 TTTTTTATTTTATTATTTTTC
1 TTTTTTATTTTATTACTTTTC
* *
48201729 TTTTTTATTTTTTTCCTTTT
1 TTTTTTATTTTATTACTTTT
48201749 TTCCTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTATTTTATTACTTTTC
Found at i:48202550 original size:28 final size:28
Alignment explanation
Indices: 48202476--48202599 Score: 70
Period size: 29 Copynumber: 4.2 Consensus size: 28
48202466 GGCAAAAGCA
* * *
48202476 TAATTTTATAAAAATATAGGGTCAAAATG
1 TAATTTTA-GAAAATTTAGGGCCAAAATG
* * * *
48202505 TAATTTTTTGAAAGTTTAGGGCCCAAATT
1 TAA-TTTTAGAAAATTTAGGGCCAAAATG
** *
48202534 TAATTTTAGAAAATTTAAAGGGTTAAAATA
1 TAATTTTAGAAAATTT--AGGGCCAAAATG
* * *
48202564 TAATTAT-GAAAAATTTAAGAGCTAAAATG
1 TAATTTTAG-AAAATTT-AGGGCCAAAATG
48202593 TAATTTT
1 TAATTTT
48202600 TATTTTTTGT
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
28 11 0.15
29 37 0.51
30 25 0.34
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.38
Consensus pattern (28 bp):
TAATTTTAGAAAATTTAGGGCCAAAATG
Found at i:48202903 original size:75 final size:75
Alignment explanation
Indices: 48202803--48203922 Score: 1484
Period size: 75 Copynumber: 14.8 Consensus size: 75
48202793 AAATAGTAGA
** * * *
48202803 GTATGTGACCCAAAACTCAACTCACCTCTCG-AGTTATGAGTTGATCTTTGAGAAACAGAAATTG
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCA-ATATGAGTTGATTTTTGAAAAACAGAAATT-
48202867 AAA-ATACCTC-
64 AAAGATACCTCG
* * * * * * **
48202877 AT-TGTGCCGCTCAAGGCTCAGCTCACCTCTTGGATTACAAGTTGATTTTTGAAAAAC-GTAAAT
1 GTATGTGAC-C-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AAAT
48202940 TAAAAGAAATACCTCG
63 T-AAAG--ATACCTCG
** * * * *
48202956 GCGTGCGGCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAAAAATTCA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-A
48203021 AA-ATACCTCG
65 AAGATACCTCG
* * * *
48203031 GCATGTGACCCGAGGCTCAACACACCTCTCGTAATATGAGTTGATTTTTTGAAAAACAGAAATTA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTA
*
48203096 AAGATACCACG
65 AAGATACCTCG
* * * * *
48203107 GTATGTGACCCGAGGCTCAAGTCACCTCTCGCAATATGAGTT-TTTTTTAAAAAACAAAAATTAA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
48203171 AGATACCTCA
66 AGATACCTCG
* * *
48203181 GTATGTGACCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAAGAGAAATTAA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
48203246 AGATACCTCG
66 AGATACCTCG
48203256 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
48203321 AGATACCTCG
66 AGATACCTCG
* *
48203331 GTATGTGACCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGTAATTAA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
48203396 AGATACCTCG
66 AGATACCTCG
48203406 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
48203471 AGATACCCCG
66 AGATACCTCG
* *
48203481 GTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATT
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT
48203546 AAAGATACCTCG
64 AAAGATACCTCG
* ** *
48203558 GTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-ATTTTTGAAAATTAGATATTAA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
48203622 AGATACC-CTG
66 AGATACCTC-G
* * * *
48203632 GTATGTGACCCGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAATAGCAGAAATT
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT
*
48203697 AAAGATACTTCG
64 AAAGATACCTCG
* ** * *
48203709 GTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCAAAAAATAGAGATTAA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
48203774 AGATACCTCG
66 AGATACCTCG
* * * * *
48203784 GTATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTGTTGAGAAATAGAAATTAA
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
48203849 AGATACCTTG
66 AGATACCTCG
* * *
48203859 GTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTGAAAAACAAAAATT
1 GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT
48203923 GAAAAATATA
Statistics
Matches: 937, Mismatches: 88, Indels: 40
0.88 0.08 0.04
Matches are distributed among these distances:
73 6 0.01
74 137 0.15
75 514 0.55
76 80 0.09
77 138 0.15
78 57 0.06
79 1 0.00
80 4 0.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (75 bp):
GTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
AGATACCTCG
Found at i:48203531 original size:378 final size:376
Alignment explanation
Indices: 48202802--48203922 Score: 1553
Period size: 378 Copynumber: 3.0 Consensus size: 376
48202792 AAAATAGTAG
* ** ** * *
48202802 AGTATGTGACCCAAAACTCAACTCACCTCTCGAGTTATGAGTTGATCTTTGAGAAACAGAAATTG
1 AGTATGTGACCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATT-
* * * * * * **
48202867 AAA-ATACCTC-AT-TGTGCCGCTCAAGGCTCAGCTCACCTCTTGGATTACAAGTTGATTTTTGA
65 AAAGATACCTCGGTATGTGAC-C-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
** * * *
48202929 AAAAC-GTAAATTAAAAGAAATACCTCGGCGTGCGGCCCAAGGCTCAACTCACCTCTCGCATTAT
128 AAAACAG-AAATT-AAAG--ATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATAT
* * *
48202993 GAGTTGATTTTTGAAAAACAAAAATTCAAA-ATACCTCGGCATGTGACCCGAGGCTCAACACACC
189 GAGTTGATTTTTGAAAAAC-AGAATT-AAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACC
*
48203057 TCTCGTAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAGATACCACGGTATGTGACCCGAGG
252 TCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAGATACCACGGTATGTGACCCGAGG
* *
48203122 CTCAAGTCACCTCTCGCAATATGAG-T--TTTTTTTAAAAAACAAAAATTAAAGATACCTC
316 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAGATACCTC
*
48203180 AGTATGTGACCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAAGAGAAATTA
1 AGTATGTGACCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTA
48203245 AAGATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
66 AAGATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
*
48203310 ACAGAAATTAAAGATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGA
131 ACAGAAATTAAAGATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
48203375 TTTTTGAAAAACAGTAATTAAAGATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAA
196 TTTTTGAAAAACAG-AATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
48203440 TATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCCCGGTATGTGACCCGAGGCTCAACTCA
260 TATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCACGGTATGTGACCCGAGGCTCAACTCA
* *
48203505 CCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTAAAGATACCTC
325 CCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAGATACCTC
* * ** *
48203557 GGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-ATTTTTGAAAATTAGATATTA
1 AGTATGTGACCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTA
* *
48203621 AAGATACC-CTGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGA
66 AAGATACCTC-GGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
* * * *
48203685 ATAGCAGAAATTAAAGATACTTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
128 AAAACAGAAATTAAAGATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGT
** * *
48203750 TGATTTTCAAAAAATAGAGATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCA
193 TGATTTTTGAAAAACAGA-ATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCG
* * * **
48203815 CAATATGAGTTGATTGTTGAGAAATAGAAATTAAAGATACCTTGGTATGTGACCCGAGGCTCAAC
257 CAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCACGGTATGTGACCCGAGGCTCAAC
*
48203880 TCACCTCTCGTAATATGAGTTGA-TTTTTTGAAAAACAAAAATT
322 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATT
48203923 GAAAAATATA
Statistics
Matches: 673, Mismatches: 57, Indels: 27
0.89 0.08 0.04
Matches are distributed among these distances:
374 73 0.11
375 112 0.17
376 69 0.10
377 96 0.14
378 315 0.47
379 3 0.00
380 5 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (376 bp):
AGTATGTGACCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTA
AAGATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
ACAGAAATTAAAGATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAAACAGAATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCACGGTATGTGACCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAGATACCTC
Found at i:48204793 original size:13 final size:13
Alignment explanation
Indices: 48204777--48204806 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48204767 ACCTTGATTT
48204777 TTTTCTTTTTTTG
1 TTTTCTTTTTTTG
*
48204790 TTTTGTTTTTTTG
1 TTTTCTTTTTTTG
48204803 TTTT
1 TTTT
48204807 TAGGCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (13 bp):
TTTTCTTTTTTTG
Found at i:48216057 original size:7 final size:7
Alignment explanation
Indices: 48216054--48216104 Score: 57
Period size: 7 Copynumber: 6.9 Consensus size: 7
48216044 CTTTTTTGTT
48216054 TTTTTTC
1 TTTTTTC
*
48216061 TTTTCTC
1 TTTTTTC
48216068 TTTTTTC
1 TTTTTTC
48216075 TTTTTTCC
1 TTTTTT-C
48216083 TTTTCTTC
1 TTTT-TTC
*
48216091 CTTTTTC
1 TTTTTTC
48216098 TATTTTT
1 T-TTTTT
48216105 TTCATGTAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 21 0.57
8 14 0.38
9 2 0.05
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTTC
Found at i:48216071 original size:16 final size:16
Alignment explanation
Indices: 48216052--48216107 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
48216042 GCCTTTTTTG
48216052 TTTTTTTTCTTTTCTC
1 TTTTTTTTCTTTTCTC
48216068 TTTTTTCTT-TTTTC-C
1 TTTTTT-TTCTTTTCTC
* *
48216083 TTTTCTTCCTTTT-TC
1 TTTTTTTTCTTTTCTC
48216098 TATTTTTTTC
1 T-TTTTTTTC
48216108 ATGTAGTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.03
15 12 0.38
16 17 0.53
17 2 0.06
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTCTTTTCTC
Found at i:48216078 original size:23 final size:24
Alignment explanation
Indices: 48216044--48216107 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
48216034 CAATTCGGGC
*
48216044 CTTTTTTGTTTTTTTTCTTTTC-T
1 CTTTTTTCTTTTTTTTCTTTTCTT
*
48216067 CTTTTTTC-TTTTTTCCTTTTCTT
1 CTTTTTTCTTTTTTTTCTTTTCTT
*
48216090 CCTTTTTCTATTTTTTTC
1 CTTTTTTCT-TTTTTTTC
48216108 ATGTAGTTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 12 0.35
23 15 0.44
25 7 0.21
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (24 bp):
CTTTTTTCTTTTTTTTCTTTTCTT
Found at i:48216311 original size:12 final size:12
Alignment explanation
Indices: 48216296--48216334 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
48216286 TCGCTCTCTT
48216296 TTTTCTTTTCTC
1 TTTTCTTTTCTC
48216308 TTTTCTTTTCTC
1 TTTTCTTTTCTC
**
48216320 CCTTCTTTT-TC
1 TTTTCTTTTCTC
48216331 TTTT
1 TTTT
48216335 TGGTTGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCTTTTCTC
Found at i:48216316 original size:19 final size:18
Alignment explanation
Indices: 48216292--48216335 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
48216282 CTCCTCGCTC
**
48216292 TCTTTTTTCTTTTCTCTTT
1 TCTTTTTTCCCTTCT-TTT
*
48216311 TCTTTTCTCCCTTCTTTT
1 TCTTTTTTCCCTTCTTTT
48216329 TCTTTTT
1 TCTTTTT
48216336 GGTTGCTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (18 bp):
TCTTTTTTCCCTTCTTTT
Found at i:48222825 original size:29 final size:29
Alignment explanation
Indices: 48222776--48222835 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
48222766 TGGGACAACT
48222776 CACTAAGGGAGAAAGATGCCCAAACCATC
1 CACTAAGGGAGAAAGATGCCCAAACCATC
* *
48222805 CACTAAGGGAGCAATGA-GCCCAAGCCATC
1 CACTAAGGGAG-AAAGATGCCCAAACCATC
48222834 CA
1 CA
48222836 TGTGACTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.38, C:0.30, G:0.22, T:0.10
Consensus pattern (29 bp):
CACTAAGGGAGAAAGATGCCCAAACCATC
Found at i:48224117 original size:71 final size:72
Alignment explanation
Indices: 48223997--48224136 Score: 165
Period size: 71 Copynumber: 1.9 Consensus size: 72
48223987 CACTGTGACA
* * ** *
48223997 ATGGTCTATCGACTTTATGGAGCGACACTGTGACGGTGGTTATCAACTAG-CGCTAGAGTGACAC
1 ATGGTCTATCGACTCTATCGAGCGACACTGTGACGGCAGTTATCAACTAGCCACTAGAGTGACAC
48224061 CGTGATG
66 CGTGATG
* * * * **
48224068 ATGGTCTATTGACTCTATCGAGTGACATTGTGATGGCAGTTATTGACTAGCTCACTAGAGTGACA
1 ATGGTCTATCGACTCTATCGAGCGACACTGTGACGGCAGTTATCAACTAGC-CACTAGAGTGACA
48224133 CCGT
65 CCGT
48224137 CACAATGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
71 40 0.71
73 16 0.29
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (72 bp):
ATGGTCTATCGACTCTATCGAGCGACACTGTGACGGCAGTTATCAACTAGCCACTAGAGTGACAC
CGTGATG
Found at i:48226148 original size:22 final size:22
Alignment explanation
Indices: 48226123--48226164 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
48226113 AATTAATCAC
48226123 TCACTCATCATT-CATTCTTCAT
1 TCACTCA-CATTCCATTCTTCAT
48226145 TCACTCACATTCCATTCTTC
1 TCACTCACATTCCATTCTTC
48226165 TCTTTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (22 bp):
TCACTCACATTCCATTCTTCAT
Found at i:48236207 original size:42 final size:43
Alignment explanation
Indices: 48236147--48236229 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 43
48236137 AGCATTTACA
** *
48236147 AAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAG
1 AAAATAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAG
48236190 AAAA-AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTT
1 AAAATAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTT
48236230 TCTTCACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 33 0.89
43 4 0.11
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (43 bp):
AAAATAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAG
Found at i:48236284 original size:43 final size:43
Alignment explanation
Indices: 48236152--48236291 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 43
48236142 TTACAAAAAT
** * * *
48236152 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTAGAAAA
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTGTAAA
* *
48236194 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTCT-TCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTT-TGTAAA
* * *
48236237 AAACGCCGCTATAGAATATGA-CTTTTAGCGGCGCTTTTGTGAA
1 AAACGCCGCTAAAGAACATGATC-TTTAGCGGCGCTTTTGTAAA
*
48236280 AAACGCCACTAA
1 AAACGCCGCTAA
48236292 TTTGGGATTT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 33 0.41
43 48 0.59
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTGTAAA
Found at i:48254446 original size:20 final size:21
Alignment explanation
Indices: 48254413--48254461 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
48254403 AATAAAAATT
*
48254413 ATAAAAAT-TATTAAACTGTA
1 ATAAAAATATATTAAAATGTA
*
48254433 ATAAAAATAT-TTAAAATTTA
1 ATAAAAATATATTAAAATGTA
*
48254453 CTAAAAATA
1 ATAAAAATA
48254462 GAATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAAAAATATATTAAAATGTA
Found at i:48254448 original size:29 final size:28
Alignment explanation
Indices: 48254377--48254450 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
48254367 CACATATGAC
**
48254377 AAAAATATTATAAAAAAATTAAAATCAAT
1 AAAAATATT-TAAAATTATTAAAATCAAT
* * *
48254406 AAAAAT-TATAAAAATTATTAAACTGTAAT
1 AAAAATAT-TTAAAATTATTAAAAT-CAAT
48254435 AAAAATATTTAAAATT
1 AAAAATATTTAAAATT
48254451 TACTAAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
28 12 0.33
29 23 0.64
30 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAAATATTTAAAATTATTAAAATCAAT
Found at i:48256769 original size:18 final size:17
Alignment explanation
Indices: 48256725--48256769 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
48256715 ATTTCAAAAT
48256725 ATTATAAAAATATTAAA
1 ATTATAAAAATATTAAA
* *
48256742 ATTTTCAAAAATATTGATA
1 ATTAT-AAAAATATT-AAA
48256761 ATTATAAAA
1 ATTATAAAA
48256770 TTTATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
ATTATAAAAATATTAAA
Found at i:48258978 original size:16 final size:16
Alignment explanation
Indices: 48258957--48258989 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48258947 AGAAGGATTC
48258957 AAACCCAAAAATTCTT
1 AAACCCAAAAATTCTT
48258973 AAACCCAAAAATTCTT
1 AAACCCAAAAATTCTT
48258989 A
1 A
48258990 CACACACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (16 bp):
AAACCCAAAAATTCTT
Found at i:48262183 original size:15 final size:16
Alignment explanation
Indices: 48262163--48262196 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
48262153 AGATTAAATT
48262163 AATTAG-CTAAATGCA
1 AATTAGCCTAAATGCA
48262178 AATTAGCCTAAATGCA
1 AATTAGCCTAAATGCA
48262194 AAT
1 AAT
48262197 GGGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (16 bp):
AATTAGCCTAAATGCA
Found at i:48262218 original size:75 final size:75
Alignment explanation
Indices: 48262129--48262282 Score: 281
Period size: 75 Copynumber: 2.1 Consensus size: 75
48262119 AAGAAAACAT
*
48262129 AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAGCCTAAATGCA
1 AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAACCTAAATGCA
48262194 AATGGGATGA
66 AATGGGATGA
**
48262204 AATAATTTGGGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAACCTAAATGCA
1 AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAACCTAAATGCA
48262269 AATGGGATGA
66 AATGGGATGA
48262279 AATA
1 AATA
48262283 TGAAAGGTGA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (75 bp):
AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAACCTAAATGCA
AATGGGATGA
Found at i:48266531 original size:147 final size:147
Alignment explanation
Indices: 48266368--48266651 Score: 514
Period size: 147 Copynumber: 1.9 Consensus size: 147
48266358 ACAAAAATAA
*
48266368 TTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATGATTCATAC
1 TTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATGATTCATAA
* *
48266433 CATATATCAAAGTATTTCGAAATAAATACTTTCGCTTTTTATTTTTAATAGTTGGAGTTGATACG
66 CATATATCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTATTTTTAATAGTTGGAGTTGATACG
48266498 TTAGATAAAAAAATTTT
131 TTAGATAAAAAAATTTT
48266515 TTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATGATTCATAA
1 TTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATGATTCATAA
* * *
48266580 CATATTTCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTCTTTTTAATATTTGGAGTTGATACG
66 CATATATCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTATTTTTAATAGTTGGAGTTGATACG
48266645 TTAGATA
131 TTAGATA
48266652 CAGATAGATC
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
147 131 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (147 bp):
TTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATGATTCATAA
CATATATCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTATTTTTAATAGTTGGAGTTGATACG
TTAGATAAAAAAATTTT
Found at i:48266688 original size:9 final size:11
Alignment explanation
Indices: 48266662--48266687 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48266652 CAGATAGATC
48266662 ATATATTGTAA
1 ATATATTGTAA
48266673 ATATATTGTAA
1 ATATATTGTAA
48266684 ATAT
1 ATAT
48266688 TTGGAGTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (11 bp):
ATATATTGTAA
Found at i:48267855 original size:14 final size:14
Alignment explanation
Indices: 48267838--48267864 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48267828 ATGAGGAGAA
48267838 ATAATTTTTCTTGG
1 ATAATTTTTCTTGG
48267852 ATAATTTTTCTTG
1 ATAATTTTTCTTG
48267865 CAAACTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
ATAATTTTTCTTGG
Found at i:48271636 original size:14 final size:14
Alignment explanation
Indices: 48271605--48271699 Score: 50
Period size: 14 Copynumber: 6.8 Consensus size: 14
48271595 ATTTAAATTT
*
48271605 TAAATCCTAAAC-C
1 TAAATTCTAAACAC
48271618 ATAAATTCTAAACAC
1 -TAAATTCTAAACAC
* * ***
48271633 TAAATTTTATATTT
1 TAAATTCTAAACAC
* * *
48271647 TGAACTCTAAACCC
1 TAAATTCTAAACAC
* *
48271661 TATATTC-AAATCAT
1 TAAATTCTAAA-CAC
48271675 TAAATTCTAAACAC
1 TAAATTCTAAACAC
*
48271689 TAAATTTTAAA
1 TAAATTCTAAA
48271700 TCTCAAACTC
Statistics
Matches: 57, Mismatches: 21, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
13 3 0.05
14 50 0.88
15 4 0.07
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (14 bp):
TAAATTCTAAACAC
Found at i:48271683 original size:28 final size:28
Alignment explanation
Indices: 48271649--48271733 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
48271639 TTATATTTTG
*
48271649 AACTCTAAACCCTATATTCAAATCATTA
1 AACTCTAAACCCTATATTTAAATCATTA
* * * *
48271677 AATTCTAAACACTAAATTTTAAATC-TCA
1 AACTCTAAACCCTATA-TTTAAATCATTA
*
48271705 AACTCAAAACCCTATATTTAAATCATTA
1 AACTCTAAACCCTATATTTAAATCATTA
48271733 A
1 A
48271734 GTGCATCATA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 8 0.18
28 30 0.67
29 7 0.16
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (28 bp):
AACTCTAAACCCTATATTTAAATCATTA
Found at i:48271683 original size:56 final size:56
Alignment explanation
Indices: 48271619--48271733 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 56
48271609 TCCTAAACCA
* * ** *
48271619 TAAATTCTAAACACTAAATTTTATATTTTGAACTCTAAACCCTATATTCAAATCAT
1 TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTCAAATCAT
*
48271675 TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTTAAATCAT
1 TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTCAAATCAT
48271731 TAA
1 TAA
48271734 GTGCATCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (56 bp):
TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTCAAATCAT
Found at i:48271783 original size:20 final size:19
Alignment explanation
Indices: 48271747--48271786 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
48271737 CATCATACTC
* *
48271747 ATAAAAACAAAATATAGAA
1 ATAAAAAAAAAACATAGAA
48271766 ATAAAAAAATAAACATAGAA
1 ATAAAAAAA-AAACATAGAA
48271786 A
1 A
48271787 ATATAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (19 bp):
ATAAAAAAAAAACATAGAA
Found at i:48272484 original size:24 final size:24
Alignment explanation
Indices: 48272439--48272484 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
48272429 TAACTAAAAT
** *
48272439 AAATAATATATAACCTATATAATA
1 AAATAATATATAAAATAAATAATA
*
48272463 AAATAATATTTAAAATAAATAA
1 AAATAATATATAAAATAAATAA
48272485 CATTCTATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAATATATAAAATAAATAATA
Found at i:48272724 original size:3 final size:3
Alignment explanation
Indices: 48272716--48272778 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
48272706 ACAACTTCAT
48272716 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48272764 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
48272779 CAGGGTAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:48273421 original size:2 final size:2
Alignment explanation
Indices: 48273414--48273455 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
48273404 CAAATGCAAC
* * *
48273414 TA TA TA TA CA AA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48273456 AAATATAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:48273942 original size:76 final size:76
Alignment explanation
Indices: 48273859--48274185 Score: 349
Period size: 76 Copynumber: 4.3 Consensus size: 76
48273849 TGGTAATTCC
* * *
48273859 GAGGCTCAACTCATTTCTTGAAAACATAATCAATTTTTGATAAAATGATAATTGAAAGGACCTCA
1 GAGGCTCAACCCATTTCTTGAAAACATAATCAATTTTTGATAAAATGACAACTGAAAGGACCTCA
*
48273924 ACAACAATCCT
66 ACGACAATCCT
* * ** * * * *
48273935 GACGCTCAACCCATTTCTTGAAAACAGAATCGCTTTTTGATAAAATGATAGCTGAAAGAACCTAA
1 GAGGCTCAACCCATTTCTTGAAAACATAATCAATTTTTGATAAAATGACAACTGAAAGGACCTCA
*
48274000 ATGACAATCCT
66 ACGACAATCCT
* * * *
48274011 GAGGCTCGACCCATTTCTTGAAAACA-AATTCAATTTTTGATAAAATGACAACTAAAAAGACATC
1 GAGGCTCAACCCATTTCTTGAAAACATAA-TCAATTTTTGATAAAATGACAACTGAAAGGACCTC
*
48274075 AACGTCAAT-CT
65 AACGACAATCCT
* * * *
48274086 CGAGGCTCGATCCATTTCTTGAAAACAT-ATCCAATTTTTCATCAAATGACAACTGAAAGGACCT
1 -GAGGCTCAACCCATTTCTTGAAAACATAAT-CAATTTTTGATAAAATGACAACTGAAAGGACCT
** *
48274150 TGACGATAAT-CT
64 CAACGACAATCCT
*
48274162 CAAGGCTCAACCCATTTCTT-AAAA
1 -GAGGCTCAACCCATTTCTTGAAAA
48274186 TGAATTCGAT
Statistics
Matches: 210, Mismatches: 37, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
75 9 0.04
76 201 0.96
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.28
Consensus pattern (76 bp):
GAGGCTCAACCCATTTCTTGAAAACATAATCAATTTTTGATAAAATGACAACTGAAAGGACCTCA
ACGACAATCCT
Found at i:48285464 original size:9 final size:9
Alignment explanation
Indices: 48285450--48285476 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
48285440 CAAGTATTTG
48285450 CTTGAAAGA
1 CTTGAAAGA
48285459 CTTGAAAGA
1 CTTGAAAGA
48285468 CTTGAAAGA
1 CTTGAAAGA
48285477 AACTCATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (9 bp):
CTTGAAAGA
Found at i:48295307 original size:16 final size:16
Alignment explanation
Indices: 48295286--48295316 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48295276 TATGTTAGAG
48295286 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
48295302 CATATATATTTGAAA
1 CATATAAATTTGAAA
48295317 AAAATTTCAA
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:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:48295521 original size:19 final size:20
Alignment explanation
Indices: 48295497--48295562 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
48295487 ATAAATATTG
48295497 GAATTTTTATAAA-TATTTT
1 GAATTTTTATAAATTATTTT
*
48295516 GAA-TTTTA-AAAGTTATCTT
1 GAATTTTTATAAA-TTATTTT
48295535 GAATTTTT-TAAAATTATTTT
1 GAATTTTTAT-AAATTATTTT
48295555 GAATTTTT
1 GAATTTTT
48295563 TTTTATAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 3 0.08
18 5 0.12
19 11 0.28
20 18 0.45
21 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
GAATTTTTATAAATTATTTT
Found at i:48296006 original size:17 final size:18
Alignment explanation
Indices: 48295984--48296024 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
48295974 TAACATATTT
48295984 AATAAAGTAATA-TTTA-A
1 AATAAA-TAATATTTTATA
48296001 AATAAATAATATTTTATA
1 AATAAATAATATTTTATA
48296019 AATAAA
1 AATAAA
48296025 AATTGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AATAAATAATATTTTATA
Found at i:48314920 original size:23 final size:20
Alignment explanation
Indices: 48314890--48314950 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 20
48314880 AAAGAGAAAG
48314890 AATTTCTGTAAAATCAGTCAA
1 AATTTCTGTAAAATCAGT-AA
*
48314911 TTAATTTCTGTAAAATTTCTGTAA
1 --AATTTCTGTAAAA--TCAGTAA
48314935 AATTTCTGTAAAATCA
1 AATTTCTGTAAAATCA
48314951 AACAATCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.06
22 13 0.38
23 13 0.38
24 2 0.06
25 4 0.12
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.41
Consensus pattern (20 bp):
AATTTCTGTAAAATCAGTAA
Found at i:48314929 original size:11 final size:11
Alignment explanation
Indices: 48314913--48314948 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
48314903 TCAGTCAATT
48314913 AATTTCTGTAA
1 AATTTCTGTAA
48314924 AATTTCTGTAA
1 AATTTCTGTAA
48314935 AATTTCTGTAA
1 AATTTCTGTAA
48314946 AAT
1 AAT
48314949 CAAACAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
AATTTCTGTAA
Found at i:48319156 original size:13 final size:13
Alignment explanation
Indices: 48319095--48319158 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
48319085 ACACTCAAAT
*
48319095 TTTTCAAAAACAC
1 TTTTCAAAAGCAC
*
48319108 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
*
48319121 TTTTGCATAA-CAC
1 TTTT-CAAAAGCAC
48319134 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
48319147 TTTTCAAAAGCA
1 TTTTCAAAAGCA
48319159 ATGAAGAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
12 4 0.09
13 36 0.82
14 4 0.09
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:48319768 original size:2 final size:2
Alignment explanation
Indices: 48319763--48319829 Score: 86
Period size: 2 Copynumber: 35.0 Consensus size: 2
48319753 TTTTTTCTTT
* *
48319763 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
48319803 TA AA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48319830 ACTTTTTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
1 3 0.05
2 53 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:48325028 original size:23 final size:23
Alignment explanation
Indices: 48324996--48325047 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
48324986 AACATAGTGT
*
48324996 CTACTATTAAAGCACTTCGGTGC
1 CTACTATTAAAGCACTTCGATGC
* *
48325019 CTACTGTTAAATCACTTCGATGC
1 CTACTATTAAAGCACTTCGATGC
48325042 CTACTA
1 CTACTA
48325048 CTGTGGTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (23 bp):
CTACTATTAAAGCACTTCGATGC
Found at i:48327716 original size:21 final size:22
Alignment explanation
Indices: 48327677--48327721 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
48327667 CATTAAACTG
*
48327677 AATTCAAACAAATAAAAAGTAA
1 AATTCAAACAAATAAAAAGAAA
48327699 AATTCATAA-AAA-AAAAAGAAA
1 AATTCA-AACAAATAAAAAGAAA
48327720 AA
1 AA
48327722 AAAAAGAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 9 0.43
23 2 0.10
ACGTcount: A:0.73, C:0.07, G:0.04, T:0.16
Consensus pattern (22 bp):
AATTCAAACAAATAAAAAGAAA
Found at i:48329523 original size:23 final size:23
Alignment explanation
Indices: 48329497--48329548 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
48329487 AGATTATTAC
48329497 TATAATTTCAATGAATATATCAT
1 TATAATTTCAATGAATATATCAT
*
48329520 TATAATTTCAATGTATATATCAT
1 TATAATTTCAATGAATATATCAT
48329543 TATAAT
1 TATAAT
48329549 ATTTTGACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (23 bp):
TATAATTTCAATGAATATATCAT
Found at i:48334044 original size:18 final size:18
Alignment explanation
Indices: 48334000--48334044 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
48333990 CATTCGTTTC
*
48334000 CAAAACATTATTCATTTA
1 CAAAACGTTATTCATTTA
*
48334018 CAAATCGTTATTCAATTT-
1 CAAAACGTTATTC-ATTTA
48334036 CAAAACGTT
1 CAAAACGTT
48334045 TTCTTATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCATTTA
Found at i:48337772 original size:24 final size:24
Alignment explanation
Indices: 48337745--48337790 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
48337735 GATTTGAAAA
48337745 AAAATAATT-TTTAGCAAAAACTTT
1 AAAATAATTATTTAG-AAAAACTTT
**
48337769 AAAATTGTTATTTAGAAAAACT
1 AAAATAATTATTTAGAAAAACT
48337791 CATGCGCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (24 bp):
AAAATAATTATTTAGAAAAACTTT
Done.