Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 174 of 320
Found at i:57555909 original size:45 final size:45
Alignment explanation
Indices: 57555794--57555906 Score: 192
Period size: 45 Copynumber: 2.5 Consensus size: 45
57555784 CCAAATATCC
*
57555794 CTTCTCCTCTCTCTCAAACGATTTCTCCTTGACCAATTGCTTGTT
1 CTTCTCCTCTCTCTCAAACGGTTTCTCCTTGACCAATTGCTTGTT
* *
57555839 CTTCTCCTCTCTTTCAAACGGTTTCTCCTTGGCCAATTGCTT-TT
1 CTTCTCCTCTCTCTCAAACGGTTTCTCCTTGACCAATTGCTTGTT
57555883 CTTCTCCTCTCTCTCAAACGGTTT
1 CTTCTCCTCTCTCTCAAACGGTTT
57555907 TCTTCTTAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 25 0.39
45 39 0.61
ACGTcount: A:0.13, C:0.34, G:0.10, T:0.43
Consensus pattern (45 bp):
CTTCTCCTCTCTCTCAAACGGTTTCTCCTTGACCAATTGCTTGTT
Found at i:57558507 original size:27 final size:27
Alignment explanation
Indices: 57558475--57558530 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
57558465 ATTTAAATGA
57558475 ATCAATATGTACAAATGTATCAATGCC
1 ATCAATATGTACAAATGTATCAATGCC
57558502 ATCAATATGTACAAATGTATCAATGCC
1 ATCAATATGTACAAATGTATCAATGCC
57558529 AT
1 AT
57558531 GATGAATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
ATCAATATGTACAAATGTATCAATGCC
Found at i:57562075 original size:47 final size:49
Alignment explanation
Indices: 57562012--57562126 Score: 146
Period size: 49 Copynumber: 2.4 Consensus size: 49
57562002 TGTTGTGTGT
* * *
57562012 CAGTATAAGACCTGTCTGGGACATAGCATC-GAC-CGATAG-ATGACAGC
1 CAGTGTAAGACCTGTCTGGGACACAGCATCAGACTCGAT-GTATGAAAGC
* * *
57562059 CAGTGTAAGACCTGTCTGGGACACGGCATCAGCCTCGATGTATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACACAGCATCAGACTCGATGTATGAAAGC
57562108 CAGTGTAAGACCTGTCTGG
1 CAGTGTAAGACCTGTCTGG
57562127 AACGTGGCGT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
47 27 0.46
48 3 0.05
49 29 0.49
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACACAGCATCAGACTCGATGTATGAAAGC
Found at i:57562137 original size:140 final size:138
Alignment explanation
Indices: 57561879--57562137 Score: 303
Period size: 140 Copynumber: 1.9 Consensus size: 138
57561869 TGTGCTAGTG
* * * * *
57561879 TAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGGCAT
1 TAAGACATGTCTGGGACATGCATCGCCATTGAGACGACAGCCAGTGTAAGACATGTCTGGGACAG
* * *
57561944 GCATCAACCTCGAGATATACAAGCTAGTGTAAGACTTGTCTGGGACATTGCGTCATCTTGTTGTG
66 GCATCAACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGAACATGGCGTCATCTTGTTGTG
57562009 TGTCAGTA
131 TGTCAGTA
* * *
57562017 TAAGACCTGTCTGGGACATAGCATCGACCGA-T-AGATGACAGCCAGTGTAAGACCTGTCTGGGA
1 TAAGACATGTCTGGGACAT-GCATCG-CC-ATTGAGACGACAGCCAGTGTAAGACATGTCTGGGA
* *
57562080 CACGGCATCAGCCTCGATG-TATGA-AAG-TCAGTGTAAGACCTGTCTGGAACGTGGCGTC
63 CA-GGCATCAACCTCGA-GATAT-ACAAGCT-AGTGTAAGACCTGTCTGGAACATGGCGTC
57562138 GACATCTTAT
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
138 18 0.18
139 35 0.35
140 45 0.45
141 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (138 bp):
TAAGACATGTCTGGGACATGCATCGCCATTGAGACGACAGCCAGTGTAAGACATGTCTGGGACAG
GCATCAACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGAACATGGCGTCATCTTGTTGTG
TGTCAGTA
Found at i:57574111 original size:20 final size:20
Alignment explanation
Indices: 57574015--57574106 Score: 139
Period size: 20 Copynumber: 4.6 Consensus size: 20
57574005 AAGCTTATGC
* *
57574015 TAAGTAATTGCAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
57574035 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
* *
57574055 TAAGTAAATGGGATGGAAAT
1 TAAGTAAATGGAATGGAAAG
*
57574075 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
57574095 TAAGTAAATGGA
1 TAAGTAAATGGA
57574107 GTGGTTCATA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.47, C:0.01, G:0.28, T:0.24
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:57577718 original size:11 final size:11
Alignment explanation
Indices: 57577692--57577756 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
57577682 ATTTTGATAT
57577692 ACATGATATG-
1 ACATGATATGC
57577702 ACATGATATGC
1 ACATGATATGC
57577713 ACATGATATG-
1 ACATGATATGC
** *
57577723 TTATGAGATGC
1 ACATGATATGC
*
57577734 ACATGATATAC
1 ACATGATATGC
* *
57577745 TCATTATATGC
1 ACATGATATGC
57577756 A
1 A
57577757 TGGGCTGGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 17 0.40
11 25 0.60
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:57577718 original size:21 final size:21
Alignment explanation
Indices: 57577692--57577742 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
57577682 ATTTTGATAT
*
57577692 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
**
57577713 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGAGATGC
57577734 ACATGATAT
1 ACATGATAT
57577743 ACTCATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:57577754 original size:32 final size:31
Alignment explanation
Indices: 57577694--57577754 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
57577684 TTTGATATAC
* *
57577694 ATGATATGACATGATATGCACATGATATGTT
1 ATGAGATGACATGATATACACATGATATGTT
* *
57577725 ATGAGATGCACATGATATACTCATTATATG
1 ATGAGATG-ACATGATATACACATGATATG
57577755 CATGGGCTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (31 bp):
ATGAGATGACATGATATACACATGATATGTT
Found at i:57578119 original size:30 final size:31
Alignment explanation
Indices: 57578052--57578134 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
57578042 CGCTTACAGT
*
57578052 AAAGGCTTCGGCCCAGTGATATGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
57578083 AAAGGCTTCGGCCCAGTGTTATGAATTATG-
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
57578113 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
57578135 TTGAGACTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.08
30 16 0.33
31 28 0.58
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:57580769 original size:22 final size:22
Alignment explanation
Indices: 57580741--57580862 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
57580731 TTCCACATCC
57580741 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
57580763 ATCACATATATACACTTTC-ACATTT
1 ATCACAT-T-GGC-CATTCGGC-CTT
57580788 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
57580810 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
57580834 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
57580857 ATCACA
1 ATCACA
57580863 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 28 0.40
23 10 0.14
24 10 0.14
25 22 0.31
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:57580776 original size:47 final size:47
Alignment explanation
Indices: 57580713--57580969 Score: 356
Period size: 47 Copynumber: 5.4 Consensus size: 47
57580703 CCCTTCGGGA
* * *
57580713 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
57580760 CTTATCACATATATACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
57580807 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
57580854 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
57580901 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
57580950 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
57580970 GTACATCAAT
Statistics
Matches: 190, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 148 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:57600045 original size:27 final size:27
Alignment explanation
Indices: 57600006--57600183 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
57599996 ACATTGAGCC
* * * *
57600006 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
57600033 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
57600060 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
57600088 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
57600115 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
57600142 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
57600169 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
57600184 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:57600145 original size:82 final size:81
Alignment explanation
Indices: 57600027--57600182 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
57600017 TGCTATATAA
* * * **
57600027 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
57600092 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
57600109 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
57600173 CCCTTAGTGC
65 CACTTAGTGC
57600183 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57608028 original size:27 final size:27
Alignment explanation
Indices: 57607989--57608166 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
57607979 ACATTGAGCC
* * * *
57607989 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
57608016 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
57608043 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
57608071 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
57608098 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
57608125 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
57608152 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
57608167 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:57608128 original size:82 final size:81
Alignment explanation
Indices: 57608010--57608165 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
57608000 TGCTATATAA
* * * **
57608010 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
57608075 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
57608092 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
57608156 CCCTTAGTGC
65 CACTTAGTGC
57608166 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57610944 original size:17 final size:15
Alignment explanation
Indices: 57610907--57610936 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57610897 GGTGATAAAC
57610907 CTATTAATATGTGTG
1 CTATTAATATGTGTG
57610922 CTATTAATATGTGTG
1 CTATTAATATGTGTG
57610937 TTTGATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
CTATTAATATGTGTG
Found at i:57612496 original size:48 final size:48
Alignment explanation
Indices: 57612439--57612724 Score: 273
Period size: 48 Copynumber: 6.0 Consensus size: 48
57612429 AAGGGTGAAT
* * * *
57612439 TGCCGATGCCATGTTCCAAACATGGTCTTACAGTGGCT-TACATGTCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATC-A
* * * *
57612487 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATC-A
* *
57612535 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGTCTCT-CATAAT-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCA
* * * *
57612582 TGACCGATGCCATGTCCTAGATATGGTCTTACACTAGCGC-ACATATCAA
1 TG-CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATC-A
*
57612631 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTA-AT-TACA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAT-CA
* * * * * *
57612678 TTCCGATGTCATGTTCCAAACATGGTCTTACACTAGCAC-ACATATCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCA
57612725 CCCAAATGTC
Statistics
Matches: 196, Mismatches: 32, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.01
47 43 0.22
48 146 0.74
49 6 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCA
Found at i:57612608 original size:96 final size:94
Alignment explanation
Indices: 57612439--57612724 Score: 313
Period size: 96 Copynumber: 3.0 Consensus size: 94
57612429 AAGGGTGAAT
* * * ** **
57612439 TGCCGATGCCATGTTCCAAACATGGTCTTACAGTGGCT-TACATGTCGAGGCCGATGCCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-ATAAC-ATACCGATGCCATGT-C
* * * *
57612503 CAGACATGGTCTTACACTAGCTCTCGTCTCAA
63 CAGACATGGTCTTACACTAGCGCACATATCAA
* * * *
57612535 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGTCTCTCATAATATGACCGATGCCATGTCCT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAACAT-ACCGATGCCATGTCC-
*
57612600 AGATATGGTCTTACACTAGCGCACATATCAA
64 AGACATGGTCTTACACTAGCGCACATATCAA
* * * *
57612631 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTAATTACATTCCGATGTCATGTTCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAACATACCGATGCCATG-TCCA
* *
57612696 AACATGGTCTTACACTAGCACACATATCA
65 GACATGGTCTTACACTAGCGCACATATCA
57612725 CCCAAATGTC
Statistics
Matches: 159, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
95 40 0.25
96 118 0.74
97 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAACATACCGATGCCATGTCCAG
ACATGGTCTTACACTAGCGCACATATCAA
Found at i:57620226 original size:46 final size:45
Alignment explanation
Indices: 57620150--57620365 Score: 236
Period size: 46 Copynumber: 4.6 Consensus size: 45
57620140 GTAAGGTGTT
* * *
57620150 GATGCCATGTCCCAGAAATAGTCTTACACTGACTATCATCTTGAGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCGAGGCC
*
57620198 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCC
* * * * * *
57620244 GATGCATGTCCTAGACATGCCTTACACTAGTCTTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACT-GGCTTCATCTCGAGGCC
* *
57620290 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCC
57620338 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
57620366 AGCTCACACA
Statistics
Matches: 145, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
45 1 0.01
46 73 0.50
47 47 0.32
48 23 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCC
Found at i:57620338 original size:94 final size:92
Alignment explanation
Indices: 57620195--57620367 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 92
57620185 TCATCTTGAG
* * *
57620195 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCTAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGAC
57620260 ATGCCTTACACTAGTCTTCGTCTCAAT
66 ATGCCTTACACTAGTCTTCGTCTCAAT
*
57620287 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATGTCCC
*
57620350 AGACATGTCTTACACTAG
62 AGACATGCCTTACACTAG
57620368 CTCACACATG
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 49 0.68
95 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGAC
ATGCCTTACACTAGTCTTCGTCTCAAT
Found at i:57627870 original size:46 final size:46
Alignment explanation
Indices: 57627781--57627997 Score: 169
Period size: 46 Copynumber: 4.6 Consensus size: 46
57627771 GGTAAGGTGT
* **
57627781 CGATGCCATGTCCCAAACATGGTCTTACATTAACTATCA-TCTCGTA-GC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-AGTCTCGTAGGC
*
57627829 CGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCG-AGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTTA-GTCTCGTAGGC
* * * *
57627875 CGATGCATGTCCCAAACATGTCTTACACTAGCCCTAGTCTC-AATGC
1 CGATGCATGTCCCAAACATGTCTTACACT-GGCTTAGTCTCGTAGGC
* * * *
57627921 CGATGCCATGTCCCAAACAAGGTCTTACATTGGCTCTCGTAAT-GT-GGC
1 CGATG-CATGTCCCAAAC-ATGTCTTACACTGGCT-TAGT-CTCGTAGGC
*
57627969 CGATGCATGT-CCAAGACATTTCTTACACT
1 CGATGCATGTCCCAA-ACATGTCTTACACT
57627998 AGCTCACACA
Statistics
Matches: 139, Mismatches: 19, Indels: 24
0.76 0.10 0.13
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 72 0.52
47 38 0.27
48 25 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTTAGTCTCGTAGGC
Found at i:57632964 original size:47 final size:48
Alignment explanation
Indices: 57632891--57632994 Score: 147
Period size: 47 Copynumber: 2.2 Consensus size: 48
57632881 CCAATTCAAA
* * *
57632891 TAAGACCATGTCTGGGACATGGCATCGGC-GTGATATGAGAGCCAGTG
1 TAAGACCATGTCTGAGACATGACATCGGCAGTGATATGAGAGCCAATG
* * *
57632938 TAAGACCATGTCTGAGACATGACATCGGCATTGATATGTGTGCCAATG
1 TAAGACCATGTCTGAGACATGACATCGGCAGTGATATGAGAGCCAATG
57632986 TAAGACCAT
1 TAAGACCAT
57632995 AGCTGGGATA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
47 27 0.54
48 23 0.46
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGAGACATGACATCGGCAGTGATATGAGAGCCAATG
Found at i:57633025 original size:48 final size:47
Alignment explanation
Indices: 57632891--57633014 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 47
57632881 CCAATTCAAA
* * * *
57632891 TAAGACCATGTCTGGGACATGGCATCGGCGTGATATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATGATATGTGTGCCAATG
* *
57632938 TAAGACCATGTCTGAGACATGACATCGGCATTGATATGTGTGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCA-TGATATGTGTGCCAATG
*
57632986 TAAGACCATAG-CTGGGATATGGCATCGGC
1 TAAGACCAT-GTCTGGGACATGGCATCGGC
57633015 CTCGGTATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
47 27 0.41
48 38 0.58
49 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATGATATGTGTGCCAATG
Found at i:57633098 original size:42 final size:42
Alignment explanation
Indices: 57633052--57633145 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
57633042 CATCTGGGAT
* *
57633052 ATGGCATTGATATGAGACT-TCGTGTAAGACCATGTATAGGAC
1 ATGGCATCGATATG-GACTCTCGTATAAGACCATGTATAGGAC
** * *
57633094 ATGGCATCGATATGGGGTCTCGTATAAGACCATGTTTGGGAC
1 ATGGCATCGATATGGACTCTCGTATAAGACCATGTATAGGAC
*
57633136 ATGACATCGA
1 ATGGCATCGA
57633146 CATCAACATA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (42 bp):
ATGGCATCGATATGGACTCTCGTATAAGACCATGTATAGGAC
Found at i:57637850 original size:34 final size:34
Alignment explanation
Indices: 57637807--57637872 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
57637797 AAGAAATGGA
*
57637807 TATTTAGGGCATTAGTTTAAAATGGAGTTATAGT
1 TATTAAGGGCATTAGTTTAAAATGGAGTTATAGT
57637841 TATTAAGGGCATTAGTTTAAAATGGAGTTATA
1 TATTAAGGGCATTAGTTTAAAATGGAGTTATA
57637873 ATATAGAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (34 bp):
TATTAAGGGCATTAGTTTAAAATGGAGTTATAGT
Found at i:57638068 original size:5 final size:5
Alignment explanation
Indices: 57638058--57638085 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
57638048 AATGTACTAG
57638058 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
57638086 CAAACAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:57647565 original size:137 final size:137
Alignment explanation
Indices: 57647319--57647592 Score: 539
Period size: 137 Copynumber: 2.0 Consensus size: 137
57647309 TATCATATAG
57647319 ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
1 ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
57647384 AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTCGAGCA
66 AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTCGAGCA
57647449 TGATGCT
131 TGATGCT
57647456 ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
1 ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
*
57647521 AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTTGAGCA
66 AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTCGAGCA
57647586 TGATGCT
131 TGATGCT
57647593 GTTTTTACTT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 136 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (137 bp):
ATGCTTCATTAACTTAATCCTTATATTACAGTTGTGGGGCTTTGTATATGGATCAAAATATGATG
AAATACTTGCTTTAAGTAGAACAGAGATGCCTGGAATTTGCCGATGGTAAAACACCCTTCGAGCA
TGATGCT
Found at i:57658820 original size:13 final size:13
Alignment explanation
Indices: 57658802--57658827 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57658792 CGTAGCTTCG
57658802 AAAAAAAAAAGTT
1 AAAAAAAAAAGTT
57658815 AAAAAAAAAAGTT
1 AAAAAAAAAAGTT
57658828 TCGAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAAAAAAAAGTT
Found at i:57658862 original size:13 final size:13
Alignment explanation
Indices: 57658846--57658872 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57658836 AAAAGAAGGA
57658846 AAAAAAAAATTGC
1 AAAAAAAAATTGC
57658859 AAAAAAAAATTGC
1 AAAAAAAAATTGC
57658872 A
1 A
57658873 TACGGTCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAAAAAAATTGC
Found at i:57658862 original size:14 final size:14
Alignment explanation
Indices: 57658802--57658872 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 14
57658792 CGTAGCTTCG
57658802 AAAAAAAAAAGTT--
1 AAAAAAAAAA-TTGC
*
57658815 AAAAAAAAAAGTTTC
1 AAAAAAAAAA-TTGC
* *
57658830 GAAAAAAAAAGA-AGG
1 -AAAAAAAAA-ATTGC
57658845 AAAAAAAAAATTGC
1 AAAAAAAAAATTGC
57658859 -AAAAAAAAATTGC
1 AAAAAAAAAATTGC
57658872 A
1 A
57658873 TACGGTCTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
13 27 0.57
14 10 0.21
16 9 0.19
17 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (14 bp):
AAAAAAAAAATTGC
Found at i:57661055 original size:24 final size:25
Alignment explanation
Indices: 57661028--57661081 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
57661018 ATGAGTGATA
*
57661028 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
57661052 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
57661076 AAAAAA
1 AAAAAA
57661082 AGAATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:57669305 original size:13 final size:13
Alignment explanation
Indices: 57669287--57669311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57669277 TTTTTCATAA
57669287 ATTTTAAATTTAT
1 ATTTTAAATTTAT
57669300 ATTTTAAATTTA
1 ATTTTAAATTTA
57669312 ATAAAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTAAATTTAT
Found at i:57671101 original size:48 final size:48
Alignment explanation
Indices: 57671046--57671220 Score: 196
Period size: 48 Copynumber: 3.7 Consensus size: 48
57671036 TGATATGTAT
* * *
57671046 GCTAGTGTAAGACATGTTTGAAACATGCATCGACCTCGAGATATACCA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGATATACAA
* * * * *
57671094 GCCAGTGTAAGACATGTCTGGGACATGCATC-AGCATTGA-A-ATGA-GA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGA-CCTCGAGATAT-ACAA
* *
57671140 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGATATACAA
*
57671188 GCTAGTGTAAGACCTGTCTGAGACATGGCATCG
1 GCTAGTGTAAGACATGTCTGAGACAT-GCATCG
57671221 GCACCGATAG
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
46 37 0.35
47 5 0.05
48 58 0.55
49 6 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGATATACAA
Found at i:57671207 original size:94 final size:94
Alignment explanation
Indices: 57671046--57671366 Score: 331
Period size: 94 Copynumber: 3.3 Consensus size: 94
57671036 TGATATGTAT
* ** * * * *
57671046 GCTAGTGTAAGACATGTTTGAAACATGCATCGACCTCGAGATATACCAGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGT
57671111 CTGGGACAT-GCATCAGCATTGAAATGAGA
66 CTGGGACATGGCATC-GCATTGAAATGAGA
57671140 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGT
* **
57671205 CTGAGACATGGCATCGGCACCGATAGATGAGA
66 CTGGGACATGGCATC-GCATTGA-A-ATGAGA
* * * * * * * *
57671237 GATAGTGTAATACCTGTCTAGGACACGGCATCGGCCTCAATATATGA-AAGTTAGTGTAAGACCT
1 GCTAGTGTAAGACATGTCTGGGACA-TGCATCGGCCTCGAGATAT-ACAAGCTAGTGTAAGACCT
* ** **
57671301 GTCTGGGACATGGCATCGACTTTGATGTGCTA
64 GTCTGGGACATGGCATCG-CATTGAAATGAGA
*
57671333 ACTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
57671367 TCATCTTATC
Statistics
Matches: 186, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
94 66 0.35
95 10 0.05
96 13 0.07
97 45 0.24
98 51 0.27
99 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGT
CTGGGACATGGCATCGCATTGAAATGAGA
Found at i:57671244 original size:49 final size:49
Alignment explanation
Indices: 57671046--57671366 Score: 259
Period size: 49 Copynumber: 6.7 Consensus size: 49
57671036 TGATATGTAT
* * ** * * *
57671046 GCTAGTGTAAGACATGTTTGAAACAT-GCATCGACCTCGAGATAT-ACCA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AA
* * * * * *
57671094 GCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCATTGA-A-ATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
* *
57671140 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AA
* * *
57671188 GCTAGTGTAAGACCTGTCTGAGACATGGCATCGGCAC-CGATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAAA
* * * * *
57671237 GATAGTGTAATACCTGTCTAGGACACGGCATCGGCCTCAATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
* * * * * *
57671286 GTTAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTG--ATGTGCTAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATG-AAA
57671334 -CTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCG
57671367 TCATCTTATC
Statistics
Matches: 225, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
46 38 0.17
47 20 0.09
48 80 0.36
49 85 0.38
50 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
Found at i:57675039 original size:24 final size:24
Alignment explanation
Indices: 57675010--57675061 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
57675000 TTTCTAGAAG
* *
57675010 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
57675034 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
57675058 ATTT
1 ATTT
57675062 CACCTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:57676535 original size:25 final size:25
Alignment explanation
Indices: 57676507--57676580 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
57676497 AGTTATTGAT
57676507 TTCAGCTCGTATGAGCTTACCGTTA
1 TTCAGCTCGTATGAGCTTACCGTTA
* *
57676532 TTCAGCTTGTATGAGCTTACCATTA
1 TTCAGCTCGTATGAGCTTACCGTTA
* *
57676557 TTCAACTCAG-AGGAGCTTACCGTT
1 TTCAGCTC-GTATGAGCTTACCGTT
57676581 TATAGCTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
TTCAGCTCGTATGAGCTTACCGTTA
Found at i:57680601 original size:25 final size:25
Alignment explanation
Indices: 57680565--57680612 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
57680555 CACAAACGCA
57680565 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTGATATAG
* *
57680590 GCTCTTCT-TGAGCTTTCTGATAT
1 GCTCTT-TATGAGCGTCCTGATAT
57680613 GACTCGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (25 bp):
GCTCTTTATGAGCGTCCTGATATAG
Found at i:57691861 original size:28 final size:29
Alignment explanation
Indices: 57691808--57691863 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
57691798 CACTTTGTGC
* *
57691808 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGCTGTGTTTGGGATGGATTATAT
57691837 TATTCTGCTGTGTTTGGGA-GGATTATA
1 TATTCTGCTGTGTTTGGGATGGATTATA
57691864 CTGGTGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.18, C:0.05, G:0.29, T:0.48
Consensus pattern (29 bp):
TATTCTGCTGTGTTTGGGATGGATTATAT
Found at i:57692137 original size:21 final size:21
Alignment explanation
Indices: 57692068--57692140 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
57692058 GCTTTACTGA
* *
57692068 TCAGGCACTTTGTGTGTCGTATT
1 TCAGGCACCTCGTGTGTCG--TT
**
57692091 TCAGGCACCTCGTGTGTCGCA
1 TCAGGCACCTCGTGTGTCGTT
*
57692112 GCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTT
57692133 TCAGGCAC
1 TCAGGCAC
57692141 TTATGTGTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 25 0.60
23 17 0.40
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTT
Found at i:57692527 original size:16 final size:16
Alignment explanation
Indices: 57692506--57692539 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57692496 TACATGTTTG
57692506 ATGTCTATTATTTATT
1 ATGTCTATTATTTATT
57692522 ATGTCTATTATTTATT
1 ATGTCTATTATTTATT
57692538 AT
1 AT
57692540 AGTATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
ATGTCTATTATTTATT
Found at i:57692548 original size:16 final size:16
Alignment explanation
Indices: 57692506--57692548 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
57692496 TACATGTTTG
*
57692506 ATGTCTATTATTTATT
1 ATGTATATTATTTATT
*
57692522 ATGTCTATTATTTATT
1 ATGTATATTATTTATT
57692538 ATAGTAT-TTAT
1 AT-GTATATTAT
57692549 AATTTGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (16 bp):
ATGTATATTATTTATT
Found at i:57701885 original size:40 final size:40
Alignment explanation
Indices: 57701803--57702103 Score: 306
Period size: 40 Copynumber: 7.5 Consensus size: 40
57701793 CTCAAGTAAT
* *
57701803 CTTCGGGAT-TTAG-CCGGATATAA-CTACTTGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* ** *
57701841 CTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
57701881 CTTCGGGACTTAGCTCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
57701921 CTTCGAGTTTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
57701961 CTTCGAGTTTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * * *
57702001 CTTTGGGTCTTAGCCCGGATAT-AGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* * * * *
57702041 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAATCA-CTAGCACAAATGC
*
57702082 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
57702104 CATTCGAATA
Statistics
Matches: 219, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.00
38 11 0.05
39 15 0.07
40 163 0.74
41 29 0.13
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:57709807 original size:40 final size:40
Alignment explanation
Indices: 57709717--57710017 Score: 306
Period size: 40 Copynumber: 7.5 Consensus size: 40
57709707 CTCAAGTAAT
* *
57709717 CTTCGGGAT-TTAG-CCGGATATAA-CTACTTGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* ** *
57709755 CTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * * *
57709795 CTTTGGGACTTAGCTCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
57709835 CTTCGAGTTTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
57709875 CTTCGAGTTTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
57709915 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* * * * *
57709955 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAATCA-CTAGCACAAATGC
*
57709996 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
57710018 CATTCGAATA
Statistics
Matches: 219, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.00
38 11 0.05
39 15 0.07
40 163 0.74
41 29 0.13
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:57717205 original size:48 final size:48
Alignment explanation
Indices: 57717131--57717265 Score: 171
Period size: 48 Copynumber: 2.8 Consensus size: 48
57717121 TAGGGTTATG
*
57717131 TGTGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * **
57717179 TGTGATCCCATGTAAGACCATATCTGGGATAGGGCATTGGCATTTATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
** * * *
57717227 TGTGATTTCGTGTAAGACCATGTTTGGAACATGGCATTG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTG
57717266 ATATGAGACG
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:57725741 original size:16 final size:16
Alignment explanation
Indices: 57725722--57725752 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57725712 CTTCTTCACT
57725722 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57725738 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57725753 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:57725758 original size:20 final size:20
Alignment explanation
Indices: 57725719--57725758 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57725709 AAACTTCTTC
* *
57725719 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57725739 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57725759 TTATTAATAT
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:57726072 original size:53 final size:54
Alignment explanation
Indices: 57725945--57726198 Score: 229
Period size: 53 Copynumber: 4.8 Consensus size: 54
57725935 ACACGGGTAC
* * * * *
57725945 CTTACCATTTCCATGACATGTCATGGTCTTACGTGGTATCCTT---TT-T-AAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * * *
57725994 CTTACCATTTCCATGTCTCGACATGGTTTTATATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
57726047 CTCACCAATTCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
** * * *
57726102 CTTATTAATGCCATGTCTTGACATGGTCTTAC-TGATATCCTTGCCTTA-GAAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
57726154 CCTTACCAATTTCCATGCCTTGGCATAGTCTTACATGGTATCCTT
1 -CTTACCAA-TTCCATGCCTTGACATGGTCTTACATGGTATCCTT
57726199 AAACCCTAAT
Statistics
Matches: 163, Mismatches: 30, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
49 36 0.22
52 8 0.05
53 48 0.29
54 32 0.20
55 39 0.24
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (54 bp):
CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:57726127 original size:55 final size:53
Alignment explanation
Indices: 57726004--57726198 Score: 153
Period size: 55 Copynumber: 3.6 Consensus size: 53
57725994 CTTACCATTT
* * * * *
57726004 CCATGTCTCGACATGGTTTTATATGGTATCCTTGCCTTATGAACTCACCAATT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * **
57726057 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAACTTATTAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
** * *
57726112 CCATGTCTTGACATGGTCTTAC-TGATATCCTTGCCTTA-GAAACCTTACCAATTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TG
* * * *
57726166 CCATGCCTTGGCATAGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
57726199 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
52 6 0.05
53 37 0.32
54 32 0.28
55 39 0.34
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:57731463 original size:26 final size:27
Alignment explanation
Indices: 57731413--57731466 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
57731403 TTGCCTCAAG
57731413 TTCAAATCTTTTTGAGTCATCAAATAT
1 TTCAAATCTTTTTGAGTCATCAAATAT
57731440 TTCAAA-CTTTTGTGA-TCAGT-AAATAT
1 TTCAAATCTTTT-TGAGTCA-TCAAATAT
57731466 T
1 T
57731467 CGGCACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (27 bp):
TTCAAATCTTTTTGAGTCATCAAATAT
Found at i:57735826 original size:16 final size:16
Alignment explanation
Indices: 57735807--57735837 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57735797 CTTCTTCACT
57735807 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57735823 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57735838 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:57735843 original size:20 final size:20
Alignment explanation
Indices: 57735804--57735843 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57735794 AAACTTCTTC
* *
57735804 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57735824 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57735844 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:57736235 original size:55 final size:55
Alignment explanation
Indices: 57736075--57736284 Score: 205
Period size: 55 Copynumber: 3.9 Consensus size: 55
57736065 GTATCCTTTT
* * ** * *
57736075 GAAACTTACCATTGCCATGAATCGACATGGTCTTGCATGGTATCCTTGCCTTAT-
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
57736129 G-AACTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * *
57736183 GAAACTTATCAATGCCATGTCTTAACATGGTCTTACATGATATCCTTGCC-T-TA
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
57736236 GAAACCTTACCAATTTTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 GAAA-CTTACCAA-TGTCATGCCTTGACATGGTCTTACATGGTATCCTT
57736285 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 45 0.36
54 10 0.08
55 65 0.52
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (55 bp):
GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:57742800 original size:18 final size:19
Alignment explanation
Indices: 57742774--57742809 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
57742764 GGGGTTAATG
*
57742774 ATGATACTTT-TAGGGAAT
1 ATGAAACTTTCTAGGGAAT
57742792 ATGAAACTTTCTAGGGAA
1 ATGAAACTTTCTAGGGAA
57742810 GTTTGTGACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.33
Consensus pattern (19 bp):
ATGAAACTTTCTAGGGAAT
Found at i:57749766 original size:6 final size:6
Alignment explanation
Indices: 57749752--57749783 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
57749742 CAAAAGGAGT
*
57749752 TTTTTA TTTTAA TTTTAA TTTTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TT
57749784 GTTTGTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:57757859 original size:19 final size:19
Alignment explanation
Indices: 57757835--57757874 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
57757825 ATCTCATCTC
*
57757835 ATTCA-TTGTATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
57757854 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
57757873 AT
1 AT
57757875 ATTAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:57759746 original size:42 final size:43
Alignment explanation
Indices: 57759690--57759802 Score: 160
Period size: 43 Copynumber: 2.7 Consensus size: 43
57759680 GAGATTTATG
*
57759690 TGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGATTTCA
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGATTACA
*
57759732 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACA
*
57759775 TGTATGACCATGTCTGGGAC-GTTGGCAT
1 TGTAAGACCATGTCTGGGACAG-TGGCAT
57759803 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
42 28 0.44
43 36 0.56
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:57761903 original size:33 final size:33
Alignment explanation
Indices: 57761866--57761928 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
57761856 ATGTTCTTGC
*
57761866 GATGATTAAATATGGTGTGTTACAATTAGTTGT
1 GATGATTAAATATGGTCTGTTACAATTAGTTGT
57761899 GATGATTAAATATGGTCTGTTACAATTAGT
1 GATGATTAAATATGGTCTGTTACAATTAGT
57761929 CACATATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (33 bp):
GATGATTAAATATGGTCTGTTACAATTAGTTGT
Found at i:57768056 original size:25 final size:25
Alignment explanation
Indices: 57768024--57768071 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
57768014 TTATAACATG
* *
57768024 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
57768049 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
57768072 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:57768155 original size:11 final size:11
Alignment explanation
Indices: 57768119--57768174 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
57768109 CATGGTATGT
57768119 ATGATATGCAC
1 ATGATATGCAC
* *
57768130 ATGACATG--T
1 ATGATATGCAC
57768139 ATGATATGCAC
1 ATGATATGCAC
*
57768150 ATGATATG--T
1 ATGATATGCAC
57768159 ATGATATGCAC
1 ATGATATGCAC
57768170 ATGAT
1 ATGAT
57768175 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:57768174 original size:20 final size:20
Alignment explanation
Indices: 57768108--57768174 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
57768098 ATTTTCATAA
*
57768108 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57768128 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
57768148 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
57768168 ACATGAT
1 ACATGAT
57768175 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:57768415 original size:25 final size:24
Alignment explanation
Indices: 57768224--57768401 Score: 284
Period size: 24 Copynumber: 7.4 Consensus size: 24
57768214 GAGGAAGTGC
*
57768224 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
57768248 AAAAAGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
57768272 AAAAAGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
*
57768296 AAAAGGGCTTATGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATT
57768320 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57768344 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57768368 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57768392 AAAAGAGGCT
1 AAAAG-GGCT
57768402 AGGCCTCCAA
Statistics
Matches: 146, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
24 142 0.97
25 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:57776381 original size:25 final size:25
Alignment explanation
Indices: 57776352--57776399 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57776342 TTATAACATG
* * *
57776352 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
57776377 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
57776400 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:57776483 original size:11 final size:11
Alignment explanation
Indices: 57776447--57776502 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
57776437 CATGGTATGT
57776447 ATGATATGCAC
1 ATGATATGCAC
* *
57776458 ATGACATG--T
1 ATGATATGCAC
57776467 ATGATATGCAC
1 ATGATATGCAC
*
57776478 ATGATATG--T
1 ATGATATGCAC
57776487 ATGATATGCAC
1 ATGATATGCAC
57776498 ATGAT
1 ATGAT
57776503 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:57776502 original size:20 final size:20
Alignment explanation
Indices: 57776436--57776502 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
57776426 ATTTTCATAA
*
57776436 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57776456 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
57776476 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
57776496 ACATGAT
1 ACATGAT
57776503 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:57776583 original size:23 final size:24
Alignment explanation
Indices: 57776551--57776716 Score: 232
Period size: 24 Copynumber: 7.0 Consensus size: 24
57776541 GGAGGAAGTG
57776551 CAAAAGGGCTTATG-CCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
57776574 CAAAAAGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
57776598 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
57776622 -AAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
57776645 -AAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
57776668 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
57776692 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
57776717 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
23 58 0.44
24 63 0.48
25 11 0.08
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:57776631 original size:47 final size:46
Alignment explanation
Indices: 57776551--57776702 Score: 225
Period size: 47 Copynumber: 3.2 Consensus size: 46
57776541 GGAGGAAGTG
*
57776551 CAAAAGGGCTTATGCCCAGTTATCAAAAAGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
57776598 CAAAAGGGCTTATGCCCTAGTTATAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCC-AGTTATAAAAGGGCTTATGCCCCAGTTAT
*
57776645 -AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATG-CCCAGTTA-TAAAAGGGCTTATGCCCCAGTTAT
*
57776692 TAAAAGAGGCT
1 CAAAAG-GGCT
57776703 AGGCCTCCAG
Statistics
Matches: 98, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
46 18 0.18
47 65 0.66
48 11 0.11
49 4 0.04
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (46 bp):
CAAAAGGGCTTATGCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:57782199 original size:49 final size:50
Alignment explanation
Indices: 57782127--57782257 Score: 169
Period size: 49 Copynumber: 2.7 Consensus size: 50
57782117 GATAAGATGT
57782127 CGATGCCATGTCCTAGACAGGTCTTACACTGACTT-TCATATATCGAG-GC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGACTTCTCATATATC-AGTGC
* * * *
57782176 CGATGCCGTGTCCTAGATAGGTCTTACACTG-TTTCTCATTTATCAGTGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGACTTCTCATATATCAGTGC
* * *
57782225 CGATGCCATGTCCCAGGCAGGTTTTACACTGAC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGAC
57782258 ACACTAGAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 4 0.06
49 65 0.94
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (50 bp):
CGATGCCATGTCCTAGACAGGTCTTACACTGACTTCTCATATATCAGTGC
Found at i:57782334 original size:48 final size:48
Alignment explanation
Indices: 57782275--57782444 Score: 218
Period size: 48 Copynumber: 3.6 Consensus size: 48
57782265 AAGCTGACGC
* * *
57782275 CATGTCCCAGACAGGTCTTACACTAGCTTGTCTATCTCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTGTCTATCTCAAGGCCGATG
* * * *
57782323 CATGTCCCAGACATGTCTTACACTGGC-TCTC-GTCTCAATGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGCTTGTCTATCTCAAGGCCGATG
* * ** *
57782369 CATGTCCCAGACATGACTTACACTGGCTTGTATATCTTGAGGCCCATG
1 CATGTCCCAGACATGTCTTACACTGGCTTGTCTATCTCAAGGCCGATG
57782417 CATGTCCCAGACATGTCTTACACTGGCT
1 CATGTCCCAGACATGTCTTACACTGGCT
57782445 CTCATAATGT
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 37 0.36
47 5 0.05
48 61 0.59
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTTGTCTATCTCAAGGCCGATG
Found at i:57782376 original size:46 final size:47
Alignment explanation
Indices: 57782275--57782486 Score: 209
Period size: 46 Copynumber: 4.5 Consensus size: 47
57782265 AAGCTGACGC
* * * *
57782275 CATGTCCCAGACAGGTCTTACACTAGCTTGTCTATCTCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTCTC-ATCTCAAGGCCGATG
* * *
57782323 CATGTCCCAGACATGTCTTACACTGGC-TCTCGTCTCAATGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGCTTCTCATCTCAAGGCCGATG
* * * ** *
57782369 CATGTCCCAGACATGACTTACACTGGCTTGTATATCTTGAGGCCCATG
1 CATGTCCCAGACATGTCTTACACTGGCTTCT-CATCTCAAGGCCGATG
*
57782417 CATGTCCCAGACATGTCTTACACTGGC-TCTCA--T-AATGTGTCCGATC
1 CATGTCCCAGACATGTCTTACACTGGCTTCTCATCTCAA-G-G-CCGATG
*
57782463 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
57782487 AGCACACATA
Statistics
Matches: 136, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
45 1 0.01
46 65 0.48
47 7 0.05
48 60 0.44
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCTCATCTCAAGGCCGATG
Found at i:57782389 original size:94 final size:93
Alignment explanation
Indices: 57782275--57782489 Score: 281
Period size: 94 Copynumber: 2.3 Consensus size: 93
57782265 AAGCTGACGC
* * **
57782275 CATGTCCCAGACAGGTCTTACACTAGCTTGTCTATCTCAAGGCTGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCCATGCATGTCCCAGACATGTC
*
57782340 TTACACTGGCTCTCGTCTCAA-TG-CCGATA
66 TTACACTGGCTCTC--AT-AAGTGTCCGATA
* * **
57782369 CATGTCCCAGACATGACTTACACTGGCTTGTATATCTTGAGGCCCATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCCATGCATGTCCCAGACATGTC
*
57782434 TTACACTGGCTCTCATAATGTGTCCGATC
66 TTACACTGGCTCTCATAA-GTGTCCGATA
*
57782463 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
57782490 ACACATATCC
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 2 0.02
94 100 0.95
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCCATGCATGTCCCAGACATGTC
TTACACTGGCTCTCATAAGTGTCCGATA
Found at i:57785014 original size:39 final size:39
Alignment explanation
Indices: 57784956--57785037 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
57784946 AAACTCCCAC
57784956 AAACTTAATTCATTACTTGTCCTCAAGCAACACAAATAA
1 AAACTTAATTCATTACTTGTCCTCAAGCAACACAAATAA
*
57784995 AAACTTAATTCATTTCTTGTCCTCAAGCAACACAAATAA
1 AAACTTAATTCATTACTTGTCCTCAAGCAACACAAATAA
57785034 AAAC
1 AAAC
57785038 AATAAACAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (39 bp):
AAACTTAATTCATTACTTGTCCTCAAGCAACACAAATAA
Found at i:57789153 original size:46 final size:46
Alignment explanation
Indices: 57788984--57789155 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
57788974 GGTTGAGCAT
* * *
57788984 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCTAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACGC
* * * *
57789030 CCAAACTCGTTGAGTTGAGTCCGAGCTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAAC---GC
*
57789075 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACGC
*
57789123 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57789156 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 2 0.02
46 58 0.56
47 26 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACGC
Found at i:57790030 original size:33 final size:33
Alignment explanation
Indices: 57789988--57790054 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
57789978 TTTGTGAAAT
57789988 AGGGCCAGAGTGATTTCTGGATCCCCTGTTCTA
1 AGGGCCAGAGTGATTTCTGGATCCCCTGTTCTA
57790021 AGGGCCAGAGTGATTTCTGGATCCCCTGTTCTA
1 AGGGCCAGAGTGATTTCTGGATCCCCTGTTCTA
57790054 A
1 A
57790055 CATTAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (33 bp):
AGGGCCAGAGTGATTTCTGGATCCCCTGTTCTA
Found at i:57796948 original size:22 final size:23
Alignment explanation
Indices: 57796920--57797000 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
57796910 AAGTGTATAT
57796920 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
57796942 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
57796967 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
57796989 ATGTGATGAATG
1 ATGTGATGAATG
57797001 TGAAAGTGTA
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:57797034 original size:49 final size:47
Alignment explanation
Indices: 57796788--57797106 Score: 539
Period size: 47 Copynumber: 6.7 Consensus size: 47
57796778 ATGATAGTAT
57796788 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
57796835 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
57796882 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
57796929 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
57796976 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
* *
57797025 GGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
57797074 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
57797107 CCCGAAGGGC
Statistics
Matches: 262, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 171 0.65
49 87 0.33
50 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:57797279 original size:36 final size:36
Alignment explanation
Indices: 57797224--57797301 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
57797214 CCGAGCTCTA
* * *
57797224 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGA-CCGATAACTACGTGTGGAGATTATGTCCGGGT
*
57797261 AAGACCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
57797297 AAGAC
1 AAGAC
57797302 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 33 0.89
37 4 0.11
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (36 bp):
AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:57799216 original size:43 final size:43
Alignment explanation
Indices: 57799166--57799311 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
57799156 TTGGTTTTCA
*
57799166 GCACTAAGTGTGCGGGAAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
57799209 GTACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
57799252 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
57799295 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
57799312 TTGAAATGCA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:57799328 original size:29 final size:29
Alignment explanation
Indices: 57799293--57799366 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
57799283 GTTGTGAGAT
* *
57799293 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
57799322 TGGCACTAAGTGTGCAAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
57799351 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57799367 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:57799801 original size:40 final size:40
Alignment explanation
Indices: 57799678--57800033 Score: 387
Period size: 40 Copynumber: 8.9 Consensus size: 40
57799668 TTGAATGATG
** *
57799678 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
57799718 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
57799758 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
57799798 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
57799838 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
57799878 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
57799918 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
57799958 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
57799998 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
57800034 CGTGTATTCG
Statistics
Matches: 272, Mismatches: 40, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.00
40 253 0.93
41 18 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:57799891 original size:120 final size:120
Alignment explanation
Indices: 57799678--57800028 Score: 431
Period size: 120 Copynumber: 2.9 Consensus size: 120
57799668 TTGAATGATG
* * *
57799678 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAGATCCGAAGAGCA
* * * *
57799740 TTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
64 TTCGTGCTAGTGA-TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
* * *
57799798 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGATCCGAAGAGCATT
* * * *
57799863 CATGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
66 CGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
* * * *
57799918 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA-ACCCCAAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGA-TCCGAAGAGCAT
* * * * *
57799982 TCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGTAATCATGCT
65 TCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
57800029 GGTGACGTGT
Statistics
Matches: 198, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
120 173 0.87
121 19 0.10
122 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGATCCGAAGAGCATT
CGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
Found at i:57803610 original size:47 final size:47
Alignment explanation
Indices: 57803548--57803794 Score: 485
Period size: 47 Copynumber: 5.3 Consensus size: 47
57803538 TGATAGTATG
57803548 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
*
57803595 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
57803642 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
57803689 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
57803736 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
57803783 GCCTAATGGCCG
1 GCCTAATGGCCG
57803795 TGATAATGCC
Statistics
Matches: 198, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 198 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (47 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
Found at i:57803799 original size:19 final size:19
Alignment explanation
Indices: 57803775--57803813 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
57803765 GTGTATATAT
57803775 GTGATAATGCCTAATGGCC
1 GTGATAATGCCTAATGGCC
57803794 GTGATAATGCCTAATGGCC
1 GTGATAATGCCTAATGGCC
57803813 G
1 G
57803814 ATGTGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (19 bp):
GTGATAATGCCTAATGGCC
Found at i:57803808 original size:66 final size:67
Alignment explanation
Indices: 57803728--57803859 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 67
57803718 GTGTATATAT
*
57803728 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAATGCCTAATGG
1 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGG
57803792 CC
66 CC
*
57803794 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATG
1 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATG
57803859 G
65 G
57803860 TCGATGTGAT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 40 0.65
68 22 0.35
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (67 bp):
GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGG
CC
Found at i:57803810 original size:113 final size:115
Alignment explanation
Indices: 57803681--57803911 Score: 385
Period size: 115 Copynumber: 2.0 Consensus size: 115
57803671 GTGTATATAT
*
57803681 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAATGCCTAATGG
1 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGG
*
57803745 CCGATGTGATGAATGTGAAAGTG-TATATATGTGATAATGCCTAATGGCC
66 CCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
*
57803794 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATG
1 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATG
* *
57803859 GTCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCC
65 GCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCC
57803911 G
1 G
57803912 ATGGGATGAA
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
113 40 0.37
115 44 0.40
117 25 0.23
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.31
Consensus pattern (115 bp):
GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
Found at i:57803855 original size:49 final size:49
Alignment explanation
Indices: 57803802--57803931 Score: 233
Period size: 49 Copynumber: 2.6 Consensus size: 49
57803792 CCGTGATAAT
57803802 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGG
*
57803851 GCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGG
*
57803900 GCCTAATGGCCGATGGGATGAATGTGATAAGT
1 GCCTAATGGCCGATGTGATGAATGTGA-AAGT
57803932 CTCGAAGGGC
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 73 0.95
50 4 0.05
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (49 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGG
Found at i:57804105 original size:37 final size:37
Alignment explanation
Indices: 57804049--57804127 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
57804039 CCGAGCTCTA
* *
57804049 AAGACCCGATGACTACGTGTGGGGATT-TCGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTAT-GTCCGGGT
*
57804086 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
57804123 AAGAC
1 AAGAC
57804128 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:57810816 original size:11 final size:11
Alignment explanation
Indices: 57810800--57810829 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
57810790 GTTTAATAAA
57810800 TATTTAATAGT
1 TATTTAATAGT
*
57810811 TGTTTAATAGT
1 TATTTAATAGT
57810822 TATTTAAT
1 TATTTAAT
57810830 GTGTCTAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (11 bp):
TATTTAATAGT
Found at i:57821924 original size:15 final size:15
Alignment explanation
Indices: 57821878--57821925 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57821868 GAACCTAAAA
*
57821878 AAACTTCGTATCCAT
1 AAACTTCATATCCAT
* * *
57821893 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
57821907 AAACTTCATATCCAT
1 AAACTTCATATCCAT
57821922 AAAC
1 AAAC
57821926 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:57824824 original size:29 final size:29
Alignment explanation
Indices: 57824791--57824850 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
57824781 ATAACCAAAC
* *
57824791 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
57824820 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
57824849 CT
1 CT
57824851 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:57824843 original size:15 final size:15
Alignment explanation
Indices: 57824797--57824844 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57824787 AAACCTACAA
*
57824797 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
57824812 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
57824826 AAACTTCATATCCAT
1 AAACTTCATATCCAT
57824841 AAAC
1 AAAC
57824845 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:57825083 original size:12 final size:12
Alignment explanation
Indices: 57825063--57825096 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
57825053 TCAAGTAAGT
57825063 TTCAAAAAAAAA
1 TTCAAAAAAAAA
57825075 -TCGAAAAAAAAA
1 TTC-AAAAAAAAA
57825087 TTCAAAAAAA
1 TTCAAAAAAA
57825097 TTTTTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.10
12 16 0.80
13 2 0.10
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.15
Consensus pattern (12 bp):
TTCAAAAAAAAA
Found at i:57829441 original size:29 final size:29
Alignment explanation
Indices: 57829408--57829467 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
57829398 ATAACCAAAC
* *
57829408 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
57829437 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
57829466 CT
1 CT
57829468 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:57829460 original size:15 final size:15
Alignment explanation
Indices: 57829414--57829461 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57829404 AAACCTACAA
*
57829414 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
57829429 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
57829443 AAACTTCATATCCAT
1 AAACTTCATATCCAT
57829458 AAAC
1 AAAC
57829462 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:57832245 original size:12 final size:12
Alignment explanation
Indices: 57832215--57832256 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 12
57832205 CAAAAAAAAT
*
57832215 AAAAAAA-TCAA
1 AAAAAAATTGAA
57832226 AAAAAAATTGAA
1 AAAAAAATTGAA
57832238 AAAAAAATTTGAA
1 AAAAAAA-TTGAA
57832251 AAAAAA
1 AAAAAA
57832257 TTGCATACGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 7 0.25
12 10 0.36
13 11 0.39
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:57842003 original size:20 final size:20
Alignment explanation
Indices: 57841980--57842033 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
57841970 AGTTTTTCCC
*
57841980 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
57842000 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
57842020 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
57842034 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:57842015 original size:30 final size:30
Alignment explanation
Indices: 57841980--57842053 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
57841970 AGTTTTTCCC
57841980 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
57842010 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
57842040 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
57842054 TGGCTTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:57842043 original size:20 final size:20
Alignment explanation
Indices: 57841980--57842044 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
57841970 AGTTTTTCCC
* * * *
57841980 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
57842000 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
57842019 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
57842040 AGCTC
1 AGCTC
57842045 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:57843968 original size:15 final size:15
Alignment explanation
Indices: 57843950--57843988 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
57843940 AAAATCGAGC
57843950 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
***
57843965 AAAAAAAAAGGTGAG
1 AAAAAAAAAGAAAAG
57843980 AAAAAAAAA
1 AAAAAAAAA
57843989 TCAAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:57845021 original size:12 final size:12
Alignment explanation
Indices: 57845009--57845126 Score: 50
Period size: 12 Copynumber: 9.8 Consensus size: 12
57844999 GAAAGAGATT
*
57845009 GAAAAAGAAATT
1 GAAAAAGAAATA
57845021 G--AAAGAAA-A
1 GAAAAAGAAATA
*
57845030 CAAAAAGAAA-A
1 GAAAAAGAAATA
*
57845041 CGAAAAAGAAAAA
1 -GAAAAAGAAATA
**
57845054 GAAATTGCAAA-A
1 GAAAAAG-AAATA
*
57845066 GAAAAAGAAATC
1 GAAAAAGAAATA
** *
57845078 GAAAAAGTGAGA
1 GAAAAAGAAATA
57845090 GAAAAAGAAA-A
1 GAAAAAGAAATA
*
57845101 TGAAGAAAAGAAAATT
1 -G-A-AAAAG-AAATA
57845117 GAAAAAGAAA
1 GAAAAAGAAA
57845127 AAGCGAAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
10 7 0.09
11 12 0.15
12 41 0.51
13 10 0.12
14 6 0.08
15 4 0.05
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.08
Consensus pattern (12 bp):
GAAAAAGAAATA
Found at i:57845052 original size:18 final size:18
Alignment explanation
Indices: 57845026--57845129 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 18
57845016 AAATTGAAAG
*
57845026 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAAACGA
** *
57845044 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAAACGA
*
57845062 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAAACGA
** * *
57845080 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAAACGA
* *
57845098 AAATGAAGAAAAGAAAATTGA
1 AAAAG-A-AAAAGAAAA-CGA
57845119 AAAAGAAAAAG
1 AAAAGAAAAAG
57845130 CGAAAAAAGA
Statistics
Matches: 66, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
18 47 0.71
19 5 0.08
20 8 0.12
21 6 0.09
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAACGA
Found at i:57845054 original size:6 final size:6
Alignment explanation
Indices: 57845022--57845129 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
57845012 AAAGAAATTG
* * ** *
57845022 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
57845069 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
57845120 AAAGAA AAAG
1 AAAGAA AAAG
57845130 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 24, Indels: 7
0.71 0.23 0.07
Matches are distributed among these distances:
5 3 0.04
6 61 0.81
7 7 0.09
8 4 0.05
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:57845111 original size:14 final size:13
Alignment explanation
Indices: 57845090--57845127 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
57845080 AAAAGTGAGA
57845090 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
57845102 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
57845117 GAAAAAGAAAA
1 GAAAAAGAAAA
57845128 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:57845141 original size:21 final size:21
Alignment explanation
Indices: 57845091--57845141 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
57845081 AAAGTGAGAG
*
57845091 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
57845112 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
57845133 AAAAAGAAA
1 AAAAAGAAA
57845142 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:57845181 original size:33 final size:33
Alignment explanation
Indices: 57845144--57845206 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
57845134 AAAAGAAATT
57845144 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
57845177 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
57845207 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:57847150 original size:20 final size:20
Alignment explanation
Indices: 57847127--57847180 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
57847117 AGTTTTTCCC
*
57847127 AGCTCGATTTAGCTCACGTG
1 AGCTCAATTTAGCTCACGTG
* ***
57847147 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACGTG
57847167 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
57847181 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACGTG
Found at i:57847162 original size:30 final size:30
Alignment explanation
Indices: 57847127--57847200 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
57847117 AGTTTTTCCC
*
57847127 AGCTCGATTT-AGCTCACGTGAGCTTAATTT
1 AGCTCG-TTTGAGCTCAAGTGAGCTTAATTT
* * *
57847157 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAAGTGAGCTTAATTT
57847187 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
57847201 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAAGTGAGCTTAATTT
Found at i:57847190 original size:20 final size:20
Alignment explanation
Indices: 57847127--57847191 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
57847117 AGTTTTTCCC
* * * *
57847127 AGCTCGATTTAGCTCACGTG
1 AGCTCAATTTAGCTTACTTT
*
57847147 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
57847166 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
57847187 AGCTC
1 AGCTC
57847192 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:57849005 original size:10 final size:10
Alignment explanation
Indices: 57848990--57849036 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
57848980 CCAGCTCAAC
*
57848990 TCAGCTCATT
1 TCAGCTCGTT
*
57849000 TGAGCTCGTT
1 TCAGCTCGTT
*
57849010 TCAGCTTGTT
1 TCAGCTCGTT
57849020 TCAGCTCGTT
1 TCAGCTCGTT
*
57849030 TGAGCTC
1 TCAGCTC
57849037 AACCGAGCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.40
Consensus pattern (10 bp):
TCAGCTCGTT
Found at i:57851577 original size:46 final size:46
Alignment explanation
Indices: 57851527--57851700 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
57851517 TGATTGAGCA
57851527 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57851573 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57851618 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57851666 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
57851701 AGGCGGGTTA
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57851683 original size:93 final size:93
Alignment explanation
Indices: 57851524--57851695 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
57851514 GGATGATTGA
*
57851524 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
57851589 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57851617 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
57851681 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
57851696 CTTATAGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57864874 original size:25 final size:25
Alignment explanation
Indices: 57864846--57864893 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
57864836 ATCTTAATAG
*
57864846 TATTTTATTAAT-TTAATATTAAAGT
1 TATTATATTAATATTAA-ATTAAAGT
*
57864871 TATTATCTTAATATTAAATTAAA
1 TATTATATTAATATTAAATTAAA
57864894 TTTAATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TATTATATTAATATTAAATTAAAGT
Found at i:57864875 original size:20 final size:19
Alignment explanation
Indices: 57864850--57864899 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
57864840 TAATAGTATT
57864850 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
57864869 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
57864889 TTA--AATTTAAT
1 TTATTAATTTAAT
57864900 CTTTATCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.18
18 2 0.07
19 5 0.18
20 16 0.57
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:57864948 original size:62 final size:59
Alignment explanation
Indices: 57864878--57864995 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 59
57864868 AGTTATTATC
* * * *
57864878 TTAATATTAAATTAAATTTAATCTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTAAATATAATATTTATC-T-T-GATAAATATTATATCAATTTAATAAGAT
* * *
57864940 TTAATATTAAATTTAATATAATATTTTTCTTGATAAGTATTATATCAATTTAATAA
1 TTAATATTAAATTAAATATAATATTTATCTTGATAAATATTATATCAATTTAATAA
57864996 TAAAGTGATT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 1 0.02
62 25 0.51
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTAAATATAATATTTATCTTGATAAATATTATATCAATTTAATAAGAT
Found at i:57873579 original size:10 final size:11
Alignment explanation
Indices: 57873557--57873592 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
57873547 AAAAAAAAAA
57873557 TTTGAATTTTT
1 TTTGAATTTTT
57873568 TTTGAATTTTTT
1 TTTGAA-TTTTT
57873580 TTTG-ATTTTT
1 TTTGAATTTTT
57873590 TTT
1 TTT
57873593 CAAATTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 7 0.29
12 9 0.38
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (11 bp):
TTTGAATTTTT
Found at i:57873580 original size:12 final size:12
Alignment explanation
Indices: 57873557--57873592 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
57873547 AAAAAAAAAA
57873557 TTTGAA-TTTTT
1 TTTGAATTTTTT
57873568 TTTGAATTTTTT
1 TTTGAATTTTTT
57873580 TTTG-ATTTTTT
1 TTTGAATTTTTT
57873591 TT
1 TT
57873593 CAAATTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (12 bp):
TTTGAATTTTTT
Found at i:57878914 original size:40 final size:40
Alignment explanation
Indices: 57878859--57879088 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
57878849 GATGATAACG
* *
57878859 GGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
*
57878899 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* *
57878939 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* *
57878979 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCC
* *
57879019 GGGCTAAGCCCCGAAGGCATTTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTAAT-TCC
*
57879059 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
57879089 AGCTATATCC
Statistics
Matches: 178, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.02
40 172 0.97
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
Found at i:57879095 original size:40 final size:39
Alignment explanation
Indices: 57878859--57879114 Score: 313
Period size: 40 Copynumber: 6.4 Consensus size: 39
57878849 GATGATAACG
* *
57878859 GGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
57878899 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
57878939 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
*
57878979 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-TCC
* *
57879019 GGGCTAAGCCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTAAT-TCC
*
57879059 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAT-TCC
* *
57879099 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
57879115 TACTTGGTTT
Statistics
Matches: 201, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
39 19 0.09
40 180 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATTCC
Found at i:57885776 original size:93 final size:93
Alignment explanation
Indices: 57885664--57885835 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
57885654 CGCCCATAAG
*
57885664 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
57885728 AATGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
57885757 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57885822 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57885836 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57885830 original size:46 final size:46
Alignment explanation
Indices: 57885657--57885832 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
57885647 TGTAACCCGC
* *
57885657 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
57885703 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57885753 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57885796 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57885833 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Done.