Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 91 of 349
Found at i:27503235 original size:40 final size:40
Alignment explanation
Indices: 27503201--27503540 Score: 304
Period size: 40 Copynumber: 8.6 Consensus size: 40
27503191 CCAGCATGAT
* * *
27503201 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
27503241 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
27503281 TGCTCTTTGGGACTTATCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
27503321 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
27503361 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* * * * *
27503402 TGC-CTTCGGGACTTA-ACCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
27503441 TGC-CTTCGGG--TTAGCCCGGA-ATTAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATA-TA-TCACTAGCACGAA
* *
27503479 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
27503519 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
27503541 CATCATTCGA
Statistics
Matches: 254, Mismatches: 36, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
37 5 0.02
38 27 0.11
39 30 0.12
40 171 0.67
41 21 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:27505443 original size:37 final size:37
Alignment explanation
Indices: 27505393--27505471 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27505383 TTATTACGAA
* * *
27505393 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27505430 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27505467 GTCTT
1 GTCTT
27505472 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27505905 original size:49 final size:47
Alignment explanation
Indices: 27505590--27506074 Score: 830
Period size: 47 Copynumber: 10.2 Consensus size: 47
27505580 CCCTTCGGGA
* * * * * *
27505590 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27505637 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505684 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505731 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505778 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505825 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505872 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505921 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27505970 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27506019 CTTATCACATATATACACTTTCACATT-ATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27506065 CTTA-CACATA
1 CTTATCACATA
27506075 GAATCCTAAA
Statistics
Matches: 426, Mismatches: 10, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
45 6 0.01
46 23 0.05
47 252 0.59
49 145 0.34
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27519664 original size:24 final size:25
Alignment explanation
Indices: 27519610--27519667 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
27519600 AACTGCCCTT
*
27519610 TTCTCTCCCCTTATCCCTCTCCTAAA
1 TTCTCT-CCCTAATCCCTCTCCTAAA
* **
27519636 ATCTCTCCCTAAT-CCTCTCCTCTA
1 TTCTCTCCCTAATCCCTCTCCTAAA
27519660 TTCTCTCC
1 TTCTCTCC
27519668 ATATAACACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 16 0.59
25 6 0.22
26 5 0.19
ACGTcount: A:0.14, C:0.47, G:0.00, T:0.40
Consensus pattern (25 bp):
TTCTCTCCCTAATCCCTCTCCTAAA
Found at i:27532919 original size:46 final size:47
Alignment explanation
Indices: 27532865--27532999 Score: 168
Period size: 46 Copynumber: 2.9 Consensus size: 47
27532855 TGGATATTTG
*
27532865 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGA
* *** * *
27532912 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGA
*
27532958 GGCATCCGAGCTCGTTGAGTTGAGTCC-AGTTCACTTATGGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT
27533000 CGTCACGTTG
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
45 5 0.07
46 38 0.53
47 29 0.40
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGA
Found at i:27533009 original size:35 final size:33
Alignment explanation
Indices: 27532970--27533070 Score: 105
Period size: 35 Copynumber: 3.0 Consensus size: 33
27532960 CATCCGAGCT
27532970 CGTTGAGTTGAGTCCAGTTCACTTATGGATCGTCA
1 CGTTGAGTTGAGTCCAGTTCACTTATGGAT-G-CA
* * ** * *
27533005 CGTTGAGTTGAGTCGAGTTGACGCATCCGA-GCT
1 CGTTGAGTTGAGTCCAGTTCACTTAT-GGATGCA
27533038 CGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 CGTTGAGTTGAGTCC-AGTTCACTTATGGATGC
27533071 GAACGAGCTC
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
33 17 0.33
34 11 0.21
35 22 0.42
36 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.32
Consensus pattern (33 bp):
CGTTGAGTTGAGTCCAGTTCACTTATGGATGCA
Found at i:27536065 original size:14 final size:14
Alignment explanation
Indices: 27536019--27536096 Score: 68
Period size: 14 Copynumber: 5.4 Consensus size: 14
27536009 GTATCTTGGG
*
27536019 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
*
27536034 TCT-TTTATTCTGGA
1 TTTCTTTATTC-GGA
*
27536048 TTTCTTTATTCGGG
1 TTTCTTTATTCGGA
* *
27536062 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
27536077 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
27536091 TTTCTT
1 TTTCTT
27536097 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
14 31 0.61
15 20 0.39
ACGTcount: A:0.10, C:0.17, G:0.14, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:27538518 original size:46 final size:47
Alignment explanation
Indices: 27538465--27538723 Score: 204
Period size: 46 Copynumber: 5.8 Consensus size: 47
27538455 TATTTGGGCA
* *
27538465 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATTC-AAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACTAAGCG
*** * * *
27538511 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACTAAGCG
* * * *
27538558 TCCGAGCTCGTTGAGTTGAGT-TGAG-TCACTTATGGATGC-GAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACTAAGCG
* * * *
27538602 TCCG-ACTCGTTGAGTTGAGT-CGAG---A--GATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACTAAGCG
** * *
27538641 TCCGAGGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACTAAGCG
* * *
27538687 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27538724 GCGGGTTACA
Statistics
Matches: 164, Mismatches: 37, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 14 0.09
41 5 0.03
43 18 0.11
44 12 0.07
45 3 0.02
46 71 0.43
47 30 0.18
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACTAAGCG
Found at i:27547077 original size:38 final size:38
Alignment explanation
Indices: 27547018--27547092 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
27547008 GTATTCAGGT
* * *
27547018 TAAATCCCGCAGGCTTCGTGCTAGTATTATATCCGGGA
1 TAAATCCCGCAAGCCTAGTGCTAGTATTATATCCGGGA
* *
27547056 TAAATCCCGCAAGCCTAGTGCTGGTATTATATTCGGG
1 TAAATCCCGCAAGCCTAGTGCTAGTATTATATCCGGG
27547093 CCTTCGTGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (38 bp):
TAAATCCCGCAAGCCTAGTGCTAGTATTATATCCGGGA
Found at i:27547146 original size:43 final size:43
Alignment explanation
Indices: 27547085--27547282 Score: 333
Period size: 43 Copynumber: 4.6 Consensus size: 43
27547075 GCTGGTATTA
* *
27547085 TATTCGGGCCTTCGTGCCTAGCAGGCTTGGTGTCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
*
27547128 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
*
27547171 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
* * *
27547214 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
27547257 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
27547283 ATAATGCCGA
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 148 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
Found at i:27547679 original size:45 final size:42
Alignment explanation
Indices: 27547612--27547719 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
27547602 TTGACTTGAT
* * *
27547612 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGTCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
27547657 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
27547699 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
27547720 ATAGGCAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:27548509 original size:27 final size:27
Alignment explanation
Indices: 27548455--27548575 Score: 215
Period size: 27 Copynumber: 4.4 Consensus size: 27
27548445 GGGTGTTACA
* *
27548455 AGAGCCACCAGAAACAGATATTTATGGC
1 AGAGCCACCAG-ATCAGATATTTGTGGC
27548483 AGAGCCACCAGATCAGATATTTGTGGC
1 AGAGCCACCAGATCAGATATTTGTGGC
27548510 AGAGCCACCAGATCAGATATTTGTGGC
1 AGAGCCACCAGATCAGATATTTGTGGC
27548537 AGAGCCACCAGATCAGATATTTGTGGC
1 AGAGCCACCAGATCAGATATTTGTGGC
27548564 AGAGCCACCAGA
1 AGAGCCACCAGA
27548576 ACGTTTCCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 80 0.88
28 11 0.12
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
AGAGCCACCAGATCAGATATTTGTGGC
Found at i:27552018 original size:54 final size:54
Alignment explanation
Indices: 27551932--27552042 Score: 186
Period size: 54 Copynumber: 2.1 Consensus size: 54
27551922 AACAGTAAAA
*
27551932 GATAGTTATATGCAAGGGCAGAAATTCATCCATTCATGCATTCATATGTATTTT
1 GATAGTTATATGCAAAGGCAGAAATTCATCCATTCATGCATTCATATGTATTTT
** *
27551986 GATAGTTATATGCAAAGGCAGAAATTTGTCCATTCATGCATTTATATGTATTTT
1 GATAGTTATATGCAAAGGCAGAAATTCATCCATTCATGCATTCATATGTATTTT
27552040 GAT
1 GAT
27552043 TGAGGACAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (54 bp):
GATAGTTATATGCAAAGGCAGAAATTCATCCATTCATGCATTCATATGTATTTT
Found at i:27558813 original size:3 final size:3
Alignment explanation
Indices: 27558805--27558832 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27558795 AACTAACAAG
27558805 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
27558833 CAAGTAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:27564930 original size:39 final size:40
Alignment explanation
Indices: 27564887--27565108 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
27564877 TCCTCGTTCA
* * * * *
27564887 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27564926 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27564966 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27565006 AATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
27565045 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
27565085 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27565109 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 3 0.02
39 63 0.39
40 89 0.55
41 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27564974 original size:79 final size:78
Alignment explanation
Indices: 27564885--27565108 Score: 270
Period size: 79 Copynumber: 2.8 Consensus size: 78
27564875 GCTCCTCGTT
* * *
27564885 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGA
27564950 TTTAATAACTCGCA
66 TTTAAT-ACTCGCA
* * *
27564964 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACTTAACCCGG
*
27565029 ATTTAGTACTCGCA
65 ATTTAATACTCGCA
* * * * * * * *
27565043 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAACTCA-CACAATGCCTTCGGGACTTAACCCG
27565107 GA
64 GA
27565109 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
78 3 0.02
79 89 0.72
80 32 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGA
TTTAATACTCGCA
Found at i:27565068 original size:119 final size:119
Alignment explanation
Indices: 27564887--27565108 Score: 279
Period size: 119 Copynumber: 1.9 Consensus size: 119
27564877 TCCTCGTTCA
* * * *
27564887 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
* *
27564952 TAATAAC-TCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAATAACTTAGCAC-AAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * **
27565006 AATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CTTAACCCGGA
* * *
27565069 TATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 TATAATAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
27565109 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
118 10 0.11
119 72 0.83
120 5 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
TAATAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27565117 original size:41 final size:41
Alignment explanation
Indices: 27565040--27565117 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27565030 TTTAGTACTC
* * *
27565040 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27565081 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27565118 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:27572932 original size:78 final size:77
Alignment explanation
Indices: 27572808--27573026 Score: 253
Period size: 78 Copynumber: 2.8 Consensus size: 77
27572798 TCCTCGTTCA
* * * * *
27572808 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAAAGCCTTCGGGACTTAACCCGGATT
27572873 TAATAACTCGCAC
66 T-ATAACTCGCAC
*
27572886 GAATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGAT
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAAAGCCTTCGGGACTTAACCCGGAT
* *
27572950 TTGTATCTCGCAC
65 TTATAACTCGCAC
* * * * * * *
27572963 AAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
27573027 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
75 3 0.02
76 21 0.17
77 11 0.09
78 61 0.50
79 26 0.21
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (77 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAAAGCCTTCGGGACTTAACCCGGATT
TATAACTCGCAC
Found at i:27572941 original size:38 final size:39
Alignment explanation
Indices: 27572806--27573026 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
27572796 GCTCCTCGTT
* * * * *
27572806 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAA-GCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
27572846 CAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
27572885 CGAATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCA
1 C-AAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
27572924 CAAAGCCTTCGGGACTTAACCCGGATTT-GTATCTCGCA
1 CAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * * *
27572962 CAAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAAGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
27573002 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAACCCGGA
27573027 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
37 4 0.03
38 53 0.34
39 41 0.26
40 57 0.36
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:27583078 original size:43 final size:43
Alignment explanation
Indices: 27583030--27583145 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
27583020 TGTGATTACA
* *
27583030 TGTAAGACCATGTCTAGGACATTGACATTGTATTGA-GATTGCG
1 TGTAAGACCATGTCTGGGACATTGACATCGTATT-ATGATTGCG
* * * *
27583073 TGTAAGACCATGTTTGGGACATTGGCATCGTATTATGGTTTCG
1 TGTAAGACCATGTCTGGGACATTGACATCGTATTATGATTGCG
* * *
27583116 TGTAAGACCCTGTCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGACATCG
27583146 ATATGTATCT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 62 0.98
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGACATCGTATTATGATTGCG
Found at i:27586436 original size:33 final size:33
Alignment explanation
Indices: 27586394--27586456 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
27586384 CACTTAGAAA
27586394 TTGTTTTGGAGAGCCACATATATCACAATTTTC
1 TTGTTTTGGAGAGCCACATATATCACAATTTTC
*
27586427 TTGTTTTGGAGAGTCACATATATCACAATT
1 TTGTTTTGGAGAGCCACATATATCACAATT
27586457 ATATCTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (33 bp):
TTGTTTTGGAGAGCCACATATATCACAATTTTC
Found at i:27593790 original size:13 final size:13
Alignment explanation
Indices: 27593772--27593797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27593762 ATATATATAT
27593772 AGCCGAAGCTATC
1 AGCCGAAGCTATC
27593785 AGCCGAAGCTATC
1 AGCCGAAGCTATC
27593798 TCAAATTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
AGCCGAAGCTATC
Found at i:27593942 original size:88 final size:88
Alignment explanation
Indices: 27593785--27593950 Score: 269
Period size: 88 Copynumber: 1.9 Consensus size: 88
27593775 CGAAGCTATC
* * * *
27593785 AGCCGAAGCTATCTCAAATTGCACAACAAGTGCCACTTTTAGCCAAAGCTATTTCGGACCGCACG
1 AGCCGAAGCTATCTCAAATTGCACAACAAGTGCCACTTTTAGCCAAAGCTATTTCGAACAGAACA
*
27593850 CTAAGTGCTATTTATATATATAT
66 CTAAGTGCCATTTATATATATAT
* *
27593873 AGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTTTAGCCGAAGCTATTTCGAACAGAACA
1 AGCCGAAGCTATCTCAAATTGCACAACAAGTGCCACTTTTAGCCAAAGCTATTTCGAACAGAACA
27593938 CTAAGTGCCATTT
66 CTAAGTGCCATTT
27593951 TCGCTAATAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (88 bp):
AGCCGAAGCTATCTCAAATTGCACAACAAGTGCCACTTTTAGCCAAAGCTATTTCGAACAGAACA
CTAAGTGCCATTTATATATATAT
Found at i:27593944 original size:40 final size:39
Alignment explanation
Indices: 27593872--27593951 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
27593862 TATATATATA
** *
27593872 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACAGAACACCAAGTGCCA-TTT
* * *
27593912 TAGCCGAAGCTATTTCGAACAGAACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACAGAACACCAAGTGCCATTT
27593951 T
1 T
27593952 CGCTAATAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACAGAACACCAAGTGCCATTT
Found at i:27597546 original size:27 final size:27
Alignment explanation
Indices: 27597516--27597693 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27597506 ATATTGAGTC
* * * *
27597516 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27597543 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27597570 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27597598 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27597625 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27597652 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27597679 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27597694 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27597655 original size:82 final size:81
Alignment explanation
Indices: 27597537--27597692 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27597527 TGCTATATAA
* *
27597537 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27597602 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27597619 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27597683 CACTTAGTGC
65 CACTTAGTGC
27597693 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27600989 original size:12 final size:13
Alignment explanation
Indices: 27600967--27600995 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27600957 TGGACTGCGA
27600967 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
27600980 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
27600993 TTT
1 TTT
27600996 ACACCCTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:27602193 original size:20 final size:20
Alignment explanation
Indices: 27602168--27602208 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27602158 ATAAAAACAC
*
27602168 TTTTTAAGTAATATACTATT
1 TTTTTAAGTAATACACTATT
27602188 TTTTTAAGTAATACACTATT
1 TTTTTAAGTAATACACTATT
27602208 T
1 T
27602209 GTTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTTAAGTAATACACTATT
Found at i:27602270 original size:4 final size:4
Alignment explanation
Indices: 27602253--27602284 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
27602243 AATGTTAAAG
27602253 TTAA TTATA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTA-A TTAA TTAA TTAA TTAA TTAA TTA
27602285 TTATTTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:27603145 original size:8 final size:7
Alignment explanation
Indices: 27603125--27603159 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
27603115 GGTATTCTAC
27603125 TTTTTCT
1 TTTTTCT
27603132 TTTTTCT
1 TTTTTCT
27603139 TTGTTTCTT
1 TT-TTTC-T
27603148 TTTTTCT
1 TTTTTCT
27603155 TTTTT
1 TTTTT
27603160 AGAATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.58
8 8 0.31
9 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:27603147 original size:15 final size:16
Alignment explanation
Indices: 27603127--27603156 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27603117 TATTCTACTT
27603127 TTTC-TTTTTTCTTTG
1 TTTCTTTTTTTCTTTG
27603142 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
27603157 TTTAGAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTCTTTG
Found at i:27605912 original size:59 final size:57
Alignment explanation
Indices: 27605846--27606034 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
27605836 ATTTTATTAA
27605846 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
27605905 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
27605966 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
27606025 ATCATATATT
1 ATCATATATT
27606035 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:27605943 original size:66 final size:64
Alignment explanation
Indices: 27605873--27606071 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
27605863 AAATATATTT
*
27605873 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
27605938 G
64 G
* * * * **
27605939 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
27605993 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
27606058 G
64 G
*
27606059 AATATTGATTATT
1 AATATTAATTATT
27606072 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:27605965 original size:120 final size:120
Alignment explanation
Indices: 27605835--27606132 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
27605825 AATTATTTTA
* * *
27605835 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
27605899 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
27605955 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
27606020 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
27606075 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
27606133 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:27605975 original size:61 final size:61
Alignment explanation
Indices: 27605908--27606095 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
27605898 TTATAGTATC
*
27605908 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
27605969 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
27606027 C
61 T
*
27606028 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
27606089 CTATATT
1 ATATATT
27606096 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:27605995 original size:15 final size:15
Alignment explanation
Indices: 27605960--27606011 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
27605950 TTAAGAATTT
*
27605960 TATTAAATTAT-ATA
1 TATTTAATTATAATA
27605974 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
27605988 TATTTAATAATAAT-
1 TATTTAATTATAATA
27606002 TATGTTAATT
1 TAT-TTAATT
27606012 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:27606367 original size:16 final size:16
Alignment explanation
Indices: 27606346--27606413 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
27606336 GATTTGCTAT
27606346 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27606362 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
27606378 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
27606394 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27606410 TACA
1 TACA
27606414 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:27606547 original size:26 final size:26
Alignment explanation
Indices: 27606505--27606554 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
27606495 CTAATTACTC
*
27606505 TAATTAAAAATATAATATTTAAAAAA
1 TAATTAAAAATATAATATGTAAAAAA
27606531 TAATTAAATAATA-AATATGTAAAA
1 TAATTAAA-AATATAATATGTAAAA
27606555 TCACATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
TAATTAAAAATATAATATGTAAAAAA
Found at i:27612043 original size:31 final size:31
Alignment explanation
Indices: 27611996--27612081 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
27611986 TATTTTCAAA
* *
27611996 GATTTTGGTTTCATGAGCCAGAAAGGAAAAAG
1 GATTCTGGCTTCATGAGCCAGAAAGG-AAAAG
27612028 G-TTCTGGCTTCATGAGCCAGAAAGGAAAAG
1 GATTCTGGCTTCATGAGCCAGAAAGGAAAAG
*
27612058 GATTCTGGCTTCATGAGTCAGAAA
1 GATTCTGGCTTCATGAGCCAGAAA
27612082 TAAACTCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 6 0.12
31 43 0.86
32 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (31 bp):
GATTCTGGCTTCATGAGCCAGAAAGGAAAAG
Found at i:27612483 original size:29 final size:29
Alignment explanation
Indices: 27612450--27612507 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
27612440 ACATCACAAA
27612450 ATGTTAAAATT-T-ATTAATAATATATTTTT
1 ATGTT-AAATTATAATTAA-AATATATTTTT
27612479 ATGTTAAATTATAAATTAAAATATATTTT
1 ATGTTAAATTAT-AATTAAAATATATTTT
27612508 AAAAACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 5 0.19
29 6 0.23
30 10 0.38
31 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
ATGTTAAATTATAATTAAAATATATTTTT
Found at i:27614143 original size:28 final size:28
Alignment explanation
Indices: 27614111--27614180 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
27614101 AATGAGATTG
27614111 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
27614139 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
27614167 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27614181 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:27617961 original size:11 final size:11
Alignment explanation
Indices: 27617945--27617987 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
27617935 CCATTTTCTA
27617945 AATAAAATATT
1 AATAAAATATT
27617956 AAT-AAATATCT
1 AATAAAATAT-T
27617967 AAGTAAAATATT
1 AA-TAAAATATT
*
27617979 GATAAAATA
1 AATAAAATA
27617988 ATTTTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.21
11 13 0.46
12 3 0.11
13 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:27617973 original size:23 final size:23
Alignment explanation
Indices: 27617941--27617984 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
27617931 ACTACCATTT
27617941 TCTAAATAAAATATTAATAAATA
1 TCTAAATAAAATATTAATAAATA
* *
27617964 TCTAAGTAAAATATTGATAAA
1 TCTAAATAAAATATTAATAAA
27617985 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TCTAAATAAAATATTAATAAATA
Found at i:27619745 original size:43 final size:43
Alignment explanation
Indices: 27619609--27619761 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 43
27619599 ACATAGGATC
* *
27619609 CGATATGTG-TTTCCGTGTAAGACCAC-GTCTGGGACATTGGCAT
1 CGATATTTGATTTACGTGTAAGACC-CTGTCTGGGACA-TGGCAT
* * * *
27619652 CGACT-TATGATTTATGTATAAGACCATGTCTGGGACATCGGCAT
1 CGA-TATTTGATTTACGTGTAAGACCCTGTCTGGGACAT-GGCAT
*
27619696 CG-TATTTGATTT-CGTGTAAGACCCTATCTGGGACAGTGGCAT
1 CGATATTTGATTTACGTGTAAGACCCTGTCTGGGACA-TGGCAT
*
27619738 CGATATTTGA-TTACATGTAAGACC
1 CGATATTTGATTTACGTGTAAGACC
27619762 ACGTCTAGGA
Statistics
Matches: 91, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
42 29 0.32
43 32 0.35
44 30 0.33
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTTACGTGTAAGACCCTGTCTGGGACATGGCAT
Found at i:27619780 original size:43 final size:42
Alignment explanation
Indices: 27619624--27619767 Score: 150
Period size: 44 Copynumber: 3.4 Consensus size: 42
27619614 TGTGTTTCCG
* *
27619624 TGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATTTA
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGATTCA
* * *
27619666 TGTATAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACATTGGCATCGATATTTGA-TTCA
* *
27619710 TGTAAGACC-CTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATT-CA
27619753 TGTAAGACCACGTCT
1 TGTAAGACCACGTCT
27619768 AGGATGTTGG
Statistics
Matches: 83, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
42 28 0.34
43 24 0.29
44 31 0.37
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTCA
Found at i:27624635 original size:43 final size:42
Alignment explanation
Indices: 27624480--27624636 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
27624470 TGTGTTTTCG
* * *
27624480 TGTAAGACCACGTCTGTGACATTGGCATCGACT-TATGATTTA
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGATTCA
* * * *
27624522 TGTATAAGACCATGTCTAGGACATCGGCATCG-TATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACATTGGCATCGATATTTGA-TTCA
* *
27624566 TGTAAGACC-CTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATT-CA
**
27624609 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
27624637 TTTACGAGCT
Statistics
Matches: 90, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 27 0.30
43 34 0.38
44 29 0.32
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTCA
Found at i:27626202 original size:56 final size:56
Alignment explanation
Indices: 27626141--27626275 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
27626131 CCATGGCATC
* *
27626141 GATATATATGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATAGGTTGGCATCGATATGTGATTCT
* *
27626197 GATATATGTGCGCGAGTAAGGCCACGTTTAATAGGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATAGGTTGGCATCGATATGTGATTCT
27626253 G-TAATATGTGTGCGAGTAAGACC
1 GAT-ATATGTGTGCGAGTAAGACC
27626276 CTACTGGACA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
55 1 0.01
56 71 0.99
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATAGGTTGGCATCGATATGTGATTCT
Found at i:27633717 original size:45 final size:45
Alignment explanation
Indices: 27633653--27633826 Score: 217
Period size: 45 Copynumber: 3.8 Consensus size: 45
27633643 TGTAACCCGC
*
27633653 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
27633698 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
27633744 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
27633791 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
27633827 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 36 0.33
46 33 0.30
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:27633819 original size:93 final size:92
Alignment explanation
Indices: 27633661--27633830 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
27633651 GCCCATAAGT
*
27633661 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
27633726 GAGCTCGGATGCCTAGTTACATCTCTC
66 GAGCTCGGATGCCTAGTTACATCTCTC
*
27633753 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27633818 CGAGTTCGGATGC
65 CGAGCTCGGATGC
27633831 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 27 0.36
93 47 0.64
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:27633846 original size:46 final size:46
Alignment explanation
Indices: 27633658--27633846 Score: 144
Period size: 46 Copynumber: 4.1 Consensus size: 46
27633648 CCCGCCCATA
* * *
27633658 AGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
27633702 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
27633752 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
27633796 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
27633842 AGTGA
1 AGTGA
27633847 CATGTCACTT
Statistics
Matches: 116, Mismatches: 12, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
44 9 0.08
45 32 0.28
46 34 0.29
47 30 0.26
49 4 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:27636235 original size:15 final size:16
Alignment explanation
Indices: 27636209--27636271 Score: 78
Period size: 15 Copynumber: 4.1 Consensus size: 16
27636199 CAAGGAAACC
27636209 GAATAAAGAAATCCAA
1 GAATAAAGAAATCCAA
* *
27636225 G-ATAGAGAAAT-CTA
1 GAATAAAGAAATCCAA
27636239 GAATAAAGAAATCC-A
1 GAATAAAGAAATCCAA
*
27636254 GAATAAAGAAACCCAA
1 GAATAAAGAAATCCAA
27636270 GA
1 GA
27636272 TACGATACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 3 0.08
15 32 0.80
16 5 0.12
ACGTcount: A:0.59, C:0.13, G:0.16, T:0.13
Consensus pattern (16 bp):
GAATAAAGAAATCCAA
Found at i:27639239 original size:46 final size:46
Alignment explanation
Indices: 27639187--27639364 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
27639177 TGTAACCCGC
* *
27639187 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * * *
27639233 CCATAAGTGAACTCAGACTCAACTCAACGAGCACGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * **
27639279 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
27639326 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
27639365 CTCAACCATC
Statistics
Matches: 104, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
46 71 0.68
47 33 0.32
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:27639307 original size:93 final size:93
Alignment explanation
Indices: 27639195--27639365 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
27639185 GCCCATAAGT
***
27639195 GAACTCGGACTCAACTCAACAAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
27639260 CGAGCACGGATGCCTAGTTACATCTCTC
66 CGAGCACGGATGCCTAGTTACATCTCTC
* * *
27639288 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
**
27639353 CGAGTTCGGATGC
66 CGAGCACGGATGC
27639366 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCACGGATGCCTAGTTACATCTCTC
Found at i:27880951 original size:92 final size:92
Alignment explanation
Indices: 27880794--27880963 Score: 277
Period size: 92 Copynumber: 1.8 Consensus size: 92
27880784 GGATATTTGG
* * *
27880794 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
27880859 TGAGTCCGAGTTCGAGAGATGTAACTA
66 TGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
27880886 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
27880951 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27880964 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:27880968 original size:46 final size:46
Alignment explanation
Indices: 27880797--27880971 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 46
27880787 TATTTGGGCA
* * *
27880797 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *** * * * * *
27880843 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACG
*
27880889 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
27880935 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27880972 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
45 5 0.05
46 95 0.91
47 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:27891162 original size:40 final size:40
Alignment explanation
Indices: 27891105--27891289 Score: 284
Period size: 40 Copynumber: 4.6 Consensus size: 40
27891095 CGAATGATAA
* * *
27891105 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
27891145 CCGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
*
27891185 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27891225 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
27891265 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27891290 AGCAAGTAGT
Statistics
Matches: 134, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 131 0.98
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27891589 original size:22 final size:21
Alignment explanation
Indices: 27891548--27891591 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
27891538 GAATGTGCAT
27891548 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
27891570 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
27891592 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:27899278 original size:40 final size:40
Alignment explanation
Indices: 27899220--27899444 Score: 346
Period size: 40 Copynumber: 5.6 Consensus size: 40
27899210 CGGATGATAA
* * *
27899220 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
27899260 TCGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
*
27899300 CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27899340 CCAGGCTAAGTCCCGAAGGCATATGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27899380 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
27899420 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27899445 AGCAAGTAGT
Statistics
Matches: 170, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 1 0.01
40 167 0.98
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27899744 original size:22 final size:21
Alignment explanation
Indices: 27899703--27899746 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
27899693 GAATGTGCAT
27899703 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
27899725 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
27899747 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:27908373 original size:19 final size:19
Alignment explanation
Indices: 27908351--27908388 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
27908341 TCCTAATATT
27908351 TAATATATTT-ATAATTTTA
1 TAATAT-TTTAATAATTTTA
27908370 TAATATTTTAATAATTTTA
1 TAATATTTTAATAATTTTA
27908389 AAAAATTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TAATATTTTAATAATTTTA
Found at i:27913933 original size:46 final size:50
Alignment explanation
Indices: 27913822--27913948 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 50
27913812 TGCCATGTCT
** * *
27913822 TCGAC-ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATA
1 TCGACTATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATA
* *
27913871 TCTACTATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATAT-T-
1 TCGACTATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATA
* *
27913919 T-GA-TATGGATTTACATGGCTCATTTCTGTC
1 TCGACTATGGACTTACATGGCTCATTCCTGTC
27913949 CTGTCCTGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 24 0.36
47 1 0.01
48 1 0.01
49 5 0.07
50 36 0.54
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (50 bp):
TCGACTATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATA
Found at i:27932528 original size:53 final size:54
Alignment explanation
Indices: 27932400--27932654 Score: 220
Period size: 55 Copynumber: 4.8 Consensus size: 54
27932390 ACACGGGTAC
* ** * *
27932400 CTTACCATTGCCATGATTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
27932449 CTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* ** * *
27932502 CTCACCAATGCCATGCCTTGGGATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
27932557 CTTATCAATGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
27932610 CCTTAACAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
27932655 AAACCCTAAT
Statistics
Matches: 165, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
49 35 0.21
50 1 0.01
52 2 0.01
53 47 0.28
54 10 0.06
55 68 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:27932591 original size:108 final size:110
Alignment explanation
Indices: 27932447--27932644 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 110
27932437 ATCCTTTTGA
* * *
27932447 AACTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTA-GAAACCTCAACAA
*
27932510 -TGCCATGCCTTGGGATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * ** *
27932555 AACTTATCAATGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTAGAAACCTTAACAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCAACAAT
27932620 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
27932645 CGGTATCCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.60
109 6 0.08
110 24 0.31
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCAACAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:27939501 original size:16 final size:16
Alignment explanation
Indices: 27939482--27939512 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27939472 CTTCTTCACT
27939482 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
27939498 TACTTACTTACTTAA
1 TACTCACTTACTTAA
27939513 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:27939518 original size:20 final size:20
Alignment explanation
Indices: 27939479--27939518 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27939469 AAACTTCTTC
* *
27939479 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
27939499 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
27939519 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:27939837 original size:53 final size:54
Alignment explanation
Indices: 27939709--27939963 Score: 238
Period size: 55 Copynumber: 4.8 Consensus size: 54
27939699 ACACAGGTAC
* * * *
27939709 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
27939758 CTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* ** * *
27939811 CTCACCAATGCCATGCCTTGGGATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
27939866 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
27939919 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
27939964 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 2 0.01
53 47 0.28
54 10 0.06
55 69 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:27939900 original size:108 final size:110
Alignment explanation
Indices: 27939756--27939953 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 110
27939746 ATCCTTTTGA
* *
27939756 AACTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTA-GAAACCTCACCAA
*
27939819 -TGCCATGCCTTGGGATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * ** *
27939864 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
*
27939929 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
27939954 CGGTATCCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.60
109 7 0.09
110 23 0.29
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:27942048 original size:45 final size:45
Alignment explanation
Indices: 27941984--27942292 Score: 399
Period size: 45 Copynumber: 6.8 Consensus size: 45
27941974 GGAAAGAACT
* *
27941984 GGTGAAATGTTATTCGGGCCTTTGAGGCTAGCAGGCTATAATGCC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* *
27942029 GGTGAAATGTTATTCGGGCCTTTGAGCCTTGCAGGCTATAATGCC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
27942074 AGTGACAGTGAGATGTTATTCGGGCCTTTGAGACTAGCAGGCTATAATGCC
1 ---G---GTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
**
27942125 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTT
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
27942170 GGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
** * *
27942215 GGTGAGATACTATTCGGG-CTTTCGAGCCTAACAGGCTATAATACC
1 GGTGAGATGTTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
* * *
27942260 GGTGAAATGATA-TCGGGCC-TCGAGCCTAGCAGG
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGG
27942293 TGAAATGCCA
Statistics
Matches: 237, Mismatches: 19, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
43 11 0.05
44 10 0.04
45 173 0.73
48 2 0.01
51 41 0.17
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (45 bp):
GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
Found at i:27942159 original size:96 final size:90
Alignment explanation
Indices: 27941983--27942256 Score: 388
Period size: 96 Copynumber: 3.0 Consensus size: 90
27941973 GGGAAAGAAC
* * *
27941983 TGGTGAAATGTTATTCGGGCCTTTGAGGCTAGCAGGCTATAATGCCGGTGAAATGTTATTCGGGC
1 TGGTGAGATGTTATTCGGGCCTTTGAGACTAGCAGGCTATAATGCCGGTGAGATGTTATTCGGGC
*
27942048 CTTTGAGCCTTGCAGGCTATAATGCCAG
66 CTTTGAGCCTAGCAGGCTATAATG---G
27942076 TGACAGTGAGATGTTATTCGGGCCTTTGAGACTAGCAGGCTATAATGCCGGTGAGATGTTATTCG
1 TG---GTGAGATGTTATTCGGGCCTTTGAGACTAGCAGGCTATAATGCCGGTGAGATGTTATTCG
*
27942141 GGCCTTTGAGCCTAGCAGGCTATAATGT
63 GGCCTTTGAGCCTAGCAGGCTATAATGG
* * **
27942169 TGGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-
1 TGGTGAGATGTTATTCGGGCCTTTGAGACTAGCAGGCTATAATGCCGGTGAGATGTTATTCGGGC
*
27942233 CTTTCGAGCCTAACAGGCTATAAT
66 CTTT-GAGCCTAGCAGGCTATAAT
27942257 ACCGGTGAAA
Statistics
Matches: 167, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
89 4 0.02
90 76 0.46
93 4 0.02
96 83 0.50
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (90 bp):
TGGTGAGATGTTATTCGGGCCTTTGAGACTAGCAGGCTATAATGCCGGTGAGATGTTATTCGGGC
CTTTGAGCCTAGCAGGCTATAATGG
Found at i:27944582 original size:22 final size:22
Alignment explanation
Indices: 27944554--27944604 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
27944544 GGACTGTTTT
27944554 GATAAATGTGAATATTAAATAA
1 GATAAATGTGAATATTAAATAA
27944576 GATAAATGTGAATATTAAATAA
1 GATAAATGTGAATATTAAATAA
*
27944598 GTTAAAT
1 GATAAAT
27944605 TTTCTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (22 bp):
GATAAATGTGAATATTAAATAA
Found at i:27956584 original size:46 final size:44
Alignment explanation
Indices: 27956531--27956657 Score: 141
Period size: 46 Copynumber: 2.8 Consensus size: 44
27956521 TTGAGACGAG
* *
27956531 AGCTAGTGTAAGACATGTTTGGGACATGTATCAGCCT-CGAGATGTA
1 AGCTAGTGTAAGACATGTTTGGGACATGCATC-GACTACGAG-T-TA
* *
27956577 AGCTAGTGTAAGACAT-TTCTTGGACATGCATCGACTACGAGTTG
1 AGCTAGTGTAAGACATGTT-TGGGACATGCATCGACTACGAGTTA
*
27956621 AGCTAGTGTAAGACCATGTTCGGGACATGGCATCGAC
1 AGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGAC
27956658 ATCCTACCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
44 14 0.20
45 15 0.21
46 41 0.59
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (44 bp):
AGCTAGTGTAAGACATGTTTGGGACATGCATCGACTACGAGTTA
Found at i:27959806 original size:47 final size:47
Alignment explanation
Indices: 27959688--27959859 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 47
27959678 GGATGGTTGA
*
27959688 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
27959736 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
27959779 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
27959828 -C-GCCGAGCTCGTTGAGTTGAGTCC-AGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
27959860 TAGGGGCGGG
Statistics
Matches: 107, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 8 0.07
45 24 0.22
46 30 0.28
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:27967288 original size:46 final size:46
Alignment explanation
Indices: 27967238--27967407 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
27967228 TGGTTGAGCA
27967238 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27967284 TCCGAACTCGTTGAGTTGAGT--GAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
27967327 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27967375 CCCGAGCTCGTTGAGTTGAG-CCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27967408 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 10, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
40 2 0.02
41 5 0.05
43 3 0.03
44 6 0.06
45 34 0.33
46 39 0.38
47 6 0.06
48 2 0.02
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:27972483 original size:51 final size:51
Alignment explanation
Indices: 27972400--27972511 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
27972390 TATCCGGATA
* *
27972400 AAATATGAAGCTCTTGCTAAAGCTAGAGCAACAAAGTAATTATTCCAGATG
1 AAATATGAAGCTCTTGCTAAAGCTAGACCAACAAAGTAATAATTCCAGATG
* * * * * *
27972451 AAATTTGAAGCTCTTGTTGAAGTTAGACCAACAAGGTAATAATTCCGGATG
1 AAATATGAAGCTCTTGCTAAAGCTAGACCAACAAAGTAATAATTCCAGATG
*
27972502 AACTATGAAG
1 AAATATGAAG
27972512 TAAGTTTGAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (51 bp):
AAATATGAAGCTCTTGCTAAAGCTAGACCAACAAAGTAATAATTCCAGATG
Found at i:27974069 original size:28 final size:28
Alignment explanation
Indices: 27974016--27974099 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
27974006 CACTTTGTGC
27974016 TATTCTAGTGTGTTTTGGATGGATTATAT
1 TATTCTAGTGTGTTTTGGA-GGATTATAT
* *
27974045 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTAGTGTGTTTTGGAGGATTATAT
* * *
27974073 GATACTAGTGTATTTTGGAGGATTATA
1 TATTCTAGTGTGTTTTGGAGGATTATA
27974100 CTAGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 31 0.65
29 17 0.35
ACGTcount: A:0.23, C:0.04, G:0.27, T:0.46
Consensus pattern (28 bp):
TATTCTAGTGTGTTTTGGAGGATTATAT
Found at i:27974311 original size:23 final size:23
Alignment explanation
Indices: 27974281--27974367 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 23
27974271 GCTTTACTGA
*
27974281 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* *
27974304 TCAGGCACCTTGTGTGTCGCA--
1 TCAGGCACCTTATGTGTCGTATT
**
27974325 TCAGGCACCTCGTGTGTC--ATT
1 TCAGGCACCTTATGTGTCGTATT
*
27974346 TCAGGCA-CTTATGTGTCATATT
1 TCAGGCACCTTATGTGTCGTATT
27974368 CTGATCAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 1 0.02
20 8 0.15
21 24 0.44
22 3 0.06
23 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:27975604 original size:46 final size:46
Alignment explanation
Indices: 27975430--27975614 Score: 142
Period size: 46 Copynumber: 3.8 Consensus size: 46
27975420 ATTGACGGAA
*
27975430 AAGACCATGGTT-GGATCATGGCATCAGTGTGATATATGA-CCTGTGT
1 AAGACCATGGTTGGGAT-ATGGCATCAGTGTGATATGTGATCC-GTGT
* * * * * * *
27975476 AAGACCCTAGCTGGGCTATGGCATCAGAGATATGTGATTACGTGCTTCCGTAT
1 AAGACCATGGTTGGGATATGGCATC--AG---TGTGA-TATGTG-ATCCGTGT
* *
27975529 AAGACCAT-ATTAGGATATGGCATCAGTGTGATATGTGATCCGTGT
1 AAGACCATGGTTGGGATATGGCATCAGTGTGATATGTGATCCGTGT
* *
27975574 AAGACCATGGTTGGGCTATGGCTTCAGTGTGTGATATGTGA
1 AAGACCATGGTTGGGATATGGCATCA--GTGTGATATGTGA
27975615 CTATGTGCAA
Statistics
Matches: 107, Mismatches: 20, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
45 14 0.13
46 35 0.33
47 8 0.07
48 15 0.14
50 2 0.02
51 5 0.05
52 16 0.15
53 10 0.09
54 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (46 bp):
AAGACCATGGTTGGGATATGGCATCAGTGTGATATGTGATCCGTGT
Found at i:27977994 original size:51 final size:51
Alignment explanation
Indices: 27977883--27977994 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 51
27977873 TATCCGAATA
* * *
27977883 AAATATGCAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTATTCCGGATG
1 AAATATGAAGCTATTGTTAAAGCTAGAGCAACAAAGTAATAATTCCGGATG
* * * *
27977934 AAATTTGAAGCTATTGTTGAAGTTAGAGCAACAAGGTAATAATTCCGGATG
1 AAATATGAAGCTATTGTTAAAGCTAGAGCAACAAAGTAATAATTCCGGATG
*
27977985 AAGTATGAAG
1 AAATATGAAG
27977995 TAAGTTTGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (51 bp):
AAATATGAAGCTATTGTTAAAGCTAGAGCAACAAAGTAATAATTCCGGATG
Found at i:27980534 original size:18 final size:18
Alignment explanation
Indices: 27980484--27980535 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
27980474 CTTTGTATGG
* *
27980484 GTGTAAGTCCCGAACGCC
1 GTGTAAGTCCCAAATGCC
* *
27980502 GGGTAAGTCCTAAATGCC
1 GTGTAAGTCCCAAATGCC
27980520 GTGTAAGTCCCAAATG
1 GTGTAAGTCCCAAATG
27980536 TCTTTATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (18 bp):
GTGTAAGTCCCAAATGCC
Found at i:27982427 original size:47 final size:48
Alignment explanation
Indices: 27982355--27982525 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 48
27982345 GGGTTATTGT
* *
27982355 GAGCTAGTGTAAGACATGTCCGGGACATGGCATCGGCATTGAGACG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGTA
* * * *
27982402 GAGCTAGTGTATGACATGTTTGGGACAT-GCATCAGCCTTGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGTA
* * * *
27982449 -AGCCAGTGTAAGACATGTCTGGGACAT-GCAT-TG-ACT-ACGA-GTT
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGA-GACGTA
*
27982492 GAGCTAGTGTAAGACCATGTCCGGGACATGGCAT
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCAT
27982526 TGGCATCCTA
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
43 3 0.03
44 15 0.14
45 14 0.13
46 46 0.44
47 26 0.25
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGTA
Found at i:27991282 original size:5 final size:5
Alignment explanation
Indices: 27991272--27991352 Score: 67
Period size: 5 Copynumber: 15.0 Consensus size: 5
27991262 TGAATCCTCC
27991272 TATTT TATTTT TATTT T-TATT TATTTT TATTT TATTT TA-TT TATTT
1 TATTT TA-TTT TATTT TAT-TT TA-TTT TATTT TATTT TATTT TATTT
*
27991318 TATTCT TATTTT TCTTT TGATTTT TATTT TCATTT
1 TATT-T TA-TTT TATTT T-A-TTT TATTT T-ATTT
27991353 CAATTTTCTT
Statistics
Matches: 64, Mismatches: 2, Indels: 19
0.75 0.02 0.22
Matches are distributed among these distances:
4 5 0.08
5 33 0.52
6 19 0.30
7 7 0.11
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:27991285 original size:6 final size:6
Alignment explanation
Indices: 27991274--27991352 Score: 74
Period size: 6 Copynumber: 13.3 Consensus size: 6
27991264 AATCCTCCTA
*
27991274 TTTTAT TTTTAT TTTTA- -TTTAT TTTTA- TTTTAT TTTATTT ATTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT
* * * *
27991321 TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
27991353 CAATTTTCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
4 4 0.07
5 5 0.08
6 43 0.73
7 4 0.07
8 3 0.05
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:27991296 original size:16 final size:15
Alignment explanation
Indices: 27991275--27991340 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 15
27991265 ATCCTCCTAT
27991275 TTTATTTTTATTTTTA
1 TTTATTTTTA-TTTTA
27991291 TTTATTTTTATTTTA
1 TTTATTTTTATTTTA
*
27991306 TTT-TATTTATTTTA
1 TTTATTTTTATTTTA
*
27991320 TTCTTATTTTTCTTTTGA
1 -T-TTATTTTTATTTT-A
27991338 TTT
1 TTT
27991341 TTATTTTCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 10 0.23
15 9 0.21
16 14 0.33
17 9 0.21
18 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTATTTTTATTTTA
Found at i:27995492 original size:66 final size:65
Alignment explanation
Indices: 27995400--27995586 Score: 266
Period size: 66 Copynumber: 2.8 Consensus size: 65
27995390 AACACTCAGT
* * * *
27995400 ACCACCCATGTGACCTAGCAAATTTATCTCGTAGCTATCTTGTCTACATGGTGTCCTTCACCTGG
1 ACCACGCATGCGACCTAGC-CATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
27995465 A
65 A
* *
27995466 ACCACGCATGCGACCTAGCCAGTTTATCTTGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGG
1 ACCACGCATGCGACCTAGCCA-TTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
27995531 A
65 A
* *
27995532 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 ACCACGCATGCGACCTAGC--CATTTATCTCGTAGCTCTCTTGTCTACATGGTGT
27995587 ACACACAGTA
Statistics
Matches: 109, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
65 1 0.01
66 77 0.71
67 29 0.27
68 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (65 bp):
ACCACGCATGCGACCTAGCCATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGA
Found at i:27998733 original size:281 final size:281
Alignment explanation
Indices: 27998230--27998777 Score: 965
Period size: 281 Copynumber: 2.0 Consensus size: 281
27998220 CTAATTGTTC
* *
27998230 ATGCATGCATGTGTTAATGCCTTGATGATCTGCTATGTGTCTTGTTTGATAGATAAGAATGGGTA
1 ATGCATGCATGTGTTAATGCCTTGATGATCTGCTATGTGTCTTGTTTGATAGATAAGAAGGGGCA
*
27998295 TGAATTAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGTAT
66 TGAATAAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGTAT
*
27998360 AATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGTTG
131 AATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGGTG
*
27998425 TGACTAATTGAATGTGTAATAGGATGACATTACAAAGATGTGAAAGTGCCATGTTGTTGAATAAT
196 TGACTAATTGAATGTGTAATAGGATGACATTACAAAGAAGTGAAAGTGCCATGTTGTTGAATAAT
27998490 TGAGTGTGTAATTGTTCATGA
261 TGAGTGTGTAATTGTTCATGA
* * * *
27998511 ATGCATGCATTTGTTAATGCGTTGATGA-CGTGCTATGTGGT-TTGTTTGATGGATATGAAGGGG
1 ATGCATGCATGTGTTAATGCCTTGATGATC-TGCTATGT-GTCTTGTTTGATAGATAAGAAGGGG
27998574 CATGAATAAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGT
64 CATGAATAAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGT
27998639 ATAATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGG
129 ATAATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGG
* *
27998704 TGTGACTAATTGAATGTGTAATAGGATGACATTACGAAGAAGTGAAAGTGCCATGTTGTTGAATT
194 TGTGACTAATTGAATGTGTAATAGGATGACATTACAAAGAAGTGAAAGTGCCATGTTGTTGAATA
27998769 ATTGAGTGT
259 ATTGAGTGT
27998778 CTAAATATGT
Statistics
Matches: 254, Mismatches: 11, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
280 1 0.00
281 251 0.99
282 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (281 bp):
ATGCATGCATGTGTTAATGCCTTGATGATCTGCTATGTGTCTTGTTTGATAGATAAGAAGGGGCA
TGAATAAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGTAT
AATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGGTG
TGACTAATTGAATGTGTAATAGGATGACATTACAAAGAAGTGAAAGTGCCATGTTGTTGAATAAT
TGAGTGTGTAATTGTTCATGA
Found at i:28001341 original size:22 final size:22
Alignment explanation
Indices: 28001316--28001366 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
28001306 TATGACTCCG
28001316 TACAAGATGGCTCCGACTGAGC
1 TACAAGATGGCTCCGACTGAGC
*
28001338 TACAGGATGGCTCCGACTGAGC
1 TACAAGATGGCTCCGACTGAGC
*
28001360 TAAAAGA
1 TACAAGA
28001367 ATTAAAGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (22 bp):
TACAAGATGGCTCCGACTGAGC
Found at i:28008314 original size:63 final size:64
Alignment explanation
Indices: 28008234--28008441 Score: 206
Period size: 67 Copynumber: 3.2 Consensus size: 64
28008224 CATAATTTTG
* * * *
28008234 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGT-T-TATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCCA-TATATATCCCGT
28008296 A
64 A
* * * * *
28008297 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTATATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCCATATATATCCCG
28008362 TA
63 TA
* * *
28008364 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGC--CAT-AT-ATATCCC
28008429 GTA
62 GTA
28008432 GCTCTCTTGT
1 GCTCTCTTGT
28008442 ACACATGATG
Statistics
Matches: 119, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 24 0.20
65 1 0.01
66 27 0.23
67 30 0.25
68 18 0.15
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCCATATATATCCCGTA
Found at i:28011531 original size:48 final size:47
Alignment explanation
Indices: 28011479--28011990 Score: 429
Period size: 48 Copynumber: 10.9 Consensus size: 47
28011469 ATGTGAGTAT
**
28011479 TGAGATCCCATAAAAGACCATATCTGGGATATGACATCGGCATCGGAA
1 TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATC-GAA
* * * *
28011527 TGAGAT-CCAGTCTAAGATCATATCTGGGATATGGCATCGACATCGAGA
1 TGAGATCCCA-TGTAAGACCATATCTGGGATATGACATCGGCATCGA-A
* * * * *
28011575 TGAGATCTCGTGTAAGACCATATCTAGGATATGGCATCGGCATCAGTA
1 TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATC-GAA
*
28011623 TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCGTCGAAA
1 TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCG-AA
* **
28011671 TGAGATCCCGTGTAAGACCATATCTAAGATAT-AGCATCGGCATCGAGA
1 TGAGATCCCATGTAAGACCATATCTGGGATATGA-CATCGGCATCGA-A
* * ** * * * *
28011719 TGAGATCTCGTGTAAGATAATATCCGGGATATGGCATCAGCATCAGTA
1 TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATC-GAA
** *
28011767 TGAGATCCCATGTAAGACCATATCAAGGATATGACATCGGCATCAACA
1 TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGA-A
* * *
28011815 TGAGATCCCGTATAAGACCATATCTGGGATAT-AGCATCGACATC---
1 TGAGATCCCATGTAAGACCATATCTGGGATATGA-CATCGGCATCGAA
** * ** *
28011859 -GAG------TGTAAGACCATATCCAGGATATGGCATTAGCATCAGTA
1 TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATC-GAA
* **
28011900 TGAGATCCCATGTAAGACCATATCTGGGATATGGCATTAGCATCGATA
1 TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGA-A
* * * * * *
28011948 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCAT
1 TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCAT
28011991 TGTTATGAGA
Statistics
Matches: 377, Mismatches: 63, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
37 26 0.07
42 3 0.01
43 3 0.01
47 10 0.03
48 332 0.88
49 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (47 bp):
TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAA
Found at i:28011613 original size:96 final size:95
Alignment explanation
Indices: 28011492--28012023 Score: 488
Period size: 96 Copynumber: 5.7 Consensus size: 95
28011482 GATCCCATAA
* * * *
28011492 AAGACCATATCTGGGATATGACATCGGCATCGGAATGAGATCCAGTCTAAGATCATATCTGGGAT
1 AAGACCATATCTAGGATATGGCATCGGCATC-GAATGAGATCCAGTGTAAGACCATATCTGGGAT
*
28011557 ATGGCATCGACATCGAGATGAGATCTCGTGT
65 ATGGCATCGACATCGAGATGAGATCCCGTGT
*
28011588 AAGACCATATCTAGGATATGGCATCGGCATCAGTATGAGATCCCA-TGTAAGACCATATCTGGGA
1 AAGACCATATCTAGGATATGGCATCGGCATC-GAATGAGAT-CCAGTGTAAGACCATATCTGGGA
* * * *
28011652 TATGACATCGGCGTCGAAATGAGATCCCGTGT
64 TATGGCATCGACATCGAGATGAGATCCCGTGT
* * ** *
28011684 AAGACCATATCTAAGATATAGCATCGGCATCGAGATGAGATCTC-GTGTAAGATAATATCCGGGA
1 AAGACCATATCTAGGATATGGCATCGGCATCGA-ATGAGATC-CAGTGTAAGACCATATCTGGGA
*
28011748 TATGGCATC-AGCATC-AGTATGAGATCCCATGT
64 TATGGCATCGA-CATCGAG-ATGAGATCCCGTGT
* * * * *
28011780 AAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGAT
1 AAGACCATATCTAGGATATGGCATCGGCATCGA-ATGAGATCCAGTGTAAGACCATATCTGGGAT
*
28011845 ATAGCATCGACATC-------GA----GTGT
65 ATGGCATCGACATCGAGATGAGATCCCGTGT
* ** *
28011865 AAGACCATATCCAGGATATGGCATTAGCATCAGTATGAGATCCCA-TGTAAGACCATATCTGGGA
1 AAGACCATATCTAGGATATGGCATCGGCATC-GAATGAGAT-CCAGTGTAAGACCATATCTGGGA
* * * *
28011929 TATGGCAT-TAGCATCGATATGAGGTCCCGTAT
64 TATGGCATCGA-CATCGAGATGAGATCCCGTGT
* * * * * * *
28011961 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGACTTC-GTGTAAGACCATAGCTGGG
1 AAGACCATATCTAGGATATGGCATCGGCATCG-AATGAGA-TCCAGTGTAAGACCATATCTGGG
28012024 CTGTTGGCAT
Statistics
Matches: 356, Mismatches: 55, Indels: 50
0.77 0.12 0.11
Matches are distributed among these distances:
84 1 0.00
85 66 0.19
86 2 0.01
89 2 0.01
92 1 0.00
95 5 0.01
96 274 0.77
97 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (95 bp):
AAGACCATATCTAGGATATGGCATCGGCATCGAATGAGATCCAGTGTAAGACCATATCTGGGATA
TGGCATCGACATCGAGATGAGATCCCGTGT
Found at i:28011717 original size:144 final size:143
Alignment explanation
Indices: 28011474--28012017 Score: 678
Period size: 144 Copynumber: 3.8 Consensus size: 143
28011464 ATGACATGTG
** * * *
28011474 AGTATTGAGATCCCATAAAAGACCATATCTGGGATATGACATCGGCATCGGAATGAGATCCAGTC
1 AGTA-TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTA
* * * *
28011539 TAAGATCATATCTGGGATATGGCATCGACATCGAGATGAGATCTCGTGTAAGACCATATCTAGGA
65 TAAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGA-CTCGTGTAAGACCATATCCAGGA
*
28011604 TATGGCATCGGCATC
129 TATGGCATCAGCATC
* *
28011619 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCGTCGAAATGAGATCCCGTGT
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTAT
** ** *
28011684 AAGACCATATCTAAGATATAGCATCGGCATCGAGATGAGATCTCGTGTAAGATAATATCCGGGAT
66 AAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGA-CTCGTGTAAGACCATATCCAGGAT
28011749 ATGGCATCAGCATC
130 ATGGCATCAGCATC
**
28011763 AGTATGAGATCCCATGTAAGACCATATCAAGGATATGACATCGGCATC-AACATGAGATCCCGTA
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAA-ATGAGATCCCGTA
*
28011827 TAAGACCATATCTGGGATATAGCATC-G-A-C---AT-CGA---GTGTAAGACCATATCCAGGAT
65 TAAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGACTCGTGTAAGACCATATCCAGGAT
*
28011882 ATGGCATTAGCATC
130 ATGGCATCAGCATC
* ** * *
28011896 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTAGCATCGATATGAGGTCCCGTAT
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTAT
* * * * **
28011961 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGACTTCGTGTAAGACCATA
66 AAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGAC-TCGTGTAAGACCATA
28012018 GCTGGGCTGT
Statistics
Matches: 347, Mismatches: 39, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
133 109 0.31
134 2 0.01
135 1 0.00
137 2 0.01
138 2 0.01
139 2 0.01
140 2 0.01
141 1 0.00
142 1 0.00
143 3 0.01
144 218 0.63
145 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (143 bp):
AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTAT
AAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGACTCGTGTAAGACCATATCCAGGATA
TGGCATCAGCATC
Found at i:28011882 original size:85 final size:85
Alignment explanation
Indices: 28011777--28011936 Score: 239
Period size: 85 Copynumber: 1.9 Consensus size: 85
28011767 TGAGATCCCA
* *
28011777 TGTAAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGG
1 TGTAAGACCATATCAAGGATATGACATCAGCATCAACATGAGATCCCATATAAGACCATATCTGG
28011842 GATATAGCATCGACATCGAG
66 GATATAGCATCGACATCGAG
* * * ** *
28011862 TGTAAGACCATATCCAGGATATGGCATTAGCATCAGTATGAGATCCCATGTAAGACCATATCTGG
1 TGTAAGACCATATCAAGGATATGACATCAGCATCAACATGAGATCCCATATAAGACCATATCTGG
*
28011927 GATATGGCAT
66 GATATAGCAT
28011937 TAGCATCGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (85 bp):
TGTAAGACCATATCAAGGATATGACATCAGCATCAACATGAGATCCCATATAAGACCATATCTGG
GATATAGCATCGACATCGAG
Found at i:28011966 original size:133 final size:133
Alignment explanation
Indices: 28011728--28011986 Score: 383
Period size: 133 Copynumber: 1.9 Consensus size: 133
28011718 ATGAGATCTC
* *
28011728 GTGTAAGATAATATCCGGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
1 GTGTAAGACAATATCCAGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
* *
28011793 GGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGATATAGCATCGACAT
66 GGATATGACATCAGCATCAACATGAGATCCCGTATAAGACCATATCTGGGACATAGCATCGACAT
28011858 CGA
131 CGA
* * **
28011861 GTGTAAGACCATATCCAGGATATGGCATTAGCATCAGTATGAGATCCCATGTAAGACCATATCTG
1 GTGTAAGACAATATCCAGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
* * * * * * *
28011926 GGATATGGCATTAGCATCGATATGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCG
66 GGATATGACATCAGCATCAACATGAGATCCCGTATAAGACCATATCTGGGACATAGCATCG
28011987 GCATTGTTAT
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 111 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (133 bp):
GTGTAAGACAATATCCAGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
GGATATGACATCAGCATCAACATGAGATCCCGTATAAGACCATATCTGGGACATAGCATCGACAT
CGA
Found at i:28011998 original size:48 final size:48
Alignment explanation
Indices: 28011864--28012075 Score: 141
Period size: 48 Copynumber: 4.5 Consensus size: 48
28011854 ACATCGAGTG
** * * *
28011864 TAAGACCATATCCAGGATATGGCATTAGCATC-AGTATGAGATCCCATG
1 TAAGACCATATCTGGGACATGGCATCAGCATCGA-TATGAGATCCCATA
* * * *
28011912 TAAGACCATATCTGGGATATGGCATTAGCATCGATATGAGGTCCCGTA
1 TAAGACCATATCTGGGACATGGCATCAGCATCGATATGAGATCCCATA
* * * * * * *
28011960 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGA-CTTCGTG
1 TAAGACCATATCTGGGACATGGCATCAGCATCGATATGAGATC-CCATA
* ** * *
28012008 TAAGACCATAGCTGGG-C-T-G--TTGGCATCGATGTGATATCCCATA
1 TAAGACCATATCTGGGACATGGCATCAGCATCGATATGAGATCCCATA
* **
28012051 TAAGACCATGTCTTAGACATGGCAT
1 TAAGACCATATCTGGGACATGGCAT
28012076 TGGCATCTTT
Statistics
Matches: 128, Mismatches: 28, Indels: 16
0.74 0.16 0.09
Matches are distributed among these distances:
43 26 0.20
44 2 0.02
45 2 0.02
46 2 0.02
47 2 0.02
48 93 0.73
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
TAAGACCATATCTGGGACATGGCATCAGCATCGATATGAGATCCCATA
Found at i:28014642 original size:25 final size:25
Alignment explanation
Indices: 28014586--28014642 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
28014576 TGACAAAGTT
*
28014586 TGGTGGAAAGACACACAACAACATC
1 TGGTGGGAAGACACACAACAACATC
*
28014611 TAGTGGGAAGACACACAACAACATC
1 TGGTGGGAAGACACACAACAACATC
28014636 TGGTGGG
1 TGGTGGG
28014643 CTATCTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.14
Consensus pattern (25 bp):
TGGTGGGAAGACACACAACAACATC
Found at i:28015688 original size:28 final size:28
Alignment explanation
Indices: 28015648--28015706 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
28015638 GATACCACAC
* *
28015648 TTAATTATATATATTTTATTTGTAATAT
1 TTAATTATATATATATTATTTGCAATAT
28015676 TTAATTATATATATATTATTTGCAATAT
1 TTAATTATATATATATTATTTGCAATAT
28015704 TTA
1 TTA
28015707 CATTCTCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (28 bp):
TTAATTATATATATATTATTTGCAATAT
Found at i:28015875 original size:13 final size:15
Alignment explanation
Indices: 28015856--28015895 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
28015846 TAAATTTTTT
*
28015856 TTATTTTTGTTTA-A
1 TTATTTTTATTTACA
28015870 -TATTTTTATTTACA
1 TTATTTTTATTTACA
28015884 TTATTTTTATTT
1 TTATTTTTATTT
28015896 TATTTACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 11 0.48
14 1 0.04
15 11 0.48
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (15 bp):
TTATTTTTATTTACA
Found at i:28016732 original size:27 final size:28
Alignment explanation
Indices: 28016684--28016738 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
28016674 TCAAAATTCA
*
28016684 CACTTTAATTATAAAATAATT-AATTTT
1 CACTTAAATTATAAAATAATTAAATTTT
*
28016711 CACTTAAATTATTAACAT-ATTAAATTTT
1 CACTTAAATTA-TAAAATAATTAAATTTT
28016739 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (28 bp):
CACTTAAATTATAAAATAATTAAATTTT
Found at i:28023181 original size:20 final size:20
Alignment explanation
Indices: 28023156--28023193 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
28023146 TAGTAGACTA
28023156 TATATCTAAGTTGAGGCCTG
1 TATATCTAAGTTGAGGCCTG
28023176 TATATCTAAGTTGAGGCC
1 TATATCTAAGTTGAGGCC
28023194 GAAGCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (20 bp):
TATATCTAAGTTGAGGCCTG
Found at i:28025766 original size:40 final size:40
Alignment explanation
Indices: 28025711--28025968 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
28025701 TGGATGATAA
* * *
28025711 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
28025751 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
28025791 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
28025831 TCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
28025871 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
28025911 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
28025950 CCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
28025969 TACTTGGCTT
Statistics
Matches: 201, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 18 0.09
40 183 0.91
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:28029365 original size:3 final size:3
Alignment explanation
Indices: 28029357--28029390 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
28029347 GAGGATCTCA
*
28029357 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
28029391 TCCCACAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:28034635 original size:71 final size:71
Alignment explanation
Indices: 28034556--28034698 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
28034546 AACATAAGTG
28034556 TTTCTTATTGATTGATTGAGAAAGGTAAGATTTAAGCATGAATGCATGTGACAATATATCATGTT
1 TTTCTTATTGATTGATTGAGAAAGGTAAGATTTAAGCATGAATGCATGTGACAATATATCATGTT
28034621 AGATGT
66 AGATGT
28034627 TTTCTTATTGATTGATTGAGAAAGGTAAGATTTAAGCATGAATGCATGTGACAATATATCATGTT
1 TTTCTTATTGATTGATTGAGAAAGGTAAGATTTAAGCATGAATGCATGTGACAATATATCATGTT
28034692 AGATGT
66 AGATGT
28034698 T
1 T
28034699 ATAAATTGCT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (71 bp):
TTTCTTATTGATTGATTGAGAAAGGTAAGATTTAAGCATGAATGCATGTGACAATATATCATGTT
AGATGT
Found at i:28037844 original size:32 final size:32
Alignment explanation
Indices: 28037803--28037867 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
28037793 CTATGAAAAA
*
28037803 GAAAAAAAATGCTATTTGCGTAATTATCAGTT
1 GAAAAAAAATGCTATTGGCGTAATTATCAGTT
28037835 GAAAAAAAATGCTATTGGCGTAATTATCAGTT
1 GAAAAAAAATGCTATTGGCGTAATTATCAGTT
28037867 G
1 G
28037868 TTTGATGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (32 bp):
GAAAAAAAATGCTATTGGCGTAATTATCAGTT
Found at i:28041215 original size:28 final size:29
Alignment explanation
Indices: 28041135--28041230 Score: 108
Period size: 28 Copynumber: 3.4 Consensus size: 29
28041125 TAAAGGTGAT
*
28041135 ATGGGCCATATGAATATGA-TTTGGGCCTA
1 ATGGGCCATATGAA-ATGAGATTGGGCCTA
* * *
28041164 ATGGGCCACAT-AAATGTGAATGGGCCTA
1 ATGGGCCATATGAAATGAGATTGGGCCTA
*
28041192 ATGGGCCATATGAAA-GAGATTGGGTCTA
1 ATGGGCCATATGAAATGAGATTGGGCCTA
*
28041220 GTGGGCCATAT
1 ATGGGCCATAT
28041231 ATATATAGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 3 0.05
28 40 0.71
29 13 0.23
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAAATGAGATTGGGCCTA
Found at i:28043609 original size:17 final size:17
Alignment explanation
Indices: 28043587--28043619 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28043577 ATTTTGGCAA
*
28043587 TGTGGGCCACAGGGGTG
1 TGTGGGCCACACGGGTG
28043604 TGTGGGCCACACGGGT
1 TGTGGGCCACACGGGT
28043620 AGGCTACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.21, G:0.48, T:0.18
Consensus pattern (17 bp):
TGTGGGCCACACGGGTG
Found at i:28051911 original size:13 final size:13
Alignment explanation
Indices: 28051893--28051917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28051883 CCAAACCAAA
28051893 ACATACCAAACTT
1 ACATACCAAACTT
28051906 ACATACCAAACT
1 ACATACCAAACT
28051918 CATTCATTCA
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:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
ACATACCAAACTT
Found at i:28051998 original size:13 final size:13
Alignment explanation
Indices: 28051980--28052006 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
28051970 AAATCATACC
28051980 ATTTTCATAACTA
1 ATTTTCATAACTA
28051993 ATTTTCATAACTA
1 ATTTTCATAACTA
28052006 A
1 A
28052007 CTTACCAAAT
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:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTCATAACTA
Found at i:28052717 original size:43 final size:42
Alignment explanation
Indices: 28052649--28052729 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
28052639 AATTCCAACG
* * *
28052649 TCCAGACATGGTCTTACATGTAATCAAATATCAATGCCACTAT
1 TCCAGACAGGGTCTTACACGAAATCAAATA-CAATGCCACTAT
* *
28052692 TCCAGATAGGGTCTTACACGAAATCAAATACGATGCCA
1 TCCAGACAGGGTCTTACACGAAATCAAATACAATGCCA
28052730 ATGTAACAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 7 0.21
43 26 0.79
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCAGACAGGGTCTTACACGAAATCAAATACAATGCCACTAT
Found at i:28072247 original size:239 final size:232
Alignment explanation
Indices: 28071809--28072250 Score: 561
Period size: 239 Copynumber: 1.9 Consensus size: 232
28071799 CCACACGGGC
* * *
28071809 GTGTGAGCCCTGTAACTTGGAAAAATTTTAAAATTTCACTAAAAATTTTTAAAGTTCCGATTTAA
1 GTGTAAGCCCTGCAACTTGGAAAAATTTTAAAATTTCAC-AAAAATTCTTAAAGTTCCGATTTAA
* *
28071874 GTCCCGATTCAATTCAAAAGCTCATATTGCGAGGGTCCATTTAAGGGACGTTACGAATAATCTTG
65 GTCCCGATTCAATTCAAAAGCTCATATTGCGAGGGTCCATTTAAGGGACGTTACGAACAATCTTA
* * *
28071939 GTTAATGAATAGTAATTGTTGAAATTATCTGAAAATGTTCTGAAAGTTCTAGTAATGCTTCGTAA
130 GTAAATGAATAGTAATTGTTGAAATTATCTAAAAATGTTCTGAAAGTTCTAGTAATACTTCGTAA
28072004 CCCTATTCTGGCGATGGATACGGATTAGGGGTGTTACA
195 CCCTATTCTGGCGATGGATACGGATTAGGGGTGTTACA
* * * *
28072042 GTGTAAGCCCTGCACCTTGGAAAAATTTTGAAATTATCA-AAAAATTCTTAGAGTTTTCGA-TTA
1 GTGTAAGCCCTGCAACTTGGAAAAATTTTAAAATT-TCACAAAAATTCTTAAAG-TTCCGATTTA
* **
28072105 AGTCTCGATTTGATTCTAAAA-CTCATATTGGGCCTTGAGGGTCCATTTAAGGGACGTTACGAAC
64 AGTCCCGATTCAATTC-AAAAGCTCATATT--G-C--GAGGGTCCATTTAAGGGACGTTACGAAC
* * * *
28072169 AATTTTCAG-AAAGTGAATAGTAATTGTTGTAACTTATCTAAAAATGTTTTGAAAGTTCTGGTAA
123 AATCTT-AGTAAA-TGAATAGTAATTGTTG-AAATTATCTAAAAATGTTCTGAAAGTTCTAGTAA
28072233 TAC-TCTGTAACCCTATTC
185 TACTTC-GTAACCCTATTC
28072251 CAAAGATGAA
Statistics
Matches: 178, Mismatches: 19, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
232 36 0.20
233 40 0.22
234 4 0.02
235 1 0.01
237 34 0.19
238 19 0.11
239 44 0.25
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (232 bp):
GTGTAAGCCCTGCAACTTGGAAAAATTTTAAAATTTCACAAAAATTCTTAAAGTTCCGATTTAAG
TCCCGATTCAATTCAAAAGCTCATATTGCGAGGGTCCATTTAAGGGACGTTACGAACAATCTTAG
TAAATGAATAGTAATTGTTGAAATTATCTAAAAATGTTCTGAAAGTTCTAGTAATACTTCGTAAC
CCTATTCTGGCGATGGATACGGATTAGGGGTGTTACA
Found at i:28073059 original size:13 final size:13
Alignment explanation
Indices: 28073037--28073066 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
28073027 TTTTTACCTT
28073037 TTAATCTTCTTAG
1 TTAATCTTCTTAG
*
28073050 TTAATTTTCTTAG
1 TTAATCTTCTTAG
28073063 TTAA
1 TTAA
28073067 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATCTTCTTAG
Found at i:28088271 original size:66 final size:67
Alignment explanation
Indices: 28088142--28088271 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 67
28088132 GGGATGTATC
* *
28088142 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATATAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
28088207 AGGACA
62 AGGACA
* *
28088213 CCATATAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATATAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
28088272 TTCACCATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.17
68 1 0.02
71 20 0.37
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (67 bp):
CCATATAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:28095600 original size:68 final size:66
Alignment explanation
Indices: 28095545--28095702 Score: 217
Period size: 68 Copynumber: 2.3 Consensus size: 66
28095535 ATACTATATA
* * *
28095545 GTAGCTAGGTCACATGTGTGATACGAGATGTATGCCACGTAGATAAGAGAGCTACGTGAGAGATG
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCACGTAGACAAAAGAGCTACG-GAGAGAT-
28095610 AAT
64 AAT
* *
28095613 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAAAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCACGTAGACAAAAGAGCTACG-GAGAGAT-
28095678 AAT
64 AAT
* *
28095681 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
28095703 TCCAAGTGAA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 82 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (66 bp):
GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCACGTAGACAAAAGAGCTACGGAGAGATAA
T
Found at i:28101153 original size:39 final size:40
Alignment explanation
Indices: 28101020--28101160 Score: 212
Period size: 40 Copynumber: 3.5 Consensus size: 40
28101010 ATACAAGTTT
*
28101020 CGGGTTAAGCCCCGAAGGCATTCGTGCGAGTCATTAAATC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAATC
28101060 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAATC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAATC
* * * *
28101100 CGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAAC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAATC
* *
28101139 CGGGCTATGTCCCGAAGGCATT
1 CGGGTTAAGTCCCGAAGGCATT
28101161 TGAACGAGGA
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 33 0.35
40 61 0.65
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAATC
Found at i:28101180 original size:79 final size:80
Alignment explanation
Indices: 28101020--28101195 Score: 196
Period size: 79 Copynumber: 2.2 Consensus size: 80
28101010 ATACAAGTTT
* * * * *
28101020 CGGGTTAAGCCCCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAAACCGGGCTAAGTCCCGAAGGCATTCGA
* *
28101085 GCGAGTCATTAAATC
66 ACGAGTCACTAAATC
* * * *
28101100 CGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGA
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAAACCGGGCTAAGTCCCGAAGGCATTCGA
* *
28101164 ACGAG-GAGCTATATC
66 ACGAGTCA-CTAAATC
*
28101179 C-GGTTAAATCCCGAAGG
1 CGGGTTAAGTCCCGAAGG
28101196 TACGTGATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.20
79 44 0.54
80 21 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (80 bp):
CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAAACCGGGCTAAGTCCCGAAGGCATTCGA
ACGAGTCACTAAATC
Found at i:28106281 original size:13 final size:13
Alignment explanation
Indices: 28106263--28106290 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
28106253 GTTATTCATA
28106263 ATTAATATGAATT
1 ATTAATATGAATT
28106276 ATTAATATGAATT
1 ATTAATATGAATT
28106289 AT
1 AT
28106291 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:28119485 original size:38 final size:38
Alignment explanation
Indices: 28119441--28119613 Score: 193
Period size: 38 Copynumber: 4.5 Consensus size: 38
28119431 GCTTAAAGGT
* * *
28119441 CCGCAGGATTCGTGCTAGTGTTATATCTGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
* *
28119479 TCGCAGGCTTCGTGCTGGTATAATATCTGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
* *
28119517 CCGTAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
* ** * *
28119555 CCGTAGGCTTCGTAATGGTATTATATCCGAGCTTAAAGTC
1 CCGCAGGCTTCGTGCTGGTATTATATCTG-GGTTAAA-TC
* * *
28119595 CGGCAGGTTTTGTGCTGGT
1 CCGCAGGCTTCGTGCTGGT
28119614 GACTGGATTC
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
38 94 0.82
39 6 0.05
40 15 0.13
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (38 bp):
CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
Found at i:28127903 original size:3 final size:3
Alignment explanation
Indices: 28127882--28127920 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
28127872 TTTATTTATG
* * *
28127882 TTA TTG TTA TTA TTT TTA TTA TTA TTA TGA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28127921 GAATTTTCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:28130760 original size:12 final size:12
Alignment explanation
Indices: 28130743--28130773 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
28130733 ATGGGGTTTA
28130743 GGTTACAGGTAT
1 GGTTACAGGTAT
28130755 GGTTACAGGTAT
1 GGTTACAGGTAT
*
28130767 GGATACA
1 GGTTACA
28130774 AGTCGAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (12 bp):
GGTTACAGGTAT
Found at i:28132054 original size:6 final size:6
Alignment explanation
Indices: 28132036--28132103 Score: 86
Period size: 6 Copynumber: 11.7 Consensus size: 6
28132026 AAATTGCAAG
* * * *
28132036 ATAAAA ATCAAA AGAAAA ATAAGA ATAAAA ATAAGA AT--AA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
28132082 ATAAAA ATAAAA ATAAAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAA
28132104 TATAGGAGGA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
4 3 0.06
6 49 0.94
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:28132081 original size:28 final size:28
Alignment explanation
Indices: 28132036--28132103 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
28132026 AAATTGCAAG
* *
28132036 ATAAAAATCAAAAGAAAAATAAGAATAAAA
1 ATAAAAAT--AAATAAAAATAAAAATAAAA
*
28132066 ATAAGAATAAATAAAAATAAAAATAAAA
1 ATAAAAATAAATAAAAATAAAAATAAAA
28132094 ATAAAAATAA
1 ATAAAAATAA
28132104 TATAGGAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 27 0.79
30 7 0.21
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (28 bp):
ATAAAAATAAATAAAAATAAAAATAAAA
Done.