Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 157 of 318
Found at i:48295477 original size:31 final size:31
Alignment explanation
Indices: 48295306--48295477 Score: 136
Period size: 31 Copynumber: 5.5 Consensus size: 31
48295296 TTGCATTCAC
* * * *
48295306 ATTCCGATTCTGATTTTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTAACCTGATTCTG
* *
48295337 ATTCTGATTCTG-TTAC-CTAATTCTGATTCTG
1 ATTCTGATTCTGATT-CTGTAA-CCTGATTCTG
* * * *
48295368 GTTCTGATTCTGATTCGGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTAACCTGATTCTG
* *
48295399 ATTCTGATTCTG-TTGC-CTAATTCTGATTCTG
1 ATTCTGATTCTGATT-CTGTAA-CCTGATTCTG
* * *
48295430 ATTTTGATTTTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTAACCTGATTCTG
*
48295461 ATTCTGATTCTAATTCT
1 ATTCTGATTCTGATTCT
48295478 CATTTTGATT
Statistics
Matches: 109, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
30 8 0.07
31 93 0.85
32 8 0.07
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTAACCTGATTCTG
Found at i:48303956 original size:42 final size:42
Alignment explanation
Indices: 48303843--48304013 Score: 153
Period size: 43 Copynumber: 4.0 Consensus size: 42
48303833 AGCTCATACA
* * *
48303843 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGATATGGTCTTACACGAAATCAAATAT-G
** * *
48303886 ATGCCATTGTCCCAAATAGGGTCTTACACGAAATCAAATATG
1 ATGCCAACGTCCCAGATATGGTCTTACACGAAATCAAATATG
* * * * **
48303928 ATGCCAATGTCCCAGACATGGTCATACACATAAATCATAAGCTG
1 ATGCCAACGTCCCAGATATGGTCTTACAC-GAAATCA-AATATG
* ** * *
48303972 ATGCCAACGTCCCAGATGTTTTCTTACACAAAATCACATATG
1 ATGCCAACGTCCCAGATATGGTCTTACACGAAATCAAATATG
48304014 GAAATCCTAT
Statistics
Matches: 101, Mismatches: 25, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 28 0.28
43 46 0.46
44 27 0.27
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATATGGTCTTACACGAAATCAAATATG
Found at i:48305830 original size:43 final size:43
Alignment explanation
Indices: 48305749--48305830 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
48305739 AAATTGAAGC
* **
48305749 CACACGGCTGAGGCACACGCCCGTGTCCTATGGTCGTGTCCTT
1 CACACGGCTGAGACACACGCCCGTGTCCTATGCCCGTGTCCTT
* *
48305792 CACACGGCTGAGACACATGGCCGTGTCTCT-TGCCCGTGT
1 CACACGGCTGAGACACACGCCCGTGTC-CTATGCCCGTGT
48305831 GCTTACTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
43 31 0.94
44 2 0.06
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (43 bp):
CACACGGCTGAGACACACGCCCGTGTCCTATGCCCGTGTCCTT
Found at i:48307576 original size:46 final size:46
Alignment explanation
Indices: 48307475--48307728 Score: 241
Period size: 46 Copynumber: 5.5 Consensus size: 46
48307465 ATGGCAATGC
* * *
48307475 CATGTCCCAGACATGTCTTACACTAGC--ACATGTCGTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
* *
48307519 CATGTCCCAGACATCTCTTACACTGGCTTACATCTCGAATCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
* * * ** *
48307565 CATGTCCCAGACATGTCTTAAACTGGCTTATATCTCGAGGGTGTTG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
* * * *
48307611 CATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTC-AATGCCGATAC
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAA-GCCGAT-G
* **
48307658 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAAGCCGATG
*
48307705 CATGTCCCAGACATATCTTACACT
1 CATGTCCCAGACATGTCTTACACT
48307729 AGCACACACA
Statistics
Matches: 171, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
44 25 0.15
45 1 0.01
46 93 0.54
47 28 0.16
48 23 0.13
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
Found at i:48307711 original size:94 final size:93
Alignment explanation
Indices: 48307474--48307731 Score: 271
Period size: 94 Copynumber: 2.8 Consensus size: 93
48307464 AATGGCAATG
* * * * *
48307474 CCATGTCCCAGACATGTCTTACACTAG--CACAT-GTCGTAGCCGATGCATGTCCCAGACATCTC
1 CCATGTCCCAGACATGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTCCCAGACATATC
*
48307536 TTACACTGGCTTACATCTCGAATCCGAT
66 TTACACTAGCTTACATCTCGAATCCGAT
* * * * ** * * *
48307564 GCATGTCCCAGACATGTCTTAAACTGGCT-T-ATATCTCGAGGGTGTTGCATGTCCCAAACATGT
1 CCATGTCCCAGACATGTCTTACACTGGCTCTCATA-ATCGTGGCCGATGCATGTCCCAGACATAT
*
48307627 CTTACACTAGCTCT-CGTCTC-AATGCCGAT
65 CTTACACTAGCT-TACATCTCGAAT-CCGAT
48307656 ACCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATA
1 -CCATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTCCCAGACATA
48307720 TCTTACACTAGC
64 TCTTACACTAGC
48307732 ACACACACAT
Statistics
Matches: 135, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
90 26 0.19
91 3 0.02
92 42 0.31
93 15 0.11
94 44 0.33
95 2 0.01
96 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
CCATGTCCCAGACATGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTCCCAGACATATC
TTACACTAGCTTACATCTCGAATCCGAT
Found at i:48307724 original size:140 final size:136
Alignment explanation
Indices: 48307475--48307724 Score: 319
Period size: 140 Copynumber: 1.8 Consensus size: 136
48307465 ATGGCAATGC
* *
48307475 CATGTCCCAGACATGTCTTACACTAGCACATGTCGTAGCCGATGCATGTCCCAGACATCTCTTAC
1 CATGTCCCAAACATGTCTTACACTAGCACATGTCGTAGCCGATCCATGTCCCAGACATCTCTTAC
* * *
48307540 ACTGGCTTACATCTCGAATCCGATGCATGTCCCAGACATGTCTTAAACTGGCTTATATCTCGAGG
66 ACTGGCTTACATATCGAAGCCGATGCATGTCCCAGACATATCTTAAACTGGCTTATATCTCGAGG
48307605 GTGTTG
131 GTGTTG
* *
48307611 CATGTCCCAAACATGTCTTACACTAGCTC-TCGTC-TCAATGCCGATACCATGTCCCAGACATGG
1 CATGTCCCAAACATGTCTTACACTAGCACAT-GTCGT--A-GCCGAT-CCATGTCCCAGACAT-C
**
48307674 TCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAGACATATCTTA
60 TCTTACACTGGCT-TACAT-ATCGAAGCCGATGCATGTCCCAGACATATCTTA
48307725 CACTAGCACA
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
135 2 0.02
136 30 0.31
137 1 0.01
138 6 0.06
139 14 0.14
140 42 0.43
141 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (136 bp):
CATGTCCCAAACATGTCTTACACTAGCACATGTCGTAGCCGATCCATGTCCCAGACATCTCTTAC
ACTGGCTTACATATCGAAGCCGATGCATGTCCCAGACATATCTTAAACTGGCTTATATCTCGAGG
GTGTTG
Found at i:48310375 original size:2 final size:2
Alignment explanation
Indices: 48310370--48310396 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48310360 TATTTCCCTC
48310370 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
48310397 ACCATAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48312576 original size:40 final size:40
Alignment explanation
Indices: 48312512--48312700 Score: 186
Period size: 39 Copynumber: 4.8 Consensus size: 40
48312502 GCTACTCGTT
* * * * ***
48312512 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATCACAACCCGCA
*
48312552 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATCACAACCCGCA
* * * * *
48312592 CAATTGCCTTCGGG-CTTAACCCGGATAACATAGCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATCACAACCCGCA
* * **
48312631 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATCACAACCCGCA
* *
48312670 CAATTGCCTTCGGG-CTTAGCCCGGATATCAC
1 CAAATGCCTTCGGGACTTAACCCGGATATCAC
48312701 TCGAACATTC
Statistics
Matches: 132, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 87 0.66
40 45 0.34
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATCACAACCCGCA
Found at i:48312629 original size:39 final size:39
Alignment explanation
Indices: 48312548--48312700 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
48312538 TATGGTAACC
*
48312548 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAACCCGGATATCACAACT
* * *
48312588 CGCACAATTGCCTTCGGGCTTAACCCGGATAACATAGCT
1 CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
* *
48312627 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
*
48312666 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAACCCGGATATCAC
48312701 TCGAACATTC
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
Found at i:48320707 original size:39 final size:39
Alignment explanation
Indices: 48320634--48320786 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
48320624 TATGGTAACC
*
48320634 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAACCCGGATATCACAACT
* *
48320674 CGCACAATTGCCTTCGGGCTTAACCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
* *
48320713 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
*
48320752 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAACCCGGATATCAC
48320787 TCAAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
Found at i:48325395 original size:48 final size:44
Alignment explanation
Indices: 48325233--48325440 Score: 222
Period size: 44 Copynumber: 4.6 Consensus size: 44
48325223 CGATACATTA
48325233 TCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATG
48325277 TCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATG
* * * * * *
48325321 TCCTAGACATGACTTACATTGGCTCTCATCTC-AATGCCGATGCCATG
1 TCCCAGACATGTCTTACACTAG--CACATCTCGTA-GCCGATG-CATG
* * * * *
48325368 TCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCGGATGCATG
1 TCCCAGACAT-GTCTTACACTAGCACATC-T--CGTAGCCGATGCATG
*
48325415 TCCCAGACATGTCTTACCCTAGCACA
1 TCCCAGACATGTCTTACACTAGCACA
48325441 CACACATCGT
Statistics
Matches: 138, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
44 62 0.45
45 3 0.02
46 30 0.22
47 27 0.20
48 16 0.12
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (44 bp):
TCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATG
Found at i:48332901 original size:29 final size:28
Alignment explanation
Indices: 48332869--48332971 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
48332859 TACTCAATCA
*
48332869 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
48332898 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
48332927 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
48332956 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
48332972 ATCTCGTCAG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:48339715 original size:42 final size:43
Alignment explanation
Indices: 48339607--48339760 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 43
48339597 AGCTCGTACA
* * * *
48339607 ATGCCAACATCCCTGACATGGCCTTACAT-GTAATCAAATATCG
1 ATGCCAATATCCCAGACATGGTCTTAC-TCGAAATCAAATATCG
* * * *
48339650 ATGCCACTATCCCTGACAGGGTCTTACTCGAAATCATATA-CG
1 ATGCCAATATCCCAGACATGGTCTTACTCGAAATCAAATATCG
* * *
48339692 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATTG
1 ATGCCAATATCCCAGACATGGTCTTACTCG-AAATCA-AATATCG
* * *
48339736 ATGCCAATGTCCTAGACTTGGTCTT
1 ATGCCAATATCCCAGACATGGTCTT
48339761 GAACGATAAC
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 28 0.30
43 39 0.42
44 25 0.27
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACTCGAAATCAAATATCG
Found at i:48342682 original size:20 final size:20
Alignment explanation
Indices: 48342648--48342696 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
48342638 AAGCCATTAG
*
48342648 TAACAGTAT-ACTTCCTCCT
1 TAACAGAATCACTTCCTCCT
48342667 TAACAGAATCACTTCCTCCT
1 TAACAGAATCACTTCCTCCT
*
48342687 TAACAAAATC
1 TAACAGAATC
48342697 CCAACCCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.31
Consensus pattern (20 bp):
TAACAGAATCACTTCCTCCT
Found at i:48346535 original size:93 final size:93
Alignment explanation
Indices: 48346371--48346541 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
48346361 GCCCCTAAGT
* * * * *
48346371 GAACTCGGACTCAACTCAACAAGCTTTGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTTCGACATTCCCATCCATAAGTGAACTCGAACTCAAATCAA
48346436 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
*
48346464 GAACTCGGACTCAACTCAACGAG-TTCGAACATTCCCATCCATAAGTGAACTC-AGACTCAAATC
1 GAACTCGGACTCAACTCAACAAGCTTCG-ACATTCCCATCCATAAGTGAACTCGA-ACTCAAATC
*
48346527 AACGAGTTCGGATGC
64 AACAAGTTCGGATGC
48346542 TCAACCATCC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 4 0.06
93 65 0.94
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTTCGACATTCCCATCCATAAGTGAACTCGAACTCAAATCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48346998 original size:30 final size:30
Alignment explanation
Indices: 48346964--48347023 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48346954 ATTTAATACG
48346964 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48346994 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48347024 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:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48348228 original size:8 final size:8
Alignment explanation
Indices: 48348193--48348245 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
48348183 CGACAAATCT
48348193 CGAAAAGC
1 CGAAAAGC
* *
48348201 CGAAATGT
1 CGAAAAGC
*
48348209 CAAAAAGC
1 CGAAAAGC
*
48348217 CGAAATGC
1 CGAAAAGC
48348225 CGAAAAGC
1 CGAAAAGC
*
48348233 TGAAAAGC
1 CGAAAAGC
48348241 CGAAA
1 CGAAA
48348246 GTTTGGCTAC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.49, C:0.21, G:0.23, T:0.08
Consensus pattern (8 bp):
CGAAAAGC
Found at i:48356203 original size:28 final size:29
Alignment explanation
Indices: 48356124--48356206 Score: 80
Period size: 28 Copynumber: 2.9 Consensus size: 29
48356114 ACCATGACTG
* * * *
48356124 TAAATGTAATTTGGGCCTAGT-GGCCATA
1 TAAATGTGATATGGGCCTAATGGGCCACA
* * * *
48356152 TGAATGTGATTTGGGTCTGATGGGCCACA
1 TAAATGTGATATGGGCCTAATGGGCCACA
48356181 TAAATGTGA-ATGGGCCTAATGGGCCA
1 TAAATGTGATATGGGCCTAATGGGCCA
48356207 TATGAAAGAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
28 30 0.68
29 14 0.32
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
TAAATGTGATATGGGCCTAATGGGCCACA
Found at i:48369210 original size:40 final size:40
Alignment explanation
Indices: 48369150--48369453 Score: 357
Period size: 40 Copynumber: 7.6 Consensus size: 40
48369140 TATTCGAATG
* * *
48369150 ATATCCGGGCTAAG-TCCCGAAAGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
48369190 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* ** *
48369230 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
48369270 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
48369310 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
48369350 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
48369390 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTAACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
48369430 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
48369454 CTTGTGCGAG
Statistics
Matches: 224, Mismatches: 31, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.00
40 217 0.97
41 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:48369283 original size:80 final size:80
Alignment explanation
Indices: 48369150--48369474 Score: 393
Period size: 80 Copynumber: 4.1 Consensus size: 80
48369140 TATTCGAATG
* * * * * *
48369150 ATATCCGGGCTAAGTCCCGAAAGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTATATCCGGGCTAAGACCCGAAGGCA
48369215 TTTGTGCGAGTTG-CT
66 TTTGTGCGAG-TGACT
* * * *
48369230 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTATATCCGGGCTAAGACCCGAAGGCA
* * *
48369295 TTTATGCTAGTGACC
66 TTTGTGCGAGTGACT
* * * * **
48369310 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTATATCCGGGCTAAGACCCGAAGGCA
* *
48369375 TTTGTGCTAGCGACT
66 TTTGTGCGAGTGACT
* *
48369390 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTATATCCGGGCTAAGACCCGAAGGCA
* **
48369454 CTTGTGCGAGTGGTT
66 TTTGTGCGAGTGACT
48369469 ATATCC
1 ATATCC
48369475 AGATAAATCC
Statistics
Matches: 207, Mismatches: 37, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
79 18 0.09
80 189 0.91
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTGACT
Found at i:48369363 original size:120 final size:120
Alignment explanation
Indices: 48369150--48369474 Score: 544
Period size: 120 Copynumber: 2.7 Consensus size: 120
48369140 TATTCGAATG
* * *
48369150 ATATCCGGGCTAAGTCCCGAAAGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCA
*
48369215 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
66 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
48369270 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCA
*
48369335 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
66 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
* * *
48369390 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCA
* * *
48369454 CTTGTGCGAGTGGTTATATCC
66 TTTGTGCGAGTTGCTATATCC
48369475 AGATAAATCC
Statistics
Matches: 194, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
119 18 0.09
120 176 0.91
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCA
TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
Found at i:48377390 original size:40 final size:40
Alignment explanation
Indices: 48377330--48377669 Score: 363
Period size: 40 Copynumber: 8.6 Consensus size: 40
48377320 TATTCGAATG
* *
48377330 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
48377370 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* ** *
48377410 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
48377450 ATATCTGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
* *
48377490 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
48377530 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
48377570 ATATCCGGGCTAAG-TACCGAAGGCATTTATGCTAGTAACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * * *
48377610 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
48377649 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGAT-CCGAAG
48377670 ATACTTGGGT
Statistics
Matches: 249, Mismatches: 41, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
37 1 0.00
38 12 0.05
39 17 0.07
40 212 0.85
41 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:48377543 original size:120 final size:119
Alignment explanation
Indices: 48377330--48377669 Score: 508
Period size: 120 Copynumber: 2.8 Consensus size: 119
48377320 TATTCGAATG
* * *
48377330 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCAGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGT-CCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCA
*
48377395 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
65 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
*
48377450 ATATCTGGGCTAAGTCTCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTC-CGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCA
*
48377515 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
65 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
* * *
48377570 ATATCCGGGCTAAGTACCGAAGGCATTTATGCTAGTAACCATATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGT-CCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCA
* *
48377634 CTTGTGCGAG-TGATTATATCC-GGCTAA-ATCCCGAAG
65 TTTGTGCGAGTTG-CTATATCCGGGCTAAGA-CCCGAAG
48377670 ATACTTGGGT
Statistics
Matches: 204, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
117 1 0.00
118 15 0.07
119 17 0.08
120 170 0.83
121 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (119 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCAT
TTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
Found at i:48383492 original size:27 final size:28
Alignment explanation
Indices: 48383462--48383531 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
48383452 ATAGTGAATC
*
48383462 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
48383489 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
48383517 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48383532 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:48383603 original size:42 final size:42
Alignment explanation
Indices: 48383539--48383645 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
48383529 GCTGTACAAT
* *
48383539 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
48383581 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
48383623 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
48383646 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:48390422 original size:27 final size:28
Alignment explanation
Indices: 48390392--48390461 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
48390382 ATAGTGAATC
*
48390392 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
48390419 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
48390447 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48390462 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:48390534 original size:41 final size:42
Alignment explanation
Indices: 48390469--48390574 Score: 178
Period size: 41 Copynumber: 2.5 Consensus size: 42
48390459 GCTGTACAAT
* *
48390469 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACC-TGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
*
48390510 TTTATACCCACACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
48390552 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
48390575 GAGCCAATAC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 32 0.53
42 28 0.47
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:48392932 original size:13 final size:13
Alignment explanation
Indices: 48392914--48392951 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
48392904 AATGGCTTGG
48392914 ACCCACACGGGCT
1 ACCCACACGGGCT
*
48392927 ACCCACACAGGCT
1 ACCCACACGGGCT
48392940 ACCCACACGGGC
1 ACCCACACGGGC
48392952 GTGTGACTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.47, G:0.21, T:0.05
Consensus pattern (13 bp):
ACCCACACGGGCT
Found at i:48395735 original size:42 final size:43
Alignment explanation
Indices: 48395645--48395796 Score: 128
Period size: 44 Copynumber: 3.5 Consensus size: 43
48395635 GCCTTAGACG
* * * * * *
48395645 TGGTCTTACATGTAATCAAATATCGATGCC-ACTATCCCAGACA
1 TGGTCTTACACGAAACCATATATCGATGCCAAC-GTCCCAAACA
* * *
48395688 GGGTCTTACACGAAACCATATAT-GATGCCAATGTGCCAAACA
1 TGGTCTTACACGAAACCATATATCGATGCCAACGTCCCAAACA
* * * * *
48395730 TGGTCTTACACGTAAATCACAAATCGATGCCAACGTCCCAGACG
1 TGGTCTTACACG-AAACCATATATCGATGCCAACGTCCCAAACA
48395774 TGGTCTTACACGATAACACATAT
1 TGGTCTTACACGA-AAC-CATAT
48395797 CAAAATCCTA
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
42 24 0.29
43 28 0.33
44 29 0.35
45 3 0.04
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
TGGTCTTACACGAAACCATATATCGATGCCAACGTCCCAAACA
Found at i:48397445 original size:29 final size:30
Alignment explanation
Indices: 48397410--48397521 Score: 163
Period size: 30 Copynumber: 3.8 Consensus size: 30
48397400 TCATCAATGA
* **
48397410 ATGAAAAGGGATAGTTTCAACCATC-AATT
1 ATGAAAAGGGATGGTGACAACCATCAAATT
48397439 ATGAAAAGGGATGGTGACAACCATCAAATT
1 ATGAAAAGGGATGGTGACAACCATCAAATT
* *
48397469 ATGAAAAGGGATGGTGACGACCACCAAATT
1 ATGAAAAGGGATGGTGACAACCATCAAATT
*
48397499 ATGAAAAGGGATGGTGACCACCA
1 ATGAAAAGGGATGGTGACAACCA
48397522 CTGTAACACT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
29 22 0.29
30 54 0.71
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACAACCATCAAATT
Found at i:48398251 original size:31 final size:31
Alignment explanation
Indices: 48398216--48398278 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
48398206 CCTTTTCATA
48398216 TTTCATATCTCATAACACTGGGCCGAAGCCT
1 TTTCATATCTCATAACACTGGGCCGAAGCCT
* **
48398247 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATCTCATAACACTGGGCCGAAGCCT
48398278 T
1 T
48398279 CACTGTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (31 bp):
TTTCATATCTCATAACACTGGGCCGAAGCCT
Found at i:48398559 original size:26 final size:25
Alignment explanation
Indices: 48398501--48398560 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
48398491 CTCTTTTAAT
48398501 AACTGGGGC-AAAGCCCTATTGATA
1 AACTGGGGCAAAAGCCCTATTGATA
* *
48398525 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTATT-GATA
*
48398551 AATTGGGGCA
1 AACTGGGGCA
48398561 TAGCCTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 9 0.29
25 10 0.32
26 12 0.39
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (25 bp):
AACTGGGGCAAAAGCCCTATTGATA
Found at i:48398565 original size:25 final size:24
Alignment explanation
Indices: 48398488--48398570 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 24
48398478 CTGGAGGCCT
*
48398488 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
48398512 AGCCCTATTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
* * *
48398537 AGCCCTTTTCGGTAAATTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
*
48398562 AGCCTTTTT
1 AGCCCTTTT
48398571 TGCACTTCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
23 6 0.12
24 13 0.27
25 19 0.39
26 11 0.22
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:48398643 original size:9 final size:9
Alignment explanation
Indices: 48398629--48398685 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48398619 ACATCATGTG
48398629 CATATCATA
1 CATATCATA
*
48398638 CATATCATGTG
1 CATATCA--TA
*
48398649 CATATCGTA
1 CATATCATA
*
48398658 CATATCATGTG
1 CATATCA--TA
48398669 CATATCATA
1 CATATCATA
48398678 CATATCAT
1 CATATCAT
48398686 GTATATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:48398646 original size:20 final size:20
Alignment explanation
Indices: 48398621--48398687 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
48398611 TTATGAATAC
48398621 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48398641 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
48398661 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
48398681 ATCATGT
1 ATCATGT
48398688 ATATCAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48398652 original size:11 final size:11
Alignment explanation
Indices: 48398621--48398676 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
48398611 TTATGAATAC
48398621 ATCATGTGCAT
1 ATCATGTGCAT
*
48398632 ATCA--TACAT
1 ATCATGTGCAT
48398641 ATCATGTGCAT
1 ATCATGTGCAT
*
48398652 ATC--GTACAT
1 ATCATGTGCAT
48398661 ATCATGTGCAT
1 ATCATGTGCAT
48398672 ATCAT
1 ATCAT
48398677 ACATATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:48406304 original size:31 final size:31
Alignment explanation
Indices: 48406269--48406331 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
48406259 CCTTTTCGTA
*
48406269 TTTCATATCTCATAACACTGGGCCGAAGCCT
1 TTTCATATCTCATAACACTAGGCCGAAGCCT
* ** *
48406300 TTTCATATTTCATATTACTAGGCTGAAGCCT
1 TTTCATATCTCATAACACTAGGCCGAAGCCT
48406331 T
1 T
48406332 CACTGTAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (31 bp):
TTTCATATCTCATAACACTAGGCCGAAGCCT
Found at i:48406595 original size:25 final size:24
Alignment explanation
Indices: 48406559--48406620 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
48406549 AATAACTGGG
*
48406559 GCAAAGTCCTTTT-GATAAACTAGA
1 GCAAAGCCCTTTTCG-TAAACTAGA
*
48406583 GCAAAAGCCCTTTTCGTAAACTAGG
1 GC-AAAGCCCTTTTCGTAAACTAGA
*
48406608 GCATAGCCCTTTT
1 GCAAAGCCCTTTT
48406621 TGCACTTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.36
25 20 0.61
26 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (24 bp):
GCAAAGCCCTTTTCGTAAACTAGA
Found at i:48406693 original size:9 final size:9
Alignment explanation
Indices: 48406679--48406775 Score: 104
Period size: 9 Copynumber: 9.9 Consensus size: 9
48406669 ACATCATGTG
48406679 CATATCATA
1 CATATCATA
*
48406688 CATATCATGTG
1 CATATCA--TA
48406699 CATATCATA
1 CATATCATA
48406708 CATATCATA
1 CATATCATA
48406717 TGCATATCATA
1 --CATATCATA
*
48406728 CATATCATGTG
1 CATATCA--TA
48406739 CATATCATA
1 CATATCATA
48406748 CATATCATA
1 CATATCATA
48406757 TGCATATCATA
1 --CATATCATA
48406768 CATATCAT
1 CATATCAT
48406776 GTATATCAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
9 42 0.55
11 34 0.45
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:48406696 original size:20 final size:20
Alignment explanation
Indices: 48406671--48406777 Score: 196
Period size: 20 Copynumber: 5.3 Consensus size: 20
48406661 TTATGAATAC
48406671 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
48406691 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48406711 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
48406731 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48406751 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
48406771 ATCATGT
1 ATCATGT
48406778 ATATCAAAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48411374 original size:40 final size:40
Alignment explanation
Indices: 48411302--48411426 Score: 119
Period size: 40 Copynumber: 3.1 Consensus size: 40
48411292 AGGACTCAAC
* * * *
48411302 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTAACTCGCACGAAAGCCGTCGGATCTTAGT
* *
48411342 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGTAACTCGCACGAAAGCCGTCGGATCTTAGT
* * * * * *
48411382 CCAGATTTAGTCACTTAGCAC-AAAGCCTTGGGA-CTTAGC
1 CCGGATTTAGTAAC-TCGCACGAAAGCCGTCGGATCTTAGT
48411421 CCGGAT
1 CCGGAT
48411427 ATCATTCGAA
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
39 10 0.14
40 54 0.78
41 5 0.07
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACGAAAGCCGTCGGATCTTAGT
Found at i:48414509 original size:30 final size:30
Alignment explanation
Indices: 48414473--48414631 Score: 213
Period size: 30 Copynumber: 5.5 Consensus size: 30
48414463 GACAAGATTG
* * * * *
48414473 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
48414503 GCACTAAGTGTGCGAGTTTG---A-T-TATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
48414529 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48414559 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48414589 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48414618 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48414632 GATTCACTAT
Statistics
Matches: 119, Mismatches: 4, Indels: 13
0.88 0.03 0.10
Matches are distributed among these distances:
25 2 0.02
26 19 0.16
27 1 0.01
28 2 0.02
29 21 0.18
30 72 0.61
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:48414562 original size:56 final size:58
Alignment explanation
Indices: 48414473--48414631 Score: 209
Period size: 56 Copynumber: 2.8 Consensus size: 58
48414463 GACAAGATTG
* * * * * *
48414473 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-A-T-TATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAATTATATA
48414529 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTG--AATTATATA
48414589 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCG
48414632 GATTCACTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
55 2 0.02
56 41 0.45
58 1 0.01
59 21 0.23
60 27 0.29
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAATTATATA
Found at i:48422566 original size:29 final size:29
Alignment explanation
Indices: 48422454--48422610 Score: 196
Period size: 29 Copynumber: 5.5 Consensus size: 29
48422444 GACAAGATTG
* * * * *
48422454 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
48422484 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
*
48422512 GCACTAAGTGTGCGAGCTG--ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
48422539 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
48422568 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
48422597 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48422611 GATTCACTAT
Statistics
Matches: 117, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
27 29 0.25
28 20 0.17
29 51 0.44
30 15 0.13
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:48422578 original size:56 final size:56
Alignment explanation
Indices: 48422483--48422610 Score: 188
Period size: 56 Copynumber: 2.3 Consensus size: 56
48422473 AAAATTGTAC
* * *
48422483 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTG-ATTATAT
1 AGCACTAAGTGTGCGAGTCTGAATATATAGCACTAAGTGTGCGAGCTGAAATATAT
48422538 AGCACTAAGTGTGCGAG-CTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATATAGCACTAAGTGTGCGAGCTG-AAATATAT
48422596 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48422611 GATTCACTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
54 2 0.03
55 17 0.26
56 26 0.39
58 21 0.32
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (56 bp):
AGCACTAAGTGTGCGAGTCTGAATATATAGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:48422622 original size:85 final size:85
Alignment explanation
Indices: 48422454--48422610 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
48422444 GACAAGATTG
* * * * * *
48422454 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATAGCACTAA
* *
48422519 GTGTGCGAGCTGATTATATA
66 GTGTGCGAGCTCACTATATA
*
48422539 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAG-CTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGTCTG--AATATATAGCACT
48422602 AAGTGTGCG
64 AAGTGTGCG
48422611 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
83 2 0.03
84 20 0.32
85 41 0.65
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (85 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATAGCACTAA
GTGTGCGAGCTCACTATATA
Found at i:48429798 original size:40 final size:39
Alignment explanation
Indices: 48429753--48429882 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
48429743 CGGAATATAA
48429753 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
48429793 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
48429833 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
48429873 CCGGATATAA
1 CCGGATATAA
48429883 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48429897 original size:40 final size:40
Alignment explanation
Indices: 48429769--48429920 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
48429759 ATAACCATGT
* * *
48429769 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
48429809 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
48429849 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
48429889 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
48429921 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:48429903 original size:80 final size:80
Alignment explanation
Indices: 48429769--48429918 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
48429759 ATAACCATGT
*
48429769 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
48429833 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
48429849 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
48429912 CCCGGAT
64 CCCGGAT
48429919 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:48437887 original size:40 final size:40
Alignment explanation
Indices: 48437759--48437909 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
48437749 TATAACCAGT
* * *
48437759 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
48437799 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
48437839 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
48437879 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
48437910 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:48437893 original size:80 final size:79
Alignment explanation
Indices: 48437759--48437907 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
48437749 TATAACCAGT
* *
48437759 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
48437824 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
48437839 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
48437902 CCGGAT
64 CCGGAT
48437908 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:48440894 original size:40 final size:38
Alignment explanation
Indices: 48440788--48440894 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 38
48440778 ATCACGATTT
*
48440788 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGATGACTA
48440827 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-G-TAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAT-G--ACTA
*
48440867 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
48440895 TTATAATTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
37 1 0.02
38 2 0.03
39 31 0.51
40 27 0.44
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGATGACTA
Found at i:48444082 original size:47 final size:47
Alignment explanation
Indices: 48444014--48444228 Score: 369
Period size: 47 Copynumber: 4.6 Consensus size: 47
48444004 CCTGTATATA
* *
48444014 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
48444061 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
48444108 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
48444155 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* *
48444202 TATATGTG-TAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
48444229 CGAAATGTGT
Statistics
Matches: 162, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
46 18 0.11
47 144 0.89
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:48444277 original size:60 final size:64
Alignment explanation
Indices: 48444212--48444338 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 64
48444202 TATATGTGTA
48444212 AGGCCGAATGGCTAATGCGAAATGTGTAT-GAT-GATATGT-GTAAAGCCAAATGG-TAATGTG
1 AGGCCGAATGGCTAATGCGAAATGTGTATAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
48444272 AGGCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
1 AGGCCGAATGGCTAATGCGAAATGTGTAT-AGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
48444337 AG
1 AG
48444339 ATATGTATGA
Statistics
Matches: 62, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
60 29 0.47
62 3 0.05
63 7 0.11
64 14 0.23
65 9 0.15
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.25
Consensus pattern (64 bp):
AGGCCGAATGGCTAATGCGAAATGTGTATAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
Found at i:48444360 original size:2 final size:2
Alignment explanation
Indices: 48444353--48444379 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48444343 GTATGAGATG
48444353 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
48444380 TGTGGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48447138 original size:40 final size:40
Alignment explanation
Indices: 48446640--48447119 Score: 822
Period size: 40 Copynumber: 12.1 Consensus size: 40
48446630 AGTTGTATAG
* * * *
48446640 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
48446680 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
48446720 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
48446760 CCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
48446800 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
48446840 CCGGACTAAATCCCGAAGAGCATT-GTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
48446879 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
48446919 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
48446959 CCGGACTAAATCCCG-AGAGCATT-GTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
48446997 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
48447037 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
48447077 CTGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
48447117 CCG
1 CCG
48447120 AGCTGGGTCC
Statistics
Matches: 420, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
38 30 0.07
39 54 0.13
40 336 0.80
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:48450659 original size:47 final size:47
Alignment explanation
Indices: 48450591--48450806 Score: 369
Period size: 47 Copynumber: 4.6 Consensus size: 47
48450581 CCTGTATATA
* *
48450591 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
48450638 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
48450685 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
48450732 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
48450779 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
48450807 CGAAATGTGT
Statistics
Matches: 162, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 162 1.00
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:48450871 original size:65 final size:65
Alignment explanation
Indices: 48450790--48450921 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
48450780 ATATGTGGTA
48450790 AGGCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
1 AGGCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
48450855 AGGCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
1 AGGCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
48450920 AG
1 AG
48450922 ATATGTATGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.24
Consensus pattern (65 bp):
AGGCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
Found at i:48450910 original size:32 final size:32
Alignment explanation
Indices: 48450809--48450910 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
48450799 GGCTAATGCG
48450809 AAATGTGTATGAGATAGATATGTGGTAAAGCC
1 AAATGTGTATGAGATAGATATGTGGTAAAGCC
*** * * *
48450841 AAATG-GCTAATGTGAGGCCGA-ATG-GCTAATGCG
1 AAATGTG-T-A--TGAGATAGATATGTGGTAAAGCC
48450874 AAATGTGTATGAGATAGATATGTGGTAAAGCC
1 AAATGTGTATGAGATAGATATGTGGTAAAGCC
48450906 AAATG
1 AAATG
48450911 GCTAATGTGA
Statistics
Matches: 51, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
30 6 0.12
31 4 0.08
32 18 0.35
33 13 0.25
34 4 0.08
35 6 0.12
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.25
Consensus pattern (32 bp):
AAATGTGTATGAGATAGATATGTGGTAAAGCC
Found at i:48450943 original size:2 final size:2
Alignment explanation
Indices: 48450936--48450964 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48450926 GTATGAGATG
48450936 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48450965 TGTGGCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48455205 original size:49 final size:49
Alignment explanation
Indices: 48455132--48455372 Score: 284
Period size: 49 Copynumber: 4.9 Consensus size: 49
48455122 CGAAGCTTTT
* * * * *
48455132 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACTATC
* * *
48455181 CGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AACTATC
* * * * *
48455231 TGATACACGTAGTAGCCTGCGCTTTGTACTACACACGTGATCGAAGTTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CTATC
* * * * * *
48455282 AGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACTATC
48455331 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
48455373 TCACAATAGC
Statistics
Matches: 158, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 76 0.48
50 45 0.28
51 37 0.23
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (49 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACTATC
Found at i:48455314 original size:101 final size:98
Alignment explanation
Indices: 48455141--48455372 Score: 320
Period size: 100 Copynumber: 2.3 Consensus size: 98
48455131 TTGGTACGCA
* * * **
48455141 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
48455206 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACC-AACAATATGATACACG
* * * *
48455240 TAGTAGCCTGCGCTTTGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* *
48455305 TAGTACTACACATGTGACCAACAATATGGTACACG
64 TAGTACTACACACGTGACCAACAATATGATACACG
48455340 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
48455373 TCACAATAGC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 28 0.24
100 45 0.39
101 42 0.37
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCAACAATATGATACACG
Found at i:48455903 original size:30 final size:30
Alignment explanation
Indices: 48455869--48455928 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
48455859 TTATCATACG
48455869 AACTTTGGCAAAATTAC-CATTTTGCCCTTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCTTA
* *
48455899 AACTTTTGCATAATTACACTTTTGCCCTTA
1 AACTTTGGCAAAATTACACTTTTGCCCTTA
48455929 GACTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCTTA
Found at i:48466583 original size:27 final size:26
Alignment explanation
Indices: 48466555--48466812 Score: 293
Period size: 27 Copynumber: 9.6 Consensus size: 26
48466545 AAAGTACACC
*
48466555 CGATTTACAGAATTATCGTTTTACCCC
1 CGATTTACAGAATTA-CGTTTTACCCT
*
48466582 CGATTTACATAATTACCGTTTTACCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
*
48466609 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
48466636 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTAC-GTTTTACCCT
* *
48466663 CGATTTATAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
* *
48466690 TGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTAC-GTTTTACCCT
* *
48466717 CGATTTACAAAATTATCGTTTT-CCGT
1 CGATTTACAGAATTA-CGTTTTACCCT
* *
48466743 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTAC-GTTTTACCCT
* * *
48466770 TGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTAC-GTTTTACCCT
*
48466797 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
48466813 AGAAATACCC
Statistics
Matches: 204, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
25 1 0.00
26 22 0.11
27 179 0.88
28 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (26 bp):
CGATTTACAGAATTACGTTTTACCCT
Found at i:48466596 original size:54 final size:54
Alignment explanation
Indices: 48466538--48466840 Score: 198
Period size: 54 Copynumber: 5.6 Consensus size: 54
48466528 CGACTTGTAA
* * *
48466538 AATTACCAAAGTACACC-CGATTTACAGAATTATCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTAC-CCTCGATTTACAAAATTACCGTTTTACCCCCGATTTACAG
**** *
48466592 AATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCCCGATTTACAG
***** * ** *
48466646 AATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAG
1 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCCCGATTTACAG
***** * ** *
48466700 AATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTT-CCGTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCCCGATTTACAG
* *** * * * ** * *
48466753 AATTACTATTTTACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACAA
1 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCCCGATTTACAG
* * **
48466807 AATTA-CAGAAATACCCTCAATTTGTAAAATTACC
1 AATTACCA-AAGTACCCTCGATTTACAAAATTACC
48466841 AAAATACCCC
Statistics
Matches: 211, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
53 47 0.22
54 164 0.78
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (54 bp):
AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCCCGATTTACAG
Found at i:48466621 original size:81 final size:81
Alignment explanation
Indices: 48466555--48466811 Score: 347
Period size: 81 Copynumber: 3.2 Consensus size: 81
48466545 AAAGTACACC
* * * * *
48466555 CGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAA
1 CGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAAA
48466620 ATTACCGTTTTACCCT
66 ATTACCGTTTTACCCT
*
48466636 CGATTTACAGAATTA-CTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAG
1 CGATTTACAGAATTATC-GTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAA
*
48466700 AATTACTGTTTTACCCT
65 AATTACCGTTTTACCCT
* * * ** *
48466717 CGATTTACAAAATTATCGTTTT-CCGTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGA
1 CGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAAA
**
48466781 ATTACTATTTTACCCT
66 ATTACCGTTTTACCCT
*
48466797 CGATTTACAAAATTA
1 CGATTTACAGAATTA
48466812 CAGAAATACC
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
80 69 0.43
81 91 0.57
82 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.42
Consensus pattern (81 bp):
CGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAAA
ATTACCGTTTTACCCT
Found at i:48466863 original size:134 final size:135
Alignment explanation
Indices: 48466583--48466867 Score: 304
Period size: 134 Copynumber: 2.1 Consensus size: 135
48466573 TTTTACCCCC
* *
48466583 GATTTACATAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAA
1 GATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAA
* * * *** ** * *****
48466648 TTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTA
66 TTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTATAAAATTACCAAAATA
*
48466713 CCCTC
131 CCCTA
* * * * * * *
48466718 GATTTACAAAATTATCGTTTT-CCGTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAA
1 GATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAA
*
48466782 TTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATA
66 TTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTATAAAATTACCAAAATA
48466847 CCCCTA
131 -CCCTA
**
48466853 G-TTTGTAAAATTACC
1 GATTTACAAAATTACC
48466868 AAAATACCAC
Statistics
Matches: 121, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
134 97 0.80
135 24 0.20
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (135 bp):
GATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAA
TTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTATAAAATTACCAAAATA
CCCTA
Found at i:48467020 original size:27 final size:27
Alignment explanation
Indices: 48466449--48467016 Score: 150
Period size: 27 Copynumber: 21.0 Consensus size: 27
48466439 AATACTTTAG
*
48466449 TTTACTAAAATTACCGAAATACCCTTAGT
1 TTTAC-AAAATTACCGAAATACCCTT-GA
* *
48466478 TTGTA-AAAA-TACTGAAATACCCTCGA
1 TT-TACAAAATTACCGAAATACCCTTGA
** *
48466504 TTTGTAAAATTACTGAAATA-CCTTCGA
1 TTTACAAAATTACCGAAATACCCTT-GA
* ** *
48466531 CTTGTAAAATTACC-AAAGTACACC-CGA
1 TTTACAAAATTACCGAAA-TAC-CCTTGA
* * *** **
48466558 TTTACAGAATTATCGTTTTACCCCCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** *
48466585 TTTACATAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
*** *
48466612 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
48466639 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* ***
48466666 TTTATAAAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * * *** *
48466693 TTTATAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* ** * * *
48466720 TTTACAAAATTATCG-TTTTCCGTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * * **
48466746 TTTATAGAATTA-CTATTTTACCCTTGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* * * ** *
48466773 TTTATAGAATTA-CTATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* **
48466800 TTTACAAAATTACAGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
48466827 TTTGTAAAATTACCAAAATACCCCT-A
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
48466853 GTTTGTAAAATTACCAAAATACCAC-TGG
1 -TTTACAAAATTACCGAAATACC-CTTGA
*** * **
48466881 TTTGTGAAATTACTGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
48466908 TTTTTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *
48466935 TTTACAAAGTTACAGAAATACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
48466962 CTTT-CTAAAAATTATAGAAATACCATTGG
1 -TTTAC--AAAATTACCGAAATACCCTTGA
*
48466991 TTTACAAAATTACTGAAATACCCTTG
1 TTTACAAAATTACCGAAATACCCTTG
48467017 GTTTGTAGAT
Statistics
Matches: 437, Mismatches: 82, Indels: 42
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.00
26 36 0.08
27 362 0.83
28 12 0.03
29 23 0.05
30 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTTGA
Found at i:48467095 original size:27 final size:26
Alignment explanation
Indices: 48467065--48467165 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 26
48467055 GACTAAAACA
**
48467065 CCCCTATTAGGTAAAAAGACCGTAAAG
1 CCCCT-TTAGGTAAAGTGACCGTAAAG
*
48467092 CCCCTGTAGGGTAAAGTGACCGTAAAG
1 CCCCTTTA-GGTAAAGTGACCGTAAAG
*
48467119 CCCCTGTAAGGTAAAGTGACCGTAATA-
1 CCCCT-TTAGGTAAAGTGACCGTAA-AG
* *
48467146 CCCCTGTATGGTAAAATGAC
1 CCCCTTTA-GGTAAAGTGAC
48467166 GAATATGCCC
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
26 3 0.05
27 57 0.92
28 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (26 bp):
CCCCTTTAGGTAAAGTGACCGTAAAG
Found at i:48468425 original size:9 final size:9
Alignment explanation
Indices: 48468413--48468469 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48468403 TTTGATAAAC
48468413 ATGATATGT
1 ATGATATGT
*
48468422 ATGATATGCAC
1 ATGATATG--T
*
48468433 ATGACATGT
1 ATGATATGT
*
48468442 ATGATATGCAC
1 ATGATATG--T
48468453 ATGATATGT
1 ATGATATGT
48468462 ATGATATG
1 ATGATATG
48468470 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:48468436 original size:20 final size:20
Alignment explanation
Indices: 48468411--48468473 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
48468401 ATTTTGATAA
48468411 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48468431 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
48468451 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48468471 ACA
1 ACA
48468474 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48468584 original size:24 final size:23
Alignment explanation
Indices: 48468528--48468694 Score: 210
Period size: 24 Copynumber: 7.0 Consensus size: 23
48468518 GAGGAAGTGA
48468528 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
48468551 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
48468574 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
48468598 CAAAAGGGTTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
48468622 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
48468645 AAAAAGGGCTTTTGCCGCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
48468670 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48468694 A
1 A
48468695 TGATAAAGCA
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
23 42 0.33
24 74 0.59
25 10 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:48468597 original size:47 final size:47
Alignment explanation
Indices: 48468528--48468694 Score: 212
Period size: 47 Copynumber: 3.5 Consensus size: 47
48468518 GAGGAAGTGA
*
48468528 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
48468574 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGTTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
48468622 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCGCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
48468670 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
48468695 TGATAAAGCA
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
47 63 0.60
48 30 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:48468644 original size:71 final size:71
Alignment explanation
Indices: 48468528--48468693 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
48468518 GAGGAAGTGA
* *
48468528 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
48468593 GTTATC
66 GTTATC
* * *
48468599 AAAAGGGTTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCGCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
48468664 GTTATT
66 GTTATC
*
48468670 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
48468694 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 75 0.88
72 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:48469844 original size:40 final size:40
Alignment explanation
Indices: 48469784--48469891 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 40
48469774 AATTGATATC
* *
48469784 TCGCACACTAAGTGCAATATATAGCTGAAGCTCTCTCAAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCAAA
* * **
48469824 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTTGAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCAAA
*
48469864 TCGCACACTAAGTGCCACATATAGCTGA
1 TCGCACACTAAGTGCCATATATAGCTGA
48469892 TTTGATGTCG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCAAA
Found at i:48474262 original size:19 final size:15
Alignment explanation
Indices: 48474221--48474250 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48474211 ACAATTCTTG
48474221 GATACTTTGTCAACT
1 GATACTTTGTCAACT
48474236 GATACTTTGTCAACT
1 GATACTTTGTCAACT
48474251 AGAACATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
GATACTTTGTCAACT
Found at i:48477090 original size:17 final size:17
Alignment explanation
Indices: 48477068--48477110 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
48477058 AAATAAATAA
48477068 AGTAAGCTTTATAGATT
1 AGTAAGCTTTATAGATT
*
48477085 AGTAAGCTTTATAGCTT
1 AGTAAGCTTTATAGATT
48477102 AGTAAGCTT
1 AGTAAGCTT
48477111 ATATGATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (17 bp):
AGTAAGCTTTATAGATT
Found at i:48477425 original size:41 final size:41
Alignment explanation
Indices: 48477362--48477469 Score: 141
Period size: 41 Copynumber: 2.7 Consensus size: 41
48477352 ATAGCAAGAT
* *
48477362 CTATCTC-AAATCGCACACTAAGTGCCTTATATAACAGAAG
1 CTATCTCGAATTCGCACACTAAGTGCCATATATAACAGAAG
* *
48477402 CTATCTCG-ATCTCGCACACTAAGTGCCATATATAGCCGAAG
1 CTATCTCGAAT-TCGCACACTAAGTGCCATATATAACAGAAG
*
48477443 CTATGTCGAATT-GCACACTAAGTGCCA
1 CTATCTCGAATTCGCACACTAAGTGCCA
48477470 CATGAGATGA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
40 23 0.38
41 35 0.58
42 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
CTATCTCGAATTCGCACACTAAGTGCCATATATAACAGAAG
Found at i:48480727 original size:63 final size:64
Alignment explanation
Indices: 48480647--48480896 Score: 265
Period size: 67 Copynumber: 3.8 Consensus size: 64
48480637 AGACATTATG
* * * * *
48480647 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATAGACAAG-GAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGCGTGGTACTAAGTGGACACCATGTAGACAAGAGAGCTACGGGATAT
* *
48480710 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAAGACACCATGTAGACAAGAGAGCTACGGGAT
1 ATGTAGCTAGGTCGCATGCGTGGTACTAAGTG---GACACCATGTAGACAAGAGAGCTACGGGAT
48480775 AT
63 AT
* * *
48480777 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGCGTGGTACTAAGT---GGACACCATGTAGACAAGAGAGCTACGGGAT
*
48480842 AA
63 AT
* * **
48480844 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGCGTGGTACTAAGTGGACACCATGTAG-ACAAGAGAGC
48480897 CGAACTATAT
Statistics
Matches: 163, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.01
63 46 0.28
66 37 0.23
67 76 0.47
68 2 0.01
70 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGCGTGGTACTAAGTGGACACCATGTAGACAAGAGAGCTACGGGATAT
Found at i:48480780 original size:67 final size:67
Alignment explanation
Indices: 48480680--48480842 Score: 292
Period size: 67 Copynumber: 2.4 Consensus size: 67
48480670 TACTATGTGT
*
48480680 ACACCATATAGACAAG-GAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
48480744 AG
66 AG
48480746 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
*
48480811 GG
66 AG
*
48480813 ACACCATGTAGACAAGAGAGCTACGAGATA
1 ACACCATGTAGACAAGAGAGCTACGGGATA
48480843 AACTGGCTAG
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 15 0.16
67 78 0.84
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (67 bp):
ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
AG
Found at i:48482820 original size:46 final size:45
Alignment explanation
Indices: 48482721--48482882 Score: 161
Period size: 46 Copynumber: 3.5 Consensus size: 45
48482711 GTATCGTTGC
* * *
48482721 CATGTCCCAGACATGGTCTTACACTGAC--ACCTCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGCCGATA
48482766 CATGTCCCAGACATGTCTTACACTGGCTTACAT-TACGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCT-CGA-GCCGATA
* * * * *
48482812 CATGTCCCAGACATGCCTTACACTAGCTCT-CGTCTCAATGCCGATGC
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGA-GCCGAT-A
48482859 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
48482883 AGCACACAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
44 12 0.12
45 16 0.16
46 47 0.47
47 25 0.25
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGCCGATA
Found at i:48490458 original size:48 final size:47
Alignment explanation
Indices: 48490251--48490521 Score: 232
Period size: 48 Copynumber: 5.7 Consensus size: 47
48490241 ATTGTCGATT
* *
48490251 CCATGTCCCAGACATGGTCTTATACTGGATCATCCA-TCA-A-GT-CAATG
1 CCATGTCCCAGACATGGTCTTACACT-GA-CA-CCACT-ATACGTGCCATG
* * ** * * * *
48490298 TCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGTTCGACG
1 CCATGTCCCAGACATGGTCTTACACTGAC-ACCACTAT-ACGTGCCATG
* * * *
48490347 TCATGTCCCATACATGGTCTTACACT-AGCTCTCACATATCCGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGA-CAC-CAC-TATACGTGCC-ATG
*
48490397 CCATGTCCCAGACATGGTCTTACACTGACACCACTATACATGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTGACACCACTATACGTGCC-ATG
* * *
48490445 CCATGTCCTAGACATGGTCTTACATTGACACCTCTATACGTG--ATG
1 CCATGTCCCAGACATGGTCTTACACTGACACCACTATACGTGCCATG
48490490 CCATGTCCCAGACATGGTCTTACACTGACACC
1 CCATGTCCCAGACATGGTCTTACACTGACACC
48490522 TCTCGAGGCC
Statistics
Matches: 185, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
45 37 0.20
46 3 0.02
47 25 0.14
48 52 0.28
49 37 0.20
50 30 0.16
51 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGACACCACTATACGTGCCATG
Found at i:48490543 original size:45 final size:45
Alignment explanation
Indices: 48490390--48490605 Score: 192
Period size: 45 Copynumber: 4.7 Consensus size: 45
48490380 ACATATCCGT
* *
48490390 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCACTATACAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACA-C-CTCT-CAC
* * * *
48490438 GCCAATGCCATGTCCTAGACATGGTCTTACATTGACACCTCTATAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCT-CAC
* *
48490484 G-TGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTC-AC
* * * *
48490529 GCCGATG-CAGGTCCCAAACAT-GTCTTA-ACT-AGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-C-TCTC-AC
*
48490574 GTCGATGCCATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
48490606 AGCACACAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
44 7 0.05
45 61 0.44
46 28 0.20
47 4 0.03
48 34 0.24
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCAC
Found at i:48491524 original size:46 final size:45
Alignment explanation
Indices: 48491425--48491586 Score: 161
Period size: 46 Copynumber: 3.5 Consensus size: 45
48491415 GTATCATTGC
* * *
48491425 CATGTCCCAGACATGGTCTTACACTGAC--ACCTCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGCCGATA
48491470 CATGTCCCAGACATGTCTTACACTGGCTTACAT-TACGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCT-CGA-GCCGATA
* * * * *
48491516 CATGTCCCAGACATGCCTTACACTAGCTCT-CGTCTCAATGCCGATGC
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGA-GCCGAT-A
48491563 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
48491587 AGCACACAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
44 12 0.12
45 16 0.16
46 47 0.47
47 25 0.25
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGCCGATA
Found at i:48495645 original size:47 final size:47
Alignment explanation
Indices: 48495547--48495674 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
48495537 AATTGATAAG
* ** *
48495547 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCGGAT
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAAAA
** * *
48495594 TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCCTCTCAAAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAAAA
* * *
48495641 TACCTATATCATGGCCCCTAGCCAAATTAAGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
48495675 TTATCTGCAC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAAAA
Found at i:48499366 original size:17 final size:18
Alignment explanation
Indices: 48499344--48499377 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48499334 GACATTGAAG
48499344 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
48499361 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
48499378 CTTCAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:48503104 original size:49 final size:47
Alignment explanation
Indices: 48502987--48503303 Score: 447
Period size: 47 Copynumber: 6.7 Consensus size: 47
48502977 GATTTTACGC
* * * *
48502987 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGAGGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
48503034 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
48503081 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
48503130 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCA-ATGT
48503179 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
48503226 GATGAATGTGAAGGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
48503273 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
48503304 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 153 0.62
48 9 0.04
49 85 0.34
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:48503111 original size:96 final size:93
Alignment explanation
Indices: 48502987--48503303 Score: 447
Period size: 96 Copynumber: 3.3 Consensus size: 93
48502977 GATTTTACGC
*
48502987 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGAGGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
48503052 TATATGTGATAAGGCCGAATGGCCAATGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
*
48503081 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
48503146 TATATATATGTGATAAGGCCTAATGG-CAGATGT
61 TGTATATATGTGATAAGGCCGAATGGCCA-ATGT
* *
48503179 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* * *
48503244 TATATGTGATAGGGCCGAGTGGCCAACGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
* *
48503273 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
48503304 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
94 62 0.31
95 9 0.04
96 84 0.42
97 7 0.03
98 39 0.19
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGT
Found at i:48508484 original size:39 final size:39
Alignment explanation
Indices: 48508311--48508545 Score: 219
Period size: 39 Copynumber: 6.0 Consensus size: 39
48508301 CTCGACGATG
* *
48508311 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT-GTG--ATAT
* * * *
48508353 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTG-G--GT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGTGATAT
* * * *
48508389 ATCCGGGTTAAGTCCCG-AGAGCATTCGTGCTGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGTGATAT
*
48508427 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT-GTGATAT
* *
48508467 ATCCGGGCTAAAT-CCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT-GTGATAT
* * * * *
48508506 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT-GTGATAT
48508546 GTATTCGGGC
Statistics
Matches: 169, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
35 15 0.09
36 19 0.11
38 15 0.09
39 47 0.28
40 42 0.25
41 1 0.01
42 30 0.18
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGTGATAT
Found at i:48508645 original size:43 final size:43
Alignment explanation
Indices: 48508538--48508757 Score: 370
Period size: 43 Copynumber: 5.1 Consensus size: 43
48508528 CAGTCATGCT
48508538 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
48508581 -GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* *
48508623 GGTGATATGTATTCGGGTCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
48508666 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* * **
48508709 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
48508752 GGTGAT
1 GGTGAT
48508758 TCGAGCAAGG
Statistics
Matches: 168, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
42 42 0.25
43 126 0.75
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.33
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:48512552 original size:47 final size:47
Alignment explanation
Indices: 48512498--48512813 Score: 447
Period size: 47 Copynumber: 6.7 Consensus size: 47
48512488 GATTTTACGC
* * *
48512498 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
48512545 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
48512592 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
48512641 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCA-ATGT
48512690 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
48512737 GATGAATGTGAAGGTGTATATATGTGAT-AGGGCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
48512783 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
48512814 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
46 40 0.16
47 113 0.46
48 9 0.04
49 85 0.34
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:48512622 original size:96 final size:93
Alignment explanation
Indices: 48512498--48512813 Score: 447
Period size: 96 Copynumber: 3.3 Consensus size: 93
48512488 GATTTTACGC
48512498 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
48512563 TATATGTGATAAGGCCGAATGGCCAATGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
*
48512592 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
48512657 TATATATATGTGATAAGGCCTAATGG-CAGATGT
61 TGTATATATGTGATAAGGCCGAATGGCCA-ATGT
* *
48512690 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* * *
48512755 TATATGTGAT-AGGGCGAGTGGCCAACGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
* *
48512783 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
48512814 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 14, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
93 37 0.18
94 28 0.14
95 5 0.02
96 85 0.42
97 7 0.03
98 39 0.19
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGT
Found at i:48512680 original size:145 final size:142
Alignment explanation
Indices: 48512498--48512813 Score: 496
Period size: 145 Copynumber: 2.2 Consensus size: 142
48512488 GATTTTACGC
* *
48512498 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
48512561 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGA
66 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AAG-GTGTATATATGTGAT-AGA
* * *
48512626 CCTAATGGCCGATGT
128 CCGAATGGCCAACGT
48512641 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
**
48512706 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATATATGTGATAGGGCG
66 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATATATGTGATAGACCG
*
48512771 AGTGGCCAACGT
131 AATGGCCAACGT
*
48512783 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
48512814 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
140 10 0.06
141 1 0.01
142 31 0.19
143 25 0.15
144 5 0.03
145 90 0.56
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (142 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATATATGTGATAGACCG
AATGGCCAACGT
Found at i:48514310 original size:28 final size:28
Alignment explanation
Indices: 48514267--48514341 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
48514257 TGGCCCCTTT
*
48514267 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
48514295 -GGCCCCAATCACATTCATATGGCCTATC
1 AGG-CCCAATCACATTCATATGGCCCATC
*
48514323 AGGCCCAATCGCATTCATA
1 AGGCCCAATCACATTCATA
48514342 GTCCTGCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 2 0.05
28 38 0.90
29 2 0.05
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:48520017 original size:46 final size:47
Alignment explanation
Indices: 48519954--48520222 Score: 350
Period size: 46 Copynumber: 5.8 Consensus size: 47
48519944 TTCGACATGA
* * * * *
48519954 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* ** * **
48520000 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
48520047 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* *
48520093 TGCCATGGTATCTTTCAACCATGGTCTTACAC-TTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* *
48520139 TGCCATGGTATCTTTCAACCATGGTCTT--ACATGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTTCATGTCACGT
*
48520185 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC
48520223 TATCAGAGAG
Statistics
Matches: 200, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.01
45 1 0.00
46 153 0.76
47 40 0.20
48 4 0.02
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
Found at i:48525530 original size:29 final size:28
Alignment explanation
Indices: 48525490--48525576 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
48525480 ATCCACAATT
*
48525490 ATTCAT-TCGGCCCCTTTAAGCCCAATCTC
1 ATTCATAT-GGCCCC-TTAAGCCCAATCAC
*
48525519 ATTCATATGGCCCAC--CAGCCCCAATCAC
1 ATTCATATGGCCC-CTTAAG-CCCAATCAC
* *
48525547 ATTCATATGGCCCATTAGGCCCAATCAC
1 ATTCATATGGCCCCTTAAGCCCAATCAC
48525575 AT
1 AT
48525577 CCACAGTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
27 2 0.04
28 32 0.67
29 12 0.25
30 2 0.04
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.25
Consensus pattern (28 bp):
ATTCATATGGCCCCTTAAGCCCAATCAC
Found at i:48525549 original size:28 final size:28
Alignment explanation
Indices: 48525510--48525576 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
48525500 CCCCTTTAAG
*
48525510 CCCAATCTCATTCATATGGCCCACCAGC
1 CCCAATCACATTCATATGGCCCACCAGC
** *
48525538 CCCAATCACATTCATATGGCCCATTAGG
1 CCCAATCACATTCATATGGCCCACCAGC
48525566 CCCAATCACAT
1 CCCAATCACAT
48525577 CCACAGTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.28, C:0.39, G:0.10, T:0.22
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCACCAGC
Found at i:48540345 original size:51 final size:50
Alignment explanation
Indices: 48540278--48540450 Score: 222
Period size: 51 Copynumber: 3.4 Consensus size: 50
48540268 GTGGCTTGCC
* *
48540278 CATAGTACCACCCTTGTAGTCAAAGCTACCTTTTTCACAAAGTGGCCTTCA
1 CATAGTACCACACTTGT-GTCAAAGCTATCTTTTTCACAAAGTGGCCTTCA
*
48540329 CATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTTCA
1 CATAGTACCACACTTGTG-TCAAAGCTATCTTT-TTCACAAAGTGGCCTTCA
* * * * * *
48540381 CATAGTACCACACTTGTGACCAAGCTGTC-TCTTCTCAAAGTGGCCATCA
1 CATAGTACCACACTTGTGTCAAAGCTATCTTTTTCACAAAGTGGCCTTCA
*
48540430 CATAGTACCACACTTGAGTCA
1 CATAGTACCACACTTGTGTCA
48540451 CTAGTGATAT
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
49 34 0.31
50 2 0.02
51 36 0.33
52 36 0.33
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (50 bp):
CATAGTACCACACTTGTGTCAAAGCTATCTTTTTCACAAAGTGGCCTTCA
Found at i:48540386 original size:52 final size:52
Alignment explanation
Indices: 48540278--48540445 Score: 238
Period size: 52 Copynumber: 3.3 Consensus size: 52
48540268 GTGGCTTGCC
* * *
48540278 CATAGTACCACCCTTGT-AGTCAAAGCTACCTTT-TTCACAAAGTGGCCTTCA
1 CATAGTACCACACTTGTGA-CCAAAGCTATCTTTCTTCACAAAGTGGCCTTCA
48540329 CATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTTCA
1 CATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTTCA
* * *
48540381 CATAGTACCACACTTGTGACC-AAGCTGTC--TCTTCTCAAAGTGGCCATCA
1 CATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTTCA
48540430 CATAGTACCACACTTG
1 CATAGTACCACACTTG
48540446 AGTCACTAGT
Statistics
Matches: 109, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
49 34 0.31
51 35 0.32
52 40 0.37
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (52 bp):
CATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTTCA
Found at i:48544899 original size:24 final size:24
Alignment explanation
Indices: 48544872--48544972 Score: 175
Period size: 24 Copynumber: 4.2 Consensus size: 24
48544862 AAGGCTGTCA
* *
48544872 GGAGAAGATTTGGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
48544896 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
48544920 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
48544944 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
48544968 GGAGA
1 GGAGA
48544973 ACGGTGTTGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.33, C:0.04, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:48544971 original size:12 final size:12
Alignment explanation
Indices: 48544878--48544971 Score: 50
Period size: 12 Copynumber: 7.8 Consensus size: 12
48544868 GTCAGGAGAA
*
48544878 GATTTGGGAGCT
1 GATTAGGGAGCT
* **
48544890 GATAAGGGAGAG
1 GATTAGGGAGCT
48544902 GATTTA-GGAGCT
1 GA-TTAGGGAGCT
* **
48544914 GATAAGGGAGAG
1 GATTAGGGAGCT
48544926 GATTTA-GGAGCT
1 GA-TTAGGGAGCT
* **
48544938 GATAAGGGAGAG
1 GATTAGGGAGCT
48544950 GATTTA-GGAGCT
1 GA-TTAGGGAGCT
48544962 GATTAGGGAG
1 GATTAGGGAG
48544972 AACGGTGTTG
Statistics
Matches: 57, Mismatches: 19, Indels: 12
0.65 0.22 0.14
Matches are distributed among these distances:
11 7 0.12
12 44 0.77
13 6 0.11
ACGTcount: A:0.31, C:0.04, G:0.43, T:0.22
Consensus pattern (12 bp):
GATTAGGGAGCT
Found at i:48547768 original size:49 final size:49
Alignment explanation
Indices: 48547708--48548020 Score: 554
Period size: 49 Copynumber: 6.4 Consensus size: 49
48547698 TACATATATG
* * * *
48547708 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
48547757 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
48547806 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
48547855 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
48547904 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
48547953 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
48548002 TGTGATAAGGCCTAATGGC
1 TGTGATGAGGCCTAATGGC
48548021 TAATGTAAAA
Statistics
Matches: 255, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 255 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:48548172 original size:37 final size:37
Alignment explanation
Indices: 48548122--48548206 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
48548112 GGAATATGTT
*
48548122 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
48548159 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
48548196 CCGGGTAAGAC
1 CCGGGTAAGAC
48548207 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:48554531 original size:40 final size:40
Alignment explanation
Indices: 48554452--48554609 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
48554442 TTCGAATGAT
* * * *
48554452 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
48554492 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
48554532 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
48554572 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
48554610 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:48554630 original size:80 final size:80
Alignment explanation
Indices: 48554452--48554639 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
48554442 TTCGAATGAT
* *
48554452 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
48554517 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
48554532 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
48554593 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
48554613 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
48554640 ATATGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:48557914 original size:52 final size:52
Alignment explanation
Indices: 48557783--48557956 Score: 199
Period size: 47 Copynumber: 3.5 Consensus size: 52
48557773 CAGATACCCG
* * * *
48557783 GTGGCCTGCCCATAGTACCACCCTTGT-AGTCAAAGCTA-CATTT-TTTTACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATC-TTTCTTTT-CAAA
48557835 GTGGCCTTCAC-----ACCACACTTGTGACCAAAGCTATCTTTCTTTTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTTTCAAA
*
48557882 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC--TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTTTCAAA
48557931 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
48557957 AGTCACTAGT
Statistics
Matches: 109, Mismatches: 5, Indels: 19
0.82 0.04 0.14
Matches are distributed among these distances:
47 36 0.33
48 6 0.06
49 35 0.32
51 8 0.07
52 24 0.22
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTTTCAAA
Found at i:48557942 original size:49 final size:51
Alignment explanation
Indices: 48557846--48557956 Score: 190
Period size: 49 Copynumber: 2.2 Consensus size: 51
48557836 TGGCCTTCAC
*
48557846 ACCACACTTGTGACCAAAGCTATCTTTCTTTTCAAAGTGGCCTTCACATAGT
1 ACCACACTTGTGACCAAAGCTATC-TTCTTCTCAAAGTGGCCTTCACATAGT
48557898 ACCACACTTGTGACC-AAGCTATC-TCTTCTCAAAGTGGCCTTCACATAGT
1 ACCACACTTGTGACCAAAGCTATCTTCTTCTCAAAGTGGCCTTCACATAGT
48557947 ACCACACTTG
1 ACCACACTTG
48557957 AGTCACTAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
49 35 0.60
51 8 0.14
52 15 0.26
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (51 bp):
ACCACACTTGTGACCAAAGCTATCTTCTTCTCAAAGTGGCCTTCACATAGT
Found at i:48565946 original size:48 final size:47
Alignment explanation
Indices: 48565749--48566158 Score: 387
Period size: 48 Copynumber: 8.6 Consensus size: 47
48565739 TAAATTATCG
* * * ** * *
48565749 ATGCCATGTCCCAGACATGGTCTTACACTGTCTCACATGTCGA-GGCTA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAC-ATTGC-C
* ** * *
48565797 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGA-GGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAC-ATTGC-C
* * * * ** *
48565845 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCGTCTCAATGCCC
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTG-CC
* *
48565893 ATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCATAACATTGCC
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
* *
48565940 ACTGCCATGTTCCAAACATGGACTTACACTGGCTCTCATAACATTGCC
1 A-TGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
* * *
48565988 GATGCCATGTTCCAAACATGGTTTTACACTGGCTCTCATAACA-T-CG
1 -ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
* * ** * *
48566034 ATGTCATGTTCTGAACATAGTCTTACACTGGCTCTCATAGCATTGCC
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
* *
48566081 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCTG
1 -ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGC-C
* *
48566130 GTGCCATGTTCCAAACATGGTCTTACACT
1 ATGCCATGTCCCAAACATGGTCTTACACT
48566159 AGCACACATA
Statistics
Matches: 316, Mismatches: 38, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
45 36 0.11
46 2 0.01
47 6 0.02
48 270 0.85
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
Found at i:48568179 original size:48 final size:48
Alignment explanation
Indices: 48568107--48568473 Score: 281
Period size: 48 Copynumber: 7.6 Consensus size: 48
48568097 GGTAAATTAC
* * **
48568107 CGATGCCATGTCCCAGAAATGGTCTTACACTGGCTCACATGTCAAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAAGGT
* * * ** *
48568155 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAAGGT
* * * * * ** *
48568202 CTTATGCCATGTCCCCGACATGGTCTTACTCTAGCTTTCATAACATTGC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAAGGT
* * * * * **
48568251 CAATACCATGTTCCAAACATGGACTTACACTGGCTCTCATAACATTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAAGGT
* * * ***
48568299 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTTATAACATTTT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAAGGT
* * * * **
48568347 CGATGTCATGT-TCTGAACATAGTCTTACACTGGCTCTCATAACATTG-
1 CGATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCTCATAACAAGGT
* * ****
48568394 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTAC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAAGGT
* *
48568443 CGATGCCATGTTCCAAACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
48568474 AGCACAGATA
Statistics
Matches: 269, Mismatches: 44, Indels: 12
0.83 0.14 0.04
Matches are distributed among these distances:
47 2 0.01
48 264 0.98
49 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAAGGT
Found at i:48568278 original size:96 final size:96
Alignment explanation
Indices: 48568156--48568476 Score: 385
Period size: 96 Copynumber: 3.3 Consensus size: 96
48568146 TGTCAAGGTT
* * * ** * * * **
48568156 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCTTATGCCATGTCCCCGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATTGCTGATGCCATGTTCCAAAC
* * *
48568221 ATGGTCTTACTCTAGCTTTCATAACATTGCC
66 ATGGTCTTACACTGGCTTTCATAACATTACC
* * * *
48568252 AATACCATGTTCCAAACATGGACTTACACTGGCTCTCATAACATTG-TCGATGCCATGTTCCAAA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATTGCT-GATGCCATGTTCCAAA
**
48568316 CATGGTCTTACACTGGCTCTT-ATAACATTTTC
65 CATGGTCTTACACTGGCT-TTCATAACATTACC
* ** * *
48568348 GATGTCATGTTCTGAACATAGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTTCCAAAC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATTGCTGATGCCATGTTCCAAAC
*
48568413 ATGGTCTTACACTGGCTCTCATAACATTACC
66 ATGGTCTTACACTGGCTTTCATAACATTACC
48568444 GATGCCATGTTCCAAACATGGTCTTACACTAGC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGC
48568477 ACAGATATCA
Statistics
Matches: 188, Mismatches: 33, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
95 2 0.01
96 183 0.97
97 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (96 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATTGCTGATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTTTCATAACATTACC
Found at i:48572450 original size:14 final size:14
Alignment explanation
Indices: 48572433--48572459 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48572423 ATGTATGATA
48572433 ATTTTAGTATAGTC
1 ATTTTAGTATAGTC
48572447 ATTTTAGTATAGT
1 ATTTTAGTATAGT
48572460 TAAATCTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.52
Consensus pattern (14 bp):
ATTTTAGTATAGTC
Found at i:48580127 original size:28 final size:28
Alignment explanation
Indices: 48580087--48580161 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
48580077 TATAAAATTG
* * *
48580087 TATAGCACTAAGTGTGCGAGTTTG-ATTC
1 TATAGCACTAAGTGTGCGAG-CTGAAATA
48580115 TATAGCACTAAGTGTGCGAGCTGAAAATA
1 TATAGCACTAAGTGTGCGAGCTG-AAATA
48580144 TATAGCACTAAGTGTGCG
1 TATAGCACTAAGTGTGCG
48580162 GATTCACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.05
28 20 0.48
29 20 0.48
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGCTGAAATA
Found at i:48580173 original size:29 final size:28
Alignment explanation
Indices: 48580087--48580165 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
48580077 TATAAAATTG
* *
48580087 TATAGCACTAAGTGTGCGAGTTTGAT-TC
1 TATAGCACTAAGTGTGCG-GATTGATATA
* *
48580115 TATAGCACTAAGTGTGC-GAGCTGAAAATA
1 TATAGCACTAAGTGTGCGGA-TTG-ATATA
48580144 TATAGCACTAAGTGTGCGGATT
1 TATAGCACTAAGTGTGCGGATT
48580166 CACTATATGC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.02
27 2 0.05
28 18 0.43
29 19 0.45
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGGATTGATATA
Found at i:48584881 original size:40 final size:40
Alignment explanation
Indices: 48584836--48585002 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
48584826 CGGAATACAA
48584836 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
48584876 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
48584916 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
48584956 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
48584995 CCGGATAT
1 CCGGATAT
48585003 CATTCAATTG
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 25 0.23
40 82 0.77
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:48592930 original size:40 final size:40
Alignment explanation
Indices: 48592885--48593014 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
48592875 CGGAATACAA
48592885 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
48592925 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
48592965 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
48593005 CCGGATATAA
1 CCGGATATAA
48593015 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:48598437 original size:29 final size:29
Alignment explanation
Indices: 48598336--48598429 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
48598326 GTGACGAGAT
48598336 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
48598365 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
48598394 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
48598423 CGGCACT
1 TGGCACT
48598430 GGGTGTGCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:48598454 original size:58 final size:58
Alignment explanation
Indices: 48598332--48598466 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 58
48598322 TACGGTGACG
* *
48598332 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTGCAA
* **
48598389 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCT-CAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTGCAA
* *
48598446 AGGGTATGGCACTATGTGTGC
1 A-GATATGGCACTAAGTGTGC
48598467 GGGCTTAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 6 0.09
58 60 0.90
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTGCAA
Found at i:48608305 original size:40 final size:39
Alignment explanation
Indices: 48608178--48608307 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
48608168 ATGCTGGAAA
* *
48608178 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
48608218 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
48608258 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
48608298 TTATATCCGG
1 TTATATCCGG
48608308 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:48609767 original size:29 final size:29
Alignment explanation
Indices: 48609679--48609835 Score: 165
Period size: 29 Copynumber: 5.4 Consensus size: 29
48609669 CGGGGTGTTA
48609679 CACTAAGTGTGCATGCTGGAAATATATGG
1 CACTAAGTGTGCATGCTGGAAATATATGG
*
48609708 AACTAAGTGTGCATGCTGGAAATATATGG
1 CACTAAGTGTGCATGCTGGAAATATATGG
*
48609737 CACTAAGTGTGCATGCTGGAAATATACGG
1 CACTAAGTGTGCATGCTGGAAATATATGG
** * ***
48609766 CACTGGGTGTGCGA-GCTCGAAGGGTATGG
1 CACTAAGTGTGC-ATGCTGGAAATATATGG
* ** * *
48609795 CACTATGTGTGCGGGCT-TAAATCACATGG
1 CACTAAGTGTGCATGCTGGAAAT-ATATGG
48609824 CACTAAGTGTGC
1 CACTAAGTGTGC
48609836 GAAATCGAGT
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
28 2 0.02
29 103 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
CACTAAGTGTGCATGCTGGAAATATATGG
Found at i:48611330 original size:31 final size:31
Alignment explanation
Indices: 48611292--48611365 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
48611282 CAACTATCTT
* *
48611292 AGCAGACTATCTATTTTATGTTTATTGTCCC
1 AGCAGACTATCTATTATATGTTTACTGTCCC
* * *
48611323 AGCAGACTATTTGTTATGTGTTTACTGTCCC
1 AGCAGACTATCTATTATATGTTTACTGTCCC
48611354 AGCAGACTATCT
1 AGCAGACTATCT
48611366 CTGTAGGTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (31 bp):
AGCAGACTATCTATTATATGTTTACTGTCCC
Done.