Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 192 of 373
Found at i:64442563 original size:11 final size:11
Alignment explanation
Indices: 64442522--64442571 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
64442512 ACTTTTTTGT
64442522 TATTATTATTA
1 TATTATTATTA
* *
64442533 CCATTGTTA-T-
1 -TATTATTATTA
*
64442543 TATTACTATTA
1 TATTATTATTA
64442554 TATTATTATTA
1 TATTATTATTA
64442565 TATTATT
1 TATTATT
64442572 TTTTATTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
9 5 0.17
10 1 0.03
11 18 0.60
12 6 0.20
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTATTATTA
Found at i:64446620 original size:9 final size:9
Alignment explanation
Indices: 64446606--64446637 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
64446596 AATGCCTTTT
64446606 TTGCATTCA
1 TTGCATTCA
64446615 TTGCATTCA
1 TTGCATTCA
64446624 TTGCATTCA
1 TTGCATTCA
64446633 -TGCAT
1 TTGCAT
64446638 CAGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:64461173 original size:46 final size:46
Alignment explanation
Indices: 64461117--64461253 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
64461107 TATATATACA
* * * * *
64461117 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCGCATGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
* * **
64461163 CATCTTATACACGTTTCGCATTAGCCATTCGGCTTTACTTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
* *
64461209 CATCTCATACACATTTCGTATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATAT
64461254 ATACACTTCC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
Found at i:64461298 original size:47 final size:47
Alignment explanation
Indices: 64461232--64461556 Score: 467
Period size: 47 Copynumber: 7.0 Consensus size: 47
64461222 TTTCGTATTA
* * * * *
64461232 GCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATTG
* *
64461279 GCCATTCTGCCTTGTCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
64461326 GCCATTCGACCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
64461373 GCCATTCGGCCTTACCACA-CTACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
64461419 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
64461466 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATT-
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * **
64461512 TCCATTCGGCCTTATCTCATATATCCACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
64461557 AAAATCCTAA
Statistics
Matches: 253, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
46 84 0.33
47 169 0.67
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:64461347 original size:140 final size:139
Alignment explanation
Indices: 64461215--64461556 Score: 406
Period size: 140 Copynumber: 2.4 Consensus size: 139
64461205 TATCCATCTC
** * * *
64461215 ATACACATT-TCGTATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCACATT
1 ATACACATTATCACATTAGCCATTCGGCCTTACCACA-ATACACA-TGTCCACATTCATCACATT
* * *
64461278 GGCCATTCTGCCTTGTCACATATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCA
64 GGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCA
64461343 CATATATGCAT
129 CATATATGCAT
* * * * * *
64461354 GTTCACATTCATCACATTGGCCATTCGGCCTTACCACACTACGCATGTTCACATTCATCACATTG
1 ATACACATT-ATCACATTAGCCATTCGGCCTTACCACAATACACATGTCCACATTCATCACATTG
*
64461419 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
65 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCAC
64461484 ATATATGCAT
130 ATATATGCAT
* * * * *
64461494 GTTCACATTCATCACATT-TCCATTCGGCCTTATCTCATATATCCACAT-T-CACATTCATCACA
1 ATACACATT-ATCACATTAGCCATTCGGCCTTA-C-CACA-ATACACATGTCCACATTCATCACA
64461556 T
62 T
64461557 AAAATCCTAA
Statistics
Matches: 177, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
139 21 0.12
140 124 0.70
141 27 0.15
142 5 0.03
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.34
Consensus pattern (139 bp):
ATACACATTATCACATTAGCCATTCGGCCTTACCACAATACACATGTCCACATTCATCACATTGG
CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCACA
TATATGCAT
Found at i:64461432 original size:93 final size:94
Alignment explanation
Indices: 64461232--64461556 Score: 467
Period size: 93 Copynumber: 3.5 Consensus size: 94
64461222 TTTCGTATTA
* * * * * * *
64461232 GCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCACATTGGCCATTCTGCCTTGTCA
1 GCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
64461296 CATATATGCATGTTCACATTCATCACATTG
65 CATATATGCATGTTCACATTCATCACATTG
* *
64461326 GCCATTCGACCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTACCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* *
64461391 A-CTACGCATGTTCACATTCATCACATTG
66 ATATATGCATGTTCACATTCATCACATTG
*
64461419 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
64461484 ATATATGCATGTTCACATTCATCACATT-
66 ATATATGCATGTTCACATTCATCACATTG
* * * **
64461512 TCCATTCGGCCTTATCTCATATATCCACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
64461557 AAAATCCTAA
Statistics
Matches: 207, Mismatches: 22, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
93 128 0.62
94 79 0.38
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (94 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
ATATATGCATGTTCACATTCATCACATTG
Found at i:64461557 original size:25 final size:24
Alignment explanation
Indices: 64461479--64461557 Score: 58
Period size: 25 Copynumber: 3.3 Consensus size: 24
64461469 ATTCGGCCTT
**
64461479 ATCACATATATGCATGTTCACATTC
1 ATCACATATAT-CACATTCACATTC
* *
64461504 ATCACAT-T-TC-CATTCGGCCTT-
1 ATCACATATATCACATTC-ACATTC
*
64461525 ATCTCATATATCCACATTCACATTC
1 ATCACATATAT-CACATTCACATTC
64461550 ATCACATA
1 ATCACATA
64461558 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
21 9 0.22
22 5 0.12
23 2 0.05
24 5 0.12
25 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.35
Consensus pattern (24 bp):
ATCACATATATCACATTCACATTC
Found at i:64465471 original size:40 final size:40
Alignment explanation
Indices: 64465416--64465650 Score: 418
Period size: 40 Copynumber: 5.9 Consensus size: 40
64465406 GAATACACAT
* *
64465416 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
64465456 CACCAGTACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
64465496 CACCAGCACGTATGCTCTTTGGGACTTAGCCC-GATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
64465535 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
64465575 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
64465615 CTCCAGCACGTATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGAT
64465651 CATATATAAC
Statistics
Matches: 187, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.20
40 149 0.80
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:64465557 original size:79 final size:80
Alignment explanation
Indices: 64465416--64465650 Score: 418
Period size: 79 Copynumber: 3.0 Consensus size: 80
64465406 GAATACACAT
* * *
64465416 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGTACGTATGCTCTTCGGGAC
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGAC
64465481 TTAGCCCGGATATAA
66 TTAGCCCGGATATAA
*
64465496 CACCAGCACGTATGCTCTTTGGGACTTAGCCC-GATATAACACCAGCACGTATGCTCTTCGGGAC
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGAC
64465560 TTAGCCCGGATATAA
66 TTAGCCCGGATATAA
*
64465575 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACTCCAGCACGTATGCTCTTCGGGAC
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGAC
64465640 TTAGCCCGGAT
66 TTAGCCCGGAT
64465651 CATATATAAC
Statistics
Matches: 148, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
79 77 0.52
80 71 0.48
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (80 bp):
CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGAC
TTAGCCCGGATATAA
Found at i:64465560 original size:119 final size:119
Alignment explanation
Indices: 64465416--64465647 Score: 419
Period size: 119 Copynumber: 1.9 Consensus size: 119
64465406 GAATACACAT
* *
64465416 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGTACGTATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGAC
*
64465481 TTAGCCCGGATATAACACCAGCACGTATGCTCTTTGGGACTTAGCCCGATATAA
66 TTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGACTTAGCCCGATATAA
*
64465535 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGAC
*
64465600 TTAGCCCGGATATAACTCCAGCACGTATGCTCTTCGGGACTTAGCCCG
66 TTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGACTTAGCCCG
64465648 GATCATATAT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 108 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (119 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGAC
TTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGACTTAGCCCGATATAA
Found at i:64467228 original size:46 final size:44
Alignment explanation
Indices: 64467122--64467249 Score: 186
Period size: 46 Copynumber: 2.9 Consensus size: 44
64467112 TATATATACA
* * * *
64467122 CATCTCATACATATCTCACATTAGCCATTTGGC-TTACCCATTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCATTC
*
64467165 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC-CAT-TC
64467211 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
64467250 AATATATACA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 28 0.37
44 5 0.07
45 3 0.04
46 40 0.53
ACGTcount: A:0.23, C:0.33, G:0.09, T:0.34
Consensus pattern (44 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCATTC
Found at i:64467298 original size:22 final size:22
Alignment explanation
Indices: 64467270--64467345 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
64467260 CTTCCACTTC
64467270 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
64467292 ATCACATATATG-CATGT-T-CACATT
1 ATCACAT-T-GGCCAT-TCTGC-C-TT
*
64467316 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
64467339 ATCACAT
1 ATCACAT
64467346 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:64467401 original size:46 final size:47
Alignment explanation
Indices: 64467229--64467462 Score: 316
Period size: 46 Copynumber: 5.1 Consensus size: 47
64467219 ACACATTTCG
* * * * *
64467229 CATTAGCCATTCGGCTTTACCA-ATATATACA-CTTC-CACTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA-TTCATCA
*
64467274 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
64467321 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
64467368 CATTGGCCATTC-GCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
64467414 CATTTGCCATT-GGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
64467460 CAT
1 CAT
64467463 AAAATCCTAA
Statistics
Matches: 173, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
45 18 0.10
46 85 0.49
47 68 0.39
48 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:64471435 original size:39 final size:39
Alignment explanation
Indices: 64471392--64471702 Score: 550
Period size: 39 Copynumber: 7.9 Consensus size: 39
64471382 GAATACACAT
* *
64471392 CACCAGCATGAATGCTCTTCGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAA
*
64471431 CACCAGTACGTATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCG-GACTTAGCCCGGATATAA
64471471 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAA
64471510 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAA
*
64471549 CACCAGCACATATGCTCTTCGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAA
64471588 CACCAGCACGTATGCTCTTCGGCACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGG-ACTTAGCCCGGATATAA
64471628 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAA
*
64471667 CTCCAGCACGTATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCACGTATGCTCTTC-GGACTTAGCCCGGAT
64471703 CATATATAAC
Statistics
Matches: 262, Mismatches: 7, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
39 170 0.65
40 92 0.35
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAA
Found at i:64471523 original size:79 final size:78
Alignment explanation
Indices: 64471392--64471702 Score: 550
Period size: 79 Copynumber: 3.9 Consensus size: 78
64471382 GAATACACAT
* * *
64471392 CACCAGCATGAATGCTCTTCGGACTTAGCCCGGATATAACACCAGTACGTATGCTCTTCGAGACT
1 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCG-GACT
64471457 TAGCCCGGATATAA
65 TAGCCCGGATATAA
64471471 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGACTT
1 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGACTT
64471536 AGCCCGGATATAA
66 AGCCCGGATATAA
*
64471549 CACCAGCACATATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGCACT
1 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGG-ACT
64471614 TAGCCCGGATATAA
65 TAGCCCGGATATAA
*
64471628 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACTCCAGCACGTATGCTCTTCGGGACT
1 CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTC-GGACT
64471693 TAGCCCGGAT
65 TAGCCCGGAT
64471703 CATATATAAC
Statistics
Matches: 224, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
78 78 0.35
79 144 0.64
80 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (78 bp):
CACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGACTT
AGCCCGGATATAA
Found at i:64471678 original size:157 final size:158
Alignment explanation
Indices: 64471403--64471702 Score: 559
Period size: 157 Copynumber: 1.9 Consensus size: 158
64471393 ACCAGCATGA
*
64471403 ATGCTCTTCGGACTTAGCCCGGATATAACACCAGTACGTATGCTCTTCGAGACTTAGCCCGGATA
1 ATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGAGACTTAGCCCGGATA
64471468 TAACACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTC-GG
66 TAACACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGG
64471532 ACTTAGCCCGGATATAACACCAGCACAT
131 ACTTAGCCCGGATATAACACCAGCACAT
64471560 ATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCG-GCACTTAGCCCGGAT
1 ATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGAG-ACTTAGCCCGGAT
*
64471624 ATAACACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACTCCAGCACGTATGCTCTTCGG
65 ATAACACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGG
64471689 GACTTAGCCCGGAT
130 GACTTAGCCCGGAT
64471703 CATATATAAC
Statistics
Matches: 139, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
156 1 0.01
157 123 0.88
158 15 0.11
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (158 bp):
ATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGAGACTTAGCCCGGATA
TAACACCAGCACGTATGCTCTTCGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGG
ACTTAGCCCGGATATAACACCAGCACAT
Found at i:64473318 original size:46 final size:46
Alignment explanation
Indices: 64473188--64473324 Score: 179
Period size: 46 Copynumber: 3.0 Consensus size: 46
64473178 TATATATACA
* * * * *
64473188 CATCTCTTACATATCTCACATTAGCCATTTGGCTTTA-CT-ATATGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATA--TC
*
64473234 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
64473280 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATAT
64473325 ATACACTTCC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
46 76 0.94
47 2 0.02
48 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:64473556 original size:22 final size:22
Alignment explanation
Indices: 64473529--64473600 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
64473519 GTTCACATTC
64473529 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
64473551 ATCACATAT-ACGCATGTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
64473575 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
64473598 ATC
1 ATC
64473601 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 14 0.38
23 6 0.16
24 6 0.16
25 11 0.30
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:64473665 original size:47 final size:47
Alignment explanation
Indices: 64473298--64473674 Score: 531
Period size: 47 Copynumber: 8.0 Consensus size: 47
64473288 ACACATTTCG
* * * * * * *
64473298 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCACCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* * *
64473345 CATTGGCCATGCTGCCTTGTCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
64473392 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
64473439 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
64473486 CATTGGCTATTTGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
64473533 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
64473580 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
64473627 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
64473674 C
1 C
64473675 TTAAAATCCG
Statistics
Matches: 299, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.00
47 298 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:64481795 original size:28 final size:28
Alignment explanation
Indices: 64481760--64481847 Score: 122
Period size: 28 Copynumber: 3.1 Consensus size: 28
64481750 TACCCATTGA
** *
64481760 ATACTCAATGCCTGGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
64481788 ATACTCAATATCTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
* * *
64481816 ACACTCGATATCTCACACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
64481844 ATAC
1 ATAC
64481848 ATAGCCGAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.32, C:0.33, G:0.12, T:0.23
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGCC
Found at i:64481883 original size:40 final size:40
Alignment explanation
Indices: 64481828--64481924 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
64481818 ACTCGATATC
*
64481828 TCACACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
1 TCACACACTAAGTGCCATACATAGCCGAAGCTATATCAAA
* *
64481868 TCACACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
1 TCACACACTAAGTGCCATACATAGCCGAAGCTATATCAAA
* *
64481908 TCGCACACTATGTGCCA
1 TCACACACTAAGTGCCA
64481925 CAATTAGCCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (40 bp):
TCACACACTAAGTGCCATACATAGCCGAAGCTATATCAAA
Found at i:64483247 original size:19 final size:18
Alignment explanation
Indices: 64483212--64483253 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
64483202 GTGTGGCTTA
*
64483212 CCCATGTGGGGCCCACGAG
1 CCCATGTGGGCCCCACG-G
64483231 CCCATG-GGGCCCACACGG
1 CCCATGTGGGCCC-CACGG
64483249 CCCAT
1 CCCAT
64483254 TTCAGCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.17, C:0.43, G:0.31, T:0.10
Consensus pattern (18 bp):
CCCATGTGGGCCCCACGG
Found at i:64487527 original size:21 final size:21
Alignment explanation
Indices: 64487468--64487537 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
64487458 CAGAAGTAGT
*
64487468 ATACGACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCT-A
* ** *
64487490 A-ATGACACACGTGGTGCCTA
1 ATACGACACATATAGTGCCTA
*
64487510 ATACGACACATATAGTGCCTG
1 ATACGACACATATAGTGCCTA
64487531 AT-CGACA
1 ATACGACA
64487538 AAGCTGATAA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
20 7 0.19
21 29 0.78
22 1 0.03
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (21 bp):
ATACGACACATATAGTGCCTA
Found at i:64487671 original size:16 final size:17
Alignment explanation
Indices: 64487639--64487682 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
64487629 TTCTATTTCA
*
64487639 AATTCAC-ATTCAGTTC
1 AATTCACAATTCAATTC
64487655 AA-TCACAATTCAATTC
1 AATTCACAATTCAATTC
64487671 AATTCA-AATTCA
1 AATTCACAATTCA
64487683 CTTTCCACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 4 0.16
16 18 0.72
17 3 0.12
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (17 bp):
AATTCACAATTCAATTC
Found at i:64508212 original size:7 final size:7
Alignment explanation
Indices: 64508184--64508223 Score: 53
Period size: 7 Copynumber: 5.3 Consensus size: 7
64508174 TTTACTTTAC
64508184 TATATATA
1 TATATA-A
64508192 TAATATAA
1 T-ATATAA
64508200 TAATATAA
1 T-ATATAA
64508208 TATATAA
1 TATATAA
64508215 TATATAA
1 TATATAA
64508222 TA
1 TA
64508224 AAACATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 15 0.48
8 11 0.35
9 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TATATAA
Found at i:64508231 original size:17 final size:20
Alignment explanation
Indices: 64508191--64508237 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
64508181 TACTATATAT
*
64508191 ATAATATAATAATATAATAT
1 ATAATATAATAATATAATAC
64508211 ATAATAT-ATAATA-AA-AC
1 ATAATATAATAATATAATAC
64508228 ATAATA-AATA
1 ATAATATAATA
64508238 TCTTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.40
18 2 0.08
19 6 0.24
20 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATATAATAATATAATAC
Found at i:64508898 original size:20 final size:19
Alignment explanation
Indices: 64508852--64508898 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
64508842 AGTCTTTTTT
*
64508852 CCTAATTTCTCCTAATTAAG
1 CCTAA-TTCACCTAATTAAG
64508872 -CTAAATTCACCTAATTAAAG
1 CCT-AATTCACCTAATT-AAG
64508892 CCTAATT
1 CCTAATT
64508899 AAACACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (19 bp):
CCTAATTCACCTAATTAAG
Found at i:64511607 original size:28 final size:27
Alignment explanation
Indices: 64511544--64511723 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
64511534 ATATTAAGTC
* * *
64511544 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
64511571 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
64511599 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
64511627 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
64511654 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
64511682 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
64511709 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64511724 GCACAATTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 65 0.45
28 80 0.55
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:64511657 original size:55 final size:55
Alignment explanation
Indices: 64511544--64511723 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
64511534 ATATTAAGTC
* * * * *
64511544 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
64511599 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
64511654 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
64511709 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64511724 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 93 0.78
56 26 0.22
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
Found at i:64511683 original size:83 final size:82
Alignment explanation
Indices: 64511544--64511723 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
64511534 ATATTAAGTC
* *
64511544 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
64511609 GTGCTACATAGTCAAACT
66 GTGCTACATAGTC-AACT
* * *
64511627 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
*
64511692 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAACT
64511709 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64511724 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 18 0.20
83 73 0.80
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:64519632 original size:27 final size:27
Alignment explanation
Indices: 64519615--64519821 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
64519605 ATATTAAGTC
64519615 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
64519642 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
64519670 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
64519697 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
64519725 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
64519752 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
64519780 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
64519807 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
64519822 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:64519699 original size:55 final size:55
Alignment explanation
Indices: 64519615--64519821 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
64519605 ATATTAAGTC
* * * *
64519615 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
64519670 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
64519725 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
64519780 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
64519822 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:64524218 original size:46 final size:46
Alignment explanation
Indices: 64524069--64524291 Score: 194
Period size: 46 Copynumber: 4.8 Consensus size: 46
64524059 TATGGGTAAG
64524069 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCA
1 GTGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGACT-TCATCTCA
* * *
64524117 -TAGCCGATGCATGTCCCAAACATGTCTTAAACT-GGCTTACATCTCGA
1 GT-GCCGATGCATGTCCCAGACATGTCTTACACTAGACTT-CATCTC-A
* *
64524164 G-GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTT-GTCTCA
1 GTGCCGATGCATGTCCCAGACATGTCTTACACTAG-ACTTCATCTCA
* * *
64524209 GTGCCGATGCCATGTCCTTA-ACATGGTCTTACATTAG-CTTC--CATAA
1 GTGCCGATG-CATGTCC-CAGACAT-GTCTTACACTAGACTTCATC-TCA
64524255 TGTGGCCGATGCATGTCCCAGACATGTCTTACACTAG
1 -GT-GCCGATGCATGTCCCAGACATGTCTTACACTAG
64524292 CACACACAAG
Statistics
Matches: 146, Mismatches: 14, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
45 4 0.03
46 73 0.50
47 40 0.27
48 29 0.20
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GTGCCGATGCATGTCCCAGACATGTCTTACACTAGACTTCATCTCA
Found at i:64524279 original size:94 final size:94
Alignment explanation
Indices: 64524071--64524294 Score: 262
Period size: 94 Copynumber: 2.4 Consensus size: 94
64524061 TGGGTAAGGT
64524071 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCATAGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTATCATCTCATAGCCGATGCATGTCCC
* *
64524134 AAACATGTCTTAAACTGGCTTACATCTCGAG
64 AAACATGTCTTAAACTAGCTTACATATCGAG
* * *
64524165 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACT-T-GTCTCAGT-GCCGATGCCATGTCCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTATCATCTCA-TAGCCGATG-CATGTCCC
* * * * *
64524227 TAACATGGTCTTACATTAGCTTCCATAAT-GTG
64 AAACAT-GTCTTAAACTAGCTTACAT-ATCGAG
64524259 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC
64524295 ACACAAGTGA
Statistics
Matches: 113, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
92 22 0.19
93 29 0.26
94 61 0.54
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTATCATCTCATAGCCGATGCATGTCCCAA
ACATGTCTTAAACTAGCTTACATATCGAG
Found at i:64527600 original size:17 final size:17
Alignment explanation
Indices: 64527563--64527620 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 17
64527553 TTATTCTTCA
64527563 AAAGGCAAAAATACCAAAAG
1 AAAGG-AAAAATA--AAAAG
64527583 AAAGGAAAAATAAAAAG
1 AAAGGAAAAATAAAAAG
*
64527600 AAAGGAAAAAGAAAAAG
1 AAAGGAAAAATAAAAAG
64527617 AAAG
1 AAAG
64527621 CTACATTCGG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
17 25 0.68
19 7 0.19
20 5 0.14
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAGGAAAAATAAAAAG
Found at i:64528923 original size:43 final size:43
Alignment explanation
Indices: 64528862--64529102 Score: 356
Period size: 43 Copynumber: 5.6 Consensus size: 43
64528852 TATATGTGAT
*
64528862 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGCC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
* * *
64528905 ATCAATATGTCATTATGTGTAGGACTACGTCTGGGATGTTGGC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
*
64528948 ATCAATATGTCATTATGTGTAAGACCACGTCTGGGATGTTGGC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
* *
64528991 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
* * **
64529034 ATCGATATGTAATTATGTGTAAGACCACGTTTGGGACATTGGC
1 ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
* * *
64529077 ATCGATATGTGATTACGTGTAAGACC
1 ATCAATATGTAATTATGTGTAAGACC
64529103 CTGTGTAACA
Statistics
Matches: 185, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 185 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
ATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGC
Found at i:64540637 original size:40 final size:40
Alignment explanation
Indices: 64540589--64540856 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
64540579 GCAAACACCT
* * *
64540589 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
64540629 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
64540669 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
64540709 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
64540749 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
64540789 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
64540829 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
64540857 TCCAATGCTC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:64545991 original size:33 final size:33
Alignment explanation
Indices: 64545945--64546008 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
64545935 GCAATATTAG
*
64545945 TGTGGGCCCTAGCCCAATGCTGTACAGTATCAA
1 TGTGGGCCCTAGCCCAATGCAGTACAGTATCAA
** * *
64545978 TGTGGGCTTTAGCCCATTTCAGTACAGTATC
1 TGTGGGCCCTAGCCCAATGCAGTACAGTATC
64546009 CAATATACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (33 bp):
TGTGGGCCCTAGCCCAATGCAGTACAGTATCAA
Found at i:64548988 original size:27 final size:27
Alignment explanation
Indices: 64548958--64549026 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
64548948 TTTACAAAAA
* *
64548958 TACTGAAATACCCTTGTAGGGTAGAAT
1 TACTAAAATACCCCTGTAGGGTAGAAT
*
64548985 TACTAAAATGCCCCTGTAGGGTAGAAT
1 TACTAAAATACCCCTGTAGGGTAGAAT
*
64549012 TACCAAAATACCCCT
1 TACTAAAATACCCCT
64549027 AGTTTGCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (27 bp):
TACTAAAATACCCCTGTAGGGTAGAAT
Found at i:64549039 original size:27 final size:27
Alignment explanation
Indices: 64549009--64549151 Score: 104
Period size: 27 Copynumber: 5.6 Consensus size: 27
64548999 TGTAGGGTAG
64549009 AATTACCAAAATACCCCTAGTTTGCAA
1 AATTACCAAAATACCCCTAGTTTGCAA
*
64549036 AATTACC-AAA-A----T--TTTACAA
1 AATTACCAAAATACCCCTAGTTTGCAA
* * * *
64549055 AATTACCAAAACACCCATGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGCAA
* * * *
64549082 AATTACCAAAATACCCTTGGCTTACAA
1 AATTACCAAAATACCCCTAGTTTGCAA
* **
64549109 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCCTAGTTTGCAA
* *
64549136 AATTACTAAAAAACCC
1 AATTACCAAAATACCC
64549152 TTGTAGGGTA
Statistics
Matches: 91, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
19 13 0.14
20 3 0.03
21 2 0.02
25 2 0.02
26 3 0.03
27 68 0.75
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGCAA
Found at i:64549116 original size:54 final size:54
Alignment explanation
Indices: 64549049--64549154 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
64549039 TACCAAAATT
** *
64549049 TTACAAAATTACCAAAACACCCATGGTTTGTAAAATTACCAAAATACCCTTGGC
1 TTACAAAATTACCAAAACACCCATAATTTGTAAAATTACCAAAAAACCCTTGGC
* * * *
64549103 TTACAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAAAACCCTTG
1 TTACAAAATTACCAAAACACCCATAATTTGTAAAATTACCAAAAAACCCTTG
64549155 TAGGGTAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (54 bp):
TTACAAAATTACCAAAACACCCATAATTTGTAAAATTACCAAAAAACCCTTGGC
Found at i:64549164 original size:26 final size:26
Alignment explanation
Indices: 64549135--64549221 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 26
64549125 CTAATTTGTG
* *
64549135 AAATTACTAAAAAACCCTTGTAGGGT
1 AAATTACTGAAATACCCTTGTAGGGT
**
64549161 AAATTA-TCGAAATACTATTGTAGGGT
1 AAATTACT-GAAATACCCTTGTAGGGT
*
64549187 AGAATTACTGAAATACCCTTGTGGGGT
1 A-AATTACTGAAATACCCTTGTAGGGT
64549214 AAAATTAC
1 -AAATTAC
64549222 CATTTTGCCC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.02
26 21 0.42
27 26 0.52
28 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (26 bp):
AAATTACTGAAATACCCTTGTAGGGT
Found at i:64550847 original size:40 final size:40
Alignment explanation
Indices: 64550732--64550821 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
64550722 AATGCCTCGT
* ** * *
64550732 ACACTAAGTGCCATACATAGCTGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCGC
64550772 ACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCGC
1 ACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCGC
64550812 ACACTAAGTG
1 ACACTAAGTG
64550822 ACACAATTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.22
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCGC
Found at i:64557290 original size:30 final size:30
Alignment explanation
Indices: 64557219--64557301 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
64557209 CTTTTGTTTC
* *
64557219 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
64557250 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
64557279 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
64557302 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:64557301 original size:18 final size:18
Alignment explanation
Indices: 64557252--64557307 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
64557242 CACTCTCAAA
* *
64557252 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
64557269 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
64557287 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
64557306 TT
1 TT
64557308 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:64557308 original size:12 final size:12
Alignment explanation
Indices: 64557277--64557301 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64557267 TTTTTCAATC
64557277 TCATTTTCTTTT
1 TCATTTTCTTTT
64557289 TCATTTTCTTTT
1 TCATTTTCTTTT
64557301 T
1 T
64557302 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:64557410 original size:6 final size:6
Alignment explanation
Indices: 64557401--64557432 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
64557391 TCATTTTCTT
64557401 CTTTTG CTTTTG CTTTTG CTTTT- CTTTT- CTTT
1 CTTTTG CTTTTG CTTTTG CTTTTG CTTTTG CTTT
64557433 GTTTTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.00, C:0.19, G:0.09, T:0.72
Consensus pattern (6 bp):
CTTTTG
Found at i:64560158 original size:9 final size:9
Alignment explanation
Indices: 64560144--64560168 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
64560134 TTGAGCTGGA
64560144 TGGAGCTCG
1 TGGAGCTCG
64560153 TGGAGCTCG
1 TGGAGCTCG
64560162 TGGAGCT
1 TGGAGCT
64560169 GGAAACGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.20, G:0.44, T:0.24
Consensus pattern (9 bp):
TGGAGCTCG
Found at i:64560487 original size:21 final size:21
Alignment explanation
Indices: 64560463--64560562 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 21
64560453 AAGTCTAGCT
*
64560463 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
64560484 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
* *
64560502 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
* *
64560523 GAAGC-C-CGAAG-G-TTAACT
1 GAAGCACAC-AAGTGCTAAACG
*
64560541 GAAGCACACAAGTGCTGAACG
1 GAAGCACACAAGTGCTAAACG
64560562 G
1 G
64560563 GAACCCGAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 20
0.66 0.11 0.22
Matches are distributed among these distances:
18 16 0.27
19 13 0.22
20 13 0.22
21 17 0.29
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:64560607 original size:39 final size:39
Alignment explanation
Indices: 64560445--64560584 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
64560435 ATCGTGATTT
* * *
64560445 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
64560484 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
64560523 GAAGCCCGAAGGTTAACTGAAGCACACAAGTGCTGAACGG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAC-G
64560563 GAA-CCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
64560585 TCATCAGAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 86 0.96
40 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:64561776 original size:21 final size:21
Alignment explanation
Indices: 64561752--64561793 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64561742 CTTTTTAATT
64561752 AATTGACTAACCAAACGTTAA
1 AATTGACTAACCAAACGTTAA
* * *
64561773 AATTGTCTAACGAAACTTTAA
1 AATTGACTAACCAAACGTTAA
64561794 TACTAACTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (21 bp):
AATTGACTAACCAAACGTTAA
Found at i:64565254 original size:21 final size:21
Alignment explanation
Indices: 64565230--64565333 Score: 85
Period size: 19 Copynumber: 5.2 Consensus size: 21
64565220 AAGTCTAGCT
*
64565230 GAAGCACATAAGTGCTAAATG
1 GAAGCACACAAGTGCTAAATG
* *
64565251 GAAGCA-AGAAG-GCTAACT-
1 GAAGCACACAAGTGCTAAATG
* * *
64565269 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAATG
* * *
64565290 GAAGCTC-GAAG-GCTAACT-
1 GAAGCACACAAGTGCTAAATG
64565308 GAAGCACACAAGTGCTAAATG
1 GAAGCACACAAGTGCTAAATG
64565329 GAAGC
1 GAAGC
64565334 CCGAAGGCTA
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
18 11 0.18
19 17 0.28
20 17 0.28
21 16 0.26
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.14
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAATG
Found at i:64565350 original size:39 final size:39
Alignment explanation
Indices: 64565212--64565351 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
64565202 ATTGTGATTT
* * *
64565212 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
** * * *
64565251 GAAGCAAGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
*
64565290 GAAGCTCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
*
64565329 GAAGCCCGAAGGCTAAGTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
64565352 TCATCAGAGC
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
Found at i:64569504 original size:49 final size:49
Alignment explanation
Indices: 64569432--64569625 Score: 203
Period size: 51 Copynumber: 3.9 Consensus size: 49
64569422 GTCGAAGCTA
* *
64569432 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
64569481 TCTGGTACACATAGTAGCCTGCACTTAGTGCTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * * *
64569531 TCTAATACACGTAGTAGCCTGCAGTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
64569579 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
64569626 TCACAATAGA
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.32
50 38 0.32
51 39 0.33
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:64569559 original size:50 final size:49
Alignment explanation
Indices: 64569441--64569618 Score: 180
Period size: 50 Copynumber: 3.6 Consensus size: 49
64569431 ATCTGGTACG
* * **
64569441 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACA
* *
64569490 CATAGTAGCCTGCACTTAGTGCTACACACGTGACCTCACCA-TCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACA
* * * *** *
64569540 CGTAGTAGCCTGCAGTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACA
64569591 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
64569619 TGCGACCTCA
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 30 0.28
50 38 0.36
51 35 0.33
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACA
Found at i:64569616 original size:101 final size:99
Alignment explanation
Indices: 64569443--64569629 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
64569433 CTGGTACGCA
* *
64569443 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
* *
64569508 GTGCTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
64569542 TAGTAGCCTGCAGTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
64569606 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
64569630 AATAGATCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.38
101 43 0.57
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:64572010 original size:20 final size:21
Alignment explanation
Indices: 64571970--64572015 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
64571960 GAGTGGGGGA
* *
64571970 AAATTTTGATTTTGTTTTACT
1 AAATTTAGATTTTGATTTACT
*
64571991 TAATTTAGATTTT-ATTTACT
1 AAATTTAGATTTTGATTTACT
64572011 AAATT
1 AAATT
64572016 ACCTATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (21 bp):
AAATTTAGATTTTGATTTACT
Found at i:64572041 original size:13 final size:13
Alignment explanation
Indices: 64572023--64572049 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64572013 ATTACCTATA
64572023 TAACCTTTATTAT
1 TAACCTTTATTAT
64572036 TAACCTTTATTAT
1 TAACCTTTATTAT
64572049 T
1 T
64572050 TACTAAATTA
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:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (13 bp):
TAACCTTTATTAT
Found at i:64575102 original size:15 final size:16
Alignment explanation
Indices: 64575072--64575102 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64575062 TAAAATGCCT
64575072 GCTTTTCGGCATTTTG
1 GCTTTTCGGCATTTTG
64575088 GCTTTTCGG-ATTTTG
1 GCTTTTCGGCATTTTG
64575103 TCGATCTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.06, C:0.16, G:0.26, T:0.52
Consensus pattern (16 bp):
GCTTTTCGGCATTTTG
Found at i:64575921 original size:8 final size:8
Alignment explanation
Indices: 64575881--64575943 Score: 51
Period size: 8 Copynumber: 7.8 Consensus size: 8
64575871 TTTCAGCCAG
*
64575881 AGAAGAAA
1 AGAAGAGA
64575889 AGAAGGAGA
1 AGAA-GAGA
64575898 A-AA-AGA
1 AGAAGAGA
*
64575904 A-AATAGA
1 AGAAGAGA
64575911 AGAAGAGA
1 AGAAGAGA
64575919 AGAAGAGAA
1 AGAAGAG-A
64575928 GAGAAGAGA
1 -AGAAGAGA
64575937 AGGAAGA
1 A-GAAGA
64575944 ATTCGGCACT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
6 6 0.13
7 4 0.09
8 19 0.40
9 11 0.23
10 7 0.15
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (8 bp):
AGAAGAGA
Found at i:64575927 original size:13 final size:13
Alignment explanation
Indices: 64575879--64575943 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
64575869 TTTTTCAGCC
*
64575879 AGAGAAGAAAAGA
1 AGAGAAGAAGAGA
* *
64575892 AGGAGAAAAAGAAA
1 A-GAGAAGAAGAGA
*
64575906 ATAGAAGAAGAGA
1 AGAGAAGAAGAGA
64575919 AGA-AGAGAAGAGA
1 AGAGA-AGAAGAGA
64575932 AGAGAAGGAAGA
1 AGAGAA-GAAGA
64575944 ATTCGGCACT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
12 1 0.02
13 24 0.59
14 16 0.39
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.02
Consensus pattern (13 bp):
AGAGAAGAAGAGA
Found at i:64578099 original size:48 final size:48
Alignment explanation
Indices: 64578043--64578136 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
64578033 TTAGAGGTTA
* *
64578043 CATTGAGTTGGCTTCAAGCCATGATATTGACACTTCGGGTGTGAGATT
1 CATTGAGTTGGATTCAAGCCATGATATTGACACTTAGGGTGTGAGATT
* *
64578091 CATTGAGTTGGATTCAGGCCATGATATTGGCACTTAGGGTGTGAGA
1 CATTGAGTTGGATTCAAGCCATGATATTGACACTTAGGGTGTGAGA
64578137 CTTCCGAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (48 bp):
CATTGAGTTGGATTCAAGCCATGATATTGACACTTAGGGTGTGAGATT
Found at i:64579125 original size:26 final size:26
Alignment explanation
Indices: 64579096--64579150 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
64579086 TTGAGAAGTG
64579096 ATGAAAAATTAAGTATATGAAACTAA
1 ATGAAAAATTAAGTATATGAAACTAA
64579122 ATGAAAAATTAAGTATATGAAACTAA
1 ATGAAAAATTAAGTATATGAAACTAA
64579148 ATG
1 ATG
64579151 CAATGATCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (26 bp):
ATGAAAAATTAAGTATATGAAACTAA
Found at i:64591496 original size:46 final size:46
Alignment explanation
Indices: 64591446--64591618 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
64591436 TGGTTGAGCA
* *
64591446 TCCGAACTCGTCGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
64591492 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
64591537 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
64591585 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
64591619 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64591602 original size:93 final size:93
Alignment explanation
Indices: 64591443--64591613 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
64591433 GGATGGTTGA
* * *
64591443 GCATCCGAACTCGTCGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
64591508 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
64591536 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
64591601 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
64591614 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:64599133 original size:27 final size:26
Alignment explanation
Indices: 64599095--64599145 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
64599085 CGAGGCTGCC
*
64599095 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
*
64599121 AGATATATGTGACGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
64599146 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:64601476 original size:27 final size:26
Alignment explanation
Indices: 64601443--64601562 Score: 132
Period size: 27 Copynumber: 4.5 Consensus size: 26
64601433 AGGGGCAAAA
* *
64601443 TGGTAATTTTACCCCACAAGGGTATCT
1 TGGTAATTCTACCCTACAAGGGTAT-T
* *
64601470 TGATAATTCTACCCTACAGGGGTATT
1 TGGTAATTCTACCCTACAAGGGTATT
* * *
64601496 TCGGTAATTCTATCCTATAGGGGTATTT
1 T-GGTAATTCTACCCTACAAGGGTA-TT
64601524 TGGTAATTCTACCCTACAAGGGTATT
1 TGGTAATTCTACCCTACAAGGGTATT
*
64601550 TCAGTAATTCTAC
1 T-GGTAATTCTAC
64601563 AAATTATCCA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
26 5 0.06
27 71 0.90
28 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
TGGTAATTCTACCCTACAAGGGTATT
Found at i:64601502 original size:54 final size:54
Alignment explanation
Indices: 64601444--64601562 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
64601434 GGGGCAAAAT
* *
64601444 GGTAATTTTACCCCACAAGGGTATCTTGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATCTTGATAATTCTACCCTACAAGGGTATTTC
* * * * * *
64601498 GGTAATTCTATCCTATAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATCTTGATAATTCTACCCTACAAGGGTATTTC
*
64601552 AGTAATTCTAC
1 GGTAATTCTAC
64601563 AAATTATCCA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCCACAAGGGTATCTTGATAATTCTACCCTACAAGGGTATTTC
Found at i:64604524 original size:115 final size:115
Alignment explanation
Indices: 64604316--64604523 Score: 355
Period size: 115 Copynumber: 1.8 Consensus size: 115
64604306 CACCCTTTTC
* *
64604316 TTTTCCAATTTTTTTTGTTGGTATATTTTTTTTATAAACTACTAAATTAACAATTACAATGTAAT
1 TTTTCCAATTTTTTTTGTTGGTATATTTTTTTTATAAACTACTAAAATAACAATTACAATATAAT
64604381 ACTCAAATTTCACGAAGTAAAATTTTTTTCTTTTTTCTTTACTCTTTTAT
66 ACTCAAATTTCACGAAGTAAAATTTTTTTCTTTTTTCTTTACTCTTTTAT
*
64604431 TTTTTCAATTTTTTTTGTTGGTATATTTTTTTTATAAACTACTAAAATAACAATTACAATATAAT
1 TTTTCCAATTTTTTTTGTTGGTATATTTTTTTTATAAACTACTAAAATAACAATTACAATATAAT
** *
64604496 ACTTGAATTTTACGAAG-AAAATTTTTTT
66 ACTCAAATTTCACGAAGTAAAATTTTTTT
64604524 TACGAATCTA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
114 11 0.13
115 76 0.87
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (115 bp):
TTTTCCAATTTTTTTTGTTGGTATATTTTTTTTATAAACTACTAAAATAACAATTACAATATAAT
ACTCAAATTTCACGAAGTAAAATTTTTTTCTTTTTTCTTTACTCTTTTAT
Found at i:64604720 original size:20 final size:20
Alignment explanation
Indices: 64604666--64604722 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
64604656 GAGCTGGAGT
* *
64604666 TGAGCTGGATGTGAACTTGT
1 TGAGCTGGATGTGAGCTTGC
**
64604686 TGAGCTGGACCTGAGCTTGC
1 TGAGCTGGATGTGAGCTTGC
*
64604706 TGAGCTGGTTGTGAGCT
1 TGAGCTGGATGTGAGCT
64604723 GGACGAGCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.16, C:0.16, G:0.37, T:0.32
Consensus pattern (20 bp):
TGAGCTGGATGTGAGCTTGC
Found at i:64607414 original size:39 final size:40
Alignment explanation
Indices: 64607319--64607580 Score: 330
Period size: 39 Copynumber: 6.7 Consensus size: 40
64607309 TTGAATGATG
*
64607319 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
64607357 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
64607398 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
64607437 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
64607476 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
*
64607516 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
64607554 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
64607581 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 9, Indels: 21
0.87 0.04 0.09
Matches are distributed among these distances:
38 2 0.01
39 127 0.63
40 62 0.31
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:64615558 original size:40 final size:40
Alignment explanation
Indices: 64615336--64615596 Score: 292
Period size: 39 Copynumber: 6.7 Consensus size: 40
64615326 TTGAATGATG
*
64615336 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* * *
64615375 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATAC-AAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
64615414 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
64615453 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
64615492 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
64615531 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
64615572 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64615597 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
38 21 0.10
39 116 0.58
40 52 0.26
41 10 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:64615618 original size:79 final size:79
Alignment explanation
Indices: 64615388--64615629 Score: 237
Period size: 78 Copynumber: 3.1 Consensus size: 79
64615378 GGACTAAGAT
* * * **
64615388 CCGAAGGCATTTGTGCAAGATAC-AATTCCGGGCTAAGCTCGAAGGCATTTGTGCGAGAT-ACTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACTA
* * *
64615451 ATTCCGGGCT-AAGC
65 AATCCGGGTTAAATC
* * ** *
64615465 TCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
64615530 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
64615544 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
64615606 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
64615623 CCGAAGG
1 CCGAAGG
64615630 TACGTGATTT
Statistics
Matches: 142, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
77 22 0.15
78 48 0.34
79 47 0.33
80 25 0.18
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:64617555 original size:94 final size:92
Alignment explanation
Indices: 64617302--64617572 Score: 240
Period size: 94 Copynumber: 2.8 Consensus size: 92
64617292 TCCATCAAGT
* * * * **
64617302 CGATGCCATGTCCTAGACATGGTCTTACATTGACTATCGAAATCG-AGGCCGACGCGATGTCCCA
1 CGATGCCACGTCCCAGACATGGTCTTACACTGAC-A-C-ATATCGTA-GCCGATAC-ATGTCCCA
* * * **
64617366 AACATGGTCTTACATTAGCTCTCGCATATCCGTGC
61 GACAT-GTCTTACACTAGCTCT--CATTTCAATGC
** * * *
64617401 TAATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCTTAGCCGATACATGTCCCAGACAT
1 CGATGCCACGTCCCAGACATGGTCTTACACTGACACATATCGTAGCCGATACATGTCCCAGACAT
*
64617466 GTCTTAGACTAGCTCTCATTTCAATGC
66 GTCTTACACTAGCTCTCATTTCAATGC
* * * *
64617493 CGATGCCACGTCCCAGACATGGTCTTACACTGGCTCACATAAT-GTGGCTGATGCATGTCCCAGA
1 CGATGCCACGTCCCAGACATGGTCTTACACT-G-ACACAT-ATCGTAGCCGATACATGTCCCAGA
64617557 CATGTCTTACACTAGC
63 CATGTCTTACACTAGC
64617573 ATACAAATAA
Statistics
Matches: 143, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
92 36 0.25
93 1 0.01
94 51 0.36
95 13 0.09
96 9 0.06
97 2 0.01
98 1 0.01
99 30 0.21
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (92 bp):
CGATGCCACGTCCCAGACATGGTCTTACACTGACACATATCGTAGCCGATACATGTCCCAGACAT
GTCTTACACTAGCTCTCATTTCAATGC
Found at i:64624002 original size:49 final size:47
Alignment explanation
Indices: 64623885--64624195 Score: 174
Period size: 46 Copynumber: 6.6 Consensus size: 47
64623875 GAATGTCGAT
* ** * * *
64623885 GCCATGTCCCAGACATGGTCTTACCCTGGCTCATCTATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTCATCAATCAAGCCGAC
64623932 GCCATGTCCCAGACATGGTCTTACACTAACT-ATCGAAATCAAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTAACTCATC--AATCAA-GCCGAC
* * ** * *
64623981 GCCATGTTCCAGACATGGTCTTACACTAGCTC-TCGCATATTCGTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTCAT--CA-A-TCAAGCCGAC
* * * * **
64624031 GCCATGTCCCAGAAATGGTCTTACACTGACACATC-TTGTAGCCGA-
1 GCCATGTCCCAGACATGGTCTTACACTAACTCATCAATCAAGCCGAC
** * * * *
64624076 TACATGTCCCAGACAT-GTCTTACACTGACTTACATC--TCGAGGCAGAT
1 GCCATGTCCCAGACATGGTCTTACACTAAC-T-CATCAATC-AAGCCGAC
* ** * *
64624123 G-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGCTTCAATACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTCATC-AATCAA-GCCGAC
*
64624169 GCCATGTCCAAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
64624196 GGCTCACATA
Statistics
Matches: 208, Mismatches: 37, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 14 0.07
45 16 0.08
46 48 0.23
47 41 0.20
48 15 0.07
49 36 0.17
50 32 0.15
51 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTAACTCATCAATCAAGCCGAC
Found at i:64624170 original size:46 final size:47
Alignment explanation
Indices: 64623876--64624200 Score: 215
Period size: 47 Copynumber: 6.9 Consensus size: 47
64623866 TGTGGGGTAG
* * *
64623876 AATGTCGATGCCATGTCCCAGACATGGTCTTACCCTGGCTCAT-CTATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCCT-TC
* * * **
64623924 AA-GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--CTTC
* * *
64623972 AAGGCCGACGCCATGTTCCAGACATGGTCTTACACTAGCTCTCGCATATTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-C---TTC
* * * * *
64624023 -GTGTCGATGCCATGTCCCAGAAATGGTCTTACACT-GACACAT-CTTG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTC-TCCTTC
* * *
64624069 TA-GCCGAT-ACATGTCCCAGACAT-GTCTTACACT-GACT-TACATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCT-CCT-TC
* * *
64624114 GAGGCAGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGCTTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-CTTC
* * *
64624160 AATACCGATGCCATGTCCAAGACATGGTCTTACACTGGCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
64624201 ACATAATGTG
Statistics
Matches: 219, Mismatches: 38, Indels: 40
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.00
44 14 0.06
45 15 0.07
46 48 0.22
47 50 0.23
48 20 0.09
49 37 0.17
50 31 0.14
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCTTC
Found at i:64624215 original size:140 final size:142
Alignment explanation
Indices: 64623881--64624242 Score: 375
Period size: 140 Copynumber: 2.5 Consensus size: 142
64623871 GGTAGAATGT
* *
64623881 CGATGCCATGTCCCAGACATGGTCTTACCCTGGCTCATCTATCAA-GT--CGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-C-AT-AATGTGCCGAT-ACATGTCCCA
* *
64623943 GACATGGTCTTACACTAACTATCGAAATCAAGGCCGACGCCATGTTCCAGACATGGTCTTACACT
62 GACAT-GTCTTACACTAACTATCGAAATCAAGGCAGACGCCATGTCCCAGACATGGTCTTACACT
* **
64624008 AGCTCTCGCATATTCGTGT
126 AGCTCTCGC--ATTCATAC
* * **
64624027 CGATGCCATGTCCCAGAAATGGTCTTACACT-G-ACACATCTTGTAGCCGATACATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGT-GCCGATACATGTCCCAGAC
* ** * *
64624090 ATGTCTTACACTGACT-TAC-ATCTCGAGGCAGATG-CATGTCCCAGACAT-GTCTTACACTAGC
65 ATGTCTTACACTAACTAT-CGAAATCAAGGCAGACGCCATGTCCCAGACATGGTCTTACACTAGC
64624151 TCTCGC-TTCAATAC
129 TCTCGCATTC-ATAC
* * * *
64624165 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCATTTCCTAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGT-GCCGATACATGTCCCAGAC
64624230 ATGTCTTACACTA
65 ATGTCTTACACTA
64624243 GCACACAAAT
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
137 3 0.02
138 30 0.16
139 1 0.01
140 55 0.30
141 13 0.07
142 15 0.08
143 15 0.08
144 16 0.09
145 5 0.03
146 29 0.16
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (142 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGCCGATACATGTCCCAGACA
TGTCTTACACTAACTATCGAAATCAAGGCAGACGCCATGTCCCAGACATGGTCTTACACTAGCTC
TCGCATTCATAC
Found at i:64627028 original size:9 final size:9
Alignment explanation
Indices: 64627004--64627070 Score: 62
Period size: 9 Copynumber: 7.0 Consensus size: 9
64626994 CATGGGATTT
*
64627004 TGATATACA
1 TGATATGCA
64627013 TGATATGCA
1 TGATATGCA
64627022 TGATATGCACA
1 TGATATG--CA
* *
64627033 TGATCTGTA
1 TGATATGCA
64627042 TGATATGCACA
1 TGATATG--CA
*
64627053 TGATATGTA
1 TGATATGCA
64627062 TGATATGCA
1 TGATATGCA
64627071 CATGATGTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 31 0.66
11 16 0.34
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (9 bp):
TGATATGCA
Found at i:64627035 original size:20 final size:20
Alignment explanation
Indices: 64627010--64627076 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
64627000 ATTTTGATAT
*
64627010 ACATGATATGCATGATATGC
1 ACATGATATGTATGATATGC
*
64627030 ACATGATCTGTATGATATGC
1 ACATGATATGTATGATATGC
64627050 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
64627070 ACATGAT
1 ACATGAT
64627077 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:64627090 original size:40 final size:39
Alignment explanation
Indices: 64627010--64627090 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 39
64627000 ATTTTGATAT
*
64627010 ACATGATATGCATGATATGCACATGATCTGTATGATATGC
1 ACATGATATGCATGATATGCACATGA-CTGTATCATATGC
*
64627050 ACATGATATGTATGATATGCACATGA-TGTATTCATAATGC
1 ACATGATATGCATGATATGCACATGACTGTA-TCAT-ATGC
64627090 A
1 A
64627091 TTGGGTTGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 30 0.81
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (39 bp):
ACATGATATGCATGATATGCACATGACTGTATCATATGC
Found at i:64627183 original size:25 final size:25
Alignment explanation
Indices: 64627122--64627231 Score: 125
Period size: 25 Copynumber: 4.4 Consensus size: 25
64627112 AGAGGAAGTG
*
64627122 CAAAAGGGCTTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTTGCCCCAGTTTAT
64627147 CGAAAAGGGCTTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTTGCCCCAGTTTAT
* ** *
64627173 CAAAAGAGCTTTTGTTCCAATTTAT
1 CAAAAGGGCTTTTGCCCCAGTTTAT
*
64627198 CAAAAGGGC-TTTACCCCAG-TTAT
1 CAAAAGGGCTTTTGCCCCAGTTTAT
*
64627221 TAAAAGAGGCT
1 CAAAAG-GGCT
64627232 AGGCCTCCAG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 9 0.13
24 9 0.13
25 29 0.41
26 24 0.34
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (25 bp):
CAAAAGGGCTTTTGCCCCAGTTTAT
Found at i:64631340 original size:27 final size:26
Alignment explanation
Indices: 64631296--64631347 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64631286 CTCGTTGCAA
*
64631296 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
64631323 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
64631348 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:64635697 original size:40 final size:40
Alignment explanation
Indices: 64635642--64635793 Score: 216
Period size: 40 Copynumber: 3.8 Consensus size: 40
64635632 ATAACCACAA
* * * *
64635642 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
64635682 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
64635722 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
64635762 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
64635794 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:64641851 original size:27 final size:26
Alignment explanation
Indices: 64641807--64641858 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64641797 CTCGTTGCAA
*
64641807 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
64641834 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
64641859 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:64641937 original size:27 final size:26
Alignment explanation
Indices: 64641897--64641956 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
64641887 CCACATATAT
* *
64641897 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
64641923 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
64641950 ATATCTG
1 ATATCTG
64641957 GCAACCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:64644161 original size:12 final size:12
Alignment explanation
Indices: 64644124--64644162 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
64644114 CACACGCTTA
64644124 TGTGCTAGGCTG
1 TGTGCTAGGCTG
*
64644136 TGT-CTAGGCCG
1 TGTGCTAGGCTG
*
64644147 TGTGTTAGGCTG
1 TGTGCTAGGCTG
64644159 TGTG
1 TGTG
64644163 GAAACTGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.08, C:0.15, G:0.41, T:0.36
Consensus pattern (12 bp):
TGTGCTAGGCTG
Found at i:64661387 original size:13 final size:13
Alignment explanation
Indices: 64661369--64661393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64661359 CTTAAGTGAA
64661369 ATTATATATATAT
1 ATTATATATATAT
64661382 ATTATATATATA
1 ATTATATATATA
64661394 ATGAAATTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATATATATAT
Found at i:64662723 original size:39 final size:39
Alignment explanation
Indices: 64662596--64662720 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
64662586 TATGAGATTG
64662596 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
64662635 AAAATATCCGGACATGAGATCCACAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * **
64662674 AATATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
64662713 AAAATATC
1 AAAATATC
64662721 TGGGTTAAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:64676181 original size:47 final size:43
Alignment explanation
Indices: 64676099--64676231 Score: 131
Period size: 46 Copynumber: 2.9 Consensus size: 43
64676089 GTAACCCGCC
* * *
64676099 CATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTA
1 CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A--TA
** * *
64676145 CATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CATAACT-GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CATA
*
64676192 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
64676232 CAAATATCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.04
46 32 0.44
47 31 0.43
49 4 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCATA
Found at i:64676246 original size:46 final size:44
Alignment explanation
Indices: 64676103--64676246 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
64676093 CCCGCCCATA
* * *
64676103 AGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
64676152 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
64676195 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
64676242 AGTGA
1 AGTGA
64676247 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:64681006 original size:40 final size:40
Alignment explanation
Indices: 64680951--64681167 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
64680941 TGGATGATAA
* * *
64680951 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
64680991 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64681031 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64681071 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
64681111 CCGGGCTATGTCCCGAAGGCA-TTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
64681150 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
64681168 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 130 0.81
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64692597 original size:46 final size:46
Alignment explanation
Indices: 64692547--64692722 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
64692537 TGGTTGAGCA
*
64692547 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
64692593 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
64692638 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
64692686 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64692723 GCGGGTTATA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64692703 original size:93 final size:93
Alignment explanation
Indices: 64692544--64692715 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
64692534 GGATGGTTGA
* * *
64692544 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
64692609 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
64692637 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
64692702 TGAGTTCGAGTTCG
66 TGAGTCCGAGTTCG
64692716 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:64695422 original size:40 final size:39
Alignment explanation
Indices: 64695377--64695640 Score: 161
Period size: 39 Copynumber: 6.7 Consensus size: 39
64695367 CACCAACACA
* *
64695377 AAGCCTACGGGACTTTAAG-CCTGGATATAGTACCAGTACG
1 AAGCCTAC-AGACCTTAAGTCC-GGATATAGTACCAGTACG
*
64695417 AAGCCTGCAGACCTTAAGTCCGGATATAGTACCAGTACG
1 AAGCCTACAGACCTTAAGTCCGGATATAGTACCAGTACG
* * * * * * *
64695456 AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTACAGACCTTAAGTCCGGATATAGTACCAGTACG
*** * * * * * * * * *
64695495 AAGCCTGTGGGTCTTTAAGCCCTGATACAATTCCAGCATG
1 AAGCCT-ACAGACCTTAAGTCCGGATATAGTACCAGTACG
* * * * * *
64695535 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTACAGACCTTAAGTCCGGATATAGTACCAGTACG
* * * * * * *
64695574 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCCGCACG
1 AAGCCTACAGACCTTAAGTCCGGATATAGTACCAGTACG
* *
64695613 AAGCCTGCGGACCTTAAGTCCGGATATA
1 AAGCCTACAGACCTTAAGTCCGGATATA
64695641 CATCAAATAT
Statistics
Matches: 196, Mismatches: 26, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
39 156 0.80
40 40 0.20
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (39 bp):
AAGCCTACAGACCTTAAGTCCGGATATAGTACCAGTACG
Found at i:64695442 original size:39 final size:39
Alignment explanation
Indices: 64695409--64695638 Score: 325
Period size: 39 Copynumber: 5.9 Consensus size: 39
64695399 GGATATAGTA
* * * * *
64695409 CCAGTACGAAGCCTGCAGACCTTAAGTCCGGATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* *
64695448 CCAGTACGAAGCCTGCGGATCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * *
64695487 CCAGCACGAAGCCTGTGGGTCTTTAAGCCCTGATACAATT
1 CCAGCACGAAGCCTG-CGGACCTTAAGTCCGGATACAATT
*
64695527 CCAGCATGAAGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
64695566 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
64695605 CCCGCACGAAGCCTGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
64695639 TACATCAAAT
Statistics
Matches: 170, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 138 0.81
40 32 0.19
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:64695551 original size:79 final size:78
Alignment explanation
Indices: 64695409--64695638 Score: 316
Period size: 79 Copynumber: 2.9 Consensus size: 78
64695399 GGATATAGTA
* * * * * * * *
64695409 CCAGTACGAAGCCTGCAGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGATCTTAAG
1 CCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAG
64695474 TCCGGATACAATT
66 TCCGGATACAATT
* * * * *
64695487 CCAGCACGAAGCCTGTGGGTCTTTAAGCCCTGATACAATTCCAGCATGAAGCCTGCGGACCTTAA
1 CCAGCACGAAGCCTG-CGGACCTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAA
64695552 GTCCGGATACAATT
65 GTCCGGATACAATT
* *
64695566 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCCGCACGAAGCCTGCGGACCTTAAG
1 CCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAG
64695631 TCCGGATA
66 TCCGGATA
64695639 TACATCAAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
78 65 0.50
79 66 0.50
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.20
Consensus pattern (78 bp):
CCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAG
TCCGGATACAATT
Found at i:64698552 original size:27 final size:27
Alignment explanation
Indices: 64698510--64698614 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
64698500 AGGAAGCGTC
*
64698510 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
64698537 CTGGTGGCTCTACCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
64698564 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
64698592 CTGGTGACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
64698615 ATTCTGGCAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.04
27 46 0.69
28 18 0.27
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:64698620 original size:54 final size:54
Alignment explanation
Indices: 64698510--64698621 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
64698500 AGGAAGCGTC
* * *
64698510 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTATT
* * **
64698564 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTATT
64698618 CTGG
1 CTGG
64698622 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTATT
Found at i:64699815 original size:8 final size:8
Alignment explanation
Indices: 64699784--64699834 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
64699774 ATGAATCGGC
64699784 AAAAGCCG
1 AAAAGCCG
* *
64699792 AAATG-CT
1 AAAAGCCG
64699799 AAAATGCCG
1 AAAA-GCCG
64699808 AAAAGCCG
1 AAAAGCCG
* *
64699816 AAATGCCA
1 AAAAGCCG
64699824 AAAAGCCG
1 AAAAGCCG
64699832 AAA
1 AAA
64699835 GTTTGGCTAG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
7 4 0.12
8 24 0.73
9 5 0.15
ACGTcount: A:0.51, C:0.22, G:0.20, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:64699816 original size:24 final size:24
Alignment explanation
Indices: 64699784--64699834 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
64699774 ATGAATCGGC
* *
64699784 AAAAGCCGAAATGCTAAAATGCCG
1 AAAAGCCGAAATGCCAAAAAGCCG
64699808 AAAAGCCGAAATGCCAAAAAGCCG
1 AAAAGCCGAAATGCCAAAAAGCCG
64699832 AAA
1 AAA
64699835 GTTTGGCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.22, G:0.20, T:0.08
Consensus pattern (24 bp):
AAAAGCCGAAATGCCAAAAAGCCG
Found at i:64699819 original size:16 final size:16
Alignment explanation
Indices: 64699800--64699834 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
64699790 CGAAATGCTA
*
64699800 AAATGCCGAAAAGCCG
1 AAATGCCAAAAAGCCG
64699816 AAATGCCAAAAAGCCG
1 AAATGCCAAAAAGCCG
64699832 AAA
1 AAA
64699835 GTTTGGCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.23, G:0.20, T:0.06
Consensus pattern (16 bp):
AAATGCCAAAAAGCCG
Found at i:64700089 original size:28 final size:28
Alignment explanation
Indices: 64700045--64700159 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
64700035 GTGAGCATGA
* * *
64700045 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
64700073 ATATAAATGTGATTGGGGCCTAATTGGCC
1 ATATAAATGTGATT-GGGCCTAATGGGCC
* *
64700102 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
64700131 ATATAAATATGAATGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
64700159 A
1 A
64700160 GATACAGGTA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
28 27 0.37
29 44 0.60
30 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:64700130 original size:58 final size:57
Alignment explanation
Indices: 64700058--64700168 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
64700048 TGAATGTGAC
* * * *
64700058 TGGGCCTAACGGGCCATATAAATGTGATTGGGGCCTAATTGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGAAT-GGGCCTAATGGGCCAGATACAGGTGATT
* *
64700116 TGGGCCTAATGGGCCATATAAATATGAATGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGAATGGGCCTAATGGGCCAGATACAGGT
64700169 ATGTGAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.45
58 26 0.55
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGAATGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:64704486 original size:28 final size:29
Alignment explanation
Indices: 64704454--64704508 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
64704444 CATGAATATG
64704454 AATGTGA-ATGGGCCTAATGGGCCATAAA
1 AATGTGATATGGGCCTAATGGGCCATAAA
*
64704482 AATGTGATTTGGGCCTAATGGGCCATA
1 AATGTGATATGGGCCTAATGGGCCATA
64704509 TGAACATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
AATGTGATATGGGCCTAATGGGCCATAAA
Found at i:64712716 original size:27 final size:26
Alignment explanation
Indices: 64712660--64712716 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
64712650 CAACCTTAAC
* * *
64712660 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
64712686 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
64712713 CCTA
1 CCTA
64712717 TAAAGGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:64715319 original size:40 final size:40
Alignment explanation
Indices: 64715242--64715417 Score: 284
Period size: 40 Copynumber: 4.4 Consensus size: 40
64715232 AAACCAAGTA
* *
64715242 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
64715281 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
64715321 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
64715361 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
64715401 CCTTCGGGACGTAGCCC
1 CCTTCGGGACTTAGCCC
64715418 AATGCCTTCG
Statistics
Matches: 129, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
39 14 0.11
40 115 0.89
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:64715423 original size:21 final size:21
Alignment explanation
Indices: 64715397--64715438 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
64715387 AACTCGCACA
64715397 AATGCCTTCGGGACGTAGCCC
1 AATGCCTTCGGGACGTAGCCC
*
64715418 AATGCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACGTAGCCC
64715439 GGTTATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.21
Consensus pattern (21 bp):
AATGCCTTCGGGACGTAGCCC
Found at i:64715452 original size:61 final size:61
Alignment explanation
Indices: 64715357--64715478 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
64715347 AACTCGCACA
64715357 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACGTAGCCC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACGTAGCCC
* * *
64715418 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACGTAGCCC
64715479 GGTTATCATC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (61 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACGTAGCCC
Found at i:64722827 original size:40 final size:40
Alignment explanation
Indices: 64722763--64722953 Score: 253
Period size: 40 Copynumber: 4.8 Consensus size: 40
64722753 CAGATGATAA
* * *
64722763 CGAAGGCATTCGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
64722803 CGAAGGCATTTGTGCGAGTTACTA-ATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAT-CCGGGCTAAGTCC
*
64722843 CGAAAGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
64722883 CGAAGGCATTTATGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
** *
64722923 CGAAGGTGTTTGAGCGAG-TAGCTATATCCGG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGG
64722954 TTAAAACCCG
Statistics
Matches: 137, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 132 0.96
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:64729536 original size:40 final size:40
Alignment explanation
Indices: 64729459--64729720 Score: 402
Period size: 40 Copynumber: 6.6 Consensus size: 40
64729449 AAACCAAGTA
* * *
64729459 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
64729498 CCTTCGAGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
64729538 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
64729578 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATA
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
64729618 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
64729658 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
64729698 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
64729721 CATCCGAATA
Statistics
Matches: 208, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.06
40 195 0.94
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:64732613 original size:19 final size:18
Alignment explanation
Indices: 64732576--64732619 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
64732566 GTACATACAG
64732576 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
64732593 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
64732612 TACTAATT
1 TAATAATT
64732620 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:64761618 original size:103 final size:104
Alignment explanation
Indices: 64761439--64761703 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 104
64761429 AACCGTTATT
* * * *
64761439 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
64761504 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
64761542 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
64761607 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* * **
64761646 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGTACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
64761704 TTATGTACAA
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 65 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:64762065 original size:30 final size:29
Alignment explanation
Indices: 64762031--64762095 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
64762021 TAATCCACCA
64762031 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
64762061 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
64762091 CCCAA
1 CCCAA
64762096 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:64762069 original size:31 final size:30
Alignment explanation
Indices: 64762038--64762095 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
64762028 CCACCCAACT
64762038 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
64762068 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
64762096 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:64768990 original size:26 final size:26
Alignment explanation
Indices: 64768960--64769009 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
64768950 CCACTTAATC
*
64768960 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
64768986 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
64769010 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTT
Found at i:64769156 original size:104 final size:102
Alignment explanation
Indices: 64768927--64769190 Score: 411
Period size: 104 Copynumber: 2.6 Consensus size: 102
64768917 AACCGTTATT
* * * *
64768927 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGAA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
** *
64768992 TCAGCACATAGCAACCCCCTTTTTATTTCAGAGATAC
66 TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
*
64769029 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT-GGGGGA
64769094 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 ATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATAC
* **
64769133 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
64769191 TTATGTACAA
Statistics
Matches: 148, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
102 54 0.36
103 28 0.19
104 66 0.45
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (102 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
Found at i:64769558 original size:29 final size:29
Alignment explanation
Indices: 64769525--64769581 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
64769515 CCACCCAACT
64769525 TTTTGAAAAATTACAATTTTGCCCCCAAA
1 TTTTGAAAAATTACAATTTTGCCCCCAAA
* * * *
64769554 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
64769582 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (29 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAA
Found at i:64778118 original size:39 final size:39
Alignment explanation
Indices: 64777914--64778136 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
64777904 TTGAATGCTG
* * * * * *
64777914 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
64777954 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
64777993 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
64778034 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * *
64778074 TCCGGGTTATGTCCCGAAGGCAATGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
64778113 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
64778137 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 39 0.25
40 104 0.68
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:64783632 original size:39 final size:39
Alignment explanation
Indices: 64783428--64783650 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
64783418 TTGAATGCTG
* * * * * *
64783428 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
64783468 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
64783507 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
64783548 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * *
64783588 TCCGGGTTATGTCCCGAAGGCAATGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
64783627 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
64783651 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 39 0.25
40 104 0.68
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:64788867 original size:43 final size:42
Alignment explanation
Indices: 64788732--64788869 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 42
64788722 TGAAATATCG
* * *
64788732 TGTAAGACCCTGTCTAGGACACAGGCTTCGAT-TTAAGATTTACG
1 TGTAAGA-CCTGTCTAGGACACAGGCATCGATATT--GAATTACA
* * * *
64788776 TGTAAGACCATGTTTGGGACATC-GACATC-ATATCTG-ATTTCA
1 TGTAAGACC-TGTCTAGGACA-CAGGCATCGATAT-TGAATTACA
*
64788818 TGTAAGACACTGTCTAGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGAC-CTGTCTAGGACACAGGCATCGATATTGAATTACA
64788861 TGTAAGACC
1 TGTAAGACC
64788870 ACGTCTGGGA
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
42 28 0.38
43 23 0.31
44 21 0.28
45 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (42 bp):
TGTAAGACCTGTCTAGGACACAGGCATCGATATTGAATTACA
Done.