Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006985.1 Hibiscus syriacus cultivar Beakdansim tig00017996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 663392
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 5
Found at i:3590 original size:8 final size:8
Alignment explanation
Indices: 3577--3606 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
3567 CTAAGTTGAA
3577 AAAAAAAG
1 AAAAAAAG
*
3585 AAAAAAAA
1 AAAAAAAG
3593 AAAAAAAG
1 AAAAAAAG
3601 AAAAAA
1 AAAAAA
3607 GAAGAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:3596 original size:16 final size:16
Alignment explanation
Indices: 3575--3606 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3565 TCCTAAGTTG
3575 AAAAAAAAAGAAAAAA
1 AAAAAAAAAGAAAAAA
3591 AAAAAAAAAGAAAAAA
1 AAAAAAAAAGAAAAAA
3607 GAAGAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAA
Found at i:5115 original size:105 final size:105
Alignment explanation
Indices: 4333--5107 Score: 1433
Period size: 105 Copynumber: 7.4 Consensus size: 105
4323 AGGTTTTACC
*
4333 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
4398 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
4438 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
4503 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
4543 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
4608 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
4648 CAGAGCCAATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCATG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
4713 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
4753 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
4818 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
4858 CAGAGCCAATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCATG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
4923 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
4963 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
5028 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
5068 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
5108 GAAACAACAC
Statistics
Matches: 647, Mismatches: 23, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 647 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:6432 original size:31 final size:29
Alignment explanation
Indices: 6388--6499 Score: 73
Period size: 30 Copynumber: 3.6 Consensus size: 29
6378 TAAAAGGGGT
*
6388 AAACTTCATTTTGGCTCCCTCTGTTTTGAA
1 AAACTTCAATTTGG-TCCCTCTGTTTTGAA
* * **
6418 AAACATTCAATTTGGTCCC-CAAATCGGTTGGGT
1 AAAC-TTCAATTTGGTCCCTC---T-GTTTTGAA
* *
6451 AAACTTCATTTTGGCTCCCTCTGTTTTAAA
1 AAACTTCAATTTGG-TCCCTCTGTTTTGAA
*
6481 AAACATTTAATTTGGTCCC
1 AAAC-TTCAATTTGGTCCC
6500 CAAATCGGTT
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
29 1 0.02
30 19 0.31
31 18 0.30
32 10 0.16
33 12 0.20
34 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (29 bp):
AAACTTCAATTTGGTCCCTCTGTTTTGAA
Found at i:6483 original size:63 final size:63
Alignment explanation
Indices: 6384--6509 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
6374 TTGCTAAAAG
*
6384 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTGAAAAACATTCAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAATCGGTT
*
6447 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTTAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAATCGGTT
6510 TAATTCCCTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (63 bp):
GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAATCGGTT
Found at i:7881 original size:31 final size:32
Alignment explanation
Indices: 7838--7899 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
7828 ATATGAGCCA
*
7838 CATTATACAGTTCAA-TTCGGTTCGGATTTTT
1 CATTATACAGTTCAATTTCGGTTCGAATTTTT
*
7869 CATTTTACAGTTCAATTTCGGTTCGAATTTT
1 CATTATACAGTTCAATTTCGGTTCGAATTTT
7900 CATACAGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.47
Consensus pattern (32 bp):
CATTATACAGTTCAATTTCGGTTCGAATTTTT
Found at i:12236 original size:74 final size:74
Alignment explanation
Indices: 12093--12292 Score: 246
Period size: 74 Copynumber: 2.7 Consensus size: 74
12083 AACTTCATTA
* * * * * * ** *
12093 ATTTTAAAAGTTA-CAATGATCTAAAA-ATAATTATACCA-CAAAATT-TGAGGGATAAGGGCTC
1 ATTTTATAA-TTATCAATGACCTAAAATATAATTAGACCATCAAAGTTGGGAGGGGTAAATGCTT
12154 AATTATAATG
65 AATTATAATG
* * *
12164 ATTTTATAATTATCAGTGACCTAAAATATAATTAGATCATCAAATTTGGGAGGGGTAAATGCTTA
1 ATTTTATAATTATCAATGACCTAAAATATAATTAGACCATCAAAGTTGGGAGGGGTAAATGCTTA
12229 ATTATAATG
66 ATTATAATG
*
12238 ATTTTATAATTATCAATGACCTAAAATGTAATTAGACCATCAAAGTTGGGAGGGG
1 ATTTTATAATTATCAATGACCTAAAATATAATTAGACCATCAAAGTTGGGAGGGG
12293 CAATGGTTCT
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
70 3 0.03
71 19 0.17
72 10 0.09
73 6 0.05
74 72 0.65
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.33
Consensus pattern (74 bp):
ATTTTATAATTATCAATGACCTAAAATATAATTAGACCATCAAAGTTGGGAGGGGTAAATGCTTA
ATTATAATG
Found at i:27169 original size:69 final size:69
Alignment explanation
Indices: 27094--27330 Score: 271
Period size: 69 Copynumber: 3.4 Consensus size: 69
27084 TACGATAATA
* * * ** *
27094 TGCTCCCTTGGGAGTCACTCTAATCTTTCGGAGCTCCCGTGTTAGTCAACCGAAATAATTACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATCACGAT
27159 TAGG
66 TAGG
* * * * * * * *
27163 TACTCCCGTGCAAGTCACTCTAATCCTTTGGGGCTCTCGTGCAAGTCACCCAAAATAATTACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATCACGAT
27228 TAGG
66 TAGG
* * * *
27232 TGCTTCCGTGTGAGTCACTCTAATCCTTCGGAGCTTTCC-TGCAAGTC-ACCCAGAATAATCACG
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGC-TCCCGTGCAAGTCAACCGA-AATAATCACG
27295 ATTAGG
64 ATTAGG
*
27301 TGCTCCCTTGCGAGTCACTCTAATCCTTCG
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCG
27331 AGGCTCCTAT
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
68 3 0.02
69 135 0.96
70 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (69 bp):
TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATCACGAT
TAGG
Found at i:27348 original size:69 final size:69
Alignment explanation
Indices: 27094--27367 Score: 270
Period size: 69 Copynumber: 4.0 Consensus size: 69
27084 TACGATAATA
* * * * ** * *
27094 TGCTCCCTTGGGAGTCACTCTAATCTTTCGGAGCTCCCGTGTTAGTCAACC-GAAATAATTACGA
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGCTCCTGTGCAAGTCACCCAG-AATAATCACGA
27158 TTAGG
65 TTAGG
* * * * * *
27163 TACTCCCGTGCAAGTCACTCTAATCCTTTGGGGCT-CTCGTGCAAGTCACCCAAAATAATTACGA
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGCTCCT-GTGCAAGTCACCCAGAATAATCACGA
27227 TTAGG
65 TTAGG
* *
27232 TGCTTCCGTGTGAGTCACTCTAATCCTTCGGAGCTTTCC--TGCAAGTCACCCAGAATAATCACG
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGC--TCCTGTGCAAGTCACCCAGAATAATCACG
27295 ATTAGG
64 ATTAGG
* * ** * *
27301 TGCTCCCTTGCGAGTCACTCTAATCCTTC-GAGGCTCCTATGTTAGTCACCCGGAATACTCACGA
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGA-GCTCCTGTGCAAGTCACCCAGAATAATCACGA
27365 TTA
65 TTA
27368 CATATATTTG
Statistics
Matches: 170, Mismatches: 27, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
67 3 0.02
68 3 0.02
69 162 0.95
71 1 0.01
72 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (69 bp):
TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGCTCCTGTGCAAGTCACCCAGAATAATCACGAT
TAGG
Found at i:27365 original size:138 final size:138
Alignment explanation
Indices: 27105--27367 Score: 316
Period size: 138 Copynumber: 1.9 Consensus size: 138
27095 GCTCCCTTGG
* ** *
27105 GAGTCACTCTAATCTTTCGGAGCTCCCGTGTTAGTCAACCGAAATAATTACGATTAGGTACTCCC
1 GAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATCACGATTAGGTACTCCC
* * * *
27170 GTGCAAGTCACTCTAATCCTTTGGGGCTCTCGTGCAAGTCACCCAAAATAATTACGATTAGGTGC
66 GTGCAAGTCACTCTAATCCTTCGAGGCTCTCATGCAAGTCACCCAAAATAATCACGATTAGGTGC
27235 TTCCGTGT
131 TTCCGTGT
* * *
27243 GAGTCACTCTAATCCTTCGGAGCTTTCC-TGCAAGTC-ACCCAGAATAATCACGATTAGGTGCTC
1 GAGTCACTCTAATCCTTCGGAGC-TCCCGTGCAAGTCAACCGA-AATAATCACGATTAGGTACTC
* * ** ** *
27306 CCTTGCGAGTCACTCTAATCCTTCGAGGCTC-CTATGTTAGTCACCCGGAATACTCACGATTA
64 CCGTGCAAGTCACTCTAATCCTTCGAGGCTCTC-ATGCAAGTCACCCAAAATAATCACGATTA
27368 CATATATTTG
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
137 5 0.05
138 96 0.92
139 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (138 bp):
GAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATCACGATTAGGTACTCCC
GTGCAAGTCACTCTAATCCTTCGAGGCTCTCATGCAAGTCACCCAAAATAATCACGATTAGGTGC
TTCCGTGT
Found at i:27716 original size:71 final size:75
Alignment explanation
Indices: 27536--27732 Score: 276
Period size: 71 Copynumber: 2.7 Consensus size: 75
27526 TCACAATTCT
* * * * *
27536 AGCAGTGAAATTTAACATTGACTTACTCTACTGAAATGAATATGTAATTCTAGCACTAAACTTAT
1 AGCAGTGAAACTTAACATTGACTTACACTAGTGAAATGAATACGTAATTCTAGCACTAAACTCAT
*
27601 TATATGATTTC
66 CATA-GATTTC
* *
27612 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACT-GA-TCA-
1 AGCAGTGAAACTTAACATTGACTTACACTAGTGAAATGAATACGTAATTCTAGCACTAAACTCAT
27674 CATA-ATTTC
66 CATAGATTTC
*
27683 AGCAGTGAAGCTTAACATTGACTTACACTAGTGAAATGAATACGTAATTC
1 AGCAGTGAAACTTAACATTGACTTACACTAGTGAAATGAATACGTAATTC
27733 CAACGCTAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.48
73 3 0.03
74 2 0.02
75 1 0.01
76 52 0.47
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (75 bp):
AGCAGTGAAACTTAACATTGACTTACACTAGTGAAATGAATACGTAATTCTAGCACTAAACTCAT
CATAGATTTC
Found at i:28015 original size:15 final size:15
Alignment explanation
Indices: 27995--28024 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27985 ACACGAGCAA
27995 TGATCAGCTGCAACC
1 TGATCAGCTGCAACC
28010 TGATCAGCTGCAACC
1 TGATCAGCTGCAACC
28025 GCAGCTACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (15 bp):
TGATCAGCTGCAACC
Found at i:32665 original size:38 final size:38
Alignment explanation
Indices: 32614--32701 Score: 167
Period size: 38 Copynumber: 2.3 Consensus size: 38
32604 GCAACTCCAT
32614 GAGCAATGATCAGCTGCAACTTCAACTAAAAACCACAC
1 GAGCAATGATCAGCTGCAACTTCAACTAAAAACCACAC
*
32652 GAGCAATGATCAGCTGCAACTTCAACTAGAAACCACAC
1 GAGCAATGATCAGCTGCAACTTCAACTAAAAACCACAC
32690 GAGCAATGATCA
1 GAGCAATGATCA
32702 CCTGTAACCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (38 bp):
GAGCAATGATCAGCTGCAACTTCAACTAAAAACCACAC
Found at i:33600 original size:28 final size:28
Alignment explanation
Indices: 33529--33601 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
33519 TGTGAACAAA
* *
33529 AATTTATAGAATTTGAAGTTTATGATAT
1 AATTTATAGGATTTGGAGTTTATGATAT
* *
33557 AATTCATAGGATTTGGAGTTTATGATGT
1 AATTTATAGGATTTGGAGTTTATGATAT
*
33585 AATTTATAGGGTTTGGA
1 AATTTATAGGATTTGGA
33602 TTAAATTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (28 bp):
AATTTATAGGATTTGGAGTTTATGATAT
Found at i:35003 original size:21 final size:19
Alignment explanation
Indices: 34957--34997 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
34947 GTCAGACACC
*
34957 CAAATCAACACACAAGCAA
1 CAAATCAACACACAAACAA
*
34976 CAAATCAACACACAAACCA
1 CAAATCAACACACAAACAA
34995 CAA
1 CAA
34998 TAATCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.34, G:0.02, T:0.05
Consensus pattern (19 bp):
CAAATCAACACACAAACAA
Found at i:36961 original size:132 final size:132
Alignment explanation
Indices: 36633--36997 Score: 493
Period size: 132 Copynumber: 2.8 Consensus size: 132
36623 CGATATTGAG
* * * *
36633 AATAGTAAAATATTTTCATTTC-AGTTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCAT
1 AATAGTAATATCTCTTCATTTCGA-TTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCAT
* * * * *
36697 TTATTCTCAATTGGAAATAATTCGATATTACCGTTTTCTCTGGAATCAATATTGATTTTTTAAGA
65 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTGGAATCAATATTGATATTTTAAGA
36762 CGA
130 CGA
* * * * *
36765 AATGGTGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGGTTTAAGGTATGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
* *
36830 TATTCTCGATTGGAAATCATTAGATATTATCGTTTTCACTCGG-ATCAATATTGA-ATTTTGAGA
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACT-GGAATCAATATTGATATTTTAAGA
36893 CGA
130 CGA
* * * *
36896 AATAGTAATATCTCTTCATTTCGATTAGAGTAATAAATGACTGTTTTAAGGGCATGAAAGATCAT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAA-GGCATGAGAGGTCAT
*
36961 TTATTCTCGATTGGAAATAATTAGATATTATCATTTT
65 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTT
36998 TTTTCTCTTA
Statistics
Matches: 204, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
131 54 0.26
132 147 0.72
133 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (132 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTGGAATCAATATTGATATTTTAAGAC
GA
Found at i:38415 original size:38 final size:38
Alignment explanation
Indices: 38323--38407 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
38313 ATCCTTCGGA
* * * *
38323 GCTCCAGTGCGAGTCAACCGAAATAATTACGATTAGGT
1 GCTCCCGTGCAAGTCACCCGAAAAAATTACGATTAGGT
*
38361 GCTCCCGTGCAAGTCACCCGAAAAAATTATGATTAGGT
1 GCTCCCGTGCAAGTCACCCGAAAAAATTACGATTAGGT
38399 GCTCCCGTG
1 GCTCCCGTG
38408 TTAGTCACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (38 bp):
GCTCCCGTGCAAGTCACCCGAAAAAATTACGATTAGGT
Found at i:38483 original size:107 final size:107
Alignment explanation
Indices: 38291--38484 Score: 266
Period size: 107 Copynumber: 1.8 Consensus size: 107
38281 TACAATAATA
* * * * *
38291 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCAGTGCGAGTCAACCGAAATAATTACGAT
1 TGCTCCCGTGTGAGTCACTATAATCCTTCGGAGCTCCAGTACGAGTCAACCAAAATAATCACGAT
38356 TAGGTGCTCCCGTGCAAGTCACCCGAAAAAATTATGATTAGG
66 TAGGTGCTCCCGTGCAAGTCACCCGAAAAAATTATGATTAGG
* * *
38398 TGCTCCCGTGTTAGTCACTATAATCCTTCGGGGCTTTC-GTACGAGTC-ACCAAGAATAATCACG
1 TGCTCCCGTGTGAGTCACTATAATCCTTCGGAGC-TCCAGTACGAGTCAACCAA-AATAATCACG
* *
38461 ATTAGGTGCTCCCTTGCGAGTCAC
64 ATTAGGTGCTCCCGTGCAAGTCAC
38485 TCTAATCATT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
106 4 0.05
107 69 0.92
108 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (107 bp):
TGCTCCCGTGTGAGTCACTATAATCCTTCGGAGCTCCAGTACGAGTCAACCAAAATAATCACGAT
TAGGTGCTCCCGTGCAAGTCACCCGAAAAAATTATGATTAGG
Found at i:38799 original size:76 final size:76
Alignment explanation
Indices: 38702--39143 Score: 523
Period size: 76 Copynumber: 5.8 Consensus size: 76
38692 TCACAATTCT
*
38702 AGCAGTG-AACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCTAGCACTAAACTTAT
1 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
* ** *
38766 GATGTGATTTC
66 CACATAATTTC
* ** * *
38777 AGCAGTGAAACTTAATATTGACTTACACCAGTGAAATGAATATATAATTCTATCACTGAACTTAT
1 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
38842 CACATAATTTC
66 CACATAATTTC
* * * * * *
38853 AACAGTGAAACTTAACATTGACTTACATCAGTGAAATGAAAACATAATTCCAGCGCTAAACTTAT
1 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
*
38918 CACATAATTCC
66 CACATAATTTC
* * *
38929 AGTAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATT-TCAGCAATAAACTTA
1 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCT-AGCACTAAACTTA
* *
38993 TCACCTAATTCC
65 TCACATAATTTC
* * * * * ** *
39005 AACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATATGTAATTGAAACACTAAACTTAT
1 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
39070 CACATAA-TTC
66 CACATAATTTC
* * * *
39080 TAGTAGCGAAACTTAACATTGACTTACATCAGTGAAATGAATACGTAACTTC-AACACTAAACTT
1 -AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAA-TTCTAGCACTAAACTT
39144 TGAAGCTTAA
Statistics
Matches: 314, Mismatches: 48, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
75 9 0.03
76 303 0.96
77 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (76 bp):
AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
CACATAATTTC
Found at i:38808 original size:26 final size:26
Alignment explanation
Indices: 38704--38812 Score: 70
Period size: 25 Copynumber: 4.3 Consensus size: 26
38694 ACAATTCTAG
*
38704 CAGTG-AACTTAACATTGACTTACAC
1 CAGTGAAACTTAATATTGACTTACAC
* * *
38729 CAGTGAAA-TGAATA-TGTAATT-CTAG
1 CAGTGAAACTTAATATTG-ACTTAC-AC
* * *
38754 CACT-AAACTT-ATGATGTGA-TTTCAG
1 CAGTGAAACTTAAT-AT-TGACTTACAC
38779 CAGTGAAACTTAATATTGACTTACAC
1 CAGTGAAACTTAATATTGACTTACAC
38805 CAGTGAAA
1 CAGTGAAA
38813 TGAATATATA
Statistics
Matches: 64, Mismatches: 9, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
24 8 0.12
25 28 0.44
26 24 0.38
27 4 0.06
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (26 bp):
CAGTGAAACTTAATATTGACTTACAC
Found at i:39106 original size:228 final size:227
Alignment explanation
Indices: 38696--39507 Score: 759
Period size: 228 Copynumber: 3.6 Consensus size: 227
38686 AACACATCAC
* ** *
38696 AATTCTAGCAGTGAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCTAGCACTAAA
1 AATTCCAGCAGTGAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATTCTAGCAATAAA
* ** * * * * * *
38761 CTTATGATGTGATTTCAGCAGTGAAACTTAATATTGACTTACACCAGTGAAATGAATATATAATT
66 CTTATCACCTAATTCCAACAATGAAACTTAACATTGACTTACACCAGTAAAATGAATATATAATT
* * * *
38826 CTATCACTGAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACATCAGTGAAATG
131 CAAACACTAAACTTATCACATAATTTCAACAGCGAAACTTAACATTGACTTACATCAGTGAAATG
38891 AAAACATAATTCCAGCGCTAAACTTATCACAT
196 AAAACATAATTCCAGCGCTAAACTTATCACAT
*
38923 AATTCCAGTAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATT-TCAGCAATA
1 AATTCCAGCAGTG-AACTTAACATTGACTTACACCAGTGAAATGAATACCTAATTCT-AGCAATA
* *
38987 AACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATATGTAA
64 AACTTATCACCTAATTCCAACAATGAAACTTAACATTGACTTACACCAGTAAAATGAATATATAA
* **
39052 TTGAAACACTAAACTTATCACATAA-TTCTAGTAGCGAAACTTAACATTGACTTACATCAGTGAA
129 TTCAAACACTAAACTTATCACATAATTTC-AACAGCGAAACTTAACATTGACTTACATCAGTGAA
*
39116 ATG-------AA-T--A-CG-T-AACTTCAACAC-T
193 ATGAAAACATAATTCCAGCGCTAAACTT-ATCACAT
** ** * * *
39138 AA----A-CTTTGAAGCTTAACATTGACTTACATTAGTGAAATGAATACGTAATTCCAGCACTAA
1 AATTCCAGCAGTGAA-CTTAACATTGACTTACACCAGTGAAATGAATACCTAATTCTAGCAATAA
* ** * * * * *
39198 ACTTATCACATAATTCCTGCAGTGAAATTTAACATTGACTTACACCAGTGAAACGAATACATAAT
65 ACTTATCACCTAATTCCAACAATGAAACTTAACATTGACTTACACCAGTAAAATGAATATATAAT
* * * * ** * * *
39263 TCCAGCATTAAACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACTTACACCAGCGAAAT
130 TCAAACACTAAACTTATCACATAATTTCAACAGCGAAACTTAACATTGACTTACATCAGTGAAAT
** ** *
39328 GAATGCATAATTCCAGCATTAAACTTATCACCT
195 GAAAACATAATTCCAGCGCTAAACTTATCACAT
* * * * * * * * *
39361 AATTCCAGTAGTTAAATTTAACGTTGACTTAAACCAGTGAAATGAATACGTAATTCCAACACTAA
1 AATTCCAGCAG-TGAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATTCTAGCAATAA
* * * * * * **
39426 ACTTTTCACATAAGT-CAAGGAGTGAAACTTAACATTGACTTACACTAGTAAAATGAATACGTAA
65 ACTTATCACCTAATTCCAA-CAATGAAACTTAACATTGACTTACACCAGTAAAATGAATATATAA
* *
39490 TTCCAGCACTAAACTTAT
129 TTCAAACACTAAACTTAT
39508 GATTTCACAT
Statistics
Matches: 484, Mismatches: 73, Indels: 55
0.79 0.12 0.09
Matches are distributed among these distances:
209 2 0.00
210 155 0.32
211 3 0.01
215 8 0.02
216 5 0.01
217 4 0.01
218 2 0.00
220 2 0.00
221 3 0.01
222 5 0.01
223 8 0.02
227 17 0.04
228 267 0.55
229 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (227 bp):
AATTCCAGCAGTGAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATTCTAGCAATAAA
CTTATCACCTAATTCCAACAATGAAACTTAACATTGACTTACACCAGTAAAATGAATATATAATT
CAAACACTAAACTTATCACATAATTTCAACAGCGAAACTTAACATTGACTTACATCAGTGAAATG
AAAACATAATTCCAGCGCTAAACTTATCACAT
Found at i:39156 original size:58 final size:58
Alignment explanation
Indices: 39091--39201 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
39081 AGTAGCGAAA
39091 CTTAACATTGACTTACATCAGTGAAATGAATACGTAACTT-CAACACTAAACTTTGAAG
1 CTTAACATTGACTTACATCAGTGAAATGAATACGTAA-TTCCAACACTAAACTTTGAAG
* *
39149 CTTAACATTGACTTACATTAGTGAAATGAATACGTAATTCCAGCACTAAACTT
1 CTTAACATTGACTTACATCAGTGAAATGAATACGTAATTCCAACACTAAACTT
39202 ATCACATAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 2 0.04
58 48 0.96
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (58 bp):
CTTAACATTGACTTACATCAGTGAAATGAATACGTAATTCCAACACTAAACTTTGAAG
Found at i:39276 original size:76 final size:76
Alignment explanation
Indices: 39144--39507 Score: 494
Period size: 76 Copynumber: 4.8 Consensus size: 76
39134 CACTAAACTT
* **
39144 TGAAGCTTAACATTGACTTACATTAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
*
39209 AATTCCTGCAG
66 AATTCCAGCAG
* * * *
39220 TGAAATTTAACATTGACTTACACCAGTGAAACGAATACATAATTCCAGCATTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
*
39285 AATTCCTGCAG
66 AATTCCAGCAG
* * * * *
39296 TGAAACTTAACATTGACTTACACCAGCGAAATGAATGCATAATTCCAGCATTAAACTTATCACCT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
*
39361 AATTCCAGTAG
66 AATTCCAGCAG
* * * * * *
39372 TTAAATTTAACGTTGACTTAAACCAGTGAAATGAATACGTAATTCCAACACTAAACTTTTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
* * *
39437 AAGTCAAGGAG
66 AATTCCAGCAG
* *
39448 TGAAACTTAACATTGACTTACACTAGTAAAATGAATACGTAATTCCAGCACTAAACTTAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTAT
39508 GATTTCACAT
Statistics
Matches: 252, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 252 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
AATTCCAGCAG
Found at i:39277 original size:134 final size:134
Alignment explanation
Indices: 39016--39261 Score: 359
Period size: 134 Copynumber: 1.8 Consensus size: 134
39006 ACAATGAAAT
* *
39016 TTAACATTGACTTACACCAGTAAAATGAATATGTAATTGAAACACTAAACTTATCACATAATTCT
1 TTAACATTGACTTACACCAGTAAAATGAATACGTAATTCAAACACTAAACTTATCACATAATTCT
* * * *
39081 AGTAGCGAAACTTAACATTGACTTACATCAGTGAAATGAATACGTAACTTCAACACTAAACTTTG
66 AGCAGCGAAACTTAACATTGACTTACACCAGTGAAACGAATACATAACTTCAACACTAAACTTTG
39146 AAGC
131 AAGC
** * * *
39150 TTAACATTGACTTACATTAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCC
1 TTAACATTGACTTACACCAGTAAAATGAATACGTAATTCAAACACTAAACTTATCACATAATT-C
* *
39215 T-GCAGTGAAATTTAACATTGACTTACACCAGTGAAACGAATACATAA
65 TAGCAGCGAAACTTAACATTGACTTACACCAGTGAAACGAATACATAA
39262 TTCCAGCATT
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
134 96 0.98
135 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.29
Consensus pattern (134 bp):
TTAACATTGACTTACACCAGTAAAATGAATACGTAATTCAAACACTAAACTTATCACATAATTCT
AGCAGCGAAACTTAACATTGACTTACACCAGTGAAACGAATACATAACTTCAACACTAAACTTTG
AAGC
Found at i:39284 original size:25 final size:26
Alignment explanation
Indices: 39183--39304 Score: 101
Period size: 25 Copynumber: 4.8 Consensus size: 26
39173 AATGAATACG
*
39183 TAATTCCAGCACT-AAACTTATCACA
1 TAATTCCAGCAGTGAAACTTATCACA
* *
39208 TAATTCCTGCAGTGAAA-TT-TAACA
1 TAATTCCAGCAGTGAAACTTATCACA
* * * **
39232 TTGACTTACACCAGTGAAACGAAT-ACA
1 -T-AATTCCAGCAGTGAAACTTATCACA
*
39259 TAATTCCAGCA-TTAAACTTATCACA
1 TAATTCCAGCAGTGAAACTTATCACA
*
39284 TAATTCCTGCAGTGAAACTTA
1 TAATTCCAGCAGTGAAACTTA
39305 ACATTGACTT
Statistics
Matches: 73, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
24 11 0.15
25 34 0.47
26 24 0.33
27 3 0.04
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (26 bp):
TAATTCCAGCAGTGAAACTTATCACA
Found at i:39303 original size:210 final size:210
Alignment explanation
Indices: 38934--39331 Score: 582
Period size: 210 Copynumber: 1.9 Consensus size: 210
38924 ATTCCAGTAG
* *
38934 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATTTCAGCAATAAACTTATCACCT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATTCCAGCAATAAACTTATCACAT
* ** *
38999 AATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATATGTAATTGAAACACTAA
66 AATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAACGAATACATAATTCAAACACTAA
* * *
39064 ACTTATCACATAATTCTAGTAGCGAAACTTAACATTGACTTACATCAGTGAAATGAATACGTAAC
131 ACTTATCACATAATTCTAGCAGCGAAACTTAACATTGACTTACACCAGCGAAATGAATACGTAAC
39129 TTCAACACTAAACTT
196 TTCAACACTAAACTT
* ** * *
39144 TGAAGCTTAACATTGACTTACATTAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATTCCAGCAATAAACTTATCACAT
** * * * * *
39209 AATTCCTGCAGTGAAATTTAACATTGACTTACACCAGTGAAACGAATACATAATTCCAGCATTAA
66 AATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAACGAATACATAATTCAAACACTAA
*
39274 ACTTATCACATAATTCCT-GCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAAT
131 ACTTATCACATAATT-CTAGCAGCGAAACTTAACATTGACTTACACCAGCGAAATGAAT
39332 GCATAATTCC
Statistics
Matches: 165, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
210 163 0.99
211 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (210 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATTCCAGCAATAAACTTATCACAT
AATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAACGAATACATAATTCAAACACTAA
ACTTATCACATAATTCTAGCAGCGAAACTTAACATTGACTTACACCAGCGAAATGAATACGTAAC
TTCAACACTAAACTT
Found at i:39390 original size:286 final size:286
Alignment explanation
Indices: 38858--39430 Score: 824
Period size: 286 Copynumber: 2.0 Consensus size: 286
38848 ATTTCAACAG
*
38858 TGAAACTTAACATTGACTTACATCAGTGAAATGAAAACATAATTCCAGCGCTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACATCAGTGAAATGAAAACATAATTCCAGCACTAAACTTATCACAT
* * * *
38923 AATTCCAGTAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACCTAATTTCAGCAATAA
66 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAACGAATACATAATTCCAGCAATAA
* * * **
38988 ACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATATGTAAT
131 ACTTATCACATAATTCCAACAATGAAACTTAACATTGACTTACACCAGCAAAATGAATACATAAT
* * * *
39053 TGAAACACTAAACTTATCACATAATTCTAGTAGCGAAACTTAACATTGACTTACATCAGTGAAAT
196 TCAAACACTAAACTTATCACATAATTCCAGTAGCGAAACTTAACATTGACTTAAACCAGTGAAAT
39118 GAATACGTAACTT-CAACACTAAACTT
261 GAATACGTAA-TTCCAACACTAAACTT
* * * *
39144 TGAAGCTTAACATTGACTTACATTAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACATCAGTGAAATGAAAACATAATTCCAGCACTAAACTTATCACAT
* * *
39209 AATTCCTGCAGTGAAATTTAACATTGACTTACACCAGTGAAACGAATACATAATTCCAGCATTAA
66 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAACGAATACATAATTCCAGCAATAA
** * * *
39274 ACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATGCATAAT
131 ACTTATCACATAATTCCAACAATGAAACTTAACATTGACTTACACCAGCAAAATGAATACATAAT
* * * * ** * *
39339 TCCAGCATTAAACTTATCACCTAATTCCAGTAGTTAAATTTAACGTTGACTTAAACCAGTGAAAT
196 TCAAACACTAAACTTATCACATAATTCCAGTAGCGAAACTTAACATTGACTTAAACCAGTGAAAT
39404 GAATACGTAATTCCAACACTAAACTT
261 GAATACGTAATTCCAACACTAAACTT
39430 T
1 T
39431 TCACATAAGT
Statistics
Matches: 252, Mismatches: 34, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
285 2 0.01
286 250 0.99
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (286 bp):
TGAAACTTAACATTGACTTACATCAGTGAAATGAAAACATAATTCCAGCACTAAACTTATCACAT
AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAACGAATACATAATTCCAGCAATAA
ACTTATCACATAATTCCAACAATGAAACTTAACATTGACTTACACCAGCAAAATGAATACATAAT
TCAAACACTAAACTTATCACATAATTCCAGTAGCGAAACTTAACATTGACTTAAACCAGTGAAAT
GAATACGTAATTCCAACACTAAACTT
Found at i:39458 original size:362 final size:362
Alignment explanation
Indices: 38782--39505 Score: 1038
Period size: 362 Copynumber: 2.0 Consensus size: 362
38772 ATTTCAGCAG
* * * * *
38782 TGAAACTTAATATTGACTTACACCAGTGAAATGAATATATAATTCTATCACTGAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* * * *
38847 AATTTCAACAGTGAAACTTAACATTGACTTACATCAGTGAAATGAAAACATAATTCCAGCGCTAA
66 AATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACGAAAACATAATTCCAGCACTAA
* * *
38912 ACTTATCACATAATTCCAGTAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACCTAAT
131 ACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAAT
* *
38977 TTCAGCAATAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAAT
196 TCCAGCAATAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTAAACCAGTAAAAT
* * * * *
39042 GAATATGTAATTGAAACACTAAACTTATCACATAATTCTAGTAGCGAAACTTAACATTGACTTAC
261 GAATACGTAATTCAAACACTAAACTTATCACATAAGTCAAGGAGCGAAACTTAACATTGACTTAC
*
39107 A-TCAGTGAAATGAATACGTAACTT-CAACACTAAACTT
326 ACT-AGTAAAATGAATACGTAA-TTCCAACACTAAACTT
* ** *
39144 TGAAGCTTAACATTGACTTACATTAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
** * * *
39209 AATTCCTGCAGTGAAATTTAACATTGACTTACACCAGTGAAACGAATACATAATTCCAGCATTAA
66 AATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACGAAAACATAATTCCAGCACTAA
* *
39274 ACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATGCATAAT
131 ACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAAT
* ** * * * *
39339 TCCAGCATTAAACTTATCACCTAATTCCAGTAGTTAAATTTAACGTTGACTTAAACCAGTGAAAT
196 TCCAGCAATAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTAAACCAGTAAAAT
* * *
39404 GAATACGTAATTCCAACACTAAACTTTTCACATAAGTCAAGGAGTGAAACTTAACATTGACTTAC
261 GAATACGTAATTCAAACACTAAACTTATCACATAAGTCAAGGAGCGAAACTTAACATTGACTTAC
*
39469 ACTAGTAAAATGAATACGTAATTCCAGCACTAAACTT
326 ACTAGTAAAATGAATACGTAATTCCAACACTAAACTT
39506 ATGATTTCAC
Statistics
Matches: 318, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
361 2 0.01
362 315 0.99
363 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (362 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
AATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACGAAAACATAATTCCAGCACTAA
ACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAAT
TCCAGCAATAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTAAACCAGTAAAAT
GAATACGTAATTCAAACACTAAACTTATCACATAAGTCAAGGAGCGAAACTTAACATTGACTTAC
ACTAGTAAAATGAATACGTAATTCCAACACTAAACTT
Found at i:45256 original size:41 final size:40
Alignment explanation
Indices: 45206--45309 Score: 135
Period size: 37 Copynumber: 2.6 Consensus size: 40
45196 TTTCTTTCTC
45206 TGTTCGAAACAGTGAAAATATTTTTTTCTATTTTTTTATGT
1 TGTTCGAAACAGTGAAAATATTTTTTTCT-TTTTTTTATGT
*
45247 TGTTCGAAACAGTG--AAT-TTTTTTTCTTTTTTTTCTGT
1 TGTTCGAAACAGTGAAAATATTTTTTTCTTTTTTTTATGT
* *
45284 TGTTTGAAACAATGAACAA-ATTTTTT
1 TGTTCGAAACAGTGAA-AATATTTTTT
45310 CGACTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
37 22 0.39
38 9 0.16
39 3 0.05
40 8 0.14
41 14 0.25
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (40 bp):
TGTTCGAAACAGTGAAAATATTTTTTTCTTTTTTTTATGT
Found at i:51608 original size:31 final size:32
Alignment explanation
Indices: 51548--51609 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
51538 AGTGCATTGA
****
51548 AAAAAAAAATAGCAGTACAGTTTTGGTTCGAG
1 AAAAAAAAATAGCAGTACAGTAAAAGTTCGAG
51580 AAAAAAAAATAGCAGTACAG-AAAAGTTCGA
1 AAAAAAAAATAGCAGTACAGTAAAAGTTCGA
51610 ACATAACAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (32 bp):
AAAAAAAAATAGCAGTACAGTAAAAGTTCGAG
Found at i:53313 original size:37 final size:37
Alignment explanation
Indices: 53263--53337 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
53253 GCTTTATGGG
53263 AGGCAACCCATTATTATTTGTATTTTCCGTTTGTTTA
1 AGGCAACCCATTATTATTTGTATTTTCCGTTTGTTTA
53300 AGGCAACCCATTATTATTTGTATTTTCCGTTTGTTTA
1 AGGCAACCCATTATTATTTGTATTTTCCGTTTGTTTA
53337 A
1 A
53338 TCTTTATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (37 bp):
AGGCAACCCATTATTATTTGTATTTTCCGTTTGTTTA
Found at i:53351 original size:6 final size:6
Alignment explanation
Indices: 53340--53391 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
53330 TTGTTTAATC
* * *
53340 TTTATT TTTATT TTCAAT TTTATT TTT-TT AATTTATT TTTGTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT --TTTATT TTTATT TTTATT
53389 TTT
1 TTT
53392 CTTTGATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 2 0.05
6 30 0.81
7 3 0.08
8 2 0.05
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:56219 original size:41 final size:42
Alignment explanation
Indices: 56174--56278 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 42
56164 TTTTCTTTCT
56174 CTATTCGAAACAGTGAAAATATTTTTTTC-CTCTTTTTTATG
1 CTATTCGAAACAGTGAAAATATTTTTTTCTCTCTTTTTTATG
* * * * *
56215 CTATTTGGAACAGTG--AA-ATTTTTTTCTTTTTTTTTTCTG
1 CTATTCGAAACAGTGAAAATATTTTTTTCTCTCTTTTTTATG
* * *
56254 CTGTTCGAAACAATGAACAT-TTTTT
1 CTATTCGAAACAGTGAAAATATTTTT
56279 GACTTTTTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
38 9 0.18
39 22 0.44
41 19 0.38
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.50
Consensus pattern (42 bp):
CTATTCGAAACAGTGAAAATATTTTTTTCTCTCTTTTTTATG
Found at i:56249 original size:39 final size:41
Alignment explanation
Indices: 56206--56290 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 41
56196 TTTTTTCCTC
* * * *
56206 TTTTTTATGCTATTTGGAACAGTGAA-ATTTTTT-TCTTTT
1 TTTTTTATGCTATTCGAAACAATGAACATTTTTTGACTTTT
* *
56245 TTTTTTCTGCTGTTCGAAACAATGAACATTTTTTGACTTTT
1 TTTTTTATGCTATTCGAAACAATGAACATTTTTTGACTTTT
56286 TTTTT
1 TTTTT
56291 CGTGGAACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 21 0.55
40 7 0.18
41 10 0.26
ACGTcount: A:0.20, C:0.11, G:0.12, T:0.58
Consensus pattern (41 bp):
TTTTTTATGCTATTCGAAACAATGAACATTTTTTGACTTTT
Found at i:56957 original size:18 final size:19
Alignment explanation
Indices: 56917--56967 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
56907 GTTTTGTCCC
*
56917 AAAACGTATATTAAATTTA
1 AAAACGTATATCAAATTTA
*
56936 AAAATGTATATCAAATTTA
1 AAAACGTATATCAAATTTA
*
56955 AAAACATATATCA
1 AAAACGTATATCA
56968 CATATAACGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (19 bp):
AAAACGTATATCAAATTTA
Found at i:64334 original size:28 final size:28
Alignment explanation
Indices: 64297--64359 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
64287 AGTTTACATA
*
64297 ATTTGAAGTTTATGATATAATTCATAGG
1 ATTTGGAGTTTATGATATAATTCATAGG
* *
64325 ATTTGGAGTTTATGATGTAATTTATAGG
1 ATTTGGAGTTTATGATATAATTCATAGG
64353 ATTTGGA
1 ATTTGGA
64360 TTAAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (28 bp):
ATTTGGAGTTTATGATATAATTCATAGG
Found at i:66103 original size:23 final size:21
Alignment explanation
Indices: 66072--66124 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
66062 ATAGCCTTCA
*
66072 AAATCCTAAACACAAGGTAAAGAT
1 AAATCCTAAA-ACAAAG-AAA-AT
66096 -AATCCTAAAACAAAGAAAAT
1 AAATCCTAAAACAAAGAAAAT
66116 AAATCCTAA
1 AAATCCTAA
66125 TTAAAATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 11 0.41
22 5 0.19
23 9 0.33
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (21 bp):
AAATCCTAAAACAAAGAAAAT
Found at i:67489 original size:15 final size:14
Alignment explanation
Indices: 67450--67503 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
67440 TTAAAACAAC
67450 AAAT-AAAAAATAAA
1 AAATAAAAAAAT-AA
67464 AACAGTAAAAACAATATA
1 AA-A-TAAAAA-AATA-A
67482 AAATAAAAAAATAA
1 AAATAAAAAAATAA
67496 AAATAAAA
1 AAATAAAA
67504 TAAGTACAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.31
15 5 0.14
16 7 0.20
17 6 0.17
18 6 0.17
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.15
Consensus pattern (14 bp):
AAATAAAAAAATAA
Found at i:67506 original size:24 final size:25
Alignment explanation
Indices: 67447--67506 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
67437 TAATTAAAAC
* *
67447 AACAAATAAAAAATAAAAACAGTAAA
1 AACAAA-ATAAAATAAAAACAATAAA
*
67473 AACAATATAAAATAAAAA-AATAAA
1 AACAAAATAAAATAAAAACAATAAA
*
67497 AATAAAATAA
1 AACAAAATAA
67507 GTACAAGGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 13 0.45
25 11 0.38
26 5 0.17
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (25 bp):
AACAAAATAAAATAAAAACAATAAA
Found at i:68927 original size:17 final size:18
Alignment explanation
Indices: 68886--68928 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
68876 TTTGGGCTCC
*
68886 AGGTCGGGTTTTAGATTT
1 AGGTTGGGTTTTAGATTT
* *
68904 AGGTTGGGTTTTGGGTTT
1 AGGTTGGGTTTTAGATTT
68922 -GGTTGGG
1 AGGTTGGG
68929 CTTGGCCGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.09, C:0.02, G:0.44, T:0.44
Consensus pattern (18 bp):
AGGTTGGGTTTTAGATTT
Found at i:69567 original size:136 final size:136
Alignment explanation
Indices: 69192--69687 Score: 741
Period size: 136 Copynumber: 3.7 Consensus size: 136
69182 GCATCTAGCA
*
69192 ATAGGTCAAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
1 ATAGGTCAAACAAGCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
* * ** *
69257 ATGTACTCTCAATCGGAAATGTTAATCCCTCAAGCGAGGCGTCACT-AATCAAAATGTCATGAAT
66 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCGTCACTGAATCAAAATGTCGTGAAT
*
69321 CGAGTA
131 CGAGTG
**
69327 ATAGGTCAAACAAGCTCCTCTCATTATGAACTTCTTCT-CC-CTGT-GGATGAGTTCTTCTCATT
1 ATAGGTCAAACAAGCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
*
69389 ATGAAATCTCCATTTG-AATGGTTAATCCCTCAAGCGAGGCGTCACTGAATCAAAATGTCGTGAA
66 ATGAACTCTCCATTTGAAAT-GTTAATCCCTCAAGCGAGGCGTCACTGAATCAAAATGTCGTGAA
69453 TCGAGTG
130 TCGAGTG
* * * * *
69460 ATAGGTCGAACAAGCTCTTCTCATTATAAACTTCGTGTCCCTCTGTCGGATGAGTTCTTCTCATT
1 ATAGGTCAAACAAGCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
* **
69525 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTTGAAATGTCGTGAAT
66 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCGTCACTGAATCAAAATGTCGTGAAT
69590 CGAGTG
131 CGAGTG
* * * * *
69596 ATAGGTCGAACAAGCTATTCTCATTATGAACTTTTTCTCCCTCTTTCGGATGATTTCTTCTTATT
1 ATAGGTCAAACAAGCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
69661 ATGAACTCTCCATTTGAAATGTTAATC
66 ATGAACTCTCCATTTGAAATGTTAATC
69688 GATTCGTTTT
Statistics
Matches: 328, Mismatches: 27, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
131 3 0.01
132 55 0.17
133 59 0.18
134 4 0.01
135 39 0.12
136 165 0.50
137 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (136 bp):
ATAGGTCAAACAAGCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCGTCACTGAATCAAAATGTCGTGAAT
CGAGTG
Found at i:77028 original size:17 final size:17
Alignment explanation
Indices: 77006--77039 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
76996 TATTATTTGG
77006 TGAATTATTTAAATGAA
1 TGAATTATTTAAATGAA
* *
77023 TGAATTGTTTTAATGAA
1 TGAATTATTTAAATGAA
77040 AGCACTAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
TGAATTATTTAAATGAA
Found at i:81388 original size:8 final size:8
Alignment explanation
Indices: 81375--81406 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
81365 TAAAACAACA
81375 AATAAAAC
1 AATAAAAC
81383 AATAAAAC
1 AATAAAAC
81391 AATAAAAAC
1 AAT-AAAAC
81400 AATAAAA
1 AATAAAA
81407 AAAACAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAC
Found at i:81398 original size:29 final size:29
Alignment explanation
Indices: 81356--81413 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
81346 TAAACTTAAT
* * *
81356 TAAAATAATTAAAACAACAAATAAAACAA
1 TAAAACAATAAAAACAACAAAAAAAACAA
*
81385 TAAAACAATAAAAACAATAAAAAAAACAA
1 TAAAACAATAAAAACAACAAAAAAAACAA
81414 CATAAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (29 bp):
TAAAACAATAAAAACAACAAAAAAAACAA
Found at i:81407 original size:9 final size:9
Alignment explanation
Indices: 81378--81407 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
81368 AACAACAAAT
81378 AAAACAAT-
1 AAAACAATA
81386 AAAACAATA
1 AAAACAATA
81395 AAAACAATA
1 AAAACAATA
81404 AAAA
1 AAAA
81408 AAACAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAACAATA
Found at i:82870 original size:17 final size:18
Alignment explanation
Indices: 82834--82871 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
82824 GCTCCGGGTC
82834 GGGTTTTAGATTTAGGTT
1 GGGTTTTAGATTTAGGTT
*
82852 GGGTTTTAGGTTT-GGTT
1 GGGTTTTAGATTTAGGTT
82869 GGG
1 GGG
82872 CTTGGACGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (18 bp):
GGGTTTTAGATTTAGGTT
Found at i:84085 original size:69 final size:68
Alignment explanation
Indices: 84000--84235 Score: 285
Period size: 69 Copynumber: 3.4 Consensus size: 68
83990 TACGATAATA
* * *
84000 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCAGTGCTAGTCAACCGAAATAATTACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGCTCCA-TGCAAGTCAACCGAAATAATTACGAT
84065 TAGG
65 TAGG
* * *
84069 TGCTCCCGTGCAAGTCACTCTAATCCTTCGGAGCTCTCATGCAAGTTACCCGAAATAATTACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGCTC-CATGCAAGTCAACCGAAATAATTACGAT
84134 TAGG
65 TAGG
* * * * * * * *
84138 TGCTCCTGTGTGAGTCACTCTATTCCTTCGGGGCTTTCATGCGAGTC-ACCTAGAATAATCACGA
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGC-TCCATGCAAGTCAACCGA-AATAATTACGA
84202 TTAGG
64 TTAGG
* *
84207 TGCTCCCTTGCGAGTCACTTTAATCCTTC
1 TGCTCCCGTGCGAGTCACTCTAATCCTTC
84236 AAGGCTCATG
Statistics
Matches: 142, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
68 3 0.02
69 136 0.96
70 3 0.02
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (68 bp):
TGCTCCCGTGCGAGTCACTCTAATCCTTCGGAGCTCCATGCAAGTCAACCGAAATAATTACGATT
AGG
Found at i:84258 original size:138 final size:138
Alignment explanation
Indices: 84000--84263 Score: 331
Period size: 138 Copynumber: 1.9 Consensus size: 138
83990 TACGATAATA
* *
84000 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCAGTGCTAGTCAACCGAAATAATTACGAT
1 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCAGTGCGAGTCAACCGAAATAATCACGAT
* *
84065 TAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCGGAGCTCTCATGCAAGTTACCCGAAATAATTA
66 TAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCAGAGCTCTCATGCAAGTCACCCGAAATAATTA
84130 CGATTAGG
131 CGATTAGG
* * * *
84138 TGCT-CCTGTGTGAGTCACTCTATTCCTTCGGGGCTTTCA-TGCGAGTC-ACCTAGAATAATCAC
1 TGCTCCCT-TGTGAGTCACTCTAATCCTTCGGAGC-TCCAGTGCGAGTCAACCGA-AATAATCAC
* * * * *
84200 GATTAGGTGCTCCCTTGCGAGTCACTTTAATCCTTCA-AGGCTCAT-GTGCGAGTCACCCGAAAT
63 GATTAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCAGA-GCTC-TCATGCAAGTCACCCGAAAT
84263 A
126 A
84264 CTCATTATTA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
137 8 0.07
138 96 0.89
139 4 0.04
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (138 bp):
TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCAGTGCGAGTCAACCGAAATAATCACGAT
TAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCAGAGCTCTCATGCAAGTCACCCGAAATAATTA
CGATTAGG
Found at i:84521 original size:76 final size:76
Alignment explanation
Indices: 84394--84948 Score: 673
Period size: 76 Copynumber: 7.3 Consensus size: 76
84384 ACATTAACAT
* *
84394 GTAATTCCAGCACTAAA-TTAAACACATCACAATTCTAGCAGTGAAACTTAACATTGACTTACAC
1 GTAATTCCAGCACTAAACTT-ATCACAT---AATTCCAGCAGTGAAACTTAACATTGACTTACAC
84458 CAGTGAAATGAATAC
62 CAGTGAAATGAATAC
* * * * * * *
84473 ATAATTCTAGCACTAAACTTATGACATGATTTCAGCAGTGAAACTTAACATTGACTTAAACCAGA
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
84538 GATATGAATAC
66 GAAATGAATAC
* * * * * *
84549 GTAATTCAAGCACCAAACTTATCACATTATTTCAGCAGTGAAATTTAACATTGTCTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
84614 AAAATGAATAC
66 GAAATGAATAC
* * * * **
84625 GTAATTCCAGCGCTAAACTTATCACATAATTTCAGTAGTGAAACTTAACATTAACTTACACCAAC
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
84690 GAAATGAATAT
66 GAAATGAATAC
* *
84701 GTAATTCC-GACACTAAACTTATCACATAGTTCCAACAGTGAAACTTAACATTGACTTACACCAG
1 GTAATTCCAG-CACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAG
*
84765 TGAAATGAATAT
65 TGAAATGAATAC
* * * *
84777 GTAATTCCAGCACTAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
* *
84842 AAAATGAATAT
66 GAAATGAATAC
* * ** * *
84853 GTAATTCCAACATTAAACTTATCACATAATTCCAGCAACGAAATTTAACATTGACTTACATCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
84918 GAAATCAATAC
66 GAAATGAATAC
* *
84929 GTAACTCCATCACTAAACTT
1 GTAATTCCAGCACTAAACTT
84949 TGAAGCTTAA
Statistics
Matches: 415, Mismatches: 58, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
75 1 0.00
76 391 0.94
77 1 0.00
79 20 0.05
80 2 0.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (76 bp):
GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATAC
Found at i:84987 original size:58 final size:57
Alignment explanation
Indices: 84897--85007 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 57
84887 GCAACGAAAT
* *
84897 TTAACATTGACTTACATCAGTGAAATCAATACGTAACTCCATCACTAAACTTTGAAGC
1 TTAACATTGACTTACATAAGTGAAATCAATACGTAACTCCAGCACTAAA-TTTGAAGC
* * *
84955 TTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAATTTG
1 TTAACATTGACTTACATAAGTGAAATCAATACGTAACTCCAGCACTAAATTTG
85008 TCACATACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 4 0.08
58 44 0.92
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (57 bp):
TTAACATTGACTTACATAAGTGAAATCAATACGTAACTCCAGCACTAAATTTGAAGC
Found at i:85062 original size:134 final size:134
Alignment explanation
Indices: 84821--85082 Score: 355
Period size: 134 Copynumber: 2.0 Consensus size: 134
84811 ACAATGAAAT
* * *
84821 TTAACATTGACTTACACCAGTAAAATGAATATGTAATTCCAACATTAAACTTATCACATAATTCC
1 TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTCC
* *
84886 AGCAACGAAATTTAACATTGACTTACATCAGTGAAATCAATACGTAACTCCATCACTAAACTTTG
66 AGCAACGAAAGTTAACATTGACTTACATCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
84951 AAGC
131 AAGC
* * * * * * *
84955 TTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAATTTGTCACATACTTCC
1 TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTCC
* ** * *
85020 CGCAGTGAAAGTTAACTTTGACTTACATCAGTGAAA-CAAATACGTAATTCCAGCACTAAACTT
66 AGCAACGAAAGTTAACATTGACTTACATCAGTGAAATC-AATACGTAACTCCAGCACTAAACTT
85083 ATCACATAAT
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
133 1 0.01
134 109 0.99
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (134 bp):
TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTCC
AGCAACGAAAGTTAACATTGACTTACATCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
AAGC
Found at i:85088 original size:76 final size:76
Alignment explanation
Indices: 84949--85312 Score: 422
Period size: 76 Copynumber: 4.8 Consensus size: 76
84939 CACTAAACTT
* ** * * *
84949 TGAAGCTTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAATTTGTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
* *
85014 ACTTCCCGCAG
66 AATTCCAGCAG
* * * **
85025 TGAAAGTTAACTTTGACTTACATCAGTGAAACAAATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
*
85090 AATTCCTGCAG
66 AATTCCAGCAG
* * * * * *
85101 TGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAATTCCAGCATTAAATTTATCACCT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
*
85166 AATTCCAGGAG
66 AATTCCAGCAG
* * * * *
85177 TGAAACTTAACATTGACTTAAACCAATGAAATGAATACATACTTCCAGCACTAAACTTTTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
* * *
85242 AAGTCAAGGAG
66 AATTCCAGCAG
* * * * *
85253 TGAGACTGAACATTGACTTACACTAGTGAAATGAATTCGTAATTACAGCACTAAACTTAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTAT
85313 GATTTCACAT
Statistics
Matches: 243, Mismatches: 45, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 243 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
AATTCCAGCAG
Found at i:85113 original size:210 final size:210
Alignment explanation
Indices: 84739--85147 Score: 539
Period size: 210 Copynumber: 1.9 Consensus size: 210
84729 GTTCCAACAG
* * *
84739 TGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAGCACTAAACTTATCACCT
1 TGAAACTTAACATTGACTTACACAAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
* ** * *
84804 AATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATATGTAATTCCAACATTAA
66 AATTCCAACAATGAAAGTTAACATTGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
* * * * *
84869 ACTTATCACATAATTCCAGCAACGAAATTTAACATTGACTTACATCAGTGAAATCAATACGTAAC
131 ACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTCACACCAGCGAAATCAATACATAAC
84934 TCCATCACTAAACTT
196 TCCATCACTAAACTT
* * * * *
84949 TGAAGCTTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAATTTGTCACAT
1 TGAAACTTAACATTGACTTACACAAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
* ** * * * * *
85014 ACTTCCCGCAGTGAAAGTTAACTTTGACTTACATCAGTGAAACAAATACGTAATTCCAGCACTAA
66 AATTCCAACAATGAAAGTTAACATTGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
* ** * *
85079 ACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAAT
131 ACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTCACACCAGCGAAATCAATACATAAC
85144 TCCA
196 TCCA
85148 GCATTAAATT
Statistics
Matches: 168, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
210 168 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (210 bp):
TGAAACTTAACATTGACTTACACAAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
AATTCCAACAATGAAAGTTAACATTGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
ACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTCACACCAGCGAAATCAATACATAAC
TCCATCACTAAACTT
Found at i:85189 original size:286 final size:286
Alignment explanation
Indices: 84663--85235 Score: 738
Period size: 286 Copynumber: 2.0 Consensus size: 286
84653 ATTTCAGTAG
* *
84663 TGAAACTTAACATTAACTTACACCAACGAAATGAATATGTAATTCCGACACTAAACTTATCACAT
1 TGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCAGACACTAAACTTATCACAT
* ** *
84728 AGTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAGCACTAA
66 ACTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAA
* * * * **
84793 ACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATATGTAAT
131 ACTTATCACATAATTCCAACAATGAAACTTAACATTGACTCACACCAGCAAAATGAATACATAAT
* * * *
84858 TCCAACATTAAACTTATCACATAATTCCAGCAACGAAATTTAACATTGACTTACATCAGTGAAAT
196 TCCAACATTAAACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTTAAACCAATGAAAT
* *
84923 CAATACGTAAC-TCCATCACTAAACTT
261 CAATACAT-ACTTCCAGCACTAAACTT
* * * * * *
84949 TGAAGCTTAACATTGACTTACA-TAAGTGAAATGAATACGTAATTCTAG-CACTAAATTTGTCAC
1 TGAAACTTAACATTAACTTACACCAA-CGAAATGAATACGTAATTC-AGACACTAAACTTATCAC
** * * *
85012 ATACTTCCCGCAGTGAAAGTTAACTTTGACTTACATCAGTGAAACAAATACGTAATTCCAGCACT
64 ATACTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACT
** * *
85077 AAACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATA
129 AAACTTATCACATAATTCCAACAATGAAACTTAACATTGACTCACACCAGCAAAATGAATACATA
* * * * **
85142 ATTCCAGCATTAAATTTATCACCTAATTCCAGGAGTGAAACTTAACATTGACTTAAACCAATGAA
194 ATTCCAACATTAAACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTTAAACCAATGAA
*
85207 ATGAATACATACTTCCAGCACTAAACTT
259 ATCAATACATACTTCCAGCACTAAACTT
85235 T
1 T
85236 TCACATAAGT
Statistics
Matches: 244, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
285 4 0.02
286 239 0.98
287 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.28
Consensus pattern (286 bp):
TGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCAGACACTAAACTTATCACAT
ACTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAA
ACTTATCACATAATTCCAACAATGAAACTTAACATTGACTCACACCAGCAAAATGAATACATAAT
TCCAACATTAAACTTATCACATAATTCCAGCAACGAAACTTAACATTGACTTAAACCAATGAAAT
CAATACATACTTCCAGCACTAAACTT
Found at i:85267 original size:362 final size:362
Alignment explanation
Indices: 84593--85310 Score: 900
Period size: 362 Copynumber: 2.0 Consensus size: 362
84583 GCAGTGAAAT
* * * *
84593 TTAACATTGTCTTACACCAGTAAAATGAATACGTAATTCCAGCGCTAAACTTATCACATAATTTC
1 TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCC
* ** *
84658 AGTAGTGAAACTTAACATTAACTTACACCAACGAAATGAATATGTAATTCCGACACTAAACTTAT
66 AGCAGTGAAACTTAACATTAACTTACACCAACGAAACAAATACGTAATTCCGACACTAAACTTAT
* * * **
84723 CACATAGTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAGC
131 CACATAATTCCAACAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAATTCCAGC
* * * *
84788 ACTAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATAT
196 ACTAAACTTATCACCTAATTCCAACAATGAAACTTAACATTGACTTAAACCAATAAAATGAATAC
* * * * * *
84853 GTAATTCCAACATTAAACTTATCACATAATTCCAGCAACGAAATTTAACATTGACTTACA-TCAG
261 ATAATTCCAACACTAAACTTATCACATAAGTCAAGCAACGAAACTGAACATTGACTTACACT-AG
* *
84917 TGAAATCAATACGTAACTCCATCACTAAACTTTGAAGC
325 TGAAATCAATACGTAACTACAGCACTAAACTTTGAAGC
* * * * * *
84955 TTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAATTTGTCACATACTTCC
1 TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCC
* * * * * **
85020 CGCAGTGAAAGTTAACTTTGACTTACATCAGTGAAACAAATACGTAATTCC-AGCACTAAACTTA
66 AGCAGTGAAACTTAACATTAACTTACACCAACGAAACAAATACGTAATTCCGA-CACTAAACTTA
**
85084 TCACATAATTCCTGCAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAATTCCAG
130 TCACATAATTCCAACAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAATTCCAG
* * ** * *
85149 CATTAAATTTATCACCTAATTCCAGGAGTGAAACTTAACATTGACTTAAACCAATGAAATGAATA
195 CACTAAACTTATCACCTAATTCCAACAATGAAACTTAACATTGACTTAAACCAATAAAATGAATA
* * * * ** *
85214 CATACTTCCAGCACTAAACTTTTCACATAAGTCAAGGAGTGAGACTGAACATTGACTTACACTAG
260 CATAATTCCAACACTAAACTTATCACATAAGTCAAGCAACGAAACTGAACATTGACTTACACTAG
* * *
85279 TGAAATGAATTCGTAATTACAGCACTAAACTT
325 TGAAATCAATACGTAACTACAGCACTAAACTT
85311 ATGATTTCAC
Statistics
Matches: 298, Mismatches: 56, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
361 1 0.00
362 296 0.99
363 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (362 bp):
TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCC
AGCAGTGAAACTTAACATTAACTTACACCAACGAAACAAATACGTAATTCCGACACTAAACTTAT
CACATAATTCCAACAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAATTCCAGC
ACTAAACTTATCACCTAATTCCAACAATGAAACTTAACATTGACTTAAACCAATAAAATGAATAC
ATAATTCCAACACTAAACTTATCACATAAGTCAAGCAACGAAACTGAACATTGACTTACACTAGT
GAAATCAATACGTAACTACAGCACTAAACTTTGAAGC
Found at i:91014 original size:17 final size:17
Alignment explanation
Indices: 90989--91022 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90979 AATGAGATAA
*
90989 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
91006 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
91023 TGAGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:92867 original size:41 final size:41
Alignment explanation
Indices: 92820--92926 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 41
92810 TTTTCTTTCT
92820 CTGTTCGAAACAGTGAAAATATTTTTTTTC-TATTTTTTATG
1 CTGTTCGAAACAGTGAAAA-ATTTTTTTTCTTATTTTTTATG
* * *
92861 TTGTTCGAAACAGTG--AAATTTTTTTTCTTTTTTTTTCTG
1 CTGTTCGAAACAGTGAAAAATTTTTTTTCTTATTTTTTATG
* *
92900 CTGTTTGAAACAATGAACAAATTTTTT
1 CTGTTCGAAACAGTGAA-AAATTTTTT
92927 CGACTTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
38 10 0.18
39 23 0.41
41 14 0.25
42 9 0.16
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.51
Consensus pattern (41 bp):
CTGTTCGAAACAGTGAAAAATTTTTTTTCTTATTTTTTATG
Found at i:98820 original size:6 final size:6
Alignment explanation
Indices: 98809--98860 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
98799 TTGTTTAATC
* * *
98809 TTTATT TTTATT TTCAAT TTTATT TTT-TT AATTTATT TTTGTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT --TTTATT TTTATT TTTATT
98858 TTT
1 TTT
98861 CTTTGATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 2 0.05
6 30 0.81
7 3 0.08
8 2 0.05
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:100697 original size:84 final size:83
Alignment explanation
Indices: 100608--100762 Score: 256
Period size: 84 Copynumber: 1.9 Consensus size: 83
100598 AATAAAGAAA
* *
100608 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAGATAAAA
1 TAAATCCTAATTAAAACACTTAAAACAATTTAAACTAAAATACCTAAAACAAAGATAAAAT-AAA
100673 TATAATAAAAATAATATCC
65 TATAATAAAAATAATATCC
* * *
100692 TAAATCCTAATTAAAATACTTAAAACAATTTAAACTAATATACCTAAAACAAAGATAAAATTAAT
1 TAAATCCTAATTAAAACACTTAAAACAATTTAAACTAAAATACCTAAAACAAAGATAAAATAAAT
100757 ATAATA
66 ATAATA
100763 TCCTAAAACA
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 9 0.14
84 57 0.86
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (83 bp):
TAAATCCTAATTAAAACACTTAAAACAATTTAAACTAAAATACCTAAAACAAAGATAAAATAAAT
ATAATAAAAATAATATCC
Found at i:101723 original size:38 final size:39
Alignment explanation
Indices: 101681--101761 Score: 112
Period size: 37 Copynumber: 2.1 Consensus size: 39
101671 TTTTTCCTCC
* * * *
101681 TTTTTATGCTGTTCGGAACAGTGAA-ATTTTTT-TCTTT
1 TTTTTTTGCTGTTCGAAACAATGAACATTTTTTGACTTT
101718 TTTTTTTGCTGTTCGAAACAATGAACATTTTTTGACTTT
1 TTTTTTTGCTGTTCGAAACAATGAACATTTTTTGACTTT
101757 TTTTT
1 TTTTT
101762 CGTGGAACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 22 0.58
38 7 0.18
39 9 0.24
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.56
Consensus pattern (39 bp):
TTTTTTTGCTGTTCGAAACAATGAACATTTTTTGACTTT
Found at i:102427 original size:19 final size:19
Alignment explanation
Indices: 102380--102430 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
102370 GTTTTGTCCC
102380 AAAACGTATATCAAATTTA
1 AAAACGTATATCAAATTTA
**
102399 AAAATTTATATCAAATTTA
1 AAAACGTATATCAAATTTA
102418 AAAACGTATATCA
1 AAAACGTATATCA
102431 CATATAACGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (19 bp):
AAAACGTATATCAAATTTA
Found at i:105627 original size:23 final size:21
Alignment explanation
Indices: 105596--105648 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
105586 ATAGCCTTCA
*
105596 AAATCCTAAACACAAGGTAAAGAT
1 AAATCCTAAA-ACAAAG-AAA-AT
105620 -AATCCTAAAACAAAGAAAAT
1 AAATCCTAAAACAAAGAAAAT
105640 AAATCCTAA
1 AAATCCTAA
105649 TTAAAATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 11 0.41
22 5 0.19
23 9 0.33
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (21 bp):
AAATCCTAAAACAAAGAAAAT
Found at i:106994 original size:6 final size:7
Alignment explanation
Indices: 106979--107040 Score: 56
Period size: 7 Copynumber: 8.3 Consensus size: 7
106969 TAAATTAATT
106979 AAAATAA
1 AAAATAA
106986 AAAATAA
1 AAAATAA
106993 AAAATAA
1 AAAATAA
107000 AAACAGTAA
1 AAA-A-TAA
107009 AAACA-ACA
1 AAA-ATA-A
107017 CAAAATAA
1 -AAAATAA
107025 AAAA-ATA
1 AAAATA-A
107032 AAAATAA
1 AAAATAA
107039 AA
1 AA
107041 TAAGTACAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
6 1 0.02
7 30 0.62
8 5 0.10
9 12 0.25
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (7 bp):
AAAATAA
Found at i:108470 original size:17 final size:18
Alignment explanation
Indices: 108429--108471 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
108419 TTTGGGCTCC
*
108429 AGGTCGGGTTTTAGATTT
1 AGGTTGGGTTTTAGATTT
* *
108447 AGGTTGGGTTTTGGGTTT
1 AGGTTGGGTTTTAGATTT
108465 -GGTTGGG
1 AGGTTGGG
108472 CTTGGCCGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.09, C:0.02, G:0.44, T:0.44
Consensus pattern (18 bp):
AGGTTGGGTTTTAGATTT
Found at i:108896 original size:136 final size:136
Alignment explanation
Indices: 108683--109234 Score: 773
Period size: 136 Copynumber: 4.1 Consensus size: 136
108673 CTTCTGGAAT
* * * * * ** * * * *
108683 TGTTGATCCCTCAAGCGAGGTGTTAATGATTCGAGGTGTTGTGCATCTAGCAATAGGTCAAACAA
1 TGTTAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCGAGTAATAGGTCAAACAA
* * *
108748 GTTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGTACTCTCAAT
66 GCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCAT
**
108813 CGGAAA
131 TTGAAA
*
108819 TGTTAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATGAATCGAGTAATAGGTCAAACAA
1 TGTTAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCGAGTAATAGGTCAAACAA
** *
108884 GCTCCTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAACTCTCCAT
66 GCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCAT
108949 TTG-AA
131 TTGAAA
* *
108954 TGGTTAATCCCTCAAGCGAGGGGTCACTGATTCAAAATGTCGTGAATCGAGTGATAGGTCAAACA
1 T-GTTAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCGAGTAATAGGTCAAACA
* * * *
109019 AGCTCTTCTCATTATAAACTTCGTGTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCA
65 AGCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCA
109084 TTTGAAA
130 TTTGAAA
** * * *
109091 TGTTAATCCCTCAAGCGAGGCGTCACTGATTTGAAATGTCGTTAATCGAGTGATAGGTCGAACAA
1 TGTTAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCGAGTAATAGGTCAAACAA
* * * *
109156 GCTATTCTCGTTATGAACTTTTTCTCCCTCTTTCGGATGATTTCTTCTCATTATGAACTCTCCAT
66 GCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCAT
109221 TTGAAA
131 TTGAAA
109227 TGTTAATC
1 TGTTAATC
109235 GATTCGTCTT
Statistics
Matches: 373, Mismatches: 41, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
135 3 0.01
136 367 0.98
137 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (136 bp):
TGTTAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCGAGTAATAGGTCAAACAA
GCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCAT
TTGAAA
Found at i:121781 original size:34 final size:35
Alignment explanation
Indices: 121743--121823 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
121733 TAATAAACTT
*
121743 AATTAAAATAATTAAAAAACAA-AT-AAATAATAAA
1 AATTAAAATAATAAAAAAACAACATAAAAT-ATAAA
*
121777 AATTAAAAACAATAAAAAAACAACATAAAATATAAA
1 AATT-AAAATAATAAAAAAACAACATAAAATATAAA
*
121813 AATAAAAATAA
1 AATTAAAATAA
121824 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 4 0.10
35 22 0.55
36 10 0.25
37 4 0.10
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (35 bp):
AATTAAAATAATAAAAAAACAACATAAAATATAAA
Found at i:121813 original size:19 final size:18
Alignment explanation
Indices: 121774--121828 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 18
121764 AATAAATAAT
* *
121774 AAAAATTAAAA-ACAATA
1 AAAAATAAAAATAAAATA
*
121791 AAAAA-ACAACATAAAATA
1 AAAAATA-AAAATAAAATA
121809 TAAAAATAAAAATAAAATA
1 -AAAAATAAAAATAAAATA
121828 A
1 A
121829 GTAAAAGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 8 0.27
18 6 0.20
19 15 0.50
20 1 0.03
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAATAAAAATAAAATA
Found at i:123261 original size:17 final size:18
Alignment explanation
Indices: 123225--123262 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
123215 GCTCCGGGTC
123225 GGGTTTTAGATTTAGGTT
1 GGGTTTTAGATTTAGGTT
*
123243 GGGTTTTAGGTTT-GGTT
1 GGGTTTTAGATTTAGGTT
123260 GGG
1 GGG
123263 CTTGGACGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (18 bp):
GGGTTTTAGATTTAGGTT
Found at i:124495 original size:54 final size:54
Alignment explanation
Indices: 124397--124506 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
124387 CTCCCTTGTG
* ** *
124397 AGTCACTCTAATCCTTCGGAGCTCCAATGTGAGTCAACCGAAATAATTACGATT
1 AGTCACTCTAATCATTCGGAGCTCCAATGCAAGTCAACCAAAATAATTACGATT
* * *
124451 AGTCACTCTAATCATTCGGAGCTCTC-GTGCAAGTTACCCAAAATAATTACGATT
1 AGTCACTCTAATCATTCGGAGCTC-CAATGCAAGTCAACCAAAATAATTACGATT
124505 AG
1 AG
124507 GTGCTCCCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (54 bp):
AGTCACTCTAATCATTCGGAGCTCCAATGCAAGTCAACCAAAATAATTACGATT
Found at i:124565 original size:69 final size:69
Alignment explanation
Indices: 124451--124605 Score: 211
Period size: 69 Copynumber: 2.2 Consensus size: 69
124441 AATTACGATT
* * * *
124451 AGTCACTCTAATCATTCGGAGCTCTCGTGCAAGTTACCCAAAATAATTACGATTAGGTGCTCCCG
1 AGTCACTCTAATCCTTCGGAGCTCTCGTGCAAGTCACCCAAAATAATAACGATTAGATGCTCCCG
*
124516 TGTG
66 TGCG
* * * * * *
124520 AGTCACTCTATTCCTTCGGGGCTTTCGTGCAAGTCACCTAGAATAATAACGATTAGATGCTCCCT
1 AGTCACTCTAATCCTTCGGAGCTCTCGTGCAAGTCACCCAAAATAATAACGATTAGATGCTCCCG
124585 TGCG
66 TGCG
124589 AGTCACTCTAATCCTTC
1 AGTCACTCTAATCCTTC
124606 AAGGCTCATG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 74 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (69 bp):
AGTCACTCTAATCCTTCGGAGCTCTCGTGCAAGTCACCCAAAATAATAACGATTAGATGCTCCCG
TGCG
Found at i:124633 original size:69 final size:69
Alignment explanation
Indices: 124451--124633 Score: 172
Period size: 69 Copynumber: 2.7 Consensus size: 69
124441 AATTACGATT
* * * * * * * *
124451 AGTCACTCTAATCATTC-GGAGCTCTCGTGCAAGTTACCCAAAATAATTACGATTAGGTGCTCCC
1 AGTCACTCTAATCCTTCAAG-GCTATCGTGCAACTCACCCAGAATAATAACGATTAGATGCTCCC
*
124515 GTGTG
65 GTGCG
* ** * * * *
124520 AGTCACTCTATTCCTTCGGGGCTTTCGTGCAAGTCACCTAGAATAATAACGATTAGATGCTCCCT
1 AGTCACTCTAATCCTTCAAGGCTATCGTGCAACTCACCCAGAATAATAACGATTAGATGCTCCCG
124585 TGCG
66 TGCG
* *
124589 AGTCACTCTAATCCTTCAAGGCTCAT-GTGCGACTCACCCGGAATA
1 AGTCACTCTAATCCTTCAAGGCT-ATCGTGCAACTCACCCAGAATA
124634 CTCATTATTA
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
69 91 0.97
70 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (69 bp):
AGTCACTCTAATCCTTCAAGGCTATCGTGCAACTCACCCAGAATAATAACGATTAGATGCTCCCG
TGCG
Found at i:124892 original size:76 final size:76
Alignment explanation
Indices: 124765--125319 Score: 666
Period size: 76 Copynumber: 7.3 Consensus size: 76
124755 CATTTAACAT
* * *
124765 GTAATTCCAGCAATAAA-TTAAACACATCACAATTCTAGCAGTGAAACTTAACATTGACTTACAC
1 GTAATTCCAGCACTAAACTT-ATCACAT-A-ATTTC-AGCAGTGAAACTTAACATTGACTTACAC
124829 CAGTGAAATGAATAC
62 CAGTGAAATGAATAC
* * * * *
124844 GAAATTCTAGCACTAAACTTCTGACA-AGATTTCAGCAGTGAAACTTAACATTGACTTAAACCAG
1 GTAATTCCAGCACTAAACTTATCACATA-ATTTCAGCAGTGAAACTTAACATTGACTTACACCAG
*
124908 AGAAATGAATAC
65 TGAAATGAATAC
* * * * *
124920 GTAATTCAAGCACCAAACTTATCACATTATTTCAGCAGTGAAATTTAACATTGTCTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
124985 AAAATGAATAC
66 GAAATGAATAC
* * * * **
124996 GTAATTCTAGCGCTAAACTTATCACATAATTTCAGTAGTGAAACTTAACATTAACTTACACCAAC
1 GTAATTCCAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
125061 GAAATGAATAT
66 GAAATGAATAC
* * *
125072 GTAATTCC-GACACTAAACTTATCACATAGTTCCAACAGTGAAACTTAACATTGACTTACACCAG
1 GTAATTCCAG-CACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAG
*
125136 TGAAATGAATAT
65 TGAAATGAATAC
* * * *
125148 GTAATTCCAGCACTAAACTTATCACCTAATTTCAACAATGAAATTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
125213 AAAATGAATAC
66 GAAATGAATAC
* * * * * * *
125224 GTAATTCCAACATTAAACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTATATCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
125289 GAAATCAATAC
66 GAAATGAATAC
* *
125300 GTAACTCCATCACTAAACTT
1 GTAATTCCAGCACTAAACTT
125320 TGAAGCTTAA
Statistics
Matches: 409, Mismatches: 63, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
75 1 0.00
76 383 0.94
77 6 0.01
79 17 0.04
80 2 0.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (76 bp):
GTAATTCCAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATAC
Found at i:125208 original size:228 final size:228
Alignment explanation
Indices: 124795--125680 Score: 791
Period size: 228 Copynumber: 4.0 Consensus size: 228
124785 AACACATCAC
* ** *
124795 AATTCTAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGAAATTCTAGCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAACGAAATGAATACGAAATTCGAGCACTAA
* * * *
124860 ACTTCTGACAAGATTTCAGCAGTGAAACTTAACATTGACTTAAACCAGAGAAATGAATACGTAAT
66 ACTTATCACAAGATTCCAACAGTGAAACTTAACATTGACTTAAACCAGAGAAATGAATACGTAAT
* * * *
124925 TCAAGCACCAAACTTATCACATTATTTCAGCAGTGAAATTTAACATTGTCTTACACCAGTAAAAT
131 TCAAGCACCAAACTTATCACATAATTTCAACAATGAAATTTAACATTGACTTACACCAGTAAAAT
* * *
124990 GAATACGTAATTCTAGCGCTAAACTTATCACAT
196 GAATACGTAATTCCAACACTAAACTTATCACAT
* * * * *
125023 AATTTCAGTAGTGAAACTTAACATTAACTTACACCAACGAAATGAATATGTAATTCCGA-CACTA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAACGAAATGAATACGAAATT-CGAGCACTA
* * *
125087 AACTTATCACATAG-TTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTA
65 AACTTATCACA-AGATTCCAACAGTGAAACTTAACATTGACTTAAACCAGAGAAATGAATACGTA
* * *
125151 ATTCCAGCACTAAACTTATCACCTAATTTCAACAATGAAATTTAACATTGACTTACACCAGTAAA
129 ATTCAAGCACCAAACTTATCACATAATTTCAACAATGAAATTTAACATTGACTTACACCAGTAAA
*
125216 ATGAATACGTAATTCCAACATTAAACTTATCACAT
194 ATGAATACGTAATTCCAACACTAAACTTATCACAT
* * * * ** * * * * *
125251 AATTCCAGCAGCGAAATTTAACATTGACTTATATCAGTGAAATCAATACGTAACTCCATCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAACGAAATGAATACGAAATTCGAGCACTAA
* ** * *
125316 ACTT-T-----G------A-A--G---CTTAACATTGACTTACATAAGGGAAATGAATACATAAT
66 ACTTATCACAAGATTCCAACAGTGAAACTTAACATTGACTTAAACCAGAGAAATGAATACGTAAT
* * * * * * ** * * * * * *
125363 TCTAGCACTAAAATTGTCACATACTTCCCGCAGTGAAAGTTAACTTTGACTTACATCAGTGAAAC
131 TCAAGCACCAAACTTATCACATAATTTCAACAATGAAATTTAACATTGACTTACACCAGTAAAAT
* *
125428 AAATACGTAATTCCAGCACTAAACTTATCACAT
196 GAATACGTAATTCCAACACTAAACTTATCACAT
* * * * *
125461 AATTCCTGCAGTGAAAC-TAACATTGACTCACACCCAGCGAAATGAATAC-ATAATTCCAGCATT
1 AATTCCAGCAGTGAAACTTAACATTGACTTACA-CCAACGAAATGAATACGA-AATTCGAGCACT
* * ** *
125524 AAATTTATCACCTA-ATTCCAGGAGTGAAACTTAACATTGACTTAAACCA-ATGAAATGAATACA
64 AAACTTATCA-CAAGATTCCAACAGTGAAACTTAACATTGACTTAAACCAGA-GAAATGAATACG
* * * * * * * * * * *
125587 TACTTCCAGCACTAAACTTTTCACATAA-GTC-A-AGTGAGACTGAACATTGACTTACACTAGTG
127 TAATTCAAGCACCAAACTTATCACATAATTTCAACAATGAAATTTAACATTGACTTACACCAGTA
* *
125649 AAATGAATTCGTAATTCCAGCACTAAACTTAT
192 AAATGAATACGTAATTCCAACACTAAACTTAT
125681 GATTTCACAT
Statistics
Matches: 536, Mismatches: 97, Indels: 53
0.78 0.14 0.08
Matches are distributed among these distances:
209 13 0.02
210 155 0.29
211 1 0.00
213 1 0.00
215 1 0.00
216 1 0.00
221 1 0.00
223 1 0.00
225 54 0.10
227 4 0.01
228 300 0.56
229 4 0.01
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (228 bp):
AATTCCAGCAGTGAAACTTAACATTGACTTACACCAACGAAATGAATACGAAATTCGAGCACTAA
ACTTATCACAAGATTCCAACAGTGAAACTTAACATTGACTTAAACCAGAGAAATGAATACGTAAT
TCAAGCACCAAACTTATCACATAATTTCAACAATGAAATTTAACATTGACTTACACCAGTAAAAT
GAATACGTAATTCCAACACTAAACTTATCACAT
Found at i:125433 original size:134 final size:134
Alignment explanation
Indices: 125192--125453 Score: 346
Period size: 134 Copynumber: 2.0 Consensus size: 134
125182 ACAATGAAAT
* * * * *
125192 TTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACATTAAACTTATCACATAATTCC
1 TTAACATTGACTTACACAAGGAAAATGAATACATAATTCCAACACTAAAATTATCACATAATTCC
* * *
125257 AGCAGCGAAATTTAACATTGACTTATATCAGTGAAATCAATACGTAACTCCATCACTAAACTTTG
66 AGCAGCGAAAGTTAACATTGACTTACATCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
125322 AAGC
131 AAGC
* * * * * *
125326 TTAACATTGACTTACATAAGGGAAATGAATACATAATTCTAGCACTAAAATTGTCACATACTTCC
1 TTAACATTGACTTACACAAGGAAAATGAATACATAATTCCAACACTAAAATTATCACATAATTCC
* * * *
125391 CGCAGTGAAAGTTAACTTTGACTTACATCAGTGAAA-CAAATACGTAATTCCAGCACTAAACTT
66 AGCAGCGAAAGTTAACATTGACTTACATCAGTGAAATC-AATACGTAACTCCAGCACTAAACTT
125454 ATCACATAAT
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
133 1 0.01
134 108 0.99
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (134 bp):
TTAACATTGACTTACACAAGGAAAATGAATACATAATTCCAACACTAAAATTATCACATAATTCC
AGCAGCGAAAGTTAACATTGACTTACATCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
AAGC
Found at i:125459 original size:76 final size:76
Alignment explanation
Indices: 125320--125680 Score: 388
Period size: 76 Copynumber: 4.8 Consensus size: 76
125310 CACTAAACTT
* ** * * * *
125320 TGAAGCTTAACATTGACTTACATAAGGGAAATGAATACATAATTCTAGCACTAAAATTGTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
*
125385 ACTTCCCGCAG
66 AATTCCCGCAG
* * * ** *
125396 TGAAAGTTAACTTTGACTTACATCAGTGAAACAAATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
*
125461 AATTCCTGCAG
66 AATTCCCGCAG
* * * * *
125472 TGAAAC-TAACATTGACTCACACCCAGCGAAATGAATACATAATTCCAGCATTAAATTTATCACC
1 TGAAACTTAACATTGACTTACA-CCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACA
* *
125536 TAATTCCAGGAG
65 TAATTCCCGCAG
* * * *
125548 TGAAACTTAACATTGACTTAAACCAATGAAATGAATACATACTTCCAGCACTAAACTTTTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* *
125613 AAGT--C-AAG
66 AATTCCCGCAG
* * * * *
125621 TGAGACTGAACATTGACTTACACTAGTGAAATGAATTCGTAATTCCAGCACTAAACTTAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTAT
125681 GATTTCACAT
Statistics
Matches: 236, Mismatches: 47, Indels: 7
0.81 0.16 0.02
Matches are distributed among these distances:
73 53 0.22
75 13 0.06
76 157 0.67
77 13 0.06
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
AATTCCCGCAG
Found at i:125560 original size:286 final size:286
Alignment explanation
Indices: 125034--125606 Score: 722
Period size: 286 Copynumber: 2.0 Consensus size: 286
125024 ATTTCAGTAG
** * *
125034 TGAAACTTAACATTAACTTACACCAACGAAATGAATATGTAATTCCGACACTAAACTTATCACAT
1 TGAAACTTAACATTAACTTACACCAACGAAATGAATACATAATTCAGACACTAAAATTATCACAT
* ** *
125099 AGTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAGCACTAA
66 ACTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAA
* * * * * *
125164 ACTTATCACCTAATTTCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAAT
131 ACTTATCACATAATTCCAACAATGAAATCTAACATTGACTCACACCAGCAAAATGAATACATAAT
* * * *
125229 TCCAACATTAAACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTATATCAGTGAAAT
196 TCCAACATTAAACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTAAACCAATGAAAT
* *
125294 CAATACGTAAC-TCCATCACTAAACTT
261 CAATACAT-ACTTCCAGCACTAAACTT
* * * * *
125320 TGAAGCTTAACATTGACTTACA-TAAGGGAAATGAATACATAATTCTAG-CACTAAAATTGTCAC
1 TGAAACTTAACATTAACTTACACCAA-CGAAATGAATACATAATTC-AGACACTAAAATTATCAC
** * * *
125383 ATACTTCCCGCAGTGAAAGTTAACTTTGACTTACATCAGTGAAACAAATACGTAATTCCAGCACT
64 ATACTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACT
** * *
125448 AAACTTATCACATAATTCCTGCAGTGAAA-CTAACATTGACTCACACCCAGCGAAATGAATACAT
129 AAACTTATCACATAATTCCAACAATGAAATCTAACATTGACTCACA-CCAGCAAAATGAATACAT
* * * * *
125512 AATTCCAGCATTAAATTTATCACCTAATTCCAGGAGTGAAACTTAACATTGACTTAAACCAATGA
193 AATTCCAACATTAAACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTAAACCAATGA
*
125577 AATGAATACATACTTCCAGCACTAAACTT
258 AATCAATACATACTTCCAGCACTAAACTT
125606 T
1 T
125607 TCACATAAGT
Statistics
Matches: 243, Mismatches: 40, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
285 18 0.07
286 224 0.92
287 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.28
Consensus pattern (286 bp):
TGAAACTTAACATTAACTTACACCAACGAAATGAATACATAATTCAGACACTAAAATTATCACAT
ACTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAA
ACTTATCACATAATTCCAACAATGAAATCTAACATTGACTCACACCAGCAAAATGAATACATAAT
TCCAACATTAAACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTAAACCAATGAAAT
CAATACATACTTCCAGCACTAAACTT
Found at i:130716 original size:8 final size:8
Alignment explanation
Indices: 130670--130724 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
130660 ACAAATAAAT
130670 AATAAAAA
1 AATAAAAA
*
130678 ACTAAAAA
1 AATAAAAA
*
130686 CAGTAAAAA
1 -AATAAAAA
*
130695 AACAACATAA
1 AATAA-A-AA
130705 AATAAAAA
1 AATAAAAA
130713 AATAAAAA
1 AATAAAAA
130721 AATA
1 AATA
130725 TAAGTACAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 24 0.62
9 9 0.23
10 6 0.15
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.13
Consensus pattern (8 bp):
AATAAAAA
Found at i:130721 original size:36 final size:36
Alignment explanation
Indices: 130653--130720 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
130643 ATTAAAATAT
* *
130653 TAAAACAACAAATAAATAATAAAAAACTAAAAACAG
1 TAAAAAAACAAATAAATAATAAAAAAATAAAAACAG
130689 TAAAAAAACAACAT-AA-AATAAAAAAATAAAAA
1 TAAAAAAACAA-ATAAATAATAAAAAAATAAAAA
130721 AATATAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 15 0.52
36 12 0.41
37 2 0.07
ACGTcount: A:0.76, C:0.09, G:0.01, T:0.13
Consensus pattern (36 bp):
TAAAAAAACAAATAAATAATAAAAAAATAAAAACAG
Found at i:133434 original size:18 final size:18
Alignment explanation
Indices: 133411--133445 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
133401 AATAAGGAGC
*
133411 AGAAGGAATTGGTTAAAT
1 AGAAGGAATTAGTTAAAT
133429 AGAAGGAATTAGTTAAA
1 AGAAGGAATTAGTTAAA
133446 ATCAAAAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
AGAAGGAATTAGTTAAAT
Found at i:136668 original size:38 final size:38
Alignment explanation
Indices: 136625--136715 Score: 123
Period size: 37 Copynumber: 2.4 Consensus size: 38
136615 ATCCTTCAGA
136625 GCTCCCGTGCGAGTCAACC-ATAATAATTACGATTAGGT
1 GCTCCCGTGCGAGTCAACCGA-AATAATTACGATTAGGT
* * *
136663 GCTCCCGTGC-ATTTACCCGAAATAATTACGATTAGGT
1 GCTCCCGTGCGAGTCAACCGAAATAATTACGATTAGGT
*
136700 GCTCCCGTGTGAGTCA
1 GCTCCCGTGCGAGTCA
136716 CTCTATTCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
37 31 0.69
38 14 0.31
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (38 bp):
GCTCCCGTGCGAGTCAACCGAAATAATTACGATTAGGT
Found at i:136810 original size:69 final size:69
Alignment explanation
Indices: 136683--136824 Score: 160
Period size: 69 Copynumber: 2.1 Consensus size: 69
136673 ATTTACCCGA
* * * * * * ** *
136683 AATAATTACGATTAGGTGCTCCCGTGTGAGTCACTCTATTCCTTTAGGGTTTTCGTGCGAGTCAG
1 AATAATCACGATTAGGTGCGCCCGTGCGAGTCACTCTAATCCTTAAGGCTCCTCGTGCGAGTCAC
136748 CTAG
66 CTAG
* *
136752 AATAATCACGATTAGGTTCGCCCTTGCGAGTCACTCTAATCCTTCAAGGCTCCT-GTGCGAGTCA
1 AATAATCACGATTAGGTGCGCCCGTGCGAGTCACTCTAATCCTT-AAGGCTCCTCGTGCGAGTCA
*
136816 CCTGG
65 CCTAG
136821 AATA
1 AATA
136825 CTCATTAGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
69 55 0.92
70 5 0.08
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (69 bp):
AATAATCACGATTAGGTGCGCCCGTGCGAGTCACTCTAATCCTTAAGGCTCCTCGTGCGAGTCAC
CTAG
Found at i:137086 original size:76 final size:76
Alignment explanation
Indices: 136974--137510 Score: 593
Period size: 76 Copynumber: 7.1 Consensus size: 76
136964 AGCACTAAAT
* * * *
136974 TAAACATATCAC--AATTCTAGCAGTGAAACTTAACATTGACTTACACTAGTGAAATGAATACGT
1 TAAACTTATCACATAATTCCAGAAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGT
*
137037 AATTCTAGCAC
66 AATTCCAGCAC
* * *
137048 TAAACTTA-CGACATGATTTCAGAAGTGAAACTTAACATTGACTTACACCAGAGAAATGAATACG
1 TAAACTTATC-ACATAATTCCAGAAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACG
*
137112 TAATTCAAGCAC
65 TAATTCCAGCAC
* * * ** * * * * *
137124 CAAACTTATCACATTATTTCATCAGTGAAATTTAATATTGTCTTACACCAGTAAAATGAATATGT
1 TAAACTTATCACATAATTCCAGAAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGT
* *
137189 AATTGCAGCGC
66 AATTCCAGCAC
* * * **
137200 TAAACTTATCACATAATTTCAGTAGTGAAACTTAACATTAACTTACACCAACGAAATGAATACGT
1 TAAACTTATCACATAATTCCAGAAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGT
*
137265 AATTCC-GACAT
66 AATTCCAG-CAC
*
137276 TAAACTTATCACATAGTTCCA-ACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATC
1 TAAACTTATCACATAATTCCAGA-AGTGAAACTTAACATTGACTTACACCAGTGAAATGAATA-C
137340 -TAATTCCAGCAC
64 GTAATTCCAGCAC
* * * * *
137352 TAAACTTATCACCTAATTCCA-ACAATGAAATTTAACAATGACTTACACCAGTAAAATGAATACG
1 TAAACTTATCACATAATTCCAGA-AGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACG
* *
137416 TAATTCCAACAT
65 TAATTCCAGCAC
* * * * * *
137428 TAAACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTACATCGGTGAAATCAATACGT
1 TAAACTTATCACATAATTCCAGAAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGT
* *
137493 AACTCCATCAC
66 AATTCCAGCAC
137504 TAAACTT
1 TAAACTT
137511 TGAAGCTTAA
Statistics
Matches: 390, Mismatches: 63, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
73 1 0.00
74 9 0.02
75 2 0.01
76 375 0.96
77 3 0.01
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (76 bp):
TAAACTTATCACATAATTCCAGAAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGT
AATTCCAGCAC
Found at i:137624 original size:134 final size:134
Alignment explanation
Indices: 137383--137644 Score: 328
Period size: 134 Copynumber: 2.0 Consensus size: 134
137373 ACAATGAAAT
* * *
137383 TTAACAATGACTTACACCAGTAAAATGAATACGTAATTCCAACATTAAACTTATCACATAATTCC
1 TTAACAATGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAAATTATCACATAATTCC
* * * * *
137448 AGCAGCGAAATTTAACATTGACTTACATCGGTGAAATCAATACGTAACTCCATCACTAAACTTTG
66 AGCAGCGAAAGTAAACATTGACTTACACCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
137513 AAGC
131 AAGC
* * * * * * * *
137517 TTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCGCTAAAATTGTCACATACTTCC
1 TTAACAATGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAAATTATCACATAATTCC
* * * *
137582 CGCAGTGAAAGTAAACCTTGACTTACACCAGTGAAA-CAAATACGTAATTCCAGCACTAAACTT
66 AGCAGCGAAAGTAAACATTGACTTACACCAGTGAAATC-AATACGTAACTCCAGCACTAAACTT
137645 ATCACATAAT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
133 1 0.01
134 106 0.99
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (134 bp):
TTAACAATGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAAATTATCACATAATTCC
AGCAGCGAAAGTAAACATTGACTTACACCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
AAGC
Found at i:137650 original size:76 final size:76
Alignment explanation
Indices: 137511--137874 Score: 404
Period size: 76 Copynumber: 4.8 Consensus size: 76
137501 CACTAAACTT
* ** * * * * *
137511 TGAAGCTTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCGCTAAAATTGTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* *
137576 ACTTCCCGCAG
66 AATTCCAGCAG
* * * ** *
137587 TGAAAGTAAACCTTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
*
137652 AATTCCTGCAG
66 AATTCCAGCAG
* * * * * *
137663 TGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAATTCCAACATTAAATTTATCACCT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
*
137728 AATTCCAGGAG
66 AATTCCAGCAG
* * * *
137739 TGAAACTTAACATTGACTTAAACCAATGAAATGAATACATACTTCCAGCACTAAACTTTTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* * *
137804 AAGTCAAGGAG
66 AATTCCAGCAG
* * * * *
137815 TGAGACTGAACATTGACTTACACTACTGAAATGAATTCATAATTCCAGCACTAAACTTAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTAT
137875 GATTTCACAT
Statistics
Matches: 240, Mismatches: 48, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 240 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
AATTCCAGCAG
Found at i:137675 original size:210 final size:210
Alignment explanation
Indices: 137301--137680 Score: 528
Period size: 210 Copynumber: 1.8 Consensus size: 210
137291 GTTCCAACAG
* * *
137301 TGAAACTTAACATTGACTTACACCAGTGAAATGAATATCTAATTCCAGCACTAAACTTATCACCT
1 TGAAACTTAACATTGACTTACACAAGTGAAATGAATATCTAATTCCAGCACTAAAATTATCACAT
* * ** *
137366 AATTCCAACAATGAAATTTAACAATGACTTACACCAGTAAAATGAATACGTAATTCCAACATTAA
66 AATTCCAACAATGAAAGTAAACAATGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
*
137431 ACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTACATCGGTGAAATCAATACGTAAC
131 ACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTACATCGGTGAAATCAATACGTAAC
137496 TCCATCACTAAACTT
196 TCCATCACTAAACTT
* * * * *
137511 TGAAGCTTAACATTGACTTACATAAGTGAAATGAATA-CGTAATTCTAGCGCTAAAATTGTCACA
1 TGAAACTTAACATTGACTTACACAAGTGAAATGAATATC-TAATTCCAGCACTAAAATTATCACA
* ** * ** * *
137575 TACTTCCCGCAGTGAAAGTAAACCTTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTA
65 TAATTCCAACAATGAAAGTAAACAATGACTTACACCAGTAAAACAAATACGTAATTCCAACACTA
* *
137640 AACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACT
130 AACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACT
137681 CACACCAGCG
Statistics
Matches: 145, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
209 1 0.01
210 144 0.99
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (210 bp):
TGAAACTTAACATTGACTTACACAAGTGAAATGAATATCTAATTCCAGCACTAAAATTATCACAT
AATTCCAACAATGAAAGTAAACAATGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
ACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTACATCGGTGAAATCAATACGTAAC
TCCATCACTAAACTT
Found at i:137751 original size:286 final size:286
Alignment explanation
Indices: 137225--137758 Score: 732
Period size: 286 Copynumber: 1.9 Consensus size: 286
137215 ATTTCAGTAG
* * *
137225 TGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCCGACATTAAACTTATCACAT
1 TGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCAGACACTAAAATTATCACAT
* * **
137290 AGTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATCTAATTCCAGCACTAA
66 ACTTCCAACAGTGAAACTAAACATTGACTTACACCAGTGAAACAAATATCTAATTCCAGCACTAA
* * * * *
137355 ACTTATCACCTAATTCCAACAATGAAATTTAACAATGACTTACACCAGTAAAATGAATACGTAAT
131 ACTTATCACATAATTCCAACAATGAAACTTAACAATGACTCACACCAGCAAAATGAATACATAAT
*
137420 TCCAACATTAAACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTACATCGGTGAAAT
196 TCCAACATTAAACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTACATCGGTGAAAT
137485 CAATACGTAACTCCATCACTAAACTT
261 CAATACGTAACTCCATCACTAAACTT
* * * * * *
137511 TGAAGCTTAACATTGACTTACA-TAAGTGAAATGAATACGTAATTCTAG-CGCTAAAATTGTCAC
1 TGAAACTTAACATTAACTTACACCAA-CGAAATGAATACGTAATTC-AGACACTAAAATTATCAC
** * *
137574 ATACTTCCCGCAGTGAAAGTAAACCTTGACTTACACCAGTGAAACAAATA-CGTAATTCCAGCAC
64 ATACTTCCAACAGTGAAACTAAACATTGACTTACACCAGTGAAACAAATATC-TAATTCCAGCAC
** * * *
137638 TAAACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACAT
128 TAAACTTATCACATAATTCCAACAATGAAACTTAACAATGACTCACACCAGCAAAATGAATACAT
* * * *
137703 AATTCCAACATTAAATTTATCACCTAATTCCAGGAGTGAAACTTAACATTGACTTA
193 AATTCCAACATTAAACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTA
137759 AACCAATGAA
Statistics
Matches: 213, Mismatches: 32, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
285 3 0.01
286 209 0.98
287 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.28
Consensus pattern (286 bp):
TGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCAGACACTAAAATTATCACAT
ACTTCCAACAGTGAAACTAAACATTGACTTACACCAGTGAAACAAATATCTAATTCCAGCACTAA
ACTTATCACATAATTCCAACAATGAAACTTAACAATGACTCACACCAGCAAAATGAATACATAAT
TCCAACATTAAACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTACATCGGTGAAAT
CAATACGTAACTCCATCACTAAACTT
Found at i:137869 original size:362 final size:361
Alignment explanation
Indices: 137177--137872 Score: 869
Period size: 362 Copynumber: 1.9 Consensus size: 361
137167 TACACCAGTA
* * * * *
137177 AAATGAATATGTAATTGCAGCGCTAAACTTATCACATAATTTCAGTAGTGAAACTTAACATTAAC
1 AAATGAATACGTAATTGCAGCGCTAAAATTATCACATAATTCCAGCAGTGAAACTAAACATTAAC
** * *
137242 TTACACCAACGAAATGAATACGTAATTCCGACATTAAACTTATCACATAGTTCCAACAGTGAAAC
66 TTACACCAACGAAACAAATACGTAATTCCGACACTAAACTTATCACATAATTCCAACAGTGAAAC
* * *
137307 TTAACATTGACTTACACCAGTGAAATGAATATCTAATTCCAGCACTAAACTTATCACCTAATTCC
131 TTAACATTGACTCACACCAGCGAAATGAATATCTAATTCCAACACTAAACTTATCACCTAATTCC
* * * * *
137372 AACAATGAAATTTAACAATGACTTACACCAGTAAAATGAATACGTAATTCCAACATTAAACTTAT
196 AACAATGAAACTTAACAATGACTTAAACCAATAAAATGAATACATAATTCCAACACTAAACTTAT
* * * * * *
137437 CACATAATTCCAGCAGCGAAATTTAACATTGACTTACATCGGTGAAATCAATACGTAACTCCATC
261 CACATAAGTCAAGCAGCGAAACTGAACATTGACTTACATC-GTGAAATCAATACATAACTCCAGC
137502 ACTAAACTTTGAAGCTTAACATTGACTTACATAAGTG
325 ACTAAACTTTGAAGCTTAACATTGACTTACATAAGTG
* * * * * *
137539 AAATGAATACGTAATT-CTAGCGCTAAAATTGTCACATACTTCCCGCAGTGAAAGTAAACCTTGA
1 AAATGAATACGTAATTGC-AGCGCTAAAATTATCACATAATTCCAGCAGTGAAACTAAACATTAA
** **
137603 CTTACACCAGTGAAACAAATACGTAATTCC-AGCACTAAACTTATCACATAATTCCTGCAGTGAA
65 CTTACACCAACGAAACAAATACGTAATTCCGA-CACTAAACTTATCACATAATTCCAACAGTGAA
* *
137667 ACTTAACATTGACTCACACCAGCGAAATGAATA-CATAATTCCAACATTAAATTTATCACCTAAT
129 ACTTAACATTGACTCACACCAGCGAAATGAATATC-TAATTCCAACACTAAACTTATCACCTAAT
** * * * * *
137731 TCCAGGAGTGAAACTTAACATTGACTTAAACCAATGAAATGAATACATACTTCCAGCACTAAACT
193 TCCAACAATGAAACTTAACAATGACTTAAACCAATAAAATGAATACATAATTCCAACACTAAACT
* * * * * * *
137796 TTTCACATAAGTCAAGGAGTGAGACTGAACATTGACTTACACTAC-TGAAATGAATTCATAATTC
258 TATCACATAAGTCAAGCAGCGAAACTGAACATTGACTTACA-T-CGTGAAATCAATACATAACTC
137860 CAGCACTAAACTT
321 CAGCACTAAACTT
137873 ATGATTTCAC
Statistics
Matches: 280, Mismatches: 49, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
361 3 0.01
362 275 0.98
363 1 0.00
364 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (361 bp):
AAATGAATACGTAATTGCAGCGCTAAAATTATCACATAATTCCAGCAGTGAAACTAAACATTAAC
TTACACCAACGAAACAAATACGTAATTCCGACACTAAACTTATCACATAATTCCAACAGTGAAAC
TTAACATTGACTCACACCAGCGAAATGAATATCTAATTCCAACACTAAACTTATCACCTAATTCC
AACAATGAAACTTAACAATGACTTAAACCAATAAAATGAATACATAATTCCAACACTAAACTTAT
CACATAAGTCAAGCAGCGAAACTGAACATTGACTTACATCGTGAAATCAATACATAACTCCAGCA
CTAAACTTTGAAGCTTAACATTGACTTACATAAGTG
Found at i:143995 original size:24 final size:24
Alignment explanation
Indices: 143968--144069 Score: 116
Period size: 24 Copynumber: 4.3 Consensus size: 24
143958 TCAAAAACAT
143968 AATTCAAGTCAAGTATCAGATCAG
1 AATTCAAGTCAAGTATCAGATCAG
* *
143992 AATTCAGGTCATGTATCAGATCAG
1 AATTCAAGTCAAGTATCAGATCAG
* *
144016 AATCCATGTCAA-TATCAGATCAG
1 AATTCAAGTCAAGTATCAGATCAG
* * * * *
144039 AATCCAGGTCAGGTATCATAACAG
1 AATTCAAGTCAAGTATCAGATCAG
144063 AATTCAA
1 AATTCAA
144070 ATCGGAAATC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
23 21 0.32
24 45 0.68
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (24 bp):
AATTCAAGTCAAGTATCAGATCAG
Found at i:144047 original size:47 final size:48
Alignment explanation
Indices: 143975--144065 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
143965 CATAATTCAA
* * *
143975 GTCAAGTATCAGATCAGAATTCAGGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
*
144023 GTCAA-TATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAAT
144066 TCAAATCGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
Found at i:149042 original size:24 final size:24
Alignment explanation
Indices: 148958--149044 Score: 97
Period size: 24 Copynumber: 3.6 Consensus size: 24
148948 ATAAACGGTT
*
148958 ATATCAAAATCAGAATCCAGGTCATG
1 ATATCAGAA-CAGAATCCAGGTCA-G
* *
148984 -TATCAGATCAGAATCCATGTCA-
1 ATATCAGAACAGAATCCAGGTCAG
*
149006 ATATCAGATCAGAATCCAGGTCAG
1 ATATCAGAACAGAATCCAGGTCAG
*
149030 ATATCATAACAGAAT
1 ATATCAGAACAGAAT
149045 TCAAATCGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
23 21 0.40
24 26 0.49
25 6 0.11
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (24 bp):
ATATCAGAACAGAATCCAGGTCAG
Found at i:153812 original size:31 final size:31
Alignment explanation
Indices: 153767--153876 Score: 78
Period size: 31 Copynumber: 3.3 Consensus size: 31
153757 ACGATAATAT
* *
153767 GCTCCCTTGTGAGTCACTCTAATCCTTCGGA
1 GCTCCCGTGCGAGTCACTCTAATCCTTCGGA
* * *
153798 GCTCCCGTGCGAGTCAAC-CGAAATAATTACGATTAGGT
1 GCTCCCGTGCGAGTC-ACTC----TAA-T-C-CTTCGGA
* *
153836 GCTCCCGTGCAAGTCACTCTAATCCTTCGGG
1 GCTCCCGTGCGAGTCACTCTAATCCTTCGGA
153867 GCTCCCGTGC
1 GCTCCCGTGC
153877 AAGTTACCCG
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
31 28 0.46
32 3 0.05
33 1 0.02
34 3 0.05
35 3 0.05
36 1 0.02
37 3 0.05
38 19 0.31
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (31 bp):
GCTCCCGTGCGAGTCACTCTAATCCTTCGGA
Found at i:153840 original size:69 final size:69
Alignment explanation
Indices: 153766--154029 Score: 318
Period size: 69 Copynumber: 3.8 Consensus size: 69
153756 TACGATAATA
*
153766 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
1 TGCTCCCGTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
153831 TAGG
66 TAGG
** * * * *
153835 TGCTCCCGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTTACCCGAAATAATTACGAT
1 TGCTCCCGTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
153900 TAGG
66 TAGG
* ** * *
153904 TGCTCCCGTGTGAGTCACTCTATTCCTTCAGG-GCTTTCGTGCGAGTC-ACCTAGAATAATCACG
1 TGCTCCCGTGTGAGTCACTCTAATCCTTC-GGAGCTCCCGTGCGAGTCAACCGA-AATAATTACG
153967 ATTAGG
64 ATTAGG
* * * * * *
153973 TTCTCCCTTGTGAGTCACTCTAATCCTTC-AAGGCTCCTGTGCGAGTCACCCGGAATA
1 TGCTCCCGTGTGAGTCACTCTAATCCTTCGGA-GCTCCCGTGCGAGTCAACCGAAATA
154030 CTCATTATTA
Statistics
Matches: 163, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
68 3 0.02
69 156 0.96
70 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (69 bp):
TGCTCCCGTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
TAGG
Found at i:153851 original size:38 final size:38
Alignment explanation
Indices: 153798--153913 Score: 113
Period size: 38 Copynumber: 3.2 Consensus size: 38
153788 ATCCTTCGGA
*
153798 GCTCCCGTGCGAGTCAACCGAAATAATTACGATTAGGT
1 GCTCCCGTGCAAGTCAACCGAAATAATTACGATTAGGT
* * *
153836 GCTCCCGTGCAAGTC-ACTC----TAA-T-C-CTTCGGG
1 GCTCCCGTGCAAGTCAAC-CGAAATAATTACGATTAGGT
* *
153867 GCTCCCGTGCAAGTTACCCGAAATAATTACGATTAGGT
1 GCTCCCGTGCAAGTCAACCGAAATAATTACGATTAGGT
153905 GCTCCCGTG
1 GCTCCCGTG
153914 TGAGTCACTC
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
31 19 0.32
32 2 0.03
33 1 0.02
34 3 0.05
35 3 0.05
36 1 0.02
37 3 0.05
38 28 0.47
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (38 bp):
GCTCCCGTGCAAGTCAACCGAAATAATTACGATTAGGT
Found at i:153979 original size:138 final size:138
Alignment explanation
Indices: 153766--154029 Score: 352
Period size: 138 Copynumber: 1.9 Consensus size: 138
153756 TACGATAATA
* *
153766 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
1 TGCTCCCGTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATCACGAT
** *
153831 TAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTTACCCGAAATAATTA
66 TAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCAAGGCTCCCGTGCAAGTCACCCGAAATAATTA
153896 CGATTAGG
131 CGATTAGG
* ** *
153904 TGCTCCCGTGTGAGTCACTCTATTCCTTCAGG-GCTTTCGTGCGAGTC-ACCTAGAATAATCACG
1 TGCTCCCGTGTGAGTCACTCTAATCCTTC-GGAGCTCCCGTGCGAGTCAACCGA-AATAATCACG
* * ** * * *
153967 ATTAGGTTCTCCCTTGTGAGTCACTCTAATCCTTCAAGGCTCCTGTGCGAGTCACCCGGAATA
64 ATTAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCAAGGCTCCCGTGCAAGTCACCCGAAATA
154030 CTCATTATTA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
137 4 0.04
138 102 0.94
139 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (138 bp):
TGCTCCCGTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATCACGAT
TAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCAAGGCTCCCGTGCAAGTCACCCGAAATAATTA
CGATTAGG
Found at i:154289 original size:76 final size:76
Alignment explanation
Indices: 154160--154653 Score: 603
Period size: 76 Copynumber: 6.5 Consensus size: 76
154150 ACATTAACAT
* *
154160 GTAATTCCAGCACTAAA-TTAAACACATCACAATTCTAGCAGTGAAACTTAACATTGACTTACAC
1 GTAATTCCAGCACTAAACTT-ATCACAT---AATTCCAGCAGTGAAACTTAACATTGACTTACAC
154224 CAGTGAAATGAATAC
62 CAGTGAAATGAATAC
* ** * * ** *
154239 GTAATTCTAGCACTAAACTTATGGCATGATTTCAGCAGCAAAACTTAACATTGACTTACACCAGA
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
154304 GAAATGAATAC
66 GAAATGAATAC
* * * * * * *
154315 GTAATTCAAGCACCAAACTTATCAAATTATTTCAGCAGTGAAATTTAACATTGTCTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
* *
154380 AAAATGAATAT
66 GAAATGAATAC
* * * * * **
154391 GTAATTGCAGCGCTAAACTTATCACATAATTTCAGTAGTGAAACTTAACATTAACTTACACCAAC
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
154456 GAAATGAATAC
66 GAAATGAATAC
* * *
154467 GTAATTCCAACACTAAACTTATCACATAGTTCCAACAGTGAAACTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
154532 GAAATGAATAT
66 GAAATGAATAC
* * * * *
154543 GTAATTCCATCACTAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
154608 AAAATGAATAC
66 GAAATGAATAC
* *
154619 GTAATTCCAACATTAAACTTATCACATAATTCCAG
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAG
154654 TAGCAAAATT
Statistics
Matches: 355, Mismatches: 59, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
76 333 0.94
79 20 0.06
80 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (76 bp):
GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATAC
Found at i:157268 original size:29 final size:31
Alignment explanation
Indices: 157200--157265 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 31
157190 TGTTCAAAGT
* *
157200 TTGGCCACCAACCAAGATGAAATTTCTAATAAG
1 TTGGCCACCAACCAAGATGAAATTTC--ACAAC
157233 TTGGCCACCAACCAAGATGAAATTTC-CAAC
1 TTGGCCACCAACCAAGATGAAATTTCACAAC
157263 TTG
1 TTG
157266 CCAACTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
33 26 0.84
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (31 bp):
TTGGCCACCAACCAAGATGAAATTTCACAAC
Found at i:161901 original size:29 final size:31
Alignment explanation
Indices: 161833--161898 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 31
161823 TGTTCAAAGT
* *
161833 TTGGCCACCAACCAAGATGAAATTTCTAATAAG
1 TTGGCCACCAACCAAGATGAAATTTC--ACAAC
161866 TTGGCCACCAACCAAGATGAAATTTC-CAAC
1 TTGGCCACCAACCAAGATGAAATTTCACAAC
161896 TTG
1 TTG
161899 CCAACTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
33 26 0.84
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (31 bp):
TTGGCCACCAACCAAGATGAAATTTCACAAC
Found at i:164525 original size:21 final size:21
Alignment explanation
Indices: 164499--164566 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 21
164489 AAATTAATTA
164499 AAATAATAAAAACATAAAAAT
1 AAATAATAAAAACATAAAAAT
164520 AAATAATAAAAA-ACTAAAAACAGT
1 AAATAATAAAAACA-T-AAAA-A-T
164544 AAA-AA-AAACAACATAAAAAT
1 AAATAATAAA-AACATAAAAAT
164564 AAA
1 AAA
164567 AAAAATAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
20 5 0.12
21 14 0.34
22 11 0.27
23 6 0.15
24 5 0.12
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.15
Consensus pattern (21 bp):
AAATAATAAAAACATAAAAAT
Found at i:164547 original size:15 final size:13
Alignment explanation
Indices: 164503--164587 Score: 53
Period size: 15 Copynumber: 6.0 Consensus size: 13
164493 TAATTAAAAT
164503 AATAAAAACATAAA
1 AATAAAAACAT-AA
* *
164517 AATAAATAATAAAA
1 AATAAA-AACATAA
164531 AACTAAAAACAGTAA
1 AA-TAAAAACA-TAA
*
164546 AAAAAACAACATAAA
1 AATAAA-AACAT-AA
*
164561 AATAAAAAAAATAA
1 AAT-AAAAACATAA
* *
164575 AAAAAAAATATAA
1 AATAAAAACATAA
164588 GTACAAGGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
13 9 0.16
14 21 0.38
15 23 0.41
16 3 0.05
ACGTcount: A:0.79, C:0.06, G:0.01, T:0.14
Consensus pattern (13 bp):
AATAAAAACATAA
Found at i:164561 original size:29 final size:28
Alignment explanation
Indices: 164498--164580 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
164488 AAAATTAATT
* * *
164498 AAAATAATAAAAACATAAAAATAAATAAT
1 AAAAAAATAAAAACATAAAAA-AAACAAC
*
164527 AAAAAACTAAAAACAGTAAAAAAAACAAC
1 AAAAAAATAAAAACA-TAAAAAAAACAAC
* *
164556 ATAAAAATAAAAAAAATAAAAAAAA
1 AAAAAAAT-AAAAACATAAAAAAAA
164581 AATATAAGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
29 33 0.73
30 12 0.27
ACGTcount: A:0.80, C:0.06, G:0.01, T:0.13
Consensus pattern (28 bp):
AAAAAAATAAAAACATAAAAAAAACAAC
Found at i:167022 original size:31 final size:31
Alignment explanation
Indices: 166987--167086 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 31
166977 GCTCCCTTTT
166987 GAGTCACTCTAATCCTTCGGAGCTCCCGTGC
1 GAGTCACTCTAATCCTTCGGAGCTCCCGTGC
* *
167018 GAGTCAAC-CGAAATAATTACCATTAGGTGCTCCCGTGC
1 GAGTC-ACTC----TAA-T-CC-TTCGGAGCTCCCGTGC
* *
167056 AAGTCACTCTAATCCTTCGGGGCTCCCGTGC
1 GAGTCACTCTAATCCTTCGGAGCTCCCGTGC
167087 AAGTTACCCG
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
31 20 0.36
32 4 0.07
33 1 0.02
34 3 0.05
35 3 0.05
36 1 0.02
37 4 0.07
38 19 0.35
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (31 bp):
GAGTCACTCTAATCCTTCGGAGCTCCCGTGC
Found at i:167050 original size:69 final size:69
Alignment explanation
Indices: 166976--167239 Score: 291
Period size: 69 Copynumber: 3.8 Consensus size: 69
166966 TACGATAATA
** *
166976 TGCTCCCTTTTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACCAT
1 TGCTCCCTTGCGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
167041 TAGG
66 TAGG
* * * * * *
167045 TGCTCCCGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTTACCCGAAATAATTACGAT
1 TGCTCCCTTGCGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
167110 TAGG
66 TAGG
* * * ** * *
167114 TGCT-CCTGTGTGAGTCACTCTATTCCTTCGGGGCTTTCGTGCGAGTC-ACCTAGAATAATCACG
1 TGCTCCCT-TGCGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGA-AATAATTACG
167177 ATTAGG
64 ATTAGG
* ** * *
167183 TTCTCCCTTGCGAGTCACTCTAATCCTTC-GAGGCTCTTGTGCGAGTCACCCGGAATA
1 TGCTCCCTTGCGAGTCACTCTAATCCTTCGGA-GCTCCCGTGCGAGTCAACCGAAATA
167240 CTCATTATTA
Statistics
Matches: 161, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
68 6 0.04
69 150 0.93
70 5 0.03
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (69 bp):
TGCTCCCTTGCGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
TAGG
Found at i:167061 original size:38 final size:38
Alignment explanation
Indices: 167008--167119 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 38
166998 ATCCTTCGGA
*
167008 GCTCCCGTGCGAGTCAACCGAAATAATTACCATTAGGT
1 GCTCCCGTGCAAGTCAACCGAAATAATTACCATTAGGT
* *
167046 GCTCCCGTGCAAGTC-ACTC----TAA-T-CC-TTCGGG
1 GCTCCCGTGCAAGTCAAC-CGAAATAATTACCATTAGGT
* * *
167077 GCTCCCGTGCAAGTTACCCGAAATAATTACGATTAGGT
1 GCTCCCGTGCAAGTCAACCGAAATAATTACCATTAGGT
167115 GCTCC
1 GCTCC
167120 TGTGTGAGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
31 19 0.33
32 3 0.05
33 1 0.02
34 3 0.05
35 3 0.05
36 1 0.02
37 3 0.05
38 24 0.42
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (38 bp):
GCTCCCGTGCAAGTCAACCGAAATAATTACCATTAGGT
Found at i:167234 original size:138 final size:138
Alignment explanation
Indices: 166986--167239 Score: 348
Period size: 138 Copynumber: 1.8 Consensus size: 138
166976 TGCTCCCTTT
*
166986 TGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACCATTAGGTGCTCC
1 TGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATCACCATTAGGTGCTCC
* *
167051 CGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTTACCCGAAATAATTACGATTAGGTG
66 CGTGCAAGTCACTCTAATCCTTCGAGGCTCCCGTGCAAGTCACCCGAAATAATTACGATTAGGTG
167116 CTCCTGTG
131 CTCCTGTG
* * ** * * *
167124 TGAGTCACTCTATTCCTTCGGGGCTTTCGTGCGAGTC-ACCTAGAATAATCACGATTAGGTTCTC
1 TGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGA-AATAATCACCATTAGGTGCTC
* * ** * *
167188 CCTTGCGAGTCACTCTAATCCTTCGAGGCTCTTGTGCGAGTCACCCGGAATA
65 CCGTGCAAGTCACTCTAATCCTTCGAGGCTCCCGTGCAAGTCACCCGAAATA
167240 CTCATTATTA
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
137 4 0.04
138 95 0.96
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (138 bp):
TGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATCACCATTAGGTGCTCC
CGTGCAAGTCACTCTAATCCTTCGAGGCTCCCGTGCAAGTCACCCGAAATAATTACGATTAGGTG
CTCCTGTG
Found at i:167508 original size:76 final size:76
Alignment explanation
Indices: 167370--167924 Score: 646
Period size: 76 Copynumber: 7.3 Consensus size: 76
167360 ACATTAACAT
* *
167370 GTAATTCCAGCACTAAA-TTAAACACATCACAATTCTAGCAGTGAAACTTAACATTGACTTACAC
1 GTAATTCCAGCACTAAACTT-ATCACAT---AATTCCAGCAGTGAAACTTAACATTGACTTACAC
167434 CAGTGAAATGAATAC
62 CAGTGAAATGAATAC
** * * * **
167449 GTAATTCTC-GCACTAAACTTATGGCATGATTTCAGTAGCAAAACTTAACATTGACTTACACCAG
1 GTAATTC-CAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAG
*
167513 AGAAATGAATAC
65 TGAAATGAATAC
* * * * * *
167525 GTAATTCAAGCACCAAACTTATCACATTATTTCAGCAGTGAAATTTAACATTGTCTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
* *
167590 AAAATGAATAT
66 GAAATGAATAC
* *** * * * **
167601 GTAATTGCAATGCTAAACTTATCACATAATTTCAGTAGTGAAACTTAACATTAACTTACACCAAC
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
167666 GAAATGAATAG
66 GAAATGAATAC
* * *
167677 GTAATTCCAACACTAAACTTATCACATAGTTCCAACAGTGAAACTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
167742 GAAATGAATAT
66 GAAATGAATAC
* * * *
167753 GTAATTCCAGCACTAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
167818 AAAATGAATAC
66 GAAATGAATAC
* * * * *
167829 GTAATTCCAACATTAAACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTACATCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
167894 GAAATCAATAC
66 GAAATGAATAC
* *
167905 GTAACTCCATCACTAAACTT
1 GTAATTCCAGCACTAAACTT
167925 TGAAGCTTAA
Statistics
Matches: 405, Mismatches: 68, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
76 383 0.95
79 19 0.05
80 3 0.01
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (76 bp):
GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATAC
Found at i:167813 original size:228 final size:228
Alignment explanation
Indices: 167400--168288 Score: 823
Period size: 228 Copynumber: 4.0 Consensus size: 228
167390 AACACATCAC
* *
167400 AATTCTAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTC-GCACTA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTC-CAACACTA
** * **
167464 AACTTATGGCATGATTTCAGTAGCAAAACTTAACATTGACTTACACCAGAGAAATGAATACGTAA
65 AACTTATCACATGATTCCAACAGCAAAACTTAACATTGACTTACACCAGAGAAATGAATACGTAA
* * * * *
167529 TTCAAGCACCAAACTTATCACATTATTTCAGCAGTGAAATTTAACATTGTCTTACACCAGTAAAA
130 TTCAAGCACCAAACTTATCACATAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAA
* * **
167594 TGAATATGTAATTGCAATGCTAAACTTATCACAT
195 TGAATACGTAATTCCAACACTAAACTTATCACAT
* * * ** *
167628 AATTTCAGTAGTGAAACTTAACATTAACTTACACCAACGAAATGAATAGGTAATTCCAACACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
** * *
167693 ACTTATCACAT-AGTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAA
66 ACTTATCACATGA-TTCCAACAGCAAAACTTAACATTGACTTACACCAGAGAAATGAATACGTAA
* * *
167757 TTCCAGCACTAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAA
130 TTCAAGCACCAAACTTATCACATAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAA
*
167822 TGAATACGTAATTCCAACATTAAACTTATCACAT
195 TGAATACGTAATTCCAACACTAAACTTATCACAT
* * * * * *
167856 AATTCCAGCAGCGAAATTTAACATTGACTTACATCAGTGAAATCAATACGTAACTCCATCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
** *
167921 AC-T-T----TG------A-AG-----CTTAACATTGACTTACATAAGTGAAATGAATACGTAAT
66 ACTTATCACATGATTCCAACAGCAAAACTTAACATTGACTTACACCAGAGAAATGAATACGTAAT
* * * * * ** * * * * *
167968 TCTAGCACTAAAATTGTCACATACTTCCCGCAGTGAAAGTTAACTTTGACTTACACCAGTGAAAC
131 TCAAGCACCAAACTTATCACATAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAAT
* * *
168033 AAATACGTAATTCCAGCACTAAACTTATCGCAT
196 GAATACGTAATTCCAACACTAAACTTATCACAT
* * * * * *
168066 AATTCCTGCAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAATTCCAGCATTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
* * * * ** ** * * *
168131 ATTTATCACCTAACTCCAGGAGTGAAACTTAACATTGACTTAAACCA-ATGAAATGAATACATAC
66 ACTTATCACATGATTCCAACAGCAAAACTTAACATTGACTTACACCAGA-GAAATGAATACGTAA
* * * * * * * * * * *
168195 TTCCAGCACTAAACTTTTCACATAAGT-CAAGGAGTGAGACTGAACATTGACTTACACTAGTGAA
130 TTCAAGCACCAAACTTATCACATAATTCCAA-CAATGAAATTTAACATTGACTTACACCAGTAAA
* * *
168259 ATGAATTCTTAATTCCAGCACTAAACTTAT
194 ATGAATACGTAATTCCAACACTAAACTTAT
168289 GATTTCACAT
Statistics
Matches: 540, Mismatches: 98, Indels: 46
0.79 0.14 0.07
Matches are distributed among these distances:
210 172 0.32
211 1 0.00
212 1 0.00
215 2 0.00
216 2 0.00
222 1 0.00
223 2 0.00
226 1 0.00
227 4 0.01
228 354 0.66
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (228 bp):
AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
ACTTATCACATGATTCCAACAGCAAAACTTAACATTGACTTACACCAGAGAAATGAATACGTAAT
TCAAGCACCAAACTTATCACATAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAAT
GAATACGTAATTCCAACACTAAACTTATCACAT
Found at i:168038 original size:134 final size:134
Alignment explanation
Indices: 167797--168058 Score: 364
Period size: 134 Copynumber: 2.0 Consensus size: 134
167787 ACAATGAAAT
* * *
167797 TTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACATTAAACTTATCACATAATTCC
1 TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAAATTATCACATAATTCC
* * *
167862 AGCAGCGAAATTTAACATTGACTTACATCAGTGAAATCAATACGTAACTCCATCACTAAACTTTG
66 AGCAGCGAAAGTTAACATTGACTTACACCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
167927 AAGC
131 AAGC
* * * * * *
167931 TTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAAATTGTCACATACTTCC
1 TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAAATTATCACATAATTCC
* * * *
167996 CGCAGTGAAAGTTAACTTTGACTTACACCAGTGAAA-CAAATACGTAATTCCAGCACTAAACTT
66 AGCAGCGAAAGTTAACATTGACTTACACCAGTGAAATC-AATACGTAACTCCAGCACTAAACTT
168059 ATCGCATAAT
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
133 1 0.01
134 110 0.99
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (134 bp):
TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAAATTATCACATAATTCC
AGCAGCGAAAGTTAACATTGACTTACACCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
AAGC
Found at i:168077 original size:76 final size:76
Alignment explanation
Indices: 167925--168288 Score: 413
Period size: 76 Copynumber: 4.8 Consensus size: 76
167915 CACTAAACTT
* ** * * * *
167925 TGAAGCTTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAAATTGTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* *
167990 ACTTCCCGCAG
66 AATTCCAGCAG
* * ** * *
168001 TGAAAGTTAACTTTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAAACTTATCGCAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
*
168066 AATTCCTGCAG
66 AATTCCAGCAG
* * * * *
168077 TGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAATTCCAGCATTAAATTTATCACCT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* *
168142 AACTCCAGGAG
66 AATTCCAGCAG
* * * *
168153 TGAAACTTAACATTGACTTAAACCAATGAAATGAATACATACTTCCAGCACTAAACTTTTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* * *
168218 AAGTCAAGGAG
66 AATTCCAGCAG
* * * * *
168229 TGAGACTGAACATTGACTTACACTAGTGAAATGAATTCTTAATTCCAGCACTAAACTTAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTAT
168289 GATTTCACAT
Statistics
Matches: 241, Mismatches: 47, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 241 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
AATTCCAGCAG
Found at i:168089 original size:210 final size:210
Alignment explanation
Indices: 167715--168123 Score: 557
Period size: 210 Copynumber: 1.9 Consensus size: 210
167705 GTTCCAACAG
* * * *
167715 TGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAGCACTAAACTTATCACCT
1 TGAAACTTAACATTGACTTACACAAGTGAAATGAATACGTAATTCCAGCACTAAAATTATCACAT
* ** *
167780 AATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACATTAA
66 AATTCCAACAATGAAAGTTAACATTGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
* * * * *
167845 ACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTACATCAGTGAAATCAATACGTAAC
131 ACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTCACACCAGCGAAATCAATACATAAC
167910 TCCATCACTAAACTT
196 TCCATCACTAAACTT
* * * *
167925 TGAAGCTTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAAATTGTCACAT
1 TGAAACTTAACATTGACTTACACAAGTGAAATGAATACGTAATTCCAGCACTAAAATTATCACAT
* ** * * * *
167990 ACTTCCCGCAGTGAAAGTTAACTTTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAA
66 AATTCCAACAATGAAAGTTAACATTGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
* * * * *
168055 ACTTATCGCATAATTCCTGCAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAAT
131 ACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTCACACCAGCGAAATCAATACATAAC
168120 TCCA
196 TCCA
168124 GCATTAAATT
Statistics
Matches: 170, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
210 170 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.28
Consensus pattern (210 bp):
TGAAACTTAACATTGACTTACACAAGTGAAATGAATACGTAATTCCAGCACTAAAATTATCACAT
AATTCCAACAATGAAAGTTAACATTGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
ACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTCACACCAGCGAAATCAATACATAAC
TCCATCACTAAACTT
Found at i:168165 original size:286 final size:286
Alignment explanation
Indices: 167639--168211 Score: 754
Period size: 286 Copynumber: 2.0 Consensus size: 286
167629 ATTTCAGTAG
* *
167639 TGAAACTTAACATTAACTTACACCAACGAAATGAATAGGTAATTCCAACACTAAACTTATCACAT
1 TGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCCAACACTAAAATTATCACAT
* ** *
167704 AGTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAGCACTAA
66 ACTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAA
* * * * *
167769 ACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAAT
131 ACTTATCACATAATTCCAACAATGAAACTTAACATTGACTCACACCAGCAAAATGAATACATAAT
* * * * *
167834 TCCAACATTAAACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTACATCAGTGAAAT
196 TCCAACATTAAACTTATCACATAACTCCAGCAGCGAAACTTAACATTGACTTAAACCAATGAAAT
* *
167899 CAATACGTAAC-TCCATCACTAAACTT
261 CAATACAT-ACTTCCAGCACTAAACTT
* * * * * * *
167925 TGAAGCTTAACATTGACTTACA-TAAGTGAAATGAATACGTAATTCTAGCACTAAAATTGTCACA
1 TGAAACTTAACATTAACTTACACCAA-CGAAATGAATACGTAATTCCAACACTAAAATTATCACA
** * *
167989 TACTTCCCGCAGTGAAAGTTAACTTTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTA
65 TACTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTA
* ** * *
168054 AACTTATCGCATAATTCCTGCAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAA
130 AACTTATCACATAATTCCAACAATGAAACTTAACATTGACTCACACCAGCAAAATGAATACATAA
* * * * *
168119 TTCCAGCATTAAATTTATCACCTAACTCCAGGAGTGAAACTTAACATTGACTTAAACCAATGAAA
195 TTCCAACATTAAACTTATCACATAACTCCAGCAGCGAAACTTAACATTGACTTAAACCAATGAAA
*
168184 TGAATACATACTTCCAGCACTAAACTT
260 TCAATACATACTTCCAGCACTAAACTT
168211 T
1 T
168212 TCACATAAGT
Statistics
Matches: 245, Mismatches: 40, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
285 4 0.02
286 241 0.98
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.28
Consensus pattern (286 bp):
TGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCCAACACTAAAATTATCACAT
ACTTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAA
ACTTATCACATAATTCCAACAATGAAACTTAACATTGACTCACACCAGCAAAATGAATACATAAT
TCCAACATTAAACTTATCACATAACTCCAGCAGCGAAACTTAACATTGACTTAAACCAATGAAAT
CAATACATACTTCCAGCACTAAACTT
Found at i:173521 original size:20 final size:18
Alignment explanation
Indices: 173498--173577 Score: 55
Period size: 18 Copynumber: 4.5 Consensus size: 18
173488 AACTTAATTA
173498 AAATAATTAAAACAACAAAT
1 AAATAA-TAAAA-AACAAAT
*
173518 AAATAATAAAAAACTAAT
1 AAATAATAAAAAACAAAT
173536 AACAGT-A-AAAAAACAACAT
1 AA-A-TAATAAAAAACAA-AT
*
173555 -AA-AAT-AAAAATAAAT
1 AAATAATAAAAAACAAAT
173570 AAA-AATAA
1 AAATAATAA
173578 TATAAGTACA
Statistics
Matches: 50, Mismatches: 3, Indels: 17
0.71 0.04 0.24
Matches are distributed among these distances:
15 2 0.04
16 13 0.26
17 2 0.04
18 17 0.34
19 9 0.18
20 7 0.14
ACGTcount: A:0.74, C:0.07, G:0.01, T:0.17
Consensus pattern (18 bp):
AAATAATAAAAAACAAAT
Found at i:173562 original size:18 final size:18
Alignment explanation
Indices: 173496--173564 Score: 50
Period size: 20 Copynumber: 3.6 Consensus size: 18
173486 TAAACTTAAT
*
173496 TAAAATAATTAAAACAACA
1 TAAAATAA-AAAAACAACA
* *
173515 AATAAATAATAAAA-AACTAA
1 TA-AAATAAAAAAACAAC--A
*
173535 TAACAGTAAAAAAACAACA
1 TAA-AATAAAAAAACAACA
173554 TAAAATAAAAA
1 TAAAATAAAAA
173565 TAAATAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
18 10 0.25
19 11 0.28
20 16 0.40
21 3 0.08
ACGTcount: A:0.72, C:0.09, G:0.01, T:0.17
Consensus pattern (18 bp):
TAAAATAAAAAAACAACA
Found at i:176024 original size:31 final size:31
Alignment explanation
Indices: 175979--176088 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 31
175969 ACGATAATAT
* *
175979 GCTCCCTTGTGAGTCACTCTAATCCTTCGGA
1 GCTCCCGTGCGAGTCACTCTAATCCTTCGGA
* *
176010 GCTCCCGTGCGAGTCAAC-CGAAATAATTACCATTAGGT
1 GCTCCCGTGCGAGTC-ACTC----TAA-T-CC-TTCGGA
* *
176048 GCTCCCGTGCAAGTCACTCTAATCCTTCGGG
1 GCTCCCGTGCGAGTCACTCTAATCCTTCGGA
176079 GCTCCCGTGC
1 GCTCCCGTGC
176089 AAGTTACCCG
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
31 28 0.44
32 4 0.06
33 1 0.02
34 3 0.05
35 3 0.05
36 1 0.02
37 4 0.06
38 19 0.30
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (31 bp):
GCTCCCGTGCGAGTCACTCTAATCCTTCGGA
Found at i:176063 original size:38 final size:38
Alignment explanation
Indices: 176010--176121 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 38
176000 ATCCTTCGGA
*
176010 GCTCCCGTGCGAGTCAACCGAAATAATTACCATTAGGT
1 GCTCCCGTGCAAGTCAACCGAAATAATTACCATTAGGT
* *
176048 GCTCCCGTGCAAGTC-ACTC----TAA-T-CC-TTCGGG
1 GCTCCCGTGCAAGTCAAC-CGAAATAATTACCATTAGGT
* * *
176079 GCTCCCGTGCAAGTTACCCGAAATAATTACGATTAGGT
1 GCTCCCGTGCAAGTCAACCGAAATAATTACCATTAGGT
176117 GCTCC
1 GCTCC
176122 TGTGTGAGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
31 19 0.33
32 3 0.05
33 1 0.02
34 3 0.05
35 3 0.05
36 1 0.02
37 3 0.05
38 24 0.42
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (38 bp):
GCTCCCGTGCAAGTCAACCGAAATAATTACCATTAGGT
Found at i:176065 original size:69 final size:69
Alignment explanation
Indices: 175978--176229 Score: 308
Period size: 69 Copynumber: 3.7 Consensus size: 69
175968 TACGATAATA
* * * *
175978 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACCAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
176043 TAGG
66 TAGG
* * * *
176047 TGCTCCCGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTTACCCGAAATAATTACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
176112 TAGG
66 TAGG
* * * ** * *
176116 TGCTCCTGTGTGAGTCACTCTATTCCTTCGGGGCTTTCGTGCGAGTC-ACCTAGAATAATCACGA
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGA-AATAATTACGA
176180 TTAGG
65 TTAGG
* * ** *
176185 TTCTCCCTTGCGAGTCACTCTAATCCTTCAAGGCTCCTGTGCGAG
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAG
176230 CCACCTGGAA
Statistics
Matches: 153, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
68 3 0.02
69 150 0.98
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (69 bp):
TGCTCCCGTGCGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
TAGG
Found at i:176220 original size:138 final size:138
Alignment explanation
Indices: 175978--176226 Score: 349
Period size: 138 Copynumber: 1.8 Consensus size: 138
175968 TACGATAATA
*
175978 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATTACCAT
1 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATCACCAT
**
176043 TAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCGGGGCTCCCGTGCAAGTTACCCGAAATAATTA
66 TAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCAAGGCTCCCGTGCAAGTTACCCGAAATAATTA
176108 CGATTAGG
131 CGATTAGG
* * ** * *
176116 TGCT-CCTGTGTGAGTCACTCTATTCCTTCGGGGCTTTCGTGCGAGTC-ACCTAGAATAATCACG
1 TGCTCCCT-TGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGA-AATAATCACC
* * * *
176179 ATTAGGTTCTCCCTTGCGAGTCACTCTAATCCTTCAAGGCTCCTGTGC
64 ATTAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCAAGGCTCCCGTGC
176227 GAGCCACCTG
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
137 7 0.07
138 89 0.93
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.29
Consensus pattern (138 bp):
TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACCGAAATAATCACCAT
TAGGTGCTCCCGTGCAAGTCACTCTAATCCTTCAAGGCTCCCGTGCAAGTTACCCGAAATAATTA
CGATTAGG
Found at i:176498 original size:76 final size:76
Alignment explanation
Indices: 176373--176926 Score: 669
Period size: 76 Copynumber: 7.2 Consensus size: 76
176363 CATTAACATA
* * *
176373 TAATTCCAGCACTAAA-TTAAACACATCACAATTCTAGCAGTGAAACTTAACATTGACTTGCACC
1 TAATTCCAGCACTAAACTT-ATCACAT---AATTCCAGCAGTGAAACTTAACATTGACTTACACC
176437 AGTGAAATGAATACG
62 AGTGAAATGAATACG
* * * * *
176452 TAATTCTAGCACTAAACTTATGACATGATTTCAGCAGTGAAACTTAACATTGACTTACACCAGAG
1 TAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTG
176517 AAATGAATACG
66 AAATGAATACG
* * * * * * *
176528 TAATTCAAGCACCAAACTTATCACATTATTTCAGCAGTGAAATTTAACATTGTCTTACACCAGTA
1 TAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTG
*
176593 AAATGAATATG
66 AAATGAATACG
* *** * * * **
176604 TAATTGCAATGCTAAACTTATCACATAATTTCAGTAGTGAAACTTAACATTAACTTACACCAACG
1 TAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTG
*
176669 AAATGAATAGG
66 AAATGAATACG
* * * *
176680 TAATTCCAACACTAAACTTATCACATAGTTCCAACAGTGAAACTTAATATTGACTTACACCAGTG
1 TAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTG
*
176745 AAATGAATATG
66 AAATGAATACG
* * * * *
176756 TAATTCCAGCACTAAACTTATCACCTAATTCCAACAATGAAATTTAACATTGACTTACACCAGTA
1 TAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTG
176821 AAATGAATACG
66 AAATGAATACG
* * * * *
176832 TAATTCCAACATTAAACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTACATCAGTG
1 TAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTG
*
176897 AAATCAATACG
66 AAATGAATACG
* *
176908 TAACTCCATCACTAAACTT
1 TAATTCCAGCACTAAACTT
176927 TGAAGCTTAA
Statistics
Matches: 410, Mismatches: 64, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
76 388 0.95
79 20 0.05
80 2 0.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (76 bp):
TAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTG
AAATGAATACG
Found at i:177040 original size:134 final size:134
Alignment explanation
Indices: 176799--177060 Score: 364
Period size: 134 Copynumber: 2.0 Consensus size: 134
176789 ACAATGAAAT
* * *
176799 TTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACATTAAACTTATCACATAATTCC
1 TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAAATTATCACATAATTCC
* * *
176864 AGCAGCGAAATTTAACATTGACTTACATCAGTGAAATCAATACGTAACTCCATCACTAAACTTTG
66 AGCAGCGAAAGTTAACATTGACTTACACCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
176929 AAGC
131 AAGC
* * * * * *
176933 TTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAAATTGTCACATACTTCC
1 TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAAATTATCACATAATTCC
* * * *
176998 CGCAGTGAAAGTTAACTTTGACTTACACCAGTGAAA-CAAATACGTAATTCCAGCACTAAACTT
66 AGCAGCGAAAGTTAACATTGACTTACACCAGTGAAATC-AATACGTAACTCCAGCACTAAACTT
177061 ATCACATAAT
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
133 1 0.01
134 110 0.99
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (134 bp):
TTAACATTGACTTACACAAGTAAAATGAATACGTAATTCCAACACTAAAATTATCACATAATTCC
AGCAGCGAAAGTTAACATTGACTTACACCAGTGAAATCAATACGTAACTCCAGCACTAAACTTTG
AAGC
Found at i:177066 original size:76 final size:76
Alignment explanation
Indices: 176927--177290 Score: 422
Period size: 76 Copynumber: 4.8 Consensus size: 76
176917 CACTAAACTT
* ** * * * *
176927 TGAAGCTTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAAATTGTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* *
176992 ACTTCCCGCAG
66 AATTCCAGCAG
* * ** *
177003 TGAAAGTTAACTTTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
*
177068 AATTCCTGCAG
66 AATTCCAGCAG
* * * * *
177079 TGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAATTCCAGCATTAAATTTATCACCT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* *
177144 AACTCCAGGAG
66 AATTCCAGCAG
* * * *
177155 TGAAACTTAACATTGACTTAAACCAATGAAATGAATACATACTTCCAGCACTAAACTTTTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
* * *
177220 AAGTCAAGGAG
66 AATTCCAGCAG
* * * * *
177231 TGAGACTGAACATTGACTTACACTAGTGAAATGAATTCCTAATTCCAGCACTAAACTTAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTAT
177291 GATTTCACAT
Statistics
Matches: 243, Mismatches: 45, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 243 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAGCACTAAACTTATCACAT
AATTCCAGCAG
Found at i:177091 original size:210 final size:210
Alignment explanation
Indices: 176717--177125 Score: 557
Period size: 210 Copynumber: 1.9 Consensus size: 210
176707 GTTCCAACAG
* * * * *
176717 TGAAACTTAATATTGACTTACACCAGTGAAATGAATATGTAATTCCAGCACTAAACTTATCACCT
1 TGAAACTTAACATTGACTTACACAAGTGAAATGAATACGTAATTCCAGCACTAAAATTATCACAT
* ** *
176782 AATTCCAACAATGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACATTAA
66 AATTCCAACAATGAAAGTTAACATTGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
* * * * *
176847 ACTTATCACATAATTCCAGCAGCGAAATTTAACATTGACTTACATCAGTGAAATCAATACGTAAC
131 ACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTCACACCAGCGAAATCAATACATAAC
176912 TCCATCACTAAACTT
196 TCCATCACTAAACTT
* * * *
176927 TGAAGCTTAACATTGACTTACATAAGTGAAATGAATACGTAATTCTAGCACTAAAATTGTCACAT
1 TGAAACTTAACATTGACTTACACAAGTGAAATGAATACGTAATTCCAGCACTAAAATTATCACAT
* ** * * * *
176992 ACTTCCCGCAGTGAAAGTTAACTTTGACTTACACCAGTGAAACAAATACGTAATTCCAGCACTAA
66 AATTCCAACAATGAAAGTTAACATTGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
* * * *
177057 ACTTATCACATAATTCCTGCAGTGAAACTTAACATTGACTCACACCAGCGAAATGAATACATAAT
131 ACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTCACACCAGCGAAATCAATACATAAC
177122 TCCA
196 TCCA
177126 GCATTAAATT
Statistics
Matches: 170, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
210 170 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (210 bp):
TGAAACTTAACATTGACTTACACAAGTGAAATGAATACGTAATTCCAGCACTAAAATTATCACAT
AATTCCAACAATGAAAGTTAACATTGACTTACACCAGTAAAACAAATACGTAATTCCAACACTAA
ACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTCACACCAGCGAAATCAATACATAAC
TCCATCACTAAACTT
Done.