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 136 of 320
Found at i:44568152 original size:16 final size:18
Alignment explanation
Indices: 44568131--44568163 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
44568121 CCATTCATTA
44568131 TAATTCA-TTC-CAATTC
1 TAATTCACTTCACAATTC
44568147 TAATTCACTTCACAATT
1 TAATTCACTTCACAATT
44568164 TATGCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATTCACTTCACAATTC
Found at i:44572236 original size:38 final size:39
Alignment explanation
Indices: 44572194--44572297 Score: 104
Period size: 38 Copynumber: 2.7 Consensus size: 39
44572184 TCGGATAGTT
*
44572194 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-ACCTAGC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
* ** ** * *
44572232 CGAAGTAAAGTAG-TGCCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
44572270 CGAAGTAACAGTATGACACCCAGTGTCT
1 CGAAGTAA-AGT-TGACACCCAGTGTCT
44572298 TATCAACTCG
Statistics
Matches: 49, Mismatches: 13, Indels: 5
0.73 0.19 0.07
Matches are distributed among these distances:
37 13 0.27
38 24 0.49
39 3 0.06
40 1 0.02
41 8 0.16
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:44573421 original size:17 final size:18
Alignment explanation
Indices: 44573394--44573437 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
44573384 CCTTCATTTC
44573394 TTTCTTTTATTCTTTTA-G
1 TTTC-TTTATTCTTTTATG
44573412 TTTCTTTATTCTTTTATG
1 TTTCTTTATTCTTTTATG
*
44573430 TTTATTTA
1 TTTCTTTA
44573438 CTTTGTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTCTTTATTCTTTTATG
Found at i:44576700 original size:3 final size:3
Alignment explanation
Indices: 44576692--44576744 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
44576682 CATTTAACCC
44576692 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44576740 TAT TA
1 TAT TA
44576745 ACAGTTAGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:44577162 original size:19 final size:19
Alignment explanation
Indices: 44577138--44577176 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44577128 TACTCTTTTG
44577138 ATTGTTATAATATTAATTA
1 ATTGTTATAATATTAATTA
44577157 ATTGTTATAATATTAATTA
1 ATTGTTATAATATTAATTA
44577176 A
1 A
44577177 ATTATTTAAT
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:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTGTTATAATATTAATTA
Found at i:44577186 original size:19 final size:19
Alignment explanation
Indices: 44577142--44577186 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
44577132 CTTTTGATTG
*
44577142 TTATAATATTAATTAATTG
1 TTATAATATTAATTAATTA
44577161 TTATAATATTAATTAAATTA
1 TTATAATATTAATT-AATTA
44577181 TT-TAAT
1 TTATAAT
44577187 TCGTTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTATAATATTAATTAATTA
Found at i:44586673 original size:29 final size:28
Alignment explanation
Indices: 44586594--44586663 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
44586584 AAGTCTACAT
*
44586594 ACATGCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* * *
44586622 TCATTCAAATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
44586651 ACATTCATATGGC
1 ACATTCATATGGC
44586664 TCATCTGGCC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:44590533 original size:29 final size:29
Alignment explanation
Indices: 44590467--44590557 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
44590457 AAGTCTACAT
* * *
44590467 ACATGCATATGGCCCATTAGACC-CAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
*
44590495 TCATTCATATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
* * *
44590524 ACATTTATATGGTCCATCT-GGCCTGAATC
1 ACATTCATATGGCCCAT-TAGGCCTAAATC
44590553 A-ATTC
1 ACATTC
44590558 CCAAGCCATG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.44
29 28 0.54
30 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCTAAATC
Found at i:44592022 original size:46 final size:46
Alignment explanation
Indices: 44591900--44592024 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
44591890 GGTTGAGCAT
* * *
44591900 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
44591946 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
44591992 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44592025 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:44599356 original size:7 final size:7
Alignment explanation
Indices: 44599318--44599380 Score: 69
Period size: 7 Copynumber: 9.0 Consensus size: 7
44599308 CTCTTATAAA
44599318 TTTAA-T
1 TTTAATT
44599324 TTTAATT
1 TTTAATT
44599331 TTCTAATT
1 TT-TAATT
*
44599339 AAGTT-ATT
1 --TTTAATT
44599347 TTTAATT
1 TTTAATT
44599354 TTTAATT
1 TTTAATT
44599361 TTTAATT
1 TTTAATT
44599368 TTTAA-T
1 TTTAATT
44599374 TTTAATT
1 TTTAATT
44599381 CAGTTAAATC
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
6 13 0.27
7 26 0.53
8 8 0.16
9 1 0.02
10 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (7 bp):
TTTAATT
Found at i:44600969 original size:21 final size:20
Alignment explanation
Indices: 44600933--44600974 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
44600923 CGGGACTAAA
44600933 TCGAAAAAATATAAAATTTT
1 TCGAAAAAATATAAAATTTT
*
44600953 TCGAAAAAAGT-TAAAAATTT
1 TCGAAAAAA-TATAAAATTTT
44600973 TC
1 TC
44600975 AAACAGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
TCGAAAAAATATAAAATTTT
Found at i:44603022 original size:43 final size:43
Alignment explanation
Indices: 44602868--44603024 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 43
44602858 AATTAAGAAC
* *
44602868 TCCGAGCTCGTTGAGCGGTCCGAGTT-AGTGATATATGTGAGAA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCA-TGATATATGTGAGCA
* * * **
44602911 TCCGAACTTGTTGAGTGGTCCAAGTTTGTGATATATGTG-GCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGCA
* * * *
44602953 TCCGATCTCGTTGAGTAGTCCGAGTTCATTATAGATGTGAGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGCA
44602996 TCCGAGCTCGTTGAGTGGTCCGAGTTCAT
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCAT
44603025 AATGGATGCG
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 33 0.34
43 63 0.66
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGCA
Found at i:44607957 original size:13 final size:13
Alignment explanation
Indices: 44607939--44607964 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44607929 TAAGTTAAAA
44607939 GGACACTCGGGTT
1 GGACACTCGGGTT
44607952 GGACACTCGGGTT
1 GGACACTCGGGTT
44607965 AAGTTAAGGG
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:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
GGACACTCGGGTT
Found at i:44608849 original size:48 final size:52
Alignment explanation
Indices: 44608739--44608896 Score: 171
Period size: 48 Copynumber: 3.1 Consensus size: 52
44608729 ACATGACATT
* *
44608739 AAAGAAGACCATATCGTGTAAGACCGTAATTAGTGGGTTATGACATCATATGG
1 AAAGAAGACCATATCATGTAAGACCGTAATTA-TGGGTTATGACATCATATGA
* *
44608792 AAAGTAGACCATATCATGTAAGATCGTAA-T-T-GG-TATGACATCATATGA
1 AAAGAAGACCATATCATGTAAGACCGTAATTATGGGTTATGACATCATATGA
* * ** * *
44608840 AAAGAAGACCATATAATGTAAGACTGTAACTGGTGGGTTATGGCATTATATGGA
1 AAAGAAGACCATATCATGTAAGACCGTAA-TTATGGGTTATGACATCATAT-GA
44608894 AAA
1 AAA
44608897 TATTTTAAAG
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
48 39 0.44
49 2 0.02
50 1 0.01
51 1 0.01
52 3 0.03
53 37 0.42
54 5 0.06
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAGAAGACCATATCATGTAAGACCGTAATTATGGGTTATGACATCATATGA
Found at i:44609193 original size:28 final size:28
Alignment explanation
Indices: 44609161--44609257 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
44609151 TTAAAGAACG
*
44609161 CCTTTATGGCAAATCTATGAAAGGATAA
1 CCTTTATGGCAAATCTATGAAAGGAAAA
* * * *
44609189 CCTTTGTGGAAAATCTGTGAAAGGACAA
1 CCTTTATGGCAAATCTATGAAAGGAAAA
* *
44609217 CCTTTATGGC-GATCTTTGTCAAAGGAAAA
1 CCTTTATGGCAAATCTATG--AAAGGAAAA
*
44609246 CCTTTGTGGCAA
1 CCTTTATGGCAA
44609258 TCTCCGTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
27 6 0.11
28 32 0.58
29 17 0.31
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (28 bp):
CCTTTATGGCAAATCTATGAAAGGAAAA
Found at i:44609397 original size:111 final size:111
Alignment explanation
Indices: 44609237--44609479 Score: 371
Period size: 111 Copynumber: 2.2 Consensus size: 111
44609227 GATCTTTGTC
* * * *
44609237 AAAGGAAAACCTTTGTGGCAATCTCCGTAAATGAAGCCTTCGTGGCTATATTTGAAAAGGAACGC
1 AAAGGAAAGCCTTTGTGGCAATCTCCATAAAGGAAGCCTTCATGGCTATATTTGAAAAGGAACGC
*
44609302 CTTCATGGCGTAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGG
66 CTTCATGGCGCAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGG
* * *
44609348 ATAA-GAAAGTCTTTGTGGCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGGAACG
1 A-AAGGAAAGCCTTTGTGGCAATCTCCATAAAGGAAGCCTTCATGGCTATATTTGAAAAGGAACG
* * *
44609412 CCTTCGTGGCGCAACTTAAGGATAGGATGCCTTGGTGTCAACTCTGT
65 CCTTCATGGCGCAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGG
44609459 AAAGGAAAGCCTTTGTGGCAA
1 AAAGGAAAGCCTTTGTGGCAA
44609480 ATACAAACGA
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
110 2 0.02
111 114 0.97
112 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (111 bp):
AAAGGAAAGCCTTTGTGGCAATCTCCATAAAGGAAGCCTTCATGGCTATATTTGAAAAGGAACGC
CTTCATGGCGCAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGG
Found at i:44612479 original size:38 final size:39
Alignment explanation
Indices: 44612437--44612522 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
44612427 GACCAAGCCA
* *
44612437 ACACACCA-TGTGGGGATAGAATCGACCCACCCAACCCT
1 ACACACCAGTATGGGGATAGAATCAACCCACCCAACCCT
* * *
44612475 ACACACCAAGTATGGGGATATAATCAACCCATCTAACCCT
1 ACACACC-AGTATGGGGATAGAATCAACCCACCCAACCCT
44612515 ACACACCA
1 ACACACCA
44612523 CAAGGTACCG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 7 0.17
39 2 0.05
40 32 0.78
ACGTcount: A:0.36, C:0.35, G:0.14, T:0.15
Consensus pattern (39 bp):
ACACACCAGTATGGGGATAGAATCAACCCACCCAACCCT
Found at i:44612494 original size:40 final size:40
Alignment explanation
Indices: 44612447--44612522 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
44612437 ACACACCATG
*
44612447 TGGGGATAGAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
* * *
44612487 TGGGGATATAATCAACCCATCTAACCCTACACACCA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCA
44612523 CAAGGTACCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.34, G:0.14, T:0.16
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:44618633 original size:21 final size:20
Alignment explanation
Indices: 44618609--44618648 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
44618599 CACTACCTAA
44618609 AGTATTTCATGACACATACAT
1 AGTATTTCA-GACACATACAT
*
44618630 AGTATTTCAGACATATACA
1 AGTATTTCAGACACATACA
44618649 GACAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTATTTCAGACACATACAT
Found at i:44619486 original size:40 final size:40
Alignment explanation
Indices: 44619431--44619506 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
44619421 ACACACTATG
* *
44619431 TGGGGGTAGAATCAACCTACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
* * *
44619471 TGGGGATATAATCAACCCATCCAACCCTACATACCA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCA
44619507 CAAGGTACCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.36, C:0.33, G:0.14, T:0.17
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:44623355 original size:44 final size:44
Alignment explanation
Indices: 44623292--44623379 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
44623282 TTGGCAATGA
44623292 AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
1 AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
44623336 AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
1 AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
44623380 GGAGAAGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.48
Consensus pattern (44 bp):
AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
Found at i:44625085 original size:6 final size:6
Alignment explanation
Indices: 44625074--44625098 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44625064 GTCGAAACTA
44625074 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
44625099 ACATCGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:44627946 original size:20 final size:21
Alignment explanation
Indices: 44627921--44627974 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
44627911 CATCTCAAGG
44627921 AACTCTTGCAACTACGCTTT-
1 AACTCTTGCAACTACGCTTTC
44627941 AACTCTTGCAACTACGCTTTC
1 AACTCTTGCAACTACGCTTTC
* *
44627962 AACACTTTCAACT
1 AACTCTTGCAACT
44627975 TTTTCAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.33
Consensus pattern (21 bp):
AACTCTTGCAACTACGCTTTC
Found at i:44631491 original size:31 final size:31
Alignment explanation
Indices: 44631456--44631519 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
44631446 CCTTTTCATA
44631456 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
44631487 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
44631518 TT
1 TT
44631520 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:44631824 original size:26 final size:26
Alignment explanation
Indices: 44631739--44631835 Score: 146
Period size: 25 Copynumber: 3.8 Consensus size: 26
44631729 CCTCTTTTAA
*
44631739 AAACTGGGG-TAAAGCCCTTTTC-AT
1 AAACTGGGGCAAAAGCCCTTTTCGAT
44631763 AAACTGGGGCAAAAGCCCTTTT-GAT
1 AAACTGGGGCAAAAGCCCTTTTCGAT
* *
44631788 AAACTGAGGCAAAAGCCCTTTTCGGT
1 AAACTGGGGCAAAAGCCCTTTTCGAT
44631814 AAACTGGGGCAAAAGCCCTTTT
1 AAACTGGGGCAAAAGCCCTTTT
44631836 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
24 9 0.14
25 34 0.52
26 23 0.35
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (26 bp):
AAACTGGGGCAAAAGCCCTTTTCGAT
Found at i:44631905 original size:20 final size:20
Alignment explanation
Indices: 44631882--44631928 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
44631872 TTAAGAATAC
44631882 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
44631902 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
44631922 ATCATGT
1 ATCATGT
44631929 ATACCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44645288 original size:28 final size:29
Alignment explanation
Indices: 44645257--44645313 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
44645247 AGATGAATTG
44645257 AAATA-AAAAAAAAG-GAGGAAAAATGGAA
1 AAATAGAAAAAAAAGAGAGG-AAAATGGAA
* *
44645285 AAATAGAAAGAAAAGAGATGAAAATGGAA
1 AAATAGAAAAAAAAGAGAGGAAAATGGAA
44645314 GATGGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.20
29 17 0.68
30 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (29 bp):
AAATAGAAAAAAAAGAGAGGAAAATGGAA
Found at i:44647161 original size:41 final size:41
Alignment explanation
Indices: 44647116--44647198 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
44647106 TACTTTTTCC
44647116 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
1 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
44647157 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
1 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
44647198 A
1 A
44647199 CTTTTCAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (41 bp):
ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
Found at i:44655154 original size:19 final size:19
Alignment explanation
Indices: 44655113--44655154 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44655103 AAAAAAAACT
*
44655113 AAAAAATATATAAAATTGT
1 AAAAAATATATAAAATTGA
**
44655132 AAAAAATATATATTATTGA
1 AAAAAATATATAAAATTGA
44655151 AAAA
1 AAAA
44655155 CTACCTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAAAATATATAAAATTGA
Found at i:44662102 original size:48 final size:47
Alignment explanation
Indices: 44662041--44662310 Score: 213
Period size: 48 Copynumber: 5.6 Consensus size: 47
44662031 AAATAAAGTA
44662041 CCAATGCCATGTCCCAGACATGGTCTTACATGAATCTACA-A-ATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACA--AATC-ACATATATCATCG
* * * *
44662089 CCAATGCCATGTCCTAGATATGGTCTTA-TAATGGCACATATATAATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACAAAT--CACATATATCATCG
* * * * ** * *
44662137 CCGACGCTATGTCCCAAACATGGTCTTACACAGGCACATATATTATCA
1 CCAATGCCATGTCCCAGACATGGTCTTACA-AATCACATATATCATCG
* * *
44662185 CCAATGCCATGTCCTAGACATGGTCTTACACATGTACATATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACAAAT-CACATATATCATCG
*** * * ** *
44662233 CTGGTGCCATGTCCCAAACATGGTCTTGCACAGGCACATATATCATTG
1 CCAATGCCATGTCCCAGACATGGTCTTACA-AATCACATATATCATCG
* * *
44662281 TCGATGCCATGTCCCAAACATGGTCTTACA
1 CCAATGCCATGTCCCAGACATGGTCTTACA
44662311 CAAAGTCTCA
Statistics
Matches: 173, Mismatches: 41, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
45 3 0.02
46 3 0.02
47 2 0.01
48 164 0.95
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (47 bp):
CCAATGCCATGTCCCAGACATGGTCTTACAAATCACATATATCATCG
Found at i:44662224 original size:96 final size:97
Alignment explanation
Indices: 44662046--44662312 Score: 299
Period size: 96 Copynumber: 2.8 Consensus size: 97
44662036 AAGTACCAAT
* * ** * *
44662046 GCCATGTCCCAGACATGGTCTTACATGAATCTACA-A-ATCATCGCCAATGCCATGTCCTAGATA
1 GCCATGTCCCAAACATGGTCTTACA-CAGGC-ACATATATCATCACCAATGCCATGTCCTAGACA
*
44662109 TGGTCTTATA-ATGGCACATATATAATCGCCGAC
64 TGGTCTTACACATGGCACATATATAATCGCCGAC
* *
44662142 GCTATGTCCCAAACATGGTCTTACACAGGCACATATATTATCACCAATGCCATGTCCTAGACATG
1 GCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCACCAATGCCATGTCCTAGACATG
* * * **
44662207 GTCTTACACAT-GTACATATATCATCGCTGGT
66 GTCTTACACATGGCACATATATAATCGCCGAC
* *** * * *
44662238 GCCATGTCCCAAACATGGTCTTGCACAGGCACATATATCATTGTCGATGCCATGTCCCAAACATG
1 GCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCACCAATGCCATGTCCTAGACATG
44662303 GTCTTACACA
66 GTCTTACACA
44662313 AAGTCTCATT
Statistics
Matches: 145, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
94 3 0.02
95 3 0.02
96 137 0.94
97 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (97 bp):
GCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCACCAATGCCATGTCCTAGACATG
GTCTTACACATGGCACATATATAATCGCCGAC
Found at i:44662300 original size:144 final size:143
Alignment explanation
Indices: 44662040--44662312 Score: 352
Period size: 144 Copynumber: 1.9 Consensus size: 143
44662030 CAAATAAAGT
*
44662040 ACCAATGCCATGTCCCAGACATGGTCTTACATGAATCTACAAATCATCGCCAATGCCATGTCCTA
1 ACCAATGCCATGTCCCAGACATGGTCTTACA-GAATCTACAAATCATCGCCAATGCCATGTCCCA
* * * *
44662105 GATATGGTCTTATAATGGCACATATATAATCGCCGACGCTATGTCCCAAACATGGTCTTACACAG
65 AACATGGTCTTACAATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACACAG
44662170 GCACATATATTATC
130 GCACATATATTATC
* * * ***
44662184 ACCAATGCCATGTCCTAGACATGGTCTTACA-CATGTACATATATCATCGCTGGTGCCATGTCCC
1 ACCAATGCCATGTCCCAGACATGGTCTTACAGAATCTACA-A-ATCATCGCCAATGCCATGTCCC
* * * * *
44662248 AAACATGGTCTTGCACA-GGCACATATATCATTGTCGATGCCATGTCCCAAACATGGTCTTACAC
64 AAACATGGTCTTACA-ATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACAC
44662312 A
128 A
44662313 AAGTCTCATT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
142 6 0.05
143 1 0.01
144 102 0.93
145 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (143 bp):
ACCAATGCCATGTCCCAGACATGGTCTTACAGAATCTACAAATCATCGCCAATGCCATGTCCCAA
ACATGGTCTTACAATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACACAGG
CACATATATTATC
Found at i:44664311 original size:27 final size:27
Alignment explanation
Indices: 44664281--44664458 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
44664271 ATATTGAGCC
* *
44664281 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44664308 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
44664335 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
44664363 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
44664390 CGCACACTTAGTGC-ATCATATTTATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
44664417 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
44664444 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44664459 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 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:44667844 original size:27 final size:27
Alignment explanation
Indices: 44667814--44667991 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
44667804 ATATCGAGTC
* *
44667814 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
44667841 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44667868 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
44667896 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
44667923 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
44667950 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
44667977 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44667992 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44667953 original size:82 final size:81
Alignment explanation
Indices: 44667835--44667990 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44667825 TGCTATATAA
*
44667835 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44667900 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
44667917 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44667981 CACTTAGTGC
65 CACTTAGTGC
44667991 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:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44675837 original size:27 final size:27
Alignment explanation
Indices: 44675807--44675984 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
44675797 ATATTGAGCC
* *
44675807 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
44675834 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44675861 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
44675889 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
44675916 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
44675943 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
44675970 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44675985 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44675919 original size:55 final size:54
Alignment explanation
Indices: 44675807--44675984 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
44675797 ATATTGAGCC
* * * * *
44675807 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
44675861 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
44675916 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
44675970 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44675985 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:44695171 original size:48 final size:48
Alignment explanation
Indices: 44695076--44695343 Score: 217
Period size: 48 Copynumber: 5.7 Consensus size: 48
44695066 AAATAAAGTA
* * ** *
44695076 CCAATGCCATGTCCCA-ACATGGTCTTACATGAATCTACA-A-ATCATCG
1 CCAATGCCATGTCCTAGACATGGTCTTACA-CAGGC-ACATATATAATCG
* *
44695123 CCAATGCCATGTCCTAGATATGGTCTTATA-ATGGCACATATATAATCG
1 CCAATGCCATGTCCTAGACATGGTCTTACACA-GGCACATATATAATCG
* * * * * * *
44695171 CCGACGCTATGTCCCAAACATGGTCTTACACAGGCACATATATTATCA
1 CCAATGCCATGTCCTAGACATGGTCTTACACAGGCACATATATAATCG
* * *
44695219 CCAATGCCATGTCCTAGACATGGTCTTACAC-TGTACATATATCATCG
1 CCAATGCCATGTCCTAGACATGGTCTTACACAGGCACATATATAATCG
** * * * *
44695266 -CTGTGCCATGTCCCA-ACATGGTCTTGCACAGGCACATATATCATTG
1 CCAATGCCATGTCCTAGACATGGTCTTACACAGGCACATATATAATCG
* * * *
44695312 TCGATGCCATGTCCCAAACATGGTCTTACACA
1 CCAATGCCATGTCCTAGACATGGTCTTACACA
44695344 AAGTCTCATT
Statistics
Matches: 179, Mismatches: 34, Indels: 15
0.79 0.15 0.07
Matches are distributed among these distances:
45 13 0.07
46 29 0.16
47 42 0.23
48 94 0.53
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (48 bp):
CCAATGCCATGTCCTAGACATGGTCTTACACAGGCACATATATAATCG
Found at i:44695302 original size:93 final size:94
Alignment explanation
Indices: 44695079--44695342 Score: 291
Period size: 93 Copynumber: 2.8 Consensus size: 94
44695069 TAAAGTACCA
* * * * *
44695079 ATGCCATGTCCCAACATGGTCTT-ACATGAATCTACAAATCATCGCCAATGCCATGTCCTAGATA
1 ATGCCATGTCCCAACATGGTCTTCACAGGCA-C-ATATATCATCGCCAATGCCATGTCCTAGACA
* *
44695143 TGGTCTTATAATGGCACATATATAATCGCCG
64 TGGTCTTACACTGGCACATATATAATCGCCG
* * * *
44695174 ACGCTATGTCCCAAACATGGTCTTACACAGGCACATATATTATCACCAATGCCATGTCCTAGACA
1 ATGCCATGTCCC-AACATGGTCTT-CACAGGCACATATATCATCGCCAATGCCATGTCCTAGACA
* * *
44695239 TGGTCTTACACT-GTACATATATCATCGCTG
64 TGGTCTTACACTGGCACATATATAATCGCCG
* * * * *
44695269 -TGCCATGTCCCAACATGGTCTTGCACAGGCACATATATCATTGTCGATGCCATGTCCCAAACAT
1 ATGCCATGTCCCAACATGGTCTT-CACAGGCACATATATCATCGCCAATGCCATGTCCTAGACAT
44695333 GGTCTTACAC
65 GGTCTTACAC
44695343 AAAGTCTCAT
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
93 55 0.39
94 9 0.06
95 25 0.18
96 47 0.33
97 1 0.01
98 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (94 bp):
ATGCCATGTCCCAACATGGTCTTCACAGGCACATATATCATCGCCAATGCCATGTCCTAGACATG
GTCTTACACTGGCACATATATAATCGCCG
Found at i:44695331 original size:141 final size:143
Alignment explanation
Indices: 44695075--44695343 Score: 341
Period size: 141 Copynumber: 1.9 Consensus size: 143
44695065 CAAATAAAGT
*
44695075 ACCAATGCCATGTCCCAACATGGTCTTACATGAATCTACAAATCATCGCCAATGCCATGTCCTAG
1 ACCAATGCCATGTCCCAACATGGTCTTACATGAATCTACAAATCATCGCCAATGCCATGTCCCAG
* * *
44695140 ATATGGTCTTATAATGGCACATATATAATCGCCGACGCTATGTCCCAAACATGGTCTTACACAGG
66 ACATGGTCTTACAATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACACAGG
44695205 CACATATATTATC
131 CACATATATTATC
* * * * **
44695218 ACCAATGCCATGTCCTAGACATGGTCTTACACTGTA-C-ATATATCATCG-CTGTGCCATGTCCC
1 ACCAATGCCATGTCCCA-ACATGGTCTTACA-TGAATCTACAAATCATCGCCAATGCCATGTCCC
* * * * *
44695280 A-ACATGGTCTTGCACA-GGCACATATATCATTGTCGATGCCATGTCCCAAACATGGTCTTACAC
64 AGACATGGTCTTACA-ATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACAC
44695343 A
128 A
44695344 AAGTCTCATT
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
141 53 0.49
142 13 0.12
143 25 0.23
144 14 0.13
145 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (143 bp):
ACCAATGCCATGTCCCAACATGGTCTTACATGAATCTACAAATCATCGCCAATGCCATGTCCCAG
ACATGGTCTTACAATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACACAGG
CACATATATTATC
Found at i:44697327 original size:27 final size:27
Alignment explanation
Indices: 44697296--44697417 Score: 138
Period size: 27 Copynumber: 4.5 Consensus size: 27
44697286 TATATTGAGC
* *
44697296 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44697323 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
44697350 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
44697378 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
44697405 CG-ACACTTAGTGC
1 CGCACACTTAGTGC
44697418 ATCTATTTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 11 0.13
27 49 0.59
28 23 0.28
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44697417 original size:26 final size:27
Alignment explanation
Indices: 44697296--44697466 Score: 113
Period size: 27 Copynumber: 6.5 Consensus size: 27
44697286 TATATTGAGC
* * * * *
44697296 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAGTCAAAT
* * *
44697323 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
* *
44697350 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCCACATAGTCA-AAT
* * *
44697378 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAGTCAAAT
** *
44697405 CG-ACACTTAGTG-CATC-TA-TTTATT
1 CGCACACTTAGTGCCA-CATAGTCAAAT
* *
44697429 CGCACA-TTAGTG-AACATAGTCGAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
44697454 CGCACAC-TAGTGC
1 CGCACACTTAGTGC
44697467 GTACAATTAA
Statistics
Matches: 118, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
23 1 0.01
24 15 0.13
25 19 0.16
26 11 0.09
27 49 0.42
28 23 0.19
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAGTCAAAT
Found at i:44700758 original size:27 final size:26
Alignment explanation
Indices: 44700728--44700903 Score: 131
Period size: 27 Copynumber: 6.6 Consensus size: 26
44700718 ATATCGAGTC
*
44700728 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTA-ATAATCAACT
* *
44700755 CGCACACTTAGTGCTACTAATCAAAT
1 CGCACACTTAGTGCTAATAATCAACT
* *
44700781 CGCACACTTAGTGCCACATAGTCAAAC-
1 CGCACACTTAGTGCTA-ATAATC-AACT
** ** *
44700808 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTG-CTAATAATCAACT
* * **
44700835 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGC-TAATAATCAACT
* *
44700862 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTA-ATAATC-AACT
44700889 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44700904 GTACAATTTA
Statistics
Matches: 122, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
26 26 0.21
27 92 0.75
28 4 0.03
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (26 bp):
CGCACACTTAGTGCTAATAATCAACT
Found at i:44700847 original size:54 final size:54
Alignment explanation
Indices: 44700728--44700902 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 54
44700718 ATATCGAGTC
* * * * *
44700728 CGCACACTCAGTGCTAT-ATAATC-AACTCGCACACTTAGTGCTAC-TAATCAAAT
1 CGCACACTTAGTGCCATCATAGTCAAAC-CGCACACTTAGTGCAACATAGTC-AAT
** *
44700781 CGCACACTTAGTGCCA-CATAGTCAAACCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCATCATAGTCAAACCGCACACTTAGTGCAACATAGTCAA-T
* ***
44700835 CGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCCATCATAGTCAAACCGCACACTTAGTGCAACATAGTC-AAT
44700889 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44700903 TGTACAATTT
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
53 38 0.38
54 61 0.60
55 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCCATCATAGTCAAACCGCACACTTAGTGCAACATAGTCAAT
Found at i:44700894 original size:81 final size:80
Alignment explanation
Indices: 44700749--44700902 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 80
44700739 TGCTATATAA
*
44700749 TCAACTCGCACACTTAGTGCTACTAATCAAATCGCACACTTAGTGCCACATAGTCAAACCGCACA
1 TCAACTCGCACACTTAGTGCTACTAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCACA
44700814 CTTAGTGCCGCATGG
66 CTTAGTGCCGCATGG
* * ** * *
44700829 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-C-TAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
44700893 CACTTAGTGC
64 CACTTAGTGC
44700903 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
79 1 0.02
80 20 0.31
81 44 0.68
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACTAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCACA
CTTAGTGCCGCATGG
Found at i:44708758 original size:27 final size:27
Alignment explanation
Indices: 44708728--44708905 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
44708718 ATATCGAGTC
* *
44708728 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
44708755 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44708782 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
44708810 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
44708837 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
44708864 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
44708891 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44708906 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44708867 original size:82 final size:81
Alignment explanation
Indices: 44708749--44708904 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44708739 TGCTATATAA
*
44708749 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44708814 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
44708831 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44708895 CACTTAGTGC
65 CACTTAGTGC
44708905 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:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44713164 original size:42 final size:42
Alignment explanation
Indices: 44713116--44713233 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
44713106 CCGAGGCTAT
*
44713116 GTGTAAGACCATATCTAGGATA-TGACATC-ATTATGAGACTTC
1 GTGTAAGACCATATCTAGGATATTG-CATCGA-TATAAGACTTC
* *
44713158 GTGTAAGACCATATCTGGGATATTGCATCGATATAAGATTTC
1 GTGTAAGACCATATCTAGGATATTGCATCGATATAAGACTTC
* * *
44713200 GTGTAAGACTATATCTAGGCTATTGGCATTGATA
1 GTGTAAGACCATATCTAGGATATT-GCATCGATA
44713234 CGAGATCCCA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 55 0.83
43 11 0.17
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATTGCATCGATATAAGACTTC
Found at i:44719019 original size:18 final size:18
Alignment explanation
Indices: 44718996--44719031 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44718986 AGATCGGTGA
*
44718996 TAAAGTATTTCTGAAAGT
1 TAAAGTATTTCTAAAAGT
44719014 TAAAGTATTTCTAAAAGT
1 TAAAGTATTTCTAAAAGT
44719032 ATCTCCGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.39
Consensus pattern (18 bp):
TAAAGTATTTCTAAAAGT
Found at i:44720729 original size:43 final size:42
Alignment explanation
Indices: 44720668--44720766 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 42
44720658 TGAGTCTTAT
* **
44720668 CTGGGATATGGTATCGATATGAGATTTCATGTAAGACCATAG
1 CTGGGATATGGCATCGATATGAGATACCATGTAAGACCATAG
* *
44720710 CTGGGCTATTGGCATCGATATGAGATACCATGTAAGACCATAT
1 CTGGGATA-TGGCATCGATATGAGATACCATGTAAGACCATAG
44720753 CTGGGATATGGCAT
1 CTGGGATATGGCAT
44720767 TGGTGTAGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 13 0.26
43 37 0.74
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
CTGGGATATGGCATCGATATGAGATACCATGTAAGACCATAG
Found at i:44722439 original size:28 final size:28
Alignment explanation
Indices: 44722407--44722472 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
44722397 CCGTGTCCAT
**
44722407 GCCCGTGTCCCTCACATTGCCATGACAC
1 GCCCGTGTCCCTCACACAGCCATGACAC
44722435 GCCCGTGTCCCTCACACAGCCATGACAC
1 GCCCGTGTCCCTCACACAGCCATGACAC
*
44722463 GCCCATGTCC
1 GCCCGTGTCC
44722473 TAGCCTGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.18, C:0.45, G:0.18, T:0.18
Consensus pattern (28 bp):
GCCCGTGTCCCTCACACAGCCATGACAC
Found at i:44723572 original size:49 final size:49
Alignment explanation
Indices: 44723467--44723598 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
44723457 GGGTTAAGAT
* *
44723467 GCCGACGCCATGTCCCAGACATGGTGTTACACTGGCTTTCATATAGCGAG
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTTTCATATAGCGAG
* * *
44723517 GCCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTT-ATCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCT-TTCATATAGCGAG
* * *
44723565 TGTCGATGCCATGTCCTAGGCAGGTCTTACACTG
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTG
44723599 ACACACGACA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 49 0.69
50 21 0.30
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAG
Found at i:44727349 original size:45 final size:45
Alignment explanation
Indices: 44727298--44727383 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
44727288 TGAGTAAGTC
44727298 AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATAAATT
1 AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATAAATT
44727343 AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATA
1 AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATA
44727384 CAGCCAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (45 bp):
AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATAAATT
Found at i:44731540 original size:48 final size:46
Alignment explanation
Indices: 44731461--44731585 Score: 144
Period size: 48 Copynumber: 2.7 Consensus size: 46
44731451 TCGTCTTAAT
* * * *
44731461 GCCGATGCATGTCCCAGACGTGTTTTGCACTGGCT-TAAATATCTTGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-AATA--TTGAG
* *
44731509 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATATTGTG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTAATATTGAG
**
44731555 GTTGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
44731586 AGCACACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 33 0.49
48 34 0.50
49 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTAATATTGAG
Found at i:44733252 original size:30 final size:30
Alignment explanation
Indices: 44733218--44733275 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44733208 CTCGAGCCTA
44733218 GGGAAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGAAAAAGTGTAAATATGCAAAAGTTTAG
* * * *
44733248 GGGAAAAATTGTAATTTTGCCAAAGTTT
1 GGGAAAAAGTGTAAATATGCAAAAGTTT
44733276 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGAAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:44737900 original size:47 final size:47
Alignment explanation
Indices: 44737841--44738324 Score: 630
Period size: 47 Copynumber: 10.1 Consensus size: 47
44737831 TTAGGATTTT
** * * *
44737841 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
44737888 ATGTGATAAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
44737935 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
* *
44737986 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
44738033 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
*
44738084 ATGTGATGAATGTGAACATGCGTATATATGCGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGC--ATATAT--GTGATAAGGCCGAATGGCCA
* *
44738135 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
44738182 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
44738229 ATGTGATGAATGTGAACA-ACATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
44738275 ATGTGATGAATGTGAACATGTATATATGT-AGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGA-TAAGGCCGAATGGCCA
44738322 ATG
1 ATG
44738325 CGAAACGTGT
Statistics
Matches: 390, Mismatches: 35, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
46 43 0.11
47 205 0.53
49 16 0.04
51 126 0.32
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:44737998 original size:98 final size:96
Alignment explanation
Indices: 44737841--44738324 Score: 671
Period size: 98 Copynumber: 5.0 Consensus size: 96
44737831 TTAGGATTTT
* * * *
44737841 ATGTGATGAATGTGAA-TGTGTATATAT-GAGATAAGGCCGAATGGCAAATGTGATAAATGTGAA
1 ATGTGATGAATGTGAACTGTATATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
44737904 CATGCGTATGTGTGATAAGGCCGAATGGCCA
66 CATGCGTATGTGTGATAAGGCCGAATGGCCA
44737935 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA-CTGTATATATATG-GTGATAAGGCCGAATGGCCAATGTGATGAATGTG
44738000 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
64 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
44738033 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA-CTGTATATATATG-GTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
44738098 AACATGCGTATATATGCGTGATAAGGCCAAATGGCCA
64 AACATGCG----TATGTGTGATAAGGCCGAATGGCCA
***
44738135 ATGTGATGAATGTGAAC---ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 ATGTGATGAATGTGAACTGTATATATATG-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
44738197 ACATGCGTATGTGTGATAAGGCCGAATGGCCA
65 ACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
44738229 ATGTGATGAATGTGAAC--AACATATAT-GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAACTGTATATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
** * *
44738291 CATGTATATATGT-AGTAAGGCCGAATGGCTA
66 CATGCGTATGTGTGA-TAAGGCCGAATGGCCA
44738322 ATG
1 ATG
44738325 CGAAACGTGT
Statistics
Matches: 359, Mismatches: 21, Indels: 21
0.90 0.05 0.05
Matches are distributed among these distances:
92 1 0.00
93 63 0.18
94 56 0.16
95 4 0.01
96 10 0.03
98 185 0.52
101 1 0.00
102 39 0.11
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (96 bp):
ATGTGATGAATGTGAACTGTATATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
CATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:44738117 original size:149 final size:144
Alignment explanation
Indices: 44737841--44738324 Score: 681
Period size: 149 Copynumber: 3.3 Consensus size: 144
44737831 TTAGGATTTT
** * * * *
44737841 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATAAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
44737906 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGAT
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG-CTATATATGCGTGAT
44737971 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
* *
44737986 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
*** *
44738051 TGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATATATGCG
65 ---ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC-TATATATGCG
*
44738116 TGATAAGGCCAAATGGCCA
126 TGATAAGGCCGAATGGCCA
* *
44738135 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
44738200 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-AC-ATATAT--GAGATA
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCTATATATGCGTGATA
44738261 AGGCCGAATGGCCA
131 AGGCCGAATGGCCA
* *
44738275 ATGTGATGAATGTGAACATGTATATATGT-AGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCATATATGTGA-TAAGGCCGAATGGCCAATG
44738325 CGAAACGTGT
Statistics
Matches: 307, Mismatches: 26, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
139 1 0.00
140 62 0.20
142 6 0.02
144 1 0.00
145 99 0.32
146 1 0.00
148 1 0.00
149 136 0.44
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (144 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCTATATATGCGTGATA
AGGCCGAATGGCCA
Found at i:44738162 original size:23 final size:23
Alignment explanation
Indices: 44738135--44738209 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
44738125 CAAATGGCCA
44738135 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
44738158 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
44738182 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
44738205 ATGTG
1 ATGTG
44738210 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:44738365 original size:93 final size:92
Alignment explanation
Indices: 44738066--44738333 Score: 279
Period size: 93 Copynumber: 2.8 Consensus size: 92
44738056 ATATATGCGT
* * *
44738066 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATATATGCGTGATAAGGCCAAATG
1 GATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGC--ATATAT--GTGATAAGGCCGAATG
* * * * * *
44738131 GCCAATGTGATGAATGTGAACATGCGTATGTGT
62 GCCAATGCGA-GAACGTGAACA-ACATATATGA
* * * *
44738164 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 GATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
44738229 ATGTGATGAATGTGAACAACATATATGA
66 ATGCGA-GAACGTGAACAACATATATGA
* * * *
44738257 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGT-AGTAAGGCCGAATGGCT
1 GATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA-TAAGGCCGAATGGCC
44738321 AATGCGA-AACGTG
65 AATGCGAGAACGTG
44738334 TATGAGATGG
Statistics
Matches: 156, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
91 5 0.03
92 1 0.01
93 70 0.45
94 37 0.24
96 4 0.03
98 39 0.25
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (92 bp):
GATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
ATGCGAGAACGTGAACAACATATATGA
Found at i:44738592 original size:38 final size:37
Alignment explanation
Indices: 44738550--44738664 Score: 115
Period size: 37 Copynumber: 3.1 Consensus size: 37
44738540 TTAAAAACCA
* * *
44738550 GATGACCATATGTGGTGA-CTATGTCTGGGTTAAGACCC
1 GATGACCACATGTGGAGATC-ATGTCCGGG-TAAGACCC
* *
44738588 GATGACTACGTGTGGAGATCATGTCCGGGTAAGACCC
1 GATGACCACATGTGGAGATCATGTCCGGGTAAGACCC
* * ** *
44738625 GATGACTACGTGTGGAGATTTTGTCCCGGTAAGACCC
1 GATGACCACATGTGGAGATCATGTCCGGGTAAGACCC
44738662 GAT
1 GAT
44738665 AACTTCGTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
37 45 0.66
38 22 0.32
39 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.26
Consensus pattern (37 bp):
GATGACCACATGTGGAGATCATGTCCGGGTAAGACCC
Found at i:44738681 original size:37 final size:37
Alignment explanation
Indices: 44738580--44738682 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
44738570 ATGTCTGGGT
** *
44738580 TAAGACCCGATGACTACGTGTGGAGATCATGTCCGGG
1 TAAGACCCGATGACTACGTGTGGAGATTTTGTCCCGG
44738617 TAAGACCCGATGACTACGTGTGGAGATTTTGTCCCGG
1 TAAGACCCGATGACTACGTGTGGAGATTTTGTCCCGG
* *
44738654 TAAGACCCGATAACTTCGTGTGGAGATTT
1 TAAGACCCGATGACTACGTGTGGAGATTT
44738683 CATCTGAGCT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (37 bp):
TAAGACCCGATGACTACGTGTGGAGATTTTGTCCCGG
Found at i:44740348 original size:24 final size:23
Alignment explanation
Indices: 44740321--44740402 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 23
44740311 TGTTACATAA
44740321 TACAAATGTATATATTCATATTAT
1 TACAAATGTAT-TATTCATATTAT
44740345 TACAAATGTCATTA-TC-TA--AT
1 TACAAATGT-ATTATTCATATTAT
*
44740365 T-TAAATGTATTTATTCATATTAT
1 TACAAATGTA-TTATTCATATTAT
44740388 TACAAATGTCATTAT
1 TACAAATGT-ATTAT
44740403 CTAATTTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
18 1 0.02
19 9 0.19
20 5 0.10
21 2 0.04
22 2 0.04
23 5 0.10
24 21 0.44
25 3 0.06
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (23 bp):
TACAAATGTATTATTCATATTAT
Found at i:44740372 original size:19 final size:19
Alignment explanation
Indices: 44740348--44740409 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 19
44740338 ATATTATTAC
44740348 AAATGTCATTATCTAATTT
1 AAATGTCATTATCTAATTT
*
44740367 AAATGT-ATTTATTCATATTATTAC
1 AAATGTCA-TTA-TC-TA--ATT-T
44740391 AAATGTCATTATCTAATTT
1 AAATGTCATTATCTAATTT
44740410 TTTTACATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
18 1 0.03
19 9 0.26
20 5 0.15
21 2 0.06
22 2 0.06
23 5 0.15
24 9 0.26
25 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (19 bp):
AAATGTCATTATCTAATTT
Found at i:44740385 original size:43 final size:43
Alignment explanation
Indices: 44740324--44740409 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
44740314 TACATAATAC
44740324 AAATGTATATATTCATATTATTACAAATGTCATTATCTAATTT
1 AAATGTATATATTCATATTATTACAAATGTCATTATCTAATTT
*
44740367 AAATGTATTTATTCATATTATTACAAATGTCATTATCTAATTT
1 AAATGTATATATTCATATTATTACAAATGTCATTATCTAATTT
44740410 TTTTACATAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (43 bp):
AAATGTATATATTCATATTATTACAAATGTCATTATCTAATTT
Found at i:44740616 original size:17 final size:17
Alignment explanation
Indices: 44740594--44740627 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
44740584 ATTCACTAAT
44740594 ATAAT-ATCAATTAAATA
1 ATAATAATCAA-TAAATA
44740611 ATAATAATCAATAAATA
1 ATAATAATCAATAAATA
44740628 TATTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATAATCAATAAATA
Found at i:44741184 original size:21 final size:20
Alignment explanation
Indices: 44741158--44741197 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
44741148 ATATAATGCT
44741158 CTCCTTTAAATGATGTAATAG
1 CTCCTTTAAATGATG-AATAG
*
44741179 CTCCTTTAAGTGATGAATA
1 CTCCTTTAAATGATGAATA
44741198 ATGCTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
CTCCTTTAAATGATGAATAG
Found at i:44743104 original size:26 final size:26
Alignment explanation
Indices: 44743075--44743125 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
44743065 AAATTTGAAG
44743075 TAGAAATATTTATTTTATTATTTCTA
1 TAGAAATATTTATTTTATTATTTCTA
44743101 TAGAAATATTTATTTTATTATTTCT
1 TAGAAATATTTATTTTATTATTTCT
44743126 TTAAGGTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
TAGAAATATTTATTTTATTATTTCTA
Found at i:44748398 original size:47 final size:45
Alignment explanation
Indices: 44748138--44748410 Score: 173
Period size: 47 Copynumber: 5.8 Consensus size: 45
44748128 TTTGTGTGCC
*
44748138 AGTGTAAGACATGTTTGGGACAT-GCATCGGTCACATTAT-GAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATC-G--ACATTATGGAGAGCT
* * ** *
44748184 AGTGTAAAACCATGTCTGGGACATGGCATCAACATATACACGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACAT-TA-TGGAGAGCT
* * * * * *
44748232 AGTGTAAGACATGCCTGAGACAT-GCATTGGC--TA-CGAGATGTGT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACATTATGGAGA-G-CT
* *
44748275 CAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTGAGAGCT
1 -AGTGTAAGA-CATGTCTGGGACATGGCATCGACA---TTATG-GAGAGCT
* * *
44748326 AGTGTAAGAAATTGTTTGGGGCATGGCATCGAC-TTGATGGATGAGCT
1 AGTGTAAGACA-TGTCTGGGACATGGCATCGACATT-ATGGA-GAGCT
*
44748373 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACATTAT
44748411 ACCCTATGTT
Statistics
Matches: 178, Mismatches: 27, Indels: 43
0.72 0.11 0.17
Matches are distributed among these distances:
41 5 0.03
42 1 0.01
43 2 0.01
44 9 0.05
45 15 0.08
46 24 0.13
47 62 0.35
48 22 0.12
49 1 0.01
50 29 0.16
51 3 0.02
52 1 0.01
53 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACATTATGGAGAGCT
Found at i:44755946 original size:46 final size:46
Alignment explanation
Indices: 44755802--44756011 Score: 203
Period size: 46 Copynumber: 4.5 Consensus size: 46
44755792 TTACTTATGT
* **
44755802 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
* ** ** *
44755848 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGAGA
44755896 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGA
* ** * *
44755942 GCCAGTTTGCGATATGTCTGGGACATGCATCGGCACGT-ATAGA-G-GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-TCA-AGATGAGA
44755988 GCCAGTGTAAGACCATGTCTGGGA
1 GCCAGTGTAAGA-CATGTCTGGGA
44756012 TATTACATTG
Statistics
Matches: 132, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
46 63 0.48
47 42 0.32
48 27 0.20
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
Found at i:44758606 original size:21 final size:21
Alignment explanation
Indices: 44758576--44758625 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
44758566 TTCAAGTTCC
*
44758576 ACACGAGCGTGTAGCCCTCTT
1 ACACGGGCGTGTAGCCCTCTT
44758597 ACACGGGCGTGTAGCCCTCTT
1 ACACGGGCGTGTAGCCCTCTT
44758618 ACACGGGC
1 ACACGGGC
44758626 ATGTTCCCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.34, G:0.28, T:0.20
Consensus pattern (21 bp):
ACACGGGCGTGTAGCCCTCTT
Found at i:44762359 original size:46 final size:46
Alignment explanation
Indices: 44762215--44762385 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
44762205 TGTGTGAGTT
** *
44762215 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATCAAGACGAGAGCC
* * ** * *
44762261 AGTGTAAGACCATGTCTGGGACATGGTATTGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCAAGACGAGAGCC
*
44762309 AGTGTAAGACATTTCTGGGACATGCATCGGCATCAAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACG-AGAGCC
* *
44762355 AGTGTAAGATATGCCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
44762386 TACAAGATGT
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 52 0.51
47 30 0.29
48 20 0.20
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGAGAGCC
Found at i:44764661 original size:52 final size:49
Alignment explanation
Indices: 44764562--44764733 Score: 222
Period size: 52 Copynumber: 3.5 Consensus size: 49
44764552 GATACCCGGT
* * *
44764562 GCCTGCACATAGTACCAC-CTTGTAGTCAAAGCTACTTCTTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGT-GACAAAGCTATTTCTTCACAAAGTG
44764611 GCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGA-CAAAGC--TATTTCTTCACAAAGTG
* * * *
44764663 GCCTTCACATAGTACAACACTTATGAC-AAGCTATCTCTTCTCAAAGTG
1 GCCTTCACATAGTACCACACTTGTGACAAAGCTATTTCTTCACAAAGTG
*
44764711 GCCTTCACATAGTACTACACTTG
1 GCCTTCACATAGTACCACACTTG
44764734 AGTCACTAGT
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
48 36 0.33
49 18 0.16
50 15 0.14
51 1 0.01
52 40 0.36
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (49 bp):
GCCTTCACATAGTACCACACTTGTGACAAAGCTATTTCTTCACAAAGTG
Found at i:44768204 original size:43 final size:42
Alignment explanation
Indices: 44768157--44768294 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 42
44768147 TCCTAGACGT
* * *
44768157 GGTCTTACATGTAACCAAATATTGATGCC-ACTGTCCCAGATAG
1 GGTCTTACACGAAACCAAATA-CGATGCCGA-TGTCCCAGATAG
* * *
44768200 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAACCAAATACGATGCCGATGTCCCAGATAG
* * * * * *
44768242 GGTATTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGACAT
1 GGTCTTACACG-AAACCA-AA-TACGATGCCGATGTCCCAGATAG
44768286 GGTCTTACA
1 GGTCTTACA
44768295 TGATAACACA
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 26 0.32
43 25 0.31
44 29 0.36
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAACCAAATACGATGCCGATGTCCCAGATAG
Found at i:44768280 original size:44 final size:41
Alignment explanation
Indices: 44768133--44768294 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 41
44768123 CAGAAATCTC
* * * * * *
44768133 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAACCAA
1 ATACGATGCC-ACGTCCCAGACATGGTCTTACACGAAATCAA
* * *
44768175 ATATTGATGCCACTGTCCCAGATAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAC-GTCCCAGACATGGTCTTACACGAAATCAA
* *
44768218 ATACGATGCCGATGTCCCAGACATGGTATTACACGTAAATCATA
1 ATACGATGCC-ACGTCCCAGACATGGTCTTACACG-AAATCA-A
44768262 AGT-CGATGCCAACGTCCCAGACATGGTCTTACA
1 A-TACGATGCC-ACGTCCCAGACATGGTCTTACA
44768295 TGATAACACA
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 30 0.31
43 37 0.38
44 29 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (41 bp):
ATACGATGCCACGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:44779535 original size:40 final size:40
Alignment explanation
Indices: 44779488--44779584 Score: 171
Period size: 40 Copynumber: 2.5 Consensus size: 40
44779478 TAACCCAACC
44779488 ATCACATTTTCATTTAACATTTAACATCTTTACTTCAAGT
1 ATCACATTTTCATTTAACATTTAACATCTTTACTTCAAGT
44779528 ATCACATTTTCATTTAACATTTAACATCTTTACTTCAAGT
1 ATCACATTTTCATTTAACATTTAACATCTTTACTTCAAGT
*
44779568 AT-ATA-TTTCATTTAACA
1 ATCACATTTTCATTTAACA
44779585 AGTGTCTATA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
38 12 0.21
39 2 0.04
40 42 0.75
ACGTcount: A:0.34, C:0.19, G:0.02, T:0.45
Consensus pattern (40 bp):
ATCACATTTTCATTTAACATTTAACATCTTTACTTCAAGT
Found at i:44784422 original size:15 final size:15
Alignment explanation
Indices: 44784404--44784445 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
44784394 ATCTTGGGTT
*
44784404 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
*
44784419 TCTTTATTCTGGATT
1 TCTTTATTCTGGATC
44784434 TCTTTATTCTGG
1 TCTTTATTCTGG
44784446 GCTTCTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.12, C:0.19, G:0.14, T:0.55
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:44784451 original size:15 final size:15
Alignment explanation
Indices: 44784403--44784451 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
44784393 TATCTTGGGT
*
44784403 TTCTTTATCCTGGA-
1 TTCTTTATTCTGGAC
*
44784417 TCTCTTTATTCTGGAT
1 T-TCTTTATTCTGGAC
*
44784433 TTCTTTATTCTGGGC
1 TTCTTTATTCTGGAC
44784448 TTCT
1 TTCT
44784452 CAATCTTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.10, C:0.20, G:0.14, T:0.55
Consensus pattern (15 bp):
TTCTTTATTCTGGAC
Found at i:44786922 original size:46 final size:44
Alignment explanation
Indices: 44786861--44787037 Score: 149
Period size: 46 Copynumber: 3.9 Consensus size: 44
44786851 ATATTTGGGC
44786861 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *** * *
44786905 ATGTCTGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
* * * *
44786954 ATCCGAGCTCGTTGAGTTTAGTCTGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* *
44786999 CACCCGATCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
44787038 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.61
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (44 bp):
ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:44787017 original size:93 final size:93
Alignment explanation
Indices: 44786858--44787029 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
44786848 AGGATATTTG
*** * *
44786858 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
*
44786923 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
44786951 GGCATCCGAGCTCGTTGAGTTTAGTCTGAGTTCACTTATGGATGCGAACACCCGATCTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
44787016 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44787030 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:44789906 original size:15 final size:15
Alignment explanation
Indices: 44789869--44789906 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
44789859 TTAAGTAATT
44789869 AATGATAA-AAAACA
1 AATGATAATAAAACA
44789883 AATGA-AATAAAACA
1 AATGATAATAAAACA
*
44789897 AATTATAATA
1 AATGATAATA
44789907 TTCCATTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 15 0.71
15 4 0.19
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (15 bp):
AATGATAATAAAACA
Found at i:44806553 original size:30 final size:30
Alignment explanation
Indices: 44806508--44806567 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44806498 ATTTAGTACG
*
44806508 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
44806538 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
44806568 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:44811833 original size:21 final size:21
Alignment explanation
Indices: 44811809--44811850 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44811799 TCATCAGATC
*
44811809 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
44811830 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
44811851 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:44823373 original size:28 final size:28
Alignment explanation
Indices: 44823333--44823397 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
44823323 ATGTACTAGA
*
44823333 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
44823361 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
44823389 ATACCCCTA
1 ATACCCCTA
44823398 GGGTAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:44823544 original size:28 final size:29
Alignment explanation
Indices: 44823503--44823565 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
44823493 AGGAAGCGTC
* *
44823503 CTGGTGGCTATGCCACAAATTATTTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
44823531 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
44823560 CTGGTG
1 CTGGTG
44823566 ACTCTGTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 7 0.23
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:44823576 original size:29 final size:28
Alignment explanation
Indices: 44823513--44823576 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
44823503 CTGGTGGCTA
* * *
44823513 TGCCACAAATTATTTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
44823541 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
44823570 TGTCACA
1 TGCCACA
44823577 TTTTCTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:44833050 original size:38 final size:37
Alignment explanation
Indices: 44832977--44833055 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
44832967 TATTACGAAA
* *
44832977 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
44833014 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
44833052 TCTT
1 TCTT
44833056 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:44833252 original size:47 final size:47
Alignment explanation
Indices: 44833174--44833514 Score: 520
Period size: 47 Copynumber: 7.2 Consensus size: 47
44833164 CCCTTCGGGA
* * * * * **
44833174 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
44833221 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
44833268 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
44833315 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
44833364 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
44833411 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
44833459 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
44833506 CTTATCACA
1 CTTATCACA
44833515 ATTTAGAATT
Statistics
Matches: 271, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 182 0.67
48 45 0.17
49 44 0.16
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:44840026 original size:13 final size:13
Alignment explanation
Indices: 44840008--44840033 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44839998 CACATTGGTG
44840008 TACACGGCCATGT
1 TACACGGCCATGT
44840021 TACACGGCCATGT
1 TACACGGCCATGT
44840034 CGATCTTCGA
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:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
TACACGGCCATGT
Found at i:44850393 original size:37 final size:37
Alignment explanation
Indices: 44850336--44850442 Score: 160
Period size: 37 Copynumber: 2.9 Consensus size: 37
44850326 CTCAGATGAG
* * *
44850336 ATCTCCAAACGAAGTTATCGGGTCTTACCCGGACAAA
1 ATCTCCACACGCAGTCATCGGGTCTTACCCGGACAAA
* *
44850373 ATCTCTACACGCAGTCATCGGGTCTTACCCGGACATA
1 ATCTCCACACGCAGTCATCGGGTCTTACCCGGACAAA
*
44850410 ATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 ATCTCCACACGCAGTCATCGGGTCTTACCCGGA
44850443 ATATATTTCC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
ATCTCCACACGCAGTCATCGGGTCTTACCCGGACAAA
Found at i:44850643 original size:48 final size:48
Alignment explanation
Indices: 44850589--44851141 Score: 696
Period size: 48 Copynumber: 11.1 Consensus size: 48
44850579 ACACATCGCC
* *
44850589 TACATATTTCACACTAGCCATTTGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
44850637 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
44850685 TATATATATTCACATT-GACCATTCGGCCTTACCACATATGCATATCTCA
1 TACATAT-TTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
44850734 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
44850784 TATATATTTCACATTAACCACTCAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
44850836 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
44850884 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTA-C-C----AC--A--T-ATACATATCTCA
44850943 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
44850991 TACATA-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * * *
44851038 TATATATTTCACATTAACCATCCAGCTTTACCACATATACATATCTCAAAA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC---A
* * * *
44851089 TATATATTTCGCATTAGTCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
44851137 TACAT
1 TACAT
44851142 CAATTTCAGC
Statistics
Matches: 450, Mismatches: 33, Indels: 44
0.85 0.06 0.08
Matches are distributed among these distances:
47 46 0.10
48 177 0.39
49 45 0.10
50 44 0.10
51 43 0.10
52 46 0.10
53 2 0.00
54 2 0.00
56 1 0.00
57 1 0.00
58 2 0.00
59 41 0.09
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:44850936 original size:11 final size:11
Alignment explanation
Indices: 44850920--44850949 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
44850910 TTTACCACAT
44850920 ATACATATCTC
1 ATACATATCTC
44850931 ATACATATCTC
1 ATACATATCTC
44850942 ATACATAT
1 ATACATAT
44850950 TTCACATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (11 bp):
ATACATATCTC
Found at i:44855819 original size:40 final size:40
Alignment explanation
Indices: 44854592--44855818 Score: 1509
Period size: 40 Copynumber: 30.7 Consensus size: 40
44854582 CCAGCATGAT
* * * *
44854592 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * *
44854632 TGCTCTTCGAGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
44854672 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
** * * *
44854712 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * * * *
44854752 TGCTCCTCAGGACCTAGCCCGAATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * *
44854792 TGCTCTTCGGGACTTAACCCTGATATAACTCTGGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
44854832 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * *
44854872 TGCTCTTCGAGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * * *
44854912 TGCTCTTTGAGACTTACCCCGGATATAACACCAGAACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * **
44854952 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
*
44854992 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * *
44855032 TGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
44855072 TGCTCTTCGGGACTTAGCCCAGATATAACACCAGTACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * *
44855112 TGCTCTTCGGGACTCAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
44855152 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* *
44855192 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
44855232 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
44855272 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * **
44855312 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* *
44855352 TGCTCTTCGGGACTTAGCCCAGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
44855392 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* *
44855432 TGCTCTTCGGGACTTAGCTCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
44855472 TGCTCTTCGGGACTTATCCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * * *
44855512 TGCTTTTTGAGACTTAGCCCAGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * **
44855552 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
*
44855592 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
44855632 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* *
44855672 TGCTCTTCGGGACTTAGCCTGGATATAACACGAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* ** * *
44855712 TGCTCTTCGGGACTCAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* *
44855752 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
*
44855792 TGCTCTTTGGGACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
44855819 TATAACTCTC
Statistics
Matches: 1013, Mismatches: 174, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 1013 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
Found at i:44857131 original size:37 final size:37
Alignment explanation
Indices: 44857074--44857180 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
44857064 CTCAGATGAG
*
44857074 ATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAA
1 ATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAA
* *
44857111 ATCTCCACACGCAGTCATCGGGTCTTACCCGGACATA
1 ATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAA
*
44857148 ATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 ATCTCCACACGAAGTCATCGGGTCTTACCCGGA
44857181 ATATATTTCC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (37 bp):
ATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAA
Found at i:44857449 original size:98 final size:98
Alignment explanation
Indices: 44857334--44857815 Score: 700
Period size: 98 Copynumber: 4.9 Consensus size: 98
44857324 GCCTACATAC
* * *
44857334 TTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCG
1 TTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
*
44857399 GCTTTACCACATACACATATCTCATATATATAT
66 GCTTTACCACATATACATATCTCATATATATAT
* * *
44857432 TTCACATTGACCATTCGGCCTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
*
44857497 GCTTTACCACATATACATACCTCATATATATAT
66 GCTTTACCACATATACATATCTCATATATATAT
* * * * *
44857530 TTCACACTAACCATTCAGCTTTGCCACATATACATATCTCATATATATATTTCGCATTAGCCATT
1 TTCACATTAACCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGCCATT
* *
44857595 CGGTTTTACCACATATACATATCTC--ATACATAT
64 CGGCTTTACCACATATACATATCTCATATATATAT
*
44857628 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA-TTCACATTAGCCATTCG
1 TTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
44857692 GCTTTACCACATATACATATCTCATATATATAT
66 GCTTTACCACATATACATATCTCATATATATAT
* * * * *
44857725 TTCACATTAACCATCCAGCTTTACCACATATACATATCTCAAAAATATATATTTCGCATTAGTCA
1 TTCACATTAACCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTAGCCA
44857790 TTCGGCTTTACCACATATACATATCT
62 TTCGGCTTTACCACATATACATATCT
44857816 TATACATCAA
Statistics
Matches: 342, Mismatches: 33, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
95 38 0.11
96 6 0.02
97 44 0.13
98 167 0.49
100 44 0.13
101 6 0.02
102 37 0.11
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (98 bp):
TTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCTCATATATATAT
Found at i:44857456 original size:50 final size:49
Alignment explanation
Indices: 44857334--44857815 Score: 661
Period size: 50 Copynumber: 9.8 Consensus size: 49
44857324 GCCTACATAC
* *
44857334 TTCACACTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATATATAT
* *
44857382 TTCACACTAGCCATTCGGCTTTACCACATACACATATCTCATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATATAT
* * *
44857432 TTCACATT-GACCATTCGGCCTTACCACATATGCATATCTC-ATACATAT
1 TTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAATATATAT
*
44857480 TTCACATTAGCCATTCGGCTTTACCACATATACATACCTCATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATATAT
* * * *
44857530 TTCACACTAACCATTCAGCTTTGCCACATATACATATCTCATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATATAT
* * *
44857580 TTCGCATTAGCCATTCGGTTTTACCACATATACATATCTC-ATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATATATAT
*
44857628 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATA-
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATATATAT
44857675 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATATAT
* * *
44857725 TTCACATTAACCATCCAGCTTTACCACATATACATATCTCAAAAATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTC---AATATATAT
* *
44857777 TTCGCATTAGTCATTCGGCTTTACCACATATACATATCT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCT
44857816 TATACATCAA
Statistics
Matches: 388, Mismatches: 34, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
47 40 0.10
48 133 0.34
49 8 0.02
50 164 0.42
52 42 0.11
53 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (49 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATATATAT
Found at i:44861897 original size:21 final size:21
Alignment explanation
Indices: 44861866--44861916 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
44861856 AATTGCACAC
*
44861866 GGCCATATGGGTCAATAGCCA
1 GGCCATGTGGGTCAATAGCCA
* *
44861887 GGCCGTGTGGGTCAATGGCCA
1 GGCCATGTGGGTCAATAGCCA
44861908 GGCCATGTG
1 GGCCATGTG
44861917 AATCGTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.24, G:0.37, T:0.20
Consensus pattern (21 bp):
GGCCATGTGGGTCAATAGCCA
Found at i:44869352 original size:27 final size:27
Alignment explanation
Indices: 44869321--44869498 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44869311 TAAATTGTAC
44869321 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44869348 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44869374 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44869402 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44869430 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44869457 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44869484 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44869499 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:44869435 original size:82 final size:81
Alignment explanation
Indices: 44869322--44869477 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44869312 AAATTGTACA
* *
44869322 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44869386 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44869403 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44869468 TGCGAGTTGA
65 TGCGAATTGA
44869478 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:44869489 original size:82 final size:81
Alignment explanation
Indices: 44869318--44869498 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44869308 GATTAAATTG
* *
44869318 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44869383 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44869399 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44869463 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44869481 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44869499 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:44885201 original size:46 final size:46
Alignment explanation
Indices: 44885054--44885276 Score: 156
Period size: 46 Copynumber: 4.8 Consensus size: 46
44885044 GGAGTAGGGT
* * *
44885054 GCCGATGCCATATCCCAGACATGGTCTTACACT-GACTATCATCTCATA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCCTA-CGTCTCA-AG
* *
44885102 GCC-AGTGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAG
1 GCCGA-TGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAG
* * *
44885148 GCCGATGCATCTCCCAGACATGTCTTACACTAGCACT-CGTCTCGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCAAG
* * * *
44885194 GCTGATGCCATGTCCCAAACATCATCTTACA-TAGGCT-C-TCAT-AATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCCTACGTC-TCAA-G
* *
44885240 TAGTCGATGCATGTCCTAGACATGTCTTACACTAGCC
1 --GCCGATGCATGTCCCAGACATGTCTTACACTAGCC
44885277 CACAATAACT
Statistics
Matches: 141, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
45 4 0.03
46 70 0.50
47 50 0.35
48 17 0.12
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAG
Found at i:44890119 original size:47 final size:46
Alignment explanation
Indices: 44890048--44890354 Score: 207
Period size: 47 Copynumber: 6.6 Consensus size: 46
44890038 TGATTTGTGT
44890048 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
* * * *
44890094 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCA-GACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCTTCGGCCA--CATTATGAGA
* * * *
44890142 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
* * **
44890188 GCCAGAGTAAGACATGTCTGGGACATGCATT-GGCCTCAACA-GAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGGCCACATTATGAG--A
* * * * * * * * *
44890235 GCAAGTGTAAGACGTGTCTGGGACACGCATCAGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATG-AGA
* * * *
44890279 GCTAGTGTAAGACATGTTTGGGACATGCATT-AGCACGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGGC-CACAT-TATGAGA
**
44890327 GAAAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
44890355 GCATCTGCAA
Statistics
Matches: 200, Mismatches: 43, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
44 27 0.14
45 7 0.04
46 56 0.28
47 60 0.30
48 33 0.17
49 17 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
Found at i:44890208 original size:46 final size:45
Alignment explanation
Indices: 44890046--44890215 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 45
44890036 GATGATTTGT
*
44890046 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGA
* * * * *
44890092 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCA-GACGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCTTCGCCAT--ATTATGA
* *
44890140 GGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGA
*
44890186 GTGCCAGAGTAAGACATGTCTGGGACATGC
1 GTGCCAGTGTAAGACATGTCTGGGACATGC
44890216 ATTGGCCTCA
Statistics
Matches: 103, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 47 0.46
47 35 0.34
48 19 0.18
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGCCATATTATGA
Found at i:44890320 original size:140 final size:139
Alignment explanation
Indices: 44890046--44890354 Score: 337
Period size: 140 Copynumber: 2.2 Consensus size: 139
44890036 GATGATTTGT
** *
44890046 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACAACATGAGAGCAAGTGTAAGACCATG
* * *
44890111 TCTGGGACATGGCATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGC
66 TCTGGGACATCGCATCAGCATCAAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGC
44890176 CATATTATGA
131 CATA-TATGA
* *
44890186 GTGCCAGAGTAAGACATGTCTGGGACATGCATT-GGCCTCAACA-GAGATAGCAAGTGTAAGA-C
1 GTGCCAGTGTAAGACATGTCTGGGACATGC-TTCGGCCACAACATGAG--AGCAAGTGTAAGACC
* * * *
44890248 GTGTCTGGGACA-CGCATCAGC-T-AAGA-GTTGTGCTAGTGTAAGACATGTTTGGGACATGCAT
63 ATGTCTGGGACATCGCATCAGCATCAAGACG-AGGGCTAGTGTAAGACATGTCTGGGACATGC-T
44890309 T-AGCACGCATATATGA
126 TCAG--C-CATATATGA
* **
44890325 GAGAAAGTGTAAGACCATGTCTGGGACATG
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG
44890355 GCATCTGCAA
Statistics
Matches: 144, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
136 1 0.01
137 33 0.23
138 3 0.02
139 26 0.18
140 67 0.47
141 14 0.10
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (139 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACAACATGAGAGCAAGTGTAAGACCATG
TCTGGGACATCGCATCAGCATCAAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGC
CATATATGA
Found at i:44896579 original size:39 final size:40
Alignment explanation
Indices: 44896479--44896702 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
44896469 TTAAATGCTG
* *
44896479 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTA-AT
*
44896520 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
44896559 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
44896598 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44896637 TCCGGGTTACGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
*
44896676 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44896703 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 75 0.47
40 73 0.46
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44896666 original size:79 final size:79
Alignment explanation
Indices: 44896479--44896702 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 79
44896469 TTAAATGCTG
* * * ** *
44896479 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATTCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
44896542 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAA
**
44896559 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA-TACTA-ATTTCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCATT
*
44896621 TGTGCGAGTTACTAAA
64 TGTGCGAGATACTAAA
* *
44896637 TCCGGGTTACGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
44896702 G
65 G
44896703 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
78 36 0.29
79 55 0.44
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:44896716 original size:40 final size:39
Alignment explanation
Indices: 44896480--44896702 Score: 208
Period size: 40 Copynumber: 5.6 Consensus size: 39
44896470 TAAATGCTGT
* * *
44896480 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* * *
44896520 TCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
*
44896560 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
*
44896599 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* * *
44896637 TCCGGGTTACGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
44896678 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44896703 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
39 71 0.45
40 76 0.48
41 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:44896733 original size:79 final size:79
Alignment explanation
Indices: 44896532--44896735 Score: 195
Period size: 79 Copynumber: 2.6 Consensus size: 79
44896522 GGACTAAGAT
** * * *
44896532 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACT
**
44896595 AATTTCGGGCTAAGC
65 AATACCGGGCTAAGC
** * **
44896610 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTACGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
44896674 -ATAACCGGGCTAAGTC
65 AAT-ACCGGGCTAAG-C
* *
44896690 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
44896736 TACGTGATTT
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 34 0.32
79 46 0.43
80 25 0.24
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:44900733 original size:47 final size:46
Alignment explanation
Indices: 44900662--44900972 Score: 195
Period size: 47 Copynumber: 6.7 Consensus size: 46
44900652 TATTTGTGCA
* * *
44900662 CCAGTGTAAAACATGTCTGAGACATGCTTCGGCCACATTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAG
* * *
44900708 CCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCCA-GATGAGGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATTATGAGAG
* * * * *
44900756 CTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATG-GTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAG
* * * * * *
44900801 CCAGAGTAAGACATGTTTGGGATATGCATTGGCCTCGACA-GA-GATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATTATGAGAG
* ** * *** * *
44900848 CCAGTGTAAGACGTGTCTGGGACACACATCGGCTA-AGCGT-TGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAG
** * *
44900892 CTGGTGTAAGACATGTCTGGGACATGCATCAGCACACATATATGAAAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACAT-TATGAGAG
*
44900940 CCAATGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
44900973 ACAATTTATG
Statistics
Matches: 194, Mismatches: 53, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
43 1 0.01
44 29 0.15
45 29 0.15
46 21 0.11
47 62 0.32
48 31 0.16
49 16 0.08
50 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAG
Found at i:44900865 original size:92 final size:94
Alignment explanation
Indices: 44900662--44900871 Score: 239
Period size: 92 Copynumber: 2.3 Consensus size: 94
44900652 TATTTGTGCA
* * * *
44900662 CCAGTGTAAAACATGTCTGAGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGAGTAAGACCATGTCT
*
44900727 GGGACATGGCATCGACATCCAGATGAGGG
66 GGGACATGGCATCGACATCCAGATGAGAG
* * * *
44900756 CTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATG-GTGCCAGAGTAAGA-CATGTTT
1 CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGAGTAAGACCATGTCT
* * * * *
44900819 GGGATAT-GCATTGGCCTCGACAGA-GATAG
66 GGGACATGGCATCGACATC--CAGATGAGAG
*
44900848 CCAGTGTAAGACGTGTCTGGGACA
1 CCAGTGTAAGACATGTCTGGGACA
44900872 CACATCGGCT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
91 8 0.08
92 37 0.38
93 16 0.16
94 37 0.38
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGAGTAAGACCATGTCT
GGGACATGGCATCGACATCCAGATGAGAG
Found at i:44905220 original size:49 final size:49
Alignment explanation
Indices: 44905052--44905276 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
44905042 TGAGGTCGCA
* * * * *
44905052 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
44905103 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
44905153 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * * *
44905202 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATTAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
44905251 TGTGTAGTACTATGTGCAGACTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
44905277 TGCATACCAG
Statistics
Matches: 152, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 75 0.49
50 44 0.29
51 33 0.22
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:44905233 original size:99 final size:100
Alignment explanation
Indices: 44905050--44905276 Score: 305
Period size: 99 Copynumber: 2.3 Consensus size: 100
44905040 TGTGAGGTCG
*
44905050 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTAAGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
* * **
44905115 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
66 AATGCAGGCTACTACGTGTACCAGATAATTA-GTCA
* * * * *
44905151 CGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTAAGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
* *
44905214 AATGCAGGCTACTACGTGTACCGGATAATTAGTCG
66 AATGCAGGCTACTACGTGTACCAGATAATTAGTCA
* *
44905249 CATGTGTAGTACTATGTGCAGACTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
44905277 TGCATACCAG
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 28 0.25
99 45 0.41
100 1 0.01
101 37 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTAAGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
AATGCAGGCTACTACGTGTACCAGATAATTAGTCA
Found at i:44907986 original size:7 final size:7
Alignment explanation
Indices: 44907976--44908015 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
44907966 TATATTATTT
44907976 ATTATAC
1 ATTATAC
44907983 ATTATAC
1 ATTATAC
44907990 ATTATAC
1 ATTATAC
44907997 ATTATAC
1 ATTATAC
44908004 ATTATAC
1 ATTATAC
44908011 ATTAT
1 ATTAT
44908016 CATCAGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTATAC
Found at i:44911014 original size:32 final size:33
Alignment explanation
Indices: 44910943--44911038 Score: 115
Period size: 32 Copynumber: 2.9 Consensus size: 33
44910933 TGAACAGTCC
* * * *
44910943 GGGCCTAAGCCCATTTCAGTCACAATATCAGTGT
1 GGGCCTTAGCCCAATTAAGT-ACAGTATCAGTGT
44910977 GGGCCTTAGCCCAA-TAAGTAGCAGTATC-GTGT
1 GGGCCTTAGCCCAATTAAGTA-CAGTATCAGTGT
*
44911009 GGGCCTTAGCCCAATTCAGTACAGTATCAG
1 GGGCCTTAGCCCAATTAAGTACAGTATCAG
44911039 AAATGCATAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
32 26 0.48
33 16 0.30
34 12 0.22
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (33 bp):
GGGCCTTAGCCCAATTAAGTACAGTATCAGTGT
Found at i:44915959 original size:43 final size:42
Alignment explanation
Indices: 44915904--44916015 Score: 115
Period size: 41 Copynumber: 2.7 Consensus size: 42
44915894 ATATCGAACA
* * *
44915904 ATGCCAAC-GTCCCAGACGTGGTCTTACATGC-TATCTCATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACA--CAAATCTAATAT-G
*
44915947 ATGCC-ACTGTCCCAGACAAGGTCTTACACAAATCTAATATG
1 ATGCCAACTGTCCCAGACATGGTCTTACACAAATCTAATATG
* *
44915988 ATGCCGA-TGTCCCAGACATGGTATTACA
1 ATGCCAACTGTCCCAGACATGGTCTTACA
44916016 GATAACCACA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 26 0.43
42 11 0.18
43 23 0.38
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACAAATCTAATATG
Found at i:44916046 original size:45 final size:42
Alignment explanation
Indices: 44915941--44916046 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 42
44915931 ATGCTATCTC
* * * *
44915941 ATATCGATGCCACTGTCCCAGACAAGGTCTTACACAAATCTA
1 ATATCGATGCCAATGTCCCAGACAAGGTATTACACAAACCCA
* * *
44915983 ATAT-GATGCCGATGTCCCAGACATGGTATTACAGATAACCACA
1 ATATCGATGCCAATGTCCCAGACAAGGTATTACACA-AACC-CA
44916026 TATATCGATGCCAATGTCCCA
1 -ATATCGATGCCAATGTCCCA
44916047 AATTTGGTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 26 0.50
42 7 0.13
43 1 0.02
44 4 0.08
45 14 0.27
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGACAAGGTATTACACAAACCCA
Found at i:44916060 original size:45 final size:44
Alignment explanation
Indices: 44915983--44916073 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 44
44915973 CACAAATCTA
* * *
44915983 ATATGATGCCGATGTCCCAGACATGGTATTACA-GATAACCACAT
1 ATATGATGCCAATGTCCCAAACATGGTATTACATGAGAA-CACAT
** *
44916027 ATATCGATGCCAATGTCCCAAATTTGGTCTTACATGAGAACACAT
1 ATAT-GATGCCAATGTCCCAAACATGGTATTACATGAGAACACAT
44916072 AT
1 AT
44916074 CAAAAACCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
44 4 0.10
45 31 0.79
46 4 0.10
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (44 bp):
ATATGATGCCAATGTCCCAAACATGGTATTACATGAGAACACAT
Found at i:44920686 original size:126 final size:126
Alignment explanation
Indices: 44920478--44921164 Score: 1013
Period size: 126 Copynumber: 5.5 Consensus size: 126
44920468 AGTCTAAGGC
** * * *
44920478 TTTT-TCAGATATTACTGTAGCAACATAGCGTCCACGTGGGAGATTTTTTCCGTAATTTTGCTGA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
*
44920542 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATTTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * *
44920603 TATTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGAGAG-TTTATTTCCGTAATTTTGCTA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTT-TTTCCGTAATTTTGCTG
* * * *
44920667 AAAGTACATCCTTTTTGAAGCGTTATTGACACTATTTGTTAAGAAACATCTTCTCAAAATTA
65 AAAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* *
44920729 TTTTATCAGATACCACTGTAGCAAAAGAACGTCCACGTGGGAGCCTTTTTCCGTAATTTTGCTGA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
* *
44920794 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATAGCTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* *
44920855 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACATGGGAGC-TTTTTCCGTAATTTTGCTAA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
* * *
44920919 AAGTGCATCCTTCTTGAAGCGTTTTTTGACACTATTTGTTCAGAAACATCTTTTTAAATTTA
66 AAGTGCATCCTTCTTGAAGCG-TTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * * * *
44920981 TTTTTTCAAATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTTATTTTGCTGA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
* * * *
44921046 CAGTGCATCCTTCTTGAAGAGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAATTTA
66 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * *
44921107 TTTTTTCAGATACTACTGTAGCAAAAGAGAGTCCACGTGGGAGCTTTATTT-CGTAATT
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTT-TTTCCGTAATT
44921165 AATAGTTAAT
Statistics
Matches: 509, Mismatches: 47, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
125 46 0.09
126 422 0.83
127 41 0.08
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
Found at i:44921312 original size:17 final size:17
Alignment explanation
Indices: 44921290--44921362 Score: 87
Period size: 17 Copynumber: 4.4 Consensus size: 17
44921280 CCCTTAAAAA
*
44921290 CACTAAAAATCCTAAAC
1 CACTAAAAACCCTAAAC
44921307 CACTAAAAACCCTAAAC
1 CACTAAAAACCCTAAAC
* *
44921324 TACTAAAAACCCTAAAA
1 CACTAAAAACCCTAAAC
*
44921341 C-CT-TAAACCCTAAAC
1 CACTAAAAACCCTAAAC
*
44921356 TACTAAA
1 CACTAAA
44921363 CCCTAATTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
15 10 0.22
16 4 0.09
17 32 0.70
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (17 bp):
CACTAAAAACCCTAAAC
Found at i:44921354 original size:32 final size:34
Alignment explanation
Indices: 44921287--44921362 Score: 104
Period size: 32 Copynumber: 2.3 Consensus size: 34
44921277 TTTCCCTTAA
* *
44921287 AAAC-ACTAAAAATCCTAAACCACTAAAAACCCT
1 AAACTACTAAAAACCCTAAAACACTAAAAACCCT
*
44921320 AAACTACTAAAAACCCTAAAAC-CT-TAAACCCT
1 AAACTACTAAAAACCCTAAAACACTAAAAACCCT
44921352 AAACTACTAAA
1 AAACTACTAAA
44921363 CCCTAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 18 0.46
33 6 0.15
34 15 0.38
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (34 bp):
AAACTACTAAAAACCCTAAAACACTAAAAACCCT
Done.