Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 149 of 276
Found at i:48523278 original size:101 final size:100
Alignment explanation
Indices: 48523128--48523353 Score: 231
Period size: 101 Copynumber: 2.2 Consensus size: 100
48523118 TTAGGTCCCG
* * * *
48523128 TGTGTGGTACTAAGCGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTGGTACTAAGTGCAGGCCACTATGTGTA-CAGATGGTTAGATCACAAGTGTAGTACTAAGT
* * * **
48523193 GCAGGCTACTATGTGTACCTGATAGCTTTGA-TCACA
65 GAAGGCCACTATGTGAACAAGATAGCTTTGACT-ACA
* * * *
48523229 TGTGTGGTACTAAGTGCAGGCCATTATGTGTA-AGAGTGGTTTTGATCACAAGTGTGGTACTATG
1 TGTGTGGTACTAAGTGCAGGCCACTATGTGTACAGA-TGG-TTAGATCACAAGTGTAGTACTAAG
* * *
48523293 TGAAGGCCACTTTGTGAAGAAGGTAGCTTTGACTACA
64 TGAAGGCCACTATGTGAACAAGATAGCTTTGACTACA
* * *
48523330 AGGGTGGTACTATGTGCAGGCCAC
1 TGTGTGGTACTAAGTGCAGGCCAC
48523354 CGGGTATCCG
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
99 3 0.03
100 3 0.03
101 95 0.93
102 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (100 bp):
TGTGTGGTACTAAGTGCAGGCCACTATGTGTACAGATGGTTAGATCACAAGTGTAGTACTAAGTG
AAGGCCACTATGTGAACAAGATAGCTTTGACTACA
Found at i:48527150 original size:49 final size:49
Alignment explanation
Indices: 48527023--48527390 Score: 559
Period size: 49 Copynumber: 7.6 Consensus size: 49
48527013 TCCTTCGGGA
* * *
48527023 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48527070 CCTGTCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
48527117 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTC-G-GC
* * *
48527168 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48527215 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
**
48527264 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
48527313 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
48527362 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
48527391 TATTCAAATA
Statistics
Matches: 297, Mismatches: 16, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 55 0.19
48 1 0.00
49 229 0.77
50 1 0.00
51 10 0.03
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:48530639 original size:5 final size:5
Alignment explanation
Indices: 48530629--48530655 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
48530619 GATTTTCATG
48530629 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
48530656 GATTTATGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:48549725 original size:19 final size:20
Alignment explanation
Indices: 48549701--48549743 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
48549691 TGACTATGGC
*
48549701 TTTTAGAAAATCAAATAT-T
1 TTTTAGAAAATAAAATATAT
48549720 TTTTAGAAAATAAAATATAT
1 TTTTAGAAAATAAAATATAT
48549740 TTTT
1 TTTT
48549744 TTTAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTAGAAAATAAAATATAT
Found at i:48551997 original size:96 final size:96
Alignment explanation
Indices: 48551833--48552009 Score: 309
Period size: 96 Copynumber: 1.8 Consensus size: 96
48551823 TATACACACA
* *
48551833 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGTTTCGC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACATTTCGC
48551898 ATTAGCCATTCGGCTTTACCTCATATCCGTC
66 ATTAGCCATTCGGCTTTACCTCATATCCGTC
* * *
48551929 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACATTTCGC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACATTTCGC
48551994 ATTAGCCATTCGGCTT
66 ATTAGCCATTCGGCTT
48552010 CGCCACATAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.34
Consensus pattern (96 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACATTTCGC
ATTAGCCATTCGGCTTTACCTCATATCCGTC
Found at i:48552019 original size:46 final size:46
Alignment explanation
Indices: 48551833--48552009 Score: 273
Period size: 46 Copynumber: 3.8 Consensus size: 46
48551823 TATACACACA
* * *
48551833 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
48551879 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATCCGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATA----TC
*
48551929 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
48551975 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
48552010 CGCCACATAT
Statistics
Matches: 122, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
46 76 0.62
50 46 0.38
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:48552064 original size:47 final size:47
Alignment explanation
Indices: 48552033--48552273 Score: 419
Period size: 47 Copynumber: 5.1 Consensus size: 47
48552023 CACTTCCACG
* ** *
48552033 TTCATCACATTAGCCATTCTACCTTATCACATATATGCATGTACACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
48552080 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
48552127 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
48552174 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
48552221 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
48552268 TTCATC
1 TTCATC
48552274 TCATAAAATC
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 184 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:48556387 original size:42 final size:42
Alignment explanation
Indices: 48556276--48556430 Score: 206
Period size: 42 Copynumber: 3.7 Consensus size: 42
48556266 TACCATACCA
* * * *
48556276 ATGCCAAATCCCAGATATGGTCTTACAAG-GGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* *
48556318 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
48556361 ATGCCATATCCCAGATATGGTCTTACACGAAGCCTCATA-CAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATC-G
48556403 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
48556431 ATAGTCTTAG
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.64
43 34 0.34
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:48556406 original size:85 final size:84
Alignment explanation
Indices: 48556276--48556430 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 84
48556266 TACCATACCA
* * * *
48556276 ATGCCAAATCCCAGATATGGTCTTACAAGGGATCTCGTATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCAAATCCCAGATATGGTCTTACAAGAGACCTCATATCGATGCC-ATAGCCCAGATATGGTC
48556341 TTACACGAAGTCTCATATCG
65 TTACACGAAGTCTCATATCG
* * *
48556361 ATGCCATATCCCAGATATGGTCTTACACGA-AGCCTCATA-CAGATGCCATATCCCAGATATGGT
1 ATGCCAAATCCCAGATATGGTCTTACAAGAGA-CCTCATATC-GATGCCATAGCCCAGATATGGT
48556424 CTTACAC
64 CTTACAC
48556431 ATAGTCTTAG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
84 23 0.38
85 38 0.62
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (84 bp):
ATGCCAAATCCCAGATATGGTCTTACAAGAGACCTCATATCGATGCCATAGCCCAGATATGGTCT
TACACGAAGTCTCATATCG
Found at i:48558352 original size:39 final size:39
Alignment explanation
Indices: 48558309--48558421 Score: 138
Period size: 39 Copynumber: 2.9 Consensus size: 39
48558299 AACATGTTTT
* *
48558309 TGAGTATTGTGATATATACTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
48558348 TGAGTATTGTAAT-TAATGCTTAAATGATATGTAATTATA
1 TGAGTATTGTGATAT-ATGCTTAAATGTTATGTGATTATA
* * *
48558387 TTACTATTGTGATATATGCTTAAATGTTATTTGAT
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGAT
48558422 AATACGTGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
38 1 0.02
39 59 0.97
40 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.47
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:48558534 original size:14 final size:14
Alignment explanation
Indices: 48558515--48558546 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
48558505 TATGACACTA
48558515 GAGTTGGAACTATT
1 GAGTTGGAACTATT
48558529 GAGTTGGAACTATT
1 GAGTTGGAACTATT
48558543 GAGT
1 GAGT
48558547 GTAACACCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.34
Consensus pattern (14 bp):
GAGTTGGAACTATT
Found at i:48571945 original size:51 final size:51
Alignment explanation
Indices: 48571882--48571981 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
48571872 CTACCACATA
*
48571882 ACATGTAACACATCC-CTAATGAACACGGACCTCTCAACGAGCTCGGATGTT
1 ACATGTAACACATCCACT-ATGAACACAGACCTCTCAACGAGCTCGGATGTT
* * *
48571933 ACATG-AATCACATCCACTATGAACTCAGACCTTTCAACGAGCTTGGATG
1 ACATGTAA-CACATCCACTATGAACACAGACCTCTCAACGAGCTCGGATG
48571982 CTTGCATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 2 0.05
51 39 0.91
52 2 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (51 bp):
ACATGTAACACATCCACTATGAACACAGACCTCTCAACGAGCTCGGATGTT
Found at i:48578317 original size:61 final size:61
Alignment explanation
Indices: 48578236--48578358 Score: 192
Period size: 61 Copynumber: 2.0 Consensus size: 61
48578226 CTACCACTCG
* *
48578236 TCTATTCTACACATGCCATAAAATAACCCAAAACATAACAGTACCAAGCAGTGGATAGTGA
1 TCTATTCTACACATGCCATAAAATAACCCAAAACATAACAGTAACAAGCAGCGGATAGTGA
* * **
48578297 TCTATTCTATACCTGCCATAAAATAATTCAAAACATAACAGTAACAAGCAGCGGATAGTGA
1 TCTATTCTACACATGCCATAAAATAACCCAAAACATAACAGTAACAAGCAGCGGATAGTGA
48578358 T
1 T
48578359 AGTGTGACTA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (61 bp):
TCTATTCTACACATGCCATAAAATAACCCAAAACATAACAGTAACAAGCAGCGGATAGTGA
Found at i:48582243 original size:28 final size:28
Alignment explanation
Indices: 48582212--48582453 Score: 236
Period size: 28 Copynumber: 8.5 Consensus size: 28
48582202 CTGACTGATT
48582212 TCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
48582240 TCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
48582268 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
48582297 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * * *
48582325 TCGCACACATAGTGCCTCAACTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
* *
48582354 TCACACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
48582382 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * * *
48582411 TGGCACACATAGTGCTCGGTTGAAGAGC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
48582439 TTGCACACACAGTGC
1 TCGCACACATAGTGC
48582454 CTTATAATTC
Statistics
Matches: 172, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
27 2 0.01
28 104 0.60
29 64 0.37
30 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:48582310 original size:57 final size:57
Alignment explanation
Indices: 48582239--48582455 Score: 344
Period size: 57 Copynumber: 3.8 Consensus size: 57
48582229 GATTAAAGAA
* *
48582239 CTCGCACACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAAT
48582296 CTCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAAT
1 CTCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAAT
* **
48582353 CTCACACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAAT
* * * * *
48582410 CTGGCACACATAGTGCTCGGTTGAAGAGCTTGCACACACAGTGCCT
1 CTCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCT
48582456 TATAATTCCA
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 149 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (57 bp):
CTCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAAT
Found at i:48582538 original size:40 final size:40
Alignment explanation
Indices: 48582465--48583459 Score: 1670
Period size: 40 Copynumber: 24.9 Consensus size: 40
48582455 TTATAATTCC
* * *
48582465 AGCACGAATGC-CTTCGAGG-TTTAACCCAGATATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCACT
*
48582504 AGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
48582544 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
48582584 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48582624 AGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48582664 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48582704 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
48582744 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48582784 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
48582824 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48582864 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
48582904 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48582944 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
48582984 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48583024 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
48583064 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48583104 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
48583144 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48583184 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
48583224 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
48583264 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48583304 AGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
48583344 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
48583384 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
48583424 AGCACGAATGCTCTTCGAGACTTAGCCCAGATATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
48583460 AACTCTCAAT
Statistics
Matches: 896, Mismatches: 58, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
39 13 0.01
40 883 0.99
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
Found at i:48583334 original size:23 final size:23
Alignment explanation
Indices: 48583268--48583335 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
48583258 AACACCAGCA
48583268 CGAATGCTCTTCGGGACTTAGCC
1 CGAATGCTCTTCGGGACTTAGCC
* * * *
48583291 CGGAT-AT-ATC---AC-TAGCA
1 CGAATGCTCTTCGGGACTTAGCC
48583308 CGAATGCTCTTCGGGACTTAGCC
1 CGAATGCTCTTCGGGACTTAGCC
48583331 CGAAT
1 CGAAT
48583336 ATATCACTAG
Statistics
Matches: 31, Mismatches: 8, Indels: 12
0.61 0.16 0.24
Matches are distributed among these distances:
17 8 0.26
18 3 0.10
19 2 0.06
21 2 0.06
22 3 0.10
23 13 0.42
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (23 bp):
CGAATGCTCTTCGGGACTTAGCC
Found at i:48586387 original size:46 final size:46
Alignment explanation
Indices: 48586320--48586413 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
48586310 AAAGCCTTGT
48586320 TTCCTTAGTTTCTTTCTTTTTCTCGACAAAGGTGAGAAGAAATAAC
1 TTCCTTAGTTTCTTTCTTTTTCTCGACAAAGGTGAGAAGAAATAAC
*
48586366 TTCCTTAGTTTCTTTCTTTTTCTCGGCAAAGGTGAGAAGAAATAAC
1 TTCCTTAGTTTCTTTCTTTTTCTCGACAAAGGTGAGAAGAAATAAC
48586412 TT
1 TT
48586414 ATAGCTTTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (46 bp):
TTCCTTAGTTTCTTTCTTTTTCTCGACAAAGGTGAGAAGAAATAAC
Found at i:48587668 original size:22 final size:20
Alignment explanation
Indices: 48587618--48587672 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
48587608 CCTATGCTTA
*
48587618 AATTCATGAAATTATTGATG
1 AATTCATGAATTTATTGATG
* *
48587638 ATTTGATGAGATTTCATTGATG
1 AATTCATGA-ATTT-ATTGATG
48587660 AATTCATGAATTT
1 AATTCATGAATTT
48587673 TATGATGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 7 0.25
21 7 0.25
22 14 0.50
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (20 bp):
AATTCATGAATTTATTGATG
Found at i:48588436 original size:28 final size:28
Alignment explanation
Indices: 48588399--48588493 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 28
48588389 GTGCAAATTC
48588399 TTAAAGTATTGAAAGACTTCCGAATAAA
1 TTAAAGTATTGAAAGACTTCCGAATAAA
* ** **
48588427 TTAAGGTATTTGAACAAGAGGTGAGAAT--A
1 TTAAAGTA-TTG-A-AAGACTTCCGAATAAA
**
48588456 TTAAAACATTGAAAGACTTCCGAATAAA
1 TTAAAGTATTGAAAGACTTCCGAATAAA
48588484 TTAAAGTATT
1 TTAAAGTATT
48588494 TGAACAAGAG
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
26 9 0.19
27 1 0.02
28 19 0.40
29 9 0.19
30 1 0.02
31 9 0.19
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.29
Consensus pattern (28 bp):
TTAAAGTATTGAAAGACTTCCGAATAAA
Found at i:48596299 original size:43 final size:43
Alignment explanation
Indices: 48596231--48596313 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 43
48596221 ATATCGTACA
* *
48596231 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATACCG
1 ATGCCAACGTCCCAGACGTGATCTTAC-TCGTAAACACATACCG
48596274 ATGCC-ACTGTCCCAGACAG-GATCTTACTCGTAAACACATA
1 ATGCCAAC-GTCCCAGAC-GTGATCTTACTCGTAAACACATA
48596314 TCGGAATCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
42 3 0.09
43 31 0.89
44 1 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGATCTTACTCGTAAACACATACCG
Found at i:48600787 original size:27 final size:27
Alignment explanation
Indices: 48600749--48600803 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
48600739 TGTCACCGAG
*
48600749 TAAGAAAGATGCAATCTTGGTTGTGGT
1 TAAGAAAGATGCAATCTGGGTTGTGGT
48600776 TAAGAAAGATGCAATCTGGGTTGTGGT
1 TAAGAAAGATGCAATCTGGGTTGTGGT
48600803 T
1 T
48600804 GATAGATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.07, G:0.31, T:0.33
Consensus pattern (27 bp):
TAAGAAAGATGCAATCTGGGTTGTGGT
Found at i:48607513 original size:43 final size:43
Alignment explanation
Indices: 48607401--48607564 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
48607391 CAATACCAAC
* * * * * *
48607401 ATCCCAGACGTGGTCTTACATGTAATCAAGTATCGATGCCACT
1 ATCCTAGACATGGTCTTACATGAAATCAAATATCGATGTCAAT
* * * * *
48607444 GTCCCAGACAGGGTCTTACACGAAATCAAATAT-GATGTCGAT
1 ATCCTAGACATGGTCTTACATGAAATCAAATATCGATGTCAAT
* *
48607486 TTCCTAGACATGGTCTTACATGTAAATCTAAA-ATCGATGTCAAC
1 ATCCTAGACATGGTCTTACATG-AAATC-AAATATCGATGTCAAT
** *
48607530 ATCCTAGATGTGGTCTAACATGAAATCAAATATCG
1 ATCCTAGACATGGTCTTACATGAAATCAAATATCG
48607565 GAAACCCTAT
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
42 27 0.28
43 43 0.44
44 28 0.29
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (43 bp):
ATCCTAGACATGGTCTTACATGAAATCAAATATCGATGTCAAT
Found at i:48611967 original size:43 final size:41
Alignment explanation
Indices: 48611901--48612070 Score: 139
Period size: 43 Copynumber: 4.0 Consensus size: 41
48611891 AGCTCATACA
* * *
48611901 ATGCCAATGTCCCAGAC-GTGGTCTTATATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
48611944 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCA-TGTCCCAGACAGGGTCTTACACGAAATCAAATATG
* * *
48611986 ATGCCGATGTCCCAAACATGGTCTTACACGTAAATCATAAGT-CG
1 ATGCC-ATGTCCCAGACAGGGTCTTACACG-AAATCA-AA-TATG
* * * *
48612030 ATGCCAACGTCCCAAAC-GTGGTCTTACACAAAATCATATAT
1 ATGCC-ATGTCCCAGACAG-GGTCTTACACGAAATCAAATAT
48612071 TGAATCCTAT
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.27
43 47 0.44
44 29 0.27
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (41 bp):
ATGCCATGTCCCAGACAGGGTCTTACACGAAATCAAATATG
Found at i:48612053 original size:86 final size:85
Alignment explanation
Indices: 48611901--48612070 Score: 202
Period size: 86 Copynumber: 2.0 Consensus size: 85
48611891 AGCTCATACA
* * * * *
48611901 ATGCCAATGTCCCAGACGTGGTCTTATATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGGGT
*
48611966 CTTACACGAAATCAAATATG
66 CTTACACAAAATCAAATATG
* *
48611986 ATGCCGATGTCCCAAACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCAAAC-G
1 ATGCCAATGTCCCAAACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAAACAG
*
48612048 TGGTCTTACACAAAATCATATAT
63 -GGTCTTACACAAAATCAAATAT
48612071 TGAATCCTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 27 0.38
86 41 0.57
87 4 0.06
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGGGT
CTTACACAAAATCAAATATG
Found at i:48616468 original size:12 final size:12
Alignment explanation
Indices: 48616451--48616492 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
48616441 AAAGACAATT
48616451 AATAATTAATAA
1 AATAATTAATAA
*
48616463 AATAA-TATTTAA
1 AATAATTA-ATAA
48616475 AATAATTAATTAA
1 AATAATTAA-TAA
48616488 AATAA
1 AATAA
48616493 ATTGAAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 2 0.08
12 13 0.52
13 10 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AATAATTAATAA
Found at i:48616478 original size:24 final size:24
Alignment explanation
Indices: 48616451--48616500 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
48616441 AAAGACAATT
*
48616451 AATAATTAA-TAAAATAATATTTAA
1 AATAATTAATTAAAATAA-ATTGAA
48616475 AATAATTAATTAAAATAAATTGAA
1 AATAATTAATTAAAATAAATTGAA
48616499 AA
1 AA
48616501 GGTAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
AATAATTAATTAAAATAAATTGAA
Found at i:48616887 original size:31 final size:31
Alignment explanation
Indices: 48616851--48616915 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
48616841 TTAATTATAA
* *
48616851 TTTGGTGCAATTATACACTTGAAACTCTAAT
1 TTTGGTGCAAATATACACTTCAAACTCTAAT
* * * *
48616882 TTTGGTTCAAATGTATACTTCAAACTTTAAT
1 TTTGGTGCAAATATACACTTCAAACTCTAAT
48616913 TTT
1 TTT
48616916 TTTATTTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.45
Consensus pattern (31 bp):
TTTGGTGCAAATATACACTTCAAACTCTAAT
Found at i:48622754 original size:49 final size:49
Alignment explanation
Indices: 48622680--48622777 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
48622670 GTTTGGAACT
*
48622680 AGTTTCGATTTTCCAACCAAGTGGTCAATACCTAGTAAGAATGTATGCC
1 AGTTTCGATTTTCCAACCAACTGGTCAATACCTAGTAAGAATGTATGCC
* *
48622729 AGTTTTGATTTTCCAACCGACTGGTCAATACCTAGTAAGAATGTATGCC
1 AGTTTCGATTTTCCAACCAACTGGTCAATACCTAGTAAGAATGTATGCC
48622778 TGCGAAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (49 bp):
AGTTTCGATTTTCCAACCAACTGGTCAATACCTAGTAAGAATGTATGCC
Found at i:48631493 original size:40 final size:40
Alignment explanation
Indices: 48631429--48631606 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
48631419 CGAATGATAA
* * * *
48631429 CCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATA-T
* *
48631469 CTGGGCTAAGTTCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
* * *
48631509 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
*
48631549 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTA-CTATAT
* * *
48631589 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCAAAGG
48631607 TACTTGGTTT
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
39 17 0.14
40 100 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
Found at i:48631565 original size:80 final size:80
Alignment explanation
Indices: 48631429--48631606 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 80
48631419 CGAATGATAA
* * * * *
48631429 CCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCTGGGCTAAGTTCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCAAAGGCATTTG
*
48631494 TGCGAGTTA-CTATAT
66 AGCGAG-TAGCTATAT
* *
48631509 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCAAAGGCATTT
48631573 GAGCGAGTAGCTATAT
65 GAGCGAGTAGCTATAT
* *
48631589 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48631607 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 19 0.22
80 66 0.78
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCAAAGGCATTTG
AGCGAGTAGCTATAT
Found at i:48639802 original size:37 final size:37
Alignment explanation
Indices: 48639749--48639851 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
48639739 CGAATAGTCC
48639749 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
* *
48639786 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
*
48639823 CCACACGTAGTTATCGAGTCTTACCCGGA
1 CCACACGTAGTTATCGGGTCTTACCCGGA
48639852 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
Found at i:48640050 original size:48 final size:48
Alignment explanation
Indices: 48639992--48640235 Score: 380
Period size: 48 Copynumber: 5.0 Consensus size: 48
48639982 ATATACACAC
* *
48639992 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
48640040 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
48640088 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATGTACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
48640136 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*** * *
48640184 ATCTCATACATATTTTTTATTCACGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATT-A-GCCATTCGGCTTTACCACATATACAT
48640234 AT
1 AT
48640236 ATTTATCTTG
Statistics
Matches: 183, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
48 156 0.85
49 1 0.01
50 26 0.14
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:48644482 original size:46 final size:45
Alignment explanation
Indices: 48644432--48644607 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
48644422 TGATTGAGCA
48644432 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
48644478 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
48644525 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
48644571 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48644608 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 64 0.59
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:48644588 original size:93 final size:93
Alignment explanation
Indices: 48644429--48644600 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
48644419 GGATGATTGA
* *
48644429 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
48644494 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
48644522 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
48644586 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
48644601 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:48649993 original size:50 final size:50
Alignment explanation
Indices: 48649918--48650053 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 50
48649908 GGTACGCATT
* * *
48649918 GTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCGGATACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCGGACACACATA
* * * * * *
48649968 GTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTATTGGGCACGCATA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCGGACACACATA
* *
48650019 GTAGCCTGCACTTAGTACTACACATGCGACCTAAC
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAAC
48650054 ACTACAGGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 32 0.44
51 40 0.56
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCGGACACACATA
Found at i:48650036 original size:51 final size:50
Alignment explanation
Indices: 48649911--48650042 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 50
48649901 GCTCCCTGGT
* * * *
48649911 ACGCATTGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCGGAT
1 ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAACCATCGGAC
* * * * * *
48649961 ACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTATTGGGC
1 ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAA-CCATCGGAC
48650012 ACGCATAGTAGCCTGCACTTAGTACTACACA
1 ACGCATAGTAGCCTGCACTTAGTACTACACA
48650043 TGCGACCTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 35 0.51
51 34 0.49
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (50 bp):
ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAACCATCGGAC
Found at i:48650227 original size:85 final size:86
Alignment explanation
Indices: 48650128--48650327 Score: 228
Period size: 85 Copynumber: 2.4 Consensus size: 86
48650118 GCCGGTAAAA
* * * ** *
48650128 TTAGCAACGTTTTTTTAAAAAACGCCTCTAAAGACAAGGACTTTTAGTGGCGC-TTTTTAAAAAA
1 TTAGCGACGCTTTTTTAAAAAACGCCGCTAAAGACAAGGACTTTTAACGACGCTTTTTTAAAAAA
* * **
48650192 CAC-CGCTAAAGACTAGGACTT
66 AACTC-CTAAAGACCAACACTT
* * ** *
48650213 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAATACCTGGACTTTTAACGATGCTTTTTTAAAAAA
1 TTAGCGACGCTTTTTTAAAAAACGCCGCTAAAGACAAGGACTTTTAACGACGCTTTTTTAAAAAA
48650278 AACTCCTAAAGACCAACACTT
66 AACTCCTAAAGACCAACACTT
48650299 TTAGCGACGC--TTTTAAAAAACGCCGCTAA
1 TTAGCGACGCTTTTTTAAAAAACGCCGCTAA
48650328 TTTGCAGTAC
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
84 19 0.20
85 42 0.43
86 35 0.36
87 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (86 bp):
TTAGCGACGCTTTTTTAAAAAACGCCGCTAAAGACAAGGACTTTTAACGACGCTTTTTTAAAAAA
AACTCCTAAAGACCAACACTT
Found at i:48650229 original size:43 final size:43
Alignment explanation
Indices: 48650138--48650367 Score: 213
Period size: 43 Copynumber: 5.4 Consensus size: 43
48650128 TTAGCAACGT
* * *
48650138 TTTTTTAAAAAACGCCTCTAAAGACAAGGACTTTTAGTGGCGC
1 TTTTTTAAAAAACGCCGCTAAAGACTAGGACTTTTAGCGGCGC
*
48650181 -TTTTTAAAAAACACCGCTAAAGACTAGGACTTTTAGCGGCGC
1 TTTTTTAAAAAACGCCGCTAAAGACTAGGACTTTTAGCGGCGC
* * **
48650223 TTTTTTAAAAAACGCCGCTAAATACCT-GGACTTTTAACGATGC
1 TTTTTTAAAAAACGCCGCTAAAGA-CTAGGACTTTTAGCGGCGC
** * ** *
48650266 TTTTTTAAAAAAAACTC-CTAAAGACCAACACTTTTAGCGACGC
1 TTTTTTAAAAAACGC-CGCTAAAGACTAGGACTTTTAGCGGCGC
* * *
48650309 --TTTTAAAAAACGCCGCTAATTTG-C-AGTACTTTTAGCGGCAC
1 TTTTTTAAAAAACGCCGCTAA--AGACTAGGACTTTTAGCGGCGC
48650350 TTTTTTTAAAAAACGCCG
1 -TTTTTTAAAAAACGCCG
48650368 ATAATTTGCC
Statistics
Matches: 153, Mismatches: 24, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.01
41 28 0.18
42 40 0.26
43 66 0.43
44 18 0.12
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (43 bp):
TTTTTTAAAAAACGCCGCTAAAGACTAGGACTTTTAGCGGCGC
Found at i:48650340 original size:41 final size:44
Alignment explanation
Indices: 48650295--48650376 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
48650285 AAAGACCAAC
*
48650295 ACTTTTAGC-G-AC-GCTTTTAAAAAACGCCGCTAATTTGCAGT
1 ACTTTTAGCGGCACTGCTTTTAAAAAACGCCGATAATTTGCAGT
**
48650336 ACTTTTAGCGGCACTTTTTTTAAAAAACGCCGATAATTTGC
1 ACTTTTAGCGGCACTGCTTTTAAAAAACGCCGATAATTTGC
48650377 CCAGTTTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
42 1 0.03
43 2 0.06
44 23 0.66
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (44 bp):
ACTTTTAGCGGCACTGCTTTTAAAAAACGCCGATAATTTGCAGT
Found at i:48657065 original size:15 final size:15
Alignment explanation
Indices: 48657045--48657073 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48657035 TAAATTTTGA
48657045 AATAAAACGTACCTT
1 AATAAAACGTACCTT
48657060 AATAAAACGTACCT
1 AATAAAACGTACCT
48657074 GGTCTACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:48661374 original size:24 final size:24
Alignment explanation
Indices: 48661342--48661387 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
48661332 TTGTATTTGT
48661342 AAACAGAGACTTAGAAATTAAAAG
1 AAACAGAGACTTAGAAATTAAAAG
48661366 AAACAGAGACTTAGAAATTAAA
1 AAACAGAGACTTAGAAATTAAA
48661388 GTTACCTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.17
Consensus pattern (24 bp):
AAACAGAGACTTAGAAATTAAAAG
Found at i:48662374 original size:7 final size:7
Alignment explanation
Indices: 48662358--48662453 Score: 52
Period size: 7 Copynumber: 13.6 Consensus size: 7
48662348 TTTCCAAAAT
*
48662358 TAAACAC
1 TAAACCC
48662365 TAAACCC
1 TAAACCC
48662372 TAAATCCC
1 TAAA-CCC
48662380 -AAACCC
1 TAAACCC
*
48662386 CAAACCC
1 TAAACCC
* *
48662393 CAAACCA
1 TAAACCC
*
48662400 TAAGCCC
1 TAAACCC
*** *
48662407 CGTACCA
1 TAAACCC
*
48662414 TAAACCA
1 TAAACCC
48662421 TAAAACCC
1 T-AAACCC
*
48662429 -AATCCC
1 TAAACCC
48662435 TAAACCC
1 TAAACCC
48662442 TAAAACCC
1 T-AAACCC
48662450 TAAA
1 TAAA
48662454 TCTTCCTAAC
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
6 8 0.12
7 45 0.66
8 15 0.22
ACGTcount: A:0.46, C:0.40, G:0.02, T:0.12
Consensus pattern (7 bp):
TAAACCC
Found at i:48662496 original size:24 final size:24
Alignment explanation
Indices: 48662468--48662520 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
48662458 CCTAACCCAA
48662468 TATACCCTTTAAATATTAAATATG
1 TATACCCTTTAAATATTAAATATG
48662492 TATACCCTTTAAATATTAAATATG
1 TATACCCTTTAAATATTAAATATG
48662516 TATAC
1 TATAC
48662521 TCTTAAACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.42
Consensus pattern (24 bp):
TATACCCTTTAAATATTAAATATG
Found at i:48662714 original size:7 final size:7
Alignment explanation
Indices: 48662690--48662737 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
48662680 CTCTGTACCA
48662690 TAAACCC
1 TAAACCC
**
48662697 TAAACTA
1 TAAACCC
*
48662704 TAAACCT
1 TAAACCC
48662711 TAAACCC
1 TAAACCC
*
48662718 CAAACCC
1 TAAACCC
*
48662725 TAGACCC
1 TAAACCC
48662732 TAAACC
1 TAAACC
48662738 TTAATTAACC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:48662865 original size:15 final size:14
Alignment explanation
Indices: 48662845--48662933 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
48662835 GACCTTTAAC
48662845 CCCTAAACTCCTAAA
1 CCCTAAAC-CCTAAA
*
48662860 CCCTAAACCTTAAA
1 CCCTAAACCCTAAA
48662874 CCCTTAAACCCTAATA
1 CCC-TAAACCCTAA-A
* *
48662890 TCTCTAAACACTAATA
1 -CCCTAAACCCTAA-A
* *
48662906 TCTTAAACCCTAAA
1 CCCTAAACCCTAAA
***
48662920 TAATAAACCCTAAA
1 CCCTAAACCCTAAA
48662934 TAATAAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
14 21 0.34
15 26 0.43
16 12 0.20
17 2 0.03
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (14 bp):
CCCTAAACCCTAAA
Found at i:48662866 original size:7 final size:7
Alignment explanation
Indices: 48662845--48662933 Score: 61
Period size: 7 Copynumber: 12.0 Consensus size: 7
48662835 GACCTTTAAC
48662845 CCCTAAA
1 CCCTAAA
48662852 CTCCTAAA
1 C-CCTAAA
48662860 CCCTAAA
1 CCCTAAA
*
48662867 CCTTAAA
1 CCCTAAA
48662874 CCCTTAAA
1 CCC-TAAA
48662882 CCCTAATA
1 CCCTAA-A
*
48662890 TCTCTAAA
1 -CCCTAAA
*
48662898 CACTAATA
1 CCCTAA-A
* *
48662906 TCTTAAA
1 CCCTAAA
48662913 CCCTAAA
1 CCCTAAA
***
48662920 TAATAAA
1 CCCTAAA
48662927 CCCTAAA
1 CCCTAAA
48662934 TAATAAACTT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
7 37 0.60
8 20 0.32
9 5 0.08
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (7 bp):
CCCTAAA
Found at i:48662903 original size:16 final size:15
Alignment explanation
Indices: 48662876--48662932 Score: 71
Period size: 16 Copynumber: 3.8 Consensus size: 15
48662866 ACCTTAAACC
48662876 CTTAAACCCTAATAT
1 CTTAAACCCTAATAT
*
48662891 CTCTAAACACTAATAT
1 CT-TAAACCCTAATAT
48662907 CTTAAACCCTAA-AT
1 CTTAAACCCTAATAT
**
48662921 AATAAACCCTAA
1 CTTAAACCCTAA
48662933 ATAATAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
14 12 0.32
15 11 0.30
16 14 0.38
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (15 bp):
CTTAAACCCTAATAT
Found at i:48662947 original size:14 final size:14
Alignment explanation
Indices: 48662909--48662941 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
48662899 ACTAATATCT
48662909 TAAACCCTAAATAA
1 TAAACCCTAAATAA
48662923 TAAACCCTAAATAA
1 TAAACCCTAAATAA
48662937 TAAAC
1 TAAAC
48662942 TTTAAAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAATAA
Found at i:48663917 original size:156 final size:156
Alignment explanation
Indices: 48663641--48663926 Score: 398
Period size: 156 Copynumber: 1.8 Consensus size: 156
48663631 GTGCGAGCTA
* * * *
48663641 TTACGGCGTTTTTAGGAAAGCGCCGCTAATGTCATTGAAGCTCATATAAAACGACGTCGTTTTGT
1 TTACGGCGTTTTTAGGAAAACGCCGCTAATGCCAATGAAGCTCATATAAAACGACGTCGTCTTGT
* * *
48663706 TTAACATTTTAGCGGCGTTTTTCTAAAAACGCCGCAAAAGGCAGAACTCTAGCGGCGTTTTTTTT
66 TAAACATTTTAGCGGCGTTTTTCGAAAAACGCCGCAAAAGGCAGAACTATAGCGGCGTTTTTTTT
48663771 TTAAAACGCCACAAAAGTTTGATCTG
131 TTAAAACGCCACAAAAGTTTGATCTG
* * *
48663797 TTACGGCGTTTTTGGGAAAACGCCGCTACTGCCAATGAAGCTCATGTAAAACGACGTCGTCTTGC
1 TTACGGCGTTTTTAGGAAAACGCCGCTAATGCCAATGAAGCTCATATAAAACGACGTCGTCTTG-
* * * *
48663862 TTAAAC-TTTTAGCGGCGTTTTT-GAAAAAGCGCCGCTAAA-GCTCGATCTATTGCGGCGTTTTT
65 TTAAACATTTTAGCGGCGTTTTTCGAAAAA-CGCCGCAAAAGGC-AGAACTATAGCGGCGTTTTT
48663924 TTT
128 TTT
48663927 AAAAACTCCG
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
155 7 0.06
156 101 0.89
157 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (156 bp):
TTACGGCGTTTTTAGGAAAACGCCGCTAATGCCAATGAAGCTCATATAAAACGACGTCGTCTTGT
TAAACATTTTAGCGGCGTTTTTCGAAAAACGCCGCAAAAGGCAGAACTATAGCGGCGTTTTTTTT
TTAAAACGCCACAAAAGTTTGATCTG
Found at i:48663995 original size:12 final size:12
Alignment explanation
Indices: 48663978--48664004 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48663968 GTTTCCTTTT
48663978 AAAACGCCGCTA
1 AAAACGCCGCTA
48663990 AAAACGCCGCTA
1 AAAACGCCGCTA
48664002 AAA
1 AAA
48664005 GTCTGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:48664109 original size:50 final size:50
Alignment explanation
Indices: 48664023--48664226 Score: 266
Period size: 50 Copynumber: 4.1 Consensus size: 50
48664013 TGGTGTAGTG
* *
48664023 TAACAATCTGGTACACGTAGTAGCCTGCGCTTAGTACTACACACGTGACC
1 TAACAATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
* * *
48664073 TAACCATCAGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-T
1 TAACAATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
* * * * * * *
48664122 TGAAGCTATCGGGCACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 T-AA-CAATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
*
48664174 TAACAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAACAATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
48664224 TAA
1 TAA
48664227 AACTGTCTTA
Statistics
Matches: 130, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 89 0.68
51 39 0.30
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (50 bp):
TAACAATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
Found at i:48664215 original size:101 final size:101
Alignment explanation
Indices: 48664040--48664221 Score: 310
Period size: 101 Copynumber: 1.8 Consensus size: 101
48664030 CTGGTACACG
* * *
48664040 TAGTAGCCTGCGCTTAGTACTACACACGTGACCTAACCATCAGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGTAGTAGCCTGCACTT
48664105 AGTACTACACACGTGATTGAAGCTATCGGGCACGCA
66 AGTACTACACACGTGATTGAAGCTATCGGGCACGCA
* * *
48664141 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGTAGTAGCCTGCACTT
48664206 AGTACTACACACGTGA
66 AGTACTACACACGTGA
48664222 CCTAAAACTG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATTGAAGCTATCGGGCACGCA
Found at i:48666841 original size:47 final size:47
Alignment explanation
Indices: 48666772--48667142 Score: 580
Period size: 47 Copynumber: 7.7 Consensus size: 47
48666762 GAAATGATAG
48666772 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
48666819 TAAGGCCTAATGGCCGAGGTGATGAATGTGAAAGTGTATATATCTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TGTGA
* * *
48666868 TAGGGCCTAATGGCCGATGTGATGCATGTGAAAGTGTATATATGTGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
48666915 TAAGGCCTAATGGCCGATGTGCTGAATGTGAAAGTGTATATATCTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TGTGA
* * *
48666964 TAGGGCCTAATGGCCGATGTGATGCATGTGAAAGTGTATATATGTGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
48667011 TAAGGCCTAATGGCCGATGTGCTGAATGTGAAAGTGTATATATGCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
48667058 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
48667107 TAGGGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGA-AAGT
48667143 CCCGAAGGGC
Statistics
Matches: 296, Mismatches: 21, Indels: 11
0.90 0.06 0.03
Matches are distributed among these distances:
47 165 0.56
49 127 0.43
50 4 0.01
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:48666941 original size:96 final size:96
Alignment explanation
Indices: 48666775--48667142 Score: 605
Period size: 96 Copynumber: 3.8 Consensus size: 96
48666765 ATGATAGTAA
*
48666775 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAGGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48666840 ATGAATGTGAAAGTGTATATATCTGTGATAG
66 ATGAATGTGAAAGTGTATATATCTGTGATAG
* *
48666871 GGCCTAATGGCCGATGTGATGCATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
48666936 CTGAATGTGAAAGTGTATATATCTGTGATAG
66 ATGAATGTGAAAGTGTATATATCTGTGATAG
* *
48666967 GGCCTAATGGCCGATGTGATGCATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
48667032 CTGAATGTGAAAGTGTATATA--TGCGATAA
66 ATGAATGTGAAAGTGTATATATCTGTGATAG
*
48667061 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
48667126 TGATGAATGTGATAAGT
64 TGATGAATGTGA-AAGT
48667143 CCCGAAGGGC
Statistics
Matches: 259, Mismatches: 10, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
94 38 0.15
96 217 0.84
97 4 0.02
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (96 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATCTGTGATAG
Found at i:48667029 original size:143 final size:143
Alignment explanation
Indices: 48666771--48667142 Score: 604
Period size: 143 Copynumber: 2.6 Consensus size: 143
48666761 TGAAATGATA
*
48666771 GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-TGTGATAAGGCCTAATGGCCG
1 GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTGTGATAGGGCCTAATGGCCG
* * *
48666835 AGGTGATGAATGTGAAAGTGTATATATCTGTGATAGGGCCTAATGGCCGATGTGATGCATGTGAA
66 ATGTGATGAATGTGAAAGTGTATATA-CTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48666900 AGTGTATATATGTG
130 AGTGTATATATGCG
*
48666914 GTAAGGCCTAATGGCCGATGTGCTGAATGTGAAAGTGTATATATCTGTGATAGGGCCTAATGGCC
1 GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT-TGTGATAGGGCCTAATGGCC
* * *
48666979 GATGTGATGCATGTGAAAGTGTATATA-TGTGGTAAGGCCTAATGGCCGATGTGCTGAATGTGAA
65 GATGTGATGAATGTGAAAGTGTATATACTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48667043 AGTGTATATATGCG
130 AGTGTATATATGCG
*
48667057 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCC
1 GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT-TGTGATAGGGCCTAATGGCC
48667122 GATGTGATGAATGTGATAAGT
65 GATGTGATGAATGTGA-AAGT
48667143 CCCGAAGGGC
Statistics
Matches: 213, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
143 165 0.77
144 4 0.02
145 44 0.21
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.29
Consensus pattern (143 bp):
GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTGTGATAGGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATACTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGCG
Found at i:48667315 original size:36 final size:37
Alignment explanation
Indices: 48667260--48667337 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
48667250 CCGAGCTCTA
* *
48667260 AAGACCCGATGACTACGTGTGGGGATT-TGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48667296 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48667333 AAGAC
1 AAGAC
48667338 TTTGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 24 0.63
37 14 0.37
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48668747 original size:25 final size:25
Alignment explanation
Indices: 48668713--48668802 Score: 83
Period size: 25 Copynumber: 3.4 Consensus size: 25
48668703 GCTACTAGTC
48668713 ATATATCATTGTTCTTACAATTTTT
1 ATATATCATTGTTCTTACAATTTTT
* * * *
48668738 ATATACCATTCTT-TCATCATTTTTCAAT
1 ATATATCATTGTTCTTA-CAATTTT---T
48668766 ATTTATATCATTGTTCTTACAATTTTT
1 A--TATATCATTGTTCTTACAATTTTT
48668793 ATATATCATT
1 ATATATCATT
48668803 CTTTCATCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
24 2 0.04
25 26 0.52
27 2 0.04
28 2 0.04
30 16 0.32
31 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.54
Consensus pattern (25 bp):
ATATATCATTGTTCTTACAATTTTT
Found at i:48668803 original size:55 final size:56
Alignment explanation
Indices: 48668714--48668833 Score: 215
Period size: 55 Copynumber: 2.2 Consensus size: 56
48668704 CTACTAGTCA
48668714 TATATCATTGTTCTTACAATTTTTATATACCATTCTTTCATCATTTTTCAATAT-T
1 TATATCATTGTTCTTACAATTTTTATATACCATTCTTTCATCATTTTTCAATATGT
*
48668769 TATATCATTGTTCTTACAATTTTTATATATCATTCTTTCATCATTTTTCAATATGT
1 TATATCATTGTTCTTACAATTTTTATATACCATTCTTTCATCATTTTTCAATATGT
*
48668825 TAAATCATT
1 TATATCATT
48668834 CCATTCATGC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 53 0.85
56 9 0.15
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (56 bp):
TATATCATTGTTCTTACAATTTTTATATACCATTCTTTCATCATTTTTCAATATGT
Found at i:48668816 original size:25 final size:25
Alignment explanation
Indices: 48668733--48668816 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
48668723 GTTCTTACAA
*
48668733 TTTTTATATACCATTCTTTCATCAT
1 TTTTTATATATCATTCTTTCATCAT
* * *
48668758 TTTTCAATATTTATATCATT-GTTCTTACAA
1 TTTT---TA--TATATCATTCTTTCAT-CAT
48668788 TTTTTATATATCATTCTTTCATCAT
1 TTTTTATATATCATTCTTTCATCAT
48668813 TTTT
1 TTTT
48668817 CAATATGTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
25 19 0.42
26 4 0.09
27 2 0.04
28 2 0.04
29 4 0.09
30 14 0.31
ACGTcount: A:0.25, C:0.15, G:0.01, T:0.58
Consensus pattern (25 bp):
TTTTTATATATCATTCTTTCATCAT
Found at i:48671232 original size:16 final size:16
Alignment explanation
Indices: 48671211--48671242 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48671201 ACACACAAGT
48671211 GTGTCCTAGGCCGTGC
1 GTGTCCTAGGCCGTGC
48671227 GTGTCCTAGGCCGTGC
1 GTGTCCTAGGCCGTGC
48671243 AACTTAACAT
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:0.06, C:0.31, G:0.38, T:0.25
Consensus pattern (16 bp):
GTGTCCTAGGCCGTGC
Found at i:48673462 original size:72 final size:71
Alignment explanation
Indices: 48673331--48673525 Score: 234
Period size: 72 Copynumber: 2.7 Consensus size: 71
48673321 ATGTGGGTTC
* * * * ** * *
48673331 GGTACTAACTTTGTGTATAGACCCGTGAGTAACTCGCTGAGCGAGCA-TATCATGTTAATGCTTT
1 GGTACTGACTTTGTGTATA-AACCATGAGTAGCTCAATGAGCGGGCATTA-CATGATAATGCTTT
48673395 GGGGTCCG
64 GGGGTCCG
48673403 GGTACTGACTTTGTGTATAAACCTATGAGTAGCTCAATGAGCGGGCATTACATGATAATGCTTTG
1 GGTACTGACTTTGTGTATAAACC-ATGAGTAGCTCAATGAGCGGGCATTACATGATAATGCTTTG
48673468 GGGTCCG
65 GGGTCCG
* *
48673475 GGTGCTGACTTTGTGTACAAAACCATGAGTAGCTCAA--ATGCGGGCATTACA
1 GGTACTGACTTTGTGTA-TAAACCATGAGTAGCTCAATGA-GCGGGCATTACA
48673526 AAATATGTGG
Statistics
Matches: 109, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
70 1 0.01
71 15 0.14
72 86 0.79
73 7 0.06
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (71 bp):
GGTACTGACTTTGTGTATAAACCATGAGTAGCTCAATGAGCGGGCATTACATGATAATGCTTTGG
GGTCCG
Found at i:48677632 original size:6 final size:6
Alignment explanation
Indices: 48677614--48677708 Score: 154
Period size: 6 Copynumber: 15.8 Consensus size: 6
48677604 CATTGAGTCC
* *
48677614 ATTTTT ATCTTT ATGTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
* *
48677662 ATTTTT ATCTTT ATTTTT ATTTTT ATTTTT ATTTTT ATCTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
48677709 GTCTTTATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 82 1.00
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:48679575 original size:30 final size:30
Alignment explanation
Indices: 48679518--48679576 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48679508 CAAGACCATT
*
48679518 TCCACAAGGGCATAGCAGACGCTCATGTGA
1 TCCACAAGGGCATAGCAGACGCCCATGTGA
* *
48679548 TCCACACGGGC-TAGCTGCACGCCCATGTG
1 TCCACAAGGGCATAGCAG-ACGCCCATGTG
48679577 GCAGCCCATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.24, C:0.32, G:0.27, T:0.17
Consensus pattern (30 bp):
TCCACAAGGGCATAGCAGACGCCCATGTGA
Found at i:48680986 original size:40 final size:40
Alignment explanation
Indices: 48680923--48681014 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
48680913 CTATGTTCGA
*
48680923 CACTAAGTGTGCAGTTCGAAATAGCTCCGGCTACA-AATGG
1 CACTAAGTGTGCAGTTCGAAATAGCTCCGACTACATAA-GG
* * * *
48680963 CACTAAGTGTGCAAGTT-GGAATAGCTTCGACTATATGAGG
1 CACTAAGTGTGC-AGTTCGAAATAGCTCCGACTACATAAGG
48681003 CACTAAGTGTGC
1 CACTAAGTGTGC
48681015 GATATCAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
40 40 0.89
41 5 0.11
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (40 bp):
CACTAAGTGTGCAGTTCGAAATAGCTCCGACTACATAAGG
Found at i:48685590 original size:26 final size:26
Alignment explanation
Indices: 48685561--48685646 Score: 136
Period size: 26 Copynumber: 3.2 Consensus size: 26
48685551 GTAAAGATAA
48685561 AAAAATTTCTTAATATATTTAAAATT
1 AAAAATTTCTTAATATATTTAAAATT
*
48685587 AAAAAATTCTTAATATATTTAAAATT
1 AAAAATTTCTTAATATATTTAAAATT
48685613 AAAAAAAATTTCTTAATATATTTAAAATT
1 ---AAAAATTTCTTAATATATTTAAAATT
48685642 AAAAA
1 AAAAA
48685647 ATGTGTATGG
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 30 0.55
29 25 0.45
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (26 bp):
AAAAATTTCTTAATATATTTAAAATT
Found at i:48685619 original size:29 final size:29
Alignment explanation
Indices: 48685559--48685647 Score: 157
Period size: 29 Copynumber: 3.2 Consensus size: 29
48685549 AGGTAAAGAT
48685559 AAAAAAATTTCTTAATATATTTAAAATT-
1 AAAAAAATTTCTTAATATATTTAAAATTA
48685587 -AAAAAA-TTCTTAATATATTTAAAATTA
1 AAAAAAATTTCTTAATATATTTAAAATTA
48685614 AAAAAAATTTCTTAATATATTTAAAATTA
1 AAAAAAATTTCTTAATATATTTAAAATTA
48685643 AAAAA
1 AAAAA
48685648 TGTGTATGGA
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
26 20 0.34
27 6 0.10
28 6 0.10
29 26 0.45
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (29 bp):
AAAAAAATTTCTTAATATATTTAAAATTA
Found at i:48689317 original size:23 final size:23
Alignment explanation
Indices: 48689287--48689330 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
48689277 AAATGCATCA
48689287 GGTCTTACATGTACGGGGAATTG
1 GGTCTTACATGTACGGGGAATTG
*
48689310 GGTCTTACATGTACTGGGAAT
1 GGTCTTACATGTACGGGGAAT
48689331 CGAGATTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.32
Consensus pattern (23 bp):
GGTCTTACATGTACGGGGAATTG
Found at i:48692193 original size:37 final size:37
Alignment explanation
Indices: 48692143--48692221 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48692133 TTATTACGAA
* * *
48692143 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
48692180 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
48692217 GTCTT
1 GTCTT
48692222 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:48692418 original size:47 final size:47
Alignment explanation
Indices: 48692340--48692562 Score: 313
Period size: 47 Copynumber: 4.7 Consensus size: 47
48692330 CCCTTCGGGA
* * * * *
48692340 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48692387 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48692434 CTTATCACATATGTACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48692481 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48692528 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
48692563 AGAATCCTAA
Statistics
Matches: 157, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.01
47 156 0.99
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48695263 original size:70 final size:70
Alignment explanation
Indices: 48695216--48695346 Score: 181
Period size: 70 Copynumber: 1.9 Consensus size: 70
48695206 GATGGTCGCG
* * *
48695216 GTATTGAACCTGCGAGCCTTAAGAATACAATTGGGAGCCTCAACTCTCGCTAACTATTTTAGAGG
1 GTATTGAACCTACGAGCCTTAAGAATACAATTGGAAGCCTAAACTCTCGCTAACTATTTTAGAGG
48695281 ATGCA
66 ATGCA
* * * ** *
48695286 GTATTGAACTTATGAGCTTTAAGTTTACAATTGGAAGCTTAAACTCTCGCTAACTATTTTA
1 GTATTGAACCTACGAGCCTTAAGAATACAATTGGAAGCCTAAACTCTCGCTAACTATTTTA
48695347 ATGTCATGGT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 52 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (70 bp):
GTATTGAACCTACGAGCCTTAAGAATACAATTGGAAGCCTAAACTCTCGCTAACTATTTTAGAGG
ATGCA
Found at i:48696863 original size:95 final size:95
Alignment explanation
Indices: 48696700--48696984 Score: 552
Period size: 95 Copynumber: 3.0 Consensus size: 95
48696690 AGCAATATTC
48696700 TACCCAAGTGTTCTCTACAAATGCCTTTATGAATCTCTTGCATCACATACTCATCCTTTGACGGC
1 TACCCAAGTGTTCTCTACAAATGCCTTTATGAATCTCTTGCATCACATACTCATCCTTTGACGGC
48696765 GTCAGATATCACAACAATGGTTGTGAGAAT
66 GTCAGATATCACAACAATGGTTGTGAGAAT
48696795 TACCCAAGTGTTCTCTACAAATGCCTTTATGAATCTCTTGCATCACATACTCATCCTTTGACGGC
1 TACCCAAGTGTTCTCTACAAATGCCTTTATGAATCTCTTGCATCACATACTCATCCTTTGACGGC
48696860 GTCAGATATCACAACAATGGTTGTGAGAAT
66 GTCAGATATCACAACAATGGTTGTGAGAAT
48696890 TACCCAAGTGTTCTCTACAAATGCCTTTATGAATCTCTTGCATCACATACTCATCCTTTGACGGC
1 TACCCAAGTGTTCTCTACAAATGCCTTTATGAATCTCTTGCATCACATACTCATCCTTTGACGGC
* *
48696955 GTTAGATATCACAACAATGATTGTGAGAAT
66 GTCAGATATCACAACAATGGTTGTGAGAAT
48696985 CCTTTTTTTA
Statistics
Matches: 188, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 188 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (95 bp):
TACCCAAGTGTTCTCTACAAATGCCTTTATGAATCTCTTGCATCACATACTCATCCTTTGACGGC
GTCAGATATCACAACAATGGTTGTGAGAAT
Found at i:48701855 original size:20 final size:20
Alignment explanation
Indices: 48701827--48701875 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
48701817 TACATATTAT
* * * *
48701827 CACTGTTCATGATTTGATTC
1 CACTATTCATGAATTAATCC
48701847 CACTATTCATGAATTAATCC
1 CACTATTCATGAATTAATCC
48701867 CACTATTCA
1 CACTATTCA
48701876 CAGGACTGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (20 bp):
CACTATTCATGAATTAATCC
Found at i:48709528 original size:39 final size:40
Alignment explanation
Indices: 48709485--48709560 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
48709475 TCTCTCAATA
48709485 AAAAT-TATAAAAAAATATTCAAA-ATAATTTTTAAAACTC
1 AAAATATATAAAAAAAT-TTCAAATATAATTTTTAAAACTC
* * * *
48709524 AAAATATTTATAAAAATTTCAAATTTTATTTTTAAAA
1 AAAATATATAAAAAAATTTCAAATATAATTTTTAAAA
48709561 AAATATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 11 0.35
40 20 0.65
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (40 bp):
AAAATATATAAAAAAATTTCAAATATAATTTTTAAAACTC
Found at i:48709537 original size:18 final size:19
Alignment explanation
Indices: 48709503--48709538 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
48709493 AAAAAAATAT
*
48709503 TCAAAATAATTTTTAAAAC
1 TCAAAATAATTTATAAAAC
48709522 TCAAAAT-ATTTATAAAA
1 TCAAAATAATTTATAAAA
48709539 ATTTCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
TCAAAATAATTTATAAAAC
Found at i:48710144 original size:29 final size:30
Alignment explanation
Indices: 48710097--48710164 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
48710087 TGGCCCAAGA
* *
48710097 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
48710127 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
48710157 GCAAATAT
1 GTAAATAT
48710165 TTTAAGAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:48712349 original size:46 final size:46
Alignment explanation
Indices: 48712292--48712657 Score: 590
Period size: 46 Copynumber: 8.0 Consensus size: 46
48712282 AGTGTGCTCT
*
48712292 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
48712338 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
48712384 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
48712430 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * *
48712476 CTGATGTGAAATGTGTAAGACGATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * *
48712522 CTGATATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
48712568 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * * * * *
48712614 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
48712658 TCATGTCAAA
Statistics
Matches: 303, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 302 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:48715055 original size:29 final size:30
Alignment explanation
Indices: 48715008--48715075 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
48714998 TGGCCCAAGA
* *
48715008 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
48715038 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
48715068 GCAAATAT
1 GTAAATAT
48715076 TTTAAGAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:48717681 original size:18 final size:19
Alignment explanation
Indices: 48717647--48717682 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
48717637 AAAAAGATAT
*
48717647 TCAAAATAATTTTTAAAAC
1 TCAAAATAATTTATAAAAC
48717666 TCAAAAT-ATTTATAAAA
1 TCAAAATAATTTATAAAA
48717683 ATTTCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
TCAAAATAATTTATAAAAC
Found at i:48718335 original size:29 final size:29
Alignment explanation
Indices: 48718286--48718343 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
48718276 CGTTAACTAT
*
48718286 TTGAACTAATTAAGAATATTATAAAAATA
1 TTGAACTAATTAAGAACATTATAAAAATA
*
48718315 TTGAACTAATTAATAACATTATAAAAATA
1 TTGAACTAATTAAGAACATTATAAAAATA
48718344 AAGAAACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (29 bp):
TTGAACTAATTAAGAACATTATAAAAATA
Found at i:48720233 original size:25 final size:25
Alignment explanation
Indices: 48720205--48720254 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
48720195 GAGGAAAAAG
48720205 GGTGCATATGAAAGCAACTGAAACA
1 GGTGCATATGAAAGCAACTGAAACA
48720230 GGTGCATATGAAAGCAACTGAAACA
1 GGTGCATATGAAAGCAACTGAAACA
48720255 AACATTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (25 bp):
GGTGCATATGAAAGCAACTGAAACA
Found at i:48724539 original size:2 final size:2
Alignment explanation
Indices: 48724532--48724575 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
48724522 ATGGTGTCAT
*
48724532 TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
48724574 TC
1 TC
48724576 ACATTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:48728748 original size:22 final size:23
Alignment explanation
Indices: 48728708--48728752 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
48728698 AATTTATATA
48728708 TTTTATATTTTTAAAAAATATTT
1 TTTTATATTTTTAAAAAATATTT
*
48728731 TTTTATGTTTTT-AAAAATATTT
1 TTTTATATTTTTAAAAAATATTT
48728753 GAATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTATATTTTTAAAAAATATTT
Found at i:48728759 original size:23 final size:23
Alignment explanation
Indices: 48728710--48728759 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
48728700 TTTATATATT
**
48728710 TTATATTTTTAAAAAATATTTTT
1 TTATATTTTTAAAAAATATTTAA
*
48728733 TTATGTTTTT-AAAAATATTTGAA
1 TTATATTTTTAAAAAATATTT-AA
48728756 TTAT
1 TTAT
48728760 TTATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATATTTTTAAAAAATATTTAA
Found at i:48730007 original size:31 final size:31
Alignment explanation
Indices: 48729966--48730029 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
48729956 AATTTTGTAA
*
48729966 GTTTAACTATTTTACAATTTGGTCCTTTTTC
1 GTTTAACTATTTTACAATTTGGTCCTCTTTC
*
48729997 GTTTACCTATTTTACAATTTGGTCCTCTTTC
1 GTTTAACTATTTTACAATTTGGTCCTCTTTC
48730028 GT
1 GT
48730030 ACTAAGTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.11, T:0.53
Consensus pattern (31 bp):
GTTTAACTATTTTACAATTTGGTCCTCTTTC
Found at i:48730406 original size:20 final size:19
Alignment explanation
Indices: 48730373--48730410 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
48730363 AGCCTATATA
48730373 AAATAAGAAAGAAATGAAAG
1 AAATAAGAAAGAAA-GAAAG
48730393 AAATAA-AAAGGAAAGAAA
1 AAATAAGAAA-GAAAGAAA
48730411 TGAGGCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (19 bp):
AAATAAGAAAGAAAGAAAG
Found at i:48731263 original size:71 final size:71
Alignment explanation
Indices: 48731132--48731265 Score: 160
Period size: 71 Copynumber: 1.9 Consensus size: 71
48731122 CTAAAACAAG
* * * * ** * * *
48731132 TCAAGTCAGTATCCAAAGTTTAGCATCTCTTGTACTTTTACCGTTACCTTGAAGGCTTCTACCTA
1 TCAAGTCAGTAGCCAAAGTTCAGCATCCCCTACACTTCTACCGATAACTTGAAGGCTTCTACCTA
48731197 AATAAA
66 AATAAA
* * *
48731203 TCAAGTCAGTAGCCAAAGTTCAGCATCCCCTACACTTCTACCGATAATTTGATGGGTTCTACC
1 TCAAGTCAGTAGCCAAAGTTCAGCATCCCCTACACTTCTACCGATAACTTGAAGGCTTCTACC
48731266 GATACCAAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
71 51 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (71 bp):
TCAAGTCAGTAGCCAAAGTTCAGCATCCCCTACACTTCTACCGATAACTTGAAGGCTTCTACCTA
AATAAA
Found at i:48735026 original size:18 final size:18
Alignment explanation
Indices: 48735003--48735058 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
48734993 ACTCTCACTC
48735003 TCTTTTTCTTTTTCAATT
1 TCTTTTTCTTTTTCAATT
48735021 TCTTTTTC--TTTC-ATT
1 TCTTTTTCTTTTTCAATT
48735036 TCTTTTTTTCTTTTCTCAATT
1 TC--TTTTTCTTTT-TCAATT
48735057 TC
1 TC
48735059 ATTCCATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 6 0.19
18 8 0.25
19 2 0.06
20 2 0.06
21 5 0.16
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (18 bp):
TCTTTTTCTTTTTCAATT
Found at i:48735038 original size:15 final size:17
Alignment explanation
Indices: 48735003--48735042 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
48734993 ACTCTCACTC
48735003 TCTTTTTCTTTTTCAATT
1 TCTTTTTC-TTTTCAATT
48735021 TCTTTTTC-TTTC-ATT
1 TCTTTTTCTTTTCAATT
48735036 TCTTTTT
1 TCTTTTT
48735043 TTCTTTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 4 0.18
18 8 0.36
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTTTTTCTTTTCAATT
Found at i:48737920 original size:46 final size:46
Alignment explanation
Indices: 48736971--48737917 Score: 1686
Period size: 46 Copynumber: 20.6 Consensus size: 46
48736961 TACATCTCAC
**
48736971 GAACTCGGACTCAACTCAATGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737017 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737063 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737109 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737155 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737201 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737247 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737293 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737339 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737385 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737431 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737477 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737523 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737569 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737615 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737661 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737707 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
48737753 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
** * * * * * *
48737799 GAACTCGGACTCAACTCAATGAGTTGGGATGCCTAGTT-ACAT--TTCA-C
1 GAACTCGGACTCAACTCAACAAGTT--CA-GAC-A-TTCGCATCCATAAGT
* * * *
48737846 GAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
*
48737892 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACAAGTTC
48737918 GGATGCCCAA
Statistics
Matches: 871, Mismatches: 21, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.00
43 3 0.00
44 2 0.00
45 2 0.00
46 828 0.95
47 23 0.03
48 3 0.00
49 2 0.00
50 4 0.00
51 2 0.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
Found at i:48740804 original size:49 final size:49
Alignment explanation
Indices: 48740732--48740856 Score: 123
Period size: 49 Copynumber: 2.6 Consensus size: 49
48740722 AGATGTTAAC
* *
48740732 GCCATGT-CCAGACATAGTCTTACACTGGCT-TTCATATAGT-GAG-GCCGAT
1 GCCATGTCCCAAACAGA-TCTTACACTGGCTCTT-ATATA-TCG-GTGCCGAT
* * * * *
48740781 GCCATGTCCCAAACAGGTTTTACAGTGGCTCTTATCTATCGGTGTCGAT
1 GCCATGTCCCAAACAGATCTTACACTGGCTCTTATATATCGGTGCCGAT
48740830 GCCATGTCCCAAACAGATCTTACACTG
1 GCCATGTCCCAAACAGATCTTACACTG
48740857 ACACACCACA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
48 2 0.03
49 52 0.84
50 8 0.13
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAAACAGATCTTACACTGGCTCTTATATATCGGTGCCGAT
Found at i:48741045 original size:48 final size:46
Alignment explanation
Indices: 48740876--48741041 Score: 163
Period size: 48 Copynumber: 3.5 Consensus size: 46
48740866 AAGCTGACGC
* * * *
48740876 CATGTCTCAGACAAGTCTTACACTAGCTTGTATATCGCGAGGCCAATG
1 CATGTCCCAAACATGTCTTACACTAGC-T-TATATCTCGAGGCCAATG
* ** * * *
48740924 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCTAATG
1 CATGTCCCAAACATGTCTTACACTAGCT-TATATCTCGAGGCCAATG
* * *
48740970 CATGTACCAAACATATCTTACACTGGCTTAAATATCTCGAGGCCAATG
1 CATGTCCCAAACATGTCTTACACTAGCTT--ATATCTCGAGGCCAATG
48741018 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
48741042 GGCTCTCATG
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
45 1 0.01
46 34 0.36
47 2 0.02
48 58 0.61
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCTTATATCTCGAGGCCAATG
Found at i:48741099 original size:94 final size:93
Alignment explanation
Indices: 48740891--48741099 Score: 204
Period size: 94 Copynumber: 2.2 Consensus size: 93
48740881 CTCAGACAAG
*** * *
48740891 TCTTACACTAGCTTGTATATCGCGAGGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCG
1 TCTTACACTAGCACATATATCGCGAGGCCAATGCATGTCCCAAACATGTCTTACACTAGCTCTCA
*
48740956 TCTCAATGCTAATGCATGTACCAAACATA
66 TCT-AATGCTAACGCATGTACCAAACATA
* ** * * *
48740985 TCTTACACTGGCTTAAATATCTCGAGGCCAATGCATGTCCCAAACATGTCTTACACTGGCTCTCA
1 TCTTACACTAGCACATATATCGCGAGGCCAATGCATGTCCCAAACATGTCTTACACTAGCTCTCA
* * * * *
48741050 TGCT-ATGGCTGACGTATGTCCCAGACATG
66 T-CTAAT-GCTAACGCATGTACCAAACATA
* * *
48741079 TTTTATATTAGCACATATATC
1 TCTTACACTAGCACATATATC
48741100 ACCCATTATC
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
93 2 0.02
94 89 0.96
95 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (93 bp):
TCTTACACTAGCACATATATCGCGAGGCCAATGCATGTCCCAAACATGTCTTACACTAGCTCTCA
TCTAATGCTAACGCATGTACCAAACATA
Found at i:48744620 original size:21 final size:20
Alignment explanation
Indices: 48744578--48744626 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
48744568 TGTGTCTATG
48744578 TATATATTATAAAAATAATA
1 TATATATTATAAAAATAATA
* **
48744598 TATTTATTCATAAAAATGTTA
1 TATATATT-ATAAAAATAATA
48744619 TATATATT
1 TATATATT
48744627 TTTATCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
TATATATTATAAAAATAATA
Found at i:48751514 original size:40 final size:40
Alignment explanation
Indices: 48751436--48751516 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 40
48751426 ACAGGGGTTT
48751436 TCACACGGCCTGACACATGCCCGTGTCTATGGCCCGTGTCTC
1 TCACACGGCCTGACACA-GCCCGTGTCTA-GGCCCGTGTCTC
*
48751478 TCACATGGCCATGACAC-GCCCGTGTTCTA-GCCCGTGTCT
1 TCACACGGCC-TGACACAGCCCGTG-TCTAGGCCCGTGTCT
48751517 AAGAACCTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
40 10 0.28
41 7 0.19
42 13 0.36
43 6 0.17
ACGTcount: A:0.15, C:0.37, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACACGGCCTGACACAGCCCGTGTCTAGGCCCGTGTCTC
Found at i:48752583 original size:49 final size:46
Alignment explanation
Indices: 48752512--48752637 Score: 128
Period size: 48 Copynumber: 2.6 Consensus size: 46
48752502 TTAAGTCGAT
48752512 GCCATGTTCCAGACATGGTCTTACACTGACTA-TCGAAATCGAGGATGAC
1 GCCATG-TCCAGACATGGTCTTACACTGAC-ACTCGAAA-C-AGGATGAC
* * * * * *
48752561 GCCATGTCCAAGACATGGTCTTACACAGACACCTCTATACATGCTGAT
1 GCCATGTCC-AGACATGGTCTTACACTGACA-CTCGAAACAGGATGAC
48752609 GCCATGTCCTAGACATGGTCTTACACTGA
1 GCCATGTCC-AGACATGGTCTTACACTGA
48752638 AACATCTCGT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
48 36 0.55
49 26 0.39
50 4 0.06
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (46 bp):
GCCATGTCCAGACATGGTCTTACACTGACACTCGAAACAGGATGAC
Found at i:48752700 original size:46 final size:44
Alignment explanation
Indices: 48752611--48752725 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 44
48752601 ATGCTGATGC
*
48752611 CATGTCCTAGACATGGTCTTACACTGAAACATCTCGTAGCCGATA
1 CATGTCCCAGACAT-GTCTTACACTGAAACATCTCGTAGCCGATA
* ** *
48752656 TATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGCCCGATG
1 CATGTCCCAGACATGTCTTACACT-G-AAACATCTCGTAG-CCGATA
48752702 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
48752726 AGCTCTCGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 10 0.16
45 15 0.25
46 36 0.59
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGAAACATCTCGTAGCCGATA
Found at i:48752746 original size:46 final size:43
Alignment explanation
Indices: 48752657--48752822 Score: 145
Period size: 46 Copynumber: 3.6 Consensus size: 43
48752647 TAGCCGATAT
*
48752657 ATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA-GCCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTT-CATCT--ATG-CCGATGC
*
48752703 ATGTCCCAGACATGTCTTACACTAGCTCTCGTCCTAATGCCGATGCC
1 ATGTCCCAGACATGTCTTACACTAGCT-TCAT-CT-ATGCCGATG-C
* ** * *
48752750 ATGTCCCAGACATGGTCTTAGACGGGCTTTCATAATATGGGCGATGC
1 ATGTCCCAGACAT-GTCTTACACTAGC-TTCAT-CTAT-GCCGATGC
*
48752797 ATGTCTCAGACATGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
48752823 ACACAAATAA
Statistics
Matches: 99, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
46 45 0.45
47 33 0.33
48 20 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (43 bp):
ATGTCCCAGACATGTCTTACACTAGCTTCATCTATGCCGATGC
Found at i:48755190 original size:40 final size:40
Alignment explanation
Indices: 48755107--48755326 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
48755097 ACCCAAGTAT
** * *
48755107 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
48755145 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
48755185 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
48755225 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
48755265 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* **
48755305 CTTCGGGACTTATTCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
48755327 CATTCGAATA
Statistics
Matches: 156, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 127 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:48758528 original size:45 final size:45
Alignment explanation
Indices: 48758464--48758553 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
48758454 AACTGACAAA
* *
48758464 GGATCACTATTATGGTTTTAGGTTGGGTGCGCAAAGTTCGACGTG
1 GGATCACTATCATGGTTTTAGGTTGGATGCGCAAAGTTCGACGTG
48758509 GGATCACTATCATGGTTTTAGGTTGGATGCGCAAAGTTCGACGTG
1 GGATCACTATCATGGTTTTAGGTTGGATGCGCAAAGTTCGACGTG
48758554 TTTCTCTCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.32
Consensus pattern (45 bp):
GGATCACTATCATGGTTTTAGGTTGGATGCGCAAAGTTCGACGTG
Found at i:48784281 original size:46 final size:46
Alignment explanation
Indices: 48784225--48784346 Score: 122
Period size: 47 Copynumber: 2.6 Consensus size: 46
48784215 ATCTCGTAGT
* * *
48784225 CGATACATGTCCCAAACATGTCTTACATTGGCT-TACAT-CTCAAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-AAGGC
* * **
48784271 CGATGCATGTCCCAGACATGGTCTAACACTGGCTCTCATAATGTGGC
1 CGATGCATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATAAGGC
* *
48784318 CGATGCTTGTCCCAAACATGTCTTCCACT
1 CGATGCATGTCCCAAACATGTCTTACACT
48784347 AGCATACAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
46 25 0.40
47 35 0.56
48 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATAAGGC
Found at i:48790411 original size:40 final size:40
Alignment explanation
Indices: 48790353--48790533 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
48790343 TATTCGGATG
* * *
48790353 ATATCCGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
48790393 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
48790433 ATATCCGGGCTAAGTCCCAAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
48790473 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
48790513 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
48790534 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.10
40 112 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:48797424 original size:19 final size:18
Alignment explanation
Indices: 48797402--48797438 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
48797392 AGAATTGGCC
48797402 AAATGGGCCGGAATGGGCT
1 AAATGGGCCGG-ATGGGCT
*
48797421 AAATGGGCCTGATGGGCT
1 AAATGGGCCGGATGGGCT
48797439 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.16, G:0.41, T:0.19
Consensus pattern (18 bp):
AAATGGGCCGGATGGGCT
Found at i:48797563 original size:29 final size:27
Alignment explanation
Indices: 48797514--48797625 Score: 80
Period size: 29 Copynumber: 4.0 Consensus size: 27
48797504 TGAGTATAAT
* *
48797514 ATGATTTGGGCCTAATAGGCCATATGA
1 ATGAATTGGGCCTAATGGGCCATATGA
* *
48797541 AGGTGAATTGGGCCTAGTGGGCCATAAGAA
1 A--TGAATTGGGCCTAATGGGCCATATG-A
* * * *
48797571 TATGAACTGAGCCAAATGGGCCATTTGA
1 -ATGAATTGGGCCTAATGGGCCATATGA
* * *
48797599 ATAAGATTGGGCCTAGTGGGCTATATG
1 ATGA-ATTGGGCCTAATGGGCCATATG
48797626 CATGTATGTA
Statistics
Matches: 63, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
27 4 0.06
28 17 0.27
29 40 0.63
30 1 0.02
31 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.26
Consensus pattern (27 bp):
ATGAATTGGGCCTAATGGGCCATATGA
Found at i:48800268 original size:21 final size:20
Alignment explanation
Indices: 48800242--48800287 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
48800232 AGGGACTAAA
*
48800242 ATGAAAAACGTGTAAAATTTG
1 ATGAAAAA-GTCTAAAATTTG
* *
48800263 ATGAAAAATTCTAAAATTTT
1 ATGAAAAAGTCTAAAATTTG
48800283 ATGAA
1 ATGAA
48800288 TACATGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.50, C:0.04, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGAAAAAGTCTAAAATTTG
Found at i:48801863 original size:13 final size:13
Alignment explanation
Indices: 48801845--48801871 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48801835 TATACAACAA
48801845 GGCCAGGCCACAC
1 GGCCAGGCCACAC
48801858 GGCCAGGCCACAC
1 GGCCAGGCCACAC
48801871 G
1 G
48801872 CCCGTGTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.44, G:0.33, T:0.00
Consensus pattern (13 bp):
GGCCAGGCCACAC
Found at i:48806048 original size:47 final size:48
Alignment explanation
Indices: 48805975--48806134 Score: 150
Period size: 48 Copynumber: 3.3 Consensus size: 48
48805965 TTATTTGTGT
48805975 GCCAGTGTAAGA-CATGTT-TGGGACAT-GCATCGACCACAT-TATGA-GA
1 GCCAGTGTAAGACCAT-TTCTGGGACATGGCATCG-CCACATATA-GAGGA
* * *
48806021 GCCGGTGTAAGACCATTTCTGGGACATGGCATCGGCACATATAGAGGT
1 GCCAGTGTAAGACCATTTCTGGGACATGGCATCGCCACATATAGAGGA
* * * * * *
48806069 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGTGAGA
1 GCCAGTGTAAGACCATTTCTGGGACATGGCATCGCCACATATA-GAG-GA
*
48806119 GCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCAT
48806135 GTATTGGAGC
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
46 13 0.14
47 18 0.19
48 47 0.49
49 2 0.02
50 15 0.16
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GCCAGTGTAAGACCATTTCTGGGACATGGCATCGCCACATATAGAGGA
Found at i:48818618 original size:14 final size:13
Alignment explanation
Indices: 48818598--48818629 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
48818588 AATATTTAAC
48818598 TTGTTCTTAATTA
1 TTGTTCTTAATTA
48818611 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
48818625 TTGTT
1 TTGTT
48818630 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:48819393 original size:21 final size:20
Alignment explanation
Indices: 48819364--48819409 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
48819354 CGAAATGCAA
48819364 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
48819385 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
48819405 T-AACC
1 TCAACC
48819410 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:48843578 original size:80 final size:79
Alignment explanation
Indices: 48843435--48843610 Score: 282
Period size: 80 Copynumber: 2.2 Consensus size: 79
48843425 GACCAAAGTG
* * *
48843435 TAAATATGTGAAAGTTTAAGGGCAAAATTGTAATTTTTCTAAAGTATGATTTATGGACTGATTTG
1 TAAATAAGTGAAAGTTTAAGGGAAAAATTGTAATTTTTCCAAAGTATGATTTATGGACTGATTTG
48843500 AATAAAGTGATAAT
66 AATAAAGTGATAAT
* *
48843514 TAAATAAGAGAAAGTTTAGGGGAAAAATTGTAATTTTTTCCAAAGTATGATTTATGGACTGATTT
1 TAAATAAGTGAAAGTTTAAGGGAAAAATTGTAA-TTTTTCCAAAGTATGATTTATGGACTGATTT
*
48843579 GAATAATGTGATAAT
65 GAATAAAGTGATAAT
48843594 TAAATAAGTGAAA-TTTA
1 TAAATAAGTGAAAGTTTA
48843611 CTATTATAGA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
79 33 0.37
80 56 0.63
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (79 bp):
TAAATAAGTGAAAGTTTAAGGGAAAAATTGTAATTTTTCCAAAGTATGATTTATGGACTGATTTG
AATAAAGTGATAAT
Found at i:48844003 original size:48 final size:48
Alignment explanation
Indices: 48843887--48844164 Score: 253
Period size: 48 Copynumber: 5.8 Consensus size: 48
48843877 GGGTTGGTGA
* * * * *
48843887 GATCCCGT-TAAGACCATATCTGGGATATGGCATCGACATCGATATGAGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAT--GT
* *
48843936 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGCTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
48843984 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * * * *
48844032 GAACATCATGTAAGACCATAG-ATGGGATATCG-ACTTTG-AT--ATGTGT
1 GATC-CCATGTAAGACCAT-GTCTGGGACATGGCA-TTGGCATCGATATGT
* * *
48844078 GATCCCATGTAAGACCATGTGTGGGACATGGCATTGGCATCAATAAGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * *
48844126 GTTCCCATGTAAGAACATATTTGGGATATGGCATTGGCA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48844165 CCGTACTTTG
Statistics
Matches: 188, Mismatches: 32, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.01
45 24 0.13
46 10 0.05
48 90 0.48
49 31 0.16
50 32 0.17
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:48848185 original size:40 final size:40
Alignment explanation
Indices: 48848120--48848215 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
48848110 GACTATTTTT
* * *
48848120 GGCACTAAGTGTGCGATTTGAAATAGTTTCAGCTATAAAT-A
1 GGCACTAAGTGTGTGAATTGAAATAGCTTCA--TATAAATGA
* **
48848161 -GCACTAAGTGTGTGAATTGGAATAGCTTCATATATTTGA
1 GGCACTAAGTGTGTGAATTGAAATAGCTTCATATAAATGA
48848200 GGCACTAAGTGTGTGA
1 GGCACTAAGTGTGTGA
48848216 TGCCGAGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
38 5 0.11
39 1 0.02
40 41 0.87
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.32
Consensus pattern (40 bp):
GGCACTAAGTGTGTGAATTGAAATAGCTTCATATAAATGA
Found at i:48852875 original size:81 final size:81
Alignment explanation
Indices: 48852691--48852878 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 81
48852681 AATACTTTTG
* * * ** *
48852691 TTTACCAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAATTTACAGAATT
1 TTTACAAAATTACTGAAATACCCTTGACTTACAAAATTACCAAAGTACCCTCAATTTACAAAATT
48852756 ACTGTTTTACCCTCGA
66 ACTGTTTTACCCTCGA
* * * *** * **** *
48852772 TTTACAGATTTACCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATT
1 TTTACAAAATTACTGAAATACCCTTGACTTACAAAATTACCAAAGTACCCTCAATTTACAAAATT
* *
48852837 ATTGTTTTACCCTTGA
66 ACTGTTTTACCCTCGA
48852853 TTTACAAAATTACTGAAATACCCTTG
1 TTTACAAAATTACTGAAATACCCTTG
48852879 TAGGGTAGAA
Statistics
Matches: 81, Mismatches: 26, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
TTTACAAAATTACTGAAATACCCTTGACTTACAAAATTACCAAAGTACCCTCAATTTACAAAATT
ACTGTTTTACCCTCGA
Found at i:48852878 original size:27 final size:27
Alignment explanation
Indices: 48852736--48852867 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
48852726 ATTACCAAAG
* *
48852736 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
48852763 TACCCTCGATTTACAGATTTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
48852790 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
48852817 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
48852844 TACCCTTGATTTACAAAATTACTG
1 TACCCTCGATTTACAAAATTACTG
48852868 AAATACCCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:48852899 original size:27 final size:27
Alignment explanation
Indices: 48852868--48853110 Score: 256
Period size: 27 Copynumber: 9.0 Consensus size: 27
48852858 AAAATTACTG
* *
48852868 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCA
* * * *
48852895 GAATACCCTTTTAGGGTCGAAATACCA
1 AAATACCCCTGTAGGGTAGAAATACCA
* *
48852922 AAATACCCCTATAGGATAGAAATACCA
1 AAATACCCCTGTAGGGTAGAAATACCA
* *
48852949 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAAATACCA
*
48852976 AAATACCCCTGTAGGGTA-AAATTACCG
1 AAATACCCCTGTAGGGTAGAAA-TACCA
*
48853003 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAAATACCA
* * * *
48853030 AAATTCCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAAATACCA
* * *
48853057 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAAATACCA
* * *
48853084 AGATACCCTTGTCGGGTA-AAATTACCA
1 AAATACCCCTGTAGGGTAGAAA-TACCA
48853111 TTTTACCCCT
Statistics
Matches: 181, Mismatches: 32, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
26 4 0.02
27 174 0.96
28 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAAATACCA
Found at i:48853092 original size:81 final size:81
Alignment explanation
Indices: 48852868--48853110 Score: 290
Period size: 81 Copynumber: 3.0 Consensus size: 81
48852858 AAAATTACTG
* * * *** * * * * * * *
48852868 AAATACCCTTGTAGGGTAGAAATACCGGAATACCCTTTTAGGGTCGAAATACCAAAATACCCCTA
1 AAATACCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTG
*
48852933 TAGGATAGAAATACCA
66 TAGGGTAGAAATACCA
* * *
48852949 AAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTG
1 AAATACCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTG
48853014 TAGGGTAGAAATACCA
66 TAGGGTAGAAATACCA
* *
48853030 AAATTCCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTG
1 AAATACCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTG
*
48853095 TCGGGTA-AAATTACCA
66 TAGGGTAGAAA-TACCA
48853111 TTTTACCCCT
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 3 0.02
81 138 0.98
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (81 bp):
AAATACCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTG
TAGGGTAGAAATACCA
Found at i:48853494 original size:27 final size:26
Alignment explanation
Indices: 48853442--48853501 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
48853432 CGCCATATAT
*
48853442 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
48853468 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
48853495 ATATCTG
1 ATATCTG
48853502 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:48853629 original size:6 final size:6
Alignment explanation
Indices: 48853620--48853803 Score: 153
Period size: 6 Copynumber: 29.8 Consensus size: 6
48853610 TTGCATTCAT
* *
48853620 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
48853670 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACTTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG
* * * *
48853719 ATTCTG -TTACCTA ATTCTA ATTCTG ATTCTG ATTTTG ATTCTG -TCACTTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG
* *
48853769 ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
48853804 TGTTTTGATA
Statistics
Matches: 145, Mismatches: 18, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
5 9 0.06
6 116 0.80
7 13 0.09
8 7 0.05
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:48853651 original size:19 final size:19
Alignment explanation
Indices: 48853648--48853780 Score: 112
Period size: 19 Copynumber: 6.8 Consensus size: 19
48853638 TTACCTGATA
48853648 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
48853667 CTAATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
48853685 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
48853704 TTGATACTGATTCTGATTCTGTTAC
1 ------CTGATTCTGATTCTGTTAC
* *
48853729 CTAATTCTAATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
* *
48853747 CTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
*
48853766 TTGATTCTGATTCTG
1 CTGATTCTGATTCTG
48853781 ATTCTGATTC
Statistics
Matches: 92, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
17 4 0.04
18 25 0.27
19 39 0.42
20 5 0.05
25 19 0.21
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:48853651 original size:25 final size:25
Alignment explanation
Indices: 48853623--48853687 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
48853613 CATTCATATT
*
48853623 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
48853648 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
48853673 CTGATTCTGGTTCTG
1 CTGATTCTGATTCTG
48853688 ATTCTGATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Done.