Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 63 of 253
Found at i:17805540 original size:21 final size:22
Alignment explanation
Indices: 17805496--17805542 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
17805486 ATAAACCATT
*
17805496 AACCTTGAACCCCTAACCCTTA
1 AACCTTAAACCCCTAACCCTTA
17805518 AACCTTAAACCCC-AACCCTTA
1 AACCTTAAACCCCTAACCCTTA
17805539 AACC
1 AACC
17805543 ATAATCCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.36, C:0.43, G:0.02, T:0.19
Consensus pattern (22 bp):
AACCTTAAACCCCTAACCCTTA
Found at i:17805730 original size:7 final size:7
Alignment explanation
Indices: 17805718--17805871 Score: 67
Period size: 7 Copynumber: 21.7 Consensus size: 7
17805708 ACTAATTAAT
17805718 CTAAACC
1 CTAAACC
17805725 CTAAACC
1 CTAAACC
* *
17805732 CTTAATCT
1 C-TAAACC
*
17805740 CTAATCC
1 CTAAACC
17805747 CTAAACC
1 CTAAACC
*
17805754 ATAAACC
1 CTAAACC
*
17805761 CTAAATC
1 CTAAACC
*
17805768 CTAAAAC
1 CTAAACC
**
17805775 AAAAACC
1 CTAAACC
*
17805782 CTGAACCC
1 CT-AAACC
*
17805790 CT-AACT
1 CTAAACC
* *
17805796 TTAACCC
1 CTAAACC
*
17805803 CTAACCC
1 CTAAACC
*
17805810 CTAAGCC
1 CTAAACC
*
17805817 ATAAACC
1 CTAAACC
* *
17805824 CCAATCC
1 CTAAACC
*
17805831 TTAAACC
1 CTAAACC
* *
17805838 ATAATCC
1 CTAAACC
17805845 CTAAACC
1 CTAAACC
*
17805852 CATAATCC
1 C-TAAACC
*
17805860 ATAAACC
1 CTAAACC
*
17805867 TTAAA
1 CTAAA
17805872 ATAGTAACTC
Statistics
Matches: 106, Mismatches: 37, Indels: 8
0.70 0.25 0.05
Matches are distributed among these distances:
6 3 0.03
7 87 0.82
8 16 0.15
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:17805770 original size:21 final size:21
Alignment explanation
Indices: 17805718--17805929 Score: 115
Period size: 21 Copynumber: 10.0 Consensus size: 21
17805708 ACTAATTAAT
* * *
17805718 CTAAACCCTAAACCCTTAATCT
1 CTAAACCCTAAA-CCATAAACC
*
17805740 CTAATCCCTAAACCATAAACC
1 CTAAACCCTAAACCATAAACC
* * *
17805761 CTAAATCCTAAAACAAAAACC
1 CTAAACCCTAAACCATAAACC
* ** *
17805782 CTGAACCCCT-AACTTTAACCC
1 CT-AAACCCTAAACCATAAACC
* *
17805803 CTAACCCCTAAGCCATAAACC
1 CTAAACCCTAAACCATAAACC
* * * *
17805824 CCAATCCTTAAACCATAATCC
1 CTAAACCCTAAACCATAAACC
*
17805845 CTAAACCCATAATCCATAAACC
1 CTAAACCC-TAAACCATAAACC
* *
17805867 TTAAA--ATAGTAACTCATAAACC
1 CTAAACCCTA--AAC-CATAAACC
* * **
17805889 TTAAACCCTTAACCATATGCC
1 CTAAACCCTAAACCATAAACC
* *
17805910 CTAAACCGTAAACCGTAAAC
1 CTAAACCCTAAACCATAAAC
17805930 TATAATGATA
Statistics
Matches: 140, Mismatches: 42, Indels: 17
0.70 0.21 0.09
Matches are distributed among these distances:
19 2 0.01
20 7 0.05
21 83 0.59
22 47 0.34
24 1 0.01
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.21
Consensus pattern (21 bp):
CTAAACCCTAAACCATAAACC
Found at i:17805825 original size:15 final size:15
Alignment explanation
Indices: 17805805--17805866 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
17805795 TTTAACCCCT
* *
17805805 AACCCCTAAGCCATA
1 AACCCATAATCCATA
* *
17805820 AACCC-CAATCCTTA
1 AACCCATAATCCATA
*
17805834 AA-CCATAATCCCTA
1 AACCCATAATCCATA
17805848 AACCCATAATCCATA
1 AACCCATAATCCATA
17805863 AACC
1 AACC
17805867 TTAAAATAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.05
14 17 0.44
15 20 0.51
ACGTcount: A:0.42, C:0.39, G:0.02, T:0.18
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:17806696 original size:40 final size:40
Alignment explanation
Indices: 17806641--17806809 Score: 137
Period size: 40 Copynumber: 4.2 Consensus size: 40
17806631 CATAAGTTTT
* * *
17806641 GCGGCTTTTTTTAAAAAGC-GCCGCTAAAGGT-GAACCTATA
1 GCGGCGTTTGTTAAAAA-CTGCCGCTAAAGCTCG-ACCTATA
* ** *
17806681 GCGGCGTTTGTTAAAAACTGCCGCTAATGCTCGTGCTTTA
1 GCGGCGTTTGTTAAAAACTGCCGCTAAAGCTCGACCTATA
* ** *
17806721 GCGGCGTTTGTTAAAAACTGCCGCTAATGCTCGTGCTTTA
1 GCGGCGTTTGTTAAAAACTGCCGCTAAAGCTCGACCTATA
* * * * *
17806761 GCGGCGTTTTTTGAAAAA-TGTCGCTAATGCTTGATCTATA
1 GCGGCGTTTGTT-AAAAACTGCCGCTAAAGCTCGACCTATA
*
17806801 GTGGCGTTT
1 GCGGCGTTT
17806810 TTCATTCAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 105 0.94
41 6 0.05
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (40 bp):
GCGGCGTTTGTTAAAAACTGCCGCTAAAGCTCGACCTATA
Found at i:17806811 original size:40 final size:40
Alignment explanation
Indices: 17806676--17806809 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
17806666 AAAGGTGAAC
17806676 CTATAGCGGCGTTTGTTAAAAACTGCCGCTAATGCTCGTG
1 CTATAGCGGCGTTTGTTAAAAACTGCCGCTAATGCTCGTG
*
17806716 CTTTAGCGGCGTTTGTTAAAAACTGCCGCTAATGCTCGTG
1 CTATAGCGGCGTTTGTTAAAAACTGCCGCTAATGCTCGTG
* * * *
17806756 CTTTAGCGGCGTTTTTTGAAAAA-TGTCGCTAATGCTTGAT-
1 CTATAGCGGCGTTTGTT-AAAAACTGCCGCTAATGCTCG-TG
*
17806796 CTATAGTGGCGTTT
1 CTATAGCGGCGTTT
17806810 TTCATTCAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 80 0.93
41 6 0.07
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (40 bp):
CTATAGCGGCGTTTGTTAAAAACTGCCGCTAATGCTCGTG
Found at i:17811092 original size:53 final size:53
Alignment explanation
Indices: 17811029--17811136 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
17811019 GCTTATCGTG
17811029 TTCTAAAGCCAATATTCAACTTTCACAAGATCATCATCCGATATACCTCAAAA
1 TTCTAAAGCCAATATTCAACTTTCACAAGATCATCATCCGATATACCTCAAAA
17811082 TTCTAAAGCCAATATTCAACTTTCACAAGATCATCATCCGATATACCTCAAAA
1 TTCTAAAGCCAATATTCAACTTTCACAAGATCATCATCCGATATACCTCAAAA
17811135 TT
1 TT
17811137 ATTCAGCCCC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.30
Consensus pattern (53 bp):
TTCTAAAGCCAATATTCAACTTTCACAAGATCATCATCCGATATACCTCAAAA
Found at i:17811612 original size:15 final size:16
Alignment explanation
Indices: 17811594--17811626 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
17811584 TTCCTGGAAG
17811594 CTTTCTTTTTT-TTTC
1 CTTTCTTTTTTGTTTC
17811609 CTTTCTTTTTTGTTTC
1 CTTTCTTTTTTGTTTC
17811625 CT
1 CT
17811627 CTTCCCCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (16 bp):
CTTTCTTTTTTGTTTC
Found at i:17812651 original size:40 final size:40
Alignment explanation
Indices: 17812604--17812679 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
17812594 GGTACACCTA
* * *
17812604 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCTATGTT
1 TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCTATGTT
*
17812644 TGGTGTGTAGAGATGGGTGGGTCGATTTTATCCCTA
1 TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCTA
17812680 CATAGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.14, C:0.09, G:0.36, T:0.41
Consensus pattern (40 bp):
TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCTATGTT
Found at i:17820204 original size:40 final size:40
Alignment explanation
Indices: 17820143--17820218 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
17820133 CGGTACACTA
* * *
17820143 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATGTT
1 TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCCATGTT
*
17820183 TGGTGTGTAGAGATGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCCA
17820219 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (40 bp):
TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCCATGTT
Found at i:17823161 original size:47 final size:47
Alignment explanation
Indices: 17823098--17823978 Score: 1179
Period size: 47 Copynumber: 18.6 Consensus size: 47
17823088 CCCTTCGGGA
* * *
17823098 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
17823145 CTTATCAAATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
17823192 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
17823239 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
17823286 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
17823333 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
17823380 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
17823427 CTTATCACACATACACA-TCTTCACATTCATCATATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
17823474 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
** *
17823521 CTTATCACACGTACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
17823568 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
17823615 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
17823662 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
17823711 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
17823758 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
17823807 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
17823854 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
17823903 CTTATCACATATATATACACTTTCACATCCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
17823952 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
17823979 TATTCAAATA
Statistics
Matches: 772, Mismatches: 54, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 589 0.76
49 181 0.23
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:17825393 original size:85 final size:85
Alignment explanation
Indices: 17825245--17825420 Score: 325
Period size: 85 Copynumber: 2.1 Consensus size: 85
17825235 TTTATTGCCT
*
17825245 ATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAG
1 ATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAG
* *
17825310 CCATAACTTCTTGTCCACCC
66 CCATAACATCTTGCCCACCC
17825330 ATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAG
1 ATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAG
17825395 CCATAACATCTTGCCCACCC
66 CCATAACATCTTGCCCACCC
17825415 ATGCTC
1 ATGCTC
17825421 ATGGCCGGCC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.26, C:0.27, G:0.09, T:0.38
Consensus pattern (85 bp):
ATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAG
CCATAACATCTTGCCCACCC
Found at i:17826550 original size:21 final size:21
Alignment explanation
Indices: 17826526--17826598 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
17826516 CCGTGAGGGT
*
17826526 TGAACGGAAGCTCATAAGAGC
1 TGAACGAAAGCTCATAAGAGC
* * * *
17826547 TGAACGAAAACACATAAGGGT
1 TGAACGAAAGCTCATAAGAGC
* *
17826568 TGAACTAAAGCTCAAAAGAGC
1 TGAACGAAAGCTCATAAGAGC
*
17826589 TAAACTGAAA
1 TGAAC-GAAA
17826599 TCCATTAGGA
Statistics
Matches: 38, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
21 35 0.92
22 3 0.08
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (21 bp):
TGAACGAAAGCTCATAAGAGC
Found at i:17826553 original size:42 final size:42
Alignment explanation
Indices: 17826490--17826598 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
17826480 AGGCTGCACA
* * * * *
17826490 GAAGCACATAAGTGCTAAACGAAAACCCGTGAGGGTTGAACG
1 GAAGCTCATAAGAGCTAAACGAAAACACATAAGGGTTGAACG
* *
17826532 GAAGCTCATAAGAGCTGAACGAAAACACATAAGGGTTGAACT
1 GAAGCTCATAAGAGCTAAACGAAAACACATAAGGGTTGAACG
* *
17826574 AAAGCTCAAAAGAGCTAAACTGAAA
1 GAAGCTCATAAGAGCTAAAC-GAAA
17826599 TCCATTAGGA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 52 0.93
43 4 0.07
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGAAAACACATAAGGGTTGAACG
Found at i:17829374 original size:28 final size:28
Alignment explanation
Indices: 17829333--17829388 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
17829323 TTATATGTAC
*
17829333 ACTGCTTATTTTATGAGAACTGTTGTGT
1 ACTGCTTATGTTATGAGAACTGTTGTGT
17829361 ACTGCTTATGTTATGAGAACTGTTGTGT
1 ACTGCTTATGTTATGAGAACTGTTGTGT
17829389 TGTGTGAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (28 bp):
ACTGCTTATGTTATGAGAACTGTTGTGT
Found at i:17830279 original size:13 final size:13
Alignment explanation
Indices: 17830261--17830325 Score: 121
Period size: 13 Copynumber: 5.0 Consensus size: 13
17830251 AAGCAATCAA
17830261 ACACGGGCGTGTC
1 ACACGGGCGTGTC
17830274 ACACGGGCGTGTC
1 ACACGGGCGTGTC
17830287 ACACGGGCGTGTC
1 ACACGGGCGTGTC
17830300 ACACGGGCGTGTC
1 ACACGGGCGTGTC
*
17830313 ACACGGGCTTGTC
1 ACACGGGCGTGTC
17830326 CCTGTCGAGC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.15, C:0.31, G:0.37, T:0.17
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:17832868 original size:35 final size:35
Alignment explanation
Indices: 17832802--17832919 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 35
17832792 AAATCCTACC
* * * *
17832802 AAAACAAACCAGATGCTCATAAGAGCCAATCCATCT
1 AAAACACACCA-ATGCTCGTAAGAGCTAATCCATCA
* *
17832838 AAAACACACCAACGCTCGTAAGAGCTAATCCCTCA
1 AAAACACACCAATGCTCGTAAGAGCTAATCCATCA
* * * *
17832873 AAAACACACCAATGCTCGTAAAAGCTAGTCCAACC
1 AAAACACACCAATGCTCGTAAGAGCTAATCCATCA
*
17832908 GAAACACACCAA
1 AAAACACACCAA
17832920 AATAGAGATT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 59 0.86
36 10 0.14
ACGTcount: A:0.44, C:0.31, G:0.11, T:0.14
Consensus pattern (35 bp):
AAAACACACCAATGCTCGTAAGAGCTAATCCATCA
Found at i:17840230 original size:27 final size:26
Alignment explanation
Indices: 17840174--17840230 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
17840164 CAACCTTAAC
* *
17840174 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTGCA
* *
17840200 CCTAGGGGTAAATCTGTAAATTTTTCA
1 CCTAGGGGTAAATCAGT-AATTTTGCA
17840227 CCTA
1 CCTA
17840231 TAAAGGTATT
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:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTGCA
Found at i:17852305 original size:9 final size:9
Alignment explanation
Indices: 17852291--17852384 Score: 102
Period size: 9 Copynumber: 10.6 Consensus size: 9
17852281 TTTTTACAAA
17852291 TAATTCGGT
1 TAATTCGGT
*
17852300 TAATTCAGT
1 TAATTCGGT
* **
17852309 TAATTTGAC
1 TAATTCGGT
*
17852318 TAATTCGGG
1 TAATTCGGT
17852327 TAATTCGAG-
1 TAATTCG-GT
*
17852336 TAATTCGGG
1 TAATTCGGT
17852345 TAATTCGGT
1 TAATTCGGT
*
17852354 TAATTCGAT
1 TAATTCGGT
17852363 TAATTCGGT
1 TAATTCGGT
17852372 TAA-TCGGT
1 TAATTCGGT
17852380 TAATT
1 TAATT
17852385 TTATACTTAT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
8 9 0.13
9 61 0.86
10 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:17854758 original size:18 final size:18
Alignment explanation
Indices: 17854735--17854771 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17854725 TTTAATGAGA
*
17854735 TATTTTACTATTTATTAT
1 TATTTTACTATTAATTAT
*
17854753 TATTTTATTATTAATTAT
1 TATTTTACTATTAATTAT
17854771 T
1 T
17854772 TAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTACTATTAATTAT
Found at i:17856490 original size:40 final size:40
Alignment explanation
Indices: 17856405--17856542 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 40
17856395 CTTGAGAATA
* ** *
17856405 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
17856445 CAAAGTGGATAGGATTTGCTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * * *
17856485 TAAAGTGAATAGGATTTATTCCTAATTCACTACGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* **
17856525 TAAGGCAGATAGGATTTG
1 TAAAGTGGATAGGATTTG
17856543 ACCTGAAAAG
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:17856601 original size:79 final size:78
Alignment explanation
Indices: 17856507--17856738 Score: 313
Period size: 79 Copynumber: 2.9 Consensus size: 78
17856497 GATTTATTCC
* * **
17856507 TAATTCACTACGGTAACTTAAGGCAGATAGGATTTGACCTGAAAAGAGTAATCCTGATTCGCTAC
1 TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAG-GTAATCCTGATTCGCTAC
17856572 GGTTACATGATATA
65 GGTTACATGATATA
* * *
17856586 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTAAAAAGGGTAATCCTGATTCGCTAC
1 TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTAC
* *
17856651 GATTACACGATATA
65 GGTTACATGATATA
* * *
17856665 TAATTCCTTATGATAACTTAAGGTGGGTAGGATTTGACCTGAAAAGGTAATCCTGATTC-CTTAC
1 TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGC-TAC
*
17856729 AGTTACATGA
65 GGTTACATGA
17856739 GATGTGACTC
Statistics
Matches: 133, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.01
78 24 0.18
79 107 0.80
80 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (78 bp):
TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACG
GTTACATGATATA
Found at i:17862092 original size:26 final size:26
Alignment explanation
Indices: 17862060--17862146 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
17862050 TATATTATTT
*
17862060 TATTAAATTATATTTAATAATAATTA
1 TATTAAAATATATTTAATAATAATTA
* * * * *
17862086 TGTTAAAATATGATTAAATTAT-TTTT
1 TATTAAAATAT-ATTTAATAATAATTA
17862112 TATTAAAATATATTTAATAATAATCT-
1 TATTAAAATATATTTAATAATAAT-TA
17862138 TATTAAAAT
1 TATTAAAAT
17862147 TTAATAACAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
25 8 0.17
26 31 0.65
27 9 0.19
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (26 bp):
TATTAAAATATATTTAATAATAATTA
Found at i:17876110 original size:70 final size:70
Alignment explanation
Indices: 17876031--17876170 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
17876021 TTAAAATAAA
17876031 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
1 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
17876096 TGATG
66 TGATG
* * *
17876101 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCTGATACTAAATGCCAAAATATCATTAGATG
1 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
17876166 TGATG
66 TGATG
17876171 GCATTGAATA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (70 bp):
CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
TGATG
Found at i:17881540 original size:18 final size:17
Alignment explanation
Indices: 17881502--17881543 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
17881492 AAATAGAATT
17881502 TTTAATATAAATAATTAA
1 TTTAATATAAAT-ATTAA
17881520 TTTAATGATAAAT-TTACA
1 TTTAAT-ATAAATATTA-A
17881538 TTTAAT
1 TTTAAT
17881544 CTAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 13 0.59
19 6 0.27
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTAATATAAATATTAA
Found at i:17882268 original size:4 final size:4
Alignment explanation
Indices: 17882259--17882283 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17882249 TTAATGAAGG
17882259 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
17882284 AAGAGTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:17886368 original size:42 final size:41
Alignment explanation
Indices: 17886322--17886403 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
17886312 GTCTTATAAG
* *
17886322 AAATCTCATGTCGACGCCGCATCACAGATATGATCTTACACA
1 AAATCTCAT-ACGACGCCACATCACAGATATGATCTTACACA
* * *
17886364 AAATCTCATACGATGCCATATCCCAGATATGATCTTACAC
1 AAATCTCATACGACGCCACATCACAGATATGATCTTACAC
17886404 GTAGTCTTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 26 0.74
42 9 0.26
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (41 bp):
AAATCTCATACGACGCCACATCACAGATATGATCTTACACA
Found at i:17893904 original size:41 final size:41
Alignment explanation
Indices: 17893773--17893925 Score: 157
Period size: 41 Copynumber: 3.7 Consensus size: 41
17893763 TACCATACCA
* * * * *
17893773 ATGCCACATCCTAGATATGGTCTTACATGTAATCTTATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT-G
* * * *
17893815 ATGCCAATAGCCCAGCTATGGTCTTAC-TGAAAT-TCATGTTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCAT-ATG
** *
17893856 ACACCATATCACAGATATGGTCTTACACGAAATCTCATATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATG
17893897 ATGCCATATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
17893926 TAGTCTTAGT
Statistics
Matches: 90, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
40 18 0.20
41 40 0.44
42 15 0.17
43 17 0.19
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATG
Found at i:17906906 original size:24 final size:25
Alignment explanation
Indices: 17906879--17906926 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
17906869 CAAGCGAGCC
*
17906879 ATATTAGGAAGCTCAT-AAGAGCTT
1 ATATCAGGAAGCTCATGAAGAGCTT
*
17906903 ATATCAGGACGCTCATGAAGAGCT
1 ATATCAGGAAGCTCATGAAGAGCT
17906927 GTGTTTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (25 bp):
ATATCAGGAAGCTCATGAAGAGCTT
Found at i:17909751 original size:53 final size:53
Alignment explanation
Indices: 17909683--17909802 Score: 161
Period size: 53 Copynumber: 2.3 Consensus size: 53
17909673 ATAAGTGCAC
* * *
17909683 CCGTTTAAGACCATAGATGGGCTATGGCATCGGTGCAATGTGTTAATGTGACT-
1 CCGTATAAGACCATAGATGGGCTATGGCATCGGTACAATGTGATAATGTGA-TG
* * * *
17909736 CCGTATAAGACCATAGCTGGGCTATGGCATTGGTATATTGTGATAATGTGATG
1 CCGTATAAGACCATAGATGGGCTATGGCATCGGTACAATGTGATAATGTGATG
17909789 CCGTATAAGACCAT
1 CCGTATAAGACCAT
17909803 GTCTGAGATA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 1 0.02
53 58 0.98
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGATGGGCTATGGCATCGGTACAATGTGATAATGTGATG
Found at i:17909815 original size:53 final size:55
Alignment explanation
Indices: 17909666--17909833 Score: 149
Period size: 53 Copynumber: 3.1 Consensus size: 55
17909656 TTGACGAAAA
* * * * *
17909666 ATATGTGATAA-GTGCAC-CCGTTTAAGACCATAGATGGGCTATGGCATCGG--TG
1 ATATGTGATAATGTG-ACTCCGTATAAGACCATAGCTGAGATATGGCTTCGGTATG
* * *
17909718 CA-ATGTGTTAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATT-GGTAT-
1 -ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGAGATATGGC-TTCGGTATG
17909772 AT-TGTGATAATGTGA-TGCCGTATAAGACCAT-GTCTGAGATATGGCTTCGGTATG
1 ATATGTGATAATGTGACT-CCGTATAAGACCATAG-CTGAGATATGGCTTCGGTATG
17909826 ATATGTGA
1 ATATGTGA
17909834 ACCGTGTAAG
Statistics
Matches: 97, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
52 14 0.14
53 74 0.76
54 3 0.03
55 6 0.06
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (55 bp):
ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGAGATATGGCTTCGGTATG
Found at i:17915886 original size:17 final size:15
Alignment explanation
Indices: 17915843--17915882 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
17915833 TAGAGTTTAC
17915843 CATTTAATTTCAGTTA
1 CATTT-ATTTCAGTTA
17915859 -ATTTATTTCAGTTA
1 CATTTATTTCAGTTA
17915873 CTATTTATTT
1 C-ATTTATTT
17915883 TCAGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (15 bp):
CATTTATTTCAGTTA
Found at i:17926305 original size:21 final size:21
Alignment explanation
Indices: 17926281--17926321 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17926271 TATATTTGTA
17926281 TCTAGCAACTTGTCTACATTT
1 TCTAGCAACTTGTCTACATTT
***
17926302 TCTAGTGGCTTGTCTACATT
1 TCTAGCAACTTGTCTACATT
17926322 ATTAGTGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (21 bp):
TCTAGCAACTTGTCTACATTT
Found at i:17928540 original size:22 final size:22
Alignment explanation
Indices: 17928513--17928560 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17928503 ATAAATAATG
*
17928513 AAAATAAAGAAA-GAAAGAAAGA
1 AAAATAAACAAATGAAAGAAA-A
*
17928535 AAAATAAACAAATGAAATAAAA
1 AAAATAAACAAATGAAAGAAAA
17928557 AAAA
1 AAAA
17928561 CTAATTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (22 bp):
AAAATAAACAAATGAAAGAAAA
Found at i:17929754 original size:25 final size:25
Alignment explanation
Indices: 17929726--17929774 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
17929716 TATTATATAT
*
17929726 CATTCTTTAATATATACATTATTTG
1 CATTCATTAATATATACATTATTTG
* * *
17929751 CATTCATTGATATATTCTTTATTT
1 CATTCATTAATATATACATTATTT
17929775 TCTTCGATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (25 bp):
CATTCATTAATATATACATTATTTG
Found at i:17933628 original size:33 final size:32
Alignment explanation
Indices: 17933590--17933658 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
17933580 ATCATAGGTT
17933590 TCATGAAATAGACAATTTAAAGATAGATTTTTA
1 TCATGAAATAGACAATTTAAAGATAGA-TTTTA
17933623 TCATGAAATAGACAATTTAAAGATAGATTTTA
1 TCATGAAATAGACAATTTAAAGATAGATTTTA
17933655 TCAT
1 TCAT
17933659 TTCTGAGCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 9 0.25
33 27 0.75
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (32 bp):
TCATGAAATAGACAATTTAAAGATAGATTTTA
Found at i:17937184 original size:18 final size:19
Alignment explanation
Indices: 17937163--17937227 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 19
17937153 TCTTTCTAGT
17937163 TTATTTTTATTT-ATTAAA
1 TTATTTTTATTTAATTAAA
*
17937181 TTATTTTTCTTTAATT-AA
1 TTATTTTTATTTAATTAAA
*
17937199 TT-TTTATT-TTTAAATT-TA
1 TTATTT-TTATTT-AATTAAA
17937217 TTATTTTTATT
1 TTATTTTTATT
17937228 ATCTCGGTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 6 0.15
18 26 0.65
19 8 0.20
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTTTTATTTAATTAAA
Found at i:17937220 original size:15 final size:14
Alignment explanation
Indices: 17937165--17937225 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 14
17937155 TTTCTAGTTT
17937165 ATTTTTATTTATTAA
1 ATTTTTATTT-TTAA
17937180 ATTATTT-TTCTTTAATTA
1 ATT-TTTATT-TTT-A--A
17937198 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
17937212 ATTTATTATTTTTA
1 ATTT-TTATTTTTA
17937226 TTATCTCGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.13
15 16 0.41
16 6 0.15
17 6 0.15
18 6 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:17943883 original size:16 final size:16
Alignment explanation
Indices: 17943858--17943888 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17943848 ACTACTTTTT
17943858 ATTTTATTTTTATTTA
1 ATTTTATTTTTATTTA
*
17943874 ATTTTCTTTTTATTT
1 ATTTTATTTTTATTT
17943889 CATCCTTAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTATTTTTATTTA
Found at i:17961080 original size:13 final size:13
Alignment explanation
Indices: 17961060--17961122 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
17961050 AGTTTGGCAA
17961060 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
17961073 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
17961086 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
17961099 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
17961112 TG-TTTTTAAAA
1 TGCTTTTGAAAA
17961123 AATTTGGTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
12 7 0.17
13 34 0.83
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:17961303 original size:21 final size:22
Alignment explanation
Indices: 17961278--17961335 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
17961268 ATTTAATTAG
17961278 AATATATATTTTAAATATTT-A
1 AATATATATTTTAAATATTTGA
* *
17961299 AATATA-ACTATTAAATATTTGT
1 AATATATA-TTTTAAATATTTGA
17961321 AAT-TAGTATTTTAAA
1 AATATA-TATTTTAAA
17961336 AAATATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.03
21 19 0.63
22 9 0.30
23 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (22 bp):
AATATATATTTTAAATATTTGA
Found at i:17964960 original size:20 final size:20
Alignment explanation
Indices: 17964935--17964980 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
17964925 AAACCTCGGT
* * *
17964935 AGGTATCGATTTTTTTCTTA
1 AGGTATCGATATATTTCCTA
17964955 AGGTATCGATATATTTCCTA
1 AGGTATCGATATATTTCCTA
17964975 AGGTAT
1 AGGTAT
17964981 TGACATTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (20 bp):
AGGTATCGATATATTTCCTA
Found at i:17971461 original size:46 final size:46
Alignment explanation
Indices: 17971409--17971502 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
17971399 ACACGTAATG
* *
17971409 TTCTGTAAAGCCTTTGTGACTTGTTCGT-TAAAGTCTGTGTGGCATA
1 TTCTGTAAAGCCTTTATGACATGTTC-TATAAAGTCTGTGTGGCATA
* * * *
17971455 TTCTGTAAAGCTTTTATGGCATGTTCTATAAATTCTTTGTGGCATA
1 TTCTGTAAAGCCTTTATGACATGTTCTATAAAGTCTGTGTGGCATA
17971501 TT
1 TT
17971503 ATATGATGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (46 bp):
TTCTGTAAAGCCTTTATGACATGTTCTATAAAGTCTGTGTGGCATA
Found at i:17971463 original size:23 final size:23
Alignment explanation
Indices: 17971437--17971502 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
17971427 ACTTGTTCGT
* *
17971437 TAAAGTCTGTGTGGCATATTCTG
1 TAAAGTCTTTGTGGCATATTCTA
* *
17971460 TAAAG-CTTTTATGGCATGTTCTA
1 TAAAGTC-TTTGTGGCATATTCTA
*
17971483 TAAATTCTTTGTGGCATATT
1 TAAAGTCTTTGTGGCATATT
17971503 ATATGATGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (23 bp):
TAAAGTCTTTGTGGCATATTCTA
Found at i:17975834 original size:16 final size:18
Alignment explanation
Indices: 17975803--17975835 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
17975793 AACTCGTCAC
17975803 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
17975821 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
17975836 AATTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:17976195 original size:19 final size:19
Alignment explanation
Indices: 17976171--17976214 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
17976161 ACCCAAATTC
17976171 TGAAGTTAATTAGGATCAT
1 TGAAGTTAATTAGGATCAT
17976190 TGAAGTTAATTAGGATCAT
1 TGAAGTTAATTAGGATCAT
17976209 TGAAGT
1 TGAAGT
17976215 GAGTTGATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (19 bp):
TGAAGTTAATTAGGATCAT
Found at i:17979213 original size:21 final size:22
Alignment explanation
Indices: 17979189--17979229 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17979179 CCATTTAGGT
*
17979189 CTTTTGTC-TATTAAACATTAC
1 CTTTTCTCATATTAAACATTAC
17979210 CTTTTCTCATATTAAACATT
1 CTTTTCTCATATTAAACATT
17979230 TAATTCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (22 bp):
CTTTTCTCATATTAAACATTAC
Found at i:17981376 original size:23 final size:23
Alignment explanation
Indices: 17981356--17981462 Score: 196
Period size: 23 Copynumber: 4.7 Consensus size: 23
17981346 TAACTTAATC
*
17981356 GAACATGTTCACGAACATTAAAT
1 GAACATGTTCACGAACATTAGAT
*
17981379 GAATATGTTCACGAACATTAGAT
1 GAACATGTTCACGAACATTAGAT
17981402 GAACATGTTCACGAACATTAGAT
1 GAACATGTTCACGAACATTAGAT
17981425 GAACATGTTCACGAACATTAGAT
1 GAACATGTTCACGAACATTAGAT
17981448 GAACATGTTCACGAA
1 GAACATGTTCACGAA
17981463 AAATGTTAAT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (23 bp):
GAACATGTTCACGAACATTAGAT
Found at i:17981407 original size:11 final size:11
Alignment explanation
Indices: 17981391--17981453 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
17981381 ATATGTTCAC
17981391 GAACATTAGAT
1 GAACATTAGAT
** *
17981402 GAACATGTTCAC
1 GAACAT-TAGAT
17981414 GAACATTAGAT
1 GAACATTAGAT
** *
17981425 GAACATGTTCAC
1 GAACAT-TAGAT
17981437 GAACATTAGAT
1 GAACATTAGAT
17981448 GAACAT
1 GAACAT
17981454 GTTCACGAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
11 22 0.58
12 16 0.42
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.25
Consensus pattern (11 bp):
GAACATTAGAT
Found at i:17984449 original size:46 final size:44
Alignment explanation
Indices: 17984376--17984487 Score: 118
Period size: 46 Copynumber: 2.5 Consensus size: 44
17984366 ATTGAGACGA
* * * ** *
17984376 GAGCTAGTGTAAGACATATCTGGGACATGCATCGGCCT-CGAGAT
1 GAGCCAGTGTAAAACATGTCTAAGACATGCACCGG-CTACGAGAT
17984420 GTAAGCCAGTGTAAAACATGTCTAAGACATGCACCGGCTACGAGAT
1 G--AGCCAGTGTAAAACATGTCTAAGACATGCACCGGCTACGAGAT
*
17984466 GAGCCAGTGTAAGACCATGTCT
1 GAGCCAGTGTAA-AACATGTCT
17984488 GGGACATGGC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.21
45 10 0.18
46 35 0.61
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (44 bp):
GAGCCAGTGTAAAACATGTCTAAGACATGCACCGGCTACGAGAT
Found at i:17988525 original size:4 final size:4
Alignment explanation
Indices: 17988516--17988638 Score: 102
Period size: 4 Copynumber: 30.8 Consensus size: 4
17988506 ACAGAAGCTT
* * * * * * *
17988516 TCTC TCTC TCTC TCTC TCTC TCCC TCCC TCCC TCCC TCCC TCCC TCCC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * *
17988564 TCTC CCTC TCCC TCTC CCTC TCCC TCTC CCTC TCTC CCTC TCTC CCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* *
17988612 TCTC CCTC TCTC TCCC TCTC TCTC TCT
1 TCTC TCTC TCTC TCTC TCTC TCTC TCT
17988639 TTAAAGAATG
Statistics
Matches: 99, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 99 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (4 bp):
TCTC
Found at i:17988533 original size:12 final size:12
Alignment explanation
Indices: 17988516--17988637 Score: 129
Period size: 12 Copynumber: 9.8 Consensus size: 12
17988506 ACAGAAGCTT
*
17988516 TCTCTCTCTCTC
1 TCTCTCTCTCCC
17988528 TCTCTCTCTCCC
1 TCTCTCTCTCCC
* *
17988540 TCCCTCCCTCCC
1 TCTCTCTCTCCC
* *
17988552 TCCCTCCCTCCC
1 TCTCTCTCTCCC
*
17988564 TCTCCCTCTCCC
1 TCTCTCTCTCCC
*
17988576 TCTCCCTCTCCC
1 TCTCTCTCTCCC
17988588 TCTCCCTCTCTCCC
1 TCT--CTCTCTCCC
17988602 TCTCTCCCTCTCTCC
1 TCTCT--CTCTC-CC
17988617 -CTCTCTCTCCC
1 TCTCTCTCTCCC
17988628 TCTCTCTCTC
1 TCTCTCTCTC
17988638 TTTAAAGAAT
Statistics
Matches: 97, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
11 2 0.02
12 73 0.75
14 20 0.21
15 2 0.02
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
TCTCTCTCTCCC
Found at i:18000045 original size:24 final size:24
Alignment explanation
Indices: 18000013--18000133 Score: 68
Period size: 24 Copynumber: 5.0 Consensus size: 24
18000003 AGCCTTATCA
18000013 CGGGAAGCTCACAAAGAGCCATAT
1 CGGGAAGCTCACAAAGAGCCATAT
* * * *
18000037 CGGGAAGCTTATC--CGGGCTATAT
1 CGGGAAGCTCA-CAAAGAGCCATAT
* * * *
18000060 AACAGGAATCTTATAAA-AGCCATAAT
1 --CGGGAAGCTCACAAAGAGCCAT-AT
* * * *
18000086 CAGGAAGTTCATAAAGAACCATAT
1 CGGGAAGCTCACAAAGAGCCATAT
*
18000110 CGCGAAGCTCACAAAGAGCCATAT
1 CGGGAAGCTCACAAAGAGCCATAT
18000134 AATGGAAGCT
Statistics
Matches: 71, Mismatches: 19, Indels: 14
0.68 0.18 0.13
Matches are distributed among these distances:
23 7 0.10
24 43 0.61
25 19 0.27
26 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:18030291 original size:24 final size:24
Alignment explanation
Indices: 18030259--18030378 Score: 68
Period size: 24 Copynumber: 5.0 Consensus size: 24
18030249 GCCTTATCAT
18030259 GGGAAGCTTACAAAGAGCCATATC
1 GGGAAGCTTACAAAGAGCCATATC
*** *
18030283 GGGAAGCTTA-TTCGAGCTATATAAC
1 GGGAAGCTTACAAAGAGCCATAT--C
* *
18030308 AGGAAGC-T-CATAAGAGCCATAATT
1 GGGAAGCTTACA-AAGAGCCAT-ATC
* * *
18030332 AGGAAG-TTCACAAAGAACCGTATC
1 GGGAAGCTT-ACAAAGAGCCATATC
* *
18030356 GTGAAGCTCACAAAGAGCCATAT
1 GGGAAGCTTACAAAGAGCCATAT
18030379 AACGGAAGCT
Statistics
Matches: 69, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
23 8 0.12
24 36 0.52
25 21 0.30
26 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (24 bp):
GGGAAGCTTACAAAGAGCCATATC
Found at i:18030628 original size:24 final size:24
Alignment explanation
Indices: 18030549--18030628 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
18030539 AGATGCTCCG
* *
18030549 AAGAGCT-ATAACGGGAAGCTCAC
1 AAGAGCTAATAACAGGAAGCTCAA
* *
18030572 AAGAACCATATAACAGGAAGCTCAA
1 AAGAGCTA-ATAACAGGAAGCTCAA
* * **
18030597 AAGGGCTAATAACAGGATGCTCGT
1 AAGAGCTAATAACAGGAAGCTCAA
18030621 AAGAGCTA
1 AAGAGCTA
18030629 TGGTGTGTCT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
23 5 0.11
24 20 0.45
25 19 0.43
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (24 bp):
AAGAGCTAATAACAGGAAGCTCAA
Found at i:18034430 original size:50 final size:50
Alignment explanation
Indices: 18034376--18034520 Score: 175
Period size: 49 Copynumber: 2.9 Consensus size: 50
18034366 AGACAAGGTT
* *
18034376 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* ** * * * **
18034426 ATCTGATACATGTAGTAGCCTGCACTTAGTACTACACATGCGACC-GATT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
18034475 ATCCGGTACACATAATAGCCTGCACTTAGTACTACACACGTGACCT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
18034521 CACAATAGAT
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
49 39 0.51
50 38 0.49
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:18036352 original size:32 final size:32
Alignment explanation
Indices: 18036316--18036380 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
18036306 ATTGCCGGGG
18036316 AACTAAAATATTAGGAACACTTAATTTTTATC
1 AACTAAAATATTAGGAACACTTAATTTTTATC
18036348 AACTAAAATATTAGGAACACTTAATTTTTATC
1 AACTAAAATATTAGGAACACTTAATTTTTATC
18036380 A
1 A
18036381 CTTTAGCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (32 bp):
AACTAAAATATTAGGAACACTTAATTTTTATC
Found at i:18047823 original size:42 final size:41
Alignment explanation
Indices: 18047722--18047879 Score: 165
Period size: 42 Copynumber: 3.7 Consensus size: 41
18047712 AACTCGTACA
* *
18047722 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATGACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATCAAAT-ACG
** * *
18047765 ATGCCATTGTCTCAGACAAGGTCTTACACGAAGTCAAATACG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAA-TCAAATACG
* *
18047807 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAAT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACAC--GAA--TCAAATACG
*
18047851 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
18047880 AATAACTCAT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 31 0.32
43 30 0.31
44 31 0.32
45 6 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAATCAAATACG
Found at i:18047865 original size:44 final size:42
Alignment explanation
Indices: 18047722--18047880 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
18047712 AACTCGTACA
* **
18047722 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATGACG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAATCAAAT-ACG
** * * *
18047765 ATGCCATTGTCTCAGACAAGGTCTTACACGA-AGTCAAATACG
1 ATGCCAACGTCCCAGACATGGTCTTACAC-ATAATCAAATACG
*
18047807 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAAT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACACAT-AA--TCAAATACG
*
18047851 ATGCCAACGTCCCAGACGTGGTCTTACACA
1 ATGCCAACGTCCCAGACATGGTCTTACACA
18047881 ATAACTCATA
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.30
43 31 0.32
44 30 0.31
45 6 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAATCAAATACG
Found at i:18057237 original size:25 final size:25
Alignment explanation
Indices: 18057203--18057256 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
18057193 ATATGAGTCT
18057203 GTTGGATATTGATCCCACGAGGATG
1 GTTGGATATTGATCCCACGAGGATG
18057228 GTTGGATATTGATCCCACGAGGATG
1 GTTGGATATTGATCCCACGAGGATG
18057253 GTTG
1 GTTG
18057257 TATTTTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.30
Consensus pattern (25 bp):
GTTGGATATTGATCCCACGAGGATG
Found at i:18066666 original size:11 final size:11
Alignment explanation
Indices: 18066645--18066678 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
18066635 TAAAAAAATT
18066645 TAAATAATTAAA
1 TAAA-AATTAAA
18066657 TAAAAATTAAA
1 TAAAAATTAAA
*
18066668 TTAAAATTAAA
1 TAAAAATTAAA
18066679 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTAAA
Found at i:18066672 original size:12 final size:13
Alignment explanation
Indices: 18066644--18066693 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 13
18066634 CTAAAAAAAT
18066644 TTAAATAATTAAA
1 TTAAATAATTAAA
18066657 -TAAA-AATTAAA
1 TTAAATAATTAAA
18066668 TT-AA-AATTAAAA
1 TTAAATAATT-AAA
18066680 TTAAATAA-TAAA
1 TTAAATAATTAAA
18066692 TT
1 TT
18066694 TCATAAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 13 0.39
12 15 0.45
13 3 0.09
14 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTAAATAATTAAA
Found at i:18066685 original size:11 final size:11
Alignment explanation
Indices: 18066650--18066684 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
18066640 AAATTTAAAT
*
18066650 AATTAAATAAA
1 AATTAAATTAA
18066661 AATTAAATTAA
1 AATTAAATTAA
18066672 AATTAAAATTAA
1 AATT-AAATTAA
18066684 A
1 A
18066685 TAATAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTAAATTAA
Found at i:18072442 original size:42 final size:42
Alignment explanation
Indices: 18072383--18072491 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 42
18072373 GTTGATATTA
* *
18072383 CGTGTAAGACCATATCTGGGATATGACATTGATATGAAA-CTT
1 CGTGTAAGACCATATCTGGGATATGACATCGATATGAAATC-C
* * *
18072425 CGTGTAAGACCATATCTGGGCTATTGGCATCGATATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGACATCGATATGAAATCC
*
18072468 CATGTAAGACCATATCTGGGATAT
1 CGTGTAAGACCATATCTGGGATAT
18072492 AGCATTGGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 23 0.40
43 34 0.59
44 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGACATCGATATGAAATCC
Found at i:18072610 original size:20 final size:20
Alignment explanation
Indices: 18072582--18072620 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18072572 CAATGTTTAA
18072582 GTTGAGAAAGACTATGGTAT
1 GTTGAGAAAGACTATGGTAT
* *
18072602 GTTGTGAAAGATTATGGTA
1 GTTGAGAAAGACTATGGTA
18072621 AGTTTCCAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (20 bp):
GTTGAGAAAGACTATGGTAT
Found at i:18073764 original size:30 final size:30
Alignment explanation
Indices: 18073723--18073781 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
18073713 GGGCGTGCAA
*
18073723 CCCTATTTTGGTGAAAATTTTTCTGAGTGT
1 CCCTATTTTGGTGAAAATTTTTCTAAGTGT
*
18073753 CCCTGTTTTGGTGAAAATTTTTCTAAGTG
1 CCCTATTTTGGTGAAAATTTTTCTAAGTG
18073782 CTGTAGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (30 bp):
CCCTATTTTGGTGAAAATTTTTCTAAGTGT
Found at i:18075105 original size:16 final size:17
Alignment explanation
Indices: 18075084--18075117 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
18075074 AAATATCATG
18075084 AAATAAAAA-CAAACAA
1 AAATAAAAATCAAACAA
18075100 AAATAAAAATCAAACAA
1 AAATAAAAATCAAACAA
18075117 A
1 A
18075118 CGCCATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:18076446 original size:21 final size:19
Alignment explanation
Indices: 18076404--18076446 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
18076394 AAATCAAATA
*
18076404 TTGCAACATCGGTTGGATG
1 TTGCAACATCGGTTGAATG
*
18076423 TTGCAACATTGGATTCGAATG
1 TTGCAACATCGG-TT-GAATG
18076444 TTG
1 TTG
18076447 TAACTTTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 2 0.10
21 7 0.35
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (19 bp):
TTGCAACATCGGTTGAATG
Found at i:18078043 original size:24 final size:24
Alignment explanation
Indices: 18078011--18078057 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
18078001 TCGTCAGAAC
*
18078011 AGGGTTACGGAGCATTACCAAAAT
1 AGGGTTACGGAACATTACCAAAAT
18078035 AGGGTTACGGAACATTACCAAAA
1 AGGGTTACGGAACATTACCAAAA
18078058 CATTTAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (24 bp):
AGGGTTACGGAACATTACCAAAAT
Found at i:18082542 original size:14 final size:14
Alignment explanation
Indices: 18082523--18082549 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18082513 AATGTCTAAT
18082523 GTATATATGGACTC
1 GTATATATGGACTC
18082537 GTATATATGGACT
1 GTATATATGGACT
18082550 AAGTACCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (14 bp):
GTATATATGGACTC
Found at i:18083110 original size:40 final size:40
Alignment explanation
Indices: 18083020--18083224 Score: 231
Period size: 40 Copynumber: 5.1 Consensus size: 40
18083010 TCGAATGATG
* *
18083020 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
**
18083060 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
18083099 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTCACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTATA
*
18083140 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
18083180 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
18083220 TCCGG
1 TCCGG
18083225 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
39 23 0.16
40 88 0.62
41 30 0.21
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:18091379 original size:40 final size:39
Alignment explanation
Indices: 18091189--18091372 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
18091179 CGAATGATGT
* * *
18091189 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
** * *
18091229 CCGAACTAAGAT-CCTAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
18091269 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18091307 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
18091348 CCGGGCTATGTCCCGAATGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18091373 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18091394 original size:79 final size:79
Alignment explanation
Indices: 18091244--18091405 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 79
18091234 CTAAGATCCT
* **
18091244 AAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATC
1 AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAAATC
*
18091309 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * * *
18091323 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAATGCATTTGAACGAGT-AGCTAT
1 AAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTCA-CTAA
*
18091386 ATCC-GGTTAAATTCCG
63 ATCCGGGTTAAATCCCG
18091402 AAGG
1 AAGG
18091406 TACGTGATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.63
80 24 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAAATC
CGGGTTAAATCCCG
Found at i:18098153 original size:25 final size:25
Alignment explanation
Indices: 18098124--18098194 Score: 117
Period size: 25 Copynumber: 2.8 Consensus size: 25
18098114 AAAATGAAAC
*
18098124 ATTAAGT-ACACAATATAGTGAAAGT
1 ATTAAGTGA-ACAAAATAGTGAAAGT
18098149 ATTAAGTGAACAAAATAGTGAAAGT
1 ATTAAGTGAACAAAATAGTGAAAGT
18098174 ATTAAGTGAACAAAATAGTGA
1 ATTAAGTGAACAAAATAGTGA
18098195 GAGTGAAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 43 0.98
26 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.25
Consensus pattern (25 bp):
ATTAAGTGAACAAAATAGTGAAAGT
Found at i:18101812 original size:48 final size:48
Alignment explanation
Indices: 18101741--18101840 Score: 173
Period size: 48 Copynumber: 2.1 Consensus size: 48
18101731 ATGGGACTCT
**
18101741 TTCTCTGACCGGCTATTTGATGTTTGCAATACGTTATTGTCATTCACA
1 TTCTCTGACAAGCTATTTGATGTTTGCAATACGTTATTGTCATTCACA
*
18101789 TTCTCTGACAAGCTATTTGATGTTTGCAATATGTTATTGTCATTCACA
1 TTCTCTGACAAGCTATTTGATGTTTGCAATACGTTATTGTCATTCACA
18101837 TTCT
1 TTCT
18101841 TACAGCTCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (48 bp):
TTCTCTGACAAGCTATTTGATGTTTGCAATACGTTATTGTCATTCACA
Found at i:18105546 original size:29 final size:29
Alignment explanation
Indices: 18105503--18105591 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 29
18105493 AGACAAGCCA
*
18105503 AAAGTGCAAGCCAAAGTGACGAACAATCC
1 AAAGTACAAGCCAAAGTGACGAACAATCC
* **
18105532 AAAGTACAAGTCAAAGTGGTGAACAATCC
1 AAAGTACAAGCCAAAGTGACGAACAATCC
* * * * * *
18105561 -CAGTGCAAGCCAATGTGGCGGACAGTCC
1 AAAGTACAAGCCAAAGTGACGAACAATCC
18105589 AAA
1 AAA
18105592 TGTGGCAAAC
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 21 0.45
29 26 0.55
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.13
Consensus pattern (29 bp):
AAAGTACAAGCCAAAGTGACGAACAATCC
Found at i:18105620 original size:18 final size:18
Alignment explanation
Indices: 18105572--18105626 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
18105562 AGTGCAAGCC
* *
18105572 AATGTGGCGGACAGTCCA
1 AATGTGGCGAACAATCCA
*
18105590 AATGTGGCAAACAATCCA
1 AATGTGGCGAACAATCCA
* *
18105608 AATGTGGTGAACAAGCCA
1 AATGTGGCGAACAATCCA
18105626 A
1 A
18105627 TGTCACGAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.16
Consensus pattern (18 bp):
AATGTGGCGAACAATCCA
Found at i:18120368 original size:24 final size:22
Alignment explanation
Indices: 18120316--18120369 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
18120306 TTACATTATA
*
18120316 CAATTCAGTTCATATATCATTT
1 CAATTCAATTCATATATCATTT
* *
18120338 CGCATTCAATATCATAGTCTCATTT
1 C-AATTCAAT-TCATA-TATCATTT
18120363 CAATTCA
1 CAATTCA
18120370 TCTTTAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 6 0.24
24 10 0.40
25 8 0.32
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (22 bp):
CAATTCAATTCATATATCATTT
Found at i:18124591 original size:26 final size:26
Alignment explanation
Indices: 18124562--18124624 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
18124552 TTAACCCAAC
*
18124562 AAAATTTTGAGGATTCTACCCTTGGT
1 AAAATTTTGAGGATTCTACCCCTGGT
* * * *
18124588 AAAATTTTGACGATTTTGCCCCTGTT
1 AAAATTTTGAGGATTCTACCCCTGGT
18124614 AAAATTTTGAG
1 AAAATTTTGAG
18124625 AAAATATGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (26 bp):
AAAATTTTGAGGATTCTACCCCTGGT
Found at i:18126797 original size:81 final size:82
Alignment explanation
Indices: 18126657--18126810 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
18126647 CTCGAATGAT
* * *
18126657 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
18126722 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
18126739 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
18126802 TTTATGCTA
65 TTTATGCTA
18126811 GTGACCATAC
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:18126825 original size:40 final size:41
Alignment explanation
Indices: 18126655--18126810 Score: 244
Period size: 41 Copynumber: 3.8 Consensus size: 41
18126645 TACTCGAATG
*
18126655 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
18126696 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
18126737 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
*
18126777 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
18126811 GTGACCATAC
Statistics
Matches: 106, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 35 0.33
41 69 0.65
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:18126839 original size:40 final size:39
Alignment explanation
Indices: 18126659--18126840 Score: 139
Period size: 41 Copynumber: 4.5 Consensus size: 39
18126649 CGAATGATAT
* * * * *
18126659 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATAT
1 CCGGGCTAAG-ACCGAAGGCATTTATGCT-AGCGACCATAC
* * * * * *
18126700 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTACAT
1 CCGGGCTAAG-ACCGAAGGCATTTATGCT-AGCGACCATAC
* * * *
18126741 CCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACTATAT
1 CCGGGCTAAGA-CCGAAGGCATTTATGCTAGCGACCATAC
* *
18126781 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATAC
1 CCGGGCTAAG-ACCGAAGGCATTTATGCTAGCGACCATAC
*
18126821 CCGGGTTAAGACCTGAAGGC
1 CCGGGCTAAGACC-GAAGGC
18126841 CTTGTGCGAG
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.02
40 58 0.46
41 65 0.52
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGACCGAAGGCATTTATGCTAGCGACCATAC
Found at i:18134296 original size:40 final size:41
Alignment explanation
Indices: 18134161--18134346 Score: 225
Period size: 41 Copynumber: 4.6 Consensus size: 41
18134151 TACTCGAATG
* *
18134161 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
18134202 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* * * *
18134243 ACATCCGGACTAAGAT-CTGAAGGCATTTGTTCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
18134283 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* * *
18134323 ATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
18134347 CTTGTGCGAG
Statistics
Matches: 127, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 59 0.46
41 66 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:18137758 original size:25 final size:25
Alignment explanation
Indices: 18137731--18137777 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18137721 GGAGATATCA
18137731 AAAAGCT-TTATGAGCTTCTTGAGT
1 AAAAGCTCTTATGAGCTTCTTGAGT
* *
18137755 AAAATCTCTTATGAGTTTCTTGA
1 AAAAGCTCTTATGAGCTTCTTGA
18137778 TTAGCTCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (25 bp):
AAAAGCTCTTATGAGCTTCTTGAGT
Found at i:18139064 original size:21 final size:21
Alignment explanation
Indices: 18139038--18139086 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
18139028 CTACATCTAG
18139038 GAAAATTTTAGAAATTTTGCT
1 GAAAATTTTAGAAATTTTGCT
18139059 GAAAATTTTAGAAATTTTGCT
1 GAAAATTTTAGAAATTTTGCT
*
18139080 TAAAATT
1 GAAAATT
18139087 CTCTTAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (21 bp):
GAAAATTTTAGAAATTTTGCT
Found at i:18148003 original size:38 final size:38
Alignment explanation
Indices: 18147954--18148064 Score: 195
Period size: 38 Copynumber: 2.9 Consensus size: 38
18147944 TTTCAAATTA
* *
18147954 ACATGTATAACCGTGGCATATCCACTTAGCGCCACGTT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACGTT
*
18147992 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACGTT
18148030 ACATGTTTAACCGTGGCATATCCACTTAGCACCAC
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCAC
18148065 ATTTTTCCAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 69 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (38 bp):
ACATGTTTAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:18149793 original size:26 final size:26
Alignment explanation
Indices: 18149764--18149817 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
18149754 ATCTTCACAT
18149764 TATCAATATCAGATCTTCTTATTGCA
1 TATCAATATCAGATCTTCTTATTGCA
18149790 TATCAATATCAGATCTTCTTATTGCA
1 TATCAATATCAGATCTTCTTATTGCA
18149816 TA
1 TA
18149818 CGATTCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (26 bp):
TATCAATATCAGATCTTCTTATTGCA
Found at i:18150358 original size:15 final size:15
Alignment explanation
Indices: 18150335--18150376 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
18150325 GAAGCCCAGA
18150335 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
18150350 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
18150365 ATAAGGAAATCC
1 ATAAGGAAATCC
18150377 CATTTACAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:18153663 original size:38 final size:38
Alignment explanation
Indices: 18153620--18153733 Score: 192
Period size: 38 Copynumber: 3.0 Consensus size: 38
18153610 TTTCAAATTA
* * *
18153620 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
18153658 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
*
18153696 ACATGTTTAACCGTGGTATATCCATTTAGCACCACATT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
18153734 TTTCCATTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 72 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (38 bp):
ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
Found at i:18156783 original size:166 final size:166
Alignment explanation
Indices: 18156509--18156843 Score: 670
Period size: 166 Copynumber: 2.0 Consensus size: 166
18156499 TATACTTTTA
18156509 ATTCTTTGCAATTTAGTCCCTAGGCTCGAAAAATAAAATTCATGAAAATTTATCCTTACCCAAGC
1 ATTCTTTGCAATTTAGTCCCTAGGCTCGAAAAATAAAATTCATGAAAATTTATCCTTACCCAAGC
18156574 CTATCCAATTACTATACATACTTATAGGAACCCATATATTTCATAAATTCACAAATTATACCATG
66 CTATCCAATTACTATACATACTTATAGGAACCCATATATTTCATAAATTCACAAATTATACCATG
18156639 TAAAATTTCTAATTTTCAATTTGATCTTTATTTGAC
131 TAAAATTTCTAATTTTCAATTTGATCTTTATTTGAC
18156675 ATTCTTTGCAATTTAGTCCCTAGGCTCGAAAAATAAAATTCATGAAAATTTATCCTTACCCAAGC
1 ATTCTTTGCAATTTAGTCCCTAGGCTCGAAAAATAAAATTCATGAAAATTTATCCTTACCCAAGC
18156740 CTATCCAATTACTATACATACTTATAGGAACCCATATATTTCATAAATTCACAAATTATACCATG
66 CTATCCAATTACTATACATACTTATAGGAACCCATATATTTCATAAATTCACAAATTATACCATG
18156805 TAAAATTTCTAATTTTCAATTTGATCTTTATTTGAC
131 TAAAATTTCTAATTTTCAATTTGATCTTTATTTGAC
18156841 ATT
1 ATT
18156844 TTTACCAAAA
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 169 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (166 bp):
ATTCTTTGCAATTTAGTCCCTAGGCTCGAAAAATAAAATTCATGAAAATTTATCCTTACCCAAGC
CTATCCAATTACTATACATACTTATAGGAACCCATATATTTCATAAATTCACAAATTATACCATG
TAAAATTTCTAATTTTCAATTTGATCTTTATTTGAC
Found at i:18162092 original size:30 final size:30
Alignment explanation
Indices: 18162033--18162092 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
18162023 TGAGTTGATG
* *
18162033 AGTATATGATGTTTGTGTATGATAGATGGT
1 AGTATATGATGTATGTGTATGATACATGGT
18162063 AGTATATGAATG-ATGTGTAT-ATATCATGGT
1 AGTATATG-ATGTATGTGTATGATA-CATGGT
18162093 TGTGGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 3 0.12
30 20 0.77
31 3 0.12
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.42
Consensus pattern (30 bp):
AGTATATGATGTATGTGTATGATACATGGT
Found at i:18168079 original size:40 final size:40
Alignment explanation
Indices: 18168030--18168229 Score: 182
Period size: 40 Copynumber: 5.0 Consensus size: 40
18168020 CAGAATTTAA
* ** *
18168030 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAGCTACTCGCACAAATGCCTTCGGGACTTAGC
* *
18168070 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGCTACTCGCACAAATGCCTTCGGGACTTAGC
*
18168110 CCGGATT-TAG-TAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGG-TTATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGC
* *
18168149 CCGG-AATTAG-TAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGTTA-TAGCT-ACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
18168189 CCGGATATAG-TCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGTTATAGCT-AC-TCGCACAAATGCCTTCGGGACTTAGC
18168229 C
1 C
18168230 TGGACATCAT
Statistics
Matches: 135, Mismatches: 16, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 88 0.65
41 14 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGTTATAGCTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:18168164 original size:79 final size:80
Alignment explanation
Indices: 18168051--18168229 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 80
18168041 TACTCGTTCA
* *
18168051 AATGCCTTCGGGACATAGCCCGGTTATAGCAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
18168115 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
* **
18168131 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGCAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
18168194 TATAGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
18168210 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
18168230 TGGACATCAT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 59 0.69
80 23 0.27
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:18173094 original size:40 final size:40
Alignment explanation
Indices: 18173057--18173240 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
18173047 GCTACTCGTT
*
18173057 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
18173097 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
18173137 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
18173176 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
18173217 CAAA-GCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
18173241 ACATCATTCG
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 75 0.64
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:18173225 original size:79 final size:80
Alignment explanation
Indices: 18173057--18173241 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
18173047 GCTACTCGTT
* * * *
18173057 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGG-CTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCA
* * *
18173121 GATTTAGTGACTCGCAC
64 GATATAGTCACTAGCAC
* **
18173138 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCAG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCAG
18173201 ATATAGTCACTTAGCA-
65 ATATAGTCAC-TAGCAC
*
18173217 CAAAGCCTTCGAGACTTAGCCCGGA
1 CAAAGCCTTCG-GGCTTAGCCCGGA
18173242 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 26 0.30
81 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCAGA
TATAGTCACTAGCAC
Found at i:18178636 original size:26 final size:26
Alignment explanation
Indices: 18178601--18178651 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
18178591 AATGTGAAAG
*
18178601 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
*
18178627 GGGGTTGCTAAGTGTTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
18178652 GTTCATTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.22, G:0.35, T:0.31
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:18178685 original size:103 final size:103
Alignment explanation
Indices: 18178524--18178745 Score: 349
Period size: 103 Copynumber: 2.2 Consensus size: 103
18178514 TGTATATAAA
** * *
18178524 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
*
18178589 GAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTACTGATTCCCCCG
* *
18178626 AGGGGTTGCTAAGTGTTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
18178690 TTGAAATGTGAAAGGGGGTTGCTATGTACTGATTCCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTACTGATTCCCCCG
18178730 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
18178746 GATATCCATT
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
102 26 0.24
103 62 0.57
104 21 0.19
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTACTGATTCCCCCG
Found at i:18178796 original size:71 final size:72
Alignment explanation
Indices: 18178664--18178815 Score: 234
Period size: 71 Copynumber: 2.1 Consensus size: 72
18178654 TCATTGGTGG
* * *
18178664 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTACTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAACGTAAAAGGGGGTTGCTATGTACTGATTCCCCC
18178729 GAGGGGT
66 GAGGGGT
*** *
18178736 TGCTAAGTGCGATATCCATTGTATATTTGAAACG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAACGTAAAAGGGGGTTGCTATGTACTGATTCCCCC
18178800 GAGGGGT
66 GAGGGGT
18178807 TGCTAAGTG
1 TGCTAAGTG
18178816 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 44 0.60
72 29 0.40
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAACGTAAAAGGGGGTTGCTATGTACTGATTCCCCC
GAGGGGT
Found at i:18185519 original size:16 final size:15
Alignment explanation
Indices: 18185494--18185527 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
18185484 AAAGTTGATA
*
18185494 ATAATTAATATATATT
1 ATAATAAATATA-ATT
18185510 ATAATAAATATAATT
1 ATAATAAATATAATT
18185525 ATA
1 ATA
18185528 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:18189914 original size:23 final size:23
Alignment explanation
Indices: 18189880--18189928 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
18189870 TTTCTTTCTG
18189880 TATATATTAAAATAATAAT-AAAA
1 TATATATTAAAATAA-AATCAAAA
*
18189903 TATA-ATTAAAAATCAAATCAAAA
1 TATATATT-AAAATAAAATCAAAA
18189926 TAT
1 TAT
18189929 TGATAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
TATATATTAAAATAAAATCAAAA
Found at i:18190256 original size:20 final size:20
Alignment explanation
Indices: 18190231--18190273 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18190221 GTTTTGAGTA
18190231 TTTACTCTTGGGAACAAAAC
1 TTTACTCTTGGGAACAAAAC
18190251 TTTACTCTTGGGAACAAAAC
1 TTTACTCTTGGGAACAAAAC
18190271 TTT
1 TTT
18190274 TCTCACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (20 bp):
TTTACTCTTGGGAACAAAAC
Found at i:18195443 original size:43 final size:43
Alignment explanation
Indices: 18195366--18195516 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
18195356 TATCCCAGAT
* *
18195366 ATGGTCTTACATGTTATCACAT-ACTGATGTCAATGTCCTAGAC
1 ATGGTCTTACATGTAATCACATAAC-GATGCCAATGTCCTAGAC
* * * *
18195409 ATGGTCTTACATGAAATCATATAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCTAGAC
* * * * *
18195452 ATGATCTTACATGTCATCACA-ATACAATTCTAATGTCCTAGAC
1 ATGGTCTTACATGTAATCACATA-ACGATGCCAATGTCCTAGAC
*
18195495 ATGGTCTTACATGTAATTACAT
1 ATGGTCTTACATGTAATCACAT
18195517 CTCGATAATC
Statistics
Matches: 87, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 84 0.97
44 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.32
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCTAGAC
Found at i:18212622 original size:43 final size:43
Alignment explanation
Indices: 18212575--18212714 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 43
18212565 TATCCCAGAT
* * *
18212575 ATGGTCTTACATGTTACCACATATCGATGCCTATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATATCGATGCCTATGTCCCAAAC
* ** * * *
18212618 ATGGTCTTACACGAAATCATGTAGCGATGCCAATGTCCCACAC
1 ATGGTCTTACACGTAATCACATATCGATGCCTATGTCCCAAAC
* *
18212661 ATGGTCTTACACGTAATCACA-ATACAATG-CTAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCT-ATGTCCCAAAC
18212704 ATGGTCTTACA
1 ATGGTCTTACA
18212715 TGAAACTACA
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.03
43 77 0.97
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCTATGTCCCAAAC
Found at i:18213372 original size:19 final size:20
Alignment explanation
Indices: 18213350--18213388 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18213340 TCAAGCATTC
18213350 ATCAATG-GAACTTCAAAAA
1 ATCAATGAGAACTTCAAAAA
*
18213369 ATCATTGAGAACTTCAAAAA
1 ATCAATGAGAACTTCAAAAA
18213389 TTAAGACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (20 bp):
ATCAATGAGAACTTCAAAAA
Found at i:18218557 original size:25 final size:25
Alignment explanation
Indices: 18218477--18218582 Score: 124
Period size: 25 Copynumber: 4.2 Consensus size: 25
18218467 GAGTTGAAGA
* * *
18218477 TCGGTATGCTATCTCAAGCTATAAT
1 TCGGTATGCTCTCACGAGCTATAAT
* * *
18218502 TAGATATGCTTTCACGAGCTATAAT
1 TCGGTATGCTCTCACGAGCTATAAT
*
18218527 TTGGTATGCTCTCACGAGCTAT-AT
1 TCGGTATGCTCTCACGAGCTATAAT
*
18218551 ATCGGTATGCTCCCACGAGCTATAAT
1 -TCGGTATGCTCTCACGAGCTATAAT
18218577 TCGGTA
1 TCGGTA
18218583 ACCCTAACGA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
24 2 0.03
25 65 0.94
26 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (25 bp):
TCGGTATGCTCTCACGAGCTATAAT
Found at i:18222097 original size:25 final size:25
Alignment explanation
Indices: 18222069--18222116 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18222059 TTATGTTATG
* * *
18222069 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
18222094 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18222117 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:18222334 original size:25 final size:25
Alignment explanation
Indices: 18222248--18222321 Score: 103
Period size: 26 Copynumber: 2.9 Consensus size: 25
18222238 GGAGGAAGTG
*
18222248 CAAAAGGGCTTATGACCCAGTTTAC
1 CAAAAGGGCTTATGCCCCAGTTTAC
*
18222273 CGAAAAGGGCTTATGCCCTAGTTTAC
1 C-AAAAGGGCTTATGCCCCAGTTTAC
*
18222299 CAAAAAAGGCTTATGCCCCAGTT
1 C-AAAAGGGCTTATGCCCCAGTT
18222322 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
CAAAAGGGCTTATGCCCCAGTTTAC
Found at i:18222580 original size:32 final size:32
Alignment explanation
Indices: 18222543--18222646 Score: 109
Period size: 39 Copynumber: 3.0 Consensus size: 32
18222533 CGTTTACAGT
18222543 AAAGGCTTCGGCCTAGTAATATGAAATATGAA
1 AAAGGCTTCGGCCTAGTAATATGAAATATGAA
*
18222575 AAAGGCTTCGGCCCAGTGTTATGCAATATGAAATATGAA
1 AAAGGCTTCGG-CC-----TA-GTAATATGAAATATGAA
** *
18222614 AAAGGCTTCGGCCTAGTGTTATGCAATATGAA
1 AAAGGCTTCGGCCTAGTAATATGAAATATGAA
18222646 A
1 A
18222647 TATGAAAAGG
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
32 25 0.42
33 4 0.07
38 4 0.07
39 27 0.45
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (32 bp):
AAAGGCTTCGGCCTAGTAATATGAAATATGAA
Found at i:18222614 original size:39 final size:39
Alignment explanation
Indices: 18222560--18222668 Score: 202
Period size: 39 Copynumber: 2.8 Consensus size: 39
18222550 TCGGCCTAGT
18222560 AATATGAAATATGAAAAAGGCTTCGGCCCAGTGTTATGC
1 AATATGAAATATGAAAAAGGCTTCGGCCCAGTGTTATGC
*
18222599 AATATGAAATATGAAAAAGGCTTCGGCCTAGTGTTATGC
1 AATATGAAATATGAAAAAGGCTTCGGCCCAGTGTTATGC
18222638 AATATGAAATATG-AAAAGGCTTCGGCCCAGT
1 AATATGAAATATGAAAAAGGCTTCGGCCCAGT
18222669 ATATGTTGAG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 17 0.25
39 51 0.75
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (39 bp):
AATATGAAATATGAAAAAGGCTTCGGCCCAGTGTTATGC
Found at i:18227986 original size:15 final size:15
Alignment explanation
Indices: 18227966--18228007 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
18227956 GCTGTAAATT
*
18227966 GGATTTCCTTATCAC
1 GGATTTCTTTATCAC
**
18227981 GGATTTCTTTATCTT
1 GGATTTCTTTATCAC
18227996 GGATTTCTTTAT
1 GGATTTCTTTAT
18228008 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCTTTATCAC
Found at i:18234444 original size:48 final size:48
Alignment explanation
Indices: 18234378--18234912 Score: 971
Period size: 48 Copynumber: 11.1 Consensus size: 48
18234368 GCGGAAATTG
*
18234378 ATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
18234426 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
18234474 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
18234522 ATGTATGAGATAAGTATATGTGGTAAAGCCAAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
18234570 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
18234618 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
18234666 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
18234714 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
18234762 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--AAAT
*
18234812 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
18234860 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
18234908 ATGTA
1 ATGTA
18234913 GGCGATGTGT
Statistics
Matches: 471, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 425 0.90
50 46 0.10
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:18236004 original size:48 final size:48
Alignment explanation
Indices: 18235933--18236292 Score: 630
Period size: 48 Copynumber: 7.5 Consensus size: 48
18235923 TGTTACACCA
18235933 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
18235981 AATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCAG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
18236029 AATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
18236077 AATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAGCTG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
18236125 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
18236173 AATGGTTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCG
18236223 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
18236271 AATGGCTAGTGTGAAATATGTA
1 AATGGCTAATGTGAAATATGTA
18236293 GGCGATGTGT
Statistics
Matches: 297, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 249 0.84
49 4 0.01
50 44 0.15
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.31
Consensus pattern (48 bp):
AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
Found at i:18236488 original size:37 final size:37
Alignment explanation
Indices: 18236438--18236509 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
18236428 GGAAATATAT
*
18236438 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
18236475 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
18236510 CATCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:18237382 original size:48 final size:48
Alignment explanation
Indices: 18237311--18237673 Score: 636
Period size: 48 Copynumber: 7.5 Consensus size: 48
18237301 GGGTGTTACA
18237311 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
*
18237359 CCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
* *
18237407 CAGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
*
18237455 CCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
*
18237503 CTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
* *
18237551 CCGAATGGTTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAG
1 CCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAG
18237601 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
*
18237649 CCGAATGGCTAGTGTGAAATATGTA
1 CCGAATGGCTAATGTGAAATATGTA
18237674 GGCGATGTGT
Statistics
Matches: 300, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 252 0.84
49 4 0.01
50 44 0.15
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
Found at i:18237869 original size:37 final size:37
Alignment explanation
Indices: 18237819--18237890 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
18237809 GGAAATATAT
*
18237819 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
18237856 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
18237891 CATCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:18239448 original size:41 final size:40
Alignment explanation
Indices: 18239397--18239538 Score: 185
Period size: 41 Copynumber: 3.5 Consensus size: 40
18239387 TGTAAACAAT
* *
18239397 GGCACTTATGTGCAATTCAAGGGTGCCGAAGTACAAACAGG
1 GGCACGTATGTGCAATTCAAGGGTACC-AAGTACAAACAGG
* *
18239438 GGCACGTATGTGCAATTCAGGGGTACCAGAGTACAAACAGA
1 GGCACGTATGTGCAATTCAAGGGTACCA-AGTACAAACAGG
* * *
18239479 GGCATGTATGTGCAATTTAAGGGTACAAAAGTACAAACAGG
1 GGCACGTATGTGCAATTCAAGGGTAC-CAAGTACAAACAGG
*
18239520 GGCATGTATGTGCAATTCA
1 GGCACGTATGTGCAATTCA
18239539 GGGAACAATT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 87 0.98
42 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (40 bp):
GGCACGTATGTGCAATTCAAGGGTACCAAGTACAAACAGG
Found at i:18242243 original size:39 final size:38
Alignment explanation
Indices: 18242193--18242292 Score: 137
Period size: 39 Copynumber: 2.6 Consensus size: 38
18242183 CGAATATAAT
* *
18242193 AATTATAATTACCATAATTATAATAATGTTTGACCGAAA
1 AATTATAATTACAATAATTATAATAATATTTGACCG-AA
* * *
18242232 AATTACAATTACAATAATTATAATAATATTTGATCGTA
1 AATTATAATTACAATAATTATAATAATATTTGACCGAA
*
18242270 AATTATAATTACAAAAATTATAA
1 AATTATAATTACAATAATTATAA
18242293 CAAGGATTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 22 0.41
39 32 0.59
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTTGACCGAA
Found at i:18247363 original size:28 final size:28
Alignment explanation
Indices: 18247323--18247379 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
18247313 AGACTTTAAG
18247323 AAACATGAAGTCCCCGATAGAATATTCA
1 AAACATGAAGTCCCCGATAGAATATTCA
*
18247351 AAACATGAAGTCCTCGATAGAATATTCA
1 AAACATGAAGTCCCCGATAGAATATTCA
18247379 A
1 A
18247380 TCTCCTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (28 bp):
AAACATGAAGTCCCCGATAGAATATTCA
Found at i:18252910 original size:17 final size:19
Alignment explanation
Indices: 18252876--18252915 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
18252866 AGTCATTCGG
18252876 GCCCATGTGGGCCAACAC-
1 GCCCATGTGGGCCAACACA
*
18252894 GCCCATGT-GGCCCACACA
1 GCCCATGTGGGCCAACACA
18252912 GCCC
1 GCCC
18252916 CAGAAATGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.20, C:0.45, G:0.25, T:0.10
Consensus pattern (19 bp):
GCCCATGTGGGCCAACACA
Found at i:18256231 original size:39 final size:39
Alignment explanation
Indices: 18256027--18256249 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
18256017 TTGAATGCTG
* * * * * *
18256027 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
18256067 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
18256107 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
18256147 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
18256187 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
18256226 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
18256250 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Done.