Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 136 of 255
Found at i:43768333 original size:43 final size:43
Alignment explanation
Indices: 43768272--43768374 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
43768262 TGCATTTCAA
43768272 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
43768315 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
43768358 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
43768375 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:43770289 original size:37 final size:37
Alignment explanation
Indices: 43770239--43770317 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43770229 TTATTACGAA
* * *
43770239 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
43770276 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
43770313 GTCTT
1 GTCTT
43770318 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:43770523 original size:47 final size:47
Alignment explanation
Indices: 43770436--43770629 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
43770426 CCTTTCGGGA
* * * * * * * * *
43770436 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43770483 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43770530 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43770577 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43770626 CTTA
1 CTTA
43770630 CTATCATTTC
Statistics
Matches: 132, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 90 0.68
49 42 0.32
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43773181 original size:125 final size:125
Alignment explanation
Indices: 43772959--43773208 Score: 491
Period size: 125 Copynumber: 2.0 Consensus size: 125
43772949 AGGTGTGATG
43772959 GGGGACGGAGAGGTGTGTTGGCTGGATGGGTGGGTTTCTTTAGCTCAACTGCACTCATATGCATT
1 GGGGACGGAGAGGTGTGTTGGCTGGATGGGTGGGTTTCTTTAGCTCAACTGCACTCATATGCATT
43773024 TTATCGACTGTTTGAGAATGCGACTGACTGTTATACTGTTTGACCGAAAAGCATTTCTAA
66 TTATCGACTGTTTGAGAATGCGACTGACTGTTATACTGTTTGACCGAAAAGCATTTCTAA
43773084 GGGGACGGAGAGGTGTGTTGGCTGGATGGGTGGGTTTCTTTAGCTCAACTGCACTCATATGCATT
1 GGGGACGGAGAGGTGTGTTGGCTGGATGGGTGGGTTTCTTTAGCTCAACTGCACTCATATGCATT
*
43773149 TTATCGACTGTTTTAGAATGCGACTGACTGTTATACTGTTTGACCGAAAAGCATTTCTAA
66 TTATCGACTGTTTGAGAATGCGACTGACTGTTATACTGTTTGACCGAAAAGCATTTCTAA
43773209 CACTGTGTAC
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (125 bp):
GGGGACGGAGAGGTGTGTTGGCTGGATGGGTGGGTTTCTTTAGCTCAACTGCACTCATATGCATT
TTATCGACTGTTTGAGAATGCGACTGACTGTTATACTGTTTGACCGAAAAGCATTTCTAA
Found at i:43788947 original size:27 final size:27
Alignment explanation
Indices: 43788917--43789092 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
43788907 ATATTGAGTC
* *
43788917 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
43788944 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
*
43788970 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** *
43788998 CGCACACTTAGTGC-GCATGGTCCAATT
1 CGCACACTTAGTGCTACATAAT-CAACT
* **
43789025 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
43789052 CG-ACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
43789078 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43789093 GTACAATTTA
Statistics
Matches: 127, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 43 0.34
27 64 0.50
28 20 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43789058 original size:81 final size:80
Alignment explanation
Indices: 43788943--43789091 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 80
43788933 TATAATCAAC
* *
43788943 TCGCACACTTAGTGCTACGTAATCAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 TCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTA
43789008 GTGCGCATGGTCCAAT
65 GTGCGCATGGTCCAAT
* *
43789024 TCGCACACTTAGTGC-ATCATATTCATTTCG-ACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCA-ATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
43789087 AGTGC
64 AGTGC
43789092 TGTACAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
80 16 0.26
81 43 0.69
82 3 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (80 bp):
TCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
TGCGCATGGTCCAAT
Found at i:43796981 original size:27 final size:27
Alignment explanation
Indices: 43796951--43797128 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43796941 ATATTGAGTC
* * * *
43796951 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43796978 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43797005 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43797033 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43797060 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43797087 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43797114 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43797129 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:43797090 original size:82 final size:81
Alignment explanation
Indices: 43796972--43797127 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43796962 TGCTATATAA
* *
43796972 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43797037 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43797054 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43797118 CACTTAGTGC
65 CACTTAGTGC
43797128 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:43799594 original size:35 final size:36
Alignment explanation
Indices: 43799528--43799597 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 36
43799518 CTTACATGCA
* * * * *
43799528 TGGCCGAATATACAAAGTTCACTATATCATCACATG
1 TGGCCAAATATACAAAGTTAAATAAAACATCACATG
43799564 TGGCCAAATATA-AAAGTTAAATAAAACATCACAT
1 TGGCCAAATATACAAAGTTAAATAAAACATCACAT
43799598 ATGACCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 18 0.62
36 11 0.38
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (36 bp):
TGGCCAAATATACAAAGTTAAATAAAACATCACATG
Found at i:43799701 original size:35 final size:35
Alignment explanation
Indices: 43799656--43799763 Score: 139
Period size: 35 Copynumber: 3.1 Consensus size: 35
43799646 TACATGCAAG
* *
43799656 ATAACTTCACATATAATCGAATATACAAGTTCAAT
1 ATAACCTCACATGTAATCGAATATACAAGTTCAAT
*
43799691 ATAAGCTCACATGTAATC-AA-ATACTTAAGTTCAAT
1 ATAACCTCACATGTAATCGAATATAC--AAGTTCAAT
**
43799726 ATAACCTCACATGTAGCCGAATATACAAGTTCAAT
1 ATAACCTCACATGTAATCGAATATACAAGTTCAAT
43799761 ATA
1 ATA
43799764 TCACATGTAC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.06
34 2 0.03
35 51 0.81
36 2 0.03
37 4 0.06
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.30
Consensus pattern (35 bp):
ATAACCTCACATGTAATCGAATATACAAGTTCAAT
Found at i:43808722 original size:39 final size:39
Alignment explanation
Indices: 43808667--43808797 Score: 163
Period size: 39 Copynumber: 3.3 Consensus size: 39
43808657 GTATGAGATT
*
43808667 GAAAATATATCCGGACATGAGGTCCGCAGACTATATGCTG
1 GAAAA-ATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
43808707 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* ** * **
43808746 GAAATATATCTAGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
43808785 GAAAAGTATCCGG
1 GAAAAATATCCGG
43808798 GTTAAAGACC
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 71 0.93
40 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:43808814 original size:78 final size:77
Alignment explanation
Indices: 43808669--43808823 Score: 177
Period size: 78 Copynumber: 2.0 Consensus size: 77
43808659 ATGAGATTGA
* * * * *
43808669 AAATATATCCGGACATGAGGTCCGCAGACTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 AAATATATCCAGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACATAAGACCCACA
43808734 GGCTATATGCTAG
66 GGCT-TATGCTAG
* * * * * **
43808747 AAATATATCTAGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAGTATCCGG-GTTAAAGACCCAC
1 AAATATATCCAGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACAT-AAGACCCAC
43808811 AGGCTTATGCTAG
65 AGGCTTATGCTAG
43808824 TAATGTATTC
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
77 9 0.14
78 55 0.86
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (77 bp):
AAATATATCCAGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACATAAGACCCACA
GGCTTATGCTAG
Found at i:43816603 original size:39 final size:39
Alignment explanation
Indices: 43816544--43816674 Score: 156
Period size: 39 Copynumber: 3.3 Consensus size: 39
43816534 GTATGAGATT
* *
43816544 GAAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTG
1 GAAAA-ATATCCGGATATGAGGTCCGCAGGCTATATGCTG
* *
43816584 GAAAAATATCCGGATATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGATATGAGGTCCGCAGGCTATATGCTG
* * **
43816623 GAAATATATCCAGACT-TGAGGTCCGCAGGCTACGTGCTG
1 GAAAAATATCCGGA-TATGAGGTCCGCAGGCTATATGCTG
*
43816662 GAAAAGTATCCGG
1 GAAAAATATCCGG
43816675 GTTAAAGACC
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 71 0.92
40 6 0.08
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (39 bp):
GAAAAATATCCGGATATGAGGTCCGCAGGCTATATGCTG
Found at i:43816688 original size:78 final size:77
Alignment explanation
Indices: 43816546--43816700 Score: 204
Period size: 78 Copynumber: 2.0 Consensus size: 77
43816536 ATGAGATTGA
* * * * *
43816546 AAATATATCCGGACATGAGGTCTGCAGGCTATATGCTGGAAAAATATCCGGATATGAGATCCGCA
1 AAATATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGATATAAGACCCGCA
43816611 GGCTATATGCTAG
66 GGCT-TATGCTAG
* * * *
43816624 AAATATATCCAGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAGTATCCGGGT-TAAAGACCCGC
1 AAATATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGATAT-AAGACCCGC
43816688 AGGCTTATGCTAG
65 AGGCTTATGCTAG
43816701 TAATGTATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
77 9 0.13
78 58 0.87
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (77 bp):
AAATATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGATATAAGACCCGCA
GGCTTATGCTAG
Found at i:43820778 original size:42 final size:43
Alignment explanation
Indices: 43820699--43820790 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
43820689 TCCCGGATGT
* * *
43820699 GGTCTTACATGTAATTCAGTATCGATGCCTTTGTCCCAGACAG
1 GGTCTTACATGAAATTCAGTATCGATGCCTATGTCCCAAACAG
*
43820742 GGTCTTACATGAAATT-AG-ATACGATGCCTATGTCCCAAACAT
1 GGTCTTACATGAAATTCAGTAT-CGATGCCTATGTCCCAAACAG
43820784 GGTCTTA
1 GGTCTTA
43820791 TACGTAAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.05
42 27 0.61
43 15 0.34
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (43 bp):
GGTCTTACATGAAATTCAGTATCGATGCCTATGTCCCAAACAG
Found at i:43826954 original size:23 final size:23
Alignment explanation
Indices: 43826924--43826971 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
43826914 TTCACCGCGG
43826924 ACAAAATTATCGTTTTACCACTA
1 ACAAAATTATCGTTTTACCACTA
*
43826947 ACAAAATTATCGTTTTACCCCTA
1 ACAAAATTATCGTTTTACCACTA
43826970 AC
1 AC
43826972 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (23 bp):
ACAAAATTATCGTTTTACCACTA
Found at i:43828018 original size:37 final size:37
Alignment explanation
Indices: 43827965--43828067 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
43827955 CGAATAGTCC
*
43827965 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
43828002 CCACACGTAGTCATCGGGTCTTACCCGAACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
43828039 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
43828068 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:43828266 original size:48 final size:48
Alignment explanation
Indices: 43828208--43828689 Score: 757
Period size: 48 Copynumber: 10.0 Consensus size: 48
43828198 ATATACACAC
* * *
43828208 ATCTCCTACATATTTCACATTAGCCATTCGACTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
43828256 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* **
43828304 ATCTAATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
43828352 ATCTCATATATATTTCTCATTAGCCATTTGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
43828400 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
43828448 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
43828496 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
43828544 ATCTCATACATATTTCACACTAGTCATTCGGCTTTACAACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
43828592 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
43828640 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
43828688 AT
1 AT
43828690 ATTTATCTTG
Statistics
Matches: 394, Mismatches: 40, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 394 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:43843542 original size:27 final size:27
Alignment explanation
Indices: 43843511--43843688 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43843501 TAAATTGTAC
43843511 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43843538 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43843564 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43843592 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43843620 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43843647 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43843674 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43843689 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43843625 original size:82 final size:81
Alignment explanation
Indices: 43843512--43843667 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43843502 AAATTGTACA
* *
43843512 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43843576 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43843593 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43843658 TGCGAGTTGA
65 TGCGAATTGA
43843668 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43843679 original size:82 final size:81
Alignment explanation
Indices: 43843508--43843688 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43843498 GATTAAATTG
* *
43843508 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43843573 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43843589 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43843653 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43843671 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43843689 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43860689 original size:34 final size:35
Alignment explanation
Indices: 43860616--43860710 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 35
43860606 ATGCCATATT
* *
43860616 TACTG-TACTAAAATGGGCTAAGGCCCAGACTGCC
1 TACTGTTACTGAAATGGGCTAAGGCCCAGACTGCA
*
43860650 T-CTGTTACTGAAATGGGCTCAGGCCCACG-CTG-A
1 TACTGTTACTGAAATGGGCTAAGGCCCA-GACTGCA
* *
43860683 TACTGTTAATGAAAAGGGACTAAGGCCC
1 TACTGTTACTGAAATGGG-CTAAGGCCC
43860711 TAACTACGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
33 4 0.08
34 38 0.75
35 9 0.18
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.22
Consensus pattern (35 bp):
TACTGTTACTGAAATGGGCTAAGGCCCAGACTGCA
Found at i:43868225 original size:34 final size:34
Alignment explanation
Indices: 43868161--43868225 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
43868151 TTACTGTATG
*
43868161 GAAATGGGCTAAGGCCCAGACTGCCTCTGTTACT
1 GAAATGGGCTAAGGCCCAGACTGCATCTGTTACT
43868195 GAAATGGGCTCAA-GCCCAGACTG-ATACTGTT
1 GAAATGGGCT-AAGGCCCAGACTGCAT-CTGTT
43868226 GATAAAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 1 0.04
34 25 0.89
35 2 0.07
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (34 bp):
GAAATGGGCTAAGGCCCAGACTGCATCTGTTACT
Found at i:43869415 original size:75 final size:74
Alignment explanation
Indices: 43869309--43869453 Score: 193
Period size: 75 Copynumber: 1.9 Consensus size: 74
43869299 GTAAACCAAT
* * * *
43869309 GAGTATAATGATGTGCCAACACTAGTTAGATAAACTAACGAAGATTGCATCTAGCACTAGACGGA
1 GAGTATAATGATGTGCCAACACTAGTCAGATAAACTAACAAAGATTGCACCCAGCACTAGACGGA
43869374 TAAACTGAC
66 TAAACTGAC
* ** *
43869383 GAGTATAATTG-TGTGCCCAGCACTAGTCAGATAAACTAACAAAGATTGTGCCCAGCACTAGTCG
1 GAGTATAA-TGATGTG-CCAACACTAGTCAGATAAACTAACAAAGATTGCACCCAGCACTAGACG
43869447 GATAAAC
64 GATAAAC
43869454 AAACAAAGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
74 12 0.20
75 49 0.80
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (74 bp):
GAGTATAATGATGTGCCAACACTAGTCAGATAAACTAACAAAGATTGCACCCAGCACTAGACGGA
TAAACTGAC
Found at i:43869438 original size:35 final size:35
Alignment explanation
Indices: 43869394--43869462 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
43869384 AGTATAATTG
*
43869394 TGTGCCCAGCACTAGTCAGATAAACTAACAAAGAT
1 TGTGCCCAGCACTAGTCAGATAAACAAACAAAGAT
*
43869429 TGTGCCCAGCACTAGTCGGATAAACAAACAAAGA
1 TGTGCCCAGCACTAGTCAGATAAACAAACAAAGA
43869463 GTTGATACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (35 bp):
TGTGCCCAGCACTAGTCAGATAAACAAACAAAGAT
Found at i:43872566 original size:47 final size:45
Alignment explanation
Indices: 43872504--43872673 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 45
43872494 GTGTAAGTTA
43872504 GTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA-GA-GCTG
1 GTGTAAGACATGTCTGGGACATGCATCGG---CATTGA-GACGACGCTG
*
43872550 GTGTAAGATCATGTCTGGGACATGGCATCGGTATTGAGACGAGCGCTG
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGA-CGCTG
* ** * * * * **
43872598 GTGTAAGACATGTCTGGGACATGCGTCAACCTCGAGACATAAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC-GACGCTG
*
43872644 GTGTAAGACATGTCTAGGACATGCATCGGC
1 GTGTAAGACATGTCTGGGACATGCATCGGC
43872674 TACGAGATGT
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
45 5 0.05
46 49 0.48
47 29 0.28
48 19 0.19
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGACGCTG
Found at i:43877466 original size:38 final size:38
Alignment explanation
Indices: 43877423--43877498 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
43877413 TTCATCCTTT
*
43877423 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
43877461 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
43877499 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
Found at i:43878779 original size:40 final size:40
Alignment explanation
Indices: 43878685--43878829 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
43878675 TACTCGAATG
*
43878685 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
43878726 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
43878766 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
43878806 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
43878830 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:43881546 original size:14 final size:14
Alignment explanation
Indices: 43881527--43881557 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
43881517 TAGTGGCTTT
43881527 CAAAAATGAGGCAA
1 CAAAAATGAGGCAA
43881541 CAAAAATGAGGCAA
1 CAAAAATGAGGCAA
43881555 CAA
1 CAA
43881558 GACCTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.16, G:0.19, T:0.06
Consensus pattern (14 bp):
CAAAAATGAGGCAA
Found at i:43881852 original size:15 final size:15
Alignment explanation
Indices: 43881791--43881859 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
43881781 ATCTTAACAC
*
43881791 TAATTAAATATAT-T
1 TAATTAAAAATATAT
* *
43881805 TCATTAAATAATCTA-
1 TAATTAAA-AATATAT
*
43881820 TAATTAAATAAT-TTT
1 TAATTAAA-AATATAT
43881835 TAATTAAAAATATAT
1 TAATTAAAAATATAT
*
43881850 TAAATAAAAA
1 TAATTAAAAA
43881860 AAGGACAACA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 11 0.25
15 33 0.75
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTAAAAATATAT
Found at i:43894960 original size:28 final size:28
Alignment explanation
Indices: 43894897--43895022 Score: 200
Period size: 28 Copynumber: 4.5 Consensus size: 28
43894887 ATATTAAGTC
* *
43894897 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
43894924 CGCACACTTAGTGCTATATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
43894952 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
43894980 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43895008 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43895023 GTACAATTTA
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 21 0.23
28 72 0.77
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:43905955 original size:27 final size:28
Alignment explanation
Indices: 43905871--43905968 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
43905861 CATGAGATTG
* * * *
43905871 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
43905900 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
43905928 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43905955 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43905969 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43905979 original size:27 final size:27
Alignment explanation
Indices: 43905899--43905981 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
43905889 TAAATTGTAC
* *
43905899 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43905927 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43905954 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43905981 A
1 A
43905982 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43905982 original size:29 final size:27
Alignment explanation
Indices: 43905871--43905982 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
43905861 CATGAGATTG
** * *
43905871 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
43905900 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
43905928 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
43905955 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
43905983 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:43908882 original size:20 final size:19
Alignment explanation
Indices: 43908855--43908892 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
43908845 ATTTACATTT
43908855 TAAAAT-AATATATATAATA
1 TAAAATAAATA-ATATAATA
43908874 TAAACATAAATAATATAAT
1 TAAA-ATAAATAATATAAT
43908893 TTGCGGTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAATAAATAATATAATA
Found at i:43910971 original size:83 final size:83
Alignment explanation
Indices: 43910708--43910972 Score: 338
Period size: 83 Copynumber: 3.2 Consensus size: 83
43910698 GATTTGTAGA
* * * * * * *
43910708 GATGCCAAATCATCTTGA-TCTATTTGAGAAC-TGTTGAGAATCATATCTGCTATGTCCTTGTTT
1 GATGCCAAACCATCTTGAGTTTGTTTAAGAACAT-TTGAGAGTCATATCTGCAATGTCCTCGTTT
43910771 TTTCCCTTGTAAGCACAAG
65 TTTCCCTTGTAAGCACAAG
** * *
43910790 GATGCCAAACCATCTCAAGTTTGTTTTAGCACATTTGAGAGTCATATCTGCAATGTCCTCGTTTT
1 GATGCCAAACCATCTTGAGTTTGTTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGTTTT
*
43910855 TTCCCTTGTAAGCCCAAG
66 TTCCCTTGTAAGCACAAG
43910873 GATGCCAAACCATCTTGAGTTTGTTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTT
1 GATGCCAAACCATCTTGAGTTTGTTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCG-TTT
* *
43910938 GTT-CCTTGTAAACACAAG
65 TTTCCCTTGTAAGCACAAG
* * *
43910956 AATACCAAATCATCTTG
1 GATGCCAAACCATCTTG
43910973 GATCTACTTC
Statistics
Matches: 159, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
82 15 0.09
83 138 0.87
84 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (83 bp):
GATGCCAAACCATCTTGAGTTTGTTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGTTTT
TTCCCTTGTAAGCACAAG
Found at i:43911117 original size:119 final size:119
Alignment explanation
Indices: 43910906--43911210 Score: 432
Period size: 119 Copynumber: 2.6 Consensus size: 119
43910896 TTTAAGAACA
* *
43910906 TTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
1 TTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAGGAATACCAAATCATCT
* * * * *
43910971 TGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGTTACATTTGAAAACT
66 TGGATCTACTTCAGTATAAACATCTGAAGGTTAAATATGCTACATCTGAAAACG
*
43911025 TTTGAGAGCCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAGGAATACCAAATCATCT
1 TTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAGGAATACCAAATCATCT
* * *
43911090 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATATGCTATATCTGAGAACG
66 TGGATCTACTTCAGTATAAACATCTGAAGGTTAAATATGCTACATCTGAAAACG
* * * * * * *
43911144 TTTGAGAATTAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGG-ATGCCAAACCATC
1 TTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACAC-AGGAATACCAAATCATC
43911208 TTG
65 TTG
43911211 AGTTTGTTTA
Statistics
Matches: 166, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 163 0.98
120 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (119 bp):
TTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAGGAATACCAAATCATCT
TGGATCTACTTCAGTATAAACATCTGAAGGTTAAATATGCTACATCTGAAAACG
Found at i:43911264 original size:202 final size:202
Alignment explanation
Indices: 43911025--43911395 Score: 598
Period size: 202 Copynumber: 1.8 Consensus size: 202
43911015 TTTGAAAACT
* * *
43911025 TTTGAGAGCCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAGGAATACCAAATCATCT
1 TTTGAGAGCCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* *
43911090 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATATGCTATATCTGAGAACGTTTGAGAATTA
66 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATATGCTACATCTGAGAACGTTTGAGAATCA
*
43911155 AATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTTTGTTT
131 AATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGGATGCCAAACCATCTTGAGTTTGTTT
43911220 AAGAACA
196 AAGAACA
* *
43911227 TTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAATACAAGAATACCAAATCATCT
1 TTTGAGAGCCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* * * * * *
43911292 TGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAGAACTTTTGAGAGTCA
66 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATATGCTACATCTGAGAACGTTTGAGAATCA
* *
43911357 TATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAG
131 AATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAG
43911396 AATACTCAAT
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
202 153 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (202 bp):
TTTGAGAGCCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
TGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATATGCTACATCTGAGAACGTTTGAGAATCA
AATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGGATGCCAAACCATCTTGAGTTTGTTT
AAGAACA
Found at i:43911285 original size:83 final size:83
Alignment explanation
Indices: 43911138--43911293 Score: 204
Period size: 83 Copynumber: 1.9 Consensus size: 83
43911128 GCTATATCTG
* * * * * * *
43911138 AGAACGTTTGAGAATTAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAA
1 AGAACATTTGAGAATCAAATCTGCAATGTCCTCAATTTGTCCCTTGTAAACACAAGAATACCAAA
43911203 CCATCTTGAGTTTGTTTA
66 CCATCTTGAGTTTGTTTA
* * * *
43911221 AGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAATACAAGAATACCAAA
1 AGAACATTTGAGAATCAAATCTGCAATGTCCTCAATTTGTCCCTTGTAAACACAAGAATACCAAA
*
43911286 TCATCTTG
66 CCATCTTG
43911294 GATCTGCTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
83 61 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (83 bp):
AGAACATTTGAGAATCAAATCTGCAATGTCCTCAATTTGTCCCTTGTAAACACAAGAATACCAAA
CCATCTTGAGTTTGTTTA
Found at i:43911409 original size:321 final size:321
Alignment explanation
Indices: 43910835--43911453 Score: 1087
Period size: 321 Copynumber: 1.9 Consensus size: 321
43910825 TGAGAGTCAT
* * *
43910835 ATCTGCAATGTCCTCGTTTTTTCCCTTGTAAGCCCAAGGATGCCAAACCATCTTGAGTTTGTTTA
1 ATCTGCAATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTTTGTTTA
*
43910900 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
66 AGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAA
*
43910965 TCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGTTACATTTGAAAACTTTTGA
131 TCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAAAACTTTTGA
*
43911030 GAGCCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAGGAATACCAAATCATCTTGGAT
196 GAGCCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGAT
*
43911095 CTGCTTCAGTATAAACATCTGAAGGTTAAATATGCTATATCTGAGAACGTTTGAGAATTAA
261 CTGCCTCAGTATAAACATCTGAAGGTTAAATATGCTATATCTGAGAACGTTTGAGAATTAA
*
43911156 ATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTTTGTTTA
1 ATCTGCAATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTTTGTTTA
*
43911221 AGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAATACAAGAATACCAAA
66 AGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAA
* * *
43911286 TCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAGAACTTTTGA
131 TCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAAAACTTTTGA
*
43911351 GAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACTC-AATCATCTTGGA
196 GAGCCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC-CAAATCATCTTGGA
* *
43911415 TCTGCCTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
260 TCTGCCTCAGTATAAACATCTGAAGGTTAAATATGCTAT
43911454 TTTCAATTTG
Statistics
Matches: 282, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
321 281 1.00
322 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (321 bp):
ATCTGCAATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTTTGTTTA
AGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAA
TCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAAAACTTTTGA
GAGCCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGAT
CTGCCTCAGTATAAACATCTGAAGGTTAAATATGCTATATCTGAGAACGTTTGAGAATTAA
Found at i:43911432 original size:119 final size:119
Alignment explanation
Indices: 43911221--43911452 Score: 394
Period size: 119 Copynumber: 1.9 Consensus size: 119
43911211 AGTTTGTTTA
*
43911221 AGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAATACAAGAATACCAAA
1 AGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAA
* *
43911286 TCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTACATTTG
66 TCATCTTGGATCTGCCTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTG
* * *
43911340 AGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACTC-A
1 AGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAACACAAGAATAC-CAA
43911404 ATCATCTTGGATCTGCCTCAGTATAAACATCTGAAGGTTAGATCTGCTA
65 ATCATCTTGGATCTGCCTCAGTATAAACATCTGAAGGTTAGATCTGCTA
43911453 TTTTCAATTT
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
119 105 0.99
120 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (119 bp):
AGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAA
TCATCTTGGATCTGCCTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTG
Found at i:43912319 original size:20 final size:22
Alignment explanation
Indices: 43912296--43912339 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
43912286 TCACCTTGGC
43912296 CTCTCTA-TTTTTTCT-TTTTT
1 CTCTCTATTTTTTTCTCTTTTT
*
43912316 CTCTTTATTTTTTTCTCTTTTT
1 CTCTCTATTTTTTTCTCTTTTT
43912338 CT
1 CT
43912340 TTTCTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (22 bp):
CTCTCTATTTTTTTCTCTTTTT
Found at i:43912327 original size:21 final size:21
Alignment explanation
Indices: 43912303--43912348 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
43912293 GGCCTCTCTA
43912303 TTTTTTCT-TTTTTCTCTTTAT
1 TTTTTTCTCTTTTTCT-TTTAT
*
43912324 TTTTTTCTCTTTTTCTTTTCT
1 TTTTTTCTCTTTTTCTTTTAT
43912345 TTTT
1 TTTT
43912349 GAAATAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTCTCTTTTTCTTTTAT
Found at i:43912329 original size:14 final size:13
Alignment explanation
Indices: 43912305--43912348 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
43912295 CCTCTCTATT
43912305 TTTTCTTTTTTCTC
1 TTTT-TTTTTTCTC
43912319 TTTATTTTTTTCTC
1 TTT-TTTTTTTCTC
*
43912333 TTTTTCTTTTCT-
1 TTTTTTTTTTCTC
43912345 TTTT
1 TTTT
43912349 GAAATAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 4 0.14
13 8 0.29
14 15 0.54
15 1 0.04
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:43936555 original size:26 final size:26
Alignment explanation
Indices: 43936526--43936604 Score: 113
Period size: 26 Copynumber: 3.0 Consensus size: 26
43936516 AGTGGATAAG
43936526 TTGTAAAATTACCAAAATACCCCTGT
1 TTGTAAAATTACCAAAATACCCCTGT
* *
43936552 TTGTAAAATTACCAAAATACTCCTAAT
1 TTGTAAAATTACCAAAATACCCCT-GT
**
43936579 TTGTAAAATTACTGAAATACCCCTGT
1 TTGTAAAATTACCAAAATACCCCTGT
43936605 ACGGTAGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 24 0.52
27 22 0.48
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCCTGT
Found at i:43936615 original size:27 final size:27
Alignment explanation
Indices: 43936585--43936725 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
43936575 TAATTTGTAA
*
43936585 AATTACTGAAATACCCCTGTACGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
43936612 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
43936639 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
43936666 AAATACTGAAATGCCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
43936693 AATTACCGAGATA-CCCTCGTGGGGTAA
1 AATTACTGAAATACCCCT-GTAGGGTAG
43936720 AATTAC
1 AATTAC
43936726 CATTTTGCCC
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 4 0.04
27 94 0.96
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:43937469 original size:33 final size:32
Alignment explanation
Indices: 43937422--43937483 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
43937412 TACTGTAATT
* *
43937422 TGGTGGCTTCGCCACATATATATATATCTGTTC
1 TGGTGGCCTAGCCACA-ATATATATATCTGTTC
* *
43937455 TGGTGGCCTAGCCACAATATCTGTATCTG
1 TGGTGGCCTAGCCACAATATATATATCTG
43937484 GTGACTTCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (32 bp):
TGGTGGCCTAGCCACAATATATATATCTGTTC
Found at i:43941645 original size:40 final size:40
Alignment explanation
Indices: 43941601--43941819 Score: 350
Period size: 40 Copynumber: 5.5 Consensus size: 40
43941591 TGCTGGAATA
*
43941601 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43941641 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43941681 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
43941721 CATTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43941761 CCTTCGGGACTTAGCCCGGA-ACTACTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
43941801 CCTTCGAGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43941820 TTATCATCCA
Statistics
Matches: 168, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 167 0.99
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43943134 original size:52 final size:53
Alignment explanation
Indices: 43943060--43943184 Score: 198
Period size: 52 Copynumber: 2.4 Consensus size: 53
43943050 CTCAAAGCTC
* * *
43943060 TTTTTCCTTCCTTTTCTTTCTTCTATTCGGCCAAGAACAGCATGAGAGCT-TT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTCTT
43943112 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTCTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTCTT
*
43943165 TTTTTTCTTTCTTTTCCTTT
1 TTTTTTC-TTCTTTTTCTTT
43943185 TTTCATCATC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 47 0.70
53 9 0.13
54 11 0.16
ACGTcount: A:0.15, C:0.23, G:0.10, T:0.51
Consensus pattern (53 bp):
TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTCTT
Found at i:43949824 original size:40 final size:40
Alignment explanation
Indices: 43949753--43950182 Score: 648
Period size: 40 Copynumber: 10.8 Consensus size: 40
43949743 AAGCCAAGTA
* * * * * *
43949753 CCTTCGGGATTTA-ACCGGCTATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
43949792 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43949832 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43949872 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
43949912 CATTCGGGACGTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
43949952 CCTTCGGGACGTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43949992 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43950032 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43950072 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
43950112 CATTCGGGACGTAGCCCAGATAGAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43950152 CCTTCGGGACTTAGCCCGGATATAGTAACTC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC
43950183 TATAACACCC
Statistics
Matches: 358, Mismatches: 31, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.03
40 346 0.97
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43951571 original size:27 final size:27
Alignment explanation
Indices: 43951541--43951718 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
43951531 ATATTGAGCC
* * *
43951541 CGCATACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
43951568 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43951595 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
43951623 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43951650 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
43951677 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
43951704 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43951719 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43951687 original size:82 final size:81
Alignment explanation
Indices: 43951562--43951717 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
43951552 TGCTATATAA
* *
43951562 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43951627 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
43951644 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43951708 CACTTAGTGC
65 CACTTAGTGC
43951718 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43954893 original size:53 final size:54
Alignment explanation
Indices: 43954818--43954944 Score: 211
Period size: 53 Copynumber: 2.4 Consensus size: 54
43954808 CTCAAAGCTC
* *
43954818 TTTTTCCTTCCTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCT-TTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTCTTT
43954871 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTCTTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTCTTT
*
43954925 TTTTTTCTTTCTTTTCCTTT
1 TTTTTTC-TTCTTTTTCTTT
43954945 TTTCATCATC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
53 48 0.70
54 10 0.14
55 11 0.16
ACGTcount: A:0.16, C:0.23, G:0.09, T:0.52
Consensus pattern (54 bp):
TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTCTTT
Found at i:43956025 original size:21 final size:21
Alignment explanation
Indices: 43955990--43956041 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
43955980 TTTAGATATG
*
43955990 AGAATTGAGGAAGAAATGAGAA
1 AGAATAGA-GAAGAAATGAGAA
*
43956012 AGAATAGAGAAGAAATGAGAG
1 AGAATAGAGAAGAAATGAGAA
43956033 AG-ATAGAGA
1 AGAATAGAGA
43956042 GAGCTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 7 0.25
21 14 0.50
22 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.33, T:0.12
Consensus pattern (21 bp):
AGAATAGAGAAGAAATGAGAA
Found at i:43958778 original size:27 final size:27
Alignment explanation
Indices: 43958748--43958925 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43958738 ATATTGAGTC
* * * *
43958748 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43958775 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43958802 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43958830 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43958857 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43958884 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43958911 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43958926 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:43958887 original size:82 final size:81
Alignment explanation
Indices: 43958769--43958924 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43958759 TGCTATATAA
* *
43958769 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43958834 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43958851 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43958915 CACTTAGTGC
65 CACTTAGTGC
43958925 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:43963326 original size:93 final size:93
Alignment explanation
Indices: 43963219--43963389 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
43963209 GCCCCTAAGT
* * *
43963219 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAATTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
43963284 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
43963312 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43963377 CGAGTTCGGATGC
66 CGAGTTCGGATGC
43963390 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43963386 original size:46 final size:46
Alignment explanation
Indices: 43963214--43963386 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
43963204 AACCCGCCCC
* * * *
43963214 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
43963260 TAAGTGAATTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
43963308 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
43963353 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43963387 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.57
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:43968572 original size:47 final size:48
Alignment explanation
Indices: 43968521--43968631 Score: 163
Period size: 49 Copynumber: 2.3 Consensus size: 48
43968511 TTAGGATTCT
*
43968521 ATGTGATGGATGTGAACA-TG-CATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGACATATATGAGATAAGGCCTAATGGCCG
* *
43968568 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG-ACATATATGAGATAAGGCCTAATGGCCG
43968617 ATGTGATGAATGTGA
1 ATGTGATGAATGTGA
43968632 TGTGATGAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
46 1 0.02
47 17 0.29
49 40 0.69
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (48 bp):
ATGTGATGAATGTGAAAGTGACATATATGAGATAAGGCCTAATGGCCG
Found at i:43968635 original size:14 final size:14
Alignment explanation
Indices: 43968616--43968645 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43968606 CCTAATGGCC
43968616 GATGTGATGAATGT
1 GATGTGATGAATGT
43968630 GATGTGATGAATGT
1 GATGTGATGAATGT
43968644 GA
1 GA
43968646 AAGTGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (14 bp):
GATGTGATGAATGT
Found at i:43968644 original size:63 final size:63
Alignment explanation
Indices: 43968567--43968694 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
43968557 CCTAATGGCC
43968567 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
43968630 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
43968693 GA
1 GA
43968695 AAGTGTATAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.31
Consensus pattern (63 bp):
GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:43968681 original size:112 final size:112
Alignment explanation
Indices: 43968542--43968743 Score: 377
Period size: 112 Copynumber: 1.8 Consensus size: 112
43968532 GTGAACATGC
*
43968542 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGGC
*
43968607 CTAATGGCCGATGTGATGAATGTGATGTGATGAATGTGAAAGTGTAT
66 CTAATGGCCGATGTGATAAATGTGATGTGATGAATGTGAAAGTGTAT
*
43968654 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGGC
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGGC
43968719 CTAATGGCCGATGTGATAAATGTGA
66 CTAATGGCCGATGTGATAAATGTGA
43968744 AAGTGTATAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 87 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (112 bp):
ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGGC
CTAATGGCCGATGTGATAAATGTGATGTGATGAATGTGAAAGTGTAT
Found at i:43968776 original size:47 final size:47
Alignment explanation
Indices: 43968630--43969141 Score: 817
Period size: 47 Copynumber: 10.8 Consensus size: 47
43968620 TGATGAATGT
43968630 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
*
43968679 GATGTGATGAATGTGAAAGTGTATATATATATGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
* *
43968728 GATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
43968775 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* *
43968822 GATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
43968869 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
43968918 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* *
43968965 GATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
43969012 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
43969059 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
43969106 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43969142 TCCCGAAGGG
Statistics
Matches: 437, Mismatches: 24, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
47 324 0.74
49 113 0.26
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:43968876 original size:190 final size:190
Alignment explanation
Indices: 43968630--43969141 Score: 857
Period size: 190 Copynumber: 2.7 Consensus size: 190
43968620 TGATGAATGT
43968630 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
43968695 AAGTGTATATATATATGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGA
64 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
43968760 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
129 TAAGGCCTAATAGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
* * *
43968822 GATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
43968887 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
66 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
43968952 AGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
131 AGGCCTAATAGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
43969012 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * * * * * *
43969077 GTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
66 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
43969140 AG
131 AG
43969142 TCCCGAAGGG
Statistics
Matches: 302, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
188 54 0.18
190 228 0.75
192 20 0.07
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (190 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCTAATAGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
Found at i:43969316 original size:37 final size:37
Alignment explanation
Indices: 43969260--43969338 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43969250 CCGAGCTTTA
* * *
43969260 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43969297 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43969334 AAGAC
1 AAGAC
43969339 TTCGTAATAA
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:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43972206 original size:39 final size:40
Alignment explanation
Indices: 43972161--43972329 Score: 99
Period size: 40 Copynumber: 4.2 Consensus size: 40
43972151 CGGGGTTTAG
* * *
43972161 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
43972200 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
43972240 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
43972280 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
*
43972321 CTGGATATA
1 CCGGATATA
43972330 GTCGTTTAGC
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:43972311 original size:41 final size:41
Alignment explanation
Indices: 43972184--43972369 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
43972174 CTCGCACAAG
* * * * * *
43972184 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
43972224 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
43972264 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
43972305 GCCTTCGGGACTTAGCCTGGATATAGTCGTTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
43972346 GCCTTCGAGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
43972370 CATTCAAGCA
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.46
41 64 0.50
42 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:43972318 original size:81 final size:82
Alignment explanation
Indices: 43972214--43972367 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 82
43972204 ATATGGTCAC
* * *
43972214 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCG-CTAGCACAAATGCCTTCG-GATCTT
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGTCTAGCACAAAAGCCTTCGAGA-CTT
*
43972277 AGTCCGGATGTAGTCGCT
65 AGCCCGGATGTAGTCGCT
* *
43972295 TAGCACAAAAGCCTTCGGGACTTAGCCTGGATATAGTCGTTTAGCACAAAAGCCTTCGAGACTTA
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGTCTAGCACAAAAGCCTTCGAGACTTA
43972360 GCCCGGAT
66 GCCCGGAT
43972368 ATCATTCAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 36 0.55
82 27 0.42
83 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (82 bp):
TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGTCTAGCACAAAAGCCTTCGAGACTTA
GCCCGGATGTAGTCGCT
Found at i:43975836 original size:168 final size:168
Alignment explanation
Indices: 43975454--43975838 Score: 493
Period size: 168 Copynumber: 2.3 Consensus size: 168
43975444 ATGCAATTAC
* * * * * *
43975454 ATATCGATGCCACTATCTCACACA-GGATCTTACTCGTAAACACATATCAGAATCACCTATCGAT
1 ATATCGATGCCAATATATTAAACATGG-TCTTACTCGTAAACACATATCGGAATCACATATCGAT
*
43975518 GCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGGAATCACATATCGATACCAACATA
65 GCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGAAATCACATATCGATACCAACATA
** * ** *
43975583 TTAAATGTGGTCTTACTTGCACACACATATTGGAATCAC
130 TTAAACATGGTCTTACTCGCACACACATATCAGAATCAA
* * * *
43975622 ATATCGATGCCAATATGTTAAACATGGTCTTAGTCGCACACACATATCGGAATCACATATCGATG
1 ATATCGATGCCAATATATTAAACATGGTCTTACTCGTAAACACATATCGGAATCACATATCGATG
* * * * * * *
43975687 CCAATGTATTAAACGTGGTCTTACTCGCGCACACATATTGAAATCATATATCGATGCTAACGTAT
66 CCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGAAATCACATATCGATACCAACATAT
43975752 TAAACATGGTCTTACTCGCACACACATATCAGAATCAA
131 TAAACATGGTCTTACTCGCACACACATATCAGAATCAA
* ** **
43975790 ATATCGATGCCAATGTATTAAATGTGGTCTTACTCGTAGTCACATATCG
1 ATATCGATGCCAATATATTAAACATGGTCTTACTCGTAAACACATATCG
43975839 ATGCCAACGT
Statistics
Matches: 185, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
168 183 0.99
169 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (168 bp):
ATATCGATGCCAATATATTAAACATGGTCTTACTCGTAAACACATATCGGAATCACATATCGATG
CCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGAAATCACATATCGATACCAACATAT
TAAACATGGTCTTACTCGCACACACATATCAGAATCAA
Found at i:43975837 original size:56 final size:56
Alignment explanation
Indices: 43975481--43975825 Score: 465
Period size: 56 Copynumber: 6.2 Consensus size: 56
43975471 TCACACAGGA
* * * *
43975481 TCTTACTCGTAAACACATATCAGAATCACCTATCGATGCCAACGTATTAAACGTGG
1 TCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGG
* * *
43975537 TCTTACTCGCACACACATATCGGAATCACATATCGATACCAACATATTAAATGTGG
1 TCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGG
* * ** * *
43975593 TCTTACTTGCACACACATATTGGAATCACATATCGATGCCAATATGTTAAACATGG
1 TCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGG
* *
43975649 TCTTAGTCGCACACACATATCGGAATCACATATCGATGCCAATGTATTAAACGTGG
1 TCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGG
* * * * * *
43975705 TCTTACTCGCGCACACATATTGAAATCATATATCGATGCTAACGTATTAAACATGG
1 TCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGG
* * * *
43975761 TCTTACTCGCACACACATATCAGAATCAAATATCGATGCCAATGTATTAAATGTGG
1 TCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGG
43975817 TCTTACTCG
1 TCTTACTCG
43975826 TAGTCACATA
Statistics
Matches: 252, Mismatches: 37, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 252 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
TCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGG
Found at i:43975860 original size:43 final size:43
Alignment explanation
Indices: 43975813--43976094 Score: 420
Period size: 43 Copynumber: 6.6 Consensus size: 43
43975803 TGTATTAAAT
* *
43975813 GTGGTCTTACTCGTAGTCACATATCGATGCCAACGTCCCAGAC
1 GTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGAC
43975856 GTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGAC
1 GTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGAC
* * *
43975899 ATGGTCTTACATGTAATCACATATCAATGCCAACGTCCCAGAC
1 GTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGAC
* * * *
43975942 GTGGTCTCACACATAATCCCATATCGATGCCAACGTCCTAGAC
1 GTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGAC
* * * *
43975985 GTGCTCTTACACGTAATCACATATCGATGCTAGCATCCCAGAC
1 GTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGAC
* * *
43976028 GTGTTCTTACACATAATCACATATCGATGCCAACGTCCAAGAC
1 GTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGAC
43976071 GTGGTCTTACACGTAATCACATAT
1 GTGGTCTTACACGTAATCACATAT
43976095 AAAAAATCCT
Statistics
Matches: 211, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 211 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
GTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGAC
Found at i:43977558 original size:27 final size:23
Alignment explanation
Indices: 43977518--43977587 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 23
43977508 CGTTCTGACC
*
43977518 TACAGCTTGTGAGCGTATATCGATT
1 TACAGCTTGTGAGC--ATACCGATT
43977543 TACAGCTCATGTGAGCATACCGATT
1 TACAGCT--TGTGAGCATACCGATT
43977568 TACAGCTTGTGTGAGCATAC
1 TACAGC-T-TGTGAGCATAC
43977588 ATATACAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
25 32 0.80
26 1 0.03
27 7 0.17
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (23 bp):
TACAGCTTGTGAGCATACCGATT
Found at i:43977594 original size:23 final size:25
Alignment explanation
Indices: 43977538--43977594 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
43977528 GAGCGTATAT
*
43977538 CGATTTACAGCTCATGTGAGCATAC
1 CGATATACAGCTCATGTGAGCATAC
* **
43977563 CGATTTACAGCTTGTGTGAGCATA-
1 CGATATACAGCTCATGTGAGCATAC
43977587 C-ATATACA
1 CGATATACA
43977595 AGATTTGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 6 0.21
24 1 0.03
25 22 0.76
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (25 bp):
CGATATACAGCTCATGTGAGCATAC
Found at i:43980322 original size:40 final size:40
Alignment explanation
Indices: 43980267--43980451 Score: 291
Period size: 40 Copynumber: 4.6 Consensus size: 40
43980257 CGGATGATAA
* *
43980267 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
43980307 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
43980347 CCGGGCTAAGTCCCGAAGGCATTTGCACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43980387 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43980427 CTGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43980452 AGCAAGTAGT
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 134 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43980466 original size:80 final size:79
Alignment explanation
Indices: 43980263--43980483 Score: 286
Period size: 80 Copynumber: 2.8 Consensus size: 79
43980253 TATTCGGATG
* * *
43980263 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
43980327 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * *
43980343 ATATCCGGGCTAAGTCCCGAAGGCATTTGCA-CGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG-AGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGC
43980407 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * *
43980423 ATAACTGGGCTAAGTCCCAAAGGCATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
43980484 ATGATTGGGT
Statistics
Matches: 126, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
79 17 0.13
80 107 0.85
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:43980751 original size:22 final size:21
Alignment explanation
Indices: 43980710--43980753 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
43980700 GAATGTGCAT
43980710 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
43980732 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
43980754 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:43994611 original size:14 final size:13
Alignment explanation
Indices: 43994586--43994619 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
43994576 CTGAAATATC
43994586 AAAACAATAATTA
1 AAAACAATAATTA
43994599 AAAACACATAATTA
1 AAAACA-ATAATTA
*
43994613 AGAACAA
1 AAAACAA
43994620 GTCAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAACAATAATTA
Found at i:44010118 original size:40 final size:40
Alignment explanation
Indices: 44010059--44010348 Score: 326
Period size: 40 Copynumber: 7.3 Consensus size: 40
44010049 CATTTGAATG
* * *
44010059 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
44010099 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* *
44010139 ATATCCGGGCT--GACCCGAAGGCATTTGTTCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * *
44010177 ATA-CACGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATC-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
44010217 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
44010257 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
44010297 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
44010337 ATATCC-GGCTAA
1 ATATCCGGGCTAA
44010349 ATTCCGAAGA
Statistics
Matches: 216, Mismatches: 24, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
37 1 0.00
38 33 0.15
39 9 0.04
40 166 0.77
41 7 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:44013609 original size:39 final size:40
Alignment explanation
Indices: 44013458--44013627 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 40
44013448 GGACTAAGAT
* *
44013458 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
44013498 CCGAAGGCCTTCGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
44013538 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
44013578 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
44013617 CCGAAGGCATT
1 CCGAAGGCATT
44013628 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 35 0.30
40 80 0.68
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:44013647 original size:79 final size:80
Alignment explanation
Indices: 44013485--44013662 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
44013475 AGATACAAAT
* * * *
44013485 TCCGGGTTAAGCCCCGAAGGCCTTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
44013550 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
44013565 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
44013629 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
44013644 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
44013663 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 45 0.56
80 21 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:44021503 original size:40 final size:41
Alignment explanation
Indices: 44021444--44021713 Score: 358
Period size: 40 Copynumber: 6.8 Consensus size: 41
44021434 CATTTGAATG
* * *
44021444 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
44021484 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
44021524 ATATCCGGGCT--GACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
44021562 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
44021602 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
44021642 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
44021682 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
44021714 TTGTGGTTAT
Statistics
Matches: 204, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 35 0.17
39 2 0.01
40 161 0.79
41 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:44024408 original size:19 final size:21
Alignment explanation
Indices: 44024367--44024406 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
44024357 GAAAAACCTG
44024367 TTAGAAGAAAAAAATGAAAAA
1 TTAGAAGAAAAAAATGAAAAA
*
44024388 TTAGAA-AATAAAATGAAAA
1 TTAGAAGAAAAAAATGAAAA
44024407 TTTAAATTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (21 bp):
TTAGAAGAAAAAAATGAAAAA
Found at i:44026101 original size:6 final size:6
Alignment explanation
Indices: 44026080--44026119 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
44026070 GTTTAAGAAC
* *
44026080 TTTTTA TTTATTA TTTTTA TTTTCA TTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
44026120 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:44046312 original size:55 final size:53
Alignment explanation
Indices: 44046173--44046315 Score: 153
Period size: 53 Copynumber: 2.7 Consensus size: 53
44046163 ATCCTTTTGA
* * * *
44046173 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTAAAG
* * * * * *
44046226 AACTCACCAATGCCATGCCTTGGCATAGTCTTACATGGGA-CATTTTCCTAACAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATC-CTTGCCTAA-AG
*
44046280 TAACTTATCAATGCCATGTCTTGACATGGTCTTACA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACA
44046316 CGATTTCCTT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
52 1 0.01
53 40 0.56
54 1 0.01
55 30 0.42
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTAAAG
Found at i:44057012 original size:16 final size:16
Alignment explanation
Indices: 44056988--44057018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44056978 CTTCTTCACT
44056988 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
44057004 TACTTACTTACTTAA
1 TACTCACTTACTTAA
44057019 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:44057024 original size:20 final size:20
Alignment explanation
Indices: 44056985--44057024 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44056975 AAGCTTCTTC
* *
44056985 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
44057005 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
44057025 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:44057400 original size:55 final size:53
Alignment explanation
Indices: 44057213--44057465 Score: 196
Period size: 55 Copynumber: 4.8 Consensus size: 53
44057203 TGGGTACCTT
* * * * *
44057213 ACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG-AACTC
* * * *
44057262 ACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAACTC
* * *
44057315 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAGTAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTACCTTAT-G-AACTC
* * *** * *
44057370 ATCAATGCCATGTCTTGACATAGTCTTACATGATTTCCTTGCCTTA-GAAACCTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG-AA-CTC
* * *
44057424 ACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 ACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTTA
44057466 AACCCTAATG
Statistics
Matches: 166, Mismatches: 27, Indels: 16
0.79 0.13 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 69 0.42
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAACTC
Found at i:44060251 original size:43 final size:43
Alignment explanation
Indices: 44060185--44060283 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
44060175 GACCATTCTG
*
44060185 GGACATTGGCATTGTATTGTGATTAT-GTGTAAGACCATGTCCA
1 GGACATTGGCATCGTATTGTGATT-TCGTGTAAGACCATGTCCA
* * **
44060228 GGACATTGGCATCGTTATT-TGATTTCGTGTAAGGCCCTGTCTG
1 GGACATTGGCATCG-TATTGTGATTTCGTGTAAGACCATGTCCA
*
44060271 GGACAGTGGCATC
1 GGACATTGGCATC
44060284 AACTATGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.02
43 43 0.90
44 4 0.08
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
GGACATTGGCATCGTATTGTGATTTCGTGTAAGACCATGTCCA
Found at i:44062456 original size:27 final size:27
Alignment explanation
Indices: 44062425--44062602 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44062415 TAAATTGTAC
44062425 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44062452 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44062478 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44062506 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44062534 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44062561 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44062588 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44062603 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44062539 original size:82 final size:81
Alignment explanation
Indices: 44062426--44062581 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44062416 AAATTGTACA
* *
44062426 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44062490 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44062507 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44062572 TGCGAGTTGA
65 TGCGAATTGA
44062582 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44062593 original size:82 final size:81
Alignment explanation
Indices: 44062422--44062602 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44062412 GATTAAATTG
* *
44062422 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44062487 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44062503 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44062567 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44062585 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44062603 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44068753 original size:42 final size:43
Alignment explanation
Indices: 44068707--44068790 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
44068697 CAGACATGTT
*
44068707 TGGTGACCGTGTGAGGCACACAGCCTGTT-TCATGGGCGTGTC
1 TGGTGACCGTGTGAGGCACACAGCCTGTTCTCACGGGCGTGTC
* * **
44068749 TGGTGACTGTGTGAGGCATATGGCCTGTTCTCACGGGCGTGT
1 TGGTGACCGTGTGAGGCACACAGCCTGTTCTCACGGGCGTGT
44068791 GACCCTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 25 0.69
43 11 0.31
ACGTcount: A:0.13, C:0.21, G:0.37, T:0.29
Consensus pattern (43 bp):
TGGTGACCGTGTGAGGCACACAGCCTGTTCTCACGGGCGTGTC
Found at i:44075177 original size:34 final size:34
Alignment explanation
Indices: 44075134--44075201 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
44075124 CAAATCTCAA
44075134 AACCTTTTTCCATGGAGACACTTTCAAGAATACT
1 AACCTTTTTCCATGGAGACACTTTCAAGAATACT
44075168 AACCTTTTTCCATGGAGACACTTTCAAGAATACT
1 AACCTTTTTCCATGGAGACACTTTCAAGAATACT
44075202 TTATCTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (34 bp):
AACCTTTTTCCATGGAGACACTTTCAAGAATACT
Found at i:44096612 original size:12 final size:12
Alignment explanation
Indices: 44096595--44096624 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44096585 TGAGAATTTT
44096595 CTCTAATTAACA
1 CTCTAATTAACA
44096607 CTCTAATTAACA
1 CTCTAATTAACA
44096619 C-CTAAT
1 CTCTAAT
44096625 CCCCTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCTAATTAACA
Found at i:44099211 original size:40 final size:40
Alignment explanation
Indices: 44099020--44099204 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
44099010 TCGAATGATG
* * * * *
44099020 TCCGGGCTTAGTCCCGAAGGC-TTTGTGCTAAGTCACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
44099060 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44099100 TCCGGGCCAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44099139 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44099180 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44099205 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44099226 original size:79 final size:79
Alignment explanation
Indices: 44099073--44099237 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
44099063 AGACTAAGAT
* **
44099073 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCCAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCCAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
44099138 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
44099152 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCCAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
44099215 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
44099231 CCGAAGG
1 CCGAAGG
44099238 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCCAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:44107302 original size:78 final size:80
Alignment explanation
Indices: 44107167--44107343 Score: 209
Period size: 78 Copynumber: 2.2 Consensus size: 80
44107157 TCGAATGATG
* * *
44107167 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
44107232 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* * * **
44107247 TCCGGGCTAAG-CCCGAAGGATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
44107309 TGTGCGAGTTACT-AT
65 TGTGCGAGATACTAAT
* * *
44107324 ACAGGGCTATGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
44107344 CATTTGAACG
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
77 11 0.13
78 47 0.57
79 14 0.17
80 11 0.13
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAT
Found at i:44107356 original size:39 final size:39
Alignment explanation
Indices: 44107168--44107349 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
44107158 CGAATGATGT
* * *
44107168 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* * *
44107207 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-ATA
* *
44107248 CCGGGCTAAG-CCCGAAGG-ATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
44107285 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
44107325 CAGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44107350 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
37 1 0.01
38 23 0.19
39 37 0.31
40 47 0.40
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:44107371 original size:78 final size:78
Alignment explanation
Indices: 44107220--44107382 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 78
44107210 GGACTAAGAT
* * **
44107220 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGATTGGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGATACTAATACAGGGCTAAGCCCGAAGGATTGGAACGAGTTACTAAA
*
44107285 TCCGGGTTAAGTC
66 TCCGGGTTAAATC
* * *
44107298 CCGAAGGCATTTGTGCGAGTTACT-ATACAGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGATACTAATACAGGGCTAAG-CCCGAAGG-ATTGGAACGAGTTA-CT
* *
44107361 ATATCC-GGTTAAATT
63 AAATCCGGGTTAAATC
44107376 CCGAAGG
1 CCGAAGG
44107383 TACGTGATTC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
77 10 0.14
78 47 0.65
79 15 0.21
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATACAGGGCTAAGCCCGAAGGATTGGAACGAGTTACTAAA
TCCGGGTTAAATC
Found at i:44108353 original size:20 final size:20
Alignment explanation
Indices: 44108325--44108365 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
44108315 ATGCCATTAT
44108325 ATGTATAGATTCCTCTATTG
1 ATGTATAGATTCCTCTATTG
*
44108345 ATGTCTAGATTCCTCTATTG
1 ATGTATAGATTCCTCTATTG
44108365 A
1 A
44108366 AACAGCCAAC
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:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATAGATTCCTCTATTG
Found at i:44122254 original size:80 final size:79
Alignment explanation
Indices: 44121994--44122294 Score: 367
Period size: 80 Copynumber: 3.8 Consensus size: 79
44121984 TCCTCGTTCA
* * * ** *
44121994 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCC-TC-GGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
44122057 TAACAACTCGCACG
66 TAACAACTCGCACG
44122071 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
44122136 TTAACAACTCGCACG
65 TTAACAACTCGCACG
44122151 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
** * *
44122216 TTAGTATCTCGCACA
65 TTAACAACTCGCACG
* ** * * * * *
44122231 AAGGCCTTC-GGATCTTAGTCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCCGG
44122294 A
63 A
44122295 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
77 33 0.17
78 6 0.03
79 5 0.03
80 150 0.75
81 6 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:44122254 original size:120 final size:120
Alignment explanation
Indices: 44122024--44122294 Score: 363
Period size: 120 Copynumber: 2.3 Consensus size: 120
44122014 CGGTTTTAGT
*
44122024 AACTCACACAATGCC-TC-GGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
* * *
44122087 AACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-AC
66 AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
44122141 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
** * ** *
44122206 TAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTC
65 TAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATAC
* * *
44122262 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
44122295 CAGCATTCAA
Statistics
Matches: 135, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
117 8 0.06
118 6 0.04
119 5 0.04
120 110 0.81
121 6 0.04
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (120 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
Found at i:44122255 original size:40 final size:40
Alignment explanation
Indices: 44121994--44122241 Score: 376
Period size: 40 Copynumber: 6.3 Consensus size: 40
44121984 TCCTCGTTCA
* * * ** *
44121994 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
44122033 AATGCC-TC-GGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
44122071 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
44122111 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
44122151 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
44122191 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
44122231 AAGGCCTTCGG
1 AATGCCTTCGG
44122242 ATCTTAGTCC
Statistics
Matches: 195, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
37 23 0.12
38 8 0.04
39 8 0.04
40 156 0.80
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:44122303 original size:41 final size:41
Alignment explanation
Indices: 44122226--44122303 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44122216 TTAGTATCTC
* * *
44122226 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44122267 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44122304 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:44125333 original size:18 final size:18
Alignment explanation
Indices: 44125307--44125344 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
44125297 TCATAGGGTA
*
44125307 TGTTGATGCTGATTTTGC
1 TGTTAATGCTGATTTTGC
44125325 TGTTAATGCTGATTTTGC
1 TGTTAATGCTGATTTTGC
44125343 TG
1 TG
44125345 GAGACCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.11, G:0.26, T:0.50
Consensus pattern (18 bp):
TGTTAATGCTGATTTTGC
Found at i:44126400 original size:41 final size:41
Alignment explanation
Indices: 44126331--44126513 Score: 212
Period size: 41 Copynumber: 4.5 Consensus size: 41
44126321 ACATAAAATT
* * *
44126331 TGCTAGGCATAAAG-CCTAGTATAATACACCGGCACAGAGCC
1 TGCTAGGCATAAAGCCCGA-TATTATACACCGGCACAAAGCC
** *
44126372 TGCTAGGCA-ATAAGCTTGATA-TATTACACTGGCACAAAGCC
1 TGCTAGGCATA-AAGCCCGATATTA-TACACCGGCACAAAGCC
** *
44126413 TATTAGGCATAAAGCCCGATATTATACACTGGCACAAAGCC
1 TGCTAGGCATAAAGCCCGATATTATACACCGGCACAAAGCC
*
44126454 TGCTAGGCATAAAGCCCAATATTATACACCGGCACAAAGCC
1 TGCTAGGCATAAAGCCCGATATTATACACCGGCACAAAGCC
44126495 TGCTA-GCAATAAAGCCCGA
1 TGCTAGGC-ATAAAGCCCGA
44126514 ATATCACTGA
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.03
41 113 0.93
42 4 0.03
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (41 bp):
TGCTAGGCATAAAGCCCGATATTATACACCGGCACAAAGCC
Found at i:44132960 original size:77 final size:76
Alignment explanation
Indices: 44132825--44133090 Score: 356
Period size: 77 Copynumber: 3.5 Consensus size: 76
44132815 AGCCCCAAAA
* * * * *
44132825 CCCCAATTTCTTTTCCCCAAATTAGTTCCCTCCTCCTCGAAATCCCTAAATGTTTTTCCCAGATT
1 CCCCAATTTCTTTTCCCCAAATCAGTTCCCCCCTCCCCGAAATCCCTAAGT-TTTTTCCCAGATC
*
44132890 CATTTCTTTTTT
65 CCTTTCTTTTTT
* *
44132902 CCCCAATTTCTTTT-CCCAAACCAGTTCCCCCTCTCCCCGAAATCCCTAAGTTTCTTTCCCAGAC
1 CCCCAATTTCTTTTCCCCAAATCAGTTCCCCC-CTCCCCGAAATCCCTAAGTTT-TTTCCCAGAT
44132966 CCCTTTCTTTTTT
64 CCCTTTCTTTTTT
* * * * *
44132979 CCCCAATTCCTTTTCCCTAAATCAATT-CCCCCTCCCCGAAATCCCAAAGTTTTTTCCCAAATCC
1 CCCCAATTTCTTTTCCCCAAATCAGTTCCCCCCTCCCCGAAATCCCTAAGTTTTTTCCCAGATCC
*
44133043 CTTTCATTTTT
66 CTTTCTTTTTT
*
44133054 CCCCAATTTCTTTTCCCCAAATCAGTTCCCCCTTCCC
1 CCCCAATTTCTTTTCCCCAAATCAGTTCCCCCCTCCC
44133091 GATATATGCG
Statistics
Matches: 165, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
75 44 0.27
76 44 0.27
77 68 0.41
78 9 0.05
ACGTcount: A:0.19, C:0.39, G:0.04, T:0.38
Consensus pattern (76 bp):
CCCCAATTTCTTTTCCCCAAATCAGTTCCCCCCTCCCCGAAATCCCTAAGTTTTTTCCCAGATCC
CTTTCTTTTTT
Found at i:44135596 original size:79 final size:81
Alignment explanation
Indices: 44135507--44135684 Score: 306
Period size: 79 Copynumber: 2.2 Consensus size: 81
44135497 AGTTAATGAT
*
44135507 TATCATAACTTACATAAACATTTAAAGAGTATAAAAAATACAATTTCTAACATTTAGAGAATAT-
1 TATCATAACTTACATAAACATTTAAAGAATATAAAAAATACAATTTCTAACATTTAGAGAATATA
44135571 AAAAA-ATATATATTA
66 AAAAATATATATATTA
** *
44135586 TATCATAACTTACATAAACATTTAAAGAATATAAAAAATGTAATTTCTAACATTTAGTGAATATA
1 TATCATAACTTACATAAACATTTAAAGAATATAAAAAATACAATTTCTAACATTTAGAGAATATA
44135651 AAAAATATATATATTA
66 AAAAATATATATATTA
44135667 TATCATAACTTACATAAA
1 TATCATAACTTACATAAA
44135685 ACTTTGGATC
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 60 0.65
80 5 0.05
81 28 0.30
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.34
Consensus pattern (81 bp):
TATCATAACTTACATAAACATTTAAAGAATATAAAAAATACAATTTCTAACATTTAGAGAATATA
AAAAATATATATATTA
Found at i:44137555 original size:12 final size:12
Alignment explanation
Indices: 44137538--44137570 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
44137528 CGTCCTGCCC
44137538 ATATTAATTTTT
1 ATATTAATTTTT
44137550 ATATT-ATTTTT
1 ATATTAATTTTT
44137561 ATA-TAATTTT
1 ATATTAATTTT
44137571 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:44137595 original size:18 final size:18
Alignment explanation
Indices: 44137572--44137611 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
44137562 TATAATTTTA
*
44137572 AAAAATA-TATAAACCATC
1 AAAAATACTA-AAAACATC
44137590 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
44137608 AAAA
1 AAAA
44137612 TAAATAGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:44140281 original size:29 final size:28
Alignment explanation
Indices: 44140226--44140281 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
44140216 GATATATACA
* *
44140226 ATATAAAAATATATAAAAGAATTAGTAT
1 ATATAAAAATATATAAAAAAATGAGTAT
44140254 ATATAAAAA-ATATAAAATAAAGTGAGTA
1 ATATAAAAATATATAAAA-AAA-TGAGTA
44140282 ATTGTTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 11 0.46
29 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (28 bp):
ATATAAAAATATATAAAAAAATGAGTAT
Found at i:44140838 original size:22 final size:21
Alignment explanation
Indices: 44140808--44140873 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
44140798 TACAAATTAA
44140808 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
44140830 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
44140851 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
44140870 ATCT
1 ATCT
44140874 AAGATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:44140860 original size:19 final size:19
Alignment explanation
Indices: 44140825--44140886 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
44140815 AGATTACAAG
44140825 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
44140846 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
44140865 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
44140884 ATC
1 ATC
44140887 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:44153898 original size:17 final size:18
Alignment explanation
Indices: 44153876--44153910 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
44153866 TTAAAGTTTC
44153876 TTAGCTATTAG-ACACCA
1 TTAGCTATTAGAACACCA
44153893 TTAGCTATTAGAACACCA
1 TTAGCTATTAGAACACCA
44153911 CTTTTGCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
TTAGCTATTAGAACACCA
Found at i:44160880 original size:42 final size:42
Alignment explanation
Indices: 44160833--44160924 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
44160823 TGGCCCAGAG
* ** *
44160833 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
44160875 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
44160917 GCCCATTT
1 GCCCATTT
44160925 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:44161103 original size:25 final size:26
Alignment explanation
Indices: 44161070--44161166 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
44161060 CTCTTTTAAT
*
44161070 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
44161095 AACTAGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
44161120 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
44161146 AACTGGGGCATAAGCGCTTTT
1 AACTGGGGCATAAGCCCTTTT
44161167 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 31 0.48
26 34 0.52
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:44161140 original size:51 final size:49
Alignment explanation
Indices: 44161057--44161166 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 49
44161047 CTAGAGGCTT
*
44161057 AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTAGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTAGGGCATA
*
44161106 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCAGTAAACTAGGGCATA
*
44161158 AGCGCTTTT
1 AGCCCTTTT
44161167 GCACTTCCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 5 0.09
49 7 0.13
50 10 0.19
51 23 0.43
52 9 0.17
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (49 bp):
AGCCCTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTAGGGCATA
Found at i:44161141 original size:26 final size:25
Alignment explanation
Indices: 44161057--44161166 Score: 134
Period size: 26 Copynumber: 4.4 Consensus size: 25
44161047 CTAGAGGCTT
44161057 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
** *
44161081 AGCCCTTTTCGGTAAACTAGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
44161106 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
*
44161132 AGCCCTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
*
44161158 AGCGCTTTT
1 AGCCCTTTT
44161167 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.07
24 5 0.07
25 31 0.41
26 34 0.45
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:44161241 original size:20 final size:20
Alignment explanation
Indices: 44161216--44161302 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
44161206 TTATGAATAC
44161216 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
44161236 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
44161256 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
44161276 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
44161296 ATCATGT
1 ATCATGT
44161303 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:44164787 original size:47 final size:47
Alignment explanation
Indices: 44164733--44165008 Score: 426
Period size: 47 Copynumber: 5.9 Consensus size: 47
44164723 TTAGGATTTT
**
44164733 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
44164780 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
44164827 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
44164874 ATGTGATGAATGTGAGCATGTATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
44164921 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
44164968 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAA
44165009 CGACCAAATG
Statistics
Matches: 206, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 206 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Done.